</head> <body> 21183076 </body> </html> </notes> <label text="Vaceolae"> <bbox w="45.0" h="10.0" x="21229.56" y="17818.5"/> </label> <bbox w="1515.0" h="369.0" x="21208.06" y="17551.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca10_rc_ca10" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0016605 </body> </html> </notes> <label text="PML Body"> <bbox w="75.0" h="10.0" x="20269.06" y="16700.0"/> </label> <bbox w="320.0" h="243.0" x="20079.06" y="16677.5"/> </glyph> <glyph class="compartment" id="s_id_mo_ca8_mo_ca8"> <label text="Golgi apparatus"> <bbox w="110.0" h="10.0" x="5868.0" y="12095.5"/> </label> <bbox w="512.0" h="280.0" x="5657.0" y="11852.0"/> </glyph> <glyph class="compartment" id="s_id_akt1_akt2_ca1_akt1_akt2_ca1"> <label text="Cytoplasm"> <bbox w="50.0" h="10.0" x="13137.561" y="20102.5"/> </label> <bbox w="2499.0" h="2454.0" x="11845.061" y="20090.0"/> </glyph> <glyph class="compartment" id="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <label text="Cytoplasm"> <bbox w="50.0" h="10.0" x="23193.56" y="19930.5"/> </label> <bbox w="2167.0" h="2273.0" x="23192.06" y="18244.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca2_ca3_wca1_wca2_ca3" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="23600.56" y="18808.5"/> </label> <bbox w="899.0" h="322.0" x="23599.06" y="18796.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca2_ca3_wnc1_wnc1_ca8" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="15754.061" y="19797.5"/> </label> <bbox w="901.0" h="261.0" x="15193.061" y="19731.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca2_ca3_akt1_akt1_ca6" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="14048.061" y="18029.5"/> </label> <bbox w="335.0" h="502.0" x="13932.061" y="17606.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca2_ca3_wca1_wca1_ca5" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="21904.06" y="18753.5"/> </label> <bbox w="1053.0" h="764.0" x="21481.06" y="18076.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca2_ca3_wca1_wca2_ca2" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="23772.56" y="18418.5"/> </label> <bbox w="292.0" h="168.0" x="23771.06" y="18406.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="15685.561" y="19331.5"/> </label> <bbox w="697.0" h="247.0" x="15402.061" y="19234.0"/> </glyph> <glyph class="compartment" id="s_id_ad_ca2_ad_ca2"> <label text="T_cell"> <bbox w="90.0" h="10.0" x="26811.0" y="3094.5"/> </label> <bbox w="6340.0" h="6110.0" x="25086.0" y="2420.0"/> </glyph> <glyph class="compartment" id="s_id_emtc_em_ca39_emtc_em_ca39" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Mitochondria"> <bbox w="65.0" h="10.0" x="4652.5" y="13564.0"/> </label> <bbox w="866.0" h="257.0" x="4656.0" y="13551.5"/> </glyph> <glyph class="compartment" id="s_id_emtc_em_ca39_rc_ca6" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Mitochondria"> <bbox w="65.0" h="10.0" x="20153.06" y="12621.5"/> </label> <bbox w="5720.0" h="2730.0" x="17979.06" y="12609.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca13_in_ca13"> <label text="INNATE_IMMUNE_CELL_Membrane"> <bbox w="305.0" h="10.0" x="8930.5" y="1318.5"/> </label> <bbox w="15685.0" h="6910.0" x="8865.0" y="1240.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca29_rc_ca29" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Vesicle"> <bbox w="40.0" h="10.0" x="25407.941" y="9323.327"/> </label> <bbox w="160.0" h="140.0" x="25349.06" y="9309.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca29_rc_ca32" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Vesicle"> <bbox w="40.0" h="10.0" x="28679.291" y="11177.583"/> </label> <bbox w="121.0" h="107.0" x="28641.56" y="11162.5"/> </glyph> <glyph class="compartment" id="s_id_rc_ca29_rc_ca33" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Vesicle"> <bbox w="40.0" h="10.0" x="28840.56" y="11051.925"/> </label> <bbox w="132.0" h="121.0" x="28797.56" y="11037.5"/> </glyph> <glyph class="compartment" id="s_id_te_ca4_te_ca4"> <label text="Cytosol"> <bbox w="40.0" h="10.0" x="6113.06" y="20465.5"/> </label> <bbox w="1800.0" h="770.0" x="5213.06" y="19732.0"/> </glyph> <glyph class="compartment" id="s_id_te_ca4_shh1_shh2_ca1"> <label text="Cytosol"> <bbox w="40.0" h="10.0" x="26913.56" y="20134.5"/> </label> <bbox w="2489.0" h="2197.0" x="25714.06" y="20122.0"/> </glyph> <glyph class="compartment" id="s_id_te_ca4_mo_ca1"> <label text="Cytosol"> <bbox w="40.0" h="10.0" x="4521.0" y="12229.5"/> </label> <bbox w="5086.0" h="3373.0" x="1691.0" y="8893.0"/> </glyph> <glyph class="compartment" id="s_id_te_ca4_ca_ca5"> <label text="Cytosol"> <bbox w="40.0" h="10.0" x="4570.6807" y="4934.9355"/> </label> <bbox w="8020.0" h="4220.0" x="70.0" y="770.0"/> </glyph> <glyph class="compartment" id="s_id_mo_ca6_mo_ca6" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Endoplasmic reticulum"> <bbox w="140.0" h="10.0" x="6306.5" y="10063.5"/> </label> <bbox w="612.0" h="372.0" x="6065.0" y="9728.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca8_rc_ca8" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0030141 </body> </html> </notes> <label text="Secretory Granule"> <bbox w="120.0" h="10.0" x="18326.81" y="9392.5"/> </label> <bbox w="460.0" h="130.0" x="18049.06" y="9319.0"/> </glyph> <glyph class="compartment" id="s_id_ad_ca10_ad_ca10" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="dSMAC"> <bbox w="30.0" h="10.0" x="29820.0" y="3028.5"/> </label> <bbox w="270.0" h="565.0" x="29706.0" y="2500.0"/> </glyph> <glyph class="compartment" id="s_id_an_ca1_an_ca1"> <label text="Cytosol"> <bbox w="40.0" h="10.0" x="5998.0" y="8116.5"/> </label> <bbox w="3523.5" h="2158.0" x="4164.5" y="5995.0"/> </glyph> <glyph class="compartment" id="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="Plasma Membrane"> <bbox w="110.0" h="10.0" x="7511.06" y="18835.0"/> </label> <bbox w="4165.0" h="481.0" x="7533.06" y="18816.0"/> </glyph> <glyph class="compartment" id="s_id_wnc1_wnc2_ca3_wnc1_wnc2_ca3" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Mitochondria"> <bbox w="65.0" h="10.0" x="17442.56" y="18683.5"/> </label> <bbox w="625.0" h="318.0" x="17448.06" y="18671.0"/> </glyph> <glyph class="compartment" id="s_id_wnc1_wnc2_ca3_wnc1_wnc4_ca4" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Mitochondria"> <bbox w="65.0" h="10.0" x="18257.56" y="21037.5"/> </label> <bbox w="393.0" h="343.0" x="18263.06" y="21025.0"/> </glyph> <glyph class="compartment" id="s_id_wnc1_wnc2_ca3_akt1_akt1_ca5" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Mitochondria"> <bbox w="65.0" h="10.0" x="13991.561" y="18157.5"/> </label> <bbox w="399.0" h="452.0" x="13859.061" y="18145.0"/> </glyph> <glyph class="compartment" id="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Mitochondria"> <bbox w="65.0" h="10.0" x="8784.061" y="19386.5"/> </label> <bbox w="360.0" h="300.0" x="8560.061" y="19364.0"/> </glyph> <glyph class="compartment" id="s_id_shh1_shh1_ca5_shh1_shh1_ca5" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Clathrin-coated vesicle"> <bbox w="180.0" h="10.0" x="26588.56" y="17846.5"/> </label> <bbox w="199.0" h="270.0" x="26575.06" y="17670.0"/> </glyph> <glyph class="compartment" id="s_id_mo_ca7_mo_ca7" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Recyclying endosome"> <bbox w="130.0" h="10.0" x="6309.5" y="12119.5"/> </label> <bbox w="284.0" h="180.0" x="6229.0" y="11976.0"/> </glyph> <glyph class="compartment" id="s_id_emtc_em_ca41_emtc_em_ca41" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="Nuclear Proteasome"> <bbox w="125.0" h="10.0" x="4765.4688" y="14654.21"/> </label> <bbox w="163.0" h="100.0" x="4765.0" y="14635.5"/> </glyph> <glyph class="compartment" id="s_id_rc_ca20_rc_ca20" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="Lipid Raft"> <bbox w="85.0" h="10.0" x="25987.56" y="9171.5"/> </label> <bbox w="7250.0" h="60.0" x="18799.06" y="9159.0"/> </glyph> <glyph class="compartment" id="s_id_mpk1_mpk1_ca3_mpk1_mpk1_ca3" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> Wang et al. (2002) have shown that EGFR signalling from endosomes leads to cell survival. PMID:19615955 </body> </html> </notes> <label text="Late Endosomes"> <bbox w="105.0" h="10.0" x="8313.561" y="19726.5"/> </label> <bbox w="704.0" h="534.0" x="8329.061" y="19714.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca4_rc_ca4" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0005743 </body> </html> </notes> <label text="Mitochondrial inner membrane"> <bbox w="205.0" h="10.0" x="19922.81" y="13426.5"/> </label> <bbox w="3350.0" h="845.0" x="18015.81" y="13414.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca4_rc_ca2" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0005743 </body> </html> </notes> <label text="Mitochondrial inner membrane"> <bbox w="205.0" h="10.0" x="22734.06" y="12787.0"/> </label> <bbox w="1950.0" h="2505.0" x="21599.06" y="12769.0"/> </glyph> <glyph class="compartment" id="s_id_emtc_em_ca33_emtc_em_ca33" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> Maps_Modules_begin: MODULE:EMT_REGULATORS Maps_Modules_end References_begin: PMID:9865696 SARA interacts directly with Smad2 and Smad3 The C-ter of SARA interacts TGFBR1 and TGFBR2 SARA presents Smad2 to the TGFb receptor Phosphorylation of Smad2 induces dissociation from SARA with concomitant formation of Smad2-Smad4 complexes and nuclear translocation. PMID:12154066 Small GTPases such as Rab5 catalyse movement of activated receptor complexes to early endosomal compartments Here, the complex encounter SARA: a phospholipid-bound carrier SARA presents Smads to the TGFBR1 PMID:22710166 PMID:11013220 The ligand bound activated receptor complex is internalized via endocytosis PMID:19050695 2 pathways of receptor complex endocytosis: clathrin-mediated or caveolae-mediated Through the clathrin pathway, activated ligan-receptor complex are brought into early endosomes which are enriched with scaffold proteins such as SARA. PMID:12717440 PMID:12724770 Clathrin-dependent internalization into endosome, where the Smad2 anchor SARA is enriched, promotes TGFB signalling. Raft-caveolar internalization pathway contains the Smad7-Smurf2 bound receptor and is required for rapid receptor turnover. Thus, segregation of TGF-b receptors into distinct endocytic compartments regulates Smad activation and receptor turnover PMID:11792802 SARA contains a FYVE motif which is known to bind phosphatidylinositol 3-phosphate. It might anchor Smad2 to the inner leaflet of the plasma membrane or endosomal vesicles. SARA thus provides a first example of how TGFB signaling centres may be organised at the plasma membrane or endosomal vesicles. References_end </body> </html> </notes> <label text="Early Endosome"> <bbox w="105.0" h="10.0" x="6312.0" y="16326.0"/> </label> <bbox w="220.0" h="500.0" x="6326.0" y="16313.5"/> </glyph> <glyph class="compartment" id="s_id_rc_ca42_rc_ca42" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Autophgosome"> <bbox w="65.0" h="10.0" x="28936.127" y="14800.165"/> </label> <bbox w="270.0" h="340.0" x="28829.06" y="14579.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca5_rc_ca5" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0005759 </body> </html> </notes> <label text="Mitochondrial Matrix"> <bbox w="135.0" h="10.0" x="19962.31" y="14340.5"/> </label> <bbox w="3516.75" h="851.0" x="18009.06" y="14328.0"/> </glyph> <glyph class="compartment" id="s_id_ca_ca6_ca_ca6" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Treg modulation"> <bbox w="110.0" h="10.0" x="404.5" y="4908.5"/> </label> <bbox w="965.0" h="390.0" x="357.5" y="4555.0"/> </glyph> <glyph class="compartment" id="s_id_em_ca12_em_ca12" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Macropinosome"> <bbox w="70.0" h="10.0" x="1365.0442" y="13004.024"/> </label> <bbox w="450.0" h="230.0" x="1191.0" y="12811.0"/> </glyph> <glyph class="compartment" id="s_id_mo_ca4_mo_ca4" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Early endosome"> <bbox w="105.0" h="10.0" x="3123.0" y="9271.5"/> </label> <bbox w="288.0" h="152.0" x="3025.0" y="9156.0"/> </glyph> <glyph class="compartment" id="s_id_ad_ca8_ad_ca8" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="cSMAC"> <bbox w="30.0" h="10.0" x="28561.0" y="3179.5"/> </label> <bbox w="1400.0" h="840.0" x="27696.0" y="2495.0"/> </glyph> <glyph class="compartment" id="s_id_ad_ca15_ad_ca15" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="Lytic granule"> <bbox w="100.0" h="10.0" x="28694.5" y="8403.396"/> </label> <bbox w="880.0" h="360.0" x="28296.0" y="8080.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca16_rc_ca16" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="Site of DNA damage"> <bbox w="185.0" h="10.0" x="18183.06" y="16436.5"/> </label> <bbox w="962.5" h="410.0" x="18159.06" y="16424.0"/> </glyph> <glyph class="compartment" id="s_id_akt1_akt1_ca4_akt1_akt1_ca4" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Membrane Lysosome"> <bbox w="120.0" h="10.0" x="13829.061" y="19589.5"/> </label> <bbox w="1015.0" h="693.0" x="13279.061" y="19028.0"/> </glyph> <glyph class="compartment" id="s_id_mpk1_mpk1_ca9_mpk1_mpk1_ca9" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Early Endosomes"> <bbox w="110.0" h="10.0" x="9491.561" y="19590.5"/> </label> <bbox w="666.0" h="215.0" x="9509.061" y="19573.0"/> </glyph> <glyph class="compartment" id="s_id_em_ca13_em_ca13" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Caveolin vesicle"> <bbox w="115.0" h="10.0" x="1361.5477" y="13316.977"/> </label> <bbox w="460.0" h="250.0" x="1183.0" y="13104.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca1_ca9_wca1_wca1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="22508.56" y="19982.5"/> </label> <bbox w="97.0" h="207.0" x="22507.06" y="19866.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca1_ca9_wca1_wca1_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="21905.06" y="19688.5"/> </label> <bbox w="1131.0" h="756.0" x="21466.06" y="19019.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca1_ca9_wca1_wca1_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="22272.56" y="19986.5"/> </label> <bbox w="233.0" h="209.0" x="22237.06" y="19864.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 21183076 </body> </html> </notes> <label text="Endosome"> <bbox w="45.0" h="10.0" x="21646.56" y="19985.5"/> </label> <bbox w="785.0" h="339.0" x="21435.06" y="19791.0"/> </glyph> <glyph class="compartment" id="s_id_em_ca14_em_ca14"> <label text="Neighbouring Cell"> <bbox w="120.0" h="10.0" x="764.5" y="18502.5"/> </label> <bbox w="369.0" h="6026.0" x="730.0" y="12513.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca46_in_ca46"> <label text="Endoplasmic Reticulum"> <bbox w="140.0" h="10.0" x="14075.534" y="3998.134"/> </label> <bbox w="630.0" h="290.0" x="13835.0" y="3745.0"/> </glyph> <glyph class="compartment" id="s_id_wnc1_wnc2_ca5_wnc1_wnc2_ca5" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="Neighbouring Cell"> <bbox w="120.0" h="10.0" x="18745.56" y="17764.5"/> </label> <bbox w="739.0" h="75.0" x="18765.06" y="17752.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca49_in_ca49"> <label text="TUMOR_CELL_AS_EFFECTOR"> <bbox w="280.0" h="10.0" x="8631.0" y="8868.5"/> </label> <bbox w="16881.0" h="137.0" x="8243.0" y="8816.0"/> </glyph> <glyph class="compartment" id="s_id_ad_ca9_ad_ca9" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="pSMAC"> <bbox w="30.0" h="10.0" x="29375.0" y="3148.5"/> </label> <bbox w="580.0" h="685.0" x="29106.0" y="2500.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca14_rc_ca14" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> not a compartment, but a dynamical protein complex that is assembled at the cytosolic part of TNFRSF1A upon ligand binding There is no associated GO term, but would be a child term of 'receptor complex' GO:0043235 (relationship ISA) </body> </html> </notes> <label text="TNFRSF1 Receptor Complex"> <bbox w="185.0" h="10.0" x="23052.06" y="9947.25"/> </label> <bbox w="1797.0" h="514.75" x="22162.06" y="9494.25"/> </glyph> <glyph class="compartment" id="s_id_rc_ca49_rc_ca49" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Ubiquitinated cargos"> <bbox w="135.0" h="10.0" x="27110.06" y="10262.5"/> </label> <bbox w="450.0" h="180.0" x="27144.06" y="10129.0"/> </glyph> <glyph class="compartment" id="s_id_te_ca3_te_ca3"> <label text="cajal body"> <bbox w="85.0" h="10.0" x="4711.06" y="21251.5"/> </label> <bbox w="810.0" h="650.0" x="4707.06" y="21239.0"/> </glyph> <glyph class="compartment" id="s_id_akt1_akt1_ca3_akt1_akt1_ca3" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Endosome Membrane"> <bbox w="120.0" h="10.0" x="13640.561" y="18845.5"/> </label> <bbox w="689.0" h="339.0" x="13468.061" y="18605.0"/> </glyph> <glyph class="compartment" id="s_id_te_ca5_te_ca5"> <label text="Nucleus"> <bbox w="40.0" h="10.0" x="4565.56" y="23011.5"/> </label> <bbox w="4836.0" h="2469.0" x="2181.06" y="20590.0"/> </glyph> <glyph class="compartment" id="s_id_te_ca5_ce_ca1"> <label text="Nucleus"> <bbox w="40.0" h="10.0" x="8750.5" y="10482.5"/> </label> <bbox w="10211.0" h="8425.0" x="7342.0" y="8974.0"/> </glyph> <glyph class="compartment" id="s_id_em_ca11_em_ca11" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Clathrin coated vesicle"> <bbox w="180.0" h="10.0" x="1388.5" y="13666.25"/> </label> <bbox w="560.5" h="337.0" x="1165.75" y="13392.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca39_rc_ca39"> <label text="Mitochondria inner membrane"> <bbox w="200.0" h="10.0" x="25950.56" y="14442.5"/> </label> <bbox w="680.0" h="320.0" x="25669.06" y="14159.0"/> </glyph> <glyph class="compartment" id="s_id_te_ca2_te_ca2" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="nucleolus"> <bbox w="50.0" h="10.0" x="5655.06" y="21585.5"/> </label> <bbox w="500.0" h="300.0" x="5650.06" y="21573.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca28_rc_ca28" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Ubiquitin-rich Foci"> <bbox w="160.0" h="10.0" x="24855.56" y="9815.25"/> </label> <bbox w="240.0" h="172.5" x="24809.06" y="9802.75"/> </glyph> <glyph class="compartment" id="s_id_in_ca48_in_ca48"> <label text="TUMOR_CELL_AS_INDUCTOR_Membrane"> <bbox w="380.0" h="10.0" x="13583.0" y="1023.5"/> </label> <bbox w="16857.0" h="164.0" x="8240.0" y="896.0"/> </glyph> <glyph class="compartment" id="s_id_an_ca4_an_ca4"> <label text="Extracellular Matrix"> <bbox w="135.0" h="10.0" x="5910.0" y="8407.0"/> </label> <bbox w="4090.0" h="2833.0" x="3927.0" y="5620.0"/> </glyph> <glyph class="compartment" id="s_id_emtc_em_ca36_emtc_em_ca36" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Cytoplasmic Proteasome"> <bbox w="145.0" h="10.0" x="4067.6978" y="13761.105"/> </label> <bbox w="320.0" h="160.0" x="3987.0" y="13714.5"/> </glyph> <glyph class="compartment" id="s_id_rc_ca40_rc_ca40" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Mitochondria outer membrane"> <bbox w="200.0" h="10.0" x="25935.56" y="14472.5"/> </label> <bbox w="740.0" h="380.0" x="25639.06" y="14129.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca2_ca5_wca1_wca2_ca5" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <label text="Early Endosome"> <bbox w="105.0" h="10.0" x="25052.56" y="19452.5"/> </label> <bbox w="164.0" h="133.0" x="25067.06" y="19440.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca11_rc_ca11" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0001772 </body> </html> </notes> <label text="Immunological Synapse"> <bbox w="140.0" h="10.0" x="20007.56" y="12549.5"/> </label> <bbox w="156.0" h="214.0" x="20001.06" y="12372.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca47_in_ca47"> <label text="TUMOR_CELL_AS_INDUCTOR"> <bbox w="280.0" h="10.0" x="20394.5" y="795.5"/> </label> <bbox w="16860.0" h="873.0" x="8236.0" y="13.0"/> </glyph> <glyph class="compartment" id="s_id_mpk1_mpk1_ca5_mpk1_mpk1_ca5" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Golgi Apparatus"> <bbox w="110.0" h="10.0" x="7578.06" y="19641.5"/> </label> <bbox w="423.0" h="557.0" x="7593.06" y="19623.0"/> </glyph> <glyph class="compartment" id="s_id_wca1_wca1_ca10_wca1_wca1_ca10" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> Multivesicular bodies are required to sequester away GSK3, Axin from newly synthesised b-catenin. 21183076 </body> </html> </notes> <label text="Multivesicular Body"> <bbox w="130.0" h="10.0" x="21759.56" y="20074.5"/> </label> <bbox w="1209.0" h="1198.0" x="21420.06" y="18963.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca50_in_ca50"> <label text="TUMOR_CELL_AS_EFFECTOR_Membrane"> <bbox w="380.0" h="10.0" x="24883.0" y="8682.5"/> </label> <bbox w="16883.0" h="137.0" x="8243.0" y="8670.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca50_rc_ca50" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Inflammasome platforms"> <bbox w="145.0" h="10.0" x="28531.06" y="9921.25"/> </label> <bbox w="1455.0" h="476.25" x="27654.06" y="9559.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca12_in_ca12" compartmentRef="s_id_in_ca13_in_ca13"> <label text="INNATE_IMMUNE_CELL_Cytosol"> <bbox w="300.0" h="10.0" x="9617.5" y="2272.5"/> </label> <bbox w="14265.0" h="6045.0" x="9495.0" y="1895.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca37_in_ca37" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SECRETORY_GRANULE"> <bbox w="145.0" h="10.0" x="16654.5" y="7528.5"/> </label> <bbox w="610.0" h="360.0" x="16635.0" y="7330.0"/> </glyph> <glyph class="compartment" id="s_id_ad_ca3_ad_ca3"> <label text="Cancer_cell"> <bbox w="115.0" h="10.0" x="26774.0" y="2318.5"/> </label> <bbox w="6340.0" h="505.0" x="25086.0" y="1860.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca15_rc_ca15" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0005730 </body> </html> </notes> <label text="Nucleolus"> <bbox w="50.0" h="10.0" x="20741.31" y="16830.0"/> </label> <bbox w="228.5" h="193.0" x="20737.31" y="16817.5"/> </glyph> <glyph class="compartment" id="s_id_ad_ca16_ad_ca16" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="Endoplasmic Reticulum"> <bbox w="140.0" h="10.0" x="27731.5" y="5013.008"/> </label> <bbox w="360.0" h="270.0" x="27626.0" y="4780.0"/> </glyph> <glyph class="compartment" id="s_id_gf1_ca1_gf1_ca1"> <label text="Membrane"> <bbox w="45.0" h="10.0" x="9538.561" y="18571.5"/> </label> <bbox w="3735.0" h="1225.0" x="7705.56" y="17519.5"/> </glyph> <glyph class="compartment" id="s_id_shh1_shh1_ca4_shh1_shh1_ca4" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="Primary Cilium"> <bbox w="105.0" h="10.0" x="26797.06" y="17908.5"/> </label> <bbox w="1306.0" h="998.0" x="26805.06" y="17550.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca16_in_ca16" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Endoplasmic Reticulum_Membrane"> <bbox w="240.0" h="10.0" x="22409.51" y="7058.289"/> </label> <bbox w="1580.0" h="810.0" x="21730.0" y="6285.0"/> </glyph> <glyph class="compartment" id="s_id_in_ca15_in_ca15" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PHAGOSOME/ENDOSOME/LYSOSOME_Membrane"> <bbox w="300.0" h="10.0" x="20050.0" y="6898.4067"/> </label> <bbox w="1730.0" h="1230.0" x="19315.0" y="5705.0"/> </glyph> <glyph class="compartment" id="s_id_wnc1_wnc4_ca3_wnc1_wnc4_ca3" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="Protrusion"> <bbox w="55.0" h="10.0" x="18627.56" y="20405.5"/> </label> <bbox w="561.0" h="317.0" x="18625.06" y="20393.0"/> </glyph> <glyph class="compartment" id="s_id_rc_ca3_rc_ca3" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> GO:0005758 </body> </html> </notes> <label text="Mitochondrial intermembrane space"> <bbox w="230.0" h="10.0" x="20249.06" y="12737.0"/> </label> <bbox w="3540.0" h="704.0" x="18015.81" y="12667.0"/> </glyph> <glyph class="complex" id="s_id_in_csa323_in_csa323" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa323_in_csa323"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17681149"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT6/PPARG"/> <bbox w="100.0" h="120.0" x="10932.25" y="3960.0"/> <glyph class="macromolecule" id="s_id_in_sa2483_in_sa2483"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:CSF2, CASCADE:IFNG</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Jak1 is required for Stat6 (TYR641) activation in monocytes stimulated with IL-4</p> <p>PMID:14610620</p> <p>When the type I</p> <p>or type II IL-4R is dimerized, JAKs associated with</p> <p>the receptor components phosphorylate the second,</p> <p>third, or fourth tyrosine residues of the IL-4Ra cytoplasmic domain [50]. This phosphorylation recruits</p> <p>Stat6, which is then also phosphorylated. PhosphoStat6 molecules dimerize and migrate to the nucleus to</p> <p>bind to certain promoters.</p> <p>PMID:10485906</p> <p>SOCS1 inhibits STAT6 activation downstream of IFNG and downregulates IL4 signaling pathway.</p> <p>PMID:15634881</p> <p>STAT6-deficient mice produce M1 macrophages.</p> <p>STAT6 deficiency prevents signaling through the type 2 IL-4Ralpha, thereby blocking the production of arginase and promoting the synthesis of NO in MDSC.</p> <p>PMID:12244147</p> <p>GM-CSF can activate STAT6 in murine BM-DC</p> <p>PMID:12244147, PMID:24204259</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="STAT6"/> <bbox w="80.0" h="40.0" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re5:(MAP:survival) PMID:11955436</p> <p>s_wca1_re6:(MAP:survival) PMID:17910481</p> <p>s_wca1_re20:(MAP:survival) PMID:19556239</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20127.06" y="19197.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa708_wca1_wca1_sa708"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20119.06" y="19226.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa28_wca1_wca1_sa28"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20115.06" y="19114.562"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa29_wca1_wca1_sa29"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="19114.562"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa30_wca1_wca1_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, 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ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="19158.062"/> <glyph class="state variable" id="_0c4b8cf4-8ac2-4433-bf62-41842045b3d4"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="19153.275"/> </glyph> <glyph class="state variable" id="_6aba283a-3373-4290-954c-48f3f101c306"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="19153.062"/> </glyph> <glyph class="state variable" id="_a5dd39d6-1d35-4f3a-9b30-caffe6cda573"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="19153.062"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20032.06" y="19159.0"/> <glyph class="state variable" id="_52c99c43-c044-4203-8aa9-8789bf2537c7"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20025.053" y="19154.0"/> </glyph> <glyph class="state variable" id="_f4fb43ef-8e92-4941-8430-fc9f31bbc5d0"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20104.56" y="19154.213"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20031.06" y="19202.562"/> <glyph class="state variable" id="_8a6b839c-875b-4d15-83dd-d5ea5ee07bef"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.053" y="19197.562"/> </glyph> <glyph class="state variable" id="_abec7a87-7cf0-454b-96e8-af0f29bf7657"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20013.56" y="19237.283"/> </glyph> <glyph class="state variable" id="_630025f2-0282-49de-9505-3cd966e01945"> <state value="" 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</head> <body> <p>Charge: 0</p> <p>MODULE:NK, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:LYTIC_GRANULES_EXOCYTOSIS, MODULE:PHAGOCYTOSIS</p> <p>CASCADE:KIR2DL1</p> <p>PMID:16606694</p> <p>WIPF1 forms complex with WASP. 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id="s_id_em_sa1976_em_sa1976" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:5T4*:LRP5_6*</p> <p>References:</p> <p>s_wca1_re77(MAP:survival):</p> <p>PMID:22100263</p> <p>5T4 forms complex with LRP6 resulting in inhibition of the canonical wnt</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa71_wca1_wca1_csa71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22100263"/> 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<p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22696.436" y="18817.5"/> <glyph class="state variable" id="_7f55a572-9f21-48a4-95e3-14e2c006028e"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="22678.936" y="18837.46"/> </glyph> <glyph class="state variable" id="_652821fc-8c22-44ae-908e-4d582d861a6a"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="22758.936" y="18812.766"/> 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xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3025_rc_sa3025"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="22459.06" y="9549.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa202_ce_sa202" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa202_ce_sa202"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCD2"/> <clone/> <bbox w="80.0" h="40.0" x="15069.444" y="15728.159"/> <glyph class="state variable" id="_7f4de7db-4ad4-4ec7-a924-d34408597d4c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15061.944" y="15734.875"/> </glyph> <glyph class="state variable" id="_9d756b23-c91d-4f7a-ad14-4512c719f60e"> <state value="" 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCD2"/> <clone/> <bbox w="80.0" h="40.0" x="15430.269" y="15708.159"/> <glyph class="state variable" id="_8d9b01c3-ccc9-48b7-b64c-48f9fc030c15"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15422.769" y="15714.875"/> </glyph> <glyph class="state variable" id="_9e234618-233c-458e-a7e3-bd78ec0984c2"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="15456.101" y="15703.159"/> </glyph> <glyph class="state variable" id="_3b0908f4-7e47-4565-972f-0d91ad40728e"> <state value="" variable="K561"/> <bbox w="30.0" h="10.0" x="15455.173" y="15743.159"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa356_rc_csa356" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NFKB1_p50*:RELA</p> </body> </html> </notes> <label text="RELA:p50"/> <bbox w="100.0" h="120.0" x="22951.56" y="10394.0"/> <glyph class="macromolecule" id="s_id_rc_sa3311_rc_sa3311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of kappa light polypeptide gene enhancer in B-cells 1</p> <p>HUGO:NFKB1 HGNC:7794 ENTREZ:4790 UNIPROT:P19838</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="22963.883" y="10403.48"/> <glyph class="unit of information" id="_1afd1d3a-6f9d-465f-8262-d85c40120453"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22978.883" y="10398.48"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3310_rc_sa3310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-rel reticuloendotheliosis viral oncogene homolog A (avian)</p> <p>HUGO:RELA HGNC:9955 ENTREZ:5970 UNIPROT:Q04206</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="22963.133" y="10447.48"/> <glyph class="state variable" id="_77f23d88-4b75-4273-ba49-72eb1fcdaccf"> <state value="" variable="T254"/> <bbox w="30.0" h="10.0" x="23004.055" y="10482.48"/> </glyph> <glyph class="state variable" id="_7e22ca2a-eccb-40eb-9401-f493ba8df195"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22981.564" y="10482.48"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa247_mo_sa247" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR21"/> <clone/> <bbox w="90.0" h="25.0" x="6340.0" y="10608.5"/> <glyph class="unit of information" id="_90d5a072-f908-4d57-99fe-1cb6e48c7302"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="6370.0" y="10603.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa247_emtc_em_sa704" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR21"/> <clone/> <bbox w="80.0" h="20.0" x="3757.5" y="17471.666"/> <glyph class="unit of information" id="_f7e8de78-8efd-44ab-a68f-08cbc96f7397"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.5" y="17466.666"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa108_wnc1_wnc1_sa108" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Same molecule as in AKT MODULE. Membrane-bound</p> <p>s_wnc1_re26:(MAP:survival) PMID:16054198</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa108_wnc1_wnc1_sa108"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054198"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PI4,5-P2"/> <bbox w="70.0" h="25.0" x="14922.061" y="18197.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4777_rc_sa4777" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4777_rc_sa4777"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF4"/> <bbox w="90.0" h="25.0" x="27436.326" y="16042.5"/> <glyph class="unit of information" id="_6123a784-134f-433d-8d64-067b06b50306"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27471.326" y="16037.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2070_em_sa2070" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID:24335145β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID:24335145β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.Confidence_begin:Confidence_endIdentifiers_begin:Map 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rdf:about="#s_id_emtc_em_sa703_emtc_em_sa703"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR205"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR205"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR205"/> <bbox w="60.0" h="20.0" x="3474.5" y="17043.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5053_rc_sa5053" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5053_rc_sa5053"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITPR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITPR1 "/> <bbox w="80.0" h="40.0" x="26409.06" y="13369.0"/> <glyph class="unit of information" id="_74b26991-5e2f-4f2c-9a39-c21d8fb3d90e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26426.56" y="13364.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa838_ca_sa838" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa838_ca_sa838"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FRS2"/> <clone/> <bbox w="80.0" h="40.0" x="4749.0" y="1400.0"/> <glyph class="state variable" id="_362b3f8a-e287-4914-b669-ccc0dbd44cf1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4744.0" y="1415.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa838_emtc_em_sa2458" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa838_emtc_em_sa2458"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FRS2"/> <clone/> <bbox w="52.0" h="19.0" x="5924.5" y="15786.0"/> <glyph class="state variable" id="_68810eb8-3bc1-497f-86bb-80a60027405d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5919.5" y="15790.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4511_rc_sa4511" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22025673</p> <p>PMID:12777372</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4511_rc_sa4511"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22025673"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12777372"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Hypoxia"/> <clone/> <bbox w="80.0" h="30.0" x="27324.06" y="11639.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4511_emtc_em_sa1964" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22025673</p> <p>PMID:12777372</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4511_emtc_em_sa1964"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22025673"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12777372"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Hypoxia"/> <clone/> <bbox w="71.0" h="21.0" x="4418.0" y="14081.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4511_ca_sa938" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22025673</p> <p>PMID:12777372</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4511_ca_sa938"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22025673"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12777372"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Hypoxia"/> <clone/> <bbox w="80.0" h="30.0" x="3320.0" y="3565.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa86_ce_csa86" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARP1:PNK*:POLB:WRN:XRCC1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:19748837, PMID:12637553, PMID:10858306, PMID:11948190, PMID:16442856, PMID:18398454, PMID:16449207</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa86_ce_csa86"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19748837"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12637553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10858306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11948190"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16442856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18398454"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16449207"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP1/POLB/PNK*/XRCC1/WRN"/> <bbox w="203.0" h="184.0" x="9345.473" y="16665.355"/> <glyph class="macromolecule" id="s_id_ce_sa708_ce_sa708"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XRCC1 , X-ray repair complementing defective repair in Chinese hamster cells 1</p> <p>HUGO:XRCC1, HGNC:12828, ENTREZ:7515, UNIPROT:P18887</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:8978692, PMID:8264637, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20227374</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XRCC1"/> <bbox w="80.0" h="40.0" x="9359.017" y="16777.303"/> <glyph class="state variable" id="_18777adc-256e-4001-89bd-ff0f2b45f1b6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9408.085" y="16772.303"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1560_ce_sa1560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="79.0" h="40.0" x="9355.913" y="16726.174"/> <glyph class="state variable" id="_10528ca9-2f3d-4914-841c-ee9441fe37a2"> <state value="?" variable="PolyADPribose"/> <bbox w="79.0" h="10.0" x="9351.582" y="16721.174"/> </glyph> <glyph class="state variable" id="_214f8ac4-2a71-42d8-82e2-fae207ac966f"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="9335.913" y="16745.402"/> </glyph> <glyph class="state variable" id="_e299f159-b857-43d6-aa6f-3df96d62a6ed"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="9344.605" y="16761.174"/> </glyph> <glyph class="state variable" id="_5d704d2b-f55d-4f77-a795-10e26e861b55"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="9335.913" y="16755.105"/> </glyph> <glyph class="state variable" id="_c2ae19db-680e-44c9-b1c2-06bbea19eefd"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9427.413" y="16741.174"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1473_ce_sa1473"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Polynucleotide kinase 3'-phosphatase</p> <p>HUGO:PNKP, HGNC:9154, ENTREZ:11284, UNIPROT:Q96T60</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ, MODULE:BER</p> <p>References:</p> <p>PMID:20691907</p> <p>For C_NHEJ</p> <p>PMID:17638872, PMID:15385968, PMID:12032095 </p> <p>For BER</p> <p>PMID:11163244, PMID:19546231</p> </body> </html> </notes> <label text="PNK*"/> <bbox w="80.0" h="40.0" x="9443.473" y="16679.785"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1458_ce_sa1458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Werner syndrome, RecQ helicase-like</p> <p>HUGO:WRN, HGNC:12791, ENTREZ:7486, UNIPROT:Q14191</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:20691907</p> <p>For A_NHEJ pathway</p> <p> (alt_NHEJ or B_NHEJ or MMEJ)</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>, PMID:21376743, PMID:24050180, PMID:22743550</p> <p>For HR pathway</p> <p>PMID:19490890, PMID:22657828 </p> <p>For BER pathway</p> <p>PMID:17116323, PMID:18398454, PMID:16449207, PMID:15385537, PMID:18558713, PMID:23161013</p> <p>WRN in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>Inhibiting WNT kills alt_NHEJ pathway</p> <p>PMID:24036544</p> <p>PARP1 inhibits WRN</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> <p>Activation of WRN in cancers</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="WRN"/> <bbox w="80.0" h="40.0" x="9358.3955" y="16680.203"/> <glyph class="state variable" id="_d4a81b6c-82ae-47f9-8966-5250139ed0d3"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="9387.144" y="16675.203"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa707_ce_sa707"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PolB, polymerase (DNA directed), beta</p> <p>HUGO:POLB, HGNC:9174, ENTREZ:5423, UNIPROT:P06746</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> <p>POLB is important for repair of ROS-induced DNA damage, inhibiting impoves sensitivity to ROS-like drugs</p> <p>PMID:20510258, PMID:21251944</p> </body> </html> </notes> <label text="POLB"/> <bbox w="80.0" h="40.0" x="9446.973" y="16726.855"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1616_ce_sa1616" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:DNA_REPAIR MODULE:NER References:PMID:23892398 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:DNA_REPAIR MODULE:NER References:PMID:23892398 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1616_ce_sa1616"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Pyrimidine_dimer*"/> <bbox w="236.0" h="25.0" x="8461.769" y="15406.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa398_in_sa398" compartmentRef="s_id_in_ca48_in_ca48"> <label text="ULBP3"/> <bbox w="80.0" h="40.0" x="20900.0" y="960.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa936_emtc_em_sa936" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa936_emtc_em_sa936"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="P-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="1125.0" y="16380.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa936_emtc_em_sa109" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa936_emtc_em_sa109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="P-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="2584.0" y="16372.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa34_shh1_shh2_csa34" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR17-3P*:TSP1*</p> <p>References:</p> <p>s_shh2_re149(MAP:survival):</p> <p>PMID:16878133 PMID:18550634</p> <p>Not known which miRNA of the miR-17-92 polycistron is reponsible for degradation of Tsp1 and CTGF not known which miRNA is responsible therefor miR-17-3p is shown in complex</p> <p>s_shh2_re150(MAP:survival):</p> <p>Not known which miRNA of the miR-17-92 polycistron is reponsible for degradation of Tsp1 and CTGF therefor only miR-17-3p shown in complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa34_shh1_shh2_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16878133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18550634"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR17-92_TSP1"/> <bbox w="100.0" h="120.0" x="27603.06" y="21931.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa263_shh1_shh2_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR17-3P*"/> <bbox w="90.0" h="25.0" x="27609.56" y="21943.0"/> <glyph class="unit of information" id="_6526d483-d486-4feb-8084-fe06e4a434d9"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27639.56" y="21938.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa262_shh1_shh2_sa262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>thrombospondin 1</p> <p>HUGO:THBS1 HGNC:11785 ENTREZ:7057 UNIPROT:P07996 GENECARDS:THBS1 REACTOME:66519 KEGG:7057 ATLASONC:THBS1ID42548ch15q15 WIKI:THBS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18193162</p> <p>thrombospondin 1</p> <p>HUGO:THBS1 HGNC:11785 ENTREZ:7057 UNIPROT:P07996 GENECARDS:THBS1 REACTOME:66519 KEGG:7057 ATLASONC:THBS1ID42548ch15q15 WIKI:THBS1</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="TSP1*"/> <bbox w="90.0" h="25.0" x="27609.56" y="21971.0"/> <glyph class="unit of information" id="_6fbb5ec6-7cad-4049-8b7d-3e49d8138fe2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27644.56" y="21966.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa797_ad_sa797" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>PMID:10790433 </p> <p> PAG is expressed as a constitutively tyrosine-phosphorylated protein and binds the major negative regulator of Src kinases, the tyrosine kinase Csk. 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF1"/> <clone/> <bbox w="80.0" h="40.0" x="3490.0" y="4520.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa831_emtc_em_sa794" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa831_emtc_em_sa794"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF1"/> <clone/> <bbox w="40.0" h="20.0" x="5383.0" y="17532.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa45_wnc1_wnc1_csa45" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC2*:CK1_epsilon_*:CTHRC1:DVL*:FZD*:GSK3*:PAR6*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re109(MAP:survival):</p> <p>Polymerised Dvl act as scaffold for recruiting axin.</p> <p>PMID:21078818</p> <p>GSK3 phosphorylates ROR2</p> <p>PMID:17986005</p> <p>s_wnc1_re69(MAP:survival):</p> <p>PMID:21069266</p> <p>PMID:15388793</p> <p>s_wnc1_re76(MAP:survival):</p> <p>PMID:15375164</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa45_wnc1_wnc1_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21078818"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17986005"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21069266"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15388793"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15375164"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="379.0" h="234.0" x="15293.811" y="19836.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa278_wnc1_wnc1_sa278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15581.311" y="19895.5"/> <glyph class="state variable" id="_00bc29cb-252f-481f-bdfa-461561c53495"> <state value="P" variable="S864"/> <bbox w="35.0" h="10.0" x="15643.811" y="19890.766"/> </glyph> <glyph class="state variable" id="_a7859de9-cdf3-4fc7-9542-fcdc0ec443c7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15616.311" y="19940.5"/> </glyph> <glyph class="state variable" id="_69baa620-c4ad-4436-8e96-0b73fa64d6f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15576.314" y="19890.5"/> </glyph> <glyph class="state variable" id="_522871ee-1a02-43e4-a49e-075397802a14"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15656.311" y="19940.5"/> </glyph> <glyph class="unit of information" id="_e7506134-7840-4700-88bc-cb54c574ec0d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15598.811" y="19890.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa661_wnc1_wnc1_sa661"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15302.561" y="20016.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa277_wnc1_wnc1_sa277"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15493.311" y="19891.5"/> <glyph class="unit of information" id="_bac36c53-40c5-4b7d-9d34-11c0122878e3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15510.811" y="19886.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa281_wnc1_wnc1_sa281"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15500.061" y="19952.0"/> <glyph class="state variable" id="_5af59fa6-635a-4311-bff7-80104ca25216"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15495.064" y="19987.0"/> </glyph> <glyph class="state variable" id="_564fd174-7bd6-4054-8c18-d7474d06e43a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15572.194" y="19947.0"/> </glyph> <glyph class="state variable" id="_1f7447be-e438-4e58-9032-6d1a25c4a758"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15561.942" y="19987.0"/> </glyph> <glyph class="state variable" id="_02a75027-37f8-44a6-b1b9-c62d20261e78"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15495.064" y="19947.0"/> </glyph> <glyph class="state variable" id="_0165b9b6-7e68-4f15-bbae-82fda7d81b4e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15575.061" y="19947.0"/> </glyph> <glyph class="state variable" id="_c57ff071-dfac-4d3a-a0b5-3319e8df5ee5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15575.061" y="19987.0"/> </glyph> <glyph class="state variable" id="_10da1ac6-7ff2-42e1-bd03-d8fe57c8f972"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15482.561" y="19986.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa312_wnc1_wnc1_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="15331.561" y="19948.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa285_wnc1_wnc1_sa285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="15581.811" y="19997.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa308_wnc1_wnc1_sa308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="15325.561" y="19892.0"/> <glyph class="state variable" id="_556c7487-d63c-47d9-8028-cc11729acc58"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15320.564" y="19887.0"/> </glyph> <glyph class="state variable" id="_4f0fcbed-8c52-42f7-af76-5bc91ddc2446"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15400.561" y="19887.0"/> </glyph> <glyph class="state variable" id="_21ce56e6-9554-40a5-99aa-ee99e2230587"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15400.561" y="19912.0"/> </glyph> <glyph class="state variable" id="_6f38e5b3-6053-4d25-8669-d9818fda6577"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15320.561" y="19912.0"/> </glyph> <glyph class="unit of information" id="_9f18b755-bce5-4b93-a81c-541075fc07f6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15343.061" y="19887.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa281_wnc1_wnc1_sa282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15496.061" y="19993.0"/> <glyph class="state variable" id="_91b9431b-347d-4101-986a-787217fc09a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15491.064" y="20028.0"/> </glyph> <glyph class="state variable" id="_677c6b7e-bea9-4f56-94c6-a43f7e28e90c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15568.194" y="19988.0"/> </glyph> <glyph class="state variable" id="_9cd709fd-e511-4fe5-9bdc-d761d1289bdd"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15557.942" y="20028.0"/> </glyph> <glyph class="state variable" id="_da906fb6-3ca5-481b-9570-22515fc94f91"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15491.064" y="19988.0"/> </glyph> <glyph class="state variable" id="_d65dd3af-8097-43b2-9417-f10d838b613a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15571.061" y="19988.0"/> </glyph> <glyph class="state variable" id="_9f27c37b-df72-4c05-abd6-8bdc125078ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15571.061" y="20028.0"/> </glyph> <glyph class="state variable" id="_2a7e0753-a74b-429e-bc80-2e0011c8ad3e"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15478.561" y="20027.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa408_wnc1_wnc1_sa408"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="15331.561" y="19999.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa286_wnc1_wnc1_sa286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15525.561" y="19877.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa300_wnc1_wnc1_sa300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="15413.561" y="19998.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa292_wnc1_wnc1_sa292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="15409.561" y="19891.0"/> <glyph class="unit of information" id="_a87ba095-6372-47f0-9b0b-226d63ca1f34"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15427.061" y="19886.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa279_wnc1_wnc1_sa279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15482.311" y="19876.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa280_wnc1_wnc1_sa280"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="15415.811" y="19948.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa284_wnc1_wnc1_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6 GENECARDS:ANAPC2 REACTOME:84976 KEGG:29882 ATLASONC:GC_ANAPC2 WIKI:ANAPC2 </p> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="15581.811" y="19955.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_sa1008_wnc1_sa1008"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="15579.061" y="19844.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa101_ad_csa101" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NFKB1_p50*:NFKBIA:RELA</p> <p>Map modules:</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION, MODULE:MACROPHAGE, MODULE:MDSC</p> <p>CASCADE:IL2, CASCADE:CSF2, CASCADE:TNF</p> <p>References:</p> </body> </html> </notes> <label text="RELA:p50/NFKBIA"/> <bbox w="115.0" h="175.0" x="28428.5" y="6157.5"/> <glyph class="macromolecule" id="s_id_ad_sa859_ad_sa859"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKBIA </p> <p>HUGO:NFKBIB</p> <p>HUGO:NFKBIE </p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="28442.5" y="6174.5"/> <glyph class="state variable" id="_495f49c8-cf7f-41be-884e-21e9c2344e0f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28435.0" y="6189.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa857_ad_sa857"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RELA </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="28446.0" y="6225.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa858_ad_sa858"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="28446.0" y="6255.0"/> <glyph class="unit of information" id="_9fe96ae2-d98b-49dd-98a0-12e5b74be893"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28461.0" y="6250.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa205_ce_csa205" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinB1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycB*"/> <clone/> <bbox w="104.0" h="105.0" x="13232.473" y="10846.356"/> <glyph class="macromolecule" id="s_id_ce_sa912_ce_sa912"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin B1</p> <p>HUGO:CCNB1, HGNC:1579, ENTREZ:891, UNIPROT:P14635</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in responce to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> </body> </html> </notes> <label text="CyclinB1*"/> <clone/> <bbox w="80.0" h="40.0" x="13246.973" y="10850.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa913_ce_sa913"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <clone/> <bbox w="80.0" h="40.0" x="13245.973" y="10890.856"/> <glyph class="state variable" id="_0228d28b-237d-4b47-9a64-83883b3c8d49"> <state value="P" variable="T161"/> <bbox w="35.0" h="10.0" x="13308.473" y="10905.456"/> </glyph> <glyph class="state variable" id="_41705815-daec-41e1-a5de-0e6e4dba1c15"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="13282.922" y="10885.856"/> </glyph> <glyph class="state variable" id="_03040802-6b2d-4f18-af47-27d325f5275c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13238.473" y="10905.824"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa205_ce_csa125" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinB1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycB*"/> <clone/> <bbox w="104.0" h="105.0" x="13081.473" y="10677.356"/> <glyph class="macromolecule" id="s_id_ce_sa913_ce_sa804"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <clone/> <bbox w="80.0" h="40.0" x="13094.973" y="10721.856"/> <glyph class="state variable" id="_b5609029-715a-47e8-bcbb-5000fb24a7fc"> <state value="P" variable="T161"/> <bbox w="35.0" h="10.0" 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id="s_id_mpk1_mpk1_sa292_mpk1_mpk1_sa292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin beta 2</p> <p>ARR2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="49.0" h="76.0" x="10189.061" y="19406.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa293_mpk1_mpk1_sa293"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. 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value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="16723.56" y="19437.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3324_rc_sa3324" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3324_rc_sa3324"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~MCL1*"/> <bbox w="80.0" h="40.0" x="22589.06" y="14389.0"/> <glyph class="unit of information" id="_6e5d3a98-9e49-4acd-bda7-4074fc69703a"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22604.06" y="14384.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa36_shh1_shh1_csa36" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re71(MAP:survival):</p> <p>PMID:18455992</p> <p>PMID:16611981</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa36_shh1_shh1_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18455992"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16611981"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gli2-185_SUFU_ULK3"/> <bbox w="193.0" h="148.0" x="26655.81" y="19400.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa237_shh1_shh1_sa237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3178_rc_sa4835"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK14"/> <clone/> <bbox w="80.0" h="40.0" x="26839.06" y="14429.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4798_rc_sa4798" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa105_rc_sa105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa105_ca_sa898"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR101*"/> <clone/> <bbox w="90.0" h="25.0" x="2925.0" y="2562.25"/> <glyph class="unit of information" id="_29c7d33d-953c-4856-add0-c13f44f5a9da"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2955.0" y="2557.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa105_rc_sa4618" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa105_rc_sa4618"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR101-2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR101*"/> <clone/> <bbox w="90.0" h="25.0" x="24787.06" y="15631.5"/> <glyph class="unit of information" id="_ea1ae03b-a130-44eb-80ce-56f32e237f49"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24817.06" y="15626.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4308_rc_sa4308" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4308_rc_sa4308"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACER1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACER1"/> <bbox w="80.0" h="40.0" x="20309.06" y="10639.0"/> </glyph> <glyph class="simple chemical" id="s_id_ce_sa1497_ce_sa1497" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cisplatin</p> <p>CAS:15663-27-1, PUBCHEM:301178, KEGGDRUG:D00275</p> <p>Mitomicyn C</p> <p>CAS:50-07-7, PUBCHEM:5746, KEGGDRUG:D00208</p> <p>Oxaliplatin</p> <p>CAS:61825-94-3, PUBCHEM:5310940, KEGGDRUG:D01790</p> <p>Carboplatin</p> <p>Satraplatin</p> <p>Picoplatin</p> <p>Cyclophosphamide</p> <p>Melphalan</p> <p>Chlorambucil</p> <p>Ifosfamide</p> <p>Psoralen</p> <p>Pyrrolobenzodiazepine</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:TLS, MODULE:FANCONI, MODULE:NER</p> <p>References:</p> <p>PMID:22258607, PMID:22918414</p> <p>Cisplatin</p> <p>PMID:21115814, PMID:23444773</p> <p>Oxaliplatin</p> <p>PMID:22614106</p> <p>Mitomycin C</p> <p>PMID:23444773</p> <p>For actIvation of TLS by interstrand crosslinking agents</p> <p>PMID:20015866, PMID:15155842, PMID:22122464, PMID:23106263, PMID:21666254, PMID:20658647</p> <p>For activation of HR, Fanconi and NER by interstrand crosslinking agents</p> <p>PMID:21701511</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1050_ca_sa1161"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42EP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC42EP3"/> <clone/> <bbox w="80.0" h="40.0" x="6060.0" y="3240.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa916" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa916"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> 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y="13335.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa1338" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2811"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="19784.06" y="11586.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa408" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa408"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="6249.0" y="16623.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa772" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa772"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="55.0" h="23.0" x="18229.06" y="9659.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa3702" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa3702"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="20226.56" y="10941.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa4884" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa4884"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="27084.06" y="15146.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa1327" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa1327"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="1221.0" y="17582.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa2801" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2801"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="19364.06" y="11746.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa1289" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa1289"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="1386.0" y="15537.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa3053" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa3053"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="23714.06" y="14876.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa2612" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2612"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="26348.06" y="9722.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa3247" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa3247"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="23604.06" y="9296.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa2051" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2051"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="18782.81" y="12334.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa852" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa852"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="6262.0" y="13669.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa679" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa679"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="1349.0" y="14481.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa1334" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa1334"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="1201.0" y="18022.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa794" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa794"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="18726.56" y="9920.189"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa2784" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2784"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="18690.06" y="11839.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa2765" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2765"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="18453.803" y="11858.625"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa3091" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa3091"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="24034.06" y="14746.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa5324" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa5324"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="26364.06" y="9816.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa2795" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2795"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="19234.06" y="11586.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa2272" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa2272"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="29251.06" y="10399.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa837" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa837"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="6382.0" y="13422.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa887" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa887"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="18748.777" y="11188.898"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa869" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa869"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="18771.277" y="10698.898"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa1325" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa1325"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="1201.0" y="17422.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa5380" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa5380"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="23114.06" y="12566.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa400" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa400"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="6580.25" y="16626.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa908" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa908"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="18444.52" y="11643.523"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_emtc_em_sa1536" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_emtc_em_sa1536"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="40.0" h="20.0" x="6597.5" y="13720.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa916_rc_sa789" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa916_rc_sa789"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Cytoskeleton remodeling"/> <bbox w="160.0" h="20.0" x="5110.0" y="14613.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa429_rc_csa429" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DRAL*:NEDD4:NLRP1:PTCH*:TUCAN*</p> <p>References:</p> <p>22679284</p> <p>in the absence of Shh, Ptc recruits a protein complex that includes DRAL, one of the caspase recruitment (CARD)-domain containing proteins TUCAN (family member, 8) or NALP1 (NLR family, pyrin domain containing 1) and apical caspase-9</p> </body> </html> </notes> <label text="DRAL:TUCAN*:NLRP1:Caspase9*:Patched"/> <bbox w="100.0" h="250.0" x="20669.06" y="9139.0"/> <glyph class="macromolecule" id="s_id_rc_sa4178_rc_sa4178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase recruitment domain family, member 8</p> <p>HUGO:CARD8 HGNC:17057 ENTREZ:22900 UNIPROT:Q9Y2G2</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:19465923</p> <p>PMID:11408476</p> <p>TUCAN was proposed to function as an adaptor protein for caspase-9</p> </body> </html> </notes> <label text="TUCAN*"/> <bbox w="80.0" h="40.0" x="20679.06" y="9239.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4184_rc_sa4184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neural precursor cell expressed, developmentally down-regulated 4, E3 ubiquitin protein ligase</p> <p>HUGO:NEDD4 HGNC:7727 ENTREZ:4734 UNIPROT:P46934</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:22679284</p> <p>Ptc allows the activation of caspase-9 via its ubiquitination, which occurs via the recruitment by Ptc of NEDD4.</p> </body> </html> </notes> <label text="NEDD4"/> <bbox w="80.0" h="40.0" x="20679.06" y="9319.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4173_rc_sa4173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:19465923</p> <p>PMID:22679284</p> <p>Patched dependence receptor triggers apoptosis through ubiquitination of caspase-9</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="80.0" h="50.0" x="20679.06" y="9144.0"/> <glyph class="unit of information" id="_400d906e-bf8a-4e51-bc2f-c81aa398e258"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20696.56" y="9139.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4181_rc_sa4181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>four and a half LIM domains 2</p> <p>HUGO:FHL2 HGNC:3703 ENTREZ:2274 UNIPROT:Q14192</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:19465923</p> <p>DRAL is required for the pro-apoptotic activity of Ptc</p> </body> </html> </notes> <label text="DRAL*"/> <bbox w="80.0" h="40.0" x="20679.06" y="9199.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4177_rc_sa4177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NLR family, pyrin domain containing 1</p> <p>HUGO:NLRP1 HGNC:14374 ENTREZ:22861 UNIPROT:Q9C000</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:19465923</p> <p>Ptc–DRAL interaction represents an anchor for a specific TUCAN/NALP1-caspase-9-containing complex</p> </body> </html> </notes> <label text="NLRP1"/> <bbox w="80.0" h="40.0" x="20679.06" y="9279.0"/> <glyph class="unit of information" id="_d90630c3-ee15-43d0-b0d1-cb0d3f6985b9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20696.56" y="9274.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa516_ca_sa516" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa516_ca_sa516"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EP300"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EP300"/> <bbox w="80.0" h="40.0" x="5030.0" y="3810.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa122_ce_csa122" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycA*"/> <bbox w="94.0" h="106.0" x="12591.473" y="8995.356"/> <glyph class="macromolecule" id="s_id_ce_sa795_ce_sa795"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="12596.973" y="8998.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa794_ce_sa794"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="12597.973" y="9042.356"/> <glyph class="state variable" id="_2b0d8ac6-38cd-4d4a-8386-7b8d000fd0ab"> <state value="" variable="T160"/> <bbox w="30.0" h="10.0" x="12582.973" y="9057.324"/> </glyph> <glyph class="state variable" id="_dee9854b-c1b6-45d2-8280-d72aff03ebdd"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="12597.798" y="9037.356"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa708_mpk1_mpk1_sa708" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa708_mpk1_mpk1_sa708"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FRS2"/> <bbox w="50.0" h="25.0" x="8378.061" y="18844.5"/> <glyph class="state variable" id="_8f4be0b1-3337-4f5a-b3b6-f4271c05da99"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8373.061" y="18852.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1715_rc_sa1715" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1715_rc_sa1715"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNIP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~KCNIP3*"/> <bbox w="80.0" h="40.0" x="22573.06" y="16857.0"/> <glyph class="unit of information" id="_0580cf4b-4557-40f7-b1fc-0c29d46d9abd"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22588.06" y="16852.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa744_rc_sa744" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa744_rc_sa744"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BECN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BECN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BECN1"/> <bbox w="90.0" h="25.0" x="24154.56" y="16019.5"/> <glyph class="unit of information" id="_0f0d3e4a-7b78-4ac9-b906-cc69a20c75d9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24189.56" y="16014.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_shh1_shh1_sa339" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_shh1_shh1_sa339"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="30.0" h="30.0" x="26303.56" y="17815.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_ca_sa634" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_ca_sa634"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="63.0" h="27.0" x="6678.75" y="3166.875"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_rc_sa4774" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_rc_sa4774"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="27874.06" y="15656.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_rc_sa4267" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_rc_sa4267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="20854.06" y="9776.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_ca_sa686" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_ca_sa686"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="63.0" h="27.0" x="6278.75" y="3156.875"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_shh1_shh3_sa36" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_shh1_shh3_sa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="30.0" h="30.0" x="26207.06" y="22634.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_ca_sa762" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_ca_sa762"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="63.0" h="27.0" x="5938.75" y="3166.875"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_rc_sa4283" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_rc_sa4283"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="19354.06" y="11796.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_rc_sa4772" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_rc_sa4772"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="27864.06" y="15366.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_rc_sa4271" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_rc_sa4271"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="20739.06" y="9584.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_rc_sa2796" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_rc_sa2796"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="19274.06" y="11496.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_ca_sa854" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_ca_sa854"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="63.0" h="27.0" x="5008.75" y="2581.875"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa339_shh1_shh3_sa79" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:21474452</p> <p>PMID:20081366</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa339_shh1_shh3_sa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="30.0" h="30.0" x="27904.56" y="22784.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2993_rc_sa2993" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17025 KEGGCOMPOUND:C00337 CAS:5988-19-2</p> </body> </html> </notes> <label text="dihydroorotate"/> <bbox w="105.0" h="23.0" x="18730.31" y="12239.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa941_ca_sa941" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CORE MODULE:CAF References:PMID:25364523We cultured cardiac fibroblasts of mice were in hypoxia or normoxia conditions for 12, 24 and 48 hours. At all the time points, caveolin-1 and PTEN expression were gradually reduced, whereas, α-SMA was gradually increased. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CORE MODULE:CAF References:PMID:25364523We cultured cardiac fibroblasts of mice were in hypoxia or normoxia conditions for 12, 24 and 48 hours. At all the time points, caveolin-1 and PTEN expression were gradually reduced, whereas, α-SMA was gradually increased. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa941_ca_sa941"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25364523"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25364523"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <bbox w="90.0" h="25.0" x="3325.0" y="2457.5"/> <glyph class="unit of information" id="_ead086f5-f0b5-4edd-8c82-6b68316367c3"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3360.0" y="2452.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_an_sa108_an_sa108" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="VEGFA"/> <clone/> <bbox w="70.0" h="25.0" x="6486.0" y="7868.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_an_sa108_emtc_em_sa44" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="VEGFA"/> <clone/> <bbox w="40.0" h="20.0" x="5063.0" y="17480.375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_an_sa108_rc_sa671" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="VEGFA"/> <clone/> <bbox w="70.0" h="25.0" x="23363.393" y="16269.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa366_emtc_em_sa366" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa366_emtc_em_sa366"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD1"/> <bbox w="80.0" h="20.0" x="5233.0" y="16589.625"/> <glyph class="unit of information" id="_d89dc12a-16ab-44f2-bf86-89a6dc82c8ec"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5263.0" y="16584.625"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3253_rc_sa3253" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="O2"/> <clone/> <bbox w="70.0" h="25.0" x="24444.56" y="10534.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3253_rc_sa1209" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="O2"/> <clone/> <bbox w="70.0" h="25.0" x="28399.9" y="10633.362"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3253_ca_sa1056" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="O2"/> <clone/> <bbox w="70.0" h="25.0" x="3085.0" y="4337.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3253_rc_sa2310" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="O2"/> <clone/> <bbox w="70.0" h="25.0" x="27944.06" y="10356.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3253_rc_sa2299" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="O2"/> <clone/> <bbox w="70.0" h="25.0" x="25449.06" y="15584.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa132_ce_csa132" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycA*"/> <clone/> <bbox w="93.0" h="108.0" x="12736.473" y="8995.356"/> <glyph class="macromolecule" id="s_id_ce_sa817_ce_sa817"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <clone/> <bbox w="80.0" h="40.0" x="12742.973" y="9043.356"/> <glyph class="state variable" id="_7476a597-1f94-4f65-a438-3d0baf26a383"> <state value="P" variable="Y14/15"/> <bbox 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycA*"/> <clone/> <bbox w="95.0" h="105.0" x="13050.473" y="8995.356"/> <glyph class="macromolecule" id="s_id_ce_sa817_ce_sa821"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <clone/> <bbox w="80.0" h="40.0" x="13058.973" y="9041.356"/> <glyph class="state variable" id="_1313e060-e153-4144-8f89-9323c84020d4"> <state value="P" variable="Y14/15"/> <bbox 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>formin 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa67_emtc_em_sa1135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FMN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Formin*"/> <clone/> <bbox w="53.0" h="17.0" x="1300.5" y="16239.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa67_mo_sa68" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>formin 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa67_mo_sa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FMN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Formin*"/> <clone/> <bbox w="80.0" h="40.0" x="6219.0" y="9128.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa3_wca1_wca3_sa3" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa3_wca1_wca3_sa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT1"/> <bbox w="80.0" h="40.0" x="21381.06" y="20725.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1170_ca_sa1170" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF , MODULE:FIBROBLAST_ACTIVATION_MARKERS</p> <p>References:</p> <p>CASCADE:PDGF, CASCADE:LIF, CASCADE:TGFB</p> <p>PMID:19118022</p> <p>Fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblasts</p> <p>probably via PDGFR-α.</p> <p>PMID:24857661 </p> <p>we noted an increased expression of PDGFRα after LIF stimulation in hPDF</p> <p>PMID:15229650</p> <p>PDGFR alpha signaling is required for the recruitment of VEGF-producing stromal fibroblasts for tumor angiogenesis and growth</p> <p>PMID:7682895; PMID:17397400 </p> <p>PDGF -receptor directly binds and activates PLC-gamma 1, RasGAP, P13K, and a 64 kd protein. </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1170_ca_sa1170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> 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fibroblasts for tumor angiogenesis and growth</p> <p>PMID:7682895; PMID:17397400 </p> <p>PDGF -receptor directly binds and activates PLC-gamma 1, RasGAP, P13K, and a 64 kd protein. </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1170_ca_sa280"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa74_emtc_em_sa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:INADL"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:INADL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PATJ*"/> <bbox w="40.0" h="20.0" x="4958.5" y="15245.25"/> </glyph> <glyph class="complex" id="s_id_rc_csa401_rc_csa401" compartmentRef="s_id_rc_ca14_rc_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB*:TAK1*:XIAP</p> <p>References:</p> <p>23070005</p> </body> </html> </notes> <label text="TAB*:TAK1:XIAP"/> <bbox w="100.0" h="173.0" x="23354.56" y="9649.25"/> <glyph class="macromolecule" id="s_id_rc_sa3958_rc_sa3958"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 </p> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 3</p> <p>HUGO:TAB3 HGNC:30681 ENTREZ:257397 UNIPROT:Q8N5C8</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> </body> </html> </notes> <label text="TAB*"/> <bbox w="80.0" h="40.0" x="23364.56" y="9659.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3956_rc_sa3956"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="23364.56" y="9711.75"/> <glyph class="state variable" id="_832399c7-3f25-4ea3-bcf3-9ef5ee21c035"> <state value="" variable="S87"/> <bbox w="25.0" h="10.0" x="23409.01" y="9706.75"/> </glyph> <glyph class="state variable" id="_54c27f14-26a9-42fa-8238-0d99db7f2fc7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23382.992" y="9706.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3959_rc_sa3959"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>synonym:TAK1</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="23364.56" y="9761.75"/> <glyph class="state variable" id="_2baba03b-c37d-48e9-8ca3-c24cc43d8ebf"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="23406.129" y="9756.75"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2894_rc_sa2894" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa4_wnc1_wnc2_sa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LRP5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LRP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="17405.936" y="17898.75"/> <glyph class="unit of information" id="_4c7b811f-6fbc-4c1a-ad36-1afe2d49e726"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17423.436" y="17893.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3336_rc_sa3336" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3336_rc_sa3336"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DUSP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DUSP6"/> <bbox w="80.0" h="40.0" x="22705.06" y="11227.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa2917_rc_sa2917" compartmentRef="s_id_rc_ca14_rc_ca14"> <label text="rc_s3891"/> <bbox w="30.0" h="30.0" x="23067.06" y="9769.25"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa954_ce_sa954" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa954_ce_sa954"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ANAPC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="10338.281" y="10095.0205"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa292_shh1_shh1_sa292" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa292_shh1_shh1_sa292"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAS*"/> <bbox w="80.0" h="40.0" x="27277.06" y="19869.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa2172" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="18281.803" y="11959.125"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa3256" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="24574.06" y="10616.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa892" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="18486.777" y="11197.398"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa2634" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="26822.193" y="9787.599"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa1211" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="28534.06" y="10686.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa899" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="18552.037" y="11568.414"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa803" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="18306.56" y="10311.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa2319" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="27958.06" y="10642.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa2274" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="29000.06" y="10695.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2172_rc_sa776" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="18234.06" y="9806.5"/> </glyph> <glyph class="complex" id="s_id_in_csa131_in_csa131" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1433_in_sa1433"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18362204"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11919175"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Sphingosine 1-phosphate"/> <bbox w="175.0" h="33.0" x="14895.0" y="863.75"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa81_wnc1_wnc4_sa81" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4_6*"/> <bbox w="60.0" h="19.0" x="3730.0" y="14056.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4425_rc_sa4425" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4425_rc_sa4425"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Autophagosome formation"/> <bbox w="207.0" h="34.0" x="28586.56" y="11668.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa26_ce_sa26" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa26_ce_sa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APEX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APEX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APE*"/> <bbox w="80.0" h="40.0" x="9592.77" y="16186.5"/> <glyph class="state variable" id="_296b49ab-7116-415d-8a41-d86f38ae9e95"> <state value="P" variable="Thr233"/> <bbox w="45.0" h="10.0" x="9619.5625" y="16181.5"/> </glyph> <glyph class="state variable" id="_9aa3272f-9ae8-48df-a750-0ccade233217"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9587.77" y="16195.419"/> </glyph> <glyph class="state variable" id="_0e08d4fc-6917-40af-9385-e88a5546f749"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="9662.77" y="16195.768"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa6_te_csa6" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:shelterin_complex</p> <p>ALT_NAME:POT1/RAP1A/Telomeric_DNA/TERF1/TERF2/TINF2/TPP1</p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN</p> <p>Modules_end</p> <p>References:</p> <p>PMID:18680434, PMID;16166375, PMID:19965504, PMID:18828880</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa6_te_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18680434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19965504"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18828880"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="shelterin_complex"/> <bbox w="330.0" h="219.0" x="3260.06" y="21315.0"/> <glyph class="macromolecule multimer" id="s_id_te_sa70_te_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor (NIMA-interacting) 1</p> <p>HUGO:TERF1, HGNC:11728, ENTREZ:7013, UNIPROT:P54274, GENECARDS:TERF1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF1</p> <p>PMID:7502076</p> </body> </html> </notes> <label text="TERF1*"/> <bbox w="86.0" h="46.0" x="3367.06" y="21382.0"/> <glyph class="unit of information" id="_f80f1ebd-9236-40a4-a597-c3c9ed888fc1"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3400.06" y="21377.0"/> </glyph> <glyph class="state variable" id="_9e5b1a9d-db34-4723-986a-d4795106a7f8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3362.06" y="21400.0"/> </glyph> <glyph class="state variable" id="_45e36d47-cae1-40e5-bcbc-d5fdd0badadb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3448.06" y="21400.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa68_te_sa68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protection of telomere 1</p> <p>HUGO:POT1, HGNC:17284, ENTREZ:25913, UNIPROT:Q9NUX5, GENECARDS:POT1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of POT1</p> <p>PMID:11349150</p> </body> </html> </notes> <label text="POT1"/> <bbox w="80.0" h="40.0" x="3270.06" y="21425.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa67_te_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tripeptidyl peptidase I</p> <p>HUGO:TPP1, HGNC:2073, ENTREZ:1200, UNIPROT:O14773, GENECARDS:TPP1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504</p> <p>Identification of TPP1</p> <p>PMID:15231715</p> </body> </html> </notes> <label text="TPP1"/> <bbox w="80.0" h="40.0" x="3270.06" y="21375.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa66_te_sa66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TERF1 (TRF1-)interacting nuclear factor 2</p> <p>HUGO:TINF2, HGNC:11824, ENTREZ:26277, UNIPROT:Q9BSI4, GENECARDS:TINF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of TINF2</p> <p>PMID:10581025</p> </body> </html> </notes> <label text="TINF2"/> <bbox w="80.0" h="40.0" x="3390.06" y="21335.0"/> <glyph class="state variable" id="_553750ff-d60a-4090-9665-7be890c3a76f"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="3380.06" y="21349.969"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa69_te_sa69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 ----- content merged by Celldesigner to SBGN-ML translation ------ Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 </body> </html> </notes> <label text="Telomeric_DNA*"/> <bbox w="115.0" h="23.0" x="3357.56" y="21434.75"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa64_te_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor 2</p> <p>HUGO:TERF2, HGNC:11728, ENTREZ:7014, UNIPROT:Q15554, GENECARDS:TERF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4636_rc_sa4634"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR630"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR630"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR630"/> <clone/> <bbox w="90.0" h="25.0" x="24866.06" y="15629.5"/> <glyph class="unit of information" id="_638aa8ce-2011-4dbc-a0a3-bce5c8670cde"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24896.06" y="15624.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa115_emtc_em_sa115" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa115_emtc_em_sa115"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="R-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="2584.0" y="16452.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa115_emtc_em_sa937" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa115_emtc_em_sa937"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="R-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="1127.0" y="16479.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5238_rc_sa5238" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16283</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>PMID:26653790</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5238_rc_sa5238"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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rdf:about="#s_id_rc_sa3218_rc_sa3218"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RIPK1"/> <clone/> <bbox w="80.0" h="40.0" x="22532.06" y="9754.25"/> <glyph class="state variable" id="_7660e29f-7463-4284-833d-7ae634915ae8"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="22522.06" y="9760.421"/> </glyph> <glyph class="state variable" id="_9b73d65e-e4bb-4336-99c2-3d243fb14bcc"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="22573.39" y="9789.25"/> </glyph> <glyph class="state variable" id="_750baebf-365d-4bf6-b722-0d0fbbd811fe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22569.896" y="9749.25"/> </glyph> <glyph class="state variable" id="_d02f53d8-9629-4753-84dd-164a429eec82"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="22597.06" y="9760.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3218_rc_sa3011" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3218_rc_sa3011"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RIPK1"/> <clone/> <bbox w="80.0" h="40.0" x="23002.06" y="9864.25"/> <glyph class="state variable" id="_a2e92bff-0a36-4997-90da-9d363cdb8a06"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="22992.06" y="9870.421"/> </glyph> <glyph class="state variable" id="_84e7023e-e908-4455-8eac-c946700cb935"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="23043.39" y="9899.25"/> </glyph> <glyph class="state variable" id="_dbd28f75-144a-4666-a457-ad7905bfa410"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23039.896" y="9859.25"/> </glyph> <glyph class="state variable" id="_471cf2ba-a9c2-4669-9865-99df0ce8ef69"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="23067.06" y="9870.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa95_rc_csa95" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:4E-BP*:EIF4E</p> </body> </html> </notes> <label text="EIF4E:EIF4EBP1"/> <bbox w="100.0" h="120.0" x="27334.06" y="11944.0"/> <glyph class="macromolecule" id="s_id_rc_sa1132_rc_sa1132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E binding protein 1</p> <p>HUGO:EIF4EBP1 HGNC:3288 ENTREZ:1978 UNIPROT:Q13541</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:25682865</p> <p>Autophagy through 4EBP1 and AMPK regulates oxidative stress-induced premature senescence in auditory cells</p> </body> </html> </notes> <label text="4E-BP*"/> <bbox w="80.0" h="40.0" x="27345.06" y="11999.0"/> <glyph class="state variable" id="_fbf20d1d-9494-48cf-9378-ddd1cd30f133"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27396.629" y="11994.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1133_rc_sa1133"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E</p> <p>HUGO:EIF4E HGNC:3287 ENTREZ:1977 UNIPROT:P06730</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="EIF4E"/> <bbox w="80.0" h="40.0" x="27345.06" y="11955.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa626_wca1_wca1_sa626" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa626_wca1_wca1_sa626"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RGS19"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RGS19"/> <bbox w="80.0" h="40.0" x="21201.06" y="18303.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa136_mo_sa136" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine phosphatase type IVA, member 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Pontin_Reptin_Hexamer</p> <p>ALT_NAME:PIH1D1/RPAP3/Pontin/Reptin</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:22923768 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa65_te_csa65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22923768"/> </rdf:Bag> 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2</p> <p>HUGO:RUVBL2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="Reptin*"/> <bbox w="92.0" h="52.0" x="5967.3545" y="22520.559"/> <glyph class="unit of information" id="_0a7411d3-b9a5-4a8b-8a11-20bcdbae2c0c"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="6003.3545" y="22515.559"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa265_akt1_akt2_sa265" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa265_akt1_akt2_sa265"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="13947.061" y="20406.0"/> <glyph class="state variable" id="_3e00118b-88f2-492b-9e56-9c414c91b626"> <state value="P" variable="T286"/> <bbox w="35.0" h="10.0" x="14009.561" y="20401.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1132_ca_sa1132" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION </p> <p>References:</p> <p>PMID:20184663</p> <p> CAFs may also directly influence the polarization of macrophages toward an M2 phenotype: IL-4, one of the key cytokines driving M2-like polarization of macrophages, was shown to be secreted by CAFs</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1132_ca_sa1132"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20184663"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4"/> <bbox w="80.0" h="40.0" x="740.0" y="3526.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa217_ad_sa217" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>PMID:12734329</p> <p>2B4 is expressed on all NK and a subset of memory/effector CD8(+) T cells. 2B4 binds to CD48 and activates NK cytotoxicity, but its function on CD8(+) T cells is not clear.</p> <p>2B4/CD48 interaction on adjacent T cells appeared to be critical for cytotoxicity but 2B4 costimulates T cell cytotoxicity even against CD48-negative tumor targets</p> <p>PMID:11739483</p> <p>Expression of 2B4 is induced on CD8+ T cells after activation in vitro and in vivo. </p> <p>blocking 2B4/CD48 interaction impaired CD48+ 2B4+ T cell proliferation in response to activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa217_ad_sa217"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD244"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734329"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11739483"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD244"/> <clone/> <bbox w="80.0" h="50.0" x="31246.0" y="2585.0"/> <glyph class="unit of information" id="_ad0cdc10-535f-4366-afe4-3ddbd5837120"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="31263.5" y="2580.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa217_ad_sa216" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>PMID:12734329</p> <p>2B4 is expressed on all NK and a subset of memory/effector CD8(+) T cells. 2B4 binds to CD48 and activates NK cytotoxicity, but its function on CD8(+) T cells is not clear.</p> <p>2B4/CD48 interaction on adjacent T cells appeared to be critical for cytotoxicity but 2B4 costimulates T cell cytotoxicity even against CD48-negative tumor targets</p> <p>PMID:11739483</p> <p>Expression of 2B4 is induced on CD8+ T cells after activation in vitro and in vivo. </p> <p>blocking 2B4/CD48 interaction impaired CD48+ 2B4+ T cell proliferation in response to activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa217_ad_sa216"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD244"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734329"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11739483"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD244"/> <clone/> <bbox w="80.0" h="50.0" x="31246.0" y="2485.0"/> <glyph class="unit of information" id="_b7d116de-3ff4-4b9b-8374-76e95546de9e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="31263.5" y="2480.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1511_emtc_em_sa1511" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1511_emtc_em_sa1511"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LCP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LCP2"/> <bbox w="36.0" h="18.0" x="5623.0" y="14708.143"/> <glyph class="state variable" id="_329e12f4-b05a-4e97-9a30-daf5b65f30f7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5615.5" y="14712.143"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa189_emtc_em_csa189" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Afadin*:JAM1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Afadin*/JAM1*"/> <bbox w="96.0" h="42.0" x="1653.5" y="14703.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1257_emtc_em_sa1257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>F11 receptor</p> <p>HUGO:F11R, HGNC:14685, ENTREZ:50848, UNIPROT:Q9Y624, GENECARDS:GC01M160965 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="JAM1*"/> <bbox w="40.0" h="17.0" x="1708.0" y="14708.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1256_emtc_em_sa1256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4</p> <p>HUGO:MLLT4, HGNC:7137, ENTREZ:4301, UNIPROT:P55196, GENECARDS:GC06P168227  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:9334353</p> <p>MLLT4 is so-called Afadin or AF-6</p> <p>Afadin serves as a linker of the Actin cytoskeleton to the plasma membrane at the TJ sites</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Afadin*"/> <bbox w="47.0" h="19.0" x="1656.0" y="14707.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1165_rc_sa1165" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1165_rc_sa1165"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGLN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGLN2"/> <bbox w="80.0" h="40.0" x="24809.06" y="14969.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3650_rc_sa3650" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23073834</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3650_rc_sa3650"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Mitochondrial fission"/> <clone/> <bbox w="140.0" h="25.0" x="19799.06" y="10086.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3650_rc_sa4497" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23073834</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3650_rc_sa4497"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Mitochondrial fission"/> <clone/> <bbox w="140.0" h="25.0" x="27625.621" y="12634.75"/> </glyph> <glyph class="complex" id="s_id_ca_csa37_ca_csa37" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IL6R:JAK1:JAK2:TYK2:gp130*</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:IL6</p> <p>References:</p> <p>1439146</p> <p>IL6 signaling acts through IL6 receptor and receptor-associated signal transducer, gp130</p> <p>22595692 </p> <p>The structure of receptors of IL6 like cytokines</p> <p>9716487 </p> <p>IL6 signaling acts through jak/stat pathway, probably via Jak1, Jak2 and Tyk2</p> </body> </html> </notes> <label text="IL6R"/> <bbox w="185.0" h="183.0" x="237.0" y="2418.0"/> <glyph class="macromolecule" id="s_id_ca_sa377_ca_sa377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine kinase 2</p> <p>HUGO:TYK2 hgnc_id:HGNC:12440 HGNC:12440 ENTREZ:7297 UNIPROT:P29597</p> <p>References:</p> <p>MODUULE:CAF</p> <p>MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:IL6</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:‭21115385, PMID:7543512</p> <p>‭The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and </p> <p>Tyk2 (associated with the IL-10R2)</p> <p>IL-10 treatment of monocytes results in the tyrosine phosphorylation of tyk2 and Jakl</p> </body> </html> </notes> <label text="TYK2"/> <bbox w="80.0" h="40.0" x="332.0" y="2478.0"/> <glyph class="state variable" id="_07f8c523-ace8-4c4b-afbb-5782f4f702fe"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="324.5" y="2493.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa378_ca_sa378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Janus kinase 2</p> <p>HUGO:JAK2 hgnc_id:HGNC:6192 HGNC:6192 ENTREZ:3717 UNIPROT:O60674</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:PLAU, CASCADE:IFNG</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689 </p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation, probably downstream of JAK2. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> <p>PMID:27216177</p> <p>FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.</p> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="332.0" y="2528.0"/> <glyph class="state variable" id="_c8ee3562-96e7-40a6-b85b-91790dcd9584"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="324.5" y="2543.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa376_ca_sa376"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Janus kinase 1</p> <p>HUGO:JAK1 hgnc_id:HGNC:6190 HGNC:6190 ENTREZ:3716 UNIPROT:P23458</p> <p>References:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:IL6, CASCADE:PLAU, CASCADE:LIF, CASCADE:IFNG</p> <p>PMID:21840487 </p> <p>CAF-dependent matrix remodelling is essential for collective carcinoma cell invasion</p> <p>JAK kinase inhibitor P6 tested blocked remodelling (Hooper et al., 2010). P6 inhibits multiple members of the JAK family (Pedranzini et al., 2006), so we used JAK isoform-specific inhibitors to probe which JAKs are involved; neither JAK2 nor JAK3-specific inhibitors recapitulated the effect of the pan-JAK inhibitor (P6) on matrix remodelling (Figure 1A), suggesting that JAKI is the family member involved. </p> <p>Jak 1 regulates Actomyosin Contractility in CAFs downstream of GP130-IL6ST IL6 and oncostatin M (OSM) and via STAT3</p> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="332.0" y="2428.0"/> <glyph class="state variable" id="_ec2b7e20-440b-403d-8b98-521c7fab8919"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="324.5" y="2443.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa374_ca_sa374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 6 receptor</p> <p>HUGO:IL6R hgnc_id:HGNC:6019 HGNC:6019 ENTREZ:3570 UNIPROT:P08887</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:IL6</p> <p>References:</p> <p>PMID:12754507, PMID:24418198</p> <p>SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759) </p> <p>Of gp130 to suppress IL-6 signaling.</p> </body> </html> </notes> <label text="IL6R"/> <bbox w="80.0" h="50.0" x="239.5" y="2474.4258"/> <glyph class="unit of information" id="_5828563c-fcca-4b8e-a689-4a35e945296d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="257.0" y="2469.4258"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa368_ca_sa368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 6 signal transducer</p> <p>HUGO:IL6ST hgnc_id:HGNC:6021 HGNC:6021 ENTREZ:3572 UNIPROT:P40189</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:LIF, CASCADE:TGFB, CASCADE:IL6, CASCADE:PLAU</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <p>and blocks gp130 and CSF1R (CD115)surface expression.</p> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="239.5" y="2524.4258"/> <glyph class="state variable" id="_0a4f56e1-e49f-464c-9857-fe759628a36f"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="302.0" y="2521.9668"/> </glyph> <glyph class="unit of information" id="_8ae48e4b-c008-4fdd-8d96-266c414cd675"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="257.0" y="2519.4258"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5022_rc_sa5022" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5022_rc_sa5022"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MANF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MANF"/> <bbox w="80.0" h="40.0" x="29009.06" y="15809.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2304_in_sa2304" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="90.0" h="25.0" x="11960.625" y="4665.0"/> <glyph class="unit of information" id="_2a3c6fd8-7538-4486-bdf9-50ac976ca43c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11995.625" y="4660.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa748_rc_sa748" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa748_rc_sa748"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IKBKB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="22916.06" y="10166.0"/> <glyph class="state variable" id="_5a29db1f-0252-4475-ab8a-8b57b56b4a66"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22967.629" y="10161.0"/> </glyph> <glyph class="state variable" id="_6955ee8d-7c0b-451c-9d4c-cbb9b3dbd8ba"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22934.492" y="10161.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4996_rc_sa4996" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4996_rc_sa4996"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HYOU1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HYOU1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRP170*"/> <bbox w="70.0" h="25.0" x="28196.326" y="16111.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2375_rc_sa2375" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2375_rc_sa2375"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IDH3A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IDH3A"/> <bbox w="80.0" h="40.0" x="18899.06" y="15099.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa56_wnc1_wnc2_sa56" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa56_wnc1_wnc2_sa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAST"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Calpastatin*"/> <bbox w="80.0" h="40.0" x="18169.56" y="18111.0"/> <glyph class="state variable" id="_ecd608d3-3d53-40f3-b511-79af45dcfd85"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18162.064" y="18106.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa34_mpk1_mpk1_csa34" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:DAG:RASGRP1</p> </body> </html> </notes> <label text="Ca2+:DAG:RASGRP1"/> <bbox w="141.0" h="85.0" x="7892.56" y="19024.5"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa182_mpk1_mpk1_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS guanyl releasing protein 1 (calcium and DAG-regulated)</p> <p>HUGO:RASGRP1 HGNC:9878 ENTREZ:10125 UNIPROT:O95267</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGRP1 specifically activates H-Ras in the Golgi. It is localised in the cytosol in quiescent cells. After PMA stimulus at first it moves to the PM and then shifts towards other subcellular compartments like the Golgi apparatus.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+ in a manner analogous to members of the PKC family.</p> <p>PMID:12782630 PMID:17496910</p> </body> </html> </notes> <label text="RASGRP1"/> <bbox w="64.0" h="25.0" x="7943.56" y="19059.5"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa181_mpk1_mpk1_sa181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Diacylglycerol</p> <p>CAS:N/A PUBCHEM:3914 CHEBI:17815 KEGGCOMPOUND:C00165</p> <p>Map modules:</p> <p>MODULE:MAPK</p> <p>References:</p> <p>DAG activates the C1-domain of RasGRP1.</p> <p>PLCG acts on PIP2 in the PM to produce DAG and IP3.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+, in a manner analogous to members of the PKC family.</p> <p>PMID:17496910, PMID:16488589, PMID:17496910</p> <p>DAG remains in the inner layer of the plasma membrane. It recruits Protein Kinase C (PKC) ??? a calcium-dependent kinase that phosphorylates many other proteins that bring about the changes in the cell.</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="7939.56" y="19034.5"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa273_mpk1_mpk1_sa273"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="61.0" h="38.0" x="7898.06" y="19043.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa318_an_sa318" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Cell proliferation, vasopermeability"/> <bbox w="220.0" h="35.0" x="5722.0" y="6997.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa490_rc_sa490" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa490_rc_sa490"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGFBP1"/> <bbox w="90.0" h="25.0" x="21163.06" y="16010.5"/> <glyph class="unit of information" id="_dac1cbf2-ebe5-40d7-a2aa-4b4157e35c8a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21198.06" y="16005.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1314_in_sa1314" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL18"/> <bbox w="70.0" h="25.0" x="21631.25" y="5222.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa162_emtc_em_csa162" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2:p53*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:12667443</p> <p>Fraction of induced p53 translocates to the mitochondria of apoptosing tumor cells. Targeting p53 to mitochondria is sufficient to launch apoptosis.</p> <p>p53 protein can directly induce permeabilization of the outer mitochondrial membrane by forming complexes with the protective BCL2L1 and BCL2 proteins, resulting in cytochrome c release.</p> <p>PMID:14963330</p> <p>In other hand, cytosolic localization of endogenous p53 was necessary and sufficient for apoptosis. p53 directly activated the pro-apoptotic BCL2 protein Bax in the absence of other proteins to permeabilize mitochondria and engage the apoptotic program.</p> <p>Binding of BCL2 or BCL2L1 to TP53 therefore antagonizes the activation of BAX via binding to TP53. Like this BCL2 and BCL2L1 also perform their anti-apoptotic effect.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa162_emtc_em_csa162"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12667443"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14963330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2/TP53"/> <bbox w="103.0" h="43.0" x="4908.0" y="13545.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa915_emtc_em_sa915"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2, HGNC:990, ENTREZ:596, UNIPROT:P10415, GENECARDS:GC18M060763</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:23064052</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers.</p> <p>PMID:11704864</p> <p>Transcriptional regulation of bcl-2 by nuclear factor kappa B and its significance in prostate cancer.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="37.0" h="16.0" x="4916.5" y="13549.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa914_emtc_em_sa914"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53 </p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:P04637, GENECARDS:GC17M007565</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21518799</p> <p>p53 activates MIR200C</p> <p>PMID:21483453</p> <p>p53 activates microRNAs</p> <p>PMID:21336307</p> <p>p53 activates MIR34</p> <p>PMID:17823410</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="p53*"/> <bbox w="37.0" h="16.0" x="4960.5" y="13550.892"/> <glyph class="state variable" id="_d935d7c4-271e-46e1-8000-7d8f62a52fa5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4992.5" y="13550.578"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2743_rc_sa2743" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2743_rc_sa2743"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TY"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TY"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TY"/> <bbox w="90.0" h="25.0" x="21388.31" y="14829.5"/> <glyph class="unit of information" id="_4531f784-3567-4f82-8b89-6d8765faeae6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21423.31" y="14824.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4818_rc_sa4818" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:28747251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4818_rc_sa4818"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+ homeostasis"/> <bbox w="130.0" h="35.0" x="25884.06" y="13681.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2857_rc_sa2857" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2857_rc_sa2857"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR449*"/> <bbox w="90.0" h="25.0" x="21447.56" y="15637.0"/> <glyph class="unit of information" id="_d45f6a7c-c398-49bb-88c8-9859e8f9e8f3"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21477.56" y="15632.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa931_ce_sa931" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa931_ce_sa931"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC20"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC20"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC20"/> <bbox w="90.0" h="25.0" x="15248.269" y="9755.848"/> <glyph class="unit of information" id="_f1df4d5e-71ad-458f-9a02-b3f73925df76"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15283.269" y="9750.848"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4685_rc_sa4685" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4685_rc_sa4685"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR376B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR376B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR376B"/> <bbox w="90.0" h="25.0" x="24428.06" y="15635.5"/> <glyph class="unit of information" id="_7881c24f-c666-4ae9-843b-58e19eb77da9"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24458.06" y="15630.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1996_rc_sa1996" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16526 KEGGCOMPOUND:C00011 CAS:124-38-9</p> <p>References:</p> <p>synonym:carbon dioxide</p> <p>charge:0</p> </body> </html> </notes> <label text="CO2"/> <clone/> <bbox w="70.0" h="25.0" x="18778.31" y="14631.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1996_rc_sa142" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16526 KEGGCOMPOUND:C00011 CAS:124-38-9</p> <p>References:</p> <p>synonym:carbon dioxide</p> <p>charge:0</p> </body> </html> </notes> <label text="CO2"/> <clone/> <bbox w="70.0" h="25.0" x="18319.31" y="14784.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1996_rc_sa134" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16526 KEGGCOMPOUND:C00011 CAS:124-38-9</p> <p>References:</p> <p>synonym:carbon dioxide</p> <p>charge:0</p> </body> </html> </notes> <label text="CO2"/> <clone/> <bbox w="70.0" h="25.0" x="18603.81" y="14728.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1996_rc_sa205" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16526 KEGGCOMPOUND:C00011 CAS:124-38-9</p> <p>References:</p> <p>synonym:carbon dioxide</p> <p>charge:0</p> </body> </html> </notes> <label text="CO2"/> <clone/> <bbox w="70.0" h="25.0" x="19169.283" y="14687.056"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa199_emtc_em_csa199" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caveolin1*:Claudin2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Caveolin 1*/Claudin 2*"/> <bbox w="139.0" h="44.0" x="1968.0" y="15435.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1279_emtc_em_sa1279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caveolin 1, caveolae protein, 22kDa</p> <p>HUGO:CAV1, HGNC:1527, ENTREZ:857, UNIPROT:Q03135, GENECARDS:GC07P116164  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:22671595</p> <p>Caveolin-1 is an endocytic scaffolding protein</p> <p>It binds independently to claudin-2 and occludin (co-immunoprecipitation assays).</p> <p>The finding that caveolin-1 interacts with claudin-2 and occludin, but notwith claudin-4 or ZO-1, suggests a potential mechanism for selective retrieval of tight junction components.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Caveolin1*"/> <bbox w="68.0" h="19.0" x="1970.5" y="15436.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1280_emtc_em_sa1280"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 2</p> <p>HUGO:CLDN2, HGNC:2041, ENTREZ:9075, UNIPROT:P57739, GENECARDS:GC0XP106163</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin2*"/> <bbox w="64.0" h="19.0" x="2039.5" y="15437.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa7_wnc1_wnc2_csa7" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPP3CB_sub_trunc_endsub_*:PPP3R*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> <p>s_wnc2_re9(MAP:survival):</p> <p>Calcineurin can be proteolysed which results in a truncated form of the catalytic subunit A. The truncated form is constitutively active and irreversible and does not require calcium and calmodulin for activation.</p> <p>PMID:17593948, PMID:14627704</p> <p>s_wnc2_re26:(MAP:survival) PMID:15036616, PMID:14741051</p> <p>s_wnc2_re66:(MAP:survival) PMID:11796223</p> <p>s_wnc2_re77:(MAP:survival) PMID:16648474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa7_wnc1_wnc2_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15036616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14741051"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11796223"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16648474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPP3CBtrunc*:PPP3R*"/> <bbox w="100.0" h="120.0" x="17821.06" y="18182.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa30_wnc1_wnc2_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="17831.06" y="18191.0"/> <glyph class="unit of information" id="_c9c42a2d-4b4d-471e-8c48-ab30e063efad"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="17846.06" y="18186.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa31_wnc1_wnc2_sa31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="17831.06" y="18234.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2801_in_sa2801" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NGF"/> <bbox w="80.0" h="40.0" x="12410.0" y="7720.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa47_ca_sa47" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa47_ca_sa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="5951.0" y="1840.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2809_in_sa2809" compartmentRef="s_id_in_ca48_in_ca48"> <label text="CXCL6"/> <bbox w="80.0" h="40.0" x="13517.0" y="1055.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2601_rc_sa2601" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="H2O2"/> <clone/> <bbox w="70.0" h="25.0" x="26836.06" y="9598.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2601_rc_sa3373" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="H2O2"/> <clone/> <bbox w="70.0" h="25.0" x="21194.06" y="12566.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2601_rc_sa3257" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="H2O2"/> <clone/> <bbox w="70.0" h="25.0" x="24444.06" y="10696.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2601_rc_sa2271" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="H2O2"/> <clone/> <bbox w="70.0" h="25.0" x="29243.06" y="10495.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2601_rc_sa3333" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="H2O2"/> <clone/> <bbox w="70.0" h="25.0" x="22900.06" y="11274.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2601_ca_sa1059" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="H2O2"/> <clone/> <bbox w="70.0" h="25.0" x="3211.0" y="4418.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2601_rc_sa2264" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="H2O2"/> <clone/> <bbox w="70.0" h="25.0" x="25778.81" y="15586.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2416_in_sa2416"> <label text="PRF1"/> <clone/> <bbox w="80.0" h="40.0" x="17220.0" y="8210.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2416_ad_sa477"> <label text="PRF1"/> <clone/> <bbox w="80.0" h="40.0" x="29356.0" y="8615.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa4481_rc_sa4481" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <label text="rc_s6343"/> <bbox w="30.0" h="30.0" x="29233.56" y="12025.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa527_in_sa527" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PLCG1"/> <bbox w="80.0" h="40.0" x="13630.0" y="3060.0"/> <glyph class="state variable" id="_d3c250ac-716a-4d02-8405-25f23991edf1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13622.5" y="3075.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ce_sa167_ce_sa167" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_sa997_degraded"/> <bbox w="30.0" h="30.0" x="13488.252" y="16096.409"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa443_ad_sa443" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:IL2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21383498</p> <p>IL-2 induces a WAVE2-dependent pathway for actin reorganization that enables WASp-independent human NK cell function.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa443_ad_sa443"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21383498"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASF2"/> <bbox w="80.0" h="40.0" x="30286.0" y="6775.0"/> <glyph class="state variable" id="_778c5df9-3bd6-4fdf-9052-b431608a844b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="30281.0" y="6790.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa54_ca_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:24856586 </p> <p>Depletion of carcinoma-associated fibroblasts and fibrosis induces immunosuppression and accelerates pancreas cancer with reduced survival.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa54_ca_sa54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24856586"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fibrosis"/> <bbox w="170.0" h="70.0" x="5205.0" y="5025.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2627_rc_sa2627" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2627_rc_sa2627"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GCLC"/> <bbox w="90.0" h="25.0" x="25161.56" y="16033.5"/> <glyph class="unit of information" id="_551b8736-f549-46f5-8714-661c4cc6811c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25196.56" y="16028.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa2038_emtc_em_sa2038" compartmentRef="s_id_emtc_em_ca36_emtc_em_ca36"> <label text="Proteasomal degradation of I-SMAD*"/> <bbox w="30.0" h="30.0" x="4125.0" y="13838.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa6_wnc1_wnc3_csa6" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERE:ER_alpha_*:FOXA*:NFAT*:estrogen</p> <p>References:</p> <p>s_wnc3_re10:(MAP:survival) PMID:22275375, PMID:15657064, PMID:16396959, PMID:16998587</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa6_wnc1_wnc3_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22275375"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15657064"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396959"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16998587"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERE:ERα*:FOXA*:NFAT*:estrogen"/> <bbox w="102.0" h="218.0" x="15620.061" y="20743.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa45_wnc1_wnc3_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box A1</p> <p>"hepatocyte nuclear factor 3, alpha", HNF3A</p> <p>HUGO:FOXA1 HGNC:5021 ENTREZ:3169 UNIPROT:P55317 GENECARDS:FOXA1 KEGG:3169 ATLASONC:FOXA1ID44403ch14q21 WIKI:FOXA1 </p> <p>forkhead box A2 </p> <p>HUGO:FOXA2 HGNC:5022 ENTREZ:3170 UNIPROT:Q9Y261 GENECARDS:FOXA2 REACTOME:56610 KEGG:3170 ATLASONC:GC_FOXA2 WIKI:FOXA2 </p> <p>forkhead box A3 </p> <p>HUGO:FOXA3 HGNC:5023 ENTREZ:3171 UNIPROT:P55318 GENECARDS:FOXA3 REACTOME:56612 KEGG:3171 ATLASONC:GC_FOXA3 WIKI:FOXA3</p> <p>Map modules:</p> </body> </html> </notes> <label text="FOXA*"/> <bbox w="80.0" h="40.0" x="15632.561" y="20841.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa48_wnc1_wnc3_sa48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. 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variable="S289"/> <bbox w="30.0" h="10.0" x="15631.217" y="20919.0"/> </glyph> <glyph class="state variable" id="_26de8493-13c6-45c2-af11-149359366379"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="15651.417" y="20919.0"/> </glyph> <glyph class="state variable" id="_d27fc374-7937-4393-af2b-bf2e690596ba"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15667.561" y="20919.0"/> </glyph> <glyph class="state variable" id="_7582c8fd-e23f-45da-ab30-139cfb52e1de"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15650.992" y="20919.0"/> </glyph> <glyph class="state variable" id="_273341c5-9e62-45ec-8590-3960161f1604"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15627.564" y="20919.0"/> </glyph> <glyph class="state variable" id="_1bacc625-561b-48f1-9896-b9387f5ebb4b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15627.561" y="20899.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa40_wnc1_wnc3_sa40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epiregulin</p> <p>HUGO:EREG HGNC:3443 ENTREZ:2069 UNIPROT:O14944 GENECARDS:EREG REACTOME:54432 KEGG:2069 ATLASONC:GC_EREG WIKI:EREG</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>epiregulin</p> <p>HUGO:EREG HGNC:3443 ENTREZ:2069 UNIPROT:O14944 GENECARDS:EREG REACTOME:54432 KEGG:2069 ATLASONC:GC_EREG WIKI:EREG</p> <p>Map modules:</p> </body> </html> </notes> <label text="ERE"/> <bbox w="70.0" h="25.0" x="15636.561" y="20811.25"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa39_wnc1_wnc3_sa39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>estrogen receptor 1</p> <p>Era, NR3A1</p> <p>HUGO:ESR1 HGNC:3467 ENTREZ:2099 UNIPROT:P03372 GENECARDS:ESR1 REACTOME:69672 KEGG:2099 ATLASONC:GC_ESR1 WIKI:ESR1 </p> <p>estrogen receptor 2 (ER beta)</p> <p>HUGO:ESR2 HGNC:3468 ENTREZ:2100 UNIPROT:Q92731 GENECARDS:ESR2 REACTOME:54472 KEGG:2100 ATLASONC:ESR2ID40500ch14q23 WIKI:ESR2</p> <p>Map modules:</p> </body> </html> </notes> <label text="ERα*"/> <bbox w="80.0" h="50.0" x="15631.561" y="20761.75"/> <glyph class="unit of information" id="_cf5f1ee8-b07a-45f7-b6bf-3df810be2f81"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15649.061" y="20756.75"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc3_sa41_wnc1_wnc3_sa41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="estrogen"/> <bbox w="70.0" h="25.0" x="15636.561" y="20746.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa805_emtc_em_sa805" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa805_emtc_em_sa805"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2"/> <bbox w="40.0" h="20.0" x="1582.969" y="18707.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3249_rc_sa3249" compartmentRef="s_id_rc_ca14_rc_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17621</p> </body> </html> </notes> <label text="FMN"/> <bbox w="70.0" h="25.0" x="23687.06" y="9701.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2353_in_sa2353" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ID3"/> <bbox w="70.0" h="25.0" x="12266.0" y="4344.375"/> </glyph> <glyph class="complex" id="s_id_ce_csa48_ce_csa48" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:XAB2:XPA</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="XAB2/XPA"/> <bbox w="98.0" h="112.0" x="8221.473" y="15693.356"/> <glyph class="macromolecule" id="s_id_ce_sa586_ce_sa586"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XPA binding protein 2</p> <p>HUGO:XAB2, HGNC:14089, ENTREZ:56949, UNIPROT:Q9HCS7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XAB2"/> <bbox w="80.0" h="40.0" x="8233.473" y="15703.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa587_ce_sa587"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>xeroderma pigmentosum, complementation group A</p> <p>HUGO:XPA, HGNC:12814, ENTREZ:7507, UNIPROT:P23025</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470 PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPA"/> <bbox w="80.0" h="40.0" x="8234.294" y="15741.928"/> <glyph class="state variable" id="_1046f577-cfa4-4f16-b3d4-f043d3cf5062"> <state value="P" variable="S196"/> <bbox w="35.0" h="10.0" x="8216.794" y="15748.435"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa369_mpk1_mpk1_sa369" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa369_mpk1_mpk1_sa369"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="9768.557" y="18832.0"/> <glyph class="unit of information" id="_ee67d908-493c-480c-ab95-6287cad68676"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9781.057" y="18827.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1824_in_sa1824" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL15RA"/> <bbox w="70.0" h="25.0" x="23510.0" y="3687.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa90_rc_csa90" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1"/> <bbox w="93.0" h="151.0" x="26552.56" y="11678.5"/> <glyph class="macromolecule" id="s_id_rc_sa1106_rc_sa1106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="26559.56" y="11768.5"/> <glyph class="state variable" id="_18aecbc5-ef1e-44d8-9309-9a0ba03bf51d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26575.492" y="11803.5"/> </glyph> <glyph class="state variable" id="_cdd57b59-26f1-43ac-9ec3-c7ac75ea88a0"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="26601.51" y="11763.5"/> </glyph> <glyph class="state variable" id="_068b2e18-903a-4258-9594-035856295466"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="26568.156" y="11763.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1105_rc_sa1105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="26559.56" y="11726.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1107_rc_sa1107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="26559.56" y="11684.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa437_wca1_wca3_sa437" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Cell cycle or growth effect stimulate complex formation</p> <p>PMID:11972058</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa437_wca1_wca3_sa437"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11972058"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell cycle pathway"/> <clone/> <bbox w="80.0" h="30.0" x="22833.06" y="22455.0"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa437_wca1_wca3_sa232" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Cell cycle or growth effect stimulate complex formation</p> <p>PMID:11972058</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa437_wca1_wca3_sa232"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11972058"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell cycle pathway"/> <clone/> <bbox w="80.0" h="30.0" x="20663.06" y="20856.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa204_rc_csa204" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BBC3:BCL2</p> </body> </html> </notes> <label text="BBC3:BCL2"/> <bbox w="106.0" h="120.0" x="22193.31" y="13119.0"/> <glyph class="macromolecule" id="s_id_rc_sa1653_rc_sa1653"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>synonym:PUMA</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="80.0" h="40.0" x="22203.31" y="13128.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1652_rc_sa1652"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="22204.31" y="13178.0"/> <glyph class="state variable" id="_9964e265-23f6-4cef-bbcd-b43dc543a83a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22255.879" y="13173.0"/> </glyph> <glyph class="state variable" id="_e658b824-fac8-41fa-ab7f-c6a65995ae46"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22199.31" y="13193.0"/> </glyph> <glyph class="state variable" id="_6d5145ba-5e20-4f91-8185-d7f4d4679eab"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22222.742" y="13173.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1043_ce_sa1043" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1043_ce_sa1043"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BUB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BUB1"/> <bbox w="80.0" h="40.0" x="11405.77" y="13650.5"/> <glyph class="state variable" id="_c53c0e9f-6650-4562-b686-b78442ef6d53"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11411.821" y="13645.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa8_akt1_akt1_csa8" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PDPK1:PI3,4,5-P3</p> <p>References:</p> <p>s_akt1_re7(MAP:survival):</p> <p>PMID:18802401</p> <p>PMID:17680028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa8_akt1_akt1_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18802401"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17680028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PIP3/PDK1)"/> <bbox w="88.0" h="118.0" x="12776.061" y="17716.5"/> <glyph class="simple chemical" id="s_id_akt1_akt1_sa34_akt1_akt1_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-3,4,5-triphosphate</p> <p>CAS:N/A PUBCHEM:8260 CHEBI:16618 KEGGCOMPOUND:C05981</p> <p>Map modules:</p> </body> </html> </notes> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="12786.811" y="17726.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa37_akt1_akt1_sa37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>3-phosphoinositide dependent protein kinase-1</p> <p>HUGO:PDPK1 HGNC:8816 ENTREZ:5170 UNIPROT:O15530 GENECARDS:PDPK1 REACTOME:61460 KEGG:5170 ATLASONC:GC_PDPK1 WIKI:PDPK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18802401</p> </body> </html> </notes> <label text="PDPK1"/> <bbox w="80.0" h="40.0" x="12781.561" y="17759.5"/> <glyph class="state variable" id="_071be8b4-565b-430a-a8a5-2c902cb887f6"> <state value="P" variable="S241"/> <bbox w="35.0" h="10.0" x="12803.965" y="17794.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1605_ce_sa1605" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<glyph class="nucleic acid feature" id="s_id_rc_sa2730_rc_sa2730" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2730_rc_sa2730"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ND2"/> <bbox w="90.0" h="25.0" x="20420.06" y="15076.5"/> <glyph class="unit of information" id="_f888b52b-2d31-4395-9950-a2b773d28742"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20455.06" y="15071.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa901_in_sa901" compartmentRef="s_id_in_ca13_in_ca13"> <label text="TGFBR2"/> <bbox w="80.0" h="50.0" x="9760.0" y="1520.0"/> <glyph class="unit of information" id="_9ffc8abd-b94a-42b8-9527-29bcffbd724c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9777.5" y="1515.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa207_rc_csa207" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2:cleaved_BID*</p> </body> </html> </notes> <label text="BCL2:tBID"/> <bbox w="98.0" h="125.0" x="21931.31" y="13144.0"/> <glyph class="macromolecule" id="s_id_rc_sa1659_rc_sa1659"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BH3 interacting domain death agonist</p> <p>HUGO:BID HGNC:1050 ENTREZ:637 UNIPROT:P55957</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="cleaved_BID*"/> <bbox w="80.0" h="40.0" x="21939.06" y="13199.0"/> <glyph class="state variable" id="_7d2321f3-9929-49fe-9736-f20eba167a7d"> <state value="My" variable=""/> <bbox w="20.0" h="10.0" x="21953.277" y="13234.0"/> </glyph> <glyph class="unit of information" id="_0d8f9d45-d928-4fec-9aea-2ccbf3d54948"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21954.06" y="13194.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1658_rc_sa1658"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="LGALS3"/> <bbox w="80.0" h="40.0" x="9310.0" y="3640.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa577_ca_sa577" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:INTEGRINPMID:27111285TGFB upregulates ILK protein level in fibroblasts ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:INTEGRINPMID:27111285TGFB upregulates ILK protein level in fibroblasts </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa577_ca_sa577"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ILK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27111285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ILK"/> </rdf:Bag> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4686_rc_sa4686"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR519A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR519A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR519A"/> <bbox w="90.0" h="25.0" x="24504.06" y="15634.5"/> <glyph class="unit of information" id="_da0f01bd-210a-45eb-b7d5-9877c59ea66f"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24534.06" y="15629.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1614_ce_sa1614" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:DNA_REPAIR MODULE:HR MODULE:FANCONI MODULE:TLS References:Node_Type:GenericPMID:23892398 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:DNA_REPAIR MODULE:HR MODULE:FANCONI MODULE:TLS References:Node_Type:GenericPMID:23892398 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1614_ce_sa1614"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Interstrand_crosslinks_ICL*"/> <bbox w="241.0" h="26.0" x="12028.27" y="15009.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa108_ca_csa108" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LAP:LTBP*:TGFB*</p> <p>References:</p> <p>PMID:26519775; PMID:18086923; PMID:24309651 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa108_ca_csa108"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18086923"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24309651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text=" Large_Latent_Complex "/> <bbox w="105.0" h="165.0" x="1070.0" y="4692.0"/> <glyph class="macromolecule" id="s_id_ca_sa988_ca_sa988"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 hgnc_id:HGNC:11766 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 </p> <p>transforming growth factor beta 2</p> <p>HUGO:TGFB2 hgnc_id:HGNC:11768 HGNC:11768 ENTREZ:7042 UNIPROT:P61812 </p> <p>transforming growth factor beta 3</p> <p>HUGO:TGFB3 hgnc_id:HGNC:11769 HGNC:11769 ENTREZ:7043 UNIPROT:P10600</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TNF</p> <p>PMID:21098712 </p> <p>Cancer TGFB exosomes trigger fibroblast to myofibroblast differentiation</p> <p>PMID:15653932 </p> <p>Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. Western blot analysis showed that TNF-α activated the extracellular signal–regulated kinase (ERK), and inhibitors of the ERK-specific mitogen-activated protein kinase pathway (PD98059 or U0126) blocked TNF-α induction of TGF-β1</p> <p>PMID:23784029, PMID:16572188, PMID:8515656</p> <p>TGF-β1 treatment successfully transformed primary resting fibroblasts into CAFs</p> <p>PMID:19038247 </p> <p>TGFbeta induces fibroblast collagen biosynthesis downstream of CCL7 and via SMAD3.</p> <p>Thus, ERK, a MAPK family member, phosphorylates serine residues in the linker regions of Smad1–3 and ERK inhibition reduces TGFβ-stimulated Smad phosphorylation as well as collagen biosynthesis, suggesting that ERK activation is necessary for an optimal response to TGFβ [9]. Similarly, p38 MAPK has been shown to be central to TGFβ mediated-collagen and fibronectin expression in SSc fibroblasts [10].</p> <p>PMID:19747910</p> <p>Through paracrine signaling molecules, TGF-beta and IL-1beta, cancer cells activate stromal fibroblasts and induce the expression of fibroblast activation protein (FAP). FAP, in turn, affects the proliferation, invasion and migration of the cancer cells. We report that TGF-beta and IL-1beta are important factors in inducing differentiation of myofibroblasts and expression of functional markers, notably alpha-SMA.</p> <p>PMID:18423981 </p> <p>Differential impact of TGF-beta and EGF on fibroblast differentiation and invasion reciprocally promotes colon cancer cell invasion.</p> <p>PMID:23034983 </p> <p>Inhibition of TGF-beta/Smad signaling by BAMBI blocks differentiation of human mesenchymal stem cells to carcinoma-associated fibroblasts and abolishes their protumor effects</p> <p>PMID:21041659 </p> <p>Autocrine TGF-beta and stromal cell-derived factor-1 (SDF-1) signaling drives the evolution of tumor-promoting mammary stromal myofibroblasts</p> <p>PMID:17768418</p> <p>TGFbeta is responsible for skin tumour infiltration by macrophages enabling the tumours to escape immune destruction.</p> <p>TGFbeta-mediated tumour progression was accompanied by an increase in tumour-associated macrophages (TAM) and a decrease in tumour-infiltrating dendritic cells (DCs). </p> <p>???</p> <p>both TGF-β1 and TGF-β2 are up-regulated in CAFs</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling</p> <p>PMID:15003992 </p> <p> TGF-β-mediated myofibroblast differentiation and proliferation of the NRK fibroblasts are mutually exclusive responses to TGF-β. Differentiation into myofibroblasts appears to be the default pathway whereas proliferation becomes the dominant and sole response when both TGF-β and EGF are present.</p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>PMID:17979848</p> <p>TGF-β promotes the generation and function of Treg cells</p> <p>TGF-β is able to convert CD4+CD25− non-Treg cells into CD4+CD25+ Treg cells, and this conversion was accompanied with increased Foxp3 expression</p> <p>PMID:26201938 </p> <p>The expression levels of cytokine genes, including those for IL6, CXCL8, TNF, TGFB1, and VEGFA, were higher in CAFs. T cell proliferation was suppressed more by CAFs or their supernatants than by NFs.</p> <p>PMID:22874531</p> <p>TGFB treatment induces the autophagy-mediated downregulation of Cav-1 in fibroblasts.</p> </body> </html> </notes> <label text="TGFB*"/> <bbox w="80.0" h="40.0" x="1085.0" y="4782.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa986_ca_sa986"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1 hgnc_id:HGNC:6714 HGNC:6714 ENTREZ:4052 UNIPROT:Q14766 </p> <p>latent transforming growth factor beta binding protein 2</p> <p>HUGO:LTBP2 hgnc_id:HGNC:6715 HGNC:6715 ENTREZ:4053 UNIPROT:Q14767 </p> <p>latent transforming growth factor beta binding protein 3</p> <p>HUGO:LTBP3 hgnc_id:HGNC:6716 HGNC:6716 ENTREZ:4054 UNIPROT:Q9NS15 </p> <p>latent transforming growth factor beta binding protein 4</p> <p>HUGO:LTBP4 hgnc_id:HGNC:6717 HGNC:6717 ENTREZ:8425 UNIPROT:Q8N2S1</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE TGFB</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <label text="LTBP*"/> <bbox w="80.0" h="40.0" x="1085.0" y="4702.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa987_ca_sa987"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGFB induced factor homeobox 1</p> <p>HUGO:TGIF1 hgnc_id:HGNC:11776 HGNC:11776 ENTREZ:7050 UNIPROT:Q15583</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <label text="LAP"/> <bbox w="80.0" h="40.0" x="1085.0" y="4742.0"/> <glyph class="unit of information" id="_ed038c28-183f-45ce-ac7c-bf4f75dcb79d"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1100.0" y="4737.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5008_rc_sa5008" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="_798c5ff3-a9d8-41cb-864e-1d12f5ab771c"> <state value="" variable="S844"/> <bbox w="30.0" h="10.0" x="27418.156" y="21288.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa100_shh1_shh2_sa100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="27400.56" y="21196.75"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa897_ca_sa897" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:22964023 miR-221-5p is upregulated in CAFS and , miR-141, miR-200b, miR-101-3p are downregulatedTGF-β, IL-6 and RPS6KB1 are predicted as targets for miR-200b/c, IL-6, GRB2 are predicted as targets for miR-141 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:22964023 miR-221-5p is upregulated in CAFS and , miR-141, miR-200b, miR-101-3p are downregulatedTGF-β, IL-6 and RPS6KB1 are predicted as targets for miR-200b/c, IL-6, GRB2 are predicted as targets for miR-141 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa897_ca_sa897"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22964023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2394_emtc_em_sa2394"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT6"/> <bbox w="50.0" h="19.0" x="5812.5" y="13817.0"/> <glyph class="state variable" id="_02d6819d-baae-496c-88e7-362cc72e962f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5855.0" y="13821.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2810_rc_sa2810" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15713</p> </body> </html> </notes> <label 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</annotation> </extension> <label text="IL4/IL13_receptor- TYPE 2:IL13"/> <bbox w="100.0" h="180.0" x="9020.0" y="4485.2188"/> <glyph class="macromolecule" id="s_id_in_sa2352_in_sa2352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:MDSC, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:IL13</p> <p>References:</p> <p>PMID:12401408</p> <p>IL13 is assosiated with M2 phenotype of macrophages</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:14610620</p> <p>Other receptor of IL13 is IL13RA2</p> <p>PMID:18451175, PMID:14657224</p> <p>IL13 signaling via IL13RA2 induces TGFB production in MDSC.</p> <p>PMID:18250477</p> <p>IL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:21097505</p> <p>IL-13 upregulates expression of SOCS1</p> <p>PMID:9535722</p> <p>IL13 induces phosporylation of IRS2 and PLCG1 which is probably a PLC responsible for downstream IL13 dependent Ca2+ mobilization signaling and assosiation of IRS2 and PLCG1</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13"/> <bbox w="80.0" h="40.0" x="9030.0" y="4495.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2346_in_sa2346"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) 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class="nucleic acid feature" id="s_id_mo_sa92_mo_sa92" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Cytokeratin* ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Cytokeratin* </body> </html> </notes> <label text="KRT*"/> <bbox w="70.0" h="25.0" x="2340.0" y="10359.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa138_ca_sa138" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa138_ca_sa138"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL7"/> <bbox w="80.0" h="40.0" x="920.0" y="4080.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1093_rc_sa1093" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1093_rc_sa1093"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="26885.559" y="10638.326"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa872_ad_sa872" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.CELL:TREG PMID:15032588CD25 is a marker of TREGPMID:16799562 Thymic generation of Treg cells requires TAK1Foxp3 and Cd25 mRNA was also much lower in TAK1-deficient CD4 SP thymocytes, indicating that the reduced Foxp3 and CD25 were a result of decreased expression of their mRNA ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.CELL:TREG PMID:15032588CD25 is a marker of TREGPMID:16799562 Thymic generation of Treg cells requires TAK1Foxp3 and Cd25 mRNA was also much lower in TAK1-deficient CD4 SP thymocytes, indicating that the reduced Foxp3 and CD25 were a result of decreased expression of their mRNA </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa872_ad_sa872"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2RA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10221648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15032588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799562"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2RA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10221648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15032588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799562"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL2RA"/> <bbox w="198.0" h="157.0" x="27818.5" y="8290.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa768_ad_sa768" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa768_ad_sa768"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK*"/> <bbox w="80.0" h="40.0" x="27206.0" y="4835.0"/> <glyph class="state variable" id="_962ea641-9623-4222-9c7a-a9ec5e35e16c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27201.0" y="4849.9683"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1504_in_sa1504"> <label text="HMGB1"/> <bbox w="80.0" h="40.0" x="23410.0" y="1150.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa203_ce_csa203" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC7:DBF4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDC7/DBF4"/> <bbox w="93.0" h="111.0" x="13272.473" y="9760.356"/> <glyph class="macromolecule" id="s_id_ce_sa906_ce_sa906"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 7 homolog (S. cerevisiae)</p> <p>HUGO:CDC7, HGNC:1745, ENTREZ:8317, UNIPROT:O00311</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17018296, </p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC7"/> <bbox w="80.0" h="40.0" x="13280.011" y="9806.385"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa905_ce_sa905"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DBF4 homolog (S. cerevisiae)</p> <p>HUGO:DBF4, HGNC:17364, ENTREZ:10926, UNIPROT:Q9UBU7</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17018296, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="DBF4"/> <bbox w="80.0" h="40.0" x="13277.473" y="9763.356"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa5444_rc_sa5444" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NRLP3 activators</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>The NLRP3 inflammasome is activated in response to a broad variety of pathogen- and</p> <p>danger-related activators : </p> <p>Gram-negative bacteria, Staphylococcus aureus, RNA viruses, poreforming toxins, ionophores, crystals</p> <p>K efflux, Ca2+ signaling, </p> <p>mitochondria-derived reactive oxygen species (ROS), </p> <p>cytosolic release of mitochondrial DNA and cardiolipin, </p> <p>release of lysosomal cathepsins</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5444_rc_sa5444"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRP3 activators"/> <bbox w="110.0" h="25.0" x="28414.06" y="9136.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa111_emtc_em_sa111" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa111_emtc_em_sa111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VIM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VIM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Vimentin*"/> <clone/> <bbox w="80.0" h="20.0" x="5185.0" y="15379.5"/> <glyph class="unit of information" id="_68e66219-b319-45c3-baf4-d68eea0ce169"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5215.0" y="15374.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa111_mo_sa78" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa111_mo_sa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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induced putative kinase 1</p> <p>HUGO:PINK1 HGNC:14581 ENTREZ:65018 UNIPROT:Q9BXM7</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PINK1"/> <bbox w="80.0" h="40.0" x="21268.84" y="15421.471"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4515_rc_sa4515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>parkin RBR E3 ubiquitin protein ligase</p> <p>HUGO:PARK2 HGNC:8607 ENTREZ:5071 UNIPROT:O60260</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PARK2"/> <bbox w="80.0" h="40.0" x="21269.486" y="15373.823"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2739_in_sa2739" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCM"/> <bbox w="80.0" h="40.0" x="16184.268" y="15471.0"/> <glyph class="state variable" id="_822f48cb-e931-4c9d-9155-a97e761f8bd4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16219.268" y="15466.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ad_sa1324_ad_sa1324" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> </body> </html> </notes> <label text="cAMP"/> <bbox w="70.0" h="25.0" x="27151.0" y="3012.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa223_an_sa223" compartmentRef="s_id_an_ca1_an_ca1"> <label text="AGPAT4"/> <bbox w="80.0" h="40.0" x="4749.0" y="6770.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3196_rc_sa3196" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3196_rc_sa3196"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ASK1*"/> <bbox w="80.0" h="40.0" x="22629.06" y="10409.0"/> <glyph class="state variable" id="_82bbfe56-6bcb-492c-ba5e-2bd20928981c"> <state value="oligomer" variable=""/> <bbox w="50.0" h="10.0" x="22644.06" y="10404.0"/> </glyph> <glyph class="state variable" id="_ee825363-b609-4d13-88a2-a1ee8c62fe18"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22680.629" y="10404.0"/> </glyph> <glyph class="state variable" id="_99b7c666-6156-4ed6-8640-b68d8bf5163c"> <state value="" variable="S967"/> <bbox w="30.0" h="10.0" x="22637.656" y="10404.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa87_ad_csa87" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:NK, MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> <p>CASCADE:Fc_gamma_RIII</p> <p>PMID:8551221 </p> <p>CD16 and IL-2R Triggering Activate p21RAS in Human NK Cells via LAT/SHC/GRB2/sos pathway.</p> <p>Phosphorylated Shc interacts with Grb2, which, in turn, interacts with Sos.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa87_ad_csa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8551221"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s1849"/> <bbox w="100.0" h="120.0" x="27706.0" y="4416.0"/> <glyph class="simple chemical" id="s_id_ad_sa784_ad_sa784"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="27721.0" y="4473.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa785_ad_sa785"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HRAS</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:16102570; PMID:9846483</p> <p> "LAT signalosome" links the TCR to the main intracellular signalling pathways that regulate T-cell development and T-cell function.</p> <p>In T cells, the functional coupling between LAT and Ras occurs mainly through an SLP‐76‐PLC‐γ1‐RasGRP1 pathway, and secondarily via a Grb2‐Sos axis</p> <p>PMID:7510700</p> <p>A complex of Grb2 adaptor protein, Sos exchange factor, and a 36-kDa membrane-bound tyrosine phosphoprotein is implicated in ras activation in T cells.</p> <p>PMID:24027568 </p> <p>Ras·GTP is a potent signaling hub, connecting to many downstream effector molecules like RAF, PI3K, and RalGDS. The best-characterized signaling cascade is the Ras·GTP-RAF-MEK-ERK pathway</p> <p>The physiological significance of biochemical signals transduced by an intact Ras-RAF-MEK-ERK pathway in lymphocytes was subsequently shown through transgenic expression of mutant Ras- and MEK-alleles in thymocytes;</p> <p>PMID:14764585 </p> </body> </html> </notes> <label text="HRAS"/> <bbox w="80.0" h="40.0" x="27716.0" y="4426.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2360_emtc_em_sa2360" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2360_emtc_em_sa2360"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR4"/> <bbox w="80.0" h="50.0" x="2334.5" y="12608.5"/> <glyph class="unit of information" id="_4298848f-fe7c-42fa-9daf-6a2c0e077e43"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2352.0" y="12603.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4105_rc_sa4105" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4105_rc_sa4105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NGFR"/> <bbox w="80.0" h="50.0" x="21269.06" y="9154.0"/> <glyph class="unit of information" id="_9f6912ed-ea86-4e5d-bb57-7cddf6ac3cf3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21286.56" y="9149.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa106_emtc_em_csa106" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAL:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21270398</p> <p>The aLb2 integrin (so-called LFA-1) is important for the adhesion of T cells and NK (natural killer) cells to target cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa106_emtc_em_csa106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21270398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aLb2*"/> <bbox w="41.0" h="60.0" x="4924.443" y="18485.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa646_emtc_em_sa646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha L (antigen CD11A (p180), lymphocyte function-associated antigen 1; alpha polypeptide)</p> <p>CD11A</p> <p>HUGO:ITGAL HGNC:6148 ENTREZ:3683 UNIPROT:P20701</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAL"/> <bbox w="40.0" h="20.0" x="4924.53" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa647_emtc_em_sa647"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4924.617" y="18508.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa98_in_sa98" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CD1*"/> <bbox w="90.0" h="25.0" x="22745.0" y="6127.5"/> <glyph class="unit of information" id="_a6881428-615d-468e-8974-729bb189b178"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22780.0" y="6122.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa692_ca_sa692" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Actomyosin_contractility"/> <bbox w="230.0" h="55.0" x="6605.0" y="4762.5"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa42_mo_sa42" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Adherens junctions"/> <clone/> <bbox w="123.0" h="42.0" x="2751.75" y="10015.25"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa42_emtc_em_sa46" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Adherens junctions"/> <clone/> <bbox w="130.0" h="20.0" x="1215.0" y="15776.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa349_mo_sa349" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Interleukin 4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa349_mo_sa349"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL-4*"/> <bbox w="80.0" h="40.0" x="5535.0" y="11129.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa172_shh1_shh1_sa172" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa172_shh1_shh1_sa172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA*"/> <clone/> <bbox w="80.0" h="40.0" x="26464.56" y="18013.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa172_shh1_shh1_sa167" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa172_shh1_shh1_sa167"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA*"/> <clone/> <bbox w="80.0" h="40.0" x="26650.56" y="18013.0"/> </glyph> <glyph class="source and sink" id="s_id_ce_sa333_ce_sa333" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_sa8_degraded"/> <bbox w="30.0" h="30.0" x="12129.0" y="9633.375"/> </glyph> <glyph class="complex" id="s_id_rc_csa434_rc_csa434" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NADE*:NGF:NGFR:NRAGE*:NRIF*</p> <p>References:</p> <p>15548667</p> <p>15721744</p> <p>p75NTR interactors NT-receptor interacting factor (NRIF), NT-associated cell death executor (NADE), NT-receptor-interacting MAGE homolog (NRAGE) and TNF receptor-associated factors (TRAFs) have, alone or in combination, been shown to activate JNK and promote p75NTR-dependent apoptosis</p> <p>14673001</p> <p>Apoptosis induced by p75NTR overexpression requires Jun kinase-dependent phosphorylation of Bad.</p> </body> </html> </notes> <label text="NGF:NGFR:NRAGE*:NRIF*:NADE*"/> <bbox w="108.0" h="290.0" x="21421.56" y="9079.0"/> <glyph class="macromolecule" id="s_id_rc_sa4215_rc_sa4216"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nerve growth factor receptor</p> <p>HUGO:NGFR HGNC:7809 ENTREZ:4804 UNIPROT:P08138</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:22465479</p> <p>PMID:15721744</p> </body> </html> </notes> <label text="NGFR"/> <bbox w="80.0" h="50.0" x="21441.56" y="9144.0"/> <glyph class="unit of information" id="_c61ba355-8775-49e8-804f-b39df80bc33b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21459.06" y="9139.0"/> </glyph> </glyph> 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variable="K160"/> <bbox w="30.0" h="10.0" x="19188.133" y="10434.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ce_sa1539_ce_sa1539" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR, MODULE:NER</p> <p>References:</p> <p>PMID:23055259</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>NAME:CHD3_4*:GATAD2A_B*:HDAC1_2*:MBD2_3*:MTA1_2_3*:RBBP4_7*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>ATP-dependent chromatin-remodeling complex</p> <p>PMID:19923891 PMID:22290435 PMID:21734722</p> <p>s_wca3_re44(MAP:survival):</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> <p>SWI/SNF</p> <p>s_wca3_re65(MAP:survival):</p> <p>PMID:22761862</p> <p>Smad1 alone inhibits myc expression while b-catenin/TCF4 activates gene expression. Highest gene expression obtained when SMAD1/b-catenin/TCF4 complex is formed</p> <p>PMID:15576399</p> <p>s_wca3_re116(MAP:survival):</p> <p>Swi/SNF complex </p> <p>NuRD complex:</p> <p>b-catenin/CTBP/Hipk2/LEF1 complex</p> <p>PMID:17666529</p> <p>s_wca3_re133(MAP:survival):</p> <p>MTA1 HDAC2 were shown together with NuRD to bind to six3-promoter region.</p> <p>PMID:20682799</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa60_wca1_wca3_csa60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19923891"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21734722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15576399"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17666529"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20682799"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Mi-2/NuRD)"/> <bbox w="182.0" h="171.0" x="21845.06" y="22435.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa370_wca1_wca3_sa370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>metastasis associated 1</p> <p>HUGO:MTA1 HGNC:7410 ENTREZ:9112 UNIPROT:Q13330 GENECARDS:MTA1 ATLASONC:MTA1ID41443ch14q32 WIKI:MTA1 </p> <p>metastasis associated 2</p> <p>HUGO:MTA2 HGNC:7411 ENTREZ:9219 UNIPROT:O94776 GENECARDS:MTA2 KEGG:9219 ATLASONC:GC_MTA2 WIKI:MTA2 </p> <p>metastasis associated 3</p> <p>HUGO:MTA3 HGNC:23784 ENTREZ:57504 UNIPROT:Q9BTC8 GENECARDS:MTA3 ATLASONC:MTA3ID41445ch2p21 WIKI:MTA3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>MTA1 and MTA3 have opposing roles in transcripton of SNAI1: MTA1 induces while MTA3 inhibits</p> </body> </html> </notes> <label text="MTA1_2_3*"/> <bbox w="80.0" h="40.0" x="21938.06" y="22493.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa376_wca1_wca3_sa376"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GATA zinc finger domain containing 2A</p> <p>HUGO:GATAD2A HGNC:29989 ENTREZ:54815 UNIPROT:Q86YP4 GENECARDS:GATAD2A KEGG:54815 WIKI:GATAD2A </p> <p>GATA zinc finger domain containing 2B</p> <p>HUGO:GATADB GENECARDS:GATADB WIKI:GATADB</p> <p>Map modules:</p> </body> </html> </notes> <label text="GATAD2A_B*"/> <bbox w="80.0" h="40.0" x="21938.06" y="22537.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa375_wca1_wca3_sa375"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma binding protein 4</p> <p>HUGO:RBBP4 HGNC:9887 ENTREZ:5928 UNIPROT:Q09028 GENECARDS:RBBP4 REACTOME:62836 KEGG:5928 ATLASONC:GC_RBBP4 WIKI:RBBP4 </p> <p>retinoblastoma binding protein 7</p> <p>HUGO:RBBP7 HGNC:9890 ENTREZ:5931 UNIPROT:Q16576 GENECARDS:RBBP7 REACTOME:62840 KEGG:5931 ATLASONC:RBBP7ID42065chXp22 WIKI:RBBP7</p> <p>Map modules:</p> </body> </html> </notes> <label text="RBBP4_7*"/> <bbox w="80.0" h="40.0" x="21855.06" y="22537.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa372_wca1_wca3_sa372"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="21855.06" y="22450.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa374_wca1_wca3_sa374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>methyl-CpG binding domain protein 2</p> <p>HUGO:MBD2 HGNC:6917 ENTREZ:8932 UNIPROT:Q9UBB5 GENECARDS:MBD2 REACTOME:150076 KEGG:8932 ATLASONC:MBD2ID41309ch18q21 WIKI:MBD2 </p> <p>methyl-CpG binding domain protein 3</p> <p>HUGO:MBD3 HGNC:6918 ENTREZ:53615 UNIPROT:O95983 GENECARDS:MBD3 ATLASONC:GC_MBD3 WIKI:MBD3</p> <p>Map modules:</p> </body> </html> </notes> <label text="MBD2_3*"/> <bbox w="80.0" h="40.0" x="21855.06" y="22493.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa371_wca1_wca3_sa371"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromodomain helicase DNA binding protein 3</p> <p>HUGO:CHD3 HGNC:1918 ENTREZ:1107 UNIPROT:Q12873 GENECARDS:CHD3 KEGG:1107 ATLASONC:GC_CHD3 WIKI:CHD3 </p> <p>chromodomain helicase DNA binding protein 4</p> <p>HUGO:CHD4 HGNC:1919 ENTREZ:1108 UNIPROT:Q14839 GENECARDS:CHD4 KEGG:1108 ATLASONC:GC_CHD4 WIKI:CHD4</p> <p>Map modules:</p> </body> </html> </notes> <label text="CHD3_4*"/> <bbox w="80.0" h="40.0" x="21938.06" y="22450.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa454_emtc_em_sa454" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa454_emtc_em_sa454"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin3*"/> <bbox w="60.0" h="16.0" x="1132.0" y="15295.25"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa678_rc_sa678" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa678_rc_sa678"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGLN1"/> <bbox w="70.0" h="25.0" x="23452.537" y="16303.798"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa55_gf1_sa55" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:8621421</p> <p>Grb2- and Shc-SH2 domain binding to phosphopeptides from rat IRS-1</p> <p>PMID:12175651; PMID:10086337 </p> <p>Upon IGF-IR autophosphorylation the protein Shc is recruited to the receptor and becomes phosphorylated on tyrosine residues.36 Activated Shc then binds the adaptor Grb2 in an IRS-1-independent manner, leading to activation of the Ras-ERK pathway.36 This pathway of IGF-IR signaling has been most closely associated with cell differentiation and migration, but in some cases also can regulate the machinery of apoptosis, for example, in detachment-induced death, or anoikis, in fibroblasts.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa55_gf1_sa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8621421"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10086337"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRS*"/> <bbox w="80.0" h="40.0" x="9625.561" y="18259.5"/> <glyph class="state variable" id="_5c651830-4330-48bc-8b34-508bf2d0a012"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9618.061" y="18274.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2406_emtc_em_sa2406" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2406_emtc_em_sa2406"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP2"/> <clone/> <bbox w="61.0" h="17.0" x="2740.0" y="17110.0"/> <glyph class="unit of information" id="_848e67d7-50fc-48d2-aca7-2f2b6e5c2c13"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2760.5" y="17105.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2406_mo_sa160" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2406_mo_sa160"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP2"/> <clone/> <bbox w="90.0" h="25.0" x="4927.0" y="11179.5"/> <glyph class="unit of information" id="_ff901482-42ad-4540-a64a-68366336e74d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4962.0" y="11174.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1744_emtc_em_sa1744" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1744_emtc_em_sa1744"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="1632.5" y="15777.5"/> <glyph class="state variable" id="_40db6462-b7aa-4edf-85a2-c52fcb248279"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="1702.5" y="15773.7295"/> </glyph> <glyph class="state variable" id="_6dd42687-1d7d-4f0f-b160-4f41e316b23e"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="1625.0" y="15773.34"/> </glyph> <glyph class="state variable" id="_89e260f1-a259-46c7-bb29-050b988adbbd"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1704.3818" y="15792.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1744_emtc_em_sa1746" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1744_emtc_em_sa1746"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="1629.5" y="15926.5"/> <glyph class="state variable" id="_3e70353a-bd47-4117-8da6-5b2ac69fe616"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="1699.5" y="15922.7295"/> </glyph> <glyph class="state variable" id="_7e62bb94-351f-4740-93be-86f1847f039d"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="1622.0" y="15922.34"/> </glyph> <glyph class="state variable" id="_263c4ea6-3148-46f8-a0e1-952c5f173afb"> <state 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x="2173.5" y="15389.0"/> <glyph class="state variable" id="_0c60556d-4ea3-4436-a925-ade7e48b5e98"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="2278.5" y="15385.2295"/> </glyph> <glyph class="state variable" id="_c2d77afc-ab31-43b9-8bba-8085b8d3e895"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="2166.0" y="15384.84"/> </glyph> <glyph class="state variable" id="_c8095e7b-8b1d-46b4-ab2b-e91f05eab5fb"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="2280.1113" y="15404.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4185_rc_sa4185" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4185_rc_sa4185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NEDD4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NEDD4"/> <bbox w="80.0" h="40.0" x="20509.06" y="9369.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa38_wnc1_wnc2_csa38" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATROGIN-1*:CUL1:RBX1:SKP1</p> <p>References:</p> <p>s_wnc2_re68:(MAP:survival) PMID:15489953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa38_wnc1_wnc2_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15489953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATROGIN-1*:CUL1:RBX1:SKP1"/> <bbox w="180.0" h="134.0" x="17467.06" y="19457.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa213_wnc1_wnc2_sa213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>F-box protein 32</p> <p>HUGO:FBXO32 HGNC:16731 ENTREZ:114907 UNIPROT:Q969P5 GENECARDS:FBXO32 KEGG:114907 ATLASONC:GC_FBXO32 WIKI:FBXO32</p> <p>Map modules:</p> </body> </html> </notes> <label text="ATROGIN-1*"/> <bbox w="80.0" h="40.0" x="17560.06" y="19512.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa210_wnc1_wnc2_sa210"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>"S-phase kinase-associated protein 1A (p19A)", SKP1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="17476.06" y="19468.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa211_wnc1_wnc2_sa211"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="17476.06" y="19512.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa212_wnc1_wnc2_sa212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="17560.06" y="19468.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa53_shh1_shh2_sa53" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa53_shh1_shh2_sa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXQ1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXQ1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXQ1"/> <bbox w="90.0" h="25.0" x="26604.06" y="20912.5"/> <glyph class="unit of information" id="_bab3174c-7dc8-4e09-8464-908586f2cf19"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="20907.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1015_emtc_em_sa1015" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1015_emtc_em_sa1015"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR3*"/> <bbox w="38.0" h="18.0" x="2960.0" y="14844.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa302_rc_csa302" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FKBP8:GTP:RHEB</p> </body> </html> </notes> <label text="FKBP8:RHEB:GTP"/> <bbox w="100.0" h="145.0" x="26752.56" y="11928.174"/> <glyph class="simple chemical" id="s_id_rc_sa2581_rc_sa2581"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="26767.56" y="12027.674"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2582_rc_sa2582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras homolog enriched in brain</p> <p>HUGO:RHEB HGNC:10011 ENTREZ:6009 UNIPROT:Q15382</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="26762.56" y="11984.174"/> <glyph class="state variable" id="_d3901448-c597-43ee-87ec-8dfe60d01e1c"> <state value="Pr" variable=""/> <bbox w="20.0" h="10.0" x="26775.992" y="11979.174"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2580_rc_sa2580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FK506 binding protein 8, 38kDa</p> <p>HUGO:FKBP8 HGNC:3724 ENTREZ:23770 UNIPROT:Q14318</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="FKBP8"/> <bbox w="80.0" h="40.0" x="26762.56" y="11932.508"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1098_ce_sa1098" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1098_ce_sa1098"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAD1L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAD1*"/> <bbox w="80.0" h="40.0" x="11291.33" y="13606.639"/> <glyph class="state variable" id="_ec124987-89da-4d99-99ea-1ed265daac67"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11296.717" y="13601.639"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2470_in_sa2470" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MAOA"/> <bbox w="70.0" h="25.0" x="14538.594" y="7064.9375"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3640_rc_sa3640" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>vicious cycles of damage favour the opening of the permeability-transition pore complex</p> <p>increasing ROS production as a consequence of energy metabolism</p> <p>PMID:19632174</p> <p>PMID:20823910</p> <p>PMID:18309324</p> <p>PMID:27646922</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3640_rc_sa3640"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19632174"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18309324"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS Production"/> <clone/> <bbox w="110.0" h="25.0" x="20083.56" y="10238.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3640_rc_sa3790" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>vicious cycles of damage favour the opening of the permeability-transition pore complex</p> <p>increasing ROS production as a consequence of energy metabolism</p> <p>PMID:19632174</p> <p>PMID:20823910</p> <p>PMID:18309324</p> <p>PMID:27646922</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3640_rc_sa3790"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19632174"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18309324"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS Production"/> <clone/> <bbox w="98.0" h="30.0" x="19330.31" y="10184.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3640_rc_sa3765" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>vicious cycles of damage favour the opening of the permeability-transition pore complex</p> <p>increasing ROS production as a consequence of energy metabolism</p> <p>PMID:19632174</p> <p>PMID:20823910</p> <p>PMID:18309324</p> <p>PMID:27646922</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3640_rc_sa3765"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19632174"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18309324"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS Production"/> <clone/> <bbox w="118.0" h="40.0" x="23890.31" y="13189.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1851_emtc_em_sa1851" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1851_emtc_em_sa1851"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ETS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ETS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ETS1_WASF3_WAVE3*"/> <bbox w="163.0" h="19.0" x="4206.0" y="16932.361"/> <glyph class="unit of information" id="_c86ba63c-ce5f-41dd-beb2-6c3225a41d6a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4277.5" y="16927.361"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa132_rc_csa132" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:APAF1:Cytochrome_C*:d</p> </body> </html> </notes> <label text="APOPTOSOME"/> <bbox w="230.0" h="150.0" x="24404.06" y="14584.0"/> <glyph class="macromolecule" id="s_id_rc_sa1383_rc_sa1383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24478.12" y="14600.442"/> <glyph class="state variable" id="_3bce5b48-a30b-4f0e-adf5-c1c09a8b69b4"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24490.62" y="14595.442"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1389_rc_sa1395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24472.697" y="14662.442"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3094_rc_sa3094"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="(d)ATP"/> <bbox w="70.0" h="25.0" x="24544.81" y="14607.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1383_rc_sa1384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24488.12" y="14610.442"/> <glyph class="state variable" id="_6de7de87-62c1-41c2-9b05-f7b0bc4dba1a"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24500.62" y="14605.442"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1389_rc_sa1390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24421.697" y="14614.442"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1383_rc_sa1385"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24498.12" y="14620.442"/> <glyph class="state variable" id="_3ad5c40f-836f-4997-b46a-4077a1d2165e"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24510.62" y="14615.442"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1383_rc_sa1387"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24518.12" y="14640.442"/> <glyph class="state variable" id="_2f30c4eb-7db9-414b-bed1-df2102309327"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24530.62" y="14635.442"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1389_rc_sa1389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24412.697" y="14600.442"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1389_rc_sa1392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24438.697" y="14643.442"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1389_rc_sa1391"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24438.697" y="14643.442"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1383_rc_sa1388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24528.12" y="14650.442"/> <glyph class="state variable" id="_ec6ded14-e649-4eb1-bcc7-5b8ebc9dd9ba"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24540.62" y="14645.442"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1383_rc_sa1386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24508.12" y="14630.442"/> <glyph class="state variable" id="_19a6e3be-0fa1-47ad-b073-120af9759ebc"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24520.62" y="14625.442"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1389_rc_sa1394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24438.697" y="14643.442"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1383_rc_sa1396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24538.12" y="14662.442"/> <glyph class="state variable" id="_50f04974-cc8f-4157-8d87-8d63b8e93e76"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24550.62" y="14657.442"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1324_emtc_em_sa1946"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KLF8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KLF8"/> <clone/> <bbox w="34.0" h="17.0" x="3714.0" y="16072.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa692_ad_sa692" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa692_ad_sa692"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="27606.0" y="5225.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1094_in_sa1094" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NCF4"/> <bbox w="80.0" h="40.0" x="14233.594" y="6295.9375"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa296_emtc_em_sa296" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa296_emtc_em_sa296"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA2"/> <clone/> <bbox w="40.0" h="20.0" x="4079.902" y="17842.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa296_mo_sa193" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa296_mo_sa193"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA2"/> <clone/> <bbox w="80.0" h="40.0" x="3782.0" y="11348.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa296_ca_sa614" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa296_ca_sa614"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA2"/> <clone/> <bbox w="80.0" h="40.0" x="6650.0" y="1570.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa108_ce_csa108" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK2:CyclinE*:p107*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycE*/p107*"/> <bbox w="109.0" h="152.0" x="11077.473" y="9158.356"/> <glyph class="macromolecule" id="s_id_ce_sa765_ce_sa765"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma-like 1 (p107)</p> <p>HUGO:RBL1, HGNC:9893, ENTREZ:5933, UNIPROT:P28749</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="p107*"/> <bbox w="80.0" h="40.0" x="11085.473" y="9243.856"/> <glyph class="state variable" id="_7e59e6f8-3f36-464f-aa1a-b705f0204281"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11160.473" y="9255.2705"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa763_ce_sa763"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1, HGNC:1589, ENTREZ:898, UNIPROT:P24864</p> <p>cyclin E2</p> <p>HUGO:CCNE2, HGNC:1590, ENTREZ:9134, UNIPROT:O96020</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="11082.973" y="9164.606"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa764_ce_sa764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="11086.973" y="9203.106"/> <glyph class="state variable" id="_444afedd-89bc-4d58-bba1-34f182516f15"> <state value="" variable="T160"/> <bbox w="30.0" h="10.0" x="11071.973" y="9218.074"/> </glyph> <glyph class="state variable" id="_644b1755-3665-433c-a220-7b42245d4e49"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="11086.798" y="9198.106"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_gf1_csa24_gf1_csa24" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <label text="gf1_s5206"/> <bbox w="100.0" h="120.0" x="10705.561" y="18019.5"/> <glyph class="macromolecule" id="s_id_gf1_sa159_gf1_sa159"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFA</p> <p>HUGO:VEGFB</p> <p>HUGO:VEGFC</p> <p>HUGO:VEGFD</p> <p>HUGO:PGF</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> </body> </html> </notes> <label text="VEGF*"/> <bbox w="80.0" h="40.0" x="10715.561" y="18029.5"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa158_gf1_sa158"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:FLT4</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> </body> </html> </notes> <label text="FLT4"/> <bbox w="80.0" h="50.0" x="10715.561" y="18064.5"/> <glyph class="unit of information" id="_9eb249e4-6c38-4576-83fb-fac2cd155060"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10733.061" y="18059.5"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa2561_in_sa2561" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2561_in_sa2561"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7890616"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cAMP"/> <bbox w="70.0" h="25.0" x="12555.0" y="3527.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa22_shh1_shh1_csa22" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:KIF7:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re38(MAP:survival):</p> <p>PMID:20956384</p> <p>PMID:21209912</p> <p>PMID:19549984</p> <p>PMID:19592253</p> <p>s_shh1_re40(MAP:survival):</p> <p>PMID:20643644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa22_shh1_shh1_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209912"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19549984"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592253"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20643644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SUFU_Gli2"/> <bbox w="205.0" h="175.0" x="27252.56" y="17832.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa178_shh1_shh1_sa178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 7</p> <p>HUGO:KIF7 HGNC:30497 ENTREZ:374654 UNIPROT:Q2M1P5 GENECARDS:KIF7 KEGG:374654 WIKI:KIF7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19666503</p> <p>PMID:19906571</p> <p>PMID:19592253</p> </body> </html> </notes> <label text="KIF7"/> <bbox w="80.0" h="40.0" x="27315.56" y="17943.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa164_shh1_shh1_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="27277.06" y="17843.0"/> <glyph class="state variable" id="_363b376d-2b93-4635-bbac-a175e3e7cbdf"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="27262.553" y="17838.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa163_shh1_shh1_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 2</p> <p>HUGO:GLI2 HGNC:4318 ENTREZ:2736 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</glyph> <glyph class="state variable" id="_b4ba483d-b734-48c7-8777-ea7a620b89c0"> <state value="" variable="S1011"/> <bbox w="35.0" h="10.0" x="27258.81" y="17911.363"/> </glyph> <glyph class="state variable" id="_401acb51-9f0e-4839-96e5-ec51f3867dbf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27343.93" y="17885.0"/> </glyph> <glyph class="state variable" id="_e40714c6-5b8c-43a9-ba92-58baec16b5ff"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27326.543" y="17885.0"/> </glyph> <glyph class="state variable" id="_c59daebc-6493-48d1-bc12-d05eca024c45"> <state value="" variable="S844"/> <bbox w="30.0" h="10.0" x="27338.656" y="17924.0"/> </glyph> <glyph class="state variable" id="_7c8f0b91-679d-46cf-b0a0-978219766016"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27374.666" y="17924.0"/> </glyph> <glyph class="state variable" id="_0f24d838-facf-4a71-992e-555a85a20e6c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27315.05" y="17885.0"/> </glyph> <glyph class="state variable" id="_57d8d1a1-07f3-4021-8fd9-9e4d733bead7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27353.81" y="17885.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa184_shh1_shh1_sa184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Unc-51-like kinase</p> </body> </html> </notes> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="27361.56" y="17843.0"/> <glyph class="state variable" id="_d112a244-6db1-4a4c-86b9-724041b28565"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="27347.053" y="17838.0"/> </glyph> <glyph class="state variable" id="_cfb4d275-25d2-4c95-8a31-bd06ef09bd44"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="27425.941" y="17878.0"/> </glyph> <glyph class="state variable" id="_73d8f357-562b-4938-92f5-28c72ebb181b"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="27346.56" y="17877.72"/> </glyph> <glyph class="state variable" id="_ce9dad40-fa93-4c2b-bef6-cd9cadf8827d"> <state value="" variable="S350"/> <bbox w="30.0" h="10.0" x="27426.56" y="17838.213"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1829_rc_sa1829" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1829_rc_sa1829"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC6"/> <bbox w="80.0" h="40.0" x="24069.06" y="13829.0"/> <glyph class="state variable" id="_732e1677-79d9-4014-becf-fde10ffecc42"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24115.629" y="13824.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4503_rc_sa4503" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4503_rc_sa4503"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KIAA0226"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KIAA0226"/> <bbox w="80.0" h="40.0" x="28056.56" y="11514.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa40_wca1_wca1_csa40" compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:AXIN*:CK1_alpha_*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:GSK3*:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> <p>s_wca1_re41(MAP:survival):</p> <p>PMID:21606194 </p> <p>ANNOTATION:CK1alpha phosphorylates E-CADHERIN on unkown residue and p-120 catenin</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa40_wca1_wca1_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="520.0" h="354.0" x="21489.56" y="19055.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa322_wca1_wca1_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21772.06" y="19122.0"/> <glyph class="state variable" id="_32ac0095-95b2-4f25-af10-8b467b5ca133"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21752.06" y="19141.96"/> </glyph> <glyph class="state variable" id="_e9c4c96f-8d87-410e-877a-d535ae383f8a"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="21832.06" y="19117.266"/> </glyph> <glyph class="state variable" id="_b7ed4369-2c41-499a-8d3b-43693985f8ea"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="21831.441" y="19167.0"/> </glyph> <glyph class="state variable" id="_cfb070c0-045c-4dbe-8fad-2f8433942b0f"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="21791.164" y="19167.0"/> </glyph> <glyph class="state variable" id="_44c9737d-7f20-478e-99d8-d41fa3df2904"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="21752.3" y="19167.0"/> </glyph> <glyph class="state variable" id="_c4ecbeb4-8c2a-49a1-8186-d82f432687e0"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="21792.092" y="19117.0"/> </glyph> <glyph class="unit of information" id="_6e45be9a-fc9f-4b76-9a8e-95b71757368f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21789.56" y="19117.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa308_wca1_wca1_sa315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21642.56" y="19326.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa503_wca1_wca1_sa505"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21897.31" y="19233.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa417_wca1_wca1_sa416"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21904.56" y="19107.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa318_wca1_wca1_sa318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21558.56" y="19314.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa417_wca1_wca1_sa417"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21689.56" y="19104.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa503_wca1_wca1_sa503"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21678.31" y="19230.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa312_wca1_wca1_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21772.06" y="19166.0"/> <glyph class="unit of information" id="_56b988cb-2a83-4155-97db-7a178f20ca58"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21789.56" y="19161.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa565_wca1_wca1_sa566"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21647.56" y="19351.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa614_wca1_wca1_sa615"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21573.06" y="19108.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa322_wca1_wca1_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21556.06" y="19120.0"/> <glyph class="state variable" id="_7e40254a-49c8-4516-aad8-22bea7dfd385"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21536.06" y="19139.96"/> </glyph> <glyph class="state variable" id="_0dec3edf-6d4d-46e7-91b4-94eed25069b2"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="21616.06" y="19115.266"/> </glyph> <glyph class="state variable" id="_01251dff-3ee0-4a8d-937c-921890ded3d3"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="21615.441" y="19165.0"/> </glyph> <glyph class="state variable" id="_36ceea23-78f5-4ea8-88d8-798f4e15ae33"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="21575.164" y="19165.0"/> </glyph> <glyph class="state variable" id="_676ca213-cd72-4d0f-ab2a-7f3d12aea76c"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="21536.3" y="19165.0"/> </glyph> <glyph class="state variable" id="_23fe2490-b02c-4966-9cea-d4d6673cf98e"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="21576.092" y="19115.0"/> </glyph> <glyph class="unit of information" id="_b1b7f434-22bd-4c9b-9c15-9108890b3e8f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21573.56" y="19115.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa593_wca1_wca1_sa593"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21907.56" y="19066.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa308_wca1_wca1_sa308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21807.56" y="19327.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa504_wca1_wca1_sa502"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21637.31" y="19230.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa661_wca1_wca1_sa661"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21502.242" y="19140.727"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa307_wca1_wca1_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21772.81" y="19214.0"/> <glyph class="state variable" id="_5c62e919-f0d5-4154-8b06-ab798e4e7099"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21845.31" y="19209.0"/> </glyph> <glyph class="state variable" id="_cc56cb05-bc73-4b41-aa3d-b56b127ba5b1"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21755.31" y="19248.72"/> </glyph> <glyph class="state variable" id="_ef0a19e5-1c60-45a1-900f-398e751d01b6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21767.814" y="19209.0"/> </glyph> <glyph class="state variable" id="_7890ace2-dea4-4de0-9072-00ccc42a46b1"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21834.691" y="19249.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa504_wca1_wca1_sa504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21856.31" y="19233.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa316_wca1_wca1_sa316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21559.06" y="19266.5"/> <glyph class="state variable" id="_f644dcc4-ec80-4015-9730-9aa681a699a9"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21552.053" y="19261.5"/> </glyph> <glyph class="state variable" id="_0c396164-c34e-4820-9892-4ade22f5380f"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21631.56" y="19261.713"/> </glyph> <glyph class="state variable" id="_0b3d5429-8802-4a55-a284-030d91a76cb1"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21546.56" y="19301.22"/> </glyph> <glyph class="state variable" id="_f00da524-4e88-4607-b887-00edfa22c321"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21624.06" y="19261.713"/> </glyph> <glyph class="state variable" id="_8f2bdbc2-d205-49f5-bf98-dc809c1c55b0"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21623.441" y="19301.5"/> </glyph> <glyph class="state variable" id="_d8c43bff-9628-4d28-a4f3-47989c2c8892"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21586.465" y="19301.5"/> </glyph> <glyph class="state variable" id="_afee4545-6430-4a68-93f6-755a95bdbccb"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21583.965" y="19301.5"/> </glyph> <glyph class="state variable" id="_06320ce7-ac5e-466b-906f-7ef1b42c842c"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21544.06" y="19301.22"/> </glyph> <glyph class="state variable" id="_ced78e98-ba55-4acc-946c-bb5397007371"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21586.592" y="19261.5"/> </glyph> <glyph class="state variable" id="_8f7018c7-4f59-4151-9f6b-95017ca498b8"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21547.053" y="19261.5"/> </glyph> <glyph class="state variable" id="_a2b9682d-ad64-45c2-b9aa-d2f6482057da"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21625.941" y="19301.5"/> </glyph> <glyph class="state variable" id="_9db9143a-1b11-42af-8d13-67dd39c2e127"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21554.064" y="19261.5"/> </glyph> <glyph class="state variable" id="_4b67ccf7-1e89-446e-a3b9-162e2cf687d8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21634.06" y="19261.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa309_wca1_wca1_sa302"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21636.56" y="19068.0"/> <glyph class="state variable" id="_c10a3799-d81a-4233-84ea-631314badbce"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21684.56" y="19063.0"/> </glyph> <glyph class="state variable" id="_d8d655e0-1d45-4d6d-bfe7-9befaa7f0c48"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21674.56" y="19063.652"/> </glyph> <glyph class="state variable" id="_d9943b49-4235-45b1-86c8-b1b31ed157dc"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21672.629" y="19186.0"/> </glyph> <glyph class="state variable" id="_d332ae22-8346-4393-ae2e-fa359bbdd99c"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21622.404" y="19063.0"/> </glyph> <glyph class="state variable" id="_a1a9dfed-682d-4a93-97f9-7647a1d0c706"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21621.719" y="19186.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa309_wca1_wca1_sa309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21852.56" y="19070.0"/> <glyph class="state variable" id="_8171f392-880a-4a96-88fd-db79ffa5a6cc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21900.56" y="19065.0"/> </glyph> <glyph class="state variable" id="_277407fb-00bd-440a-a787-fb2c57988333"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21890.56" y="19065.652"/> </glyph> <glyph class="state variable" id="_44098722-f21e-4970-881a-3e082c4238b1"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21888.629" y="19188.0"/> </glyph> <glyph class="state variable" id="_7aeb07c0-0655-4eb0-bd4f-77418d6381f2"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21838.404" y="19065.0"/> </glyph> <glyph class="state variable" id="_d1772784-66e5-4be4-8516-a7768bf326b7"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21837.719" y="19188.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa316_wca1_wca1_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21730.06" y="19268.0"/> <glyph class="state variable" id="_4d452a4c-accf-40c9-b44d-83118082c548"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21723.053" y="19263.0"/> </glyph> <glyph class="state variable" id="_2e27793b-a4a0-4bd3-9d88-6c5cdcb94159"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21802.56" y="19263.213"/> </glyph> <glyph class="state variable" id="_85ea0bdc-a8c4-447d-83e4-1f09e3527b29"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21717.56" y="19302.72"/> </glyph> <glyph class="state variable" id="_5273841e-ad6d-49a8-9cd6-10446d3400ef"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21795.06" y="19263.213"/> </glyph> <glyph class="state variable" id="_eb23e1a1-d268-4699-be3c-a528bdf81bf0"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21794.441" y="19303.0"/> </glyph> <glyph class="state variable" id="_0a46bdf6-99cc-4f4e-bb5b-67ed1041198f"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21757.465" y="19303.0"/> </glyph> <glyph class="state variable" id="_c4cfbda3-1469-4abc-a6a1-875394cf3104"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21754.965" y="19303.0"/> </glyph> <glyph class="state variable" id="_f482a21b-b181-45dd-865a-bbd7e35069ea"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21715.06" y="19302.72"/> </glyph> <glyph class="state variable" id="_439b9f46-ac9c-44c5-b0ab-0626a60c0e9f"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21757.592" y="19263.0"/> </glyph> <glyph class="state variable" id="_a02e62af-f1cd-4816-a6c1-221b1d8fb076"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21718.053" y="19263.0"/> </glyph> <glyph class="state variable" id="_5b74d0d2-9842-40a2-b12f-ed405e6ddec5"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21796.941" y="19303.0"/> </glyph> <glyph class="state variable" id="_343dfbba-a7e8-4636-9249-e13766f749f9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21725.064" y="19263.0"/> </glyph> <glyph class="state variable" id="_3c59aa5b-9fcb-4c7d-bff5-08b75c5275f8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21805.06" y="19263.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa318_wca1_wca1_sa328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21893.56" y="19312.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa317_wca1_wca1_sa326"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21814.06" y="19268.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa317_wca1_wca1_sa317"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21644.06" y="19266.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa614_wca1_wca1_sa614"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21793.06" y="19108.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa593_wca1_wca1_sa592"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21693.06" y="19068.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa311_wca1_wca1_sa311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21904.56" y="19191.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa311_wca1_wca1_sa304"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21688.56" y="19189.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa565_wca1_wca1_sa565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21816.56" y="19358.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa307_wca1_wca1_sa307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21556.81" y="19212.0"/> <glyph class="state variable" id="_e212a77c-0e0a-4b0a-b067-7b3a9f3f4917"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21629.31" y="19207.0"/> </glyph> <glyph class="state variable" id="_f1ca5662-a525-41e9-872b-f5ea00b1d9b1"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21539.31" y="19246.72"/> </glyph> <glyph class="state variable" id="_aa459d28-c46a-47f9-8d7c-b1d18ed1107a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21551.814" y="19207.0"/> </glyph> <glyph class="state variable" id="_eeed4806-2460-4c2a-8253-406196f8922a"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21618.691" y="19247.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa310_wca1_wca1_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21906.56" y="19151.0"/> <glyph class="state variable" id="_81f9fcc9-e682-4c86-868c-b8206d3051e2"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21892.053" y="19146.0"/> </glyph> <glyph class="state variable" id="_d26e57ec-10bf-4bea-b4c0-77589d0bfc39"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21931.592" y="19146.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa310_wca1_wca1_sa303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21690.56" y="19149.0"/> <glyph class="state variable" id="_5e3d17e8-cd55-408a-b1ee-119f01a09dbb"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21676.053" y="19144.0"/> </glyph> <glyph class="state variable" id="_cfe4a1d9-87ca-4754-b636-a7818ec43634"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21715.592" y="19144.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa312_wca1_wca1_sa305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21556.06" y="19164.0"/> <glyph class="unit of information" id="_79b68660-9e90-4cac-8dc1-480c4f685abd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21573.56" y="19159.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa316_wca1_wca1_sa329"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21895.06" y="19268.0"/> <glyph class="state variable" id="_2d685497-c794-4507-8c49-be8ac2722a50"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21888.053" y="19263.0"/> </glyph> <glyph class="state variable" id="_370d1ff2-7dea-4be1-8a63-875e646346be"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21967.56" y="19263.213"/> </glyph> <glyph class="state variable" id="_0453538a-ae98-42cb-95ef-1d7bb4c4485d"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21882.56" y="19302.72"/> </glyph> <glyph class="state variable" id="_24da4c7f-b6f2-4a04-bef6-b004cc0ec9a8"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21960.06" y="19263.213"/> </glyph> <glyph class="state variable" id="_bfdecf62-4700-44ee-baa7-d91730dc017e"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21959.441" y="19303.0"/> </glyph> <glyph class="state variable" id="_3e23b400-5b84-4090-918e-5b96325d35b2"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21922.465" y="19303.0"/> </glyph> <glyph class="state variable" id="_b5362a42-7b29-4378-ada1-f6291859a649"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21919.965" y="19303.0"/> </glyph> <glyph class="state variable" id="_dfd2fffc-f2e9-40fa-a42b-17d419e28c83"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21880.06" y="19302.72"/> </glyph> <glyph 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21726.56" y="19311.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3109_rc_sa3109" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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</annotation> </extension> <label text="CS"/> <bbox w="86.0" h="46.0" x="19060.31" y="14611.0"/> <glyph class="unit of information" id="_cf952934-54f8-4261-969e-76910c298373"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="19093.31" y="14606.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa72_akt1_akt1_csa72" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:TSC2</p> <p>References:</p> <p>s_akt1_re168(MAP:survival):</p> <p>PMID:16636147</p> <p>Phosphorylation of S939 and S981 by Akt initiates binding of 14-3-3 protein to TSC2 leading to trans</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa72_akt1_akt1_csa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16636147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:TSC2"/> <bbox w="98.0" h="131.0" x="14175.061" y="18804.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa430_akt1_akt1_sa430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="14183.942" y="18870.588"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa428_akt1_akt1_sa428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="14182.942" y="18820.555"/> <glyph class="state variable" id="_7f3e2f7d-dc8a-4c52-9840-1356d1981593"> <state value="P" variable="S1086"/> <bbox w="40.0" h="10.0" x="14242.942" y="18837.021"/> </glyph> <glyph class="state variable" id="_34da83f5-c599-4a61-bdd0-df5793cfe2eb"> <state value="P" variable="S981"/> <bbox w="35.0" h="10.0" x="14242.024" y="18815.555"/> </glyph> <glyph class="state variable" id="_bbf315aa-730a-4496-9013-bcd076ee7198"> <state value="P" variable="T1462"/> <bbox w="40.0" h="10.0" x="14163.436" y="18815.555"/> </glyph> <glyph class="state variable" id="_eb1e72ab-33fa-44d2-9548-87887b58dddd"> <state value="P" variable="S1132"/> <bbox w="40.0" h="10.0" x="14162.942" y="18854.502"/> </glyph> <glyph class="state variable" id="_c52b8b13-2c55-4d41-905b-ca89a976482d"> <state value="P" variable="S939"/> <bbox w="35.0" h="10.0" x="14203.473" y="18815.555"/> </glyph> <glyph class="state variable" id="_b7eaaa3a-fee4-4c77-bb40-78066e4af419"> <state value="P" variable="S1088"/> <bbox w="40.0" h="10.0" x="14242.324" y="18855.555"/> </glyph> <glyph class="state variable" id="_a1ac3c6b-5d83-4e9b-bd02-5d04a398ebd0"> <state value="P" variable="S1130"/> <bbox w="40.0" h="10.0" x="14200.845" y="18855.555"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa67_emtc_em_csa67" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA3:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22203675</p> <p>EMT and pulmonary fibrogenesis require epithelial integrin a3b1-mediated crosstalk betweenTGFB1 and Wntsignaling pathways</p> <p>PMID:22118458</p> <p>Integrins a3b1, a6b1, a6b4 and a7b1 engage with laminins</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4226.725" y="18509.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa531_emtc_em_sa531"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143", MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA3"/> <bbox w="40.0" h="20.0" x="4226.725" y="18488.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2098_rc_sa2098" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</glyph> <glyph class="macromolecule" id="s_id_te_sa221_te_sa221" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear assembly factor 1 ribonucleoprotein</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa221_te_sa221"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NAF1"/> <clone/> <bbox w="80.0" h="40.0" x="5786.06" y="21937.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa221_te_sa193" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear assembly factor 1 ribonucleoprotein</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.PMID:26013006 IL-27 stimulation of Tregs induced expression of Lag3qPCR analysis confirmed that IL-27 upregulated Tbx21, Lag3, Ccl3, Ccl4, and Il10 expression ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:TCRMODULE:INHIBITING_CHECKPOINTSPMID:26885856 GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.PMID:26013006 IL-27 stimulation of Tregs induced expression of Lag3qPCR analysis confirmed that IL-27 upregulated Tbx21, Lag3, Ccl3, Ccl4, and Il10 expression </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1152_ad_sa1152"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TBX21"/> </rdf:Bag> 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<p>NAME:CUL1:RBX1:SKP1:_beta_TRCP*</p> </body> </html> </notes> <label text="SCF(bTrCP)_complex"/> <clone/> <bbox w="182.0" h="120.0" x="23342.56" y="10061.0"/> <glyph class="macromolecule" id="s_id_rc_sa3303_rc_sa3303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>beta-transducin repeat containing E3 ubiquitin protein ligase</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 </p> <p>F-box and WD repeat domain containing 11</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>synonym:beta-TrCP1</p> <p>synonym:beta-TrCP2</p> </body> </html> </notes> <label text="βTRCP*"/> <clone/> <bbox w="80.0" h="40.0" x="23352.56" y="10071.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3304_rc_sa3304"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS</p> </body> </html> </notes> <label text="CUL1"/> <clone/> <bbox w="80.0" h="40.0" x="23352.56" y="10115.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3306_rc_sa3306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS</p> </body> </html> </notes> <label text="SKP1"/> <clone/> <bbox w="80.0" h="40.0" x="23434.56" y="10115.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3305_rc_sa3305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <clone/> <bbox w="80.0" h="40.0" x="23434.56" y="10071.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa354_rc_csa118" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:RBX1:SKP1:_beta_TRCP*</p> </body> </html> </notes> <label text="SCF(bTrCP)_complex"/> <clone/> <bbox w="182.0" h="120.0" x="22657.06" y="11538.0"/> <glyph class="macromolecule" id="s_id_rc_sa3305_rc_sa1296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <clone/> <bbox w="80.0" h="40.0" x="22749.06" y="11548.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3304_rc_sa1295"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS</p> </body> </html> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SHC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHC1"/> <bbox w="80.0" h="40.0" x="5490.0" y="2270.0"/> <glyph class="state variable" id="_26c2ba76-3ddc-4dcd-99d8-c36afd71dc38"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5485.0" y="2285.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1148_ad_sa1148" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19276087</p> <p>DPYSL2 (CRMP2)</p> <p>CXCL12 Induces CRMP2 Polarization at the T Lymphocyte Uropod</p> <p>CXCL12 Modulates CRMP2 Binding to the Cytoskeleton</p> <p>CRMP2 was distributed in the cytoskeletal compartment of T lymphocytes and that CXCL12 had the ability to alter this distribution, enhancing CRMP2 association with cytoskeletal elements.</p> <p>CXCL12 decreases phosphorylation of the glycogen synthase kinase-3β-targeted residues CRMP2-Thr-509/514; and 3) tyrosine Tyr-479 is a new phosphorylation CRMP2 residue and a target for the Src-family kinase Yes. Moreover, phospho-Tyr-479 increased under CXCL12 signaling while phospho-Thr-509/514 decreased.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1148_ad_sa1148"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19276087"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DPYSL2"/> <clone/> <bbox w="80.0" h="40.0" x="29448.5" y="5910.0"/> <glyph class="state variable" id="_2d4c03a0-c3c0-47bb-b22c-911561cd8842"> <state value="P" variable="Tyr479"/> <bbox w="45.0" h="10.0" x="29503.086" y="5945.0"/> </glyph> <glyph class="state variable" id="_9650c3a5-71e0-4043-a5a7-5932a8f26cc9"> <state value="" variable="Thr509/514"/> <bbox w="60.0" h="10.0" x="29418.5" y="5908.0996"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1148_ad_sa1147" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19276087</p> <p>DPYSL2 (CRMP2)</p> <p>CXCL12 Induces CRMP2 Polarization at the T Lymphocyte Uropod</p> <p>CXCL12 Modulates CRMP2 Binding to the Cytoskeleton</p> <p>CRMP2 was distributed in the cytoskeletal compartment of T lymphocytes and that CXCL12 had the ability to alter this distribution, enhancing CRMP2 association with cytoskeletal elements.</p> <p>CXCL12 decreases phosphorylation of the glycogen synthase kinase-3β-targeted residues CRMP2-Thr-509/514; and 3) tyrosine Tyr-479 is a new phosphorylation CRMP2 residue and a target for the Src-family kinase Yes. 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</head> <body> <p>forkhead box O4</p> <p>HUGO:FOXO4 HGNC:7139 ENTREZ:4303 UNIPROT:P98177 GENECARDS:FOXO4 REACTOME:404982 KEGG:4303 ATLASONC:AFX1ID57 WIKI:FOXO4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="11879.061" y="21274.0"/> <glyph class="state variable" id="_030188a2-ba21-4302-a30c-7345c9c22de2"> <state value="" variable="T28"/> <bbox w="25.0" h="10.0" x="11867.053" y="21269.0"/> </glyph> <glyph class="state variable" id="_0aa8a2aa-0128-40bc-9342-822960fc2d7f"> <state value="" variable="S258"/> <bbox w="30.0" h="10.0" x="11943.442" y="21309.0"/> </glyph> <glyph class="state variable" id="_a88d77ee-81b4-4edd-917b-b2ab4b87404b"> <state value="" variable="S193"/> <bbox w="30.0" h="10.0" x="11944.061" y="21269.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa209_akt1_akt2_sa209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="11878.061" y="21233.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1131_ce_sa1131" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1131_ce_sa1131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC25A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC25A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC25A"/> <bbox w="70.0" h="25.0" x="15096.269" y="9880.0625"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5501_rc_sa5501" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>IbpA*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5501_rc_sa5501"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IbpA*"/> <bbox w="70.0" h="25.0" x="28994.06" y="9106.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1425_emtc_em_sa1425" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1425_emtc_em_sa1425"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RDX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RDX"/> <bbox w="30.0" h="19.0" x="5800.0" y="14331.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa97_rc_csa97" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Fe2+:PHD*</p> </body> </html> </notes> <label text="PHD"/> <bbox w="100.0" h="120.0" x="25120.56" y="14914.75"/> <glyph class="simple chemical" id="s_id_rc_sa1173_rc_sa1173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Fe2+"/> <bbox w="25.0" h="25.0" x="25144.06" y="14925.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1157_rc_sa1157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>egl nine homolog 1 (C. elegans)</p> <p>HUGO:EGLN1 HGNC:1232 ENTREZ:54583 UNIPROT:Q9GZT9 </p> <p>egl nine homolog 2 (C. elegans)</p> <p>HUGO:EGLN2 HGNC:14660 ENTREZ:112398 UNIPROT:Q96KS0 </p> <p>egl nine homolog 3 (C. elegans)</p> <p>HUGO:EGLN3 HGNC:14661 ENTREZ:112399 UNIPROT:Q9H6Z9</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="PHD*"/> <bbox w="80.0" h="40.0" x="25126.06" y="14952.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4584_rc_sa4584" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4584_rc_sa4584"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR504"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR504"/> <bbox w="90.0" h="25.0" x="24039.06" y="15641.5"/> <glyph class="unit of information" id="_22f7817c-e170-42be-b5d0-f806ae1a6295"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24069.06" y="15636.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa317_rc_csa317" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cu2+:MT-CO2</p> </body> </html> </notes> <label text="holo MT-CO2"/> <bbox w="94.0" h="98.0" x="19864.81" y="14028.0"/> <glyph class="simple chemical" id="s_id_rc_sa2848_rc_sa2848"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29036</p> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="19898.81" y="14079.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2849_rc_sa2849"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome c oxidase II</p> <p>HUGO:MT-CO2 HGNC:7421 ENTREZ:4513 UNIPROT:P00403</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CO2"/> <bbox w="80.0" h="40.0" x="19874.81" y="14033.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa64_wca1_wca1_csa64" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha_o*</p> <p>References:</p> <p>s_wca1_re67:(MAP:survival) PMID:20562099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa64_wca1_wca1_csa64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20562099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP:Gαo*"/> <bbox w="70.0" h="80.0" x="21359.06" y="18288.0"/> <glyph class="simple chemical" id="s_id_wca1_wca1_sa624_wca1_wca1_sa624"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="25.0" h="25.0" x="21381.56" y="18325.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa623_wca1_wca1_sa623"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21374.06" y="18298.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa510_rc_csa510" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NDUFS8:NPL4*:UFD1*:p97*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>12847084</p> </body> </html> </notes> <label text="p97*:UFD1*:NPL4*"/> <bbox w="100.0" h="180.0" x="29352.967" y="13809.0"/> <glyph class="macromolecule" id="s_id_rc_sa5171_rc_sa5171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin recognition factor in ER associated degradation 1</p> <p>HUGO:UFD1 hgnc_id:HGNC:12520 HGNC:12520 ENTREZ:7353 UNIPROT:Q92890</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="UFD1*"/> <bbox w="80.0" h="40.0" x="29362.967" y="13899.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5169_rc_sa5169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>valosin containing protein</p> <p>HUGO:VCP hgnc_id:HGNC:12666 HGNC:12666 ENTREZ:7415 UNIPROT:P55072</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="p97*"/> <bbox w="80.0" h="40.0" x="29362.967" y="13819.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5172_rc_sa5172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NDUFS8"/> <bbox w="70.0" h="25.0" x="29367.967" y="13946.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5170_rc_sa5170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NPL4 homolog, ubiquitin recognition factor</p> <p>HUGO:NPLOC4 hgnc_id:HGNC:18261 HGNC:18261 ENTREZ:55666 UNIPROT:Q8TAT6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="NPL4*"/> <bbox w="80.0" h="40.0" x="29362.967" y="13859.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2871_in_sa2871" compartmentRef="s_id_in_ca47_in_ca47"> <label text="IL3RA"/> <clone/> <bbox w="80.0" h="50.0" x="9874.75" y="667.5"/> <glyph class="unit of information" id="_034a19c2-993a-492b-827c-b80ec7bb1c29"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9892.25" y="662.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2871_in_sa2" compartmentRef="s_id_in_ca47_in_ca47"> <label text="IL3RA"/> <clone/> <bbox w="80.0" h="50.0" x="10003.75" y="217.5"/> <glyph class="unit of information" id="_682ad7ee-a755-43fe-b439-17a515ff0782"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10021.25" y="212.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa235_ce_sa235" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa235_ce_sa235"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UBE2V2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UBC12*"/> <bbox w="80.0" h="40.0" x="17219.27" y="15849.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa21_ca_csa21" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IkB*:NFKB1_p50*:RELB</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> </body> </html> </notes> <label text="ca_s29"/> <bbox w="105.0" h="155.0" x="1937.0" y="2762.0"/> <glyph class="macromolecule" id="s_id_ca_sa317_ca_sa317"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NFKB inhibitor alpha</p> <p>HUGO:NFKBIA hgnc_id:HGNC:7797 HGNC:7797 ENTREZ:4792 UNIPROT:P25963 </p> <p>NFKB inhibitor beta</p> <p>HUGO:NFKBIB hgnc_id:HGNC:7798 HGNC:7798 ENTREZ:4793 UNIPROT:Q15653 </p> <p>NFKB inhibitor epsilon</p> <p>HUGO:NFKBIE hgnc_id:HGNC:7799 HGNC:7799 ENTREZ:4794 UNIPROT:O00221</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:23086447, PMID:25305492, PMID:23422957 </p> <p> In canonical NFkB pathway RelB/p50, RelA/p50 and c-Rel/p50 heterodimers are sequestered by IκB-α, IκB-β, and IκB-ε</p> </body> </html> </notes> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="1952.0" y="2777.0"/> <glyph class="state variable" id="_fc271f26-a618-43eb-9569-8340a8158f1f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1947.0" y="2792.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa315_ca_sa315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RELB proto-oncogene, NF-kB subunit</p> <p>HUGO:RELB hgnc_id:HGNC:9956 HGNC:9956 ENTREZ:5971 UNIPROT:Q01201</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>CASCADE:IL1, CASCADE:TNF</p> <p>PMID:18697742 </p> <p>RelB is constitutively expressed in mouse lung fibroblasts.</p> <p>PMID:10523657</p> <p>RelB is an important transcription suppressor in fibroblasts which limits the expression of proinflammatory mediators and may exert its function by modulating the stability</p> <p>Fibroblasts from relb(-/-) mice overexpress interleukin-1alpha (IL-1alpha), IL-1beta, and tumor necrosis factor alpha in response to lipopolysaccharide (LPS) stimulation. These cells have an augmented and prolonged LPS-inducible IKK activity and an accelerated degradation which results in a diminished level of IkappaBalpha protein, despite an upregulated IkappaBalpha mRNA expression.</p> </body> </html> </notes> <label text="RELB"/> <bbox w="90.0" h="40.0" x="1947.0" y="2817.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa316_ca_sa316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>MODULE:CAF, MODULE:CORE, MODULE:CAF</p> <p>Map modules:</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control miceReferences_end</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="1952.0" y="2857.0"/> <glyph class="unit of information" id="_fbe24d36-db7f-43dc-9c39-20be37acd41d"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1967.0" y="2852.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa514_rc_csa514" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Ca2+:NDUFB9:SEL1L:SYVN1:VIMP:p97*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:18199748</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa514_rc_csa514"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18199748"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Derlin*:VIMP*:p97*:SYVN1:HERP*:SEL1L"/> <bbox w="190.0" h="160.0" x="29244.06" y="13309.0"/> <glyph class="macromolecule" id="s_id_rc_sa5182_rc_sa5182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>valosin containing protein</p> <p>HUGO:VCP hgnc_id:HGNC:12666 HGNC:12666 ENTREZ:7415 UNIPROT:P55072</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="p97*"/> <bbox w="80.0" h="40.0" x="29339.06" y="13399.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5184_rc_sa5184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>homocysteine inducible ER protein with ubiquitin like domain 1</p> <p>HUGO:HERPUD1 hgnc_id:HGNC:13744 HGNC:13744 ENTREZ:9709 UNIPROT:Q15011</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:19509052</p> </body> </html> </notes> <label text="HERP*"/> <bbox w="80.0" h="40.0" x="29254.06" y="13359.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5183_rc_sa5183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synoviolin 1</p> <p>HUGO:SYVN1 hgnc_id:HGNC:20738 HGNC:20738 ENTREZ:84447 UNIPROT:Q86TM6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:19509052</p> <p>PMID:18360008</p> <p>HRD1</p> </body> </html> </notes> <label text="SYVN1"/> <bbox w="80.0" h="40.0" x="29254.06" y="13319.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5180_rc_sa5180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>derlin 1</p> <p>HUGO:DERL1 hgnc_id:HGNC:28454 HGNC:28454 ENTREZ:79139 UNIPROT:Q9BUN8 </p> <p>derlin 2</p> <p>HUGO:DERL2 hgnc_id:HGNC:17943 HGNC:17943 ENTREZ:51009 UNIPROT:Q9GZP9</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:18199748</p> <p>PMID:19509052</p> <p>PMID:16186509</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Derlin*"/> <bbox w="80.0" h="40.0" x="29344.06" y="13319.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5181_rc_sa5181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>selenoprotein S</p> <p>HUGO:SELENOS hgnc_id:HGNC:30396 HGNC:30396 ENTREZ:55829 UNIPROT:Q9BQE4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:18199748</p> <p>PMID:19509052</p> </body> </html> </notes> <label text="VIMP"/> <bbox w="80.0" h="40.0" x="29344.06" y="13359.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5185_rc_sa5185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SEL1L ERAD E3 ligase adaptor subunit</p> <p>HUGO:SEL1L hgnc_id:HGNC:10717 HGNC:10717 ENTREZ:6400 UNIPROT:Q9UBV2</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="SEL1L"/> <bbox w="80.0" h="40.0" x="29254.06" y="13399.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4558_rc_sa4558" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4558_rc_sa4558"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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value="" variable=""/> <bbox w="10.0" h="10.0" x="2800.06" y="21004.969"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa7_te_sa98" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa7_te_sa98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TINF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TINF2"/> <clone/> <bbox w="80.0" h="40.0" x="3625.06" y="20810.0"/> <glyph class="state variable" id="_d427085b-b9bd-4432-b0e0-31c85ccc1f8b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3620.06" y="20824.969"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2322_rc_sa2322" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Zn2+"/> <clone/> <bbox w="25.0" h="25.0" x="27976.56" y="10596.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2322_rc_sa2301" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Zn2+"/> <clone/> <bbox w="25.0" h="25.0" x="25854.56" y="15416.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2322_rc_sa2210" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Zn2+"/> <clone/> <bbox w="25.0" h="25.0" x="17896.56" y="12506.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa892_ca_sa892"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:27548915 melanosomal miR-211 induces primary fibroblast reprogramming as demonstrated by elevation of the pro-inflammatory gene signature, cell proliferation and migration. Finally, we demonstrate that melanosomal miR-211 directly targets IGF2R and thus induces MAPK signalling. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:27548915 melanosomal miR-211 induces primary fibroblast reprogramming as demonstrated by elevation of the pro-inflammatory gene signature, cell proliferation and migration. Finally, we demonstrate that melanosomal miR-211 directly targets IGF2R and thus induces MAPK signalling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa892_ca_sa892"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR211"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27548915"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR211"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27548915"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR211"/> <bbox w="90.0" h="25.0" x="5585.0" y="687.5"/> <glyph class="unit of information" id="_ba95d7bf-c0a8-4e1c-96ba-cbc294bf0301"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="5615.0" y="682.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa114_ce_csa114" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*:CDC20:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> </body> </html> </notes> <label text="APC1*/APC2*/APC3*/APC4*/APC5*/APC6*/APC7*/APC8*/APC9*/APC10*/APC11*/APC12/CDC20"/> <bbox w="278.0" h="215.0" x="11493.473" y="10038.356"/> <glyph class="macromolecule" id="s_id_ce_sa909_ce_sa909"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="11602.137" y="10145.439"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa989_ce_sa989"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2, HGNC:19989, ENTREZ:29882, UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="11512.994" y="10091.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa995_ce_sa995"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7, HGNC:17380, ENTREZ:51434, UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="11596.994" y="10133.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa990_ce_sa990"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC1, HGNC:19988, ENTREZ:64682, UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="11514.08" y="10049.216"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa991_ce_sa991"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27 homolog (S. cerevisiae)</p> <p>HUGO:CDC27, HGNC:1728, ENTREZ:996, UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="11512.994" y="10135.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa992_ce_sa992"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4, HGNC:19990, ENTREZ:29945, UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="11513.994" y="10175.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa997_ce_sa997"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26 homolog (S. cerevisiae)</p> <p>HUGO:CDC26, HGNC:17839, ENTREZ:246184, UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="11677.994" y="10175.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa776_ce_sa776"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 20 homolog (S. cerevisiae)</p> <p>HUGO:CDC20, HGNC:1723, ENTREZ:991, UNIPROT:Q12834</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC20"/> <bbox w="80.0" h="40.0" x="11683.473" y="10048.356"/> <glyph class="state variable" id="_ef49a7e0-1655-4d35-9047-965223c72086"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11675.973" y="10063.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa993_ce_sa993"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5, HGNC:15713, ENTREZ:51433, UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="11597.994" y="10048.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa994_ce_sa994"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16 homolog (S. cerevisiae)</p> <p>HUGO:CDC16, HGNC:1720, ENTREZ:8881, UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="11597.994" y="10090.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa998_ce_sa998"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11, HGNC:14452, ENTREZ:51529, UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="11677.994" y="10135.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa996_ce_sa996"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23 homolog (S. cerevisiae)</p> <p>HUGO:CDC23, HGNC:1724, ENTREZ:8697, UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="11595.994" y="10175.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa999_ce_sa999"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10, HGNC:24077, ENTREZ:10393, UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="11679.994" y="10091.837"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa58_an_sa58" compartmentRef="s_id_an_ca4_an_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa58_an_sa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL8"/> <bbox w="80.0" h="40.0" x="7702.0" y="6165.0"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa252_an_sa252" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Sphingosine"/> <clone/> <bbox w="95.0" h="23.0" x="5699.0" y="7954.5"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa252_rc_sa3682" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Sphingosine"/> <clone/> <bbox w="94.0" h="31.0" x="20162.31" y="10833.583"/> </glyph> <glyph class="complex" id="s_id_mo_csa6_mo_csa6" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="RhoA_GTP"/> <bbox w="100.0" h="120.0" x="5738.0" y="9139.0"/> <glyph class="macromolecule" id="s_id_mo_sa381_mo_sa381"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="80.0" h="40.0" x="5748.7144" y="9169.0"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa382_mo_sa382"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="5755.0" y="9210.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa19_ca_csa19" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IKBKG:IKK_alpha_*:IKK_beta_*</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID‭:15145317, PMID:15573129</p> <p>The activated IKK complex,</p> <p>catalyzes the phosphorylation of IkBs (at sites</p> <p>equivalent to Ser32 and Ser36 of IkBa), polyubiquitination</p> <p>(at sites equivalent to Lys21 and Lys22 of IkBa) and</p> <p> subsequent degradation by the 26S proteasome. The</p> <p>released NF-kB dimers (in this pathway, most commonly</p> <p>the p50– RelA dimer) translocate to the nucleus, bind DNA</p> <p>and activate gene transcription</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). Knockdown of IKKβ did not have an effect in vitro on CAF survival (data not shown). IKKβ-shRNA CAFs were then coinjected orthotopically with PDSC5 cells. Tumors coinjected with shRNA IKKβ fibroblasts grew significantly slower than did tumors coinjected with control fibroblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa19_ca_csa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15573129"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKK complex"/> <bbox w="100.0" h="164.0" x="2080.0" y="2038.0"/> <glyph class="macromolecule" id="s_id_ca_sa310_ca_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of nuclear factor kappa B kinase subunit beta</p> <p>HUGO:IKBKB hgnc_id:HGNC:5960 HGNC:5960 ENTREZ:3551 UNIPROT:O14920</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). Knockdown of IKKβ did not have an effect in vitro on CAF survival (data not shown). IKKβ-shRNA CAFs were then coinjected orthotopically with PDSC5 cells. Tumors coinjected with shRNA IKKβ fibroblasts grew significantly slower than did tumors coinjected with control fibroblasts</p> </body> </html> </notes> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="2090.0" y="2090.0"/> <glyph class="state variable" id="_f79c5e67-f383-4e4d-b64d-6b7c087a22d9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2085.0" y="2105.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa311_ca_sa311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>HUGO:CHUK hgnc_id:HGNC:1974 HGNC:1974 ENTREZ:1147 UNIPROT:O15111</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). Knockdown of IKKβ did not have an effect in vitro on CAF survival (data not shown). IKKβ-shRNA CAFs were then coinjected orthotopically with PDSC5 cells. Tumors coinjected with shRNA IKKβ fibroblasts grew significantly slower than did tumors coinjected with control fibroblasts</p> </body> </html> </notes> <label text="IKKα*"/> <bbox w="80.0" h="40.0" x="2091.0" y="2135.0"/> <glyph class="state variable" id="_8febf8e9-a9df-463d-b301-904f65ae971b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2086.0" y="2150.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa309_ca_sa309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of nuclear factor kappa B kinase subunit gamma</p> <p>HUGO:IKBKG hgnc_id:HGNC:5961 HGNC:5961 ENTREZ:8517 UNIPROT:Q9Y6K9</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). Knockdown of IKKβ did not have an effect in vitro on CAF survival (data not shown). IKKβ-shRNA CAFs were then coinjected orthotopically with PDSC5 cells. Tumors coinjected with shRNA IKKβ fibroblasts grew significantly slower than did tumors coinjected with control fibroblasts</p> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="2088.0" y="2045.0"/> <glyph class="state variable" id="_26b90b3c-fc9e-47e6-bb13-8b3238729a71"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2163.0" y="2060.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa195_emtc_em_csa195" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LYRIC*:ZO1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="LYRIC*/ZO1*"/> <bbox w="94.0" h="38.0" x="1967.0" y="15189.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1269_emtc_em_sa1269"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>metadherin</p> <p>HUGO:MTDH, HGNC:29608, ENTREZ:92140, UNIPROT:Q86UE4, GENECARDS:GC08P098658  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15383321</p> <p>MTDH is so-called LYRIC</p> <p>LYRIC colocalizes with ZO1 and Occludin in polarized epithelial cells. </p> <p>This protein is most likely not involved in the TJ formation as a structural component. </p> <p>However, it is required for the maturation of the TJ complex</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LYRIC*"/> <bbox w="49.0" h="17.0" x="1968.5" y="15191.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1272_emtc_em_sa1272"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15558297</p> <p>The localization of ZO-1 at gap junctions serves in part to resolve reports of ZO-1 expression in non-epithelial cells such as fibroblasts that lack tight junctions</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1*"/> <bbox w="40.0" h="16.0" x="2018.5" y="15193.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa359_mo_sa359" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>cyclin-dependent kinase inhibitor 2A</p> <p>CDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa359_mo_sa359"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p14ARF*"/> <clone/> <bbox w="80.0" h="40.0" x="3928.5" y="10143.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa359_em_sa2145" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa46_gf1_sa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20430953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGF"/> <bbox w="80.0" h="40.0" x="9155.561" y="17629.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa206_rc_csa206" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa802_ca_sa152"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTGF"/> <clone/> <bbox w="80.0" h="40.0" x="4310.0" y="4746.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1545_emtc_em_sa1545" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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</head> <body> <p>NAME:EZH2:HDAC1:HDAC2:SNAI1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22796940</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>PMID:21685935</p> <p>EZH2 supports carcinoma cell aggressiveness by forming a co-repressor complex with HDAC1 and HDAC2 and Snail to inhibit E-cadherin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa286_emtc_em_csa286"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22796940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21685935"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EZH2/HDAC1/HDAC2/SNAI1"/> <bbox w="177.0" h="75.0" x="3226.0" y="16129.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1889_emtc_em_sa1889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>RPD3L1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22796940</p> <p>The silencing of E-cadherin expression by hypermethylation is a common event in cancer.</p> <p>DNMTs target cytosine residues in CpG dinucleotides for methylation and have been identified in the repression of E-cadherin in normal and pathological contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that inhibit gene expression through chromatin remodeling. </p> <p>The polycomb repressive complex 2 (PRC2) recruits PRC1 after chromatin methylation at H3K27 through enhancer of EZH2, a histone H3 lysine-27-specific methyltransferase.</p> <p>Both, PRC1 and PRC2 have been shown to interact with SNAI1 and TWIST1 to promote EMT.</p> <p>SNAI1 is stabilized through its interaction with the PRC1 component BMI1 and interacts with EZH2 and Suz12 to repress CDH1 expression.</p> <p>Interestingly, EZH2 also participates in TGFb1 signaling, a potent inducer of EMT.</p> <p>BMI-1 can also interact with TWIST to induce EMT.</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>The intricate interactions of EMT-inducing transcription factors and chromatin remodeling complexes PRC1 and PRC2 may offer novel approaches to control EMT and thus cell adhesion in cancer cells via a plethora of new drug, such as HDACs and DNMT inhibitors.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HDAC1"/> <bbox w="50.0" h="16.0" x="3261.0" y="16141.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1890_emtc_em_sa1890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>snail homolog 1 </p> <p>HUGO:SNAI1, HGNC:11128, ENTREZ:6615, UNIPROT:O95863, GENECARDS:GC20P048599</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Feedback loops</p> <p>PMID:22514743</p> <p>PMID:17018611</p> <p>Snai1, Snai2, E47 transcription factors induce common and specific genetic programs, supporting a differential role of the factors in tumor progression and invasion.</p> <p>PMID:17563753 </p> <p>Activation of NF-kappaB by Akt upregulates Snail expression and induces epithelium mesenchyme transition.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="SNAI1"/> <bbox w="40.0" h="20.0" x="3265.0" y="16164.75"/> <glyph class="state variable" id="_f3e81769-afc3-4b38-89f0-e1a7fb2edad3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3260.0" y="16160.772"/> </glyph> <glyph class="state variable" id="_13f046a6-ca8e-4923-ac9c-3840c57b253d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3300.0" y="16160.801"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1887_emtc_em_sa1887"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>enhancer of zeste homolog 2 (Drosophila)</p> <p>"enhancer of zeste (Drosophila) homolog 2"</p> <p>HUGO:EZH2 HGNC:3527 ENTREZ:2146 UNIPROT:Q15910</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22796940</p> <p>The silencing of E-cadherin expression by hypermethylation is a common event in cancer.</p> <p>DNMTs target cytosine residues in CpG dinucleotides for methylation and have been identified in the repression of E-cadherin in normal and pathological contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that inhibit gene expression through chromatin remodeling. </p> <p>The polycomb repressive complex 2 (PRC2) recruits PRC1 after chromatin methylation at H3K27 through enhancer of EZH2, a histone H3 lysine-27-specific methyltransferase.</p> <p>Both, PRC1 and PRC2 have been shown to interact with SNAI1 and TWIST1 to promote EMT.</p> <p>SNAI1 is stabilized through its interaction with the PRC1 component BMI1 and interacts with EZH2 and Suz12 to repress CDH1 expression.</p> <p>Interestingly, EZH2 also participates in TGFb1 signaling, a potent inducer of EMT.</p> <p>BMI-1 can also interact with TWIST to induce EMT.</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>The intricate interactions of EMT-inducing transcription factors and chromatin remodeling complexes PRC1 and PRC2 may offer novel approaches to control EMT and thus cell adhesion in cancer cells via a plethora of new drug, such as HDACs and DNMT inhibitors.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="EZH2"/> <bbox w="41.0" h="16.0" x="3319.0" y="16165.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1888_emtc_em_sa1888"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 2</p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22796940</p> <p>The silencing of E-cadherin expression by hypermethylation is a common event in cancer.</p> <p>DNMTs target cytosine residues in CpG dinucleotides for methylation and have been identified in the repression of E-cadherin in normal and pathological contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that inhibit gene expression through chromatin remodeling. </p> <p>The polycomb repressive complex 2 (PRC2) recruits PRC1 after chromatin methylation at H3K27 through enhancer of EZH2, a histone H3 lysine-27-specific methyltransferase.</p> <p>Both, PRC1 and PRC2 have been shown to interact with SNAI1 and TWIST1 to promote EMT.</p> <p>SNAI1 is stabilized through its interaction with the PRC1 component BMI1 and interacts with EZH2 and Suz12 to repress CDH1 expression.</p> <p>Interestingly, EZH2 also participates in TGFb1 signaling, a potent inducer of EMT.</p> <p>BMI-1 can also interact with TWIST to induce EMT.</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>The intricate interactions of EMT-inducing transcription factors and chromatin remodeling complexes PRC1 and PRC2 may offer novel approaches to control EMT and thus cell adhesion in cancer cells via a plethora of new drug, such as HDACs and DNMT inhibitors.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HDAC2"/> <bbox w="53.0" h="17.0" x="3315.0" y="16139.25"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa11_mo_sa11" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Cell-cell adhesions"/> <bbox w="147.0" h="42.0" x="3724.5" y="8885.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3229_rc_sa3229" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3229_rc_sa3229"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="22932.06" y="9754.25"/> <glyph class="state variable" id="_f57989f3-86ea-4ff2-af9d-0c276bf678db"> <state value="P" variable="S161"/> <bbox w="35.0" h="10.0" x="22970.89" y="9789.25"/> </glyph> <glyph class="state variable" id="_2b910478-fbb8-40f4-82b2-a59292e7f190"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22927.06" y="9760.421"/> </glyph> <glyph class="state variable" id="_4d124758-5a88-4262-9a2a-c970a268e599"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22969.896" y="9749.25"/> </glyph> <glyph class="state variable" id="_070b774a-10ce-4fab-a895-98465a8dcb2d"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="22997.06" y="9760.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa33_wca1_wca1_csa33" compartmentRef="s_id_wca1_wca1_ca4_wca1_wca1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>References:</p> <p>s_wca1_re32:(MAP:survival) PMID:17569865 PMID:20229235</p> <p>s_wca1_re33(MAP:survival):</p> <p>PMID:19561074 PMID:20460648 PMID:19581931 PMID:21304492 PMID:21498506</p> <p>AMER1 recruits axin</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa33_wca1_wca1_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17569865"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMER1*:CK1ε*:CK1γ*:DVL*:E-Cadherin*:FZD*:Gβ*:Gγ*:LRP5_6*:PRR*:WNT*:β-Arrestin2*:p120*"/> <bbox w="325.0" h="231.0" x="22332.56" y="17573.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa411_wca1_wca1_sa411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22534.56" y="17628.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa547_wca1_wca1_sa547"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22520.56" y="17752.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa583_wca1_wca1_sa583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22562.06" y="17586.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa203_wca1_wca1_sa203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22531.56" y="17709.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa546_wca1_wca1_sa546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22480.56" y="17752.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa205_wca1_wca1_sa205"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22399.06" y="17684.5"/> <glyph class="unit of information" id="_de146132-957e-4704-92f4-1dbd3f804246"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22416.56" y="17679.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa608_wca1_wca1_sa608"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22422.06" y="17626.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa204_wca1_wca1_sa204"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22399.06" y="17640.5"/> <glyph class="state variable" id="_3b541a92-2561-4f6c-9b8c-b0b56297352e"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22379.06" y="17660.46"/> </glyph> <glyph class="state variable" id="_23bfd4c0-474d-4778-8d7d-3567603f7f16"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="22461.56" y="17635.766"/> </glyph> <glyph class="state variable" id="_2625d1ca-443a-4f46-ac11-c8693aa9a075"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="22460.941" y="17685.5"/> </glyph> <glyph class="state variable" id="_3085e445-aaec-4bc0-bb98-4b37a3d162c2"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="22420.664" y="17685.5"/> </glyph> <glyph class="state variable" id="_f8ca1dcc-0e84-4ab0-b5ac-c35790c258de"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="22381.8" y="17685.5"/> </glyph> <glyph class="state variable" id="_922b4ca2-5809-4514-84b4-38de15417190"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="22421.592" y="17635.5"/> </glyph> <glyph class="unit of information" id="_25c64a03-f1c1-4e7d-815a-df0383531c89"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22416.56" y="17635.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa202_wca1_wca1_sa202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22533.56" y="17669.5"/> <glyph class="state variable" id="_81ea4d5c-69e8-402c-b385-4387a63f8aa7"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="22519.053" y="17664.5"/> </glyph> <glyph class="state variable" id="_ee2800a7-2216-4f5e-ab84-9590c166dda4"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="22558.592" y="17664.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa556_wca1_wca1_sa556"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22561.56" y="17751.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa655_wca1_wca1_sa655"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="22346.242" y="17669.182"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa201_wca1_wca1_sa201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22479.56" y="17588.5"/> <glyph class="state variable" id="_331afc09-d2a9-4970-aca7-9aafd4815b62"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22527.56" y="17583.5"/> </glyph> <glyph class="state variable" id="_ce4fa58c-b0fb-4e12-aae9-470dae3e5ec3"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22517.56" y="17584.152"/> </glyph> <glyph class="state variable" id="_568ee0a8-0823-4c79-821c-f98ee9b2e455"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22515.629" y="17706.5"/> </glyph> <glyph class="state variable" id="_df433634-69fd-4095-b684-738daaf902b6"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22465.404" y="17583.5"/> </glyph> <glyph class="state variable" id="_80046da0-4c04-481a-b41f-8e0d32261d24"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22464.719" y="17706.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa207_wca1_wca1_sa207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22399.81" y="17732.5"/> <glyph class="state variable" id="_1b0e8f19-6a09-4de1-9c7a-a634a5451ec0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22472.31" y="17727.5"/> </glyph> <glyph class="state variable" id="_52e51ecf-b745-493d-a850-26cdd56441e7"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="22382.31" y="17767.22"/> </glyph> <glyph class="state variable" id="_6beecddf-32c3-42aa-a30a-a97153f7d5b8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22394.814" y="17727.5"/> </glyph> <glyph class="state variable" id="_76ccb0a6-8d41-49d6-a252-b9c2e2f2f461"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22461.691" y="17767.5"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa181_wca1_wca1_sa181" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re30(MAP:survival):</p> <p>PMID:19561074</p> <p>PI4KIIalpha and PIP5KIbeta are in complex together with DVL. To keep complex clear the enzymes are left outside of this complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa181_wca1_wca1_sa181"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PtdIns"/> <bbox w="70.0" h="25.0" x="22688.06" y="17951.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa353_emtc_em_csa353" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Elastin partners*:Elastin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Elastin/Elastin partners)"/> <bbox w="145.0" h="65.0" x="6253.0" y="18943.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2492_emtc_em_sa2492"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Laminin 1*</p> <p>laminin, alpha 1</p> <p>HUGO:LAMA1 HGNC:6481 ENTREZ:284217 UNIPROT:P25391</p> <p>laminin, beta 1</p> <p>CLM, "cutis laxa with marfanoid phenotype"</p> <p>HUGO:LAMB1 HGNC:6486 ENTREZ:3912 UNIPROT:P07942</p> <p>laminin, gamma 1</p> <p>HUGO:LAMC1 HGNC:6492 ENTREZ:3915 UNIPROT:P11047</p> <p>fibulin 1</p> <p>HUGO:FBLN1 HGNC:3600 ENTREZ:2192 UNIPROT:P23142</p> <p>fibulin 2</p> <p>HUGO:FBLN2 HGNC:3601 ENTREZ:2199 UNIPROT:P98095</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:114518</p> <p>Laminin-1: LAMA1, LAMB1, LAMC1</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Elastin partners*"/> <bbox w="107.0" h="22.0" x="6274.75" y="18966.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2491_emtc_em_sa2491"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>elastin</p> <p>HUGO:ELN HGNC:3327 ENTREZ:2006 UNIPROT:P15502</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Elastin*"/> <bbox w="49.0" h="18.0" x="6302.75" y="18946.5"/> </glyph> </glyph> <glyph 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compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATF3:SMAD2_3*:SMAD4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="ATF3/SMAD2_3*/SMAD4"/> <bbox w="149.0" h="60.0" x="4546.0" y="16503.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2007_emtc_em_sa2007"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2_3*"/> <bbox w="67.0" h="19.0" x="4555.75" y="16504.625"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2008_emtc_em_sa2008"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="4632.25" y="16504.875"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2006_emtc_em_sa2006"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>activating transcription factor 3</p> <p>HUGO:ATF3, HGNC:785, ENTREZ:467, GENECARDS:GC01P212738, UNIPROT:P18847</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ATF3"/> <bbox w="32.0" h="19.0" x="4585.75" y="16525.375"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa117_rc_sa117" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16761 KEGGCOMPOUND:C00008 CAS:58-64-0</p> </body> </html> </notes> <label text="ADP"/> <clone/> <bbox w="70.0" h="25.0" x="18985.06" y="15043.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa117_rc_sa2517" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16761 KEGGCOMPOUND:C00008 CAS:58-64-0</p> </body> </html> </notes> <label text="ADP"/> <clone/> <bbox w="70.0" h="25.0" x="20721.31" y="14354.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa117_rc_sa214" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16761 KEGGCOMPOUND:C00008 CAS:58-64-0</p> </body> </html> </notes> <label text="ADP"/> <clone/> <bbox w="70.0" h="25.0" x="19638.31" y="14791.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa117_rc_sa354" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16761 KEGGCOMPOUND:C00008 CAS:58-64-0</p> </body> </html> </notes> <label text="ADP"/> <clone/> <bbox w="70.0" h="25.0" x="19891.686" y="14623.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa117_rc_sa470" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16761 KEGGCOMPOUND:C00008 CAS:58-64-0</p> </body> </html> </notes> <label text="ADP"/> <clone/> <bbox w="70.0" h="25.0" x="20119.568" y="14351.896"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa117_rc_sa2525" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16761 KEGGCOMPOUND:C00008 CAS:58-64-0</p> </body> </html> </notes> <label text="ADP"/> <clone/> <bbox w="70.0" h="25.0" x="20803.81" y="14414.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4801_rc_sa4801" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS MODULE:STARVATION_AUTOPHAGY MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4801_rc_sa4801"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell survival"/> <clone/> <bbox w="128.0" h="37.0" x="28295.31" y="14520.719"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4801_mo_sa43" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS MODULE:STARVATION_AUTOPHAGY MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4801_mo_sa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell survival"/> <clone/> <bbox w="80.0" h="30.0" x="4703.0" y="9968.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4801_mo_sa362" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS MODULE:STARVATION_AUTOPHAGY MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Immunoglobulins*"/> <bbox w="80.0" h="40.0" x="10495.0" y="1600.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4952_rc_sa4952" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4952_rc_sa4952"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB2"/> </rdf:Bag> </bqbiol:isEncodedBy> 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In contrast, B7-H4 expression can be induced on T cells, B cells, monocytes, and DC after in vitro stimulation</p> <p>B7H4 inhibits T-cell response. Receptor for this protein is uknown.</p> <p>B7-H4 expression in tumor tissues from breast, uterus, ovary, colon, and pancreas showed a statistically significant increase in percentage B7-H4 expressed and stage</p> <p>PMID:12818165</p> <p>By arresting cell cycle, B7-H4 ligation of T cells has a profound inhibitory effect on the growth, cytokine secretion, and development of cytotoxicity.</p> <p>It inhibits IL-2, IL-4, IL-10, and IFN-γ secretion from B7-1 costimulated T cells. B7-H4 Inhibits CD28 Costimulation</p> <p>PMID:12818166</p> <p>the expression of JunB, a component of the AP-1 family induced after T cell activation, was reduced by 49% after B7S1 costimulation. On the other hand, there was little change in c-Jun expression (11% reduction) with B7S1-Ig treatment. JunB has been previously shown to bind to the IL-2 promoter (Boise et al., 1993 and JunB overexpression resulted in greater IL-2 production (our unpublished data). Since JunB is induced after T cell activation (Jain et al., 1995, the mechanism of which is unknown, B7S1 costimulation may result in inefficient JunB induction.</p> <p>PMID:12818166</p> <p>B7S1(VTCN1) is expressed on professional APC and widely distributed in nonlymphoid tissues. A soluble B7S1-Ig fusion protein binds to activated but not naive T cells. B7S1-Ig inhibits T cell activation and IL-2 production. A monoclonal antibody that blocks binding of B7S1 to its receptor enhances T cell proliferation in vitro and exacerbates experimental autoimmune encephalomyelitis in vivo.</p> <p>PMID:29189263 </p> <p>high levels of B7-H4 expression are inversely correlated with tumor T-cell infiltration and with CD14-labeled macrophages in Ovarian Cancer</p> <p>PMID:28978159</p> <p>high expression of B7-H4 is a negative correlation with the outcome of cancer patients.</p> <p>PMID:12796776 </p> <p>B7x (VTCN1)is a ligand, although not necessarily the only ligand, for BTLA (idirect data)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa170_ad_sa170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VTCN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818165"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24657487"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28325750"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818165"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818166"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818166"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29189263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28978159"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12796776"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="B7H4*"/> <bbox w="80.0" h="40.0" x="26246.0" y="2180.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4937_rc_sa4937" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4937_rc_sa4937"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="tumor microenvironments"/> <bbox w="190.0" h="25.0" x="27334.06" y="13366.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa365_emtc_em_csa365" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa365_emtc_em_csa365"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10826997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12767520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19030972"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16931767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21540285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12444011"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(BAD/14-3-3 family)"/> <bbox w="128.0" h="67.0" x="5941.0" y="13558.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2549_emtc_em_sa2549"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD, HGNC:936, ENTREZ:572, UNIPROT:Q92934, GENECARDS:GC11M064037</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>IRS3 and IRS4 however have negative effect on anti-apoptotic effects of IGFR.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAD"/> <bbox w="38.0" h="20.0" x="5992.5" y="13565.5"/> <glyph class="state variable" id="_c8df9652-1dfb-4294-b87d-b0a581ed63cb"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6004.395" y="13560.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2548_emtc_em_sa2548"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>14-3-3*</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 GENECARDS:SFN REACTOME:48913 KEGG:2810 ATLASONC:GC_SFN WIKI:SFN </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>YWHAB is so-called 14-3-3 alpha/beta</p> <p>PMID:9069260</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="105.0" h="17.0" x="5959.5" y="13586.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2358_emtc_em_sa2358" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2358_emtc_em_sa2358"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR2"/> <bbox w="80.0" h="50.0" x="2157.5" y="12609.5"/> <glyph class="unit of information" id="_95045b16-10df-4de4-8c7f-4df7c3dcdbe2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2175.0" y="12604.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa17_an_csa17" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> <p>PMID:11532940</p> <p>PMID:11335727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa17_an_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11335727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s49"/> <bbox w="210.0" h="250.0" x="5767.0" y="5880.0"/> <glyph class="macromolecule" id="s_id_an_sa168_an_sa168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CRK HGNC:2362</p> <p>PMID:16076871</p> </body> </html> </notes> <label text="CRK"/> <bbox w="80.0" h="40.0" x="5787.0" y="6010.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa530_an_sa531"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12682</p> </body> </html> </notes> <label text="VEGFC"/> <bbox w="80.0" h="40.0" x="5793.4546" y="5898.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa140_an_sa140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4566</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="5885.75" y="6008.4375"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa530_an_sa530"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12682</p> </body> </html> </notes> <label text="VEGFC"/> <bbox w="80.0" h="40.0" x="5783.4546" y="5888.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa135_an_sa135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3767</p> <p>synonyms:PCL, VEGFR3</p> </body> </html> </notes> <label text="FLT4"/> <bbox w="80.0" h="50.0" x="5788.25" y="5940.3125"/> <glyph class="state variable" id="_675832c5-c8a5-4571-8004-66d77be356f1"> <state value="" variable="Y1063"/> <bbox w="35.0" h="10.0" x="5850.75" y="5942.139"/> </glyph> <glyph class="state variable" id="_0062d544-a266-4f7f-9902-fd207211a7f3"> <state value="" variable="Y1230"/> <bbox w="35.0" h="10.0" x="5770.75" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2431_emtc_em_sa2431"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF4"/> <bbox w="41.0" h="18.0" x="3459.0" y="19013.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1496_ce_sa1496" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Undamaged DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER, MODULE:NER, MODULE:MMR, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ, MODULE:FANCONI, MODULE:TLS, MODULE:SSA, MODULE:DRReferences:PMID:23892398 ----- content merged by Celldesigner to SBGN-ML translation ------ Undamaged DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER, MODULE:NER, MODULE:MMR, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ, MODULE:FANCONI, MODULE:TLS, MODULE:SSA, MODULE:DRReferences:PMID:23892398 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1496_ce_sa1496"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Intact_DNA*"/> <bbox w="217.0" h="25.0" x="12040.27" y="14829.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5499_rc_sa5499" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5499_rc_sa5499"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHOA"/> <bbox w="80.0" h="40.0" x="29329.06" y="9299.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa691_ca_sa691" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa691_ca_sa691"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42BPA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42BPB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MRCK*"/> <clone/> <bbox w="80.0" h="40.0" x="5900.0" y="3240.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa691_ca_sa699" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa691_ca_sa699"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42BPA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42BPB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MRCK*"/> <clone/> <bbox w="80.0" h="40.0" x="5900.0" y="3340.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa293_rc_csa293" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NRF1:PPARGC1A</p> </body> </html> </notes> <label text="NRF1:PGC1α"/> <bbox w="101.0" h="131.0" x="19711.06" y="16528.5"/> <glyph class="macromolecule" id="s_id_rc_sa2393_rc_sa2393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear respiratory factor 1</p> <p>HUGO:NRF1 HGNC:7996 ENTREZ:4899 UNIPROT:Q16656</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="NRF1"/> <bbox w="80.0" h="40.0" x="19721.06" y="16548.5"/> <glyph class="state variable" id="_ad3e1a87-81d7-4cdd-85b6-eb318ef8b60b"> <state value="" variable="S47"/> <bbox w="25.0" h="10.0" x="19765.129" y="16543.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2394_rc_sa2394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peroxisome proliferator-activated receptor gamma, coactivator 1 alpha</p> <p>HUGO:PPARGC1A HGNC:9237 ENTREZ:10891 UNIPROT:Q9UBK2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:PGC1alpha</p> </body> </html> </notes> <label text="PPARGC1A"/> <bbox w="80.0" h="40.0" x="19722.06" y="16596.5"/> <glyph class="state variable" id="_54b35c0c-9fd5-4bc7-b3a5-13191a85caf8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19773.629" y="16591.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa254_shh1_shh1_sa254" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa254_shh1_shh1_sa254"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HHIP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HHIP1"/> <bbox w="78.0" h="114.0" x="27640.06" y="17578.0"/> <glyph class="unit of information" id="_5d9c5080-556e-413a-8d52-da05f72824b9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27656.56" y="17573.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa127_ce_csa127" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK4,6*/CycD*"/> <clone/> <bbox w="99.0" h="107.0" x="11262.473" y="9567.356"/> <glyph class="macromolecule" id="s_id_ce_sa807_ce_sa807"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, UNIPROT:P11802</p> <p>Cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, UNIPROT:Q00534</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK4_6*"/> <clone/> <bbox w="80.0" h="40.0" x="11272.473" y="9612.856"/> <glyph class="state variable" id="_179d6b76-991e-4a9d-9d8d-8a0ad3d6c221"> <state value="P" variable="Y14"/> <bbox w="30.0" h="10.0" x="11278.906" y="9607.856"/> </glyph> <glyph class="state variable" id="_5b0a9f9d-2d14-41bd-956d-4c1eed0690c8"> <state value="" variable="T172"/> <bbox w="30.0" h="10.0" x="11257.473" y="9627.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa808_ce_sa808"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, UNIPROT:P24385</p> <p>Cyclin D2</p> <p>HUGO:CCND2, HGNC:1583, ENTREZ:894, UNIPROT:P30279</p> <p>Cyclin D3</p> <p>HUGO:CCND3, HGNC:1585, ENTREZ:896, UNIPROT:P30281</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinD*"/> <clone/> <bbox w="80.0" h="40.0" x="11272.473" y="9570.856"/> <glyph class="state variable" id="_a1468c9b-8d70-41c4-8fe6-42d314eb073b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11267.473" y="9585.856"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa127_ce_csa129" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK4,6*/CycD*"/> <clone/> <bbox w="99.0" h="107.0" x="11552.473" y="9567.356"/> <glyph class="macromolecule" id="s_id_ce_sa808_ce_sa812"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, UNIPROT:P24385</p> <p>Cyclin D2</p> <p>HUGO:CCND2, HGNC:1583, ENTREZ:894, UNIPROT:P30279</p> <p>Cyclin D3</p> <p>HUGO:CCND3, HGNC:1585, ENTREZ:896, UNIPROT:P30281</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinD*"/> <clone/> <bbox w="80.0" h="40.0" x="11562.473" y="9570.856"/> <glyph class="state variable" id="_3475da63-c1df-453f-8a86-bdec3deea3a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11557.473" y="9585.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa807_ce_sa811"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, UNIPROT:P11802</p> <p>Cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, UNIPROT:Q00534</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK4_6*"/> <clone/> <bbox w="80.0" h="40.0" x="11560.473" y="9613.856"/> <glyph class="state variable" id="_4e24e6bf-19ab-4207-af4d-f6f255c18a03"> <state value="P" variable="Y14"/> <bbox w="30.0" h="10.0" x="11566.906" y="9608.856"/> </glyph> <glyph class="state variable" id="_a5464bb6-30f1-422d-9be6-3f11ccc306e5"> <state value="" variable="T172"/> <bbox w="30.0" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa653_rc_sa653"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CA9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CA9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CA9"/> <bbox w="90.0" h="25.0" x="23191.06" y="16050.5"/> <glyph class="unit of information" id="_1e0af4c0-4132-44e7-ba41-338b031a0e39"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23226.06" y="16045.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa506_ca_sa506" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa506_ca_sa506"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL5"/> <bbox w="90.0" h="25.0" x="1365.0" y="3517.0"/> <glyph class="unit of information" id="_f495470f-5b0a-4527-8014-305e9a3f6219"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1400.0" y="3512.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa530_ca_sa530" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16572188</p> <p> Fibroblasts can acquire an activated phenotype, which is associated with an increased proliferative activity and enhanced secretion of ECM proteins such as type I collagen and tenascin C, and also fibronectin that contains the extra domain a (EDA-fibronectin) and SPARC (secreted protein acidic and rich in cysteine). </p> <p>PDGF induces the proliferation of fibroblasts, but does not induce the acquisition of an activated phenotype that is associated with excessive ECM deposition.</p> <p>FGF2 was originally identified as a 'basic fibroblast growth factor', which stimulates the proliferation of 3T3 fibroblasts but not the expression of -smooth-muscle actin. </p> <p>PMID:12782713 </p> <p>CD74 mediates MIF stimulation of ERK-1/2 (p44/p42) phosphorylation and proliferation of CCL210 human lung fibroblasts.</p> <p>PMID:22652804</p> <p>TGF-β1 CM enhanced fibroblast proliferation and</p> <p>differentiation. FGF-2 is</p> <p>necessary for the fibroblast proliferation induced by TGF.</p> <p>. 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receptor)</p> <p>CD49B</p> </body> </html> </notes> <label text="ITGA2"/> <bbox w="80.0" h="40.0" x="3726.0" y="11497.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1083_ca_sa1083" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:19644055 </p> <p>Poldip2 co-localizes with p22phox at sites of Nox4 in SMCs and, when present, increases Nox4 activity by three-fold. 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa863_emtc_em_sa863"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT19"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT19"/> <bbox w="60.0" h="20.0" x="5362.5" y="15496.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa1_wnc1_wnc1_sa1" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<p>NAME:EGF family*:EGFR family*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(EGF family/EGFR)"/> <bbox w="101.0" h="109.0" x="2802.0" y="18458.5"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2376_emtc_em_sa2376"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Receptor tyrosine kinase</p> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 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id="_2c069b67-e6ff-417b-a741-aaaee810491d"> <state value="" variable="S584"/> <bbox w="30.0" h="10.0" x="13715.368" y="18784.535"/> </glyph> <glyph class="state variable" id="_8aa53e10-f0e2-420c-b589-cadf00eec6f0"> <state value="" variable="T1047"/> <bbox w="35.0" h="10.0" x="13635.782" y="18784.258"/> </glyph> <glyph class="state variable" id="_494a55bb-66be-416e-a72f-19a5aa20ba4f"> <state value="" variable="S511"/> <bbox w="30.0" h="10.0" x="13718.282" y="18764.535"/> </glyph> <glyph class="state variable" id="_bfea4fe5-8d02-4868-be4d-68b9be01aea9"> <state value="" variable="S487"/> <bbox w="30.0" h="10.0" x="13718.282" y="18744.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa46_ce_csa46" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BRCA1:CTIP*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>This complex exists only in S-G2 phase and facilitates shift from A_NHEJ to HR in cell cycle-dependent manner</p> <p>PMID:15485915, PMID:19357644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa46_ce_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15485915"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19357644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/CtIP*"/> <bbox w="100.0" h="135.0" x="14660.473" y="14641.356"/> <glyph class="macromolecule" id="s_id_ce_sa582_ce_sa582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma binding protein 8 (RIM)</p> <p>CTBP-interacting protein (CtIP)</p> <p>HUGO:RBBP8, HGNC:9891, ENTREZ:5932, UNIPROT:Q99708</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:17965729, PMID:9721205, PMID:19202191, PMID:18171986, PMID:20723763</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="CTIP*"/> <bbox w="80.0" h="40.0" x="14672.916" y="14708.191"/> <glyph class="state variable" id="_a486dc28-9360-4f57-bf63-d81c49c233ab"> <state 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<p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14670.896" y="14657.013"/> <glyph class="state variable" id="_26eb26be-0d9e-4e87-ac30-198512c1637d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14742.982" y="14692.013"/> </glyph> <glyph class="state variable" id="_3c6c12c4-69f1-491e-8cd9-3d74ec5ccfc0"> <state value="P" variable="S988"/> <bbox w="35.0" h="10.0" x="14708.258" y="14652.013"/> </glyph> <glyph class="state variable" id="_44d19dc8-2973-41e0-aca9-2dfe1f7bd74d"> <state value="P" variable="S1423"/> <bbox w="40.0" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TERF2 interacting protein </p> </body> </html> </notes> <label text="RAP1*"/> <bbox w="80.0" h="40.0" x="1793.0" y="10612.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa405_mo_sa405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTP4A3</p> </body> </html> </notes> <label text="PTP4A3"/> <bbox w="80.0" h="40.0" x="1793.0834" y="10567.167"/> <glyph class="state variable" id="_3b670404-87bb-425a-8a57-d6a261782e58"> <state value="Pr" variable=""/> <bbox w="20.0" h="10.0" x="1783.0834" y="10573.883"/> </glyph> <glyph class="state variable" id="_6dd826ec-922b-467e-bbbb-bf43511fb37d"> <state value="" variable="Y53"/> <bbox w="25.0" h="10.0" x="1837.152" y="10562.167"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa82_wnc1_wnc4_sa82" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa82_wnc1_wnc4_sa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HRAS"/> <bbox w="80.0" h="40.0" x="19263.06" y="21334.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3167_rc_sa3167" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3167_rc_sa3167"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K3"/> <bbox w="80.0" h="40.0" x="22507.06" y="10930.0"/> <glyph class="state variable" id="_343b1f17-00c1-425b-a9b7-e1f3c4e511f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22558.629" y="10925.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa151_shh1_shh2_sa151" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re96:(MAP:survival) PMID:15994944</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa151_shh1_shh2_sa151"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15994944"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PI3K Akt MTOR pathway"/> <bbox w="80.0" h="30.0" x="26898.06" y="21178.0"/> </glyph> <glyph class="phenotype" id="s_id_akt1_akt2_sa41_akt1_akt2_sa41" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_akt2_re18(MAP:survival):</p> <p>PMID:17218262</p> <p>PMID:17218252</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa41_akt1_akt2_sa41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218262"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218252"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Chromosome integrity and DSB repair"/> <bbox w="80.0" h="30.0" x="13037.311" y="21294.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa489_in_sa489" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PDPK1"/> <bbox w="80.0" h="40.0" x="16950.0" y="3610.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa350_emtc_em_csa350" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:Formin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Actin/Formin)"/> <bbox w="121.0" h="66.0" x="1614.0" y="16229.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2474_emtc_em_sa2474"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>formin 1</p> <p>FMN, "formin (limb deformity)", LD</p> <p>HUGO:FMN1 HGNC:3768 ENTREZ:342184 UNIPROT:Q68DA7</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Formin*"/> <bbox w="62.0" h="17.0" x="1627.5" y="16258.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2473_emtc_em_sa2473"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="1620.5" y="16233.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa492_wca1_wca1_sa492" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa492_wca1_wca1_sa492"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa493_emtc_em_sa493"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD1*"/> <clone/> <bbox w="80.0" h="20.0" x="3328.0" y="14712.5"/> <glyph class="unit of information" id="_98e0fbeb-357d-4c37-b3bb-abbb748a4c48"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3358.0" y="14707.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa493_rc_sa2568" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa493_rc_sa2568"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD1*"/> <clone/> <bbox w="90.0" h="25.0" x="23582.56" y="16016.5"/> <glyph class="unit of information" id="_0e6ef489-04c2-4bde-a085-967e283d1f9f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23617.56" y="16011.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3707_rc_sa3707" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 17659</p> </body> </html> </notes> <label text="UDP"/> <clone/> <bbox w="70.0" h="25.0" x="19864.06" y="10796.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3707_rc_sa2800" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 17659</p> </body> </html> </notes> <label text="UDP"/> <clone/> <bbox w="70.0" h="25.0" x="19074.06" y="11856.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3707_rc_sa4282" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 17659</p> </body> </html> </notes> <label text="UDP"/> <clone/> <bbox w="70.0" h="25.0" x="19284.06" y="11796.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3707_rc_sa3705" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 17659</p> </body> </html> </notes> <label text="UDP"/> <clone/> <bbox w="70.0" h="25.0" x="20116.56" y="10701.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2694_in_sa2694" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL12RB1"/> <clone/> <bbox w="80.0" h="50.0" x="23205.0" y="3495.0"/> <glyph class="unit of information" id="_75298a88-e3dd-4c65-ba33-58907bc67e57"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23222.5" y="3490.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2694_in_sa1921" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL12RB1"/> <clone/> <bbox w="80.0" h="50.0" x="23395.0" y="3485.0"/> <glyph class="unit of information" id="_b4a6b662-60cc-47f5-a856-ee3b11f3a33f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23412.5" y="3480.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa433_rc_csa433" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IRS1:NGF:PI3K*:TrkA*</p> <p>References:</p> <p>17604717</p> <p>The lack of NGF suppresses the survival signals controlled by PI3K-Akt, finally leading to a de-repression of the pro-apoptotic Bad; on the other hand, the loss of the survival signals is associated with JNK-mediated transcriptional activation of other pro-apoptotic inducers such as DP5, Bim and Puma.</p> </body> </html> </notes> <label text="NGF:TrkA*:IRS1:PI3K*"/> <bbox w="110.0" h="240.0" x="20799.06" y="9079.0"/> <glyph class="macromolecule" id="s_id_rc_sa4207_rc_sa4207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit alpha</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17604717</p> <p>PMID:22465479</p> <p>The lack of NGF suppresses the survival signals controlled by PI3K-Akt, finally leading to a de-repression of the pro-apoptotic Bad; on the other hand, the loss of the survival signals is associated with JNK-mediated transcriptional activation of other pro-apoptotic inducers such as DP5, Bim and Puma.</p> </body> </html> </notes> <label text="TrkA*"/> <bbox w="80.0" h="50.0" x="20819.06" y="9144.0"/> <glyph class="unit of information" id="_0f12bd39-17a1-472f-ba2e-85422f10fdb1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20836.56" y="9139.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4205_rc_sa4206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nerve growth factor (beta polypeptide)</p> <p>HUGO:NGF HGNC:7808 ENTREZ:4803 UNIPROT:P01138</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:22465479</p> </body> </html> </notes> <label text="NGF"/> <bbox w="80.0" h="40.0" x="20809.06" y="9089.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4197_rc_sa4197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>insulin receptor substrate 1</p> <p>HUGO:IRS1 HGNC:6125 ENTREZ:3667 UNIPROT:P35568</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17604717</p> <p>PMID:24036369</p> <p>PMID:22465479</p> <p>Activated receptor tyrosine kinases (RTKs) activate class I phosphatidylinositol 3-kinase (PI3K) through direct binding or through tyrosine phosphorylation of scaffolding adaptors, such as IRS1, which then bind and activate PI3K</p> </body> </html> </notes> <label text="IRS1"/> <bbox w="80.0" h="40.0" x="20819.06" y="9199.0"/> <glyph class="state variable" id="_590bbe36-e0b6-42f2-98e7-9b48cb523d09"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="20868.129" y="9194.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4190_rc_sa4190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit alpha</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17604717</p> <p>PMID:24036369</p> <p>I3K phosphorylates phosphatidylinositol-4,5-bisphosphate (PIP2) to generate phosphatidylinositol-3,4,5-trisphosphate (PIP3), in a reaction that can be reversed by the PIP3 phosphatase PTEN</p> <p>PMID:22421439</p> <p>PMID:28645028</p> </body> </html> </notes> <label text="PI3K*"/> <bbox w="80.0" h="40.0" x="20819.06" y="9249.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4207_rc_sa4208"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit alpha</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17604717</p> <p>PMID:22465479</p> <p>The lack of NGF suppresses the survival signals controlled by PI3K-Akt, finally leading to a de-repression of the pro-apoptotic Bad; on the other hand, the loss of the survival signals is associated with JNK-mediated transcriptional activation of other pro-apoptotic inducers such as DP5, Bim and Puma.</p> </body> </html> </notes> <label text="TrkA*"/> <bbox w="80.0" h="50.0" x="20809.06" y="9134.0"/> <glyph class="unit of information" id="_63f4a197-21d9-403d-a97f-265d77fbddaf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20826.56" y="9129.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4205_rc_sa4205"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nerve growth factor (beta polypeptide)</p> <p>HUGO:NGF HGNC:7808 ENTREZ:4803 UNIPROT:P01138</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:22465479</p> </body> </html> </notes> <label text="NGF"/> <bbox w="80.0" h="40.0" x="20819.06" y="9099.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3782_rc_sa3782" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15721 KEGGCOMPOUND:C05382 CAS:2646-35-7</p> </body> </html> </notes> <label text="sedoheptulose-7P"/> <clone/> <bbox w="125.0" h="23.0" x="18559.06" y="10202.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3782_rc_sa2965" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15721 KEGGCOMPOUND:C05382 CAS:2646-35-7</p> </body> </html> </notes> <label text="sedoheptulose-7P"/> <clone/> <bbox w="125.0" h="23.0" x="18559.06" y="10152.75"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa1235_rc_sa1235" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s2373"/> <bbox w="30.0" h="30.0" x="26644.06" y="10434.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa300_ce_sa300" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa300_ce_sa300"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MLH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MLH1"/> <bbox w="80.0" h="40.0" x="11858.127" y="15917.285"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa62_shh1_shh1_csa62" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRK*:G_beta__sub_i_endsub_*:G_gamma__sub_i_endsub_*</p> <p>References:</p> <p>s_shh1_re115(MAP:survival):</p> <p>PMID:12764189</p> <p>PMID:18815277</p> <p>s_shh1_re28:(MAP:survival) PMID:15618519</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa62_shh1_shh1_csa62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12764189"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15618519"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRK_Gβi_endsubγdimer"/> <bbox w="105.0" h="109.0" x="26310.06" y="17964.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa351_shh1_shh1_sa351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gβi*"/> <bbox w="40.0" h="30.0" x="26320.56" y="18016.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa352_shh1_shh1_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gγi*"/> <bbox w="40.0" h="30.0" x="26363.56" y="18015.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa144_shh1_shh1_sa144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein-coupled receptor kinase 1</p> <p>HUGO:GRK1 HGNC:10013 ENTREZ:6011 UNIPROT:Q15835 GENECARDS:GRK1 KEGG:6011 ATLASONC:GC_GRK1 WIKI:GRK1 </p> <p>G protein-coupled receptor kinase 4</p> <p>HUGO:GRK4 HGNC:4543 ENTREZ:2868 UNIPROT:P32298 GENECARDS:GRK4 KEGG:2868 ATLASONC:GC_GRK4 WIKI:GRK4 </p> <p>G protein-coupled receptor kinase 5</p> <p>HUGO:GRK5 HGNC:4544 ENTREZ:2869 UNIPROT:P34947 GENECARDS:GRK5 REACTOME:55956 KEGG:2869 WIKI:GRK5 </p> <p>G protein-coupled receptor kinase 6</p> <p>HUGO:GRK6 HGNC:4545 ENTREZ:2870 UNIPROT:P43250 GENECARDS:GRK6 KEGG:2870 ATLASONC:GC_GRK6 WIKI:GRK6 </p> <p>G protein-coupled receptor kinase 7</p> <p>HUGO:GRK7 HGNC:17031 ENTREZ:131890 UNIPROT:Q8WTQ7 GENECARDS:GRK7 KEGG:131890 WIKI:GRK7 </p> <p>adrenergic beta receptor kinase 1</p> <p>HUGO:ADRBK1 HGNC:289 ENTREZ:156 UNIPROT:P25098 GENECARDS:ADRBK1 REACTOME:50271 KEGG:156 ATLASONC:GC_ADRBK1 WIKI:ADRBK1 </p> <p>adrenergic beta receptor kinase 2</p> <p>HUGO:ADRBK2 HGNC:290 ENTREZ:157 UNIPROT:P35626 GENECARDS:ADRBK2 KEGG:157 ATLASONC:GC_ADRBK2 WIKI:ADRBK2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK</p> <p>References:</p> <p>PMID:16525728</p> <p>PMID:15618519</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> </body> </html> </notes> <label text="GRK*"/> <bbox w="80.0" h="40.0" x="26322.06" y="17972.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa44_wca1_wca1_csa44" compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:CK1_gamma_*:DVL*:FZD*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> <p>s_wca1_re43(MAP:survival):</p> <p>PMID:21606194 PMID:21285348 </p> <p>DVL is again phosphorylated to form PS-DVL. This isoform of DVL leads to depolimerisation of DVL and even distribution in the cell. Which CK1 isoform catalyses this reaction is unknown</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa44_wca1_wca1_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285348"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="340.0" h="202.0" x="21461.81" y="19820.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa611_wca1_wca1_sa611"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21661.06" y="19840.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa388_wca1_wca1_sa388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21473.06" y="19948.5"/> <glyph class="state variable" id="_e5b92870-b983-400f-8199-888482114e46"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21545.56" y="19943.5"/> </glyph> <glyph class="state variable" id="_6bcbf01e-5bb7-4750-8801-c6a4a3b8d89b"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21455.56" y="19983.22"/> </glyph> <glyph class="state variable" id="_cc3f2f10-98c9-4278-8b9b-9145f187ce64"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21465.564" y="19943.5"/> </glyph> <glyph class="state variable" id="_a51500ff-b659-4404-9573-cb5305e5cdf3"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21534.941" y="19983.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa422_wca1_wca1_sa423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21553.56" y="19900.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa388_wca1_wca1_sa392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21634.06" y="19949.5"/> <glyph class="state variable" id="_585172e4-f0c3-4333-81f6-b460b624c94e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21706.56" y="19944.5"/> </glyph> <glyph class="state variable" id="_48948340-7fb5-4107-824d-548829a2d35b"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21616.56" y="19984.22"/> </glyph> <glyph class="state variable" id="_cf74f929-7ba6-45a8-8e5f-5b15f6e47f71"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21626.564" y="19944.5"/> </glyph> <glyph class="state variable" id="_61e2926e-33d1-4f75-8ae0-1429489137e6"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21695.941" y="19984.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa390_wca1_wca1_sa390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21633.31" y="19901.5"/> <glyph class="unit of information" id="_56f9f405-280a-4c19-ae1a-83d879697737"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21650.81" y="19896.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa406_wca1_wca1_sa407"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21633.31" y="19857.5"/> <glyph class="state variable" id="_c252c272-1796-4aaa-b462-7da28e60d4cb"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21613.31" y="19877.46"/> </glyph> <glyph class="state variable" id="_c7ea2dc5-7ef7-481f-ae9e-0e2a2840cfd3"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="21693.31" y="19852.766"/> </glyph> <glyph class="state variable" id="_03a4a39b-6ffa-4132-b547-0d2cde78897d"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="21692.691" y="19902.5"/> </glyph> <glyph class="state variable" id="_8bd66a49-6327-4d5f-853d-f4968fc1c64b"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="21652.414" y="19902.5"/> </glyph> <glyph class="state variable" id="_c0107b7e-b251-443f-a0df-29f0bfdfe669"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="21613.55" y="19902.5"/> </glyph> <glyph class="state variable" id="_77910cd1-bd7e-4778-adc7-0d0d2f069e6f"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="21653.342" y="19852.5"/> </glyph> <glyph class="unit of information" id="_f86ab939-5123-47d1-b8c0-1a08307cf85b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21650.81" y="19852.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa663_wca1_wca1_sa663"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21567.242" y="19827.09"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa390_wca1_wca1_sa386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21472.31" y="19900.5"/> <glyph class="unit of information" id="_bd63b114-55c5-4bbf-896a-bc32fb36ffdf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21489.81" y="19895.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa572_wca1_wca1_sa572"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21718.56" y="19949.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa397_wca1_wca1_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21553.81" y="19961.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa598_wca1_wca1_sa598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21552.56" y="19860.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa598_wca1_wca1_sa599"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21714.56" y="19860.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa611_wca1_wca1_sa610"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21491.06" y="19840.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa422_wca1_wca1_sa422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21714.56" y="19902.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa398_wca1_wca1_sa398"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21596.81" y="19961.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa406_wca1_wca1_sa406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21472.31" y="19856.5"/> <glyph class="state variable" id="_a081ef62-f4dc-4544-ad9d-b2c4728d482b"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21452.31" y="19876.46"/> </glyph> <glyph class="state 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2:TMBIM6</p> </body> </html> </notes> <label text="BCL2:TMBIM6"/> <bbox w="100.0" h="120.0" x="22669.06" y="14209.0"/> <glyph class="macromolecule" id="s_id_rc_sa2591_rc_sa2591"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transmembrane BAX inhibitor motif containing 6</p> <p>HUGO:TMBIM6 HGNC:11723 ENTREZ:7009 UNIPROT:P55061</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="TMBIM6"/> <bbox w="80.0" h="40.0" x="22678.06" y="14259.0"/> <glyph class="unit of information" id="_29991a2c-1e60-4bbb-b9c3-9d3a18886073"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22695.56" y="14254.0"/> </glyph> 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x="22673.06" y="14232.0"/> </glyph> <glyph class="state variable" id="_e5e2c149-202b-4249-941c-4ae53ef53e85"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22696.492" y="14212.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa607_ad_sa607" compartmentRef="s_id_ad_ca10_ad_ca10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>PMID:23886063;PMID:23620508 </p> <p>For a successful T cell activation the TcR signal alone is insufficient, a second, co-stimulatory signaling is also necessary The immunological synapse (A.Kupfer and M. Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal linker proteins (such as talin) . Proteins with large extracellular domains, including protein-tyrosine phosphatase CD45 and glycoproteins CD44 and CD43, accumulate in the distal SMAC (d).</p> <p>SPN (CD43)</p> <p>https://link.springer.com/referenceworkentry/10.1007%2F978-3-319-67199-4_523</p> <p>CD43 engagement in human T cells induces its association to the Src family kinases Lck and Fyn, through the interaction of their SH3 domains and the proline-rich region of CD43. This then leads to the phosphorylation of the CD3 ζ chain and the assembly of macromolecular complexes that include adaptor proteins such as Shc, Grb2, SLP-76, and the guanine exchange factor Vav. 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_sa2_rc_sa3605"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTCH*"/> <clone/> <bbox w="80.0" h="50.0" x="20549.06" y="9144.0"/> <glyph class="unit of information" id="_6ced2de2-3a33-4559-9698-076947c2af5a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20566.56" y="9139.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1058_ca_sa1058" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:METABOLIC</p> <p>References:</p> <p>PMID:15927447; PMID:19995913 </p> <p>Nox4, in contrast to other Nox proteins, produces large amounts of hydrogen peroxide constitutively. Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. Knockdown and gene transfection studies confirmed that Nox4 requires p22phox for ROS generation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1058_ca_sa1058"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15927447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19995913"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="O2-"/> <clone/> <bbox w="70.0" h="25.0" x="3082.0" y="4416.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1058_rc_sa2284" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:METABOLIC</p> <p>References:</p> <p>PMID:15927447; PMID:19995913 </p> <p>Nox4, in contrast to other Nox proteins, produces large amounts of hydrogen peroxide constitutively. Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. Knockdown and gene transfection studies confirmed that Nox4 requires p22phox for ROS generation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1058_rc_sa2284"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15927447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19995913"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="O2-"/> <clone/> <bbox w="70.0" h="25.0" x="25609.31" y="15586.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1058_rc_sa3255" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:METABOLIC</p> <p>References:</p> <p>PMID:15927447; PMID:19995913 </p> <p>Nox4, in contrast to other Nox proteins, produces large amounts of hydrogen peroxide constitutively. 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MODULE:MIRNA_TF_IMMUNOSUPPRESSIVECASCADE:GSF3, CASCADE:IL4, CASCADE:IFNABReferences:PMID:22067385c-MYC expression is assosiated with M2 type of macrophages.IL4 induces MYC expression in macrophages. MYC directly regulates some genes associated with alternative activation, including SCARB1, ALOX15, and MRC1, whereas others, including CD209, are indirectly regulated by c-MYC. c-MYC up-regulates the IL-4 signaling mediators signal transducer and activator of transcription-6 and peroxisome proliferator-activated receptorg, is also expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20581311STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.PMID:11340171MYC inhibits myeloid cells differentiation.PMID:16597464IRF-8 and IRF-1 are the target genes in activated macrophages.The expression levels of CXCL16, H28, IL-17R, LIF, MAP4K4, MMP9, MYC, PCDH7, PML, and SOCS7 were significantly increased in macrophagesextracted form WT mice (black columns) following activationfor 4 h with IFNG and LPS. However, no changes in the expression of these genes were observed in cells extracted from IRF-8,as well as from IRF-1 null mice.PMID:20237412IFN-B regulates expression of homing and angiogenic factors in neutrophils.IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophilsadditionally Stat3 and c-myc are downregulated by IFN-B.(STAT3 is known to be required for full activation of the Cxcr4 gene ) ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 20581311, 22067385, 16597464, 20237412, 11340171 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MDSCMODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSUPPRESSIVECASCADE:GSF3, CASCADE:IL4, CASCADE:IFNABReferences:PMID:22067385c-MYC expression is assosiated with M2 type of macrophages.IL4 induces MYC expression in macrophages. MYC directly regulates some genes associated with alternative activation, including SCARB1, ALOX15, and MRC1, whereas others, including CD209, are indirectly regulated by c-MYC. c-MYC up-regulates the IL-4 signaling mediators signal transducer and activator of transcription-6 and peroxisome proliferator-activated receptorg, is also expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20581311STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.PMID:11340171MYC inhibits myeloid cells differentiation.PMID:16597464IRF-8 and IRF-1 are the target genes in activated macrophages.The expression levels of CXCL16, H28, IL-17R, LIF, MAP4K4, MMP9, MYC, PCDH7, PML, and SOCS7 were significantly increased in macrophagesextracted form WT mice (black columns) following activationfor 4 h with IFNG and LPS. However, no changes in the expression of these genes were observed in cells extracted from IRF-8,as well as from IRF-1 null mice.PMID:20237412IFN-B regulates expression of homing and angiogenic factors in neutrophils.IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophilsadditionally Stat3 and c-myc are downregulated by IFN-B.(STAT3 is known to be required for full activation of the Cxcr4 gene ) </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2129_in_sa2129"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NRAGE*:XIAP</p> <p>References:</p> <p>11546791</p> <p>NRAGE may act to sequester and inactivate XIAP protein</p> </body> </html> </notes> <label text="NRAGE:XIAP"/> <clone/> <bbox w="100.0" h="120.0" x="20909.06" y="9499.0"/> <glyph class="macromolecule" id="s_id_rc_sa4229_rc_sa4229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>melanoma antigen family D, 1</p> <p>HUGO:MAGED1 HGNC:6813 ENTREZ:9500 UNIPROT:Q9Y5V3</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:12376548</p> <p>NRAGE induces caspase activation and cell death through a JNK-dependent mitochondrial pathway</p> <p>PMID:15721744</p> <p>PMID:11546791</p> <p>PMID:17488777</p> <p>NRAGE associates with the anti-apoptotic factor Che-1 and regulates its degradation to induce cell death.</p> <p>PMID:23314527</p> </body> </html> </notes> <label text="NRAGE*"/> <clone/> <bbox w="80.0" h="40.0" x="20919.06" y="9549.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4228_rc_sa4228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <clone/> <bbox w="80.0" h="40.0" x="20919.06" y="9509.0"/> <glyph class="state variable" id="_693a2b2f-e7ea-4090-8f7a-fae21ee5ae82"> <state value="" variable="S87"/> <bbox w="25.0" h="10.0" x="20963.51" y="9504.0"/> </glyph> <glyph 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MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <clone/> <bbox w="80.0" h="40.0" x="20337.111" y="9248.431"/> <glyph class="state variable" id="_aa7c8ee1-5ec2-433d-8a3d-301413da3ee9"> <state value="" variable="S87"/> <bbox w="25.0" h="10.0" x="20381.56" y="9243.431"/> </glyph> <glyph class="state variable" id="_6df2a280-5833-4b80-9a06-5294989fc07f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20355.543" y="9243.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4229_rc_sa4170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>melanoma antigen family D, 1</p> <p>HUGO:MAGED1 HGNC:6813 ENTREZ:9500 UNIPROT:Q9Y5V3</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:12376548</p> <p>NRAGE induces caspase activation and cell death through a JNK-dependent mitochondrial pathway</p> <p>PMID:15721744</p> <p>PMID:11546791</p> <p>PMID:17488777</p> <p>NRAGE associates with the anti-apoptotic factor Che-1 and regulates its degradation to induce cell death.</p> <p>PMID:23314527</p> </body> </html> </notes> <label text="NRAGE*"/> <clone/> <bbox w="80.0" h="40.0" x="20337.111" y="9288.431"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa970_in_sa970" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17404308, 10623821, 21115385, 16424049 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION, MODULE:IMMUNE_SUPPRESSIONCASCADE:MIF, CASCADE:TGFB, CASCADE:CSF1, CASCADE:STING, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IL4References:PMID:21115385IL10 is immunosuppressive cytokine.PMID:10623821, PMID:10623821IL10 expression in macrophages is assosiatedwith TAM (M2) phenotype.PMID:17404308CSF1 induces IL10 and CCL2 mRNA expression in macrophagesPMID:16424049IFNG induces INOS and IL10 expression and TGFB secretion in MDSC ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 17404308, 10623821, 21115385, 16424049 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION, MODULE:IMMUNE_SUPPRESSIONCASCADE:MIF, CASCADE:TGFB, CASCADE:CSF1, CASCADE:STING, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IL4References:PMID:21115385IL10 is immunosuppressive cytokine.PMID:10623821, PMID:10623821IL10 expression in macrophages is assosiatedwith TAM (M2) 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa716_wca1_wca4_sa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E2F1"/> <clone/> <bbox w="80.0" h="40.0" x="23728.06" y="21064.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa51_in_sa51" compartmentRef="s_id_in_ca15_in_ca15"> <label text="CTSL"/> <bbox w="80.0" h="40.0" x="19928.125" y="6507.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa10_akt1_akt2_csa10" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAXX:PML:PP2A_A*:PP2A_B*:PP2A_C*</p> <p>References:</p> <p>s_akt2_re29(MAP:survival):</p> <p>PMID:16680151</p> <p>PMID:20452955</p> <p>PMID:19216069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa10_akt1_akt2_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16680151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20452955"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19216069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PML_Nuclear_Body_PP2A)"/> <bbox w="198.0" h="253.0" x="13030.061" y="21800.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa64_akt1_akt2_sa69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13090.561" y="21979.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa64_akt1_akt2_sa66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13060.561" y="21949.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa63_akt1_akt2_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A </p> <p>P63151</p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R2B HGNC:9305 ENTREZ:5521 UNIPROT:Q00005 GENECARDS:PPP2R2B KEGG:5521 ATLASONC:GC_PPP2R2B WIKI:PPP2R2B </p> <p>Q00005</p> <p>protein phosphatase 2 regulatory subunit B gamma</p> <p>HUGO:PPP2R2C HGNC:9306 ENTREZ:5522 UNIPROT:Q9Y2T4 GENECARDS:PPP2R2C KEGG:5522 ATLASONC:GC_PPP2R2C WIKI:PPP2R2C </p> <p>Q9Y2T4</p> <p>protein phosphatase 2 regulatory subunit B delta</p> <p>HUGO:PPP2R2D HGNC:23732 ENTREZ:55844 UNIPROT:Q66LE6 GENECARDS:PPP2R2D REACTOME:217408 KEGG:55844 ATLASONC:GC_PPP2R2D WIKI:PPP2R2D </p> <p>Q66LE6</p> <p>PP2A 55 kDa regulatory subunit B beta isoform</p> <p>PP2A 55 kDa regulatory subunit B gamma isoform</p> <p>PP2A 55 kDa regulatory subunit B delta isoform</p> <p>PP2A 72/130 kDa regulatory subunit B</p> <p>HUGO:PPP2R3A HGNC:9307 ENTREZ:5523 UNIPROT:Q06190 GENECARDS:PPP2R3A KEGG:5523 ATLASONC:GC_PPP2R3A WIKI:PPP2R3A </p> <p>PP2A 48 kDa regulatory subunit B</p> <p>HUGO:PPP2R3B HGNC:13417 ENTREZ:28227 UNIPROT:Q9Y5P8 GENECARDS:PPP2R3B REACTOME:49140 KEGG:28227 ATLASONC:GC_PPP2R3B WIKI:PPP2R3B </p> <p>PP2A regulatory subunit B'' subunit gamma</p> <p>HUGO:PPP2R3C HGNC:17485 ENTREZ:55012 UNIPROT:Q969Q6 GENECARDS:PPP2R3C KEGG:55012 WIKI:PPP2R3C </p> <p>PP2A regulatory subunit B'</p> <p>HUGO:PPP2R4 HGNC:9308 ENTREZ:5524 UNIPROT:Q15257 GENECARDS:PPP2R4 KEGG:5524 ATLASONC:PPP2R4ID41817ch9q34 WIKI:PPP2R4 </p> <p>PP2A 56 kDa regulatory subunit alpha isoform</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A </p> <p>PP2A 56 kDa regulatory subunit beta isoform</p> <p>HUGO:PPP2R5B HGNC:9310 ENTREZ:5526 UNIPROT:Q15173 GENECARDS:PPP2R5B REACTOME:405832 KEGG:5526 ATLASONC:GC_PPP2R5B WIKI:PPP2R5B </p> <p>PP2A 56 kDa regulatory subunit gamma isoform</p> <p>HUGO:PPP2R5C HGNC:9311 ENTREZ:5527 UNIPROT:Q13362 GENECARDS:PPP2R5C REACTOME:405599 KEGG:5527 ATLASONC:GC_PPP2R5C WIKI:PPP2R5C </p> <p>PP2A 56 kDa regulatory subunit delta isoform</p> <p>HUGO:PPP2R5D HGNC:9312 ENTREZ:5528 UNIPROT:Q14738 GENECARDS:PPP2R5D REACTOME:405743 KEGG:5528 ATLASONC:GC_PPP2R5D WIKI:PPP2R5D </p> <p>PP2A 56 kDa regulatory subunit epsilon isoform</p> <p>HUGO:PPP2R5E HGNC:9313 ENTREZ:5529 UNIPROT:Q16537 GENECARDS:PPP2R5E REACTOME:49121 ATLASONC:GC_PPP2R5E WIKI:PPP2R5E</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> </body> </html> </notes> <label text="PP2A_B*"/> <bbox w="80.0" h="40.0" x="13051.561" y="21892.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa64_akt1_akt2_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13040.561" y="21929.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa70_akt1_akt2_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-domain associated protein</p> <p>HUGO:DAXX HGNC:2681 ENTREZ:1616 UNIPROT:Q9UER7 GENECARDS:DAXX KEGG:1616 ATLASONC:DAXXID40265ch6p21 WIKI:DAXX </p> <p>"death-associated protein 6"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20452955</p> </body> </html> </notes> <label text="DAXX"/> <bbox w="80.0" h="40.0" x="13127.561" y="21813.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa64_akt1_akt2_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13050.561" y="21939.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa61_akt1_akt2_sa61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A </p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R1B HGNC:9303 ENTREZ:5519 UNIPROT:P30154 GENECARDS:PPP2R1B REACTOME:49127 KEGG:5519 ATLASONC:GC_PPP2R1B WIKI:PPP2R1B </p> <p>PP2A-Aalpha, PR65A, "protein phosphatase 2, 65kDa regulatory subunit A", "protein phosphatase 2A, regulatory subunit A, alpha isoform"</p> <p>protein phosphatase 2, regulatory subunit A, beta</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18559511</p> <p>PMID:10026142</p> </body> </html> </notes> <label text="PP2A_A*"/> <bbox w="80.0" h="40.0" x="13045.561" y="21812.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa64_akt1_akt2_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13070.561" y="21959.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa64_akt1_akt2_sa68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13080.561" y="21969.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa62_akt1_akt2_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label text="PP2A_C*"/> <bbox w="80.0" h="40.0" x="13047.561" y="21851.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1031_ca_sa1031" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TGFBPMID:21098712; TGFB induces EGF expression and secretion in fibroblasts ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TGFBPMID:21098712; TGFB induces EGF expression and secretion in fibroblasts </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1031_ca_sa1031"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21098712"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21098712"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGF"/> <bbox w="70.0" h="25.0" x="4075.0" y="4593.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4913_rc_sa4913" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4913_rc_sa4913"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12847084"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ubiquiting enzymes*"/> <bbox w="130.0" h="40.0" x="28644.06" y="13479.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa333" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="18705.893" y="14424.185"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa388" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="19430.81" y="14351.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa132" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="18689.31" y="14730.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa125" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="18876.31" y="14471.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa410" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="19520.81" y="14351.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa206" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="19184.283" y="14718.056"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa143" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="18318.31" y="14761.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa2528" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="21124.31" y="14352.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa2519" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="20810.81" y="14351.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa333_rc_sa2523" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="21040.81" y="14381.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1986_in_sa1986" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CREBBP"/> <bbox w="80.0" h="40.0" x="19125.0" y="4645.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa453_rc_csa453" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATG2*:PIP3*</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:18586673</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa453_rc_csa453"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18586673"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP3*ATG2*"/> <bbox w="99.0" h="106.0" x="28402.31" y="11561.083"/> <glyph class="simple chemical" id="s_id_rc_sa4384_rc_sa4384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="28414.81" y="11577.583"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4383_rc_sa4383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 2A</p> <p>HUGO:ATG2A HGNC:29028 ENTREZ:23130 UNIPROT:Q2TAZ0</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:18586673</p> </body> </html> </notes> <label text="ATG2*"/> <bbox w="80.0" h="40.0" x="28410.81" y="11610.083"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2228_rc_sa2228" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:8592 KEGGCOMPOUND:C02191 CAS:553-12-8</p> </body> </html> </notes> <label text="protoporphyrin IX"/> <clone/> <bbox w="116.0" h="23.0" x="18965.734" y="13034.646"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2228_rc_sa2221" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:8592 KEGGCOMPOUND:C02191 CAS:553-12-8</p> </body> </html> </notes> <label text="protoporphyrin IX"/> <clone/> <bbox w="70.0" h="25.0" x="18626.81" y="13194.25"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa738_ad_sa738" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14764585 </p> <p>TCR-induced phosphorylation of Pak1 on its autophosphorylation sites (serines 144, 199, and 204)</p> <p>Incubation of Vav1+/+ DP thymocytes with Tat-PID, resulted in an inhibition of TCR-induced Pak1 phosphorylation and, by inference, its activation (Fig. 2B). In contrast, treatment of cells with Tat-PID had no effect on TCR-induced ERK activation (Fig. 2B). We conclude that in DP thymocytes Pak1 does not transduce TCR signals to the ERK pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa738_ad_sa738"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAK1"/> <clone/> <bbox w="80.0" h="40.0" x="29236.0" y="6975.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa738_ad_sa739" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14764585 </p> <p>TCR-induced phosphorylation of Pak1 on its autophosphorylation sites (serines 144, 199, and 204)</p> <p>Incubation of Vav1+/+ DP thymocytes with Tat-PID, resulted in an inhibition of TCR-induced Pak1 phosphorylation and, by inference, its activation (Fig. 2B). In contrast, treatment of cells with Tat-PID had no effect on TCR-induced ERK activation (Fig. 2B). We conclude that in DP thymocytes Pak1 does not transduce TCR signals to the ERK pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa738_ad_sa739"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAK1"/> <clone/> <bbox w="80.0" h="40.0" x="29236.0" y="7085.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa177_emtc_em_csa177" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin2*:Occludin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Claudin2/Occludin*"/> <bbox w="123.0" h="34.0" x="1038.0" y="15096.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1230_emtc_em_sa1230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 2</p> <p>HUGO:CLDN2, HGNC:2041, ENTREZ:9075, UNIPROT:P57739, GENECARDS:GC0XP106163</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin2*"/> <bbox w="61.0" h="16.0" x="1038.5" y="15097.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1229_emtc_em_sa1229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="59.0" h="16.0" x="1100.5" y="15097.5"/> <glyph class="state variable" id="_c715dc6e-397e-415f-bd51-da40f68860c8"> <state value="" variable=""/> <bbox 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa753_emtc_em_sa2382"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT1"/> <clone/> <bbox w="50.0" h="20.0" x="5605.0" y="13741.5"/> <glyph class="state variable" id="_8a0658c1-c350-4a63-9888-dad2beda3201"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5600.0" y="13746.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa455_ad_sa455" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11520460</p> <p>Cdc42 and WASP are critical regulators of actin polymerization whose function during T cell signaling is poorly understood.</p> <p>WASP also localized to the T cell:APC contact site in an antigen-dependent manner. Surprisingly, WASP localization was independent of the Cdc42 binding domain but required the proline-rich domain.</p> <p>PMID:14707117 </p> <p>mutation of tyrosine residue Y291, identified here as the major site of TCR-induced WASp tyrosine phosphorylation, abrogated induction of WASp tyrosine phosphorylation and its effector activities, including nuclear factor of activated T cell transcriptional activity, actin polymerization, and immunological synapse formation. TCR-induced WASp tyrosine phosphorylation was also disrupted in T cells lacking Fyn, a kinase shown here to bind, colocalize with, and phosphorylate WASp. By contrast, WASp was tyrosine dephosphorylated by protein tyrosine phosphatase (PTP)-PEST, a tyrosine phosphatase shown here to interact with WASp via proline, serine, threonine phosphatase interacting protein (PSTPIP)1 binding. Although Fyn enhanced WASp-mediated Arp2/3 activation and was required for synapse formation, PTP-PEST combined with PSTPIP1 inhibited WASp-driven actin polymerization and synapse formation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa455_ad_sa455"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11520460"/> </rdf:Bag> 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y="6070.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1352_in_sa1352" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 9535722, 18250477, 18451175, 14657224, 14610620, 21097505, 12223527, 15099563, 12401408 Charge: 0 <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:MDSC, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:IL13</p> <p>References:</p> <p>PMID:12401408</p> <p>IL13 is assosiated with M2 phenotype of macrophages</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:14610620</p> <p>Other receptor of IL13 is IL13RA2</p> <p>PMID:18451175, PMID:14657224</p> <p>IL13 signaling via IL13RA2 induces TGFB production in MDSC.</p> <p>PMID:18250477</p> <p>IL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:21097505</p> <p>IL-13 upregulates expression of SOCS1</p> <p>PMID:9535722</p> <p>IL13 induces phosporylation of IRS2 and PLCG1 which is probably a PLC responsible for downstream IL13 dependent Ca2+ mobilization signaling and assosiation of IRS2 and PLCG1</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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myofibroblast differentiation.PMID:23402812 Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMAPMID:16179589 NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylationNox4 mediates TGFB1–induced SMalpha actin in human cardiac fibroblasts. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS MODULE:CAF MODULE:MOTILITY References:CASCADE:TGFB, CASCADE:HGF, CASCADE:HHPMID:12702545, PMID:8515656Smad3 mediates transforming growth factor-beta-induced alpha-smooth muscle actin expression.PMID:20129924human corneal fibroblasts were transfected with small interfering RNA to alpha11, which decreased alpha-smooth muscle actin expression and myofibroblast differentiation.PMID:23402812 Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMAPMID:16179589 NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylationNox4 mediates TGFB1–induced SMalpha actin in human cardiac fibroblasts. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<rdf:Description rdf:about="#s_id_rc_sa1380_rc_sa1380"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTMA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTMA"/> <bbox w="80.0" h="40.0" x="23897.31" y="15030.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa10_wnc1_wnc3_csa10" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAXX:HDAC2:NFAT2*:PML</p> <p>References:</p> <p>s_wnc3_re19:(MAP:survival) PMID:19218564, PMID:17928811</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa10_wnc1_wnc3_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19218564"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17928811"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC2/PML/Daxx/NFAT2"/> <bbox w="184.0" h="204.0" x="16669.56" y="20930.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa68_wnc1_wnc3_sa69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16699.06" y="20991.5"/> <glyph class="state variable" id="_fc0ebdcd-c9e4-46db-93a2-4a6375031fa9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16774.06" y="20986.5"/> </glyph> <glyph class="state variable" id="_febca310-82b8-4ee4-8ee2-2bdb4ae24ef0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16774.06" y="21026.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa67_wnc1_wnc3_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 2</p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> </body> </html> </notes> <label text="HDAC2"/> <bbox w="80.0" h="40.0" x="16680.56" y="20937.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa71_wnc1_wnc3_sa71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16719.06" y="21011.5"/> <glyph class="state variable" id="_48f58f42-b6eb-4269-8d79-a88db4d97a2d"> <state value="?" variable=""/> <bbox 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<title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16692.56" y="20980.5"/> <glyph class="state variable" id="_136d0905-a996-48e3-ac6f-210ce76a95f2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16767.56" y="20975.5"/> </glyph> <glyph class="state variable" id="_f4ba6438-b98d-4135-95b8-dbee94026769"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16767.56" y="21015.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa68_wnc1_wnc3_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16709.06" y="21001.5"/> <glyph class="state variable" id="_67739a48-9deb-4810-8a94-0be90085e3b6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16784.06" y="20996.5"/> </glyph> <glyph class="state variable" id="_342ba199-956f-42f0-afd5-66f288a68853"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16784.06" y="21036.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa72_wnc1_wnc3_sa72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-domain associated 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa161_wnc1_wnc1_sa165"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADCY10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Adenylyl_cyclase*"/> <clone/> <bbox w="80.0" h="40.0" x="16795.06" y="18107.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa164_ca_sa164" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkBPMID:21847358IL-1α was established as the initiator of the enhanced production of inflammatory factors through the binding of IL-1α to IL-1 receptor 1 (IL-1R1) expressed predominantly by CAFs.IL1A upregulates expression of IL6, CCL20, CXCL8, COX2 in CAFs. IL-1α Expression Levels in prostate cancer Tissue Correlated to Poor Clinical Outcome ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkBPMID:21847358IL-1α was established as the initiator of the enhanced production of inflammatory factors through the binding of IL-1α to IL-1 receptor 1 (IL-1R1) expressed predominantly by CAFs.IL1A upregulates expression of IL6, CCL20, CXCL8, COX2 in CAFs. IL-1α Expression Levels in prostate cancer Tissue Correlated to Poor Clinical Outcome </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa164_ca_sa164"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21847358"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21847358"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTGS2"/> <bbox w="70.0" h="25.0" x="1215.0" y="4117.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4823_rc_sa4823" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4823_rc_sa4823"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="27302.967" y="13659.0"/> <glyph class="state variable" id="_ae3d5aa2-73c7-4079-994b-949404bf2f0e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27352.035" y="13654.0"/> </glyph> <glyph class="state variable" id="_3f454474-602c-4c49-82b2-6a44b76da1f6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27297.967" y="13674.0"/> </glyph> <glyph class="state variable" id="_1daf504b-b1ad-4baf-b9e2-e53a60a36b12"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27321.398" y="13654.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa545_rc_csa545" 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rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRC4:NLRC4"/> <bbox w="114.0" h="99.0" x="27912.186" y="9599.625"/> <glyph class="macromolecule" id="s_id_rc_sa5441_rc_sa5442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NLRC4</p> <p>synonyms:NLR family, CARD domain containing 4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23940371</p> </body> </html> </notes> <label text="NLRC4"/> <bbox w="80.0" h="50.0" x="27932.186" y="9624.625"/> <glyph class="state variable" id="_a92f4432-4408-46d7-824d-e6e0cd3dced6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28004.686" y="9619.625"/> </glyph> <glyph class="unit of information" id="_214b1e05-cb3b-4407-9348-b5242abf81ec"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27949.686" y="9619.625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5441_rc_sa5441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NLRC4</p> <p>synonyms:NLR family, CARD domain containing 4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23940371</p> </body> </html> </notes> <label text="NLRC4"/> <bbox w="80.0" h="50.0" x="27922.186" y="9614.625"/> <glyph class="state variable" id="_9256a7f6-a8f5-43d5-834e-4b135c62339e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27994.686" y="9609.625"/> </glyph> <glyph class="unit of information" id="_5538d509-5e6f-4297-9650-eae862fa4e04"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27939.686" y="9609.625"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa891_ca_sa891" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:MODULE:FIBROBLAST_ACTIVATION_MARKERSPMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. ----- content merged by Celldesigner to SBGN-ML translation ------ References:MODULE:FIBROBLAST_ACTIVATION_MARKERSPMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa891_ca_sa891"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SATB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20980827"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SATB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20980827"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SATB2"/> <bbox w="90.0" h="25.0" x="2465.0" y="4077.5"/> <glyph class="unit of information" id="_4e92114b-6643-4326-9b14-3f4740e1fb3d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2500.0" y="4072.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa20_wca1_wca1_csa20" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN*:CK1_alpha_*:GSK3*:PP2A_C*:PR55_alpha_*:PR65_A*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca1_re20:(MAP:survival) PMID:19556239</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa20_wca1_wca1_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19556239"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex_PP2A)"/> <bbox w="276.0" h="163.0" x="20506.56" y="19103.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa112_wca1_wca1_sa112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20603.06" y="19157.0"/> <glyph class="state variable" id="_94c1c5e0-0316-434f-9fb3-32b556cce78c"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20668.06" y="19152.213"/> </glyph> <glyph class="state variable" id="_0296e859-39b6-4033-a6be-459529669c94"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20617.277" y="19152.0"/> </glyph> <glyph class="state variable" id="_2febb928-21e8-4c37-b520-023a926da15a"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20588.553" y="19152.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PR55α*"/> <bbox w="80.0" h="40.0" x="20689.56" y="19156.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa110_wca1_wca1_sa110"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20601.56" y="19113.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa109_wca1_wca1_sa109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20517.56" y="19201.5"/> <glyph class="state variable" id="_780cbbeb-d17b-44c3-a0bc-796fb32f02f7"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20505.553" y="19196.5"/> </glyph> <glyph class="state variable" id="_8465531e-12b0-4ee5-a28b-0044b6366c2e"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20500.06" y="19236.22"/> </glyph> <glyph class="state variable" id="_d4674773-202f-4349-8cde-c28cf2331a07"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20579.441" y="19236.5"/> </glyph> <glyph class="state variable" id="_2cb11e39-bc4e-4173-9031-e597055c8845"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20500.553" y="19196.5"/> </glyph> <glyph class="state variable" id="_e0217f02-2a66-4de4-9685-e46fbd0dcebe"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20580.06" y="19196.713"/> </glyph> <glyph class="state variable" id="_9e384533-9d94-4a1b-bdad-62fe85d3ad83"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20539.965" y="19236.5"/> </glyph> <glyph class="state variable" id="_4117074d-daf0-4960-bcde-46897a15282c"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20580.06" y="19235.633"/> </glyph> <glyph class="state variable" id="_92b00918-ca36-4a13-aec3-1ae21e46d19d"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20540.092" y="19196.5"/> </glyph> <glyph class="state variable" id="_ab17dca2-35cd-4914-946a-4fbdc59c3604"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20500.06" y="19236.22"/> </glyph> <glyph class="state variable" id="_807a4930-7988-4f86-9a68-627d0dc8f577"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20500.553" y="19196.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa116_wca1_wca1_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PR65_A*"/> <bbox w="80.0" h="40.0" x="20689.56" y="19199.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa113_wca1_wca1_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20518.56" y="19157.938"/> <glyph class="state variable" id="_b4c24f51-a77e-4a73-bdb2-cd38ea5afd4b"> <state value="" variable="E"/> <bbox w="15.0" 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<title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa217_ce_sa217"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SKP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="10366.019" y="9578.125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4976_rc_sa4976" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4976_rc_sa4976"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP2A2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP2A2"/> <bbox w="80.0" h="40.0" x="27815.154" y="12999.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1106_ca_sa1106" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFBPMID:25732824NDUFA4L2 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex, 4-like 2), a negative regulator of mitochondrial complex 1, was upregulated in CAFs The accumulation of HIF-1α, in turn, promotes glycolysis by increasing the uptake of glucose, upregulating expression of glycolytic enzymes under normoxic conditions, and inhibiting oxidative phosphorylation by upregulating NDUFA4L2 downstream of TGFB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFBPMID:25732824NDUFA4L2 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex, 4-like 2), a negative regulator of mitochondrial complex 1, was upregulated in CAFs The accumulation of HIF-1α, in turn, promotes glycolysis by increasing the uptake of glucose, upregulating expression of glycolytic enzymes under normoxic conditions, and inhibiting oxidative phosphorylation by upregulating NDUFA4L2 downstream of TGFB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1106_ca_sa1106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NDUFA4L2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25732824"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NDUFA4L2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25732824"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NDUFA4L2 "/> <bbox w="70.0" h="25.0" x="3195.0" y="3956.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa487_rc_csa487" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2:TMBIM6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa487_rc_csa487"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2:TMBIM6"/> <bbox w="100.0" h="120.0" x="25719.06" y="13589.0"/> <glyph class="macromolecule" id="s_id_rc_sa5104_rc_sa5104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="25729.06" y="13599.0"/> <glyph class="state variable" id="_b972174e-a16e-486a-9c47-ea5eda12bb5b"> <state value="" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa211_shh1_shh1_sa245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULK3"/> <clone/> <bbox w="80.0" h="40.0" x="26194.81" y="19581.0"/> <glyph class="state variable" id="_6723a89d-309b-414a-8fcf-0045d70c5c99"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26180.303" y="19576.0"/> </glyph> <glyph class="state variable" id="_c13fa2f3-a5c9-4719-adc6-f4bd771f3d7f"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26259.191" y="19616.0"/> </glyph> <glyph class="state 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compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa226_in_csa226"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed: 11207245"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11964292"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11698286"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21930769"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17513775"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764699"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21930765"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15864272"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1282"/> <bbox w="203.0" h="130.0" x="24063.75" y="2535.0"/> <glyph class="macromolecule" id="s_id_in_sa2641_in_sa2641"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> 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text="receptor"/> <bbox w="45.0" h="10.0" x="24091.25" y="2545.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1685_in_sa1685"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IFNAR2"/> <bbox w="80.0" h="50.0" x="24073.75" y="2600.0"/> <glyph class="unit of information" id="_a9998b6f-2d3f-4c0f-b855-85994b2aaf99"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24091.25" y="2595.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2640_in_sa2640"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="24161.25" y="2553.75"/> <glyph class="state variable" id="_b10b0897-c3fa-4759-b5b4-0c2fc94f60f9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24156.25" y="2568.75"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa252_in_csa252" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa252_in_csa252"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16815076"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1107"/> <bbox w="117.0" h="218.0" x="24231.875" y="3896.25"/> <glyph class="macromolecule" id="s_id_in_sa1897_in_sa1897"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <bbox w="80.0" h="50.0" x="24244.375" y="3913.75"/> <glyph class="unit of information" id="_0ce93d39-2572-442c-a32c-6f46573813f0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24261.875" y="3908.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1896_in_sa1896"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RB"/> <bbox w="80.0" h="50.0" x="24248.125" y="3971.25"/> <glyph class="state variable" id="_60731049-c0ca-4da7-b1ff-3c7f64efe7db"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24243.125" y="3991.25"/> </glyph> <glyph class="unit of information" id="_8d0db30e-95bc-44e0-a64d-cce1d51d9244"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24265.625" y="3966.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1895_in_sa1895"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL15RA"/> <bbox w="80.0" h="50.0" x="24248.125" y="4031.25"/> <glyph class="unit of information" id="_0a3ab287-496e-4f2d-baa4-45e789c63d25"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24265.625" y="4026.25"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2355_emtc_em_sa2355" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2355_emtc_em_sa2355"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR family*"/> <clone/> <bbox w="80.0" h="50.0" x="1106.5" y="12904.5"/> <glyph class="state variable" id="_607e17d3-8c13-4c28-8233-2c67a432c0e9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1140.7318" y="12899.5"/> </glyph> <glyph class="unit of information" id="_8baced11-3772-4576-b154-fe3e8ce02edb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1124.0" y="12899.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2355_mo_sa273" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2355_mo_sa273"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR family*"/> <clone/> <bbox w="80.0" h="50.0" x="6729.0" y="10946.0"/> <glyph class="state variable" id="_3b2a572a-2a48-4817-aa36-6256c1e10c8e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6763.232" y="10941.0"/> </glyph> <glyph class="unit of information" id="_4cd15e02-a662-428d-ad6a-4bea32ea08ea"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6746.5" y="10941.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa15_shh1_shh3_csa15" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RAC1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re19(MAP:survival):</p> <p>PMID:12829230</p> <p>PMID:11955434</p> <p>PMID:15967165</p> <p>PMID:15611338</p> <p>s_shh3_re23(MAP:survival):</p> <p>PMID:15901767</p> <p>PMID:20595387</p> <p>s_wnc1_re58(MAP:survival):</p> <p>PMID:16402909</p> <p>PMID:12657629</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa15_shh1_shh3_csa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829230"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15967165"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611338"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15901767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20595387"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16402909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12657629"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Rac1_GTP"/> <bbox w="100.0" h="120.0" x="27948.06" y="22655.0"/> <glyph class="simple chemical" id="s_id_shh1_shh3_sa77_shh1_shh3_sa77"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="30.0" h="30.0" x="27981.81" y="22709.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa72_shh1_shh3_sa72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="27956.56" y="22667.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1_emtc_em_sa1" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1_emtc_em_sa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNAI1"/> <clone/> <bbox w="40.0" h="20.0" x="3716.5" y="16144.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1_shh1_shh2_sa117" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1_shh1_shh2_sa117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> 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rdf:about="#s_id_rc_sa2855_rc_sa2855"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNG2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinG2*"/> <bbox w="80.0" h="40.0" x="22071.56" y="16494.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa53_rc_sa53" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa53_rc_sa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAQ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAZ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SFN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="25119.06" y="13739.0"/> <glyph class="state variable" id="_4ab1eff3-17a9-4550-a319-b39c93ee4f6a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="25168.158" y="13734.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1089_ca_sa1089" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:METABOLIC MODULE:CAF </p> <p>References:</p> <p>PMID:22101652; PMID:19923890</p> <p>The M1 or M2 splice isoforms of pyruvate kinase (PK), a mandatory regulatory glycolytic enzyme, shift glucose metabolism towards aerobic glycolysis (PKM2) or oxidative phosphorylation (PKM1)</p> <p>PKM2 and lactate dehydrogenase are highly expressed in the stroma of breast cancer lacking caveolin-1 expression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1089_ca_sa1089"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22101652"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19923890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKM2*"/> <clone/> <bbox w="80.0" h="40.0" x="2620.0" y="4570.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1089_rc_sa886" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:METABOLIC MODULE:CAF </p> <p>References:</p> <p>PMID:22101652; PMID:19923890</p> <p>The M1 or M2 splice isoforms of pyruvate kinase (PK), a mandatory regulatory glycolytic enzyme, shift glucose metabolism towards aerobic glycolysis (PKM2) or oxidative phosphorylation (PKM1)</p> <p>PKM2 and lactate dehydrogenase are highly expressed in the stroma of breast cancer lacking caveolin-1 expression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1089_rc_sa886"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22101652"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19923890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKM2*"/> <clone/> <bbox w="80.0" h="40.0" x="19211.56" y="11224.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1089_rc_sa638" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:METABOLIC MODULE:CAF </p> <p>References:</p> <p>PMID:22101652; PMID:19923890</p> <p>The M1 or M2 splice isoforms of pyruvate kinase (PK), a mandatory regulatory glycolytic enzyme, shift glucose metabolism towards aerobic glycolysis (PKM2) or oxidative phosphorylation (PKM1)</p> <p>PKM2 and lactate dehydrogenase are highly expressed in the stroma of breast cancer lacking caveolin-1 expression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1089_rc_sa638"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22101652"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19923890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKM2*"/> <clone/> <bbox w="80.0" h="40.0" x="22939.06" y="15884.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1916_rc_sa1916" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1916_rc_sa1916"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HTT"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HTT"/> <bbox w="80.0" h="40.0" x="25230.395" y="13001.276"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa616_rc_sa616" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa616_rc_sa616"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDK1"/> <bbox w="90.0" h="25.0" x="22815.06" y="16045.5"/> <glyph class="unit of information" id="_1dcba6df-e91a-4b85-8326-b45668ba460d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22850.06" y="16040.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa334_ce_sa334" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa334_ce_sa334"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK7"/> <bbox w="80.0" h="40.0" x="12124.52" y="9331.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa112_emtc_em_csa112" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Occludin*:PARD6A:TGFB1:TGFBR1:TGFBR2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761148</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>Active TGFBR2 recruited to TIGHT_JUNCTIONS phosphorylates PARD6A on Serine residue S345 and it also phosphorylates TGFBR1</p> <p>Once phosphorylated by TGFBR2, both TGFBR1 and PARD6A become active</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa112_emtc_em_csa112"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Occludin*/PAR6*/TGFB/TGFBR1/TGFBR2"/> <bbox w="243.0" h="127.0" x="1404.5" y="14488.5"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa676_emtc_em_sa676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor II (70/80kDa)</p> <p>HUGO:TGFBR2, HGNC:11773, ENTREZ:7048, UNIPROT:P37173, GENECARDS:GC03P030623</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="58.0" h="47.0" x="1481.5" y="14497.0"/> <glyph class="unit of information" id="_f2511340-debf-481e-8c75-ce1293d19e94"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1500.5" y="14492.0"/> </glyph> <glyph class="state variable" id="_03bf80f5-b5d9-4b6d-9cad-7f66ab03de3d"> <state value="P" variable="Ser"/> <bbox w="30.0" h="10.0" x="1466.5" y="14494.822"/> </glyph> <glyph class="unit of information" id="_85b8551b-0797-40fb-a39f-58afaf12275c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1488.0" y="14492.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa675_emtc_em_sa675"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:</p> <p>PMID:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="60.0" h="20.0" x="1557.5" y="14572.25"/> <glyph class="state variable" id="_47c4218f-2ef1-4c53-b09d-fd4558d37dca"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1612.5" y="14577.282"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa677_emtc_em_sa677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="50.0" h="26.0" x="1554.5" y="14528.25"/> <glyph class="unit of information" id="_5dca283c-0b26-44ba-8338-6e74a9e6dbe8"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1569.5" y="14523.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa674_emtc_em_sa674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>HUGO:PARD6A, HGNC:15943, ENTREZ:50855, GENECARDS:GC16P067696, UNIPROT:Q9NPB6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15761148</p> <p>PARD6A is a regulator of epithelial cell polarity and tight-junction assembly</p> <p>TGFBRI is localized to tight junctions where PARD6A is also found. TGFBR1 binds to PARD6A and localizes to tight junctions irrespective of TGF-beta stimulation. </p> <p>The N-terminus of PARD6A, containing a PB1 domain necessary for binding to TGFBR1</p> <p>TGFB stimulation induces redistribution of TGFBRII into tight junctions.</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation controls the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PARD6A"/> <bbox w="63.0" h="38.0" x="1412.5" y="14526.5"/> <glyph class="state variable" id="_f0e6a3fa-8c50-4cd7-b51c-b79d0038bdb5"> <state value="P" variable="S345"/> <bbox w="35.0" h="10.0" x="1419.8123" y="14521.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa678_emtc_em_sa678"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="56.0" h="48.0" x="1482.5" y="14549.25"/> 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<title/> </head> <body> <p>Charge: 0</p> <p>MODULE:DC, MODULE:NK, MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> <p>CASCADE:IL15, CASCADE:CSF2</p> <p>PMID:12906785, PMID:19022819 </p> <p>AKT activates Rapamycin associated protein FRAP2 ( mTOR ) probably through Tuberin/GTP-binding protein Ras homolog enriched in brain ( RHEB ) pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa71_ad_csa71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12906785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19022819"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s1178"/> <bbox w="100.0" h="120.0" x="29836.0" y="4835.0"/> <glyph class="macromolecule" id="s_id_ad_sa664_ad_sa664"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HREB</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:12906785, PMID:19022819 </p> <p>AKT activates Rapamycin associated protein FRAP2 ( mTOR ) probably through Tuberin/GTP-binding protein Ras homolog enriched in brain ( RHEB ) pathway.</p> <p>PMID:23087689</p> </body> </html> </notes> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="29846.0" y="4845.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa665_ad_sa665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="29851.0" y="4897.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa680_wnc1_wnc1_sa680" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa680_wnc1_wnc1_sa680"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGEF19"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WGEF*"/> <bbox w="80.0" h="40.0" x="15134.061" y="19518.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa78_ca_csa78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LAP:LTBP*:TGFB*</p> <p>References:</p> <p>PMID:26519775; PMID:18086923; PMID:24309651 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa78_ca_csa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18086923"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24309651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text=" Large_Latent_Complex "/> <bbox w="105.0" h="165.0" x="3587.0" y="107.0"/> <glyph class="macromolecule" id="s_id_ca_sa652_ca_sa652"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1 hgnc_id:HGNC:6714 HGNC:6714 ENTREZ:4052 UNIPROT:Q14766 </p> <p>latent transforming growth factor beta binding protein 2</p> <p>HUGO:LTBP2 hgnc_id:HGNC:6715 HGNC:6715 ENTREZ:4053 UNIPROT:Q14767 </p> <p>latent transforming growth factor beta binding protein 3</p> <p>HUGO:LTBP3 hgnc_id:HGNC:6716 HGNC:6716 ENTREZ:4054 UNIPROT:Q9NS15 </p> <p>latent transforming growth factor beta binding protein 4</p> <p>HUGO:LTBP4 hgnc_id:HGNC:6717 HGNC:6717 ENTREZ:8425 UNIPROT:Q8N2S1</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE TGFB</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <label text="LTBP*"/> <bbox w="80.0" h="40.0" x="3602.0" y="117.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa653_ca_sa653"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGFB induced factor homeobox 1</p> <p>HUGO:TGIF1 hgnc_id:HGNC:11776 HGNC:11776 ENTREZ:7050 UNIPROT:Q15583</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <label text="LAP"/> <bbox w="80.0" h="40.0" x="3602.0" y="157.0"/> <glyph class="unit of information" id="_610496f3-94aa-4747-af64-173ca4d8418a"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="3617.0" y="152.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa654_ca_sa654"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 hgnc_id:HGNC:11766 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 </p> <p>transforming growth factor beta 2</p> <p>HUGO:TGFB2 hgnc_id:HGNC:11768 HGNC:11768 ENTREZ:7042 UNIPROT:P61812 </p> <p>transforming growth factor beta 3</p> <p>HUGO:TGFB3 hgnc_id:HGNC:11769 HGNC:11769 ENTREZ:7043 UNIPROT:P10600</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TNF</p> <p>PMID:21098712 </p> <p>Cancer TGFB exosomes trigger fibroblast to myofibroblast differentiation</p> <p>PMID:15653932 </p> <p>Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. Western blot analysis showed that TNF-α activated the extracellular signal–regulated kinase (ERK), and inhibitors of the ERK-specific mitogen-activated protein kinase pathway (PD98059 or U0126) blocked TNF-α induction of TGF-β1</p> <p>PMID:23784029, PMID:16572188, PMID:8515656</p> <p>TGF-β1 treatment successfully transformed primary resting fibroblasts into CAFs</p> <p>PMID:19038247 </p> <p>TGFbeta induces fibroblast collagen biosynthesis downstream of CCL7 and via SMAD3.</p> <p>Thus, ERK, a MAPK family member, phosphorylates serine residues in the linker regions of Smad1–3 and ERK inhibition reduces TGFβ-stimulated Smad phosphorylation as well as collagen biosynthesis, suggesting that ERK activation is necessary for an optimal response to TGFβ [9]. Similarly, p38 MAPK has been shown to be central to TGFβ mediated-collagen and fibronectin expression in SSc fibroblasts [10].</p> <p>PMID:19747910</p> <p>Through paracrine signaling molecules, TGF-beta and IL-1beta, cancer cells activate stromal fibroblasts and induce the expression of fibroblast activation protein (FAP). FAP, in turn, affects the proliferation, invasion and migration of the cancer cells. We report that TGF-beta and IL-1beta are important factors in inducing differentiation of myofibroblasts and expression of functional markers, notably alpha-SMA.</p> <p>PMID:18423981 </p> <p>Differential impact of TGF-beta and EGF on fibroblast differentiation and invasion reciprocally promotes colon cancer cell invasion.</p> <p>PMID:23034983 </p> <p>Inhibition of TGF-beta/Smad signaling by BAMBI blocks differentiation of human mesenchymal stem cells to carcinoma-associated fibroblasts and abolishes their protumor effects</p> <p>PMID:21041659 </p> <p>Autocrine TGF-beta and stromal cell-derived factor-1 (SDF-1) signaling drives the evolution of tumor-promoting mammary stromal myofibroblasts</p> <p>PMID:17768418</p> <p>TGFbeta is responsible for skin tumour infiltration by macrophages enabling the tumours to escape immune destruction.</p> <p>TGFbeta-mediated tumour progression was accompanied by an increase in tumour-associated macrophages (TAM) and a decrease in tumour-infiltrating dendritic cells (DCs). </p> <p>???</p> <p>both TGF-β1 and TGF-β2 are up-regulated in CAFs</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling</p> <p>PMID:15003992 </p> <p> TGF-β-mediated myofibroblast differentiation and proliferation of the NRK fibroblasts are mutually exclusive responses to TGF-β. Differentiation into myofibroblasts appears to be the default pathway whereas proliferation becomes the dominant and sole response when both TGF-β and EGF are present.</p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>PMID:17979848</p> <p>TGF-β promotes the generation and function of Treg cells</p> <p>TGF-β is able to convert CD4+CD25− non-Treg cells into CD4+CD25+ Treg cells, and this conversion was accompanied with increased Foxp3 expression</p> <p>PMID:26201938 </p> <p>The expression levels of cytokine genes, including those for IL6, CXCL8, TNF, TGFB1, and VEGFA, were higher in CAFs. T cell proliferation was suppressed more by CAFs or their supernatants than by NFs.</p> <p>PMID:22874531</p> <p>TGFB treatment induces the autophagy-mediated downregulation of Cav-1 in fibroblasts.</p> </body> </html> </notes> <label text="TGFB*"/> <bbox w="80.0" h="40.0" x="3602.0" y="197.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa253_rc_csa253" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HIP1:HTT</p> </body> </html> </notes> <label text="HIP1:HTT"/> <bbox w="97.0" h="115.0" x="25331.895" y="12893.776"/> <glyph class="macromolecule" id="s_id_rc_sa1912_rc_sa1912"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>huntingtin</p> <p>HUGO:HTT HGNC:4851 ENTREZ:3064 UNIPROT:P42858</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="HTT"/> <bbox w="80.0" h="40.0" x="25338.895" y="12943.776"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1915_rc_sa1915"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>huntingtin interacting protein 1</p> <p>HUGO:HIP1 HGNC:4913 ENTREZ:3092 UNIPROT:O00291</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="HIP1"/> <bbox w="80.0" h="40.0" x="25338.895" y="12903.776"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa185_shh1_shh1_sa185" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa185_shh1_shh1_sa185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="27044.56" y="18262.668"/> <glyph class="state variable" id="_3e9ac7f0-818f-4774-8d50-759b8b6a391e"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="27030.053" y="18257.668"/> </glyph> <glyph class="state variable" id="_15b0cdac-7cc7-49f5-8af5-95300fb3dea0"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="27108.943" y="18297.668"/> </glyph> <glyph class="state variable" id="_f90dee0e-96e8-48e1-941f-cbd232226094"> <state 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rdf:resource="urn:miriam:hgnc.symbol:IKBKG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKBKG"/> <clone/> <bbox w="80.0" h="40.0" x="24319.06" y="9489.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3933_rc_sa3034" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3933_rc_sa3034"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IKBKG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKBKG"/> <clone/> <bbox w="80.0" h="40.0" x="23599.06" y="9409.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1997_rc_sa1997" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="18788.31" y="14541.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1997_rc_sa131" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="18714.81" y="14809.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1997_rc_sa361" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:18009 KEGGCOMPOUND:C00006 CAS:53-59-8</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NADP+"/> <clone/> <bbox w="70.0" h="25.0" x="20108.81" y="14522.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa247_ce_csa247" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HUS1:RAD1:RAD17:RAD9*:RFC*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:17303408</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa247_ce_csa247"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HUS1/RAD1/RAD9*/RAD17/RFC*"/> <bbox w="195.0" h="161.0" x="12738.473" y="13036.356"/> <glyph class="macromolecule" id="s_id_ce_sa1305_ce_sa1305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD9 homolog A (S. pombe)</p> <p>HUGO:RAD9A, HGNC:9827, ENTREZ:5883, UNIPROT:Q99638</p> <p>RAD9 homolog B (S. pombe)</p> <p>HUGO:RAD9B, HGNC:21700, ENTREZ:144715, UNIPROT:Q6WBX8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:8943031, PMID:17493829</p> </body> </html> </notes> <label text="RAD9*"/> <bbox w="80.0" h="40.0" x="12753.733" y="13087.955"/> <glyph class="state variable" id="_919878c9-2a81-415e-8152-f60dbb97315a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12788.733" y="13082.955"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1304_ce_sa1304"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUS1 checkpoint homolog (S. pombe)</p> <p>HUGO:HUS1, HGNC:5309, ENTREZ:3364, UNIPROT:O60921</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:9524127, PMID:17493829</p> </body> </html> </notes> <label text="HUS1"/> <bbox w="80.0" h="40.0" x="12757.733" y="13129.955"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1306_ce_sa1306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD1 homolog (S. pombe)</p> <p>HUGO:RAD1, HGNC:9806, ENTREZ:5810, UNIPROT:O60671</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="RAD1"/> <bbox w="80.0" h="40.0" x="12751.733" y="13043.955"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1307_ce_sa1307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C (activator 1) 1, 145kDa</p> <p>HUGO:RFC1, HGNC:9969, ENTREZ:5981, UNIPROT:P35251</p> <p>replication factor C (activator 1) 2, 40kDa</p> <p>HUGO:RFC2, HGNC:9970, ENTREZ:5982, UNIPROT:P35250</p> <p>replication factor C (activator 1) 3, 38kDa</p> <p>HUGO:RFC3, HGNC:9971, ENTREZ:5983, UNIPROT:P40938</p> <p>replication factor C (activator 1) 4, 37kDa</p> <p>HUGO:RFC4, HGNC:9972, ENTREZ:5984, UNIPROT:P35249</p> <p>replication factor C (activator 1) 5, 36.5kDa</p> <p>HUGO:RFC5, HGNC:9973, ENTREZ:5985, UNIPROT:P40937</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="RFC*"/> <bbox w="80.0" h="40.0" x="12838.464" y="13085.858"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1303_ce_sa1303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD17 homolog (S. pombe)</p> <p>HUGO:RAD17, HGNC:9807, ENTREZ:5884, UNIPROT:O75943</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:16885023, PMID:17303408</p> </body> </html> </notes> <label text="RAD17"/> <bbox w="80.0" h="40.0" x="12835.632" y="13042.835"/> <glyph class="state variable" id="_2371cd24-877c-42e7-a158-d53e811d8cc2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12830.632" y="13057.835"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2279_in_sa2279" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP19"/> <bbox w="80.0" h="40.0" x="11020.0" y="6930.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa503_ca_sa503" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa712_emtc_em_sa712"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR1-1"/> <bbox w="80.0" h="20.0" x="3757.5" y="17410.5"/> <glyph class="unit of information" id="_42460411-934d-40d2-ba20-ac51b4735d95"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.5" y="17405.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa485_in_sa485" compartmentRef="s_id_in_ca12_in_ca12"> <label text="GDP"/> <clone/> <bbox w="63.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1451_rc_sa1451"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase8*"/> <clone/> <bbox w="80.0" h="40.0" x="25039.06" y="13049.0"/> <glyph class="unit of information" id="_92e66817-815a-4bad-a2ec-ea4623ee76cf"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="25054.06" y="13044.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1451_rc_sa3919" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2356_emtc_em_sa2356"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR family*"/> <bbox w="80.0" h="50.0" x="1107.5" y="12973.5"/> <glyph class="unit of information" id="_9c2def38-173a-435d-bb04-d16a834e754a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1125.0" y="12968.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa14_akt1_akt2_csa14" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:p27KIP1*</p> <p>References:</p> <p>s_akt2_re44:(MAP:survival) PMID:18636226</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa14_akt1_akt2_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:p27KIP1*"/> <bbox w="100.0" h="120.0" x="14162.561" y="20587.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa95_akt1_akt2_sa95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="14171.061" y="20595.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa96_akt1_akt2_sa96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27 Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527 GENECARDS:CDKN1B REACTOME:198633 KEGG:1027 ATLASONC:CDKN1BID116 WIKI:CDKN1B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="14173.561" y="20639.0"/> <glyph class="state variable" id="_2f40afe5-4715-4732-942d-84dd8130929d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14168.561" y="20666.773"/> </glyph> <glyph class="state variable" id="_96b40a60-71aa-46f9-ae4d-90c028a1f1fd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14208.465" y="20674.0"/> </glyph> <glyph class="state variable" id="_0bae66b4-8bd8-4700-94b9-c095f104134b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14166.061" y="20644.3"/> </glyph> <glyph class="state variable" id="_b15af896-6b76-4a83-8d0c-ca7f72d9e9e8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14192.155" y="20634.0"/> </glyph> <glyph class="state variable" id="_518b366c-0e8b-48f4-b1a1-4f0aa8768476"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="14237.942" y="20674.0"/> </glyph> <glyph class="state variable" id="_e87ffd14-b2c0-4a15-9376-92a5600d81dd"> <state value="" 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id="s_id_mpk1_mpk1_csa76_mpk1_mpk1_csa76" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB*:TGFBR1:TGFBR2</p> </body> </html> </notes> <label text="TAB*:TGFBR1:TGFBR2"/> <bbox w="143.0" h="81.0" x="10729.057" y="19136.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa598_mpk1_mpk1_sa598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor II (70/80kDa)</p> <p>MFS2 "transforming growth factor beta receptor II (70-80kD)"</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-beta is known to cause a hetero-oligomerisation of the TGFBR1/TGFBR2 complex consisting of two TGFBR1 and two TGFBR2 molecules to activate it (not modelled).</p> <p>Besides cellular stresses the SAPK pathways are also activated by cytokines such as TGF-beta. Smad-dependent gene expression can provoke P38 activation in response to TGFbeta.</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="55.0" h="25.0" x="10800.333" y="19147.0"/> <glyph class="unit of information" id="_352691a3-81a8-47da-9e08-a0e8a6065b6b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10805.333" y="19142.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa597_mpk1_mpk1_sa597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>"transforming growth factor beta receptor I (activin A receptor type II-like kinase 53kD)"</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-beta is known to cause a hetero-oligomerisation of the TGFBR1/TGFBR2 complex consisting of two TGFBR1 and two TGFBR2 molecules to activate it (not modelled).</p> <p>Besides cellular stresses the SAPK pathways are also activated by cytokines such as TGF-beta. Smad-dependent gene expression can provoke P38 activation in response to TGFbeta.</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="55.0" h="25.0" x="10744.333" y="19146.0"/> <glyph class="unit of information" id="_29a89b3d-1dad-47b0-bacc-88b895e975dc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10749.333" y="19141.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa443_mpk1_mpk1_sa443"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 </p> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>MAP3K7IP2 "mitogen-activated protein kinase kinase kinase 7 interacting protein 2"</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 </p> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 3</p> <p>MAP3K7IP3 "mitogen-activated protein kinase kinase kinase 7 interacting protein 3"</p> <p>HUGO:TAB3 HGNC:30681 ENTREZ:257397 UNIPROT:Q8N5C8</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TAK1 is the only MAP3K that requires the adapter proteins TAB123 for its activation.</p> </body> </html> </notes> <label text="TAB*"/> <bbox w="50.0" h="25.0" x="10744.224" y="19167.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa72_wca1_wca1_csa72" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:IDAX*</p> <p>References:</p> <p>s_wca1_re79:(MAP:survival) PMID:11113207 PMID:18931698</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa72_wca1_wca1_csa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11113207"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18931698"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:IDAX*"/> <bbox w="100.0" h="120.0" x="20951.06" y="17801.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa731_wca1_wca1_sa731"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CXXC finger protein 4</p> <p>HUGO:CXXC4 HGNC:24593 ENTREZ:80319 UNIPROT:Q9H2H0 GENECARDS:CXXC4 KEGG:80319 ATLASONC:GC_CXXC4 WIKI:CXXC4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="IDAX*"/> <bbox w="80.0" h="40.0" x="20961.06" y="17808.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa732_wca1_wca1_sa732"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa149_akt1_akt1_sa241"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1E"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="epsiurn:miriam:hgnc.symbol:CSNK1E"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1*"/> <clone/> <bbox w="80.0" h="40.0" x="12582.061" y="19181.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa464_rc_csa464" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:RAB5*</p> <p>References:</p> <p>23301705</p> </body> </html> </notes> <label text="RAB5*:GDP"/> <bbox w="96.0" h="112.0" x="27987.56" y="12248.5"/> <glyph class="simple chemical" id="s_id_rc_sa4430_rc_sa4430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17552 KEGGCOMPOUND:C00035</p> <p>Map modules:</p> <p>MODULE:MITOCH_METABOLISM, MODULE:DEATH-RECEPTORS, MODULE:DEPENDANCE_RECEPTORS</p> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa762_wca1_wca3_sa325"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KLF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KLF4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KLF4"/> <clone/> <bbox w="90.0" h="25.0" x="21186.06" y="22650.5"/> <glyph class="unit of information" id="_f0ba9db8-9e73-4570-8286-a33ac2a4eb8f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21221.06" y="22645.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa23_wca1_wca2_csa23" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1*:LRP6:TMEM198</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>TMEM198 can aggegrate LRP6 in signalosome-like structures and recrute CK1 family members</p> <p>PMID:21536646</p> <p>s_wca2_re57(MAP:survival):</p> <p>This complex is able to activate target genes of the canonical wnt pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa23_wca1_wca2_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21536646"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome-like)"/> <bbox w="106.0" h="278.0" x="23142.06" y="19837.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa151_wca1_wca2_sa154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transmembrane protein 198</p> <p>HUGO:TMEM198 HGNC:33704 ENTREZ:130612 UNIPROT:Q66K66 GENECARDS:TMEM198 KEGG:130612 WIKI:TMEM198</p> <p>Map modules:</p> </body> </html> </notes> <label text="TMEM198"/> <bbox w="80.0" h="40.0" x="23157.56" y="19944.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa155_wca1_wca2_sa155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1 </p> <p>P48729</p> <p>casein kinase 1 delta</p> <p>HUGO:CSNK1D HGNC:2452 ENTREZ:1453 UNIPROT:P48730 GENECARDS:CSNK1D REACTOME:57869 KEGG:1453 ATLASONC:GC_CSNK1D WIKI:CSNK1D </p> <p>P48730</p> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E </p> <p>P49674</p> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>Q9HCP0</p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>P78368</p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3 </p> <p>Q9Y6M4</p> <p>casein kinase 1 epsiHUGO:CSNK1E HGNC:2453 ENTREZ:1454 P49674</p> <p>Map modules:</p> <p>MAP:survival / 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<body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="23157.56" y="19893.0"/> <glyph class="state variable" id="_467f9714-a3f8-4069-aeb1-3f422feaf495"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="23138.053" y="19888.0"/> </glyph> <glyph class="state variable" id="_e5974807-ff54-4f51-b8ca-971969a92875"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="23217.56" y="19888.266"/> </glyph> <glyph class="state variable" id="_460cb31f-0b5f-4d58-875c-be15aa19ba70"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="23177.592" y="19888.0"/> </glyph> <glyph class="unit of information" id="_f555a8ff-fa75-4b40-af26-018daff78699"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23175.06" y="19888.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa153_wca1_wca2_sa153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="23157.56" y="19986.0"/> <glyph class="state variable" id="_15e3b7f2-b040-4461-835f-747f90096dc5"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="23138.053" y="19981.0"/> </glyph> <glyph class="state variable" id="_aff71c7c-16c9-452e-b21b-5cec9a7ae2f7"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="23217.56" y="19981.266"/> </glyph> <glyph class="state variable" id="_e067f5ee-47af-4fc6-b921-0a5afa6ba152"> <state value="P" 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PD-1 and resulted in diminished PTEN expression and phosphorylation in the C-terminal regulatory region. These events were associated with diminished activation of the PI3K/Akt pathway, as determined by impaired phosphorylation of Akt and its downstream target, GSK3β</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. 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<head> <title/> </head> <body> <p>Pubmed_ID: 15169881, 16339513, 15905190, 22786724, 16081768, 20189481, 17171759, 12515815</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa845_in_sa845"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15169881"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16339513"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15905190"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22786724"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16081768"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20189481"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17171759"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12515815"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="2B4*"/> <bbox w="80.0" h="50.0" x="12355.0" y="1695.0"/> <glyph class="state variable" id="_90713d94-988e-4476-ab8f-23757789fee0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12347.5" y="1715.0"/> </glyph> <glyph class="unit of information" id="_f9fc457a-fc3b-41a8-8ef2-c1151407e2dd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12372.5" y="1690.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa25_wnc1_wnc2_csa25" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KPNB1:NFAT*:PPP3CB_sub_trunc_endsub_*:PPP3R*:TNPO1:Tubulin-_alpha_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> <p>s_wnc2_re45(MAP:survival):</p> <p>Tubulin-alpha binds both NFAT and KPNB1 after dephosphorylation of NFAT.</p> <p>PMID:21278340</p> <p>TNPO1 is a transport protein that helps in the import of proteins into the nucleus. Although it has been described with associated with NRON, it is most likely that it binds first to NFAT complex, making this complex ready for import, then NRON can bind to this complex to hinder the import of the complex</p> <p>PMID:21709260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa25_wnc1_wnc2_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21278340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(CnA_trun/CnB/KPNB1/Tubulinα)"/> <bbox w="196.0" h="195.0" x="18393.81" y="18798.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa118_wnc1_wnc2_sa118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="18491.81" y="18809.5"/> <glyph class="unit of information" id="_671f58ba-c596-4729-93fe-218ef5ac2247"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18506.81" y="18804.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa166_wnc1_wnc2_sa166"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transportin 1</p> <p>"karyopherin (importin) beta 2", KPNB2</p> <p>HUGO:TNPO1 HGNC:6401 ENTREZ:3842 UNIPROT:Q92973 GENECARDS:TNPO1 REACTOME:57345 KEGG:3842 ATLASONC:GC_TNPO1 WIKI:TNPO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="TNPO1"/> <bbox w="80.0" h="40.0" x="18408.56" y="18901.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa119_wnc1_wnc2_sa119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18491.81" y="18852.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa122_wnc1_wnc2_sa122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a </p> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt: Q71U36</p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt: P68363</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt: Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>tubulin, alpha 3d </p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt: Q6PEY2</p> <p>tubulin, alpha 4a </p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>tubulin, alpha 8 </p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt: Q9NY65</p> <p>Map modules:</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="18408.56" y="18854.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa120_wnc1_wnc2_sa120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18492.81" y="18905.5"/> <glyph class="state variable" id="_985ecc37-a3d5-4847-8f9f-c46559e8c924"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18567.81" y="18920.5"/> </glyph> <glyph class="state variable" id="_6e463d9c-b6bc-41e1-818b-1ab4d077155f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18567.81" y="18928.785"/> </glyph> <glyph class="state variable" id="_477de877-5324-48e6-a28b-497f88dd0247"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18567.81" y="18940.5"/> </glyph> <glyph class="state variable" id="_6bc2af91-7fe6-42d4-bbb5-467ced827a42"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18527.81" y="18900.5"/> </glyph> <glyph class="state variable" id="_89952cad-6ebd-4ec6-9a95-6b06ee2da5f2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18544.379" y="18900.5"/> </glyph> <glyph class="state variable" id="_e0ac15f0-449d-489b-8639-51d37be68788"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18544.379" y="18940.5"/> </glyph> <glyph class="state variable" id="_aa771314-cd82-4b8d-9ecc-7d6ddf098248"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18567.81" y="18900.5"/> </glyph> <glyph class="state variable" id="_e98d082d-3208-4813-8b50-11b81fd1fd87"> <state value="" 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variable="S289"/> <bbox w="30.0" h="10.0" x="18491.467" y="18940.5"/> </glyph> <glyph class="state variable" id="_64161c0f-7de3-422f-ae4e-44342439489f"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="18511.668" y="18940.5"/> </glyph> <glyph class="state variable" id="_d9c96eec-6244-47be-9651-f4aa43d97a7c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18527.81" y="18940.5"/> </glyph> <glyph class="state variable" id="_de75fdea-ffcc-4c7f-bbce-3c2d4f286bf6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18511.242" y="18940.5"/> </glyph> <glyph class="state variable" id="_35c65cef-2277-426e-9b3e-b956a2fe306f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18487.814" y="18940.5"/> </glyph> <glyph class="state variable" id="_da2c6b59-e517-4cc7-b422-17fb179f3377"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18487.81" y="18920.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa121_wnc1_wnc2_sa121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>karyopherin (importin) beta 1</p> <p>HUGO:KPNB1 HGNC:6400 ENTREZ:3837 UNIPROT:Q14974 GENECARDS:KPNB1 REACTOME:57343 KEGG:3837 ATLASONC:GC_KPNB1 WIKI:KPNB1</p> <p>Map modules:</p> </body> </html> </notes> <label text="KPNB1"/> <bbox w="80.0" h="40.0" x="18406.56" y="18810.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa421_mpk1_mpk1_sa421" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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rdf:resource="urn:miriam:hgnc.symbol:PGM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGM*"/> <bbox w="80.0" h="40.0" x="18039.06" y="9849.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa238_an_sa238" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8803</p> <p>PMID:17145802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa238_an_sa238"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFRA"/> <clone/> <bbox w="80.0" h="50.0" x="7639.5" y="6272.5"/> <glyph class="unit of information" id="_470e1613-b327-496e-943f-7ff2a53f2dc2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7657.0" y="6267.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa238_emtc_em_sa2364" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8803</p> <p>PMID:17145802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa238_emtc_em_sa2364"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFRA"/> <clone/> <bbox w="80.0" h="50.0" x="2479.5" y="12608.5"/> <glyph class="unit of information" id="_16681179-938f-4e92-bc39-0923cf3d379b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2497.0" y="12603.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3738_rc_sa3738" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3582_rc_sa3582"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <clone/> <bbox w="80.0" h="40.0" x="24501.56" y="16434.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3582_te_sa370" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3582_te_sa370"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <clone/> <bbox w="80.0" h="40.0" x="6169.56" y="21315.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3582_rc_sa1848" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3582_rc_sa1848"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <clone/> <bbox w="80.0" h="40.0" x="24501.56" y="16774.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3582_mpk1_mpk1_sa420" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3582_mpk1_mpk1_sa420"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <clone/> <bbox w="50.0" h="25.0" x="10969.224" y="20467.334"/> </glyph> <glyph class="complex" id="s_id_rc_csa485_rc_csa485" compartmentRef="s_id_rc_ca39_rc_ca39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CALR:Ca2+</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa485_rc_csa485"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CALR:Ca2+"/> <bbox w="100.0" h="120.0" x="26199.06" y="14229.0"/> <glyph class="macromolecule" id="s_id_rc_sa5100_rc_sa5100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calreticulin</p> <p>HUGO:CALR hgnc_id:HGNC:1455 HGNC:1455 ENTREZ:811 UNIPROT:P27797</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="CALR"/> <bbox w="80.0" h="40.0" x="26209.06" y="14239.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5101_rc_sa5101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="33.0" h="33.0" x="26232.81" y="14292.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa930_ca_sa930" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB, CASCADE:HH</p> <p>PMID:17638910; PMID:22354771 </p> <p>GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3</p> <p>Double-staining for α-SMA and GLI1 or GLI2 demonstrated a prominent accumulation of both GLI transcription factors in myofibroblasts </p> <p>PMID:19081070 </p> <p>The vertebrate GliRepressor function is largely derived from Gli3 while the primary GliActivator activity is largely contributed by Gli2. Gli1 is a transcriptional target of Hh signaling and acts as a transcriptional activator to reinforce GliA function</p> <p>PMID:23031257</p> <p>TGF-β1–Induced Fibroblast Differentiation Depends on SMO in Control Fibroblasts</p> <p>Expression of collagen and actin (alphaSMA) and FN1 are SMO and GLI1/GLI2 dependent</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa930_ca_sa930"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI12"/> </rdf:Bag> 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(sex determining region Y)-box 4 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa295_mo_sa295"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOX4"/> <bbox w="90.0" h="25.0" x="3603.0" y="11010.5"/> <glyph class="unit of information" id="_12c77578-0a26-4c1b-94e7-668d897af84d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3638.0" y="11005.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa44_shh1_shh1_csa44" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI1:SUFU</p> <p>References:</p> <p>s_shh1_re95:(MAP:survival) PMID:10559945</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa44_shh1_shh1_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559945"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gli_SUFU"/> <bbox w="100.0" h="120.0" x="27215.06" y="19691.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa285_shh1_shh1_sa285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="27223.31" y="19749.0"/> <glyph class="state variable" id="_23b0feb9-ae97-4dca-b162-6f09986cd406"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="27208.803" y="19744.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa284_shh1_shh1_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 1</p> <p>HUGO:GLI1 HGNC:4317 ENTREZ:2735 UNIPROT:P08151 GENECARDS:GLI1 KEGG:2735 ATLASONC:GLIID310ch12q13 WIKI:GLI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="27224.56" y="19696.0"/> <glyph class="state variable" id="_1dc3f759-7713-4696-b5ff-12998d42dbbf"> <state value="" variable="K518"/> <bbox w="30.0" h="10.0" x="27232.535" y="19731.0"/> </glyph> <glyph class="state variable" id="_05fc4c35-bc74-4cc6-851a-1750ced422b5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27219.564" y="19731.0"/> </glyph> <glyph class="state variable" id="_a2cd9195-548e-4aca-88f0-385e600f6565"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27219.564" y="19691.0"/> </glyph> <glyph class="state variable" id="_2177e767-deac-4c7e-8211-66536f0774a6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27299.56" y="19691.0"/> </glyph> <glyph class="state variable" id="_4aa2a3d2-4e59-40be-98a6-f0338bcf2a15"> <state value="" variable="T374"/> <bbox w="30.0" h="10.0" x="27288.941" y="19731.0"/> </glyph> <glyph class="state variable" id="_aefe85e8-ed70-4c74-9ed8-0c7614720e3b"> <state value="" variable="S640"/> <bbox w="30.0" h="10.0" x="27209.56" y="19730.72"/> </glyph> <glyph class="state variable" id="_5c13a338-0d63-483e-9c0c-0706836bad6a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27299.56" y="19731.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2408_in_sa2408" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="STAB1"/> <bbox w="90.0" h="25.0" x="10413.75" y="588.125"/> <glyph class="unit of information" id="_d69aeed9-011b-4e3f-a302-94fb446b628d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10448.75" y="583.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa178_mo_sa178" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0TERF2 interacting protein ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0TERF2 interacting protein </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa178_mo_sa178"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF2IP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF2IP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAP1*"/> <bbox w="90.0" h="25.0" x="2535.625" y="10571.375"/> <glyph class="unit of information" id="_819f8fea-4f7d-467d-89f3-33dcf9b6642c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2570.625" y="10566.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2619_in_sa2619" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CXCR2"/> <bbox w="80.0" h="50.0" x="13680.0" y="1320.0"/> <glyph class="unit of information" id="_2eaa968d-9613-401c-8b33-cf725e729b1a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13697.5" y="1315.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa265_mo_sa265" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Stathmins family</p> <p>Stathmin 1</p> <p>Stathmin 2</p> <p>Stathmin 3</p> <p>Stathmin 4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa265_mo_sa265"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Stathmin*"/> <bbox w="80.0" h="40.0" x="5251.0" y="11554.0"/> <glyph class="state variable" id="_268b12ba-37e7-4f0b-9dcf-4a928a1a8672"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5300.0684" y="11549.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa9_wca1_wca2_csa9" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KRM*:RSPO1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re24:(MAP:survival) PMID:17804805</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa9_wca1_wca2_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17804805"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRM*:RSPO1"/> <bbox w="130.0" h="110.0" x="24656.06" y="18194.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa59_wca1_wca2_sa59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kringle containing transmembrane protein 1</p> <p>HUGO:KREMEN1 HGNC:17550 ENTREZ:83999 UNIPROT:Q96MU8 GENECARDS:KREMEN1 KEGG:83999 WIKI:KREMEN1 </p> <p>kringle containing transmembrane protein 2</p> <p>HUGO:KREMEN2 HGNC:18797 ENTREZ:79412 UNIPROT:Q8NCW0 GENECARDS:KREMEN2 KEGG:79412 WIKI:KREMEN2</p> <p>Map modules:</p> </body> </html> </notes> <label text="KRM*"/> <bbox w="35.0" h="60.0" x="24738.56" y="18224.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa60_wca1_wca2_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 1</p> <p>"R-spondin homolog (Xenopus laevis)"</p> <p>HUGO:RSPO1 HGNC:21679 ENTREZ:284654 UNIPROT:Q2MKA7 GENECARDS:RSPO1 KEGG:284654 ATLASONC:RSPO1ID44137ch1p34 WIKI:RSPO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO1"/> <bbox w="80.0" h="40.0" x="24659.06" y="18231.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1091_emtc_em_sa1091" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1091_emtc_em_sa1091"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BNIP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BNIP2"/> <bbox w="39.0" h="17.0" x="6429.5" y="14880.0"/> <glyph class="state variable" id="_502e6f87-9648-4c30-a159-b89a63b86c3b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6424.5" y="14875.3955"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1451_emtc_em_sa1451" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa391_ca_sa391"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFR1*"/> <bbox w="80.0" h="50.0" x="1240.0" y="1425.0"/> <glyph class="unit of information" id="_ce663ef5-7303-4bf5-8d57-71073704d450"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1257.5" y="1420.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2123_in_sa2123" compartmentRef="s_id_in_ca12_in_ca12"> 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class="macromolecule" id="s_id_emtc_em_sa1049_emtc_em_sa1049" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1049_emtc_em_sa1049"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42EP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC42EP2"/> <bbox w="69.0" h="19.0" x="6637.5" y="14724.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa246_in_sa246" compartmentRef="s_id_in_ca12_in_ca12"> <label text="WASF2"/> <bbox w="80.0" h="40.0" x="17868.125" y="6385.0"/> <glyph class="state variable" id="_b71474de-dab1-4bde-a061-e1c254e5b92d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17863.125" y="6400.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa2_wnc1_wnc4_csa2" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cytoskeleton:E-Cadherin*:_alpha_-Catenin*:_beta_-Catenin*:p120*</p> <p>References:</p> <p>s_wnc4_re24(MAP:survival):</p> <p>Complex of G-alpha12 and p120 stabilises binding of E-cadherin in Adhesion-complex. G-alpha12 is found back in complex with p120 and E-cadherin</p> <p>PMID:15240885</p> <p>s_wnc4_re4:(MAP:survival) PMID:22558232</p> <p>s_wnc4_re31(MAP:survival):</p> <p>binding of G-alpha12 toE-cadherin results of loss of binding of b-catenin from the adherence junction</p> <p>PMID:11136230</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa2_wnc1_wnc4_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240885"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22558232"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11136230"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Adhesion-complex)"/> <bbox w="293.0" h="159.0" x="17337.06" y="20623.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa10_wnc1_wnc4_sa10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="17447.06" y="20678.0"/> <glyph class="state variable" id="_f8757d1a-e771-42dc-8798-97c277a42b0d"> <state value="" variable="S522"/> <bbox w="30.0" h="10.0" x="17512.06" y="20673.213"/> </glyph> <glyph class="state variable" id="_eadcef9c-a6a1-4321-8cd6-92da388836b1"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" x="17498.889" y="20673.0"/> </glyph> <glyph class="state variable" id="_77df830e-67c3-407f-bfb4-3c141d2fb753"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17498.54" y="20673.0"/> </glyph> <glyph class="state variable" id="_16d857e3-86aa-4244-a190-f2745aa15b60"> <state value="" variable="Y142"/> <bbox w="30.0" h="10.0" x="17479.787" y="20673.0"/> </glyph> <glyph class="state variable" id="_6421d5f1-5ad9-4bf8-bb6c-d9a5c92d3760"> <state value="" variable="S675"/> <bbox w="30.0" h="10.0" x="17511.441" y="20713.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa14_wnc1_wnc4_sa14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Cytoskeleton"/> <bbox w="80.0" h="30.0" x="17526.06" y="20723.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa12_wnc1_wnc4_sa12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="17365.06" y="20679.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa13_wnc1_wnc4_sa13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) alpha 1 102kDa</p> <p>HUGO:CTNNA1 HGNC:2509 ENTREZ:1495 UNIPROT:P35221 GENECARDS:CTNNA1 REACTOME:53044 KEGG:1495 ATLASONC:GC_CTNNA1 WIKI:CTNNA1 </p> <p>catenin (cadherin-associated protein) alpha 2</p> <p>HUGO:CTNNA2 HGNC:2510 ENTREZ:1496 UNIPROT:P26232 GENECARDS:CTNNA2 REACTOME:53046 KEGG:1496 WIKI:CTNNA2 </p> <p>catenin (cadherin-associated protein) alpha 3</p> <p>HUGO:CTNNA3 HGNC:2511 ENTREZ:29119 UNIPROT:Q9UI47 GENECARDS:CTNNA3 KEGG:29119 ATLASONC:GC_CTNNA3 WIKI:CTNNA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="75.0" h="85.0" x="17530.06" y="20634.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa11_wnc1_wnc4_sa11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="154.0" h="40.0" x="17373.06" y="20635.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1135_ad_sa1135" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:TCRMODULE:TCR_SIGNALINGPMID:15536066 The p100 gene promoter is itself a target of NF-κB (23), so it was possible that the increase in p100 level and the generation of p52 in response to TCR/CD28 signaling is an indirect effect of PKCθ-mediated NF-κB activation. We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manner ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:TCRMODULE:TCR_SIGNALINGPMID:15536066 The p100 gene promoter is itself a target of NF-κB (23), so it was possible that the increase in p100 level and the generation of p52 in response to TCR/CD28 signaling is an indirect effect of PKCθ-mediated NF-κB activation. We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manner </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1135_ad_sa1135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536066"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536066"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB2_p100*"/> <bbox w="90.0" h="25.0" x="29101.0" y="6052.5"/> <glyph class="unit of information" id="_7b41e5fc-3a60-4e75-b3f2-91c8cdfa044a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="29136.0" y="6047.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa93_te_sa93" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TUMOR_DNA"/> <bbox w="115.0" h="23.0" x="15025.0" y="1973.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2153_in_sa2153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cGAS*"/> <bbox w="80.0" h="40.0" x="15022.5" y="2005.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa414_te_sa414" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PIH1 domain containing 1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:22923768 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa414_te_sa414"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIH1D1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22923768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PH1D1"/> <bbox w="80.0" h="40.0" x="5470.3545" y="22383.059"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1342_rc_sa1342" compartmentRef="s_id_rc_ca8_rc_ca8"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1342_rc_sa1342"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VAMP2"/> <bbox w="80.0" h="40.0" x="18009.06" y="9359.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa362_emtc_em_csa362" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IGF family*:IGF1R</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa362_emtc_em_csa362"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10826997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12767520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19030972"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16931767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21540285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12444011"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(IGF family/IGF1R)"/> <bbox w="100.0" h="120.0" x="2507.5" y="18448.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2535_emtc_em_sa2535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>IGF family*</p> <p>insulin-like growth factor 1 (somatomedin C)</p> <p>HUGO:IGF1 HGNC:5464 ENTREZ:3479 UNIPROT:P05019</p> <p>insulin-like growth factor 2 (somatomedin A)</p> <p>HUGO:IGF2 HGNC:5466 ENTREZ:3481 UNIPROT:P01344</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>IRS3 and IRS4 however have negative effect on anti-apoptotic effects of IGFR.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="IGF family*"/> <bbox w="70.0" h="19.0" x="2522.5" y="18460.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2536_emtc_em_sa2536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>insulin-like growth factor 1 receptor</p> <p>HUGO:IGF1R HGNC:5465 ENTREZ:3480 UNIPROT:P08069</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="IGF1R"/> <bbox w="86.0" h="56.0" x="2516.5" y="18484.5"/> <glyph class="unit of information" id="_f781a170-a3f2-4dd8-8bb5-71e9da85ad0d"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2549.5" y="18479.5"/> </glyph> <glyph class="state variable" id="_764b3d51-97cb-470f-8c3b-7d49728e3915"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="2550.3943" y="18479.5"/> </glyph> <glyph class="unit of information" id="_31599e89-2372-4e3f-90e5-9821c6268859"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2537.0" y="18479.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1098_emtc_em_sa1098" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1098_emtc_em_sa1098"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGAP17"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP17"/> <bbox w="66.0" h="16.0" x="5999.5" y="14236.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4753_rc_sa4753" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4753_rc_sa4753"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHOP*"/> <clone/> <bbox w="80.0" h="40.0" x="26881.326" y="16364.0"/> <glyph class="state variable" id="_a144ed9f-1d56-4d85-8676-5dfdf26f64a8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26932.895" y="16359.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4753_rc_sa4731" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4753_rc_sa4731"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHOP*"/> <clone/> <bbox w="80.0" h="40.0" x="26546.795" y="16340.875"/> <glyph class="state variable" id="_1bfca9c0-85dd-4ca4-81f4-3797ee668e01"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26598.363" y="16335.875"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa53_wca1_wca3_csa53" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re110:(MAP:survival) PMID:16510874</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa53_wca1_wca3_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:β-Catenin*"/> <bbox w="101.0" h="132.0" x="20551.06" y="21804.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa323_wca1_wca3_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20563.56" y="21871.0"/> <glyph class="state variable" id="_defafe7f-b212-44eb-a14e-856eddd57107"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="20551.553" y="21866.0"/> </glyph> <glyph class="state variable" id="_02c5956e-961c-4d5c-9368-ebd4ea9f1af0"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="20551.06" y="21905.72"/> </glyph> <glyph class="state variable" id="_0099a099-5a5b-4388-87a5-14dcedb1365e"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20628.56" y="21866.213"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20563.56" y="21818.0"/> <glyph class="state variable" id="_126495e8-2ecd-4493-86d5-4b1afc83f3b2"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20546.06" y="21852.72"/> </glyph> <glyph class="state variable" id="_0e657b88-4d97-4f4e-8f9b-cb72a0a39a39"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20551.553" y="21813.0"/> </glyph> <glyph class="state variable" id="_f68bbd3f-9fc3-4d74-8a75-112a396bab76"> <state value="P" variable="T1487"/> 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value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20586.092" y="21813.0"/> </glyph> <glyph class="state variable" id="_a5c63f3d-81b7-4bc8-9f13-cebd44c5acda"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20625.441" y="21853.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4617_rc_sa4617" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4617_rc_sa4617"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAB5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAB5*"/> <bbox w="80.0" h="40.0" x="24962.06" y="15868.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa67_rc_csa67" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:AMP:PKA_R*:PRKAA*:PRKAG*</p> <p>References:</p> <p>PMID:12208500</p> <p>PMID:23030059</p> <p>PMID:12546687</p> <p>PMID:19037093</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa67_rc_csa67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12208500"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19037093"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMPK"/> <bbox w="176.0" h="112.0" x="25979.06" y="11364.5"/> <glyph class="macromolecule" id="s_id_rc_sa1025_rc_sa1025"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, AMP-activated, alpha 1 catalytic subunit</p> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 </p> <p>protein kinase, AMP-activated, alpha 2 catalytic subunit</p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PRKAA*"/> <bbox w="80.0" h="40.0" x="25985.06" y="11370.5"/> <glyph class="state variable" id="_0e0998fe-29dc-495d-8735-ef53d01720f4"> <state value="P" variable="T172"/> <bbox w="35.0" h="10.0" x="26024.51" y="11365.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1026_rc_sa1026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, AMP-activated, beta 1 non-catalytic subunit</p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 </p> <p>protein kinase, AMP-activated, beta 2 non-catalytic subunit</p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PKA_R*"/> <bbox w="80.0" h="40.0" x="25985.06" y="11414.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1027_rc_sa1027"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, AMP-activated, gamma 1 non-catalytic subunit</p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 </p> <p>protein kinase, AMP-activated, gamma 2 non-catalytic subunit</p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 </p> <p>protein kinase, AMP-activated, gamma 3 non-catalytic subunit</p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9</p> 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id="s_id_in_sa2383_in_sa2383" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MRC2"/> <bbox w="90.0" h="25.0" x="10313.75" y="588.125"/> <glyph class="unit of information" id="_a5843375-1ce8-42bb-8286-da3a21fee255"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10348.75" y="583.125"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa1153_rc_sa1153" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s1956"/> <bbox w="30.0" h="30.0" x="24761.56" y="15203.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1825_rc_sa1825" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1825_rc_sa1825"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase9*"/> <bbox w="80.0" h="40.0" x="24179.06" y="14079.0"/> <glyph class="state variable" id="_68aac0d1-29fe-42b9-a4e1-269cf82d20f5"> <state value="?" variable="S196"/> <bbox w="35.0" h="10.0" x="24218.51" y="14074.0"/> </glyph> <glyph class="state variable" id="_0e1891b4-4ff2-4638-aba8-ae83488a8e9c"> <state value="?" variable="S144"/> <bbox w="35.0" h="10.0" x="24184.535" y="14114.0"/> </glyph> <glyph class="state variable" id="_b88e2558-2f28-4254-91be-736ff60a5983"> <state value="?" variable="Y153"/> <bbox w="35.0" h="10.0" x="24217.89" y="14114.0"/> </glyph> <glyph class="state variable" id="_0ab94306-434e-46cc-89f3-495bafea7b1f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24174.06" y="14094.0"/> </glyph> <glyph class="state variable" id="_07236bce-0776-4bf7-9a67-f56eb402de68"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="24246.56" y="14094.0"/> </glyph> <glyph class="state variable" id="_81ad7b76-fc25-4797-8fc8-27c130896654"> <state value="?" variable="T125"/> <bbox w="35.0" h="10.0" x="24185.156" y="14074.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa70_ce_csa70" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RAD18:RAD6*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> </body> </html> </notes> <label text="RAD6*/RAD18"/> <bbox w="102.0" h="125.0" x="17046.473" y="15543.356"/> <glyph class="macromolecule" id="s_id_ce_sa669_ce_sa669"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD18 homolog (S. cerevisiae)</p> <p>HUGO:RAD18, HGNC:18278, ENTREZ:56852, UNIPROT:Q9NS91</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>Rad 18 in complex with UBE2B (or UBE2A) ubiquitinates PCNA that maked PCNA available to TLS pathway specifically</p> <p>PMID:20129063</p> <p>RAD18 is a E3 ligase</p> <p>PMID:10884424, PMID:18363965, PMID:19013543, PMID:16611994, PMID:19396164, PMID:19258535, PMID:20675655, PMID:18196958, PMID:17652783</p> </body> </html> </notes> <label text="RAD18"/> <bbox w="80.0" h="40.0" x="17057.402" y="15556.779"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa670_ce_sa670"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-conjugating enzyme E2A (RAD6 homolog)</p> <p>HUGO:UBE2A, HGNC:12472, ENTREZ:7319, UNIPROT:P49459</p> <p>ubiquitin-conjugating enzyme E2B (RAD6 homolog)</p> <p>HUGO:UBE2B, HGNC:12473, ENTREZ:7320, UNIPROT:P63146</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:18196958, PMID:17652783</p> <p>In complex with RAD18 ubiquitinates PCNA at Lys164 making PCNA specific for TLS DNA repair activation</p> <p>PMID:19258535</p> </body> </html> </notes> <label text="RAD6*"/> <bbox w="80.0" h="40.0" x="17055.402" y="15605.779"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa256_ca_sa256" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0References:PMID:16713975IL12,IL15 and IL18 significantly 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h="40.0" x="20050.0" y="4865.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa173_emtc_em_csa173" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin1*:Claudin3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Claudin 1/Claudin 3*"/> <bbox w="118.0" h="35.0" x="1041.0" y="15370.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1222_emtc_em_sa1222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claudin 3</p> <p>HUGO:CLDN3, HGNC:2045, ENTREZ:1365, GENECARDS:GC07M073183, UNIPROT:O15551</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin3*"/> <bbox w="59.0" h="16.0" x="1041.4" y="15371.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1221_emtc_em_sa1221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 1</p> <p>HUGO:CLDN1, HGNC:2032, ENTREZ:9076, UNIPROT:O95832, GENECARDS:GC03M190023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin1*"/> <bbox w="57.0" h="16.0" x="1101.4" y="15371.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa196_in_csa196" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa196_in_csa196"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14697347"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11146654"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s2212"/> <bbox w="188.0" h="158.0" x="16518.75" y="1481.25"/> <glyph class="macromolecule" id="s_id_in_sa1468_in_sa1468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGB5"/> <bbox w="80.0" h="50.0" x="16616.25" y="1543.75"/> <glyph class="unit of information" id="_d09b3b84-3690-4d77-bdd0-5a0457cbfc4f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16633.75" y="1538.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1467_in_sa1467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGAV"/> <bbox w="80.0" h="50.0" x="16616.25" y="1493.75"/> <glyph class="unit of information" id="_4f8be10d-8e9c-4854-bcb9-9b07366c0790"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16633.75" y="1488.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1465_in_sa1465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MFGE8"/> <bbox w="80.0" h="40.0" x="16528.75" y="1546.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa493_wca1_wca1_sa493" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa493_wca1_wca1_sa493"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DAB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DAB2"/> <bbox w="80.0" h="40.0" x="20885.31" y="18391.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa37_ce_csa37" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRCA1:BRCA2:FANCD2:FANCI:FANCJ*:FANCN*:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19217432, PMID:18082604, PMID:19075014, PMID:18082605, PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa37_ce_csa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19075014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082605"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/BRCA2/FANCD2/FANCI/FANCJ*/FANCN*/RPA1/RPA2/RPA3"/> <bbox w="276.0" h="161.0" x="14727.473" y="16331.356"/> <glyph class="macromolecule" id="s_id_ce_sa540_ce_sa540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>"Fanconi anemia, complementation group N"</p> <p>HUGO:PALB2, HGNC:26144, ENTREZ:79728, UNIPROT:Q86YC2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:22505525</p> <p>Parthner and localizer of BRCA2. For Fancony anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="FANCN*"/> <bbox w="80.0" h="40.0" x="14823.615" y="16384.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa544_ce_sa544"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="14912.642" y="16381.062"/> <glyph class="state variable" id="_0f27b73c-695a-4765-b750-fbf9138b3f2c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14907.642" y="16396.062"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa537_ce_sa537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 2, early onset, FANCD1</p> <p>HUGO:BRCA2, HGNC:1101, ENTREZ:675, UNIPROT:P51587</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="BRCA2"/> <bbox w="80.0" h="40.0" x="14740.615" y="16381.928"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa545_ce_sa545"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="14912.642" y="16421.062"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa543_ce_sa543"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="14912.642" y="16339.062"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa542_ce_sa542"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group D2</p> <p>HUGO:FANCD2, HGNC:3585, ENTREZ:2177, UNIPROT:Q9BXW9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22751496, PMID:23444773, PMID:20723763</p> </body> </html> </notes> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="14743.979" y="16427.0"/> <glyph class="state variable" id="_96674832-7b7d-4312-8571-ebd114515125"> <state value="Ub" variable="K561"/> <bbox w="40.0" h="10.0" x="14763.883" y="16462.0"/> </glyph> <glyph class="state variable" id="_5fa2fea6-27ee-4264-855b-c513d5576b37"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="14769.811" y="16422.0"/> </glyph> <glyph class="state variable" id="_80d56095-eaa9-440f-b74c-cee9fceadb1b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14736.479" y="16433.715"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa538_ce_sa538"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14741.615" y="16338.928"/> <glyph class="state variable" id="_9665e9fd-74ff-4794-ae94-e655f570e7fb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14813.701" y="16373.928"/> </glyph> <glyph class="state variable" id="_9c24fcc8-2dcc-44db-8ca4-b4598608e6fa"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="14781.477" y="16333.928"/> </glyph> <glyph class="state variable" id="_b78c621f-1c4c-40e0-93e1-21c960e6cadc"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="14743.242" y="16333.928"/> </glyph> <glyph class="state variable" id="_fb90a143-ca03-48e1-a39c-17af828c4002"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14761.367" y="16333.928"/> </glyph> <glyph class="state variable" id="_df9838d9-d09a-4ce3-a84e-cabd6b9cb1ac"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14724.115" y="16353.8955"/> </glyph> <glyph class="state variable" id="_c8f8c773-d3d3-4063-ab33-e5eaf9d930e0"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14726.615" y="16369.399"/> </glyph> <glyph class="state variable" id="_34b49c45-0141-4fc5-9bbb-a608816ca248"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14804.115" y="16339.168"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa539_ce_sa539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1 interacting protein C-terminal helicase 1, BACH1, FANCJ</p> <p>HUGO:BRIP1, HGNC:20473, ENTREZ:83990, UNIPROT:Q9BX63</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:TLS, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>Phosphorylated FANCJ bound to BRCA1 activates HR. Dephosphorylated FANCJ bound to MLH1 activates TLS via POLH. This is a switch mechanism</p> <p>PMID:20173781</p> </body> </html> </notes> <label text="FANCJ*"/> <bbox w="80.0" h="40.0" x="14828.615" y="16338.928"/> <glyph class="state variable" id="_7151733b-dba3-47f1-9b42-a16a1b0be733"> <state value="" variable="S990"/> <bbox w="30.0" h="10.0" x="14853.647" y="16333.928"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa541_ce_sa541"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group I</p> <p>HUGO:FANCI, HGNC:25568, ENTREZ:55215, UNIPROT:Q9NVI1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22101340</p> </body> </html> </notes> <label text="FANCI"/> <bbox w="80.0" h="40.0" x="14826.115" y="16426.57"/> <glyph class="state variable" id="_7d63eec6-cd57-4410-8509-2bce87ab39a1"> <state value="Ub" variable="K523"/> <bbox w="40.0" h="10.0" x="14844.819" y="16461.57"/> </glyph> <glyph class="state variable" id="_4162b4d7-ebcf-4fe8-9e34-da4c14aaa290"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14898.612" y="16461.57"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa60_shh1_shh1_csa60" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha__sub_i_endsub_*</p> <p>References:</p> <p>s_shh1_re27:(MAP:survival) PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gαi*"/> <bbox w="40.0" h="30.0" x="25984.56" y="17762.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa346_shh1_shh1_sa346"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa188_mpk1_mpk1_sa188"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RASA4"/> <bbox w="50.0" h="25.0" x="7968.06" y="19244.5"/> </glyph> <glyph class="source and sink" id="s_id_ca_sa970_ca_sa970" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ca_csa107_degraded"/> <bbox w="30.0" h="30.0" x="215.0" y="3075.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa971_in_sa971" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION, MODULE:IMMUNE_SUPPRESSIONCASCADE:TGFB, CASCADE:MIF, CASCADE:LGALS1, CASCADE:CSF1, CASCADE:STING, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IL4References:PMID:21115385IL10 is immunosuppressive cytokine.PMID:10623821, PMID:10623821IL10 expression in macrophages is assosiatedwith TAM (M2) phenotype.PMID:20547845TLR4 signaling downstream of HMGB1 induces secretion of IL10.PMID:16713974RNAi-mediated knockdown of CREB, Fos, and Jun expression resulted in diminished TLR2-induced IL-10 productionGSK3B inhitits activation (DNA binding) of AP-1 factors.JNK is a classical activator of AP1 transcription factors.Inhibition of JNK downregulates IL10 expression. Probably viaPMID:15749884c-Maf binds to the -206/-171 region in the IL-10 promoter and upregulates IL10 expression.AP1.PMID:25164013HMGB1 activates MDSCs via the NF-kB pathway It increases MDSC-mediated production of IL-10, enhanced crosstalk between MDSCs and macrophages, and facilitated the ability of MDSCs to downregulate expression of the T-cell homing receptor L-selectin.PMID:21191065 regulatory effect of galectin-1 is mediated, in part, through its ability to induce, in an Id3 (inhibitor of DNA binding 3)-dependent manner, the expression of IL-10 in monocytes and MdDCs.significantly increased IL-10 promoter activity was noted in CD14+ monocytes in the presence of A459-CM, NCI-H460-CM, or galectin-1. Increased IL-10 promoter activity was also found in cells overexpressing Id3PMID:23390297MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23PMID:17404308CSF1 induces IL10 and CCL2 mRNA expression in macrophagesPMID:16394015 , PMID:19667062, PMID:15067049Fos inhibits the expression of IL-12 p40 and IFNB and upregulates IL10 production downstream of FOS in macrophages and DCs PMID:23986532STING ablation abolished hallmark TGF-B and IL-10 regulatory cytokine induction (mRNA)by apoptotic cells, and proinflammatory IL-6 mRNA was expressed instead in DCsPMID:17114424Macrophages and myeloid dendritic cells, but not plasmacytoid dendritic cells, produce IL-10 in response to MyD88- and TRIF-dependent TLR signals, and TLR-independent signals. PMID:25215878FL partially antagonized IL-10-mediated inhibition on DCs function (probably via STAT3) and downregulates IL10 mRNA expression in DCs.PMID:16713974, PMID:14607900INFG inhibits Il-10 exspression upregulated by TLR signaling partially via STAT1. STAT1 overexpression prevents STAT3 homodimerization in macrophages.PMID:16424049IFNG induces INOS and IL10 expression and TGFB secretion in MDSCIL-4 dose dependently stimulated c-Maf expression (both short and long forms) in resting monocytes.c-Maf binds to the -206/-171 region in the IL-10 promoter and upregulates IL10 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION, MODULE:IMMUNE_SUPPRESSIONCASCADE:TGFB, CASCADE:MIF, CASCADE:LGALS1, CASCADE:CSF1, CASCADE:STING, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IL4References:PMID:21115385IL10 is immunosuppressive cytokine.PMID:10623821, PMID:10623821IL10 expression in macrophages is assosiatedwith TAM (M2) phenotype.PMID:20547845TLR4 signaling downstream of HMGB1 induces secretion of IL10.PMID:16713974RNAi-mediated knockdown of CREB, Fos, and Jun expression resulted in diminished TLR2-induced IL-10 productionGSK3B inhitits activation (DNA binding) of AP-1 factors.JNK is a classical activator of AP1 transcription factors.Inhibition of JNK downregulates IL10 expression. Probably viaPMID:15749884c-Maf binds to the -206/-171 region in the IL-10 promoter and upregulates IL10 expression.AP1.PMID:25164013HMGB1 activates MDSCs via the NF-kB pathway It increases MDSC-mediated production of IL-10, enhanced crosstalk between MDSCs and macrophages, and facilitated the ability of MDSCs to downregulate expression of the T-cell homing receptor L-selectin.PMID:21191065 regulatory effect of galectin-1 is mediated, in part, through its ability to induce, in an Id3 (inhibitor of DNA binding 3)-dependent manner, the expression of IL-10 in monocytes and MdDCs.significantly increased IL-10 promoter activity was noted in CD14+ monocytes in the presence of A459-CM, NCI-H460-CM, or galectin-1. Increased IL-10 promoter activity was also found in cells overexpressing Id3PMID:23390297MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23PMID:17404308CSF1 induces IL10 and CCL2 mRNA expression in macrophagesPMID:16394015 , PMID:19667062, PMID:15067049Fos inhibits the expression of IL-12 p40 and IFNB and upregulates IL10 production downstream of FOS in macrophages and DCs PMID:23986532STING ablation abolished hallmark TGF-B and IL-10 regulatory cytokine induction (mRNA)by apoptotic cells, and proinflammatory IL-6 mRNA was expressed instead in DCsPMID:17114424Macrophages and myeloid dendritic cells, but not plasmacytoid dendritic cells, produce IL-10 in response to MyD88- and TRIF-dependent TLR signals, and TLR-independent signals. PMID:25215878FL partially antagonized IL-10-mediated inhibition on DCs function (probably via STAT3) and downregulates IL10 mRNA expression in DCs.PMID:16713974, PMID:14607900INFG inhibits Il-10 exspression upregulated by TLR signaling partially via STAT1. STAT1 overexpression prevents STAT3 homodimerization in macrophages.PMID:16424049IFNG induces INOS and IL10 expression and TGFB secretion in MDSCIL-4 dose dependently stimulated c-Maf expression (both short and long forms) in resting monocytes.c-Maf binds to the -206/-171 region in the IL-10 promoter and upregulates IL10 expression. </body> </html> </notes> <label text="IL10"/> <bbox w="119.0" h="43.0" x="10383.125" y="5766.375"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa254_mo_sa254" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>ADP ribosylation factor guanine nucleotide exchange factor 1 </p> <p> </p> <p>ADP ribosylation factor guanine nucleotide exchange factor 2 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</extension> <label text="ATG9A"/> <bbox w="80.0" h="40.0" x="28609.56" y="11163.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa722_ca_sa722" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1, CASCADE:TGFBPMID:8133053IL1a and TGFB induce IL11 gene expression and protein accamulation in fibroblasts. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1, CASCADE:TGFBPMID:8133053IL1a and TGFB induce IL11 gene expression and protein accamulation in fibroblasts. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa722_ca_sa722"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8133053"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8133053"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL11"/> <bbox w="70.0" h="25.0" x="715.0" y="3168.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa42_ce_csa42" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRCA1:CTIP*:MRE11*:NBS1*:PARP1:PARP2:RAD50</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>For central role of the MRN complex and CtIP in the resection of the DNA that turns on the HR and off C_NHEJ</p> <p>PMID:20021983</p> <p>PARP1 and PARP2 in HR </p> <p>PMID:22469522, PMID:196269035</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa42_ce_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20021983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22469522"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:196269035"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/CtIP*/MRE11*/PARP1/PARP2/NBS*/RAD50"/> <bbox w="199.0" h="196.0" x="14321.473" y="14622.356"/> <glyph class="macromolecule" id="s_id_ce_sa1572_ce_sa1572"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="79.0" h="40.0" x="14421.056" y="14753.689"/> <glyph class="state variable" id="_a3290637-6b1a-4545-885f-cbd2cd93c372"> <state value="?" variable="PolyADPribose"/> <bbox w="79.0" h="10.0" x="14416.725" y="14748.689"/> </glyph> <glyph class="state variable" id="_d65eda89-aca9-464d-b8bd-24968ef99303"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="14401.056" y="14772.919"/> </glyph> <glyph class="state variable" id="_342f63b6-c3f9-4bc6-a535-3cf9b73a545a"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="14409.748" y="14788.689"/> </glyph> <glyph class="state variable" id="_f6e9204c-9920-4f24-aa7e-72e8cebd5b4d"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="14401.056" y="14782.621"/> </glyph> <glyph class="state variable" id="_abecc69d-38f8-400d-a091-62ae59e67dc4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14492.556" y="14768.689"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa564_ce_sa564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRE11 meiotic recombination 11 homolog A (S. cerevisiae)</p> <p>HUGO:MRE11A, HGNC:7230, ENTREZ:4361, UNIPROT:P49959</p> <p>MRE11 meiotic recombination 11 homolog B (S. cerevisiae)</p> <p>HUGO:RE11B, HGNC:7231, ENTREZ:4362</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="14425.973" y="14627.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa523_ce_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="14421.723" y="14710.448"/> <glyph class="state variable" id="_1bbe7c71-dc9a-4f91-ad51-80ebb4425065"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="14404.223" y="14733.632"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1574_ce_sa1574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 2</p> <p>HUGO:PARP2, HGNC:272, ENTREZ:10038, Q9UGN5</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 and PARP2 in HR and in inhibition of C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> <p>PARP2 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> </body> </html> </notes> <label text="PARP2"/> <bbox w="80.0" h="40.0" x="14330.187" y="14748.785"/> <glyph class="state variable" id="_d2e57e49-d4e7-42c9-95f5-a1066e60019b"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="14360.096" y="14743.785"/> </glyph> <glyph class="state variable" id="_2d88e3e7-73ed-4d5b-a055-7f234ec88c11"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14402.687" y="14763.065"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa562_ce_sa562"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14335.473" y="14637.356"/> <glyph class="state variable" id="_4eb1c4b1-7fcd-4312-b1fb-73618a08f961"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14407.559" y="14672.356"/> </glyph> <glyph class="state variable" id="_b7810192-8dd6-482e-aea0-91f55f9b2dc0"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="14375.334" y="14632.356"/> </glyph> <glyph class="state variable" id="_860eb1fb-b02f-4a00-879a-6601c96f35bf"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="14337.1" y="14632.356"/> </glyph> <glyph class="state variable" id="_7fcbf234-b2d4-4e9d-805d-e88faeb77b0e"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14355.225" y="14632.356"/> </glyph> <glyph class="state variable" id="_8569b259-18a1-435c-af3f-414b8a8caa36"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14317.973" y="14652.324"/> </glyph> <glyph class="state variable" id="_bf28bcf4-e877-45b8-a010-94ddaa6bb932"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14320.473" y="14667.827"/> </glyph> <glyph class="state variable" id="_eb708dee-5835-4769-9f08-7f65d375848b"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14397.973" y="14637.596"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa563_ce_sa563"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma binding protein 8 (RIM)</p> <p>CTBP-interacting protein (CtIP)</p> <p>HUGO:RBBP8, HGNC:9891, ENTREZ:5932, UNIPROT:Q99708</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:17965729, PMID:9721205, PMID:19202191, PMID:18171986, PMID:20723763</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="CTIP*"/> <bbox w="80.0" h="40.0" x="14336.687" y="14683.43"/> <glyph class="state variable" id="_43945909-ef41-4b20-a1fb-366b5ece52cb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14331.687" y="14698.43"/> </glyph> <glyph class="state variable" id="_5062497c-5860-4cfc-bb14-bad397a2f3e8"> <state value="P" variable="T847"/> <bbox w="35.0" h="10.0" x="14319.187" y="14685.281"/> </glyph> <glyph class="state variable" id="_bb8e00aa-7547-4158-bd9a-b61bf8177f0c"> <state value="P" variable="S267"/> <bbox w="35.0" h="10.0" x="14319.187" y="14708.801"/> </glyph> <glyph class="state variable" id="_37f9fa34-e13e-4e11-8b17-aacfc77500c7"> <state value="Ub" variable="BRCA1-dep"/> <bbox w="65.0" h="10.0" x="14335.556" y="14718.43"/> </glyph> <glyph class="state variable" id="_f54138e2-4ec9-4a6a-a815-b045e0ceeecf"> <state value="P" variable="S372"/> <bbox w="35.0" h="10.0" x="14342.781" y="14678.43"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa565_ce_sa565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD50 homolog (S. cerevisiae)</p> <p>HUGO:RAD50, HGNC:9816, ENTREZ:10111, UNIPROT:Q92878</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="RAD50"/> <bbox w="80.0" h="40.0" x="14424.973" y="14667.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa956_ca_sa956" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:20015200</p> <p>Tissue factor pathway inhibitor-2 (TFPI-2) is a potent inhibitor of plasmin which activates matrix metalloproteinases (MMPs) involved in degradation of the extracellular matrix. Its secretion in the tumour microenvironment makes TFPI-2 a potential inhibitor of tumour invasion and metastasis</p> <p>TFPI-2 down-regulation enhanced cell adhesion to collagen IV and laminin via an increase in α(1) integrin on cell surface, and increased MMP expression (mainly MMP-1 and -3) contributing to cancer cell invasion through basement membrane components.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa956_ca_sa956"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20015200"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP3"/> <clone/> <bbox w="80.0" h="40.0" x="5460.0" y="4590.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa956_emtc_em_sa13" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:20015200</p> <p>Tissue factor pathway inhibitor-2 (TFPI-2) is a potent inhibitor of plasmin which activates matrix metalloproteinases (MMPs) involved in degradation of the extracellular matrix. Its secretion in the tumour microenvironment makes TFPI-2 a potential inhibitor of tumour invasion and metastasis</p> <p>TFPI-2 down-regulation enhanced cell adhesion to collagen IV and laminin via an increase in α(1) integrin on cell surface, and increased MMP expression (mainly MMP-1 and -3) contributing to cancer cell invasion through basement membrane components.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa956_emtc_em_sa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20015200"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP3"/> <clone/> <bbox w="40.0" h="20.0" x="2605.0" y="17329.701"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2426_in_sa2426" compartmentRef="s_id_in_ca15_in_ca15"> <label text="CST3"/> <bbox w="80.0" h="40.0" x="20600.0" y="6240.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa941_emtc_em_sa941" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa941_emtc_em_sa941"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VE-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="1121.0" y="16587.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa941_an_sa505" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa941_an_sa505"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VE-Cadherin*"/> <clone/> <bbox w="90.0" h="40.0" x="4126.0" y="7655.0"/> </glyph> <glyph class="complex" id="s_id_te_csa25_te_csa25" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/NAF1/NHP2/NOP10/TERC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa25_te_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/NAF1/NHP2/NOP10/TERC"/> <bbox w="365.0" h="135.0" x="5897.56" y="21986.5"/> <glyph class="macromolecule" id="s_id_te_sa211_te_sa211"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="6027.56" y="22006.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa212_te_sa212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="5937.56" y="22056.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa210_te_sa210"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> 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class="macromolecule" id="s_id_te_sa213_te_sa213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear assembly factor 1 ribonucleoprotein</p> <p>HUGO:NAF1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NAF1"/> <bbox w="80.0" h="40.0" x="6027.56" y="22056.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2734_in_sa2734" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRF9"/> <bbox w="80.0" h="40.0" x="18245.0" y="4635.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa46_in_sa46" compartmentRef="s_id_in_ca15_in_ca15"> <label text="Tumor_antigen"/> <bbox w="80.0" h="40.0" x="19920.0" y="6350.0"/> </glyph> <glyph class="complex" id="s_id_in_csa47_in_csa47" compartmentRef="s_id_in_ca12_in_ca12"> <label text="WASP*:WIPF1"/> <bbox w="110.0" h="140.0" x="18305.0" 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<rdf:Description rdf:about="#s_id_wnc1_wnc1_sa657_wnc1_wnc1_sa534"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP6V0C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP6V0D1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP6VOC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP6V0C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP6V0D2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP6V0C_D*"/> <clone/> <bbox w="80.0" h="40.0" x="15339.061" y="19347.0"/> <glyph class="unit of information" id="_3ade259f-797a-4b10-8ac6-50d3f59ab6fe"> <label text="ion channel"/> <bbox w="60.0" h="10.0" x="15349.061" y="19342.0"/> </glyph> <glyph class="state variable" id="_e7be7281-2c3a-4d81-b8e9-9563b2c8a830"> <state value="closed" variable=""/> <bbox w="40.0" h="10.0" x="15359.061" y="19382.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2229_in_sa2229" compartmentRef="s_id_in_ca12_in_ca12"> <label text="HCK"/> <clone/> <bbox w="80.0" h="40.0" x="18097.5" y="2260.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2229_in_sa2230" compartmentRef="s_id_in_ca12_in_ca12"> <label text="HCK"/> <clone/> <bbox w="80.0" h="40.0" x="18097.5" y="2360.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1802_emtc_em_sa1802" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1802_emtc_em_sa1802"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HER2*"/> <bbox w="80.0" h="50.0" x="1768.5" y="12610.5"/> <glyph class="unit of information" id="_3c2e54e3-2a15-4315-adc2-33446739512b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1786.0" y="12605.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa504_rc_csa504" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EIF2S1:EIF2S2:EIF2S3:GDP:Met-tRNA*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:16246152</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa504_rc_csa504"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16246152"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF2:GDP:Met-tRNA*"/> <bbox w="100.0" h="234.0" x="27699.06" y="15409.0"/> <glyph class="nucleic acid feature" id="s_id_rc_sa5154_rc_sa5154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MACC1, MET transcriptional regulator</p> <p>HUGO:MACC1 hgnc_id:HGNC:30215 HGNC:30215 ENTREZ:346389 UNIPROT:Q6ZN28</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12667446</p> </body> </html> </notes> <label text="Met-tRNA*"/> <bbox w="90.0" h="25.0" x="27704.06" y="15426.5"/> <glyph class="unit of information" id="_787118ee-64a4-4832-a152-030a1848874b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27739.06" y="15421.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5151_rc_sa5151"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>HUGO:EIF2S2 hgnc_id:HGNC:3266 HGNC:3266 ENTREZ:8894 UNIPROT:P20042</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="EIF2S2"/> <bbox w="80.0" h="40.0" x="27708.291" y="15504.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5152_rc_sa5152"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit gamma</p> <p>HUGO:EIF2S3 hgnc_id:HGNC:3267 HGNC:3267 ENTREZ:1968 UNIPROT:P41091</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit gamma</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="EIF2S3"/> <bbox w="80.0" h="40.0" x="27709.06" y="15549.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5153_rc_sa5153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="27714.06" y="15591.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5150_rc_sa5150"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>HUGO:EIF2S1 hgnc_id:HGNC:3265 HGNC:3265 ENTREZ:1965 UNIPROT:P05198</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>PMID:12667446</p> <p>PMID:16246152</p> <p>PMID:12601012</p> </body> </html> </notes> <label text="EIF2S1"/> <bbox w="80.0" h="40.0" x="27709.06" y="15464.0"/> <glyph class="state variable" id="_1c3bcfb4-682d-45e1-89f2-945310806a0a"> <state value="" variable="Ser51"/> <bbox w="35.0" h="10.0" x="27748.51" y="15459.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa102_emtc_em_sa102" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa102_emtc_em_sa102"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Plakophilin3*"/> <bbox w="120.0" h="20.0" x="2740.0" y="16869.5"/> <glyph class="unit of information" id="_0b30db76-7bae-483c-be3a-a1a2b7d35866"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2790.0" y="16864.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3964_rc_sa3964" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3964_rc_sa3964"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~AIFM1*"/> <bbox w="80.0" h="40.0" x="23409.06" y="13689.0"/> <glyph class="state variable" id="_f7c8f222-7454-49d9-ad8c-27dae11dca41"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23460.629" y="13684.0"/> </glyph> <glyph class="unit of information" id="_3f6ad607-0a01-4337-a626-e94773f65b89"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23424.06" y="13684.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa259_rc_sa259" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa259_rc_sa259"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDHA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SDHA"/> <bbox w="80.0" h="40.0" x="18555.31" y="14152.625"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa628_rc_sa628" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa628_rc_sa628"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALDOA"/> <bbox w="70.0" h="25.0" x="22892.06" y="16307.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa692_mpk1_mpk1_sa692" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa692_mpk1_mpk1_sa692"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p70α*"/> <bbox w="50.0" h="25.0" x="8098.06" y="20329.5"/> <glyph class="state variable" id="_dfeaf890-bb50-4b67-838f-c2cc86ccb3c2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8090.56" y="20337.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa54_wca1_wca3_csa54" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:KLF8:PYGO*:_beta_-Catenin*:p300*</p> <p>References:</p> <p>s_wca3_re114(MAP:survival):</p> <p>KLF8 recruits P300</p> <p>PMID:22761862 PMID:20107328</p> <p>s_wca3_re115:(MAP:survival) PMID:21416054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21049.373" y="21597.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa327_wca1_wca3_sa327"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21049.373" y="21637.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa330_wca1_wca3_sa330"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 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GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21048.873" y="21677.5"/> <glyph class="state variable" id="_7fce130c-57ae-4b2d-a017-0a86c1c41378"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21036.865" y="21672.5"/> </glyph> <glyph class="state variable" id="_d3bad143-4d3d-430b-8f52-e2d9370182b7"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21036.373" y="21712.22"/> </glyph> <glyph class="state variable" id="_e89ce7fb-57a6-4bf4-a8b5-d701e00cbcad"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21113.873" y="21672.713"/> </glyph> <glyph class="state variable" 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Infiltrating tumour cells need to induce stromal POSTN expression in the secondary target organ (in this case lung) to initiate colonization. POSTN is required to allow cancer stem cell maintenance, and blocking its function prevents metastasis. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:TGFBPMID:22158103 Postn expression in fibroblast is activated by TGFB signaling, probably via SMAD. Infiltrating tumour cells need to induce stromal POSTN expression in the secondary target organ (in this case lung) to initiate colonization. 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id="s_id_emtc_em_sa499_emtc_em_sa499" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa499_emtc_em_sa499"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1"/> <clone/> <bbox w="47.0" h="20.0" x="3769.0" y="14621.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa499_rc_sa2428" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa499_rc_sa2428"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1"/> <clone/> <bbox w="80.0" h="40.0" x="22901.56" y="16814.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4822_rc_sa4822" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:28747251</p> <p>PMID:27157108 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4822_rc_sa4822"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27157108"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="low Ca2+ level"/> <bbox w="120.0" h="35.0" x="26759.06" y="13541.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa456_rc_csa456" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:PIP3*:WIP*</p> <p>References:</p> <p>23725295</p> </body> </html> </notes> <label text="PIP3*:WIP*"/> <bbox w="106.0" h="101.0" x="28391.31" y="11698.083"/> <glyph class="simple chemical" id="s_id_rc_sa4390_rc_sa4390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="28411.81" y="11704.583"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4389_rc_sa4389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WAS/WASL interacting protein family, member 1</p> <p>HUGO:WIPF1 HGNC:12736 ENTREZ:7456 UNIPROT:O43516 </p> <p>WAS/WASL interacting protein family, member 2</p> <p>HUGO:WIPF2 HGNC:30923 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa24_wnc1_wnc4_sa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="80.0" h="40.0" x="17687.06" y="21029.5"/> <glyph class="state variable" id="_fa10934c-b729-49d3-a40b-71cb0c084489"> <state value="P" variable="S522"/> <bbox w="35.0" h="10.0" x="17749.56" y="21024.713"/> </glyph> <glyph class="state variable" id="_160f8035-3387-4b16-87dc-32f0d22c7af9"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" x="17738.889" y="21024.5"/> </glyph> <glyph class="state variable" id="_6d0cc699-7f40-4de5-8e69-d86ffe255ddc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa24_wnc1_wnc1_sa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="80.0" h="40.0" x="15695.061" y="18064.0"/> <glyph class="state variable" id="_3538c79b-eed7-47fa-81e6-6180c7abd9ab"> <state value="P" variable="S522"/> <bbox w="35.0" h="10.0" x="15757.561" y="18059.213"/> </glyph> <glyph class="state variable" id="_a3769f8e-a280-4077-847b-88d2ee874f50"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" x="15746.889" y="18059.0"/> </glyph> <glyph class="state variable" id="_d7e8648d-e85a-46ec-a197-282d8a62e7fa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15746.54" y="18059.0"/> </glyph> <glyph class="state variable" id="_6b1ab320-5133-4d45-8603-3e3598126e38"> <state value="" variable="Y142"/> <bbox 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rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="64.0" h="90.0" x="18808.844" y="18038.0"/> <glyph class="state variable" id="_5939d4eb-ad8f-475d-9baf-121e3139ef17"> <state value="P" variable="S522"/> <bbox w="35.0" h="10.0" x="18855.344" y="18033.479"/> </glyph> <glyph class="state variable" id="_16955f6e-ba91-4cb8-8b91-35afccdd3492"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" x="18847.307" y="18033.0"/> </glyph> <glyph class="state variable" id="_f3dc370f-1e92-4949-acdf-9e4f148ea09b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18849.027" y="18033.0"/> </glyph> <glyph class="state variable" id="_230c588c-3d99-4827-a49c-852bffc455e8"> <state value="" variable="Y142"/> <bbox w="30.0" h="10.0" x="18832.023" y="18033.0"/> </glyph> <glyph class="state variable" id="_a70b1493-6932-4640-8b47-726dd7c5d3dd"> <state value="" variable="S675"/> <bbox w="30.0" h="10.0" x="18857.35" y="18123.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4489_rc_sa4489" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12546687</p> <p>PMID:23110147</p> <p>Any energy inbalance increases the AMP/ATP ratio and activates AMPK through LKB1 activation</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4489_rc_sa4489"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23110147"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="High AMP/ATP ratio"/> <bbox w="134.0" h="30.0" x="25947.06" y="11609.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa539_rc_csa539" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NLRC4:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa539_rc_csa539"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="_25a04c7e-2b51-4e72-8334-6273198746c0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28121.56" y="9616.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5408_rc_sa5408"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NLRC4</p> <p>synonyms:NLR family, CARD domain containing 4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23940371</p> </body> </html> </notes> <label text="NLRC4"/> <bbox w="80.0" h="50.0" x="28094.06" y="9611.5"/> <glyph class="state variable" id="_c333333f-f407-4f37-a227-848de71c8b47"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28166.56" y="9606.5"/> </glyph> <glyph class="unit of information" id="_5db43daf-968f-4340-a03d-2c11c94220e8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28111.56" y="9606.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5419_rc_sa5419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis 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PMID:21209389, PMID:18680434 </body> </html> </notes> <label text="Telomeric_DNA*"/> <bbox w="115.0" h="23.0" x="3855.56" y="21593.75"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa110_te_sa110"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protection of telomere 1</p> <p>HUGO:POT1, HGNC:17284, ENTREZ:25913, UNIPROT:Q9NUX5, GENECARDS:POT1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of POT1</p> <p>PMID:11349150</p> </body> </html> </notes> <label text="POT1"/> <bbox w="80.0" h="40.0" x="3763.06" y="21575.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa113_te_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor 2</p> <p>HUGO:TERF2, HGNC:11728, ENTREZ:7014, UNIPROT:Q15554, GENECARDS:TERF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF2</p> <p>PMID:9326951</p> </body> </html> </notes> <label text="TERF2"/> <bbox w="86.0" h="46.0" x="3980.06" y="21562.0"/> <glyph class="unit of information" id="_5af63ce4-8b18-4274-b3c4-339c5b982f97"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="4013.06" y="21557.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa114_te_sa114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAP1A, member of RAS oncogene family</p> <p>HUGO:RAP1A, HGNC:9855, ENTREZ:5906, UNIPROT:P62834, GENECARDS:RAP1A </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of RAP1A</p> <p>PMID:10850490</p> </body> </html> </notes> <label text="RAP1A"/> <bbox w="80.0" h="40.0" x="3983.06" y="21615.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa111_te_sa111"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor (NIMA-interacting) 1</p> <p>HUGO:TERF1, HGNC:11728, ENTREZ:7013, UNIPROT:P54274, GENECARDS:TERF1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF1</p> <p>PMID:7502076</p> </body> </html> </notes> <label text="TERF1*"/> <bbox w="86.0" h="46.0" x="3870.06" y="21522.0"/> <glyph class="unit of 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa589_emtc_em_sa315"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB3"/> <clone/> <bbox w="40.0" h="20.0" x="4990.799" y="17842.5"/> <glyph class="unit of information" id="_ee236a9f-7fc3-4b92-bde6-00edcd874229"> <label text="receptor"/> <bbox w="40.0" h="10.0" x="4990.799" y="17837.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa589_mo_sa55" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:PGE</p> <p>PMID:23873014, PMID:19934056,PMID:22182446</p> <p>Probably CAFS inhibit NK cells via PGE2 signaling.</p> <p>addition of the PGE2 inhibitor NS398 to cocultures restored the expression of NKp44 and NKp30.</p> <p>There is a correlation between PGE2 release and inhibitory functions in tumor fibroblasts.</p> <p>PMID:22182446</p> <p>Increased levels of PGE2 were found in cocultured supernatants from HCC-derived fibroblasts, and up-regulated expression of IDO and COX-2 were detected in these cells.</p> <p>The expression of NKP30, NKG2D, granzyme B and perforin were partly restored by PGE2 inhibitor and IDO inhibitor and</p> <p>the production of TNF-α and IFN-γ were fully restored by them.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa131_ca_sa131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23873014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22182446"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22182446"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGE2"/> <clone/> <bbox w="70.0" h="25.0" x="1075.0" y="4367.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa131_ca_sa387" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:PGE</p> <p>PMID:23873014, PMID:19934056,PMID:22182446</p> <p>Probably CAFS inhibit NK cells via PGE2 signaling.</p> <p>addition of the PGE2 inhibitor NS398 to cocultures restored the expression of NKp44 and NKp30.</p> <p>There is a correlation between PGE2 release and inhibitory functions in tumor fibroblasts.</p> <p>PMID:22182446</p> <p>Increased levels of PGE2 were found in cocultured supernatants from HCC-derived fibroblasts, and up-regulated expression of IDO and COX-2 were detected in these cells.</p> <p>The expression of NKP30, NKG2D, granzyme B and perforin were partly restored by PGE2 inhibitor and IDO inhibitor and</p> <p>the production of TNF-α and IFN-γ were fully restored by them.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa131_ca_sa387"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23873014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22182446"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22182446"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGE2"/> <clone/> <bbox w="70.0" h="25.0" x="845.0" y="1367.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa131_in_sa1158" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:PGE</p> <p>PMID:23873014, PMID:19934056,PMID:22182446</p> <p>Probably CAFS inhibit NK cells via PGE2 signaling.</p> <p>addition of the PGE2 inhibitor NS398 to cocultures restored the expression of NKp44 and NKp30.</p> <p>There is a correlation between PGE2 release and inhibitory functions in tumor fibroblasts.</p> <p>PMID:22182446</p> <p>Increased levels of PGE2 were found in cocultured supernatants from HCC-derived fibroblasts, and up-regulated expression of IDO and COX-2 were detected in these cells.</p> <p>The expression of NKP30, NKG2D, granzyme B and perforin were partly restored by PGE2 inhibitor and IDO inhibitor and</p> <p>the production of TNF-α and IFN-γ were fully restored by them.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa131_in_sa1158"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23873014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22182446"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22182446"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGE2"/> <clone/> <bbox w="70.0" h="25.0" x="13285.0" y="1122.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa32_wnc1_wnc1_csa32" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha_*</p> <p>References:</p> <p>s_wnc1_re51(MAP:survival):</p> <p>PMID:20628572</p> <p>RGS3 and RGS14 are GTP-ase activating proteins for Gi_alpha and Gq_alpha.</p> <p>PMID:10999941</p> <p>PMID:12534294</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa32_wnc1_wnc1_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10999941"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12534294"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP:Gα*"/> <bbox w="60.0" h="75.0" x="16735.06" y="18469.5"/> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa206_wnc1_wnc1_sa206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="25.0" h="25.0" x="16752.56" y="18494.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa204_wnc1_wnc1_sa204"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 11 (Gq class) </p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12 </p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 5Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="16745.06" y="18474.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa59_emtc_em_csa59" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD1*:p27KIP1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK4_6*/Cyclin D1*/p27KIP1*"/> <bbox w="183.0" h="60.0" x="4027.0" y="14023.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2072_emtc_em_sa2072"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDK4_6*</p> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, GENECARDS:GC12M058142, UNIPROT:P11802 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, GENECARDS:GC07M092234, UNIPROT:Q00534  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="60.0" h="19.0" x="4077.0" y="14024.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa484_emtc_em_sa484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, GENECARDS:GC11P069455, UNIPROT:P24385</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:19238148</p> <p>CDK activity requires binding of regulatory subunits known as cyclins. </p> <p>Cyclins are synthesized and destroyed at specific times during the cell cycle, thus regulating kinase activity in a timely manner. </p> <p>Only several CDK–cyclin complexes are directly involved in driving the cell cycle: </p> <p>-3 interphase CDKs (CDK2, CDK4 and CDK6), 1 mitotic CDK (CDK1)</p> <p>-10 cyclins that belong to 4 different classes (the A-, B-, D- and E-type cyclins). </p> <p>PMID:9832503</p> <p>D-type cyclins are labile proteins guarantees</p> <p>Phosphorylation of cyclin D1 on T286 by GSK3B leads to the rapid ubiquitination and proteasomal degradation of cyclin D1</p> <p>cyclin D1 accumulates in the nucleus during G1 phase and exits into the cytoplasm during S phase</p> <p>GSK3B is predominantly cytoplasmic during G1 phase, but a significant fraction enters the nucleus during S phase.</p> <p>Phosphorylation and proteolytic turnover of cyclin D1 and its subcellular localization during the cell division cycle are linked through the action of GSK3B.</p> <p>PMID:10331086</p> <p>CDK inhibitors are classified into 2 families: Cip/Kip family and INK4 family</p> <p>INK4 family consists of p16INK4a, p15INK4B, p18INK4c, p19INK4d</p> <p>INK4 family spcially interacts with Cdk4 and Cdk6 but not other Cdks</p> <p>INK4 binding prevents the association of Cdk4 and Cdk6 with the D-type cyclins (D1, D2, D3)</p> <p>The vast majority of INK4 proteins are not found in complexes containing cyclins D. </p> <p>PMID:22943793</p> <p>TGFB induces expression of p15INK4B and represses expression of c-Myc</p> <p>p15INK4B is able to prevent cyclin D-CDK4/6 complex formation</p> <p>p15INK4B displaces p21CIP and p27KIP1 from cyclin D-CDK4/6 complexes. </p> <p>These CIP/KIP inhibitors are subsequently able to inactivate other complexes of G1 and S phase and therby inhibit cell cycle.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CyclinD1*"/> <bbox w="80.0" h="17.0" x="4099.0" y="14044.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa486_emtc_em_sa486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B, HGNC:1785, ENTREZ:1027, GENECARDS:GC12P012867, UNIPROT:P46527 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:24954210</p> <p>p27, p16 and p15 inhibits CDK4_6. This induces a G1 cell cycle arrest.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="64.0" h="17.0" x="4033.0" y="14045.0"/> <glyph class="state variable" id="_6044eb52-8b22-40a0-9eec-527f20d7f21c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4028.0" y="14056.882"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa278_rc_csa278" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FAD:PPOX</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="PPOX"/> <bbox w="102.0" h="90.0" x="18478.81" y="13118.75"/> <glyph class="macromolecule" id="s_id_rc_sa2224_rc_sa2224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protoporphyrinogen oxidase</p> <p>HUGO:PPOX HGNC:9280 ENTREZ:5498 UNIPROT:P50336</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="PPOX"/> <bbox w="80.0" h="40.0" x="18484.81" y="13123.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2224_rc_sa2226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protoporphyrinogen oxidase</p> <p>HUGO:PPOX HGNC:9280 ENTREZ:5498 UNIPROT:P50336</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="PPOX"/> <bbox w="80.0" h="40.0" x="18494.81" y="13133.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2225_rc_sa2227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16238</p> <p>KEGGCOMPOUND:C00016</p> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="18495.81" y="13162.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2225_rc_sa2225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16238</p> <p>KEGGCOMPOUND:C00016</p> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="18485.81" y="13152.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa531_wca1_wca1_sa531" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa531_wca1_wca1_sa531"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:INVS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Iversin*"/> <bbox w="80.0" h="40.0" x="20382.06" y="18650.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa35_wnc1_wnc2_csa35" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HOMER3:NFAT*</p> <p>References:</p> <p>s_wnc2_re55(MAP:survival):</p> <p>Homer1 binds only NFATc4/NFAT3, whereas NFATc3/NFAT4 does not bind to any Homer protein.</p> <p>PMID:18218901</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa35_wnc1_wnc2_csa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18218901"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HOMER3:NFAT*"/> <bbox w="108.0" h="138.0" x="17776.06" y="19200.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa186_wnc1_wnc2_sa186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="17788.81" y="19267.0"/> <glyph class="state variable" id="_4308376f-ee06-4f48-bb2b-dfd186f2aa3a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17861.31" y="19282.0"/> </glyph> <glyph class="state variable" id="_07b71634-83b5-44b2-80eb-97a3954fc305"> <state value="P" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>homer homolog 3 (Drosophila)</p> <p>HUGO:HOMER3 HGNC:17514 ENTREZ:9454 UNIPROT:Q9NSC5 GENECARDS:HOMER3 KEGG:9454 WIKI:HOMER3</p> <p>Map modules:</p> </body> </html> </notes> <label text="HOMER3"/> <bbox w="80.0" h="40.0" x="17788.81" y="19219.0"/> <glyph class="state variable" id="_6a98e495-2c68-479c-928e-38e54b527d48"> <state value="" variable="T36"/> <bbox w="25.0" h="10.0" x="17776.803" y="19214.0"/> </glyph> <glyph class="state variable" id="_a9a9e961-e81d-4b90-a511-e75548a041e0"> <state value="" variable="S52"/> <bbox w="25.0" h="10.0" x="17856.31" y="19214.213"/> </glyph> <glyph class="state variable" id="_0fa6fa21-e3f1-4388-a7a0-31b64cdf0d15"> <state value="" variable="S38"/> <bbox w="25.0" h="10.0" x="17816.342" y="19214.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3421_rc_sa3421" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18420 </p> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="18835.322" y="15015.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3507_rc_sa3507" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3507_rc_sa3507"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RNF8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RNF8"/> <bbox w="80.0" h="40.0" x="18916.06" y="16859.0"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa433_ca_sa433" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CORE_SIGNALING MODULE:CORE_ACTIVATION </p> <p>References:</p> <p>PMID:15817676</p> <p>PIP2 is mainly synthesized by the phosphorylation of phosphatidylinositol4-phosphate (PI4P) at the D-5 position of the inositol ring by phosphatidylinositol4phosphate 5-kinase type I (PI5KI)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa433_ca_sa433"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15817676"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PtdIns(4)-P"/> <bbox w="70.0" h="25.0" x="3700.0" y="2207.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3473_rc_sa3473" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3473_rc_sa3473"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM"/> <bbox w="80.0" h="40.0" x="18584.121" y="16632.098"/> <glyph class="state variable" id="_a3a01249-868a-4dea-9543-c742e81c998d"> <state value="P" variable="S1981"/> <bbox w="40.0" h="10.0" x="18620.69" y="16627.098"/> </glyph> <glyph class="state variable" id="_7c8495db-fd8e-48f5-b5be-438278cc1863"> <state value="Ac" variable="K3016"/> <bbox w="45.0" h="10.0" x="18585.217" y="16627.098"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2524_in_sa2524" compartmentRef="s_id_in_ca12_in_ca12"> <label text="UBE2I"/> <bbox w="80.0" h="40.0" x="11272.25" y="3900.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa126_ce_sa126" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa126_ce_sa126"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIG4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIG4"/> <bbox w="80.0" h="40.0" x="13451.307" y="16724.408"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa107_emtc_em_csa107" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAX:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="aXb2*"/> <bbox w="40.0" h="60.0" x="4974.701" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa648_emtc_em_sa648"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4974.701" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa650_emtc_em_sa650"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha X (complement component 3 receptor 4 subunit)</p> <p>CD11C, "integrin, alpha X (antigen CD11C (p150), alpha polypeptide)"</p> <p>HUGO:ITGAX HGNC:6152 ENTREZ:3687 UNIPROT:P20702</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAX"/> <bbox w="40.0" h="20.0" x="4974.701" y="18015.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1686_emtc_em_sa1686" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1686_emtc_em_sa1686"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DOCK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DOCK1"/> <bbox w="48.0" h="19.0" x="6647.0" y="14304.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2600_rc_sa2600" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17858 KEGGCOMPOUND:C00127 CAS:27025-41-8</p> <p>synonyms:gluthatione</p> </body> </html> </notes> <label text="GSSG"/> <bbox w="70.0" h="25.0" x="27024.06" y="9661.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa435_wca1_wca3_sa435" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa435_wca1_wca3_sa435"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UBE2C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UBCH10*"/> <clone/> <bbox w="80.0" h="40.0" x="22556.06" y="22589.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa435_wca1_wca3_sa147" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa435_wca1_wca3_sa147"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UBE2C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UBCH10*"/> <clone/> <bbox w="80.0" h="40.0" x="21467.56" y="21675.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa282_mo_sa282" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT serine/threonine kinase 1</p> <p>AKT serine/threonine kinase 2</p> <p>AKT serine/threonine kinase 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa282_mo_sa282"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="2235.0" y="11170.0"/> <glyph class="state variable" id="_ed0ad165-18ac-456c-8a4e-871a14183ea7"> <state value="P" variable="ser473"/> <bbox w="45.0" h="10.0" x="2292.5" y="11185.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5271_rc_sa5271" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS </p> </body> </html> </notes> <label text="Fe3+"/> <clone/> <bbox w="25.0" h="25.0" x="27396.56" y="9096.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5271_rc_sa5258" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS </p> </body> </html> </notes> <label text="Fe3+"/> <clone/> <bbox w="25.0" h="25.0" x="27246.56" y="9106.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa370_rc_csa370" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DEPDC6:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1:DEPTOR"/> <bbox w="179.0" h="111.0" x="27054.56" y="11558.5"/> <glyph class="macromolecule" id="s_id_rc_sa3528_rc_sa3528"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="27061.56" y="11606.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3530_rc_sa3530"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="27061.56" y="11564.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5535_rc_sa5535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DEP domain containing MTOR-interacting protein</p> <p>HUGO:DEPTOR HGNC:22953 ENTREZ:64798 UNIPROT:Q8TB45</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:AUTOPHAGY</p> <p>References:</p> <p>synonym:DEPT</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="DEPDC6"/> <bbox w="80.0" h="40.0" x="27144.06" y="11566.5"/> <glyph class="state variable" id="_2601892f-4ba5-4237-8e6f-cce4ee495505"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27195.629" y="11561.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3529_rc_sa3529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="27144.56" y="11604.5"/> <glyph class="state variable" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa251_shh1_shh1_sa251"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIAS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIAS1"/> <bbox w="80.0" h="40.0" x="27858.06" y="18402.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa247_rc_csa247" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase3_cl_uncl*:NAIP</p> </body> </html> </notes> <label text="CASP3:NAIP"/> <bbox w="100.0" h="120.0" x="24999.06" y="13439.0"/> <glyph class="macromolecule" id="s_id_rc_sa1866_rc_sa1866"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 3, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP3 HGNC:1504 ENTREZ:836 UNIPROT:P42574</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>Generic entity</p> <p>NOTE: includes cleaved and non-cleaved form</p> </body> </html> </notes> <label text="Caspase3_cl_uncl*"/> <bbox w="80.0" h="40.0" x="25011.06" y="13448.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1860_rc_sa1860"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NLR family, apoptosis inhibitory protein</p> <p>HUGO:NAIP HGNC:7634 ENTREZ:4671 UNIPROT:Q13075</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:23940371</p> <p>humans express different isoforms from a single NAIP</p> <p>gene that detect flagellin and T3SS components, respectively</p> </body> </html> </notes> <label text="NAIP"/> <bbox w="80.0" h="40.0" x="25009.06" y="13492.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa484_rc_csa484" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:KEAP1:NFE2L2</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa484_rc_csa484"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KEAP1:NFE2L2"/> <bbox w="100.0" h="120.0" x="25969.06" y="15069.0"/> <glyph class="macromolecule" id="s_id_rc_sa5098_rc_sa5098"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kelch-like ECH-associated protein 1</p> <p>HUGO:KEAP1 HGNC:23177 ENTREZ:9817 UNIPROT:Q14145</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> 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compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AKT1:PI3,4,5-P3</p> <p>References:</p> <p>s_akt1_re116:(MAP:survival) PMID:15808505</p> <p>s_akt1_re21:(MAP:survival) PMID:10722653</p> <p>s_akt1_re24:(MAP:survival) PMID:18042541 PMID:18077353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa13_akt1_akt1_csa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15808505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10722653"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18042541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PIP3/AKT)"/> <bbox w="100.0" h="112.0" x="12974.061" y="17655.5"/> <glyph class="simple chemical" id="s_id_akt1_akt1_sa69_akt1_akt1_sa69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-3,4,5-triphosphate</p> <p>CAS:N/A PUBCHEM:8260 CHEBI:16618 KEGGCOMPOUND:C05981</p> <p>Map modules:</p> </body> </html> </notes> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="12983.561" y="17661.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa70_akt1_akt1_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-akt murine thymoma viral oncogene homolog 1</p> <p>HUGO:AKT1 HGNC:391 ENTREZ:207 UNIPROT:P31749 GENECARDS:AKT1 REACTOME:58253 KEGG:207 ATLASONC:AKT1ID355ch14q32 WIKI:AKT1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:cellcycle / MODULE:APOPTOSIS_ENTRY, MAP:cellcycle / MODULE:CYCLIND, MAP:cellcycle / MODULE:P21CIP, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20214616</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="12987.561" y="17697.5"/> <glyph class="state variable" id="_512a5148-6894-48bb-a290-35f60cbb1f62"> <state value="P" variable="T308"/> <bbox 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1456_emtc_em_sa1456"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DIAPH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ROCK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHPN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_cytoskeletal_effectors*"/> <bbox w="170.0" h="19.0" x="5511.0" y="15002.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa364_emtc_em_csa364" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAD:BAD_binding partners*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa364_emtc_em_csa364"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22039431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10826997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12767520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19030972"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16931767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21540285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12444011"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(BAD/BAD_binding partner)"/> <bbox w="172.0" h="72.0" x="5246.0" y="13624.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2545_emtc_em_sa2545"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BAD_binding partner*</p> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2, HGNC:990, ENTREZ:596, UNIPROT:P10415, GENECARDS:GC18M060763</p> <p>BCL2-like 1</p> <p>HUGO:BCL2L1, HGNC:992, ENTREZ:598, UNIPROT:Q07817, GENECARDS:GC20M030252</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:23064052</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers.</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAD_binding partners*"/> <bbox w="142.0" h="20.0" x="5260.5" y="13656.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2546_emtc_em_sa2546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD, HGNC:936, ENTREZ:572, UNIPROT:Q92934, GENECARDS:GC11M064037</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>IRS3 and IRS4 however have negative effect on anti-apoptotic effects of IGFR.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAD"/> <bbox w="38.0" h="20.0" x="5311.5" y="13633.5"/> <glyph class="state variable" id="_0b7f6612-93cf-4f4f-8ac7-101c275a97a3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5325.895" y="13628.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa27_shh1_shh2_sa27" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa27_shh1_shh2_sa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="25749.81" y="20915.0"/> <glyph class="state variable" id="_83c60673-7555-4254-af69-65d797f5cc5e"> <state value="" variable="K518"/> <bbox w="30.0" h="10.0" x="25757.785" y="20950.0"/> </glyph> <glyph class="state variable" id="_637e559f-5f94-4414-95e2-21675efa0547"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25744.814" y="20950.0"/> </glyph> <glyph class="state variable" id="_a5c83e11-81bd-4c85-a51c-806fef5265d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25744.814" y="20910.0"/> </glyph> <glyph class="state variable" id="_6ef31d0f-f21e-4c32-b56f-4592379df8df"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25824.81" y="20910.0"/> </glyph> <glyph class="state variable" id="_8d59693b-737a-4bd2-8564-92e94aae4fe2"> <state value="" variable="T374"/> <bbox w="30.0" h="10.0" x="25814.191" y="20950.0"/> </glyph> <glyph class="state variable" id="_54c1734c-0070-4381-93db-a48dd847ba72"> <state value="" variable="S640"/> <bbox w="30.0" h="10.0" x="25734.81" y="20949.72"/> </glyph> <glyph class="state variable" id="_08224fc5-badf-41fe-adc3-4b5f753b062b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25824.81" y="20950.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa469_ad_sa469" compartmentRef="s_id_ad_ca15_ad_ca15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p> PMID:19254247</p> <p>Granulysin is a cytolytic and proinflammatory molecule first identified by a screen for genes expressed 'late' (3-5 days) after activation of human peripheral blood mononuclear cells. Granulysin is present in cytolytic granules of cytotoxic T lymphocytes and natural killer cells. Granulysin is made in a 15-kDa form that is cleaved into a 9-kDa form at both the amino and the carboxy termini. The 15-kDa form is constitutively secreted, and its function remains poorly understood. The 9-kDa form is released by receptor-mediated granule exocytosis. Nine kiloDalton granulysin is broadly cytolytic against tumors and microbes, including gram-positive and gram-negative bacteria, fungi/yeast and parasites. It kills the causative agents of both tuberculosis and malaria. Granulysin is also a chemoattractant for T lymphocytes, monocytes and other inflammatory cells and activates the expression of a number of cytokines, including regulated upon activation T cell expressed and secreted (RANTES), monocyte chemoattractant protein (MCP)-1, MCP-3, macrophage inflammatory protein (MIP)-1 alpha, interleukin (IL)-10, IL-1, IL-6 and interferon (IFN)-alpha.</p> <p>granulysin expression in tumor infiltrates is associated with good outcomes. Pages et al. found low granulysin expression in effector memory T cells in tumor infiltrates to correlate early metastasis and poor survival rates, while high levels of granulysin correlated with good outcomes in colorectal carcinoma </p> <p> Recombinant 9 kDa granulysin attracts T cells, monocytic and NK-cell tumor lines but not Epstein-Barr virus-transformed B-cell lines. Granulysin shows maximal chemotactic activity for CD4+ and CD8+ T cells and monocytes at 10 nM.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa469_ad_sa469"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GNLY"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19254247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GNLY"/> <bbox w="80.0" h="40.0" x="28956.0" y="8280.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa325_rc_csa325" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC13*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*</p> <p>References:</p> <p>anaphase promoting complex / cyclosome</p> <p>corresponds to species protein APC in the Rb/E2F map</p> <p>composition informations were retrieved from uniprot and PMID:9469815</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa325_rc_csa325"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9469815"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC/C"/> <bbox w="340.0" h="160.0" x="21411.56" y="16824.0"/> <glyph class="macromolecule" id="s_id_rc_sa2930_rc_sa2930"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27</p> <p>HUGO:CDC27 HGNC:1728 ENTREZ:996 UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="21581.56" y="16834.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2926_rc_sa2926"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 1</p> <p>HUGO:ANAPC1 HGNC:19988 ENTREZ:64682 UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="21501.56" y="16834.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2928_rc_sa2928"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5 HGNC:15713 ENTREZ:51433 UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="21421.56" y="16874.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2927_rc_sa2927"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4 HGNC:19990 ENTREZ:29945 UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="21501.56" y="16914.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2932_rc_sa2932"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 13</p> <p>HUGO:ANAPC13 HGNC:24540 ENTREZ:25847 UNIPROT:Q9BS18</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC13*"/> <bbox w="80.0" h="40.0" x="21661.56" y="16834.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2922_rc_sa2922"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11 HGNC:14452 ENTREZ:51529 UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="21421.56" y="16834.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2923_rc_sa2923"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10 HGNC:24077 ENTREZ:10393 UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="21421.56" y="16914.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2925_rc_sa2925"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="21661.56" y="16914.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2924_rc_sa2924"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16</p> <p>HUGO:CDC16 HGNC:1720 ENTREZ:8881 UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="21661.56" y="16874.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2931_rc_sa2931"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7 HGNC:17380 ENTREZ:51434 UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="21581.56" y="16914.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2933_rc_sa2933"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26</p> <p>HUGO:CDC26 HGNC:17839 ENTREZ:246184 UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="21501.56" y="16874.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2929_rc_sa2929"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23</p> <p>HUGO:CDC23 HGNC:1724 ENTREZ:8697 UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="21581.56" y="16874.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4867_rc_sa4867" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4867_rc_sa4867"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AP-1*"/> <bbox w="80.0" h="40.0" x="27159.06" y="14539.0"/> <glyph class="state variable" id="_cb108431-df5c-4d49-be8a-f1fe170a8028"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27234.06" y="14545.715"/> </glyph> <glyph class="state variable" id="_ce0aaaff-1098-4240-b9c5-988e4ef0b0b2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27234.06" y="14562.285"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2695_in_sa2695" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL12RB2"/> <clone/> <bbox w="80.0" h="50.0" x="23205.0" y="3575.0"/> <glyph class="unit of information" id="_119010f2-0d03-47de-8ffe-d30dd5d1cbfe"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23222.5" y="3570.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2695_in_sa1920" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL12RB2"/> <clone/> <bbox w="80.0" h="50.0" x="23395.0" y="3575.0"/> <glyph class="unit of information" id="_f0e09719-5a53-4e79-8af6-eea906113cac"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23412.5" y="3570.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa224_in_sa224" compartmentRef="s_id_in_ca12_in_ca12"> <label text="WASP*"/> <bbox w="80.0" h="40.0" x="18010.0" y="6040.0"/> <glyph class="state variable" id="_ad5993f3-857a-48ec-ba41-840174f77c5d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18005.0" y="6055.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa100_ca_csa100" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ACTR2:ACTR3:ARPC1*:ARPC2:ARPC3:ARPC4:ARPC5</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa100_ca_csa100"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11395419"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Arp2/3"/> <clone/> <bbox w="220.0" h="205.0" x="6500.0" y="3627.5"/> <glyph class="macromolecule" id="s_id_ca_sa878_ca_sa878"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC3</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC3"/> <clone/> <bbox w="80.0" h="40.0" x="6610.0" y="3642.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa877_ca_sa877"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC1A</p> <p>HUGO:ARPC1B</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC1*"/> <clone/> <bbox w="80.0" h="40.0" x="6510.0" y="3642.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa879_ca_sa879"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC4"/> <clone/> <bbox w="80.0" h="40.0" x="6610.0" y="3690.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa880_ca_sa880"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC5</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC5"/> <clone/> <bbox w="80.0" h="40.0" x="6610.0" y="3722.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa875_ca_sa875"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ACTR3</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ACTR3"/> <clone/> <bbox w="80.0" h="40.0" x="6510.0" y="3762.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa876_ca_sa876"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC2"/> <clone/> <bbox w="80.0" h="40.0" x="6510.0" y="3682.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa874_ca_sa874"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ACTR2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ACTR2"/> <clone/> <bbox w="80.0" h="40.0" x="6510.0" y="3720.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa100_ca_csa99" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ACTR2:ACTR3:ARPC1*:ARPC2:ARPC3:ARPC4:ARPC5</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa100_ca_csa99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11395419"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Arp2/3"/> <clone/> <bbox w="190.0" h="210.0" x="6515.0" y="3345.0"/> <glyph class="macromolecule" id="s_id_ca_sa880_ca_sa869"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC5</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC5"/> <clone/> <bbox w="80.0" h="40.0" x="6610.0" y="3440.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa879_ca_sa868"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC4"/> <clone/> <bbox w="80.0" h="40.0" x="6610.0" y="3400.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa875_ca_sa870"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ACTR3</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ACTR3"/> <clone/> <bbox w="80.0" h="40.0" x="6520.0" y="3480.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa876_ca_sa872"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC2"/> <clone/> <bbox w="80.0" h="40.0" x="6520.0" y="3400.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa877_ca_sa873"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC1A</p> <p>HUGO:ARPC1B</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC1*"/> <clone/> <bbox w="80.0" h="40.0" x="6520.0" y="3360.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa874_ca_sa871"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ACTR2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ACTR2"/> <clone/> <bbox w="80.0" h="40.0" x="6520.0" y="3440.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa878_ca_sa867"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC3</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction.</p> </body> </html> </notes> <label text="ARPC3"/> <clone/> <bbox w="80.0" h="40.0" x="6610.0" y="3360.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa166_in_csa166" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa166_in_csa166"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11698286"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15573129"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL3R*"/> <bbox w="170.0" h="90.0" x="9115.0" y="1735.0"/> <glyph class="macromolecule" id="s_id_in_sa1081_in_sa1081"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL3RA"/> <bbox w="80.0" h="50.0" x="9200.0" y="1745.0"/> <glyph class="unit of information" id="_6257214f-cf16-4552-9f6e-ee3dd9d066c1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9217.5" y="1740.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1082_in_sa1082"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>CASCADE:CSF2, CASCADE:IL3</p> <p>References:</p> <p>PMID:12393492, PMID:22323450</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits anf use JAK2 kinase</p> <p>PMID:23046136</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF2RB"/> <bbox w="80.0" h="50.0" x="9130.0" y="1745.0"/> <glyph class="unit of information" id="_fa7d2039-1752-42d8-8c7f-157ec93fa26b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9147.5" y="1740.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa984_ad_sa984" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14988727 </p> <p>SPAK kinase is a substrate and target of PKCθ in T-cell receptor-induced AP-1 activation pathway</p> <p>Recombinant SPAK was phosphorylated on Ser-311 in its kinase domain by PKCtheta.</p> <p> SPAK-specific RNAi or a dominant-negative SPAK mutant inhibited PKCtheta- and TCR/CD28-induced AP-1, but not NF-kappaB, activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa984_ad_sa984"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STK39"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14988727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STK39"/> <bbox w="80.0" h="40.0" x="26856.0" y="6635.0"/> <glyph class="state variable" id="_ba633a3e-fa1e-47fa-aafd-1a78f658c19c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26851.0" y="6650.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3003_rc_sa3003" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3003_rc_sa3003"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PANK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PANK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PANK1"/> <bbox w="70.0" h="25.0" x="20856.441" y="16287.367"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1359_emtc_em_sa1359" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1359_emtc_em_sa1359"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA1_3_4_8_GJB2*"/> <bbox w="120.0" h="20.0" x="891.0" y="17629.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2191_em_sa2191" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2191_em_sa2191"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDNRA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EDNRA"/> <bbox w="80.0" h="50.0" x="2155.7976" y="18477.422"/> <glyph class="unit of information" id="_2634eb87-991a-4c42-a3ee-66315af2750c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2173.2976" y="18472.422"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa341_rc_csa341" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:14-3-3*:ASK1*</p> </body> </html> </notes> <label text="14-3-3:MAP3K5"/> <bbox w="96.0" h="134.0" x="22061.06" y="10472.0"/> <glyph class="macromolecule" id="s_id_rc_sa3188_rc_sa3188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 5</p> <p>HUGO:MAP3K5 HGNC:6857 ENTREZ:4217 UNIPROT:Q99683</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:FAS_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:ASK1</p> </body> </html> </notes> <label text="ASK1*"/> <bbox w="80.0" h="40.0" x="22067.06" y="10536.0"/> <glyph class="state variable" id="_0224a431-bf8d-48fb-bbdc-3215b5c06928"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22116.129" y="10531.0"/> </glyph> <glyph class="state variable" id="_6396df48-ebde-447d-a90a-174bedf10e5b"> <state value="P" variable="S967"/> <bbox w="35.0" h="10.0" x="22073.156" y="10531.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3187_rc_sa3187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="22067.06" y="10486.0"/> <glyph class="state variable" id="_b175da25-91e7-47de-a233-86c9039999aa"> <state value="?" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa700_emtc_em_sa700"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR106B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR106B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR106B_25*"/> <bbox w="114.0" h="19.0" x="3723.5" y="16921.166"/> <glyph class="unit of information" id="_d2fbf601-b3cf-4893-aec9-7d32d31fb7d2"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3765.5" y="16916.166"/> </glyph> </glyph> <glyph 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4645_rc_sa3858"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase10*"/> <clone/> <bbox w="80.0" h="40.0" x="24389.06" y="9349.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4645_rc_sa4455" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa284_emtc_em_sa284"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGAM"/> <bbox w="60.0" h="20.0" x="4743.97" y="17722.5"/> <glyph class="unit of information" id="_53fb612c-5cf4-4e6d-8517-367537b0d4a0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4763.97" y="17717.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa9_te_csa9" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:shelterin_complex_without_TERF1</p> <p>ALT_NAME:POT1/RAP1A/Telomeric_DNA/TERF2/TINF2/TPP1</p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN</p> <p>Modules_end</p> <p>References:</p> <p>PMID:18680434</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa9_te_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18680434"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="shelterin_complex_without_TERF1"/> <bbox w="330.0" h="230.0" x="3620.06" y="21005.0"/> <glyph class="macromolecule multimer" id="s_id_te_sa106_te_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor 2</p> <p>HUGO:TERF2, HGNC:11728, ENTREZ:7014, UNIPROT:Q15554, GENECARDS:TERF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF2</p> <p>PMID:9326951</p> </body> </html> </notes> <label text="TERF2"/> <bbox w="86.0" h="46.0" x="3857.06" y="21102.0"/> <glyph class="unit of information" id="_79720c84-78db-45ed-8c5b-f76473b48c1f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3890.06" y="21097.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa104_te_sa104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TERF1 (TRF1-)interacting nuclear factor 2</p> <p>HUGO:TINF2, HGNC:11824, ENTREZ:26277, UNIPROT:Q9BSI4, GENECARDS:TINF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of TINF2</p> <p>PMID:10581025</p> </body> </html> </notes> <label text="TINF2"/> <bbox w="80.0" h="40.0" x="3750.06" y="21035.0"/> <glyph class="state variable" id="_480f090a-a259-41fb-81ab-08b04315a4f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3745.06" y="21049.969"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa107_te_sa107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAP1A, member of RAS oncogene family</p> <p>HUGO:RAP1A, HGNC:9855, ENTREZ:5906, UNIPROT:P62834, GENECARDS:RAP1A </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of RAP1A</p> <p>PMID:10850490</p> </body> </html> </notes> <label text="RAP1A"/> <bbox w="80.0" h="40.0" x="3860.06" y="21165.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa102_te_sa102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tripeptidyl peptidase I</p> <p>HUGO:TPP1, HGNC:2073, ENTREZ:1200, UNIPROT:O14773, GENECARDS:TPP1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504</p> <p>Identification of TPP1</p> <p>PMID:15231715</p> </body> </html> </notes> <label text="TPP1"/> <bbox w="80.0" h="40.0" x="3630.06" y="21065.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa105_te_sa105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 ----- content merged by Celldesigner to SBGN-ML translation ------ Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 </body> </html> </notes> <label text="Telomeric_DNA*"/> <bbox w="115.0" h="23.0" x="3732.56" y="21143.75"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa103_te_sa103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protection of telomere 1</p> <p>HUGO:POT1, HGNC:17284, ENTREZ:25913, UNIPROT:Q9NUX5, GENECARDS:POT1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of POT1</p> <p>PMID:11349150</p> </body> </html> </notes> <label text="POT1"/> <bbox w="80.0" h="40.0" x="3630.06" y="21125.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa170_mpk1_mpk1_sa170" compartmentRef="s_id_wnc1_wnc1_ca5_wnc1_wnc1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Inositol trisphosphate</p> </body> </html> </notes> <label text="IP3"/> <bbox w="70.0" h="25.0" x="7645.06" y="19501.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa44_mo_sa44" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa44_mo_sa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <clone/> <bbox w="80.0" h="40.0" x="4373.5" y="9963.5"/> <glyph class="state variable" id="_e4126c7c-0cd0-48cd-a68b-71c204b32998"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4425.0684" y="9958.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa44_rc_sa704" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa44_rc_sa704"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <clone/> <bbox w="80.0" h="40.0" x="23899.06" y="15879.0"/> <glyph class="state variable" id="_49434410-75af-420c-8601-3a9b08a51e88"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23950.629" y="15874.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa1986_em_sa1986" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE MODULE:CYTOSKELETON_POLARITY , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:25234227</p> <p>Nm23-h1(NME1) binds to gelsolin(GSN) and inactivates its actin-severing capacity to promote tumor cell motility (=migration) and metastasis.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa1986_em_sa1986"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSN"/> <clone/> <bbox w="80.0" h="40.0" x="2413.0" y="12979.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa1986_em_sa1992" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE MODULE:CYTOSKELETON_POLARITY , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:25234227</p> <p>Nm23-h1(NME1) binds to gelsolin(GSN) and inactivates its actin-severing capacity to promote tumor cell motility (=migration) and metastasis.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa1986_em_sa1992"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSN"/> <clone/> <bbox w="80.0" h="40.0" x="2415.0" y="12788.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa87_te_sa87" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa87_te_sa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNKS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNKS"/> <bbox w="80.0" h="40.0" x="2855.06" y="21110.0"/> <glyph class="state variable" id="_3e9dfa97-e761-4020-beb5-17543545618b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2850.06" y="21111.852"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa5_wca1_wca1_csa5" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re4:(MAP:survival) PMID:11955436</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa5_wca1_wca1_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="193.0" h="181.0" x="20020.06" y="18883.25"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa25_wca1_wca1_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="18936.75"/> <glyph class="state variable" id="_0255203a-8058-4763-a41e-edeb3ee18a8d"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="18931.963"/> </glyph> <glyph class="state variable" id="_01dc870b-d40c-4e2c-a0ea-43d0bc937574"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="18931.75"/> </glyph> <glyph class="state variable" id="_1f39bf37-1e65-431a-8ec8-a462c9cf0cea"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="18931.75"/> </glyph> <glyph class="state variable" id="_a1fc6578-099e-46d0-aa79-5890ce89112c"> <state value="P" variable="S37"/> <bbox w="30.0" h="10.0" x="20181.56" y="18931.963"/> </glyph> <glyph class="state variable" id="_8ed1cc9d-51ae-4b76-b43d-297596c4e674"> <state value="" variable="S33"/> <bbox w="25.0" h="10.0" x="20144.092" y="18931.75"/> </glyph> <glyph class="state variable" id="_94cf34c6-5e4b-4067-b004-60f5e6b9dea9"> <state value="" variable="K345"/> <bbox w="30.0" h="10.0" x="20181.56" y="18931.963"/> </glyph> <glyph class="state variable" id="_8d647f58-e32d-48fb-951e-c90fe5d6ee04"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="20104.553" y="18931.75"/> </glyph> <glyph class="state variable" id="_2ca30e2c-e08b-4863-8dbd-0228155056ff"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="20104.06" y="18971.47"/> </glyph> <glyph class="state variable" id="_b575a76a-0671-458f-b0eb-624b433cc341"> <state value="P" variable="T41"/> <bbox w="30.0" h="10.0" x="20180.941" y="18971.75"/> </glyph> <glyph class="state variable" id="_3835b06d-acf4-4267-83e7-e066344a8122"> <state value="P" variable="S45"/> <bbox w="30.0" h="10.0" x="20141.465" y="18971.75"/> </glyph> <glyph class="state variable" id="_17ce444d-20dc-408e-95db-60cccfc96afc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20111.56" y="18938.021"/> </glyph> <glyph class="state variable" id="_26545396-9ee1-4f4b-94e6-86ad0708d7be"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20111.56" y="18949.71"/> </glyph> <glyph class="state variable" id="_8317eaf6-d68d-4f4b-a802-01190abd0a7b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20111.56" y="18943.258"/> </glyph> <glyph class="state variable" id="_373d714e-0b45-4a2b-8428-dbc2418396e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20111.56" y="18951.719"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa24_wca1_wca1_sa24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="18893.25"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa705_wca1_wca1_sa705"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20128.06" y="18976.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa706_wca1_wca1_sa706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20120.06" y="19005.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa23_wca1_wca1_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20115.06" y="18893.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa22_wca1_wca1_sa22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / 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id="s_id_wca1_wca1_sa77_wca1_wca1_sa77"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20032.06" y="18938.0"/> <glyph class="state variable" id="_589d07a7-1d68-4c83-ba56-5f12efbe76c0"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20025.053" y="18933.0"/> </glyph> <glyph class="state variable" id="_93a9bda3-3b94-48c9-9a05-e97aff70ae58"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20104.56" 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class="nucleic acid feature" id="s_id_in_sa1288_in_sa1288" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CSF3"/> <bbox w="90.0" h="25.0" x="12795.0" y="5337.5"/> <glyph class="unit of information" id="_a7ebf18e-196b-4513-a7c3-0d7f1de4aa48"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12830.0" y="5332.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa905_ca_sa905" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:21051947 bone marrow-derived stromal cells from Cav-1(-/-) mice had elevated levels of miR-31 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:21051947 bone marrow-derived stromal cells from Cav-1(-/-) mice had elevated levels of miR-31 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa905_ca_sa905"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21051947"/> </rdf:Bag> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa147_akt1_akt2_sa147"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <bbox w="80.0" h="40.0" x="13390.061" y="21674.0"/> <glyph class="state variable" id="_4f5687f0-80ab-4d2f-88e6-576375822f4d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13385.064" y="21669.0"/> </glyph> <glyph class="state variable" id="_14f3f8ad-b138-46ea-bc9d-247a40879643"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13465.061" y="21709.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa245_mo_sa245" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR17"/> <bbox w="90.0" h="25.0" x="6140.0" y="10608.5"/> <glyph class="unit of information" id="_7cffafe4-eac8-4599-92d9-60a9ecf50c35"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="6170.0" y="10603.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa37_wnc1_wnc2_csa37" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*:PPP3CB:PPP3R*</p> </body> </html> </notes> <label text="(Calcineurin/Calmodulin)"/> <bbox w="109.0" h="189.0" x="18884.06" y="19199.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa189_wnc1_wnc2_sa189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18901.06" y="19251.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa190_wnc1_wnc2_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="18901.06" y="19294.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa188_wnc1_wnc2_sa188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="18901.06" y="19208.5"/> <glyph 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18928.81" y="19335.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa147_shh1_shh2_sa147" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa147_shh1_shh2_sa147"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S100A9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S100A9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S100A9"/> <bbox w="90.0" h="25.0" x="26604.06" y="21720.5"/> <glyph class="unit of information" id="_e18012c9-d1f1-4582-a866-491e03b54256"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21715.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2472_in_sa2472" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="ALOX15"/> <bbox w="90.0" h="25.0" x="10588.25" y="3728.505"/> <glyph class="unit of information" id="_fa39ed4a-4816-4fd1-a0a2-0e5616ea4dad"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10623.25" y="3723.505"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa460_rc_csa460" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SNAP29:STX17:VAMP8</p> <p>References:</p> <p>23578367</p> <p>PMID:23466629</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa460_rc_csa460"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23466629"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STX17:SNAP29:VAMP8"/> <bbox w="194.0" h="118.0" x="29027.56" y="11933.5"/> <glyph class="macromolecule" id="s_id_rc_sa4410_rc_sa4410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>syntaxin 17</p> <p>HUGO:STX17 HGNC:11432 ENTREZ:55014 UNIPROT:P56962</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23466629</p> </body> </html> </notes> <label text="STX17"/> <bbox w="80.0" h="40.0" x="29044.81" y="11949.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4409_rc_sa4409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vesicle-associated membrane protein 8</p> <p>HUGO:VAMP8 HGNC:12647 ENTREZ:8673 UNIPROT:Q9BV40</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23466629</p> </body> </html> </notes> <label text="VAMP8"/> <bbox w="80.0" h="40.0" x="29125.81" y="11951.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4411_rc_sa4411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synaptosomal-associated protein, 29kDa</p> <p>HUGO:SNAP29 HGNC:11133 ENTREZ:9342 UNIPROT:O95721</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23466629</p> </body> </html> </notes> <label text="SNAP29"/> <bbox w="80.0" h="40.0" x="29057.81" y="11993.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa721_ca_sa721" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa721_ca_sa721"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL11"/> <bbox w="80.0" h="40.0" x="710.0" y="3321.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa197_emtc_em_csa197" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:Occludin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Actin*/Occludin*"/> <bbox w="190.0" h="40.0" x="2258.5" y="14417.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1273_emtc_em_sa1273"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="115.0" h="19.0" x="2261.5" y="14417.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1274_emtc_em_sa1274"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="64.0" h="19.0" x="2379.5" y="14419.5"/> <glyph class="state variable" id="_80f94fbb-e739-48c1-a69b-c269c51c55f7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2438.5" y="14424.03"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa537_rc_sa537" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa537_rc_sa537"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SESN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SESN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SESN2"/> <bbox w="90.0" h="25.0" x="20915.06" y="16042.75"/> <glyph class="unit of information" id="_959521e6-81f1-4067-8caf-e779eff7c91c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20950.06" y="16037.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa236_emtc_em_csa236" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:DSTN</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa236_emtc_em_csa236"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Actin/Destrin*"/> <bbox w="122.0" h="67.0" x="5592.0" y="15389.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1531_emtc_em_sa1531"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="5598.0" y="15394.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1530_emtc_em_sa1530"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>destrin (actin depolymerizing factor)</p> <p>HUGO:DSTN HGNC:15750 ENTREZ:11034 UNIPROT:P60981</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="DSTN"/> <bbox w="38.0" h="18.0" x="5634.0" y="15419.5"/> <glyph class="state variable" 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="66.0" h="19.0" x="3966.666" y="14573.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa506_rc_sa562" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa506_rc_sa562"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="70.0" h="25.0" x="21510.844" y="16296.741"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa506_mpk1_mpk1_sa658" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa506_mpk1_mpk1_sa658"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="70.0" h="25.0" x="10753.061" y="20818.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa506_mo_sa114" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa506_mo_sa114"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="70.0" h="25.0" x="3308.0" y="10574.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa506_akt1_akt2_sa186" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa506_akt1_akt2_sa186"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="70.0" h="25.0" x="12591.561" y="21361.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa36_ce_csa36" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MDC1:RNF8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:C_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:18006705</p> <p>RNF8:MDC1 complex recruit HR-related proteins by this shifting from C_NHEJ to HR</p> <p>PMID:18001825</p> <p>Complex RNF8:MDC1 ubiquitinates Ku80 and causes it's dissociation from DNA and degradation.This bring to shift from C_NHEJ to HR</p> <p>PMID:18001825, PMID:18678709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa36_ce_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18006705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18001825"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18001825"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18678709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDC1/RNF8"/> <bbox w="100.0" h="120.0" x="14434.473" y="15090.356"/> <glyph class="macromolecule" id="s_id_ce_sa536_ce_sa536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mediator of DNA-damage checkpoint 1</p> <p>HUGO:MDC1, HGNC:21163, ENTREZ:9656, UNIPROT:Q2TAZ4</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:C_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:18006705, PMID:17303408, PMID:18583988, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003, PMID:18583988, PMID:9407949, PMID:18678890</p> </body> </html> </notes> <label text="MDC1"/> <bbox w="80.0" h="40.0" x="14444.056" y="15101.439"/> <glyph class="state variable" id="_9e7da63a-c039-4078-adf8-9adbe026ee2c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14436.556" y="15116.407"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa535_ce_sa535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring finger protein 8</p> <p>HUGO:RNF8, HGNC:10071, ENTREZ:9025, UNIPROT:O76064</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:18006705, PMID:19772495</p> </body> </html> </notes> <label text="RNF8"/> <bbox w="80.0" h="40.0" x="14445.056" y="15149.439"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa77_shh1_shh2_sa77" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa77_shh1_shh2_sa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1"/> <bbox w="70.0" h="25.0" x="26451.06" y="21184.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa195_ce_csa195" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycA*"/> <clone/> <bbox w="100.0" h="120.0" x="13077.473" y="10066.356"/> <glyph class="macromolecule" id="s_id_ce_sa1452_ce_sa1452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <clone/> <bbox w="80.0" h="40.0" x="13129.139" y="10567.889"/> <glyph class="state variable" id="_6fa61dbe-ab77-4645-a565-3b738e1419fb"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="13163.588" y="10562.889"/> </glyph> <glyph class="state variable" id="_802cdbd7-7879-4426-9b6e-4996227c5686"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13124.139" y="10582.856"/> </glyph> <glyph class="state variable" id="_9ac686a4-51cb-4557-bdaf-785f1912c183"> <state value="P" variable="T161"/> <bbox w="35.0" h="10.0" x="13191.639" y="10582.488"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa838_ce_sa838"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <clone/> <bbox w="80.0" h="40.0" x="13129.665" y="10525.083"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa195_ce_csa194" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycA*"/> <clone/> <bbox w="100.0" h="120.0" x="12925.473" y="10062.356"/> <glyph class="macromolecule" id="s_id_ce_sa838_ce_sa836"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <clone/> <bbox w="80.0" h="40.0" x="12978.331" y="10521.083"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1452_ce_sa837"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <clone/> <bbox w="80.0" h="40.0" x="12978.274" y="10566.046"/> <glyph class="state variable" id="_d896adf4-6aa3-46de-b105-06d5ff5869d4"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="13012.724" 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<head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <clone/> <bbox w="80.0" h="40.0" x="13000.941" y="9412.061"/> <glyph class="state variable" id="_3ef7bd0b-aa9b-4bc5-8fae-6ed3212b7a13"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="13035.391" y="9407.061"/> </glyph> <glyph class="state variable" id="_daf1c678-e4c0-4320-aa37-d6f40236c1cb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12995.941" y="9427.028"/> </glyph> <glyph class="state variable" id="_58615d7e-fa77-478e-a05e-115784a5ec44"> <state value="P" variable="T161"/> <bbox w="35.0" h="10.0" x="13063.441" y="9426.66"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa838_ce_sa1454"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <clone/> <bbox w="80.0" h="40.0" x="13000.467" y="9364.254"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa39_ce_sa39" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Ligated and repaired DNA Node_Type:GenericMap modules:MODULE:DNA_REPAIR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Ligated and repaired DNA Node_Type:GenericMap 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class="complex" id="s_id_rc_csa6_rc_csa6" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAX:Ku70*</p> </body> </html> </notes> <label text="BAX:XRCC6"/> <bbox w="103.0" h="120.0" x="23607.81" y="11809.0"/> <glyph class="macromolecule" id="s_id_rc_sa68_rc_sa68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 6</p> <p>HUGO:XRCC6 HGNC:4055 ENTREZ:2547 UNIPROT:P12956</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:Ku70</p> </body> </html> </notes> <label text="Ku70*"/> <bbox w="80.0" h="40.0" x="23620.31" y="11869.0"/> <glyph 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</glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa100_mo_sa100" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0cadherin 1, type 1, E-cadherin (epithelial) ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0cadherin 1, type 1, E-cadherin (epithelial) </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa100_mo_sa100"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-cadherin*"/> <bbox w="70.0" h="25.0" x="2854.0" y="10369.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa13_shh1_shh3_csa13" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PI3,4,5-P3:TIAM1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re19(MAP:survival):</p> <p>PMID:12829230</p> <p>PMID:11955434</p> <p>PMID:15967165</p> <p>PMID:15611338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa13_shh1_shh3_csa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829230"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15967165"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIAM_PIP3"/> <bbox w="100.0" h="120.0" x="27809.06" y="22406.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa70_shh1_shh3_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>T-cell lymphoma invasion and metastasis 1</p> <p>HUGO:TIAM1 HGNC:11805 ENTREZ:7074 UNIPROT:Q13009 GENECARDS:TIAM1 REACTOME:195051 ATLASONC:TIAM1ID42557ch21q22 WIKI:TIAM1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="TIAM1"/> <bbox w="80.0" h="40.0" x="27818.56" y="22451.25"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa69_shh1_shh3_sa69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4677_rc_sa4677"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULK1"/> <clone/> <bbox w="90.0" h="25.0" x="24430.56" y="16126.5"/> <glyph class="unit of information" id="_16276498-ec12-4d14-acd7-1cca1f6c5ae5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24465.56" y="16121.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4677_shh1_shh2_sa156" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4677_shh1_shh2_sa156"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULK1"/> <clone/> <bbox w="90.0" h="25.0" x="26604.06" y="21823.5"/> <glyph class="unit of information" id="_3bc0b5b5-4b53-4a03-8ff7-99168a294954"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21818.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa203_rc_csa203" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2:BCL2L11</p> </body> </html> </notes> <label text="BCL2:BCL2L11"/> <bbox w="102.0" h="130.0" x="21708.186" y="13134.0"/> <glyph class="macromolecule" id="s_id_rc_sa1649_rc_sa1649"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>synonym:BIM</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="80.0" h="40.0" x="21713.186" y="13194.0"/> <glyph class="state variable" id="_fd4d64a5-f102-4028-8e9c-ac12c5fd8c81"> <state value="" variable="S58"/> <bbox w="25.0" h="10.0" x="21780.686" y="13189.216"/> </glyph> <glyph class="state variable" id="_c707f42e-3e26-4d89-b9a2-ddfad36b92d8"> <state value="" variable="S44"/> <bbox w="25.0" h="10.0" x="21701.178" y="13189.0"/> </glyph> <glyph class="state variable" id="_88214b04-305e-4335-b768-c26e21db6f24"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21764.984" y="13229.0"/> </glyph> <glyph class="state variable" id="_45409bba-35f2-4474-9ed2-6a01a274011a"> <state value="" variable="T56"/> <bbox w="25.0" h="10.0" x="21740.717" y="13189.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1650_rc_sa1650"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1307_ad_sa1307"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL18"/> </rdf:Bag> 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x="16595.0" y="6587.5"/> <glyph class="unit of information" id="_83fb02af-9e1f-4030-9c5a-f4dd7cb7d0cb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="16630.0" y="6582.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa80_emtc_em_csa80" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA10:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa80_emtc_em_csa80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a10b1*"/> <bbox w="40.0" h="60.0" x="4669.777" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa568_emtc_em_sa568"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 10</p> <p>HUGO:ITGA10 HGNC:6135 ENTREZ:8515 UNIPROT:O75578</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA10"/> <bbox w="40.0" h="20.0" x="4669.777" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa566_emtc_em_sa566"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4669.777" y="18035.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa61_wca1_wca2_sa61" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa61_wca1_wca2_sa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DKK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK1"/> <clone/> <bbox w="40.0" h="20.0" x="23753.06" y="18147.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa983_ca_sa983" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZEB2"/> <bbox w="40.0" h="20.0" x="3246.5" y="16474.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa122" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="18918.31" y="14471.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa141" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="18331.31" y="14811.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa135" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="18574.81" y="14658.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa2021" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="18424.06" y="14926.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa208" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="19205.283" y="14656.556"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa334" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="18777.393" y="14374.685"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa341" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="19313.059" y="14445.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa122_rc_sa2776" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="19138.572" y="15023.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa168_emtc_em_sa168" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17835 KEGGCOMPOUND:C00631</p> </body> </html> </notes> <label text="glycerate-2P"/> <bbox w="70.0" h="25.0" x="18704.06" y="10876.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4873_rc_sa4873" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Map modules:MODULE:ER_STRESS References:PMID:15964839GCN2 is activated by uncharged tRNAs deacetylated tRNAs ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Map modules:MODULE:ER_STRESS References:PMID:15964839GCN2 is activated by uncharged tRNAs deacetylated tRNAs </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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id="_4e4748fb-b462-4721-88c6-1c5e161a3eb1"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="1425.5" y="13149.84"/> </glyph> <glyph class="state variable" id="_696aeb16-1ad5-4cab-8b0a-08032d338696"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1542.1113" y="13169.0"/> </glyph> <glyph class="state variable" id="_e63609f6-a3db-4a3b-97f6-141343ccccad"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1543.0" y="13150.2295"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa47_mo_csa47" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Tubulin-α*/Tubulin-β*/Stathmin*"/> <bbox w="100.0" h="180.0" x="5361.0" y="11694.0"/> <glyph class="macromolecule" id="s_id_mo_sa486_mo_sa486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a</p> <p>HUGO:TUBA1A </p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C</p> <p>tubulin, alpha 3c</p> <p>HUGO:TUBA3C</p> <p>tubulin, alpha 3d</p> <p>HUGO:TUBA3D </p> <p>tubulin, alpha 3e</p> <p>HUGO:TUBA3E</p> <p>tubulin, alpha 4a</p> <p>HUGO:TUBA4A </p> <p>tubulin, alpha 8</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="5371.0" y="11704.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa487_mo_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBB1 </p> <p>tubulin beta 1 class VI</p> <p>HUGO:TUBB2A </p> <p>tubulin beta 2A class IIa </p> <p>HUGO:TUBB2B </p> <p>tubulin beta 2B class IIb </p> <p>HUGO:TUBB3 </p> <p>tubulin beta 3 class III </p> <p>HUGO:TUBB4A </p> <p>tubulin beta 4A class IVa </p> <p>HUGO:TUBB4B </p> <p>tubulin beta 4B class IVb </p> <p>HUGO:TUBB6 </p> <p>tubulin beta 6 class V </p> <p>HUGO:TUBB7P </p> <p>tubulin beta 7 pseudogene</p> <p>HUGO:TUBB8 </p> </body> </html> </notes> <label text="Tubulin-β*"/> <bbox w="80.0" h="40.0" x="5371.0" y="11754.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa488_mo_sa488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Stathmins family</p> <p>Stathmin 1</p> <p>HUGO:STMN1</p> <p>Stathmin 2</p> <p>HUGO:STMN2</p> <p>Stathmin 3</p> <p>HUGO:STMN3</p> <p>Stathmin 4</p> </body> </html> </notes> <label text="Stathmin*"/> <bbox w="80.0" h="40.0" x="5371.0" y="11804.0"/> <glyph class="state variable" id="_08eb8600-532f-44d9-ab68-fcaef20418af"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5422.5684" y="11799.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa380_mpk1_mpk1_sa380" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa380_mpk1_mpk1_sa380"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K1"/> <bbox w="77.0" h="25.0" x="10623.057" y="19395.0"/> <glyph class="state variable" id="_0767631c-2b70-47a2-801f-1d684f7e49d6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10618.057" y="19402.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa12_wnc1_wnc2_csa12" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Calpain*:Calpastatin*</p> <p>References:</p> <p>s_wnc2_re25(MAP:survival):</p> <p>Formation is dependent of Ca2+ concentration. It is believed that Ca2+ concentration regulates activity of Calpastatin.</p> <p>PMID:12684003</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa12_wnc1_wnc2_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12684003"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Calpain*:Calpastatin*"/> <bbox w="100.0" h="120.0" x="18157.06" y="18226.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa58_wnc1_wnc2_sa58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpastatin</p> <p>HUGO:CAST HGNC:1515 ENTREZ:831 UNIPROT:P20810 GENECARDS:CAST KEGG:10849 ATLASONC:GC_CAST WIKI:CAST</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calpastatin*"/> <bbox w="80.0" h="40.0" x="18168.56" y="18282.0"/> <glyph class="state variable" id="_84923fe5-b51c-480a-9959-8648191d37ba"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18161.064" y="18277.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa57_wnc1_wnc2_sa57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 1, (mu/I) large subunit</p> <p>HUGO:CAPN1 HGNC:1476 ENTREZ:823 UNIPROT:P07384 GENECARDS:CAPN1 KEGG:823 ATLASONC:GC_CAPN1 WIKI:CAPN1 </p> <p>calpain 2, (m/II) large subunit </p> <p>HUGO:CAPN2 HGNC:1479 ENTREZ:824 UNIPROT:P17655 GENECARDS:CAPN2 KEGG:824 ATLASONC:GC_CAPN2 WIKI:CAPN2 </p> <p>calpain 3, (p94) </p> <p>HUGO:CAPN3 HGNC:1480 ENTREZ:825 UNIPROT:P20807 GENECARDS:CAPN3 KEGG:825 ATLASONC:GC_CAPN3 WIKI:CAPN3 </p> <p>calpain 5 </p> <p>HUGO:CAPN5 HGNC:1482 ENTREZ:726 UNIPROT:O15484 GENECARDS:CAPN5 KEGG:726 ATLASONC:GC_CAPN5 WIKI:CAPN5 </p> <p>calpain 6</p> <p>HUGO:CAPN6 HGNC:1483 ENTREZ:827 UNIPROT:Q9Y6Q1 GENECARDS:CAPN6 KEGG:827 ATLASONC:GC_CAPN6 WIKI:CAPN6 </p> <p>calpain 7</p> <p>HUGO:CAPN7 HGNC:1484 ENTREZ:23473 UNIPROT:Q9Y6W3 GENECARDS:CAPN7 KEGG:23473 WIKI:CAPN7 </p> <p>calpain 8</p> <p>HUGO:CAPN8 HGNC:1485 ENTREZ:388743 UNIPROT:A6NHC0 GENECARDS:CAPN8 KEGG:388743 WIKI:CAPN8 </p> <p>calpain 9</p> <p>HUGO:CAPN9 HGNC:1486 ENTREZ:10753 UNIPROT:O14815 GENECARDS:CAPN9 KEGG:10753 ATLASONC:GC_CAPN9 WIKI:CAPN9 </p> <p>calpain 10</p> <p>HUGO:CAPN10 HGNC:1477 ENTREZ:11132 UNIPROT:Q9HC96 GENECARDS:CAPN10 KEGG:11132 ATLASONC:GC_CAPN10 WIKI:CAPN10 </p> <p>calpain 11</p> <p>HUGO:CAPN11 HGNC:1478 ENTREZ:11131 UNIPROT:Q9UMQ6 GENECARDS:CAPN11 KEGG:11131 WIKI:CAPN11 </p> <p>calpain 12</p> <p>HUGO:CAPN12 HGNC:13249 ENTREZ:147968 UNIPROT:Q6ZSI9 GENECARDS:CAPN12 WIKI:CAPN12 </p> <p>calpain 13</p> <p>HUGO:CAPN13 HGNC:16663 ENTREZ:92291 UNIPROT:Q6MZZ7 GENECARDS:CAPN13 WIKI:CAPN13 </p> <p>calpain 14</p> <p>HUGO:CAPN14 HGNC:16664 ENTREZ:440854 UNIPROT:A8MX76 GENECARDS:CAPN14 WIKI:CAPN14 </p> <p>calpain 15</p> <p>HUGO:SOLH HGNC:11182 ENTREZ:6650 UNIPROT:O75808 GENECARDS:SOLH KEGG:6650 WIKI:SOLH </p> <p>calpain, small subunit 1 </p> <p>HUGO:CAPNS1 HGNC:1481 ENTREZ:826 UNIPROT:P04632 GENECARDS:CAPNS1 KEGG:826 ATLASONC:GC_CAPNS1 WIKI:CAPNS1 </p> <p>calpain, small subunit 2</p> <p>HUGO:CAPNS2 HGNC:16371 ENTREZ:84290 UNIPROT:Q96L46 GENECARDS:CAPNS2 WIKI:CAPNS2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calpain*"/> <bbox w="80.0" h="40.0" x="18168.56" y="18234.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa4_akt1_akt2_csa4" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO3</p> <p>References:</p> <p>s_akt1_re104:(MAP:survival) PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa4_akt1_akt2_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:FOXO3"/> <clone/> <bbox w="100.0" h="120.0" x="12214.061" y="20729.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa21_akt1_akt2_sa21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <clone/> <bbox w="80.0" h="40.0" x="12221.561" y="20735.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa22_akt1_akt2_sa22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 ATLASONC:AF6q21ID125 WIKI:FOXO3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16288288</p> </body> </html> </notes> <label text="FOXO3"/> <clone/> <bbox w="80.0" h="40.0" x="12220.811" y="20782.5"/> <glyph class="state variable" id="_13b6f302-0cc0-4c1f-8336-a557b7decf93"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12255.843" y="20777.5"/> </glyph> <glyph class="state variable" id="_bf217eb9-a4ff-4ebe-8481-ec993c5ed819"> <state value="" variable="S644"/> <bbox w="30.0" h="10.0" x="12205.811" y="20817.22"/> </glyph> <glyph class="state variable" id="_c7b19694-747a-42b0-8122-e573120f882c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12213.311" y="20786.008"/> </glyph> <glyph class="state variable" id="_eec4ccca-5a45-4c75-b9df-4f9b9c5d6c48"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12213.311" y="20795.057"/> </glyph> <glyph class="state variable" id="_957a7d35-6b80-4844-a0e1-e98077cf8b13"> <state value="" variable="T32"/> <bbox w="25.0" h="10.0" x="12208.311" y="20778.432"/> </glyph> <glyph class="state variable" id="_7bd790c9-b88f-4e5d-b424-501372e020a5"> <state value="" variable="S253"/> <bbox w="30.0" h="10.0" x="12285.811" y="20816.633"/> </glyph> <glyph class="state variable" id="_c1937f01-322e-4171-9e74-21f0869e537f"> <state value="" variable="S315"/> <bbox w="30.0" h="10.0" x="12282.393" y="20777.5"/> </glyph> <glyph class="state variable" id="_3548ecdc-a666-4a1d-b895-819f1f6b574c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12213.311" y="20790.838"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa4_akt1_akt1_csa54" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO3</p> <p>References:</p> <p>s_akt1_re104:(MAP:survival) PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa4_akt1_akt1_csa54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:FOXO3"/> <clone/> <bbox w="100.0" h="120.0" x="12678.061" y="18518.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa21_akt1_akt1_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <clone/> <bbox w="80.0" h="40.0" x="12689.561" y="18574.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa22_akt1_akt1_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 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cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa468_ad_sa468"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMK"/> <bbox w="80.0" h="40.0" x="28516.0" y="8307.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa18_rc_csa18" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DLAT:DLD:FAD:PDHA*:thiamine diphosphate</p> </body> </html> </notes> <label text="pyruvate dehydrogenase"/> <bbox w="268.0" h="96.0" x="19723.408" y="14794.583"/> <glyph class="macromolecule" id="s_id_rc_sa251_rc_sa253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="19738.658" y="14813.333"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa252_rc_sa254"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="19744.658" y="14837.833"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa251_rc_sa251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="19728.658" y="14803.333"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa245_rc_sa245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-acetyltransferase</p> <p>HUGO:DLAT HGNC:2896 ENTREZ:1737 UNIPROT:P10515</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide S-acetyltransferase</p> </body> </html> </notes> <label text="DLAT"/> <bbox w="80.0" h="40.0" x="19885.908" y="14804.083"/> <glyph class="state variable" id="_be566fde-9f6e-4f6c-98e6-d393c69ee317"> <state value="lipoylated" variable=""/> <bbox w="60.0" h="10.0" x="19895.908" y="14799.083"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa252_rc_sa252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="19734.658" y="14827.833"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa245_rc_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-acetyltransferase</p> <p>HUGO:DLAT HGNC:2896 ENTREZ:1737 UNIPROT:P10515</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide S-acetyltransferase</p> </body> </html> </notes> <label text="DLAT"/> <bbox w="80.0" h="40.0" x="19905.908" y="14824.083"/> <glyph class="state variable" id="_39a241ff-c4fc-4129-8e2a-dfe28ac3f9a5"> <state value="lipoylated" variable=""/> <bbox w="60.0" h="10.0" x="19915.908" y="14819.083"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa248_rc_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) alpha 1</p> <p>HUGO:PDHA1 HGNC:8806 ENTREZ:5160 UNIPROT:P08559 </p> <p>pyruvate dehydrogenase (lipoamide) alpha 2</p> <p>HUGO:PDHA2 HGNC:8807 ENTREZ:5161 UNIPROT:P29803</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PDHA*"/> <bbox w="80.0" h="40.0" x="19808.908" y="14804.083"/> <glyph class="state variable" id="_d9edbc22-dc71-43f6-8081-6ffb08f909da"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19857.977" y="14799.083"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3416_rc_sa3416"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:9532</p> <p>KEGGCOMPOUND: C00068</p> </body> </html> </notes> <label text="thiamine diphosphate"/> <bbox w="70.0" h="25.0" x="19830.504" y="14846.777"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa252_rc_sa256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="19754.658" y="14847.833"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa248_rc_sa249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) alpha 1</p> <p>HUGO:PDHA1 HGNC:8806 ENTREZ:5160 UNIPROT:P08559 </p> <p>pyruvate dehydrogenase (lipoamide) alpha 2</p> <p>HUGO:PDHA2 HGNC:8807 ENTREZ:5161 UNIPROT:P29803</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PDHA*"/> <bbox w="80.0" h="40.0" x="19818.908" y="14814.083"/> <glyph class="state variable" id="_08c03904-0503-45a7-b8ba-5b329a8a67fa"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19867.977" y="14809.083"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa251_rc_sa255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="19748.658" y="14823.333"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa248_rc_sa250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) alpha 1</p> <p>HUGO:PDHA1 HGNC:8806 ENTREZ:5160 UNIPROT:P08559 </p> <p>pyruvate dehydrogenase (lipoamide) alpha 2</p> <p>HUGO:PDHA2 HGNC:8807 ENTREZ:5161 UNIPROT:P29803</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PDHA*"/> <bbox w="80.0" h="40.0" x="19828.908" y="14824.083"/> <glyph class="state variable" id="_18d1b0d6-6715-40e8-abab-32c033b5feba"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19877.977" y="14819.083"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa245_rc_sa246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-acetyltransferase</p> <p>HUGO:DLAT HGNC:2896 ENTREZ:1737 UNIPROT:P10515</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide S-acetyltransferase</p> </body> </html> </notes> <label text="DLAT"/> <bbox w="80.0" h="40.0" x="19893.908" y="14814.083"/> <glyph class="state variable" id="_996be51b-089b-4f56-ac6f-554bfdee00f1"> <state value="lipoylated" variable=""/> <bbox w="60.0" h="10.0" x="19903.908" y="14809.083"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa136_rc_csa136" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:APAF1:APIP</p> </body> </html> </notes> <label text="APAF1:APIP"/> <bbox w="100.0" h="120.0" x="24259.06" y="15059.0"/> <glyph class="macromolecule" id="s_id_rc_sa1412_rc_sa1412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24269.06" y="15069.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1411_rc_sa1411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>APAF1 interacting protein</p> <p>HUGO:APIP HGNC:17581 ENTREZ:51074 UNIPROT:Q96GX9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="APIP"/> <bbox w="80.0" h="40.0" x="24269.06" y="15109.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4985_rc_sa4985" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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fibroblasts</p> <p> HIF-1α protein accumulates in junD−/− fibroblasts and mice (Gerald et al, 2004; Laurent et al, 2008), the up-regulation of CXCL12 in junD−/− fibroblasts could be mediated, at least partly, through HIF. 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y="4215.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2683_rc_sa2683" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2683_rc_sa2683"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPKAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="26884.06" y="10686.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1883_rc_sa1883" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1883_rc_sa1883"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase3_cl_uncl*"/> <bbox w="80.0" h="40.0" x="23389.06" y="14659.0"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa14_emtc_em_sa14" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="EMT"/> <clone/> <bbox w="45.0" h="27.0" x="2595.5" y="13478.0"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa14_shh1_shh3_sa86" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="EMT"/> <clone/> <bbox w="80.0" h="30.0" x="27961.06" y="23009.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4651_rc_sa4651" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4651_rc_sa4651"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E2F2"/> <bbox w="70.0" h="25.0" x="21893.56" y="16227.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa1_akt1_akt2_csa1" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO3:promoter_region</p> <p>References:</p> <p>s_akt2_re1:(MAP:survival) PMID:10783894 PMID:20673124 PMID:11094066 PMID:11994454</p> <p>s_akt2_re2:(MAP:survival) PMID:11154281</p> <p>s_akt2_re79(MAP:survival):</p> <p>PMID:17646672</p> <p>PMID20673124</p> <p>s_akt2_re80:(MAP:survival) PMID15084260</p> <p>s_akt2_re86:(MAP:survival) PMID:15509806 PMID:20673124</p> <p>s_akt2_re93:(MAP:survival) PMID19244250</p> <p>s_akt2_re103(MAP:survival):</p> <p>PMID:18644865</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa1_akt1_akt2_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10783894"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11094066"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11994454"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17646672"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15509806"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18644865"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(FOXO_gene)"/> <bbox w="100.0" h="110.0" x="12480.061" y="20436.25"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa8_akt1_akt2_sa8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 ATLASONC:AF6q21ID125 WIKI:FOXO3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16288288</p> </body> </html> </notes> <label text="FOXO3"/> <bbox w="80.0" h="40.0" x="12487.561" y="20447.75"/> <glyph class="state variable" id="_6a8fbd36-63df-4f62-9ffd-6f3ff21cb56f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12482.561" y="20460.307"/> </glyph> <glyph class="state variable" id="_10b037ec-0505-4b57-b940-abe6a05b276a"> <state value="" variable="S644"/> <bbox w="30.0" h="10.0" x="12472.561" y="20482.47"/> </glyph> <glyph class="state variable" id="_8074f81b-cea2-45c8-8d4d-882ecdd187c2"> <state value="" variable="T32"/> <bbox w="25.0" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="12494.061" y="20496.75"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa170_ca_sa170" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2524_emtc_em_sa2524"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Truncated Collagen4*"/> <bbox w="134.0" h="20.0" x="5691.0" y="18604.0"/> <glyph class="unit of information" id="_35988144-4d23-4c2a-a460-ff4778b18f64"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="5733.0" y="18599.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1482_ce_sa1482" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1482_ce_sa1482"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALKBH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ABH2*"/> <bbox w="80.0" h="40.0" x="17441.77" y="15481.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa11_wca1_wca1_csa11" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> 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h="195.0" x="20700.727" y="19778.5"/> <glyph class="simple chemical" id="s_id_wca1_wca1_sa717_wca1_wca1_sa717"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20806.06" y="19882.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa54_wca1_wca1_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20796.227" y="19835.0"/> <glyph class="state variable" id="_d2745b96-adc5-47d7-8f19-8ea694acdc13"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20861.227" y="19830.215"/> </glyph> <glyph class="state variable" id="_ac5967f4-3c90-4737-bc9d-8826f1d1b992"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20810.443" y="19830.0"/> </glyph> <glyph class="state variable" id="_7bb2c0f1-43c7-4cf7-9e12-7365c6403c8d"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20781.719" y="19830.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20795.727" y="19788.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa53_wca1_wca1_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 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</extension> <label text="BAX"/> <bbox w="80.0" h="40.0" x="27871.56" y="11211.5"/> <glyph class="state variable" id="_98855df6-ebe1-4064-bfd5-69f7b9c15c6b"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="27915.145" y="11206.5"/> </glyph> <glyph class="state variable" id="_d335e454-354c-4ac6-8515-fa7dd7a3a37b"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="27917.88" y="11246.5"/> </glyph> <glyph class="state variable" id="_6cfdfb15-4e63-49fb-9018-40ccc05c1f69"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="27870.139" y="11206.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4768_rc_sa4768" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4768_rc_sa4768"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF2S2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF2S2"/> <bbox w="80.0" h="40.0" x="27289.06" y="15449.0"/> </glyph> <glyph class="complex" id="s_id_in_csa263_in_csa263" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa263_in_csa263"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24751819"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1637"/> <bbox w="187.0" h="160.0" x="23786.875" y="4215.0"/> <glyph class="macromolecule" id="s_id_in_sa1968_in_sa1968"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <bbox w="80.0" h="50.0" x="23880.0" y="4320.0"/> <glyph class="unit of information" id="_93fa1b3d-2b23-4cd9-88a8-e646048c150c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23897.5" y="4315.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2644_in_sa2644"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="23793.125" y="4275.0"/> <glyph class="state variable" id="_34c1a419-9129-40ea-844f-4bc8cbb8343a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23785.625" y="4290.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1969_in_sa1969"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL21"/> <bbox w="80.0" h="40.0" x="23865.0" y="4230.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2645_in_sa2645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK3"/> <bbox w="80.0" h="40.0" x="23795.0" y="4320.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1967_in_sa1967"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL21R"/> <bbox w="80.0" h="50.0" x="23883.125" y="4270.0"/> <glyph class="unit of information" id="_6ee8c5d9-eb74-48ea-8104-92148378e06d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23900.625" y="4265.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2769_rc_sa2769" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2769_rc_sa2769"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BRCA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="17778.303" y="11857.125"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa17_shh1_shh2_csa17" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LEF_TCF*:_beta_-Catenin*:promoter_region</p> <p>References:</p> <p>s_shh2_re101:(MAP:survival) PMID:18057099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa17_shh1_shh2_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18057099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="tcf_beta-catenin_gene"/> <bbox w="105.0" h="147.0" x="26763.06" y="21693.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa162_shh1_shh2_sa162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="26774.81" y="21698.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa164_shh1_shh2_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="26779.81" y="21791.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa163_shh1_shh2_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa210_wnc1_wnc1_sa210"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RGS3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RGS3"/> <bbox w="80.0" h="40.0" x="16624.06" y="18467.0"/> <glyph class="state variable" id="_159451ab-c1a2-4d96-ac9f-3c1e18625454"> <state value="P" variable="S264"/> <bbox w="35.0" h="10.0" x="16686.56" y="18473.78"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa121_ca_sa121" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS ----- content merged by Celldesigner to SBGN-ML translation ------ Map 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:Mediterranean fever, pyrin</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:24919149</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5399_rc_sa5435"> <bqbiol:isEncodedBy> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:BER</p> </body> </html> </notes> <label text="Base"/> <clone/> <bbox w="75.0" h="23.0" x="10126.27" y="15681.5"/> </glyph> <glyph class="simple chemical" id="s_id_ce_sa3_ce_sa17" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:BER</p> </body> </html> </notes> <label text="Base"/> <clone/> <bbox w="70.0" h="25.0" x="9053.27" y="15728.5"/> </glyph> <glyph class="phenotype" id="s_id_gf1_sa147_gf1_sa147" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p> PMID:24703957</p> <p>PDGFs 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x="26559.06" y="9069.0"/> <glyph class="unit of information" id="_203f77cd-e943-4b05-b0d7-3290e239f880"> <label text="drug"/> <bbox w="25.0" h="10.0" x="26586.56" y="9064.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa493_in_sa493" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CBL"/> <bbox w="80.0" h="40.0" x="15390.0" y="2865.0"/> <glyph class="state variable" id="_4b389467-41f7-47e7-972f-533c2bce7aa5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15382.5" y="2880.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa983_in_sa983" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRS2"/> <bbox w="80.0" h="40.0" x="18005.0" y="2820.0"/> <glyph class="state variable" id="_481aca31-b0e2-4874-bb02-5bd0b87914f3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18000.0" y="2835.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa232_in_csa232" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa232_in_csa232"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10679398"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1260"/> <bbox w="188.0" h="173.0" x="23881.25" y="2133.75"/> <glyph class="macromolecule" id="s_id_in_sa1707_in_sa1707"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>CASCADE:IL18, CASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>References:</p> <p>PMID:14660645, PMID:16878026, PMID:23681101</p> <p>The adaptor proteins MyD88 and TIRAP associate with TLR 2 and TLR 4 after receptor engagement.</p> <p>PMID:23811849</p> <p>HMGB1 is a nuclear nonhistone chromatin-binding protein. It is secreted at the late stages of cellular demise and iactivates TLR4/MyD88 pathway in dendritic cells (DCs) to accelerate the processing of phagocytic cargo in the DC and to facilitate antigen presentation by DC to T cells.</p> <p>PMID:17704786</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MYD88"/> <bbox w="80.0" h="40.0" x="23888.75" y="2246.25"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1705_in_sa1705"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL18RAP"/> <bbox w="80.0" h="50.0" x="23978.75" y="2191.25"/> <glyph class="unit of information" id="_e6ec5675-815f-4439-88c2-e3494c0f47cb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23996.25" y="2186.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1704_in_sa1704"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL18R1"/> <bbox w="80.0" h="50.0" x="23888.75" y="2191.25"/> <glyph class="unit of information" id="_49388928-769d-44c0-94e9-2e30945c1ac8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23906.25" y="2186.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2677_in_sa2677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IRAK4"/> <bbox w="80.0" h="40.0" x="23975.0" y="2250.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1706_in_sa1706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL18"/> <bbox w="80.0" h="40.0" x="23888.75" y="2146.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4360_rc_sa4360" compartmentRef="s_id_rc_ca31_rc_ca31"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4360_rc_sa4360"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG3"/> <bbox w="80.0" h="40.0" x="28563.81" y="11973.583"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa163_ce_sa163" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Additional pathway names: alternative NHEJ (A_NHEJ or alt_NHEJ) or backup NHEJ (B_NHEJ) or MMEJA_NHEJ:DNA:st4Annealed and resected DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):PMID:21376743, PMID:24050180, PMID:22743550 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Additional pathway names: alternative NHEJ (A_NHEJ or alt_NHEJ) or backup NHEJ (B_NHEJ) or MMEJA_NHEJ:DNA:st4Annealed and resected DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):PMID:21376743, PMID:24050180, PMID:22743550 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa163_ce_sa163"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="A_NHEJ_DNA_st4*"/> <bbox w="150.0" 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="loss of homeostasis"/> <bbox w="150.0" h="25.0" x="27354.06" y="13446.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa170_akt1_akt2_sa170" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>B-cell CLL/lymphoma 6Map modules:MAP:survival / MODULE:PI3K_AKT_MTORReferences:PMID:15509806PMID:20673124s_akt2_re86:(MAP:survival) PMID:15509806 PMID:20673124 ----- content merged by Celldesigner to SBGN-ML translation ------ B-cell CLL/lymphoma 6Map modules:MAP:survival / MODULE:PI3K_AKT_MTORReferences:PMID:15509806PMID:20673124s_akt2_re86:(MAP:survival) PMID:15509806 PMID:20673124 </body> </html> </notes> <extension> <annotation xmlns="" 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin3*"/> <bbox w="59.0" h="16.0" x="1010.0" y="15296.75"/> </glyph> <glyph class="complex" id="s_id_ad_csa149_ad_csa149" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5694"/> <bbox w="100.0" h="120.0" x="25756.0" y="2485.0"/> <glyph class="macromolecule" id="s_id_ad_sa1270_ad_sa1270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>In the absence of ligandmediated Tim-3 signaling, Bat3 is bound</p> <p>to Tim-3 and blocks SH2 domain-binding sites in the Tim-3 tail. In this state, Bat3</p> <p>recruits the catalytically active form of Lck, thereby forming an intracellular molecular complex with Tim-3 that preserves and potentially promotes T cell</p> <p>signaling.Galectin-9 and Ceacam-1 binding to Tim-3 leads to phosphorylation of Y256</p> <p>and Y263 and release of Bat-3 from the Tim-3 tail, thereby promoting Tim-3-mediated T cell inhibition by allowing binding of</p> <p>SH2 domain-containing Src kinases and subsequent regulation</p> <p>of TCR signaling , Fyn binds to the same region on the</p> <p>Tim-3 tail as Bat3. Fyn has been implicated in the induction of</p> <p>T cell anergy (Davidson et al., 2007) and is known to be a key</p> <p>kinase to activate phosphoprotein associated with glycosphingolipid microdomains (PAG), which recruits Csk to suppress</p> <p>Lck function (Salmond et al., 2009; Smida et al., 2007). Because</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> </body> </html> </notes> <label text="BAG6"/> <bbox w="80.0" h="40.0" x="25766.0" y="2490.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa206_ad_sa206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HAVCR2</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22437870; PMID:28900677</p> <p>TIM3 rew</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>In the absence of ligandmediated Tim-3 signaling, Bat3 is bound</p> <p>to Tim-3 and blocks SH2 domain-binding sites in the Tim-3 tail. In this state, Bat3</p> <p>recruits the catalytically active form of Lck, thereby forming an intracellular molecular complex with Tim-3 that preserves and potentially promotes T cell</p> <p>signaling.Galectin-9 and Ceacam-1 binding to Tim-3 leads to phosphorylation of Y256</p> <p>and Y263 and release of Bat-3 from the Tim-3 tail, thereby promoting Tim-3-mediated T cell inhibition by allowing binding of</p> <p>SH2 domain-containing Src kinases and subsequent regulation</p> <p>of TCR signaling , Fyn binds to the same region on the</p> <p>Tim-3 tail as Bat3. Fyn has been implicated in the induction of</p> <p>T cell anergy (Davidson et al., 2007) and is known to be a key</p> <p>kinase to activate phosphoprotein associated with glycosphingolipid microdomains (PAG), which recruits Csk to suppress</p> <p>Lck function (Salmond et al., 2009; Smida et al., 2007). Because</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> <p>Fyn might trigger the switch of Tim-3 function from being permissive to TCR signaling to inhibition of upstream TCR signaling</p> <p>PMID:16286920</p> <p>The Tim-3 ligand galectin-9 negatively regulates T helper type 1 immunity.</p> <p>Galectin-9 induces TH1 cell death through Tim-3</p> <p>Galectin-9 eliminates IFN-γ-producing TH1 cells</p> <p>PMID:20819927 </p> <p>Targeting Tim-3 and PD-1 pathways to reverse T cell exhaustion and restore anti-tumor immunity</p> </body> </html> </notes> <label text="HAVCR2"/> <bbox w="80.0" h="50.0" x="25766.0" y="2540.0"/> <glyph class="state variable" id="_576379ef-9dae-4c54-9c85-b937bddff82b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25761.0" y="2560.0"/> </glyph> <glyph class="unit of information" id="_03415ee2-76f9-412d-b53b-8a221a7a5854"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25783.5" y="2535.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa623_ad_sa623" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>CD58 (LFA-3) is the high affinity ligand for CD2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa623_ad_sa623"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD58"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD58"/> <bbox w="80.0" h="50.0" x="29286.0" y="2235.0"/> <glyph class="unit of information" id="_41cc65b7-7e4f-4186-b33e-966a8eca72e2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29303.5" y="2230.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1073_ad_sa1073" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:24670066</p> <p>Using specific shRNA we down-regulated the expression of Nck1 or Nck2 to approximately 10% each in Jurkat T cells. We found that down-regulation of Nck1 impaired TCR-induced phosphorylation of the kinases Erk and MEK, activation of the AP-1 and NFAT transcription factors and subsequently, IL-2 and CD69 expression. In sharp contrast, down-regulation of Nck2 hardly impacts these activation read-outs. Thus, in contrast to Nck2, Nck1 is a positive regulator for TCR-induced stimulation of the Erk pathway. Mutation of the third SH3 domain of Nck1 showed that this domain was required for this activity. Further, TCR-induced NFAT activity was reduced in both Nck1 and Nck2 knock-down cells, showing that both isoforms are involved in NFAT activation. Lastly, we show that neither Nck isoform is upstream of p38 phosphorylation or Ca2+influx.</p> <p>In conclusion, Nck1 and Nck2 have non-redundant roles in human T cell activation in contrast to murine T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1073_ad_sa1073"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NCK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24670066"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCK2"/> <bbox w="80.0" h="40.0" x="29356.0" y="6965.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa138_rc_sa138" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15346 KEGGCOMPOUND:C00010</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa138_rc_sa138"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="coenzyme A"/> <clone/> <bbox w="70.0" h="25.0" x="18470.31" y="14767.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa138_rc_sa148" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15346 KEGGCOMPOUND:C00010</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa138_rc_sa148"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="coenzyme A"/> <clone/> <bbox w="70.0" h="25.0" x="18158.31" y="14542.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa138_rc_sa209" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15346 KEGGCOMPOUND:C00010</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa138_rc_sa209"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="coenzyme A"/> <clone/> <bbox w="70.0" h="25.0" x="19341.283" y="14648.556"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa138_rc_sa115" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15346 KEGGCOMPOUND:C00010</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa138_rc_sa115"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="coenzyme A"/> <clone/> <bbox w="70.0" h="25.0" x="19040.81" y="14867.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1496_in_sa1496" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 8683106, 18272812, 17689680, 12967644, 12223527, 25960930, 15814715, 14607900, 17016554, 12193701, 17513775, 11830590, 14764699, 21930765, 12811837, 19833085 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:MDSC</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IL15, CASCADE:IL21, CASCADE:SCF2, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>PMID:19833085</p> <p>STAT1 is activated downstream of IFNG by phosphorylation of tyrosine 701, translocates to the nucleus, binds to a regulatory DNA element termed gamma-activated sequence (GAS) and stimulates transcription of STAT1 target genes.</p> <p>PMID:17689680</p> <p>STAT1 acetilation inhibits its activity in macrophages.</p> <p>PMID:12811837</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:12193701, PMID:11830590</p> <p>CD40 expression is upregulated by STAT1 downstream of INFG</p> <p>and NF-kB downstream of TNF.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and PIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>PMID:21930765, PMID:8683106, PMID:12967644</p> <p>IFNA and IFNB act via STAT1 pathway in DC and NK cells</p> <p>PMID:25960930</p> <p>Reduced IFNa-induced STAT-1 phosphorylation in Ser727 and CXCL10 secretion in NK cells derived from PKC-t-/- mice</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1496_in_sa1496"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8683106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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<clone/> <bbox w="80.0" h="40.0" x="22915.0" y="3210.0"/> <glyph class="state variable" id="_0802a884-0a37-4f93-932b-33d1f9b73272"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22910.0" y="3223.7124"/> </glyph> <glyph class="state variable" id="_28b74750-764c-4903-966f-de0ed8c53c84"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22989.807" y="3245.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1496_in_sa996" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 8683106, 18272812, 17689680, 12967644, 12223527, 25960930, 15814715, 14607900, 17016554, 12193701, 17513775, 11830590, 14764699, 21930765, 12811837, 19833085 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:MDSC</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IL15, CASCADE:IL21, CASCADE:SCF2, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>PMID:19833085</p> <p>STAT1 is activated downstream of IFNG by phosphorylation of tyrosine 701, translocates to the nucleus, binds to a regulatory DNA element termed gamma-activated sequence (GAS) and stimulates transcription of STAT1 target genes.</p> <p>PMID:17689680</p> <p>STAT1 acetilation inhibits its activity in macrophages.</p> <p>PMID:12811837</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:12193701, PMID:11830590</p> <p>CD40 expression is upregulated by STAT1 downstream of INFG</p> <p>and NF-kB downstream of TNF.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and PIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>PMID:21930765, PMID:8683106, PMID:12967644</p> <p>IFNA and IFNB act via STAT1 pathway in DC and NK cells</p> <p>PMID:25960930</p> <p>Reduced IFNa-induced STAT-1 phosphorylation in Ser727 and CXCL10 secretion in NK cells derived from PKC-t-/- mice</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1496_in_sa996"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8683106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAS*"/> <bbox w="80.0" h="40.0" x="12005.998" y="17720.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2738_rc_sa2738" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2738_rc_sa2738"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TF"/> <bbox w="90.0" h="25.0" x="20459.06" y="14952.5"/> <glyph class="unit of information" id="_3c6a8818-b1f1-4cbc-bb49-5359e1fa41e3"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20494.06" y="14947.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa167_mpk1_mpk1_sa167" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphatidylinositol 45-bisphosphate</p> </body> </html> </notes> <label text="PIP2"/> <bbox w="70.0" h="25.0" x="7655.06" y="19231.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa7_wnc1_wnc3_csa7" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*</p> <p>References:</p> <p>s_wnc3_re10:(MAP:survival) PMID:22275375, PMID:15657064, PMID:16396959, PMID:16998587</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa7_wnc1_wnc3_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22275375"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15657064"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396959"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16998587"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+:Calmodulin*"/> <bbox w="100.0" h="120.0" x="15621.061" y="20614.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa42_wnc1_wnc3_sa42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="15632.061" y="20630.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc3_sa43_wnc1_wnc3_sa43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="15656.561" y="20671.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa26_emtc_em_csa26" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for aVb6: Latent TGFB, fibronectin, osteopontin, ADAM</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa26_emtc_em_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb6*"/> <bbox w="40.0" h="60.0" x="5171.658" y="18485.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa355_emtc_em_sa355"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5171.658" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa334_emtc_em_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 6</p> <p>HUGO:ITGB6 HGNC:6161 ENTREZ:3694 UNIPROT:P18564</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB6"/> <bbox w="40.0" h="20.0" x="5171.658" y="18508.125"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ca_sa412_ca_sa412"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa412_ca_sa412"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IFNG"/> <clone/> <bbox w="86.0" h="46.0" x="2697.0" y="587.0"/> <glyph class="unit of information" id="_0413a81b-abf6-4257-b745-59a7dfc8f23a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2730.0" y="582.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ca_sa412_in_sa1545"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa412_in_sa1545"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IFNG"/> <clone/> <bbox w="86.0" h="46.0" x="24827.0" y="2867.0"/> <glyph class="unit of information" id="_a9c8d6f0-72eb-4f67-9977-37a0f2a2e1bb"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="24860.0" y="2862.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa147_mo_sa147"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>vascular endothelial growth factor A </p> <p>vascular endothelial growth factor B </p> <p>vascular endothelial growth factor C</p> <p>vascular endothelial growth factor D </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa147_mo_sa147"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGF*"/> <bbox w="80.0" h="40.0" x="6918.0" y="11716.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2269_rc_sa2269" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15967 KEGGCOMPOUND:C00342 CAS:52500-60-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="TXN"/> <clone/> <bbox w="70.0" h="25.0" x="29014.06" y="10636.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2269_rc_sa2808" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15967 KEGGCOMPOUND:C00342 CAS:52500-60-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="TXN"/> <clone/> <bbox w="70.0" h="25.0" x="19419.06" y="11489.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2269_rc_sa2661" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15967 KEGGCOMPOUND:C00342 CAS:52500-60-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="TXN"/> <clone/> <bbox w="70.0" h="25.0" x="24084.498" y="14207.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2269_rc_sa2658" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15967 KEGGCOMPOUND:C00342 CAS:52500-60-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="TXN"/> <clone/> <bbox w="70.0" h="25.0" x="24659.31" y="13332.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2269_rc_sa4280" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15967 KEGGCOMPOUND:C00342 CAS:52500-60-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="TXN"/> <clone/> <bbox w="70.0" h="25.0" x="19479.06" y="11799.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2269_rc_sa3165" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15967 KEGGCOMPOUND:C00342 CAS:52500-60-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="TXN"/> <clone/> <bbox w="70.0" h="25.0" x="22349.06" y="10469.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa130_wca1_wca2_sa130" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa130_wca1_wca2_sa130"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p120*"/> <bbox w="80.0" h="40.0" x="23366.06" y="18469.0"/> <glyph class="state variable" id="_8ef8bac5-e969-4a64-aaaa-70e6d5fb98ff"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="23351.553" y="18464.0"/> </glyph> <glyph class="state variable" id="_c456f17e-8584-4283-80d1-fee1f7c73348"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="23391.092" y="18464.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa240_rc_csa240" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase3*:HSPB1</p> </body> </html> </notes> <label text="CASP3:HSPB1"/> <bbox w="104.0" h="121.0" x="24347.518" y="13208.737"/> <glyph class="macromolecule" id="s_id_rc_sa1818_rc_sa1818"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 27kDa protein 1</p> <p>HUGO:HSPB1 HGNC:5246 ENTREZ:3315 UNIPROT:P04792</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>synonym:HSP27PMID:11003656</p> </body> </html> </notes> <label text="HSPB1"/> <bbox w="80.0" h="40.0" x="24360.602" y="13262.263"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1819_rc_sa1819"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 3, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP3 HGNC:1504 ENTREZ:836 UNIPROT:P42574</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> </body> </html> </notes> <label text="Caspase3*"/> <bbox w="80.0" h="40.0" x="24358.602" y="13218.263"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1093_emtc_em_sa1093" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1093_emtc_em_sa1093"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DLC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DLC1"/> <bbox w="41.0" h="16.0" x="6644.5" y="14265.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa143_rc_csa143" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CK2_alpha_:CK2_alpha_*:CK_beta_*</p> <p>References:</p> <p>casein kinase 2</p> </body> </html> </notes> <label text="CSNK2"/> <bbox w="176.0" h="110.0" x="24003.06" y="11304.5"/> <glyph class="macromolecule" id="s_id_rc_sa1461_rc_sa1461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2, alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="80.0" h="40.0" x="24094.06" y="11312.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1462_rc_sa1462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chemokine (C-C motif) ligand 19</p> <p>HUGO:CCL19 HGNC:10617 ENTREZ:6363 UNIPROT:Q99731</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CKβ*"/> <bbox w="80.0" h="40.0" x="24012.06" y="11353.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1462_rc_sa1463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chemokine (C-C motif) ligand 19</p> <p>HUGO:CCL19 HGNC:10617 ENTREZ:6363 UNIPROT:Q99731</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CKβ*"/> <bbox w="80.0" h="40.0" x="24093.56" y="11354.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1460_rc_sa1460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2, alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="80.0" h="40.0" x="24012.06" y="11311.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa777_in_sa777" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LGALS9"/> <bbox w="80.0" h="40.0" x="9930.0" y="6660.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa115_ce_sa115" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa115_ce_sa115"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MUTYH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MUTH*"/> <bbox w="80.0" h="40.0" x="9597.312" y="15938.066"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa10_wnc1_wnc2_csa10" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BCL2-XL*</p> <p>References:</p> <p>s_wnc2_re19:(MAP:survival) PMID:21486225</p> <p>s_wnc2_re22(MAP:survival):</p> <p>PMID:14681224, PMID:14612448</p> <p>However, the mechanism in which truncated Bax increases apoptosis remains controversial.</p> <p>PMID:20008353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa10_wnc1_wnc2_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21486225"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14681224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14612448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX:BCL2-XL*"/> <bbox w="100.0" h="120.0" x="17663.06" y="18618.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa49_wnc1_wnc2_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1BCL2-associated agonist of cell death</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817 GENECARDS:BCL2L1 REACTOME:50772 KEGG:598 ATLASONC:BCL2L1ID129ch20q11 WIKI:BCL2L1 </p> <p>BCL2-like 1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="17673.56" y="18627.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa50_wnc1_wnc2_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812 GENECARDS:BAX REACTOME:50715 KEGG:581 ATLASONC:BAXID128ch19q13 WIKI:BAX</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="17673.56" y="18671.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa15_shh1_shh2_csa15" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JUN:promoter_region</p> </body> </html> </notes> <label text="EGF_induced_TF_gene"/> <bbox w="100.0" h="120.0" x="26319.56" y="21794.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa144_shh1_shh2_sa144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="26335.56" y="21851.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa143_shh1_shh2_sa143"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="26330.56" y="21807.0"/> <glyph class="state variable" id="_a4d78775-24f3-4b64-bbe9-175daf723841"> <state value="P" variable="S63"/> <bbox w="30.0" h="10.0" x="26316.053" y="21802.0"/> </glyph> <glyph class="state variable" id="_64b36165-9295-4f5a-ae8c-cf3c15e5a133"> <state value="P" variable="S73"/> <bbox w="30.0" h="10.0" x="26355.592" y="21802.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2871_rc_sa2871" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2871_rc_sa2871"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <clone/> <bbox w="80.0" h="40.0" x="21231.56" y="16524.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2871_mpk1_mpk1_sa679" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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MMP9 and CCL3 are the direct targets of this transcription factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. 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</annotation> </extension> <label text="FECH"/> <bbox w="70.0" h="25.0" x="22568.06" y="16305.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa65_wca1_wca1_csa65" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KIF3A:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa65_wca1_wca1_csa65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11208056"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KIF3A:KIF3B"/> <bbox w="100.0" h="120.0" x="20644.06" y="18413.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa536_wca1_wca1_sa536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3A</p> <p>HUGO:KIF3A HGNC:6319 ENTREZ:11127 UNIPROT:Q9Y496 GENECARDS:KIF3A REACTOME:58019 KEGG:11127 WIKI:KIF3A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3A"/> <bbox w="80.0" h="40.0" x="20654.06" y="18423.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa637_wca1_wca1_sa637"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3B</p> <p>HUGO:KIF3B HGNC:6320 ENTREZ:9371 UNIPROT:O15066 GENECARDS:KIF3B REACTOME:58021 KEGG:9371 ATLASONC:GC_KIF3B WIKI:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3B"/> <bbox w="80.0" h="40.0" x="20654.06" y="18465.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1707_rc_sa1707" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa357_mpk1_mpk1_sa426"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUN"/> <clone/> <bbox w="50.0" h="25.0" x="9563.057" y="20431.0"/> <glyph class="state variable" id="_3f157316-76fc-4442-9618-ffb4239bfb0a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9608.057" y="20433.322"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa19_an_sa19" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4893</p> <p>PMID:17145802</p> <p>PMID:26366398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa19_an_sa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26366398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HGF"/> <bbox w="80.0" h="40.0" x="7732.0" y="6795.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa110_ce_csa110" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinB1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycB*"/> <clone/> <bbox w="104.0" h="105.0" x="13227.473" y="10678.356"/> <glyph class="macromolecule" id="s_id_ce_sa769_ce_sa769"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <clone/> <bbox w="80.0" h="40.0" x="13240.973" y="10722.856"/> <glyph class="state variable" id="_33f9d6ef-2863-4911-99d1-9e696f01f989"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="13275.422" y="10717.856"/> </glyph> <glyph class="state variable" id="_f937c2dd-5dfb-4ca3-a16d-5aab106abbe8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13235.973" y="10737.824"/> </glyph> <glyph class="state variable" id="_718b2fb8-2fa3-42f3-8fd9-8c61343a28d7"> <state value="" variable="T161"/> <bbox w="30.0" h="10.0" x="13305.973" y="10737.456"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa768_ce_sa768"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin B1</p> <p>HUGO:CCNB1, HGNC:1579, ENTREZ:891, UNIPROT:P14635</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in responce to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> </body> </html> </notes> <label text="CyclinB1*"/> <clone/> <bbox w="80.0" h="40.0" x="13240.973" y="10681.856"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa110_ce_csa109" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinB1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycB*"/> <clone/> <bbox w="108.0" h="104.0" x="12935.473" y="10680.356"/> <glyph class="macromolecule" id="s_id_ce_sa769_ce_sa767"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <clone/> <bbox w="80.0" h="40.0" x="12949.973" y="10723.856"/> <glyph class="state variable" id="_d1362525-f442-4d3e-a33e-f8533dd0ebde"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="12984.422" y="10718.856"/> </glyph> <glyph class="state variable" id="_54252f88-d1be-4dd3-b39c-543c51fca6fa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12944.973" y="10738.824"/> </glyph> <glyph class="state variable" id="_343381ff-f05c-4c30-b27e-6a013114dc6d"> <state value="" variable="T161"/> <bbox w="30.0" h="10.0" x="13014.973" y="10738.456"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa768_ce_sa766"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin B1</p> <p>HUGO:CCNB1, HGNC:1579, ENTREZ:891, UNIPROT:P14635</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in responce to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> </body> </html> </notes> <label text="CyclinB1*"/> <clone/> <bbox w="80.0" h="40.0" x="12950.973" y="10683.856"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa612_rc_sa612" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa63_ca_sa63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL6"/> <clone/> <bbox w="80.0" h="40.0" x="320.0" y="3321.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa63_ca_sa367" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa63_ca_sa367"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL6"/> <clone/> <bbox w="80.0" h="40.0" x="740.0" y="2605.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa110_ca_sa110" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa110_ca_sa110"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EDN1"/> <bbox w="80.0" h="40.0" x="2320.0" y="4451.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa116_ca_csa116" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IDH3A:MIR424</p> </body> </html> </notes> <label text="ca_s4954"/> <bbox w="100.0" h="120.0" x="2610.0" y="3450.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa1120_ca_sa1120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR424Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFBPMID:25732824miR-424 Regulates IDH3A Expression downstream of TGFB the miR-424 level was increased in fibroblasts after 12 hr of TGF-beta treatment miR-424 promotes glycolysis in CAFs by downregulating IDH3A ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFBPMID:25732824miR-424 Regulates IDH3A Expression downstream of TGFB the miR-424 level was increased in fibroblasts after 12 hr of TGF-beta treatment miR-424 promotes glycolysis in CAFs by downregulating IDH3A </body> </html> </notes> <label text="MIR424"/> <bbox w="90.0" h="25.0" x="2615.0" y="3467.5"/> <glyph class="unit of information" id="_4c59ac42-4fcf-4bbf-afb1-efd318787a08"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2645.0" y="3462.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1121_ca_sa1121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:IDH3AMap modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:METABOLIC MODULE:CAF References:CASCADE:TGFBPMID:25732824CAFs from tumor samples exhibit low levels of IDH3α, and overexpression of IDH3α prevents transformation of fibroblasts into CAFs.DH3α downregulation occurred mainly through transcriptional regulation downstream of TGFB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:METABOLIC MODULE:CAF References:CASCADE:TGFBPMID:25732824CAFs from tumor samples exhibit low levels of IDH3α, and overexpression of IDH3α prevents transformation of fibroblasts into CAFs.DH3α downregulation occurred mainly through transcriptional 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <clone/> <bbox w="35.0" h="19.0" x="3568.75" y="13493.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa27_wca1_wca3_csa27" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MI34*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re61:(MAP:survival) PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa27_wca1_wca3_csa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MI34*:β-Catenin*"/> <bbox w="100.0" h="120.0" x="21046.06" y="22270.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa184_wca1_wca3_sa184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Its the miR34 family depcited here</p> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MI34*"/> <bbox w="90.0" h="25.0" x="21052.06" y="22324.0"/> <glyph class="unit of information" id="_ec6f8544-b498-4673-a602-193f4122d6c1"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21082.06" y="22319.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa179_wca1_wca3_sa179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>; ; ;</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL</p> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>; ; ;</p> <p>Map modules:</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="90.0" h="25.0" x="21052.06" y="22298.5"/> <glyph class="unit of information" id="_ed64d127-e71c-4aba-a6d2-92980cb33f5a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21087.06" y="22293.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa215_rc_sa215" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa215_rc_sa215"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDK2"/> <bbox w="80.0" h="40.0" x="19742.31" y="14950.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4907_rc_sa4907" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4907_rc_sa4907"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12847084"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19509052"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Unfolded protein*"/> <bbox w="160.0" h="30.0" x="29139.06" y="13984.0"/> <glyph class="state variable" id="_2794c019-4b31-425f-9da7-7c5f07f9ed01"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="29129.06" y="13987.787"/> </glyph> <glyph class="state variable" id="_67fc7bd6-02dc-4100-a0d8-d5f19fb9df8a"> <state value="" variable="disulphide bond"/> <bbox w="85.0" h="10.0" x="29248.322" y="13979.0"/> </glyph> <glyph class="state variable" id="_80d58941-c339-477b-be10-cfacb1cc4ea5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29190.85" y="14009.0"/> </glyph> <glyph class="unit of information" id="_677393ec-5a7b-47cc-adbc-08238f404d59"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="29194.06" y="13979.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa41_ce_csa41" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:MMR</p> </body> </html> </notes> <label text="RPA1/RPA2/RPA3"/> <bbox w="112.0" h="141.0" x="12349.473" y="15800.356"/> <glyph class="macromolecule" id="s_id_ce_sa561_ce_sa561"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="12364.633" y="15839.15"/> <glyph class="state variable" id="_c5271db5-ba47-4c11-af93-4e12a22a55eb"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12357.133" y="15854.15"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa560_ce_sa560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="12363.973" y="15879.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa559_ce_sa559"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="12364.973" y="15805.356"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa60_shh1_shh2_sa60" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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<p>Charge: 0</p> <p>NAME:CD40:CD40LG</p> <p>PMID:8760829</p> <p>Ligation of CD40 on dendritic cells triggers production of high levels of interleukin-12 and enhances T cell stimulatory capacity: T-T help via APC activation.</p> <p>PMID:23002440 </p> <p>CD40/CD154 Blockade Inhibits Dendritic Cell Expression of Inflammatory Cytokines</p> <p>IL-1β (C) and IL-12p35 transcripts and IL6, TNF secretion.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa19_ad_csa19"> 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production ICOS-L and expression of OX40L..</p> <p>PMID:17371980</p> <p>AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines</p> <p> PMID:11343122</p> </body> </html> </notes> <label text="CD40LG"/> <bbox w="80.0" h="40.0" x="30036.0" y="2125.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa166_ad_sa166"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD40 </p> <p>Map modules:</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:11964292, PMID:14764699 </p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:8760829</p> <p>Ligation of CD40 on dendritic cells triggers production of high levels of interleukin-12 and enhances T cell stimulatory capacity: T-T help via APC activation.</p> <p>PMID: 15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID: 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. 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IL-1α Expression Levels in prostate cancer Tissue Correlated to Poor Clinical OutcomePMID:17916596 In vitro analysesrevealed a striking induction of IL-8 expression in CAFsand LFs by tumor necrosis factor-alpha (TNFA). The effectof TNFA on CAFs is inhibited by the nuclear factor-kBinhibitor parthenolide. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1, CASCADE:TNFPMID:21847358IL-1α was established as the initiator of the enhanced production of inflammatory factors through the binding of IL-1α to IL-1 receptor 1 (IL-1R1) expressed predominantly by CAFs.IL1A upregulates expression of IL6, CCL20, CXCL8, COX2 in CAFs. IL-1α Expression Levels in prostate cancer Tissue Correlated to Poor Clinical OutcomePMID:17916596 In vitro analysesrevealed a striking induction of IL-8 expression in CAFsand LFs by tumor necrosis factor-alpha (TNFA). The effectof TNFA on CAFs is inhibited by the nuclear factor-kBinhibitor parthenolide. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa159_ca_sa159"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21847358"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17916596"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21847358"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17916596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL8"/> <bbox w="70.0" h="25.0" x="1165.0" y="3693.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa549_rc_csa549" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LF*:PA*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>LeTx consists of two subunits: </p> <p>the protective antigen (PA) subunit attaches to plasma membranebound </p> <p>and assists in cytosolic translocation</p> <p>of the zinc metalloproteinase subunit lethal factor (LF)</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa549_rc_csa549"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LeTx"/> <bbox w="80.0" h="90.0" x="27759.06" y="9034.0"/> <glyph class="simple chemical" id="s_id_rc_sa5463_rc_sa5463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protective antigen of Bacillus anthracis lethal toxin</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <label text="PA*"/> <bbox w="70.0" h="25.0" x="27764.06" y="9041.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5464_rc_sa5464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lethal factor of Bacillus anthracis lethal toxin</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <label text="LF*"/> <bbox w="70.0" h="25.0" x="27764.06" y="9071.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1163_rc_sa1163" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:37154</p> </body> </html> </notes> <label text="fumarate"/> <bbox w="70.0" h="25.0" x="25141.56" y="15325.75"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa36_wnc1_wnc1_csa36" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:PLC-_beta_*:RAC1</p> <p>References:</p> <p>s_wnc1_re58(MAP:survival):</p> <p>PMID:16402909</p> <p>PMID:12657629</p> <p>s_wnc1_re26:(MAP:survival) PMID:16054198</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa36_wnc1_wnc1_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16402909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12657629"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054198"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GTP:PLC-β*:RAC1"/> <bbox w="100.0" h="145.0" x="14715.061" y="18447.0"/> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa223_wnc1_wnc1_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="14752.561" y="18539.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa222_wnc1_wnc1_sa222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="14725.061" y="18492.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa218_wnc1_wnc1_sa218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phospholipase C, beta 1 (phosphoinositide-specific) </p> <p>HUGO:PLCB1 HGNC:15917 ENTREZ:23236 UNIPROT:Q9NQ66 GENECARDS:PLCB1 REACTOME:61694 KEGG:23236 ATLASONC:PLCB1ID41742ch20p12 WIKI:PLCB1 </p> <p>phospholipase C, beta 2 (phosphoinositide-specific) </p> <p>HUGO:PLCB2 HGNC:9055 ENTREZ:5330 UNIPROT:Q00722 GENECARDS:PLCB2 REACTOME:61696 ATLASONC:PLCB2ID41743ch15q15 WIKI:PLCB2 </p> <p>phospholipase C, beta 3 (phosphoinositide-specific) </p> <p>HUGO:PLCB3 HGNC:9056 ENTREZ:5331 UNIPROT:Q01970 GENECARDS:PLCB3 REACTOME:61748 ATLASONC:GC_PLCB3 WIKI:PLCB3 </p> <p>phospholipase C, beta 4 (phosphoinositide-specific) </p> <p>HUGO:PLCB4 HGNC:9059 ENTREZ:5332 UNIPROT:Q15147 GENECARDS:PLCB4 REACTOME:61698 KEGG:5332 ATLASONC:GC_PLCB4 WIKI:PLCB4</p> <p>Map modules:</p> </body> </html> </notes> <label text="PLC-β*"/> <bbox w="80.0" h="40.0" x="14725.061" y="18457.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa340_wca1_wca3_sa340" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa340_wca1_wca3_sa340"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN1"/> <bbox w="90.0" h="25.0" x="22539.06" y="21944.5"/> <glyph class="unit of information" id="_db2b3f4f-ad58-4f6f-ac3e-500ce8773b78"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22574.06" y="21939.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc2_sa46_wnc1_wnc2_sa46" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc2_re17:(MAP:survival) PMID:21738214</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa46_wnc1_wnc2_sa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21738214"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Necroptosis"/> <bbox w="80.0" h="30.0" x="17504.06" y="18877.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5323_rc_sa5323" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16027 KEGGCOMPOUND:C00020 CAS:61-19-8</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5323_rc_sa5323"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMP"/> <clone/> <bbox w="70.0" h="25.0" x="26741.56" y="10187.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5323_rc_sa2011" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16027 KEGGCOMPOUND:C00020 CAS:61-19-8</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5323_rc_sa2011"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMP"/> <clone/> <bbox w="70.0" h="25.0" x="17963.303" y="11714.625"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5323_rc_sa810" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16027 KEGGCOMPOUND:C00020 CAS:61-19-8</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5323_rc_sa810"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMP"/> <clone/> <bbox w="70.0" h="25.0" x="18836.56" y="10011.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5323_rc_sa1013" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16027 KEGGCOMPOUND:C00020 CAS:61-19-8</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5323_rc_sa1013"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMP"/> <clone/> <bbox w="70.0" h="25.0" x="25525.06" y="11326.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5323_rc_sa2786" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16027 KEGGCOMPOUND:C00020 CAS:61-19-8</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RB"/> <bbox w="80.0" h="50.0" x="24080.0" y="3970.0"/> <glyph class="state variable" id="_7d9c6ee2-7004-4cd8-8e7b-9e1fb319ba04"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="24072.5" y="3990.0"/> </glyph> <glyph class="unit of information" id="_d01f00b8-c154-49ed-840f-efd18b9d759e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24097.5" y="3965.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1872_in_sa1872"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <bbox w="80.0" h="50.0" x="24080.0" y="3910.0"/> <glyph class="unit of information" id="_1d1bbb00-c868-4bec-8f9c-51bf0a3b310b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24097.5" y="3905.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1877_in_sa1877"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="23985.0" y="4020.0"/> <glyph class="state variable" id="_5d9b0c16-2bab-4e27-ad9e-44a996993162"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23980.0" y="4035.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1875_in_sa1875"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL15"/> <bbox w="80.0" h="40.0" x="23980.0" y="3915.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1874_in_sa1874"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL15RA"/> <bbox w="80.0" h="50.0" x="23980.0" y="3970.0"/> <glyph class="unit of information" id="_d82db050-b235-4731-987a-16d1442b6fd4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23997.5" y="3965.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1902_in_sa1902"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <rdf:RDF 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa98_ce_sa98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <clone/> <bbox w="80.0" h="40.0" x="11443.627" y="11141.5"/> <glyph class="state variable" id="_06fb24a7-0cbe-4d99-9c55-2a59ab4e1379"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11495.195" y="11136.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa98_mo_sa355" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa98_mo_sa355"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <clone/> <bbox w="80.0" h="40.0" x="4008.5" y="11060.0"/> <glyph class="state variable" id="_959f7f52-97f6-41d1-b73d-b5417182f0b2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4060.0686" y="11055.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1365_ad_sa1365" compartmentRef="s_id_ad_ca9_ad_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC, MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>CD48 interactions with CD2 in cis on T cells can promote T cell activation, by facilitating recruitment of signaling components to the TCR. </p> <p>Anti-CD48 also could partially block antigen-specific target cell lysis by CTLs in an in vitro cytotoxicity assay [94]. 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Thus, CD48:CD2 interactions contribute to both priming and effector functions of CD8 + T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1365_ad_sa1365"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD48"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD48"/> <bbox 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y="22637.111"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa466_te_sa466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:14624239, PMID:1974050</p> </body> </html> </notes> <label text="PCNA"/> <clone/> <bbox w="92.0" h="52.0" x="4377.7783" y="22680.611"/> <glyph class="unit of information" id="_27ce9f2c-8271-4989-b2f9-ae3a46162eb8"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="4413.7783" y="22675.611"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa464_te_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 3, accessory subunit</p> <p>HUGO:POLD3</p> <p>Modules_begin:</p> 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h="10.0" x="17111.56" y="18860.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa41_emtc_em_csa41" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD2_3*:SMAD4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11792802</p> <p>-Unphosphorylated Smad proteins exist primarily as monomers</p> <p>-Upon phosphorylation, R-Smads form homo-oligomers, which quickly convert to hetero-oligomers containing Smad4</p> <p>PMID:11170475</p> <p>Phosphorylated C-ter tail of R-Smads interacts specifically with the L3 loop of another Smad, which is sufficient to cause their oligomerization</p> <p>PMID:9865696</p> <p>Phosphorylation of Smad2 induces dissociation from SARA </p> <p>with concomitant formation of Smad2/ Smad4 complexes </p> <p>and nuclear translocation.</p> <p>PMID:8893010</p> <p>All mammalian R-Smads and Smad4 reside in the cytoplasm</p> <p>Phosphorylated R-Smads quickly form complexes with Smad4 and possibly prior to nuclear translocation</p> <p>PMID:9389648</p> <p>Nuclear translocation of R-Smads is independent of Smad4</p> <p>Whereas translocation of Smad4 after TGFB siglaing seems to require the presence of an activated R-Smad</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa41_emtc_em_csa41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11170475"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9865696"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8893010"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9389648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2_3*/SMAD4"/> <bbox w="141.0" h="48.0" x="5677.0" y="16271.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa392_emtc_em_sa392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="5753.0" y="16275.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1996_emtc_em_sa1996"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2_3*"/> <bbox w="67.0" h="19.0" x="5682.5" y="16276.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1223_ad_sa1223" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1223_ad_sa1223"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21623380"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21623380"/> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:295975</p> </body> </html> </notes> <label text="Choline Phosphate"/> <bbox w="125.0" h="23.0" x="20059.06" y="10592.75"/> </glyph> <glyph class="complex" id="s_id_ce_csa24_ce_csa24" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MSH2:MSH6:OGG1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa24_ce_csa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17129768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSH2/MSH6/OGG1"/> <bbox w="174.0" h="119.0" x="9310.473" y="15738.356"/> <glyph class="macromolecule" id="s_id_ce_sa485_ce_sa485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 6 (E. coli)</p> <p>HUGO:MSH6, HGNC:7329, ENTREZ:2956, UNIPROT:P52701</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MSH6"/> <bbox w="80.0" h="40.0" x="9401.276" y="15779.02"/> <glyph class="state variable" id="_0083411d-7f59-4dfc-abb6-7068d42f6921"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9396.276" y="15794.02"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa484_ce_sa484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) </p> <p>HUGO:MSH2, HGNC:7325, ENTREZ:4436, UNIPROT:P43246</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR , MODULE:BER, MODULE:SSA</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:19847258, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH2"/> <bbox w="80.0" h="40.0" x="9325.276" y="15791.02"/> <glyph 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id="_76541a31-0871-4e18-b76c-51c212bc9c2b"> <state value="P" variable="S241"/> <bbox w="35.0" h="10.0" x="12707.715" y="19160.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa12_emtc_em_csa12" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TGFB1:TGFBR1:TGFBR2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Reference_bigin:</p> <p>PMID:22943793</p> <p>TGFb binds to homodimer TGFBR2 first</p> <p>TGFBR2 phosphorylates the GS domain of homodimeric TFGBR1 on serine residues</p> <p>This phosphorylation leads to incorporation of TGFBR1 and formation of a large ligand-receptor complex of fimeric TGFB and two pairs of TGFBR1 and TGFBR2</p> <p>PMID:12809600</p> <p>PMID:22710166</p> <p>The active ligand–receptor complex is a heterotetrameric complex</p> <p>This complex consists of an active dimer of TGFB and homodimers of both TGFBRI and TGFBR2. </p> <p>Within the active receptor complex, TGFBR2autophosphorylates itself and catalyzes transphosphorylation of the TGFBR1.</p> <p>Transphosphorylation of the TGFBRI activates its kinase activity.</p> <p>Reference_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa12_emtc_em_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22943793"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12809600"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22710166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFB1/TGFBR1/TGFBR2"/> <bbox w="72.0" h="157.0" x="6691.906" y="16328.5"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa241_emtc_em_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="50.0" h="26.0" x="6699.906" y="16380.5"/> <glyph class="unit of information" id="_7649db52-c467-4829-b732-10538fd20310"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6714.906" y="16375.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa242_emtc_em_sa242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="56.0" h="48.0" x="6698.906" y="16413.5"/> <glyph class="unit of information" id="_45119291-a8bc-4685-824b-e18aa27b8fa8"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6716.906" y="16408.5"/> </glyph> 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y="15303.792"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1117_ca_sa1117" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:METABOLIC MODULE:CAF References:CASCADE:TGFBPMID:25732824CAFs from tumor samples exhibit low levels of IDH3α, and overexpression of IDH3α prevents transformation of fibroblasts into CAFs.DH3α downregulation occurred mainly through transcriptional regulation downstream of TGFB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:METABOLIC MODULE:CAF References:CASCADE:TGFBPMID:25732824CAFs from tumor samples exhibit low levels of IDH3α, and overexpression of IDH3α prevents transformation of fibroblasts into CAFs.DH3α downregulation occurred mainly through transcriptional regulation downstream of TGFB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1117_ca_sa1117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IDH3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25732824"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IDH3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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rdf:about="#s_id_rc_sa1018_rc_sa1018"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="23474.56" y="9539.25"/> <glyph class="state variable" id="_575ca49e-e038-4546-94fc-3bd4a4dc5682"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="23516.129" y="9534.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1416_ce_sa1416" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1416_ce_sa1416"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHEK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHEK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHEK1"/> <bbox w="70.0" h="25.0" x="15096.269" y="10656.6875"/> </glyph> <glyph class="source and sink" id="s_id_in_sa1938_in_sa1938" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa102_degraded"/> <bbox w="30.0" h="30.0" x="23060.0" y="3995.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2590_in_sa2590" compartmentRef="s_id_in_ca12_in_ca12"> <label text="S100A8"/> <bbox w="70.0" h="25.0" x="13175.0" y="2262.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa776_ca_sa776" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa776_ca_sa776"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR320A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22179046"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR320A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22179046"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR320A"/> <bbox w="90.0" h="25.0" x="2745.0" y="2807.5"/> <glyph class="unit of information" id="_085fcd48-5696-4419-a1cd-0c9a967e1246"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2775.0" y="2802.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa101_rc_csa101" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HIF1A:HIF1B*</p> </body> </html> </notes> <label text="HIF1aHIF1b"/> <bbox w="100.0" h="130.0" x="23461.56" y="16809.0"/> <glyph class="macromolecule" id="s_id_rc_sa1193_rc_sa1193"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aryl hydrocarbon receptor nuclear translocator</p> <p>HUGO:ARNT HGNC:700 ENTREZ:405 UNIPROT:P27540</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:HIF1beta</p> </body> </html> </notes> <label text="HIF1B*"/> <bbox w="80.0" h="40.0" x="23471.56" y="16819.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1192_rc_sa1192"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)</p> <p>HUGO:HIF1A HGNC:4910 ENTREZ:3091 UNIPROT:Q16665</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="80.0" h="40.0" x="23471.56" y="16869.0"/> <glyph class="state variable" id="_cde11a02-f4aa-4387-bf66-dd0fc202093c"> <state value="OH" variable="N803"/> <bbox w="40.0" h="10.0" x="23474.062" y="16904.0"/> </glyph> <glyph class="state variable" id="_3cdc8ee7-3885-45d5-a567-61eaa78219e7"> <state value="" variable="P564"/> <bbox w="30.0" h="10.0" x="23480.156" y="16864.0"/> </glyph> <glyph class="state variable" id="_9ca67643-8ff9-4904-bdfa-f8742d4ebe45"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23523.129" y="16864.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa229_ce_csa229" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARP1:p53*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> </body> </html> </notes> <label text="PARP*/p53*"/> <bbox w="100.0" h="120.0" x="11778.473" y="12782.356"/> <glyph class="macromolecule" id="s_id_ce_sa1172_ce_sa1172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="78.0" h="42.0" x="11782.142" y="12786.397"/> <glyph class="state variable" id="_25fe19f5-c4b2-4d12-b401-bf3407003da2"> <state value="" variable="PolyADPribose"/> <bbox w="75.0" h="10.0" x="11779.365" y="12781.397"/> </glyph> <glyph class="state variable" id="_e053c4ed-5417-4e35-895e-1f61c856dcda"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="11762.142" y="12806.839"/> </glyph> <glyph class="state variable" id="_4ea549c0-18d6-4e8c-ba81-3e45d1de8482"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="11770.724" y="12823.397"/> </glyph> <glyph class="state variable" id="_1c1f7556-ad5e-497d-8064-77e0da6fc05d"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="11762.142" y="12817.025"/> </glyph> <glyph class="state variable" id="_fc702d28-b33c-4a77-be20-4107cc54ba06"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11855.142" y="12802.397"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1170_ce_sa1170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53</p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:Q9NP68</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:6396087, PMID:21340684, PMID:20457558, PMID:20182602, PMID:20066118</p> </body> </html> </notes> <label text="p53*"/> <bbox w="80.0" h="40.0" x="11788.452" y="12838.522"/> <glyph class="state variable" id="_8e50d9b1-1107-4bcd-9653-14eaee2e7afa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11826.229" y="12833.522"/> </glyph> <glyph class="state variable" id="_152ad50d-8cb7-4c92-ba3e-4139f20fa053"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11783.452" y="12853.522"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa309_emtc_em_csa309" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ADAM10:ADAM17</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19726682</p> <p>PMID:19704010</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa309_emtc_em_csa309"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19726682"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19704010"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ADAM10/ADAM17"/> <bbox w="127.0" h="39.0" x="1177.0" y="14384.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2106_emtc_em_sa2106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ADAM metallopeptidase domain 10</p> <p>HUGO:ADAM10, HGNC:188, ENTREZ:102, UNIPROT:O14672, GENECARDS:GC15M058887</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19726682</p> <p>PMID:19704010</p> <p>PMID:19601831</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ADAM10"/> <bbox w="60.0" h="17.0" x="1240.0" y="14387.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2105_emtc_em_sa2105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ADAM metallopeptidase domain 17</p> <p>HUGO:ADAM17, HGNC:195, ENTREZ:6868, UNIPROT:P78536, GENECARDS:GC02M009580</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19726682</p> <p>PMID:19704010</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ADAM17"/> <bbox w="59.0" h="18.0" x="1182.0" y="14387.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1029_emtc_em_sa1029" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:LC3*:PIP3*</p> <p>References:</p> <p>PMID:18586673</p> <p>PMID:23301705</p> <p>PMID:24070470</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa452_rc_csa452"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18586673"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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y="11529.583"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4381_rc_sa4381"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microtubule-associated protein 1 light chain 3 alpha</p> <p>HUGO:MAP1LC3A HGNC:6838 ENTREZ:84557 UNIPROT:Q9H492</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:15325588</p> <p>PMID:23725295</p> <p>LC3-I is transformed into LC3-II/Atg8 thanks to Phosphatidyl ethanolamine</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="LC3*"/> <bbox w="80.0" h="40.0" x="28722.31" y="11563.083"/> <glyph class="state variable" id="_2cd75add-45f9-4c29-b84d-db6f11d71075"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28797.31" y="11569.798"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1998_in_sa1998" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NFKB1_p105*"/> <bbox w="130.0" h="80.0" x="19160.0" y="3610.0"/> <glyph class="state variable" id="_e0a7f600-2651-4b67-a8ba-44b187e6d0fb"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19152.5" y="3645.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa843_ce_sa843" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa843_ce_sa843"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinB1*"/> <bbox w="90.0" h="25.0" x="15248.269" y="9626.832"/> <glyph class="unit of information" id="_480ad39e-4bba-4ced-8b20-1817b8339d4c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15283.269" y="9621.832"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa92_ca_csa92" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ETS2:MIR320A</p> </body> </html> </notes> <label text="ca_s4486"/> <bbox w="100.0" h="120.0" x="3670.0" y="3510.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa777_ca_sa777"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR320AMap modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences </body> </html> </notes> <label text="MIR320A"/> <bbox w="90.0" h="25.0" x="3675.0" y="3567.5"/> <glyph class="unit of information" id="_3fc1d71e-8d47-4ff1-b2ac-6979e472d90c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3705.0" y="3562.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa785_ca_sa785"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:ETS2Map modules:MODULE:CAF MODULE:CORE References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CORE References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. </body> </html> </notes> <label text="ETS2"/> <bbox w="90.0" h="25.0" x="3675.0" y="3537.5"/> <glyph class="unit of information" id="_168477c0-50c3-458a-b5c8-e379fa871e8a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3710.0" y="3532.5"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa3436_rc_sa3436" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s4479"/> <bbox w="30.0" h="30.0" x="22553.9" y="15518.27"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa728_ca_sa728" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa728_ca_sa728"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLAU"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="proPLAU*"/> <bbox w="80.0" h="40.0" x="480.0" y="1510.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa351_ce_sa351" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa351_ce_sa351"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TOPBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TOPBP1"/> <bbox w="80.0" h="40.0" x="13093.019" y="12114.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa750_ca_sa750" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PGDF, CASCADE:TGFBPMID:18232728 FGF-2 Functionally Contributes to the Angiogenic Phenotype. FGF-2 and FGF-7 are expressed by CAFs and Repressed by Specific Inhibition of PDGF Receptor SignalingPMID:21098712; PMID:22652804; PMID:25374926 TGFB induces FGF2 expression and secretion in fibroblasts via SMAD3 and MAPK pathways ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PGDF, CASCADE:TGFBPMID:18232728 FGF-2 Functionally Contributes to the Angiogenic Phenotype. FGF-2 and FGF-7 are expressed by CAFs and Repressed by Specific Inhibition of PDGF Receptor SignalingPMID:21098712; PMID:22652804; PMID:25374926 TGFB induces FGF2 expression and secretion in fibroblasts via SMAD3 and MAPK pathways </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa750_ca_sa750"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18232728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21098712"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22652804"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25374926"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18232728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21098712"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22652804"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25374926"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF2"/> <bbox w="90.0" h="25.0" x="3575.0" y="4342.5"/> <glyph class="unit of information" id="_5589da8c-36ad-4d6d-afef-76da8fcb19c2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3610.0" y="4337.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa171_emtc_em_csa171" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN1:_beta_-Catenin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signalingMaps_Modules_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa171_emtc_em_csa171"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12051714"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11967263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8666229"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(APC/AXIN1/S45β-Catenin*)"/> <bbox w="166.0" h="80.0" x="1891.469" y="16209.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa949_emtc_em_sa949"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> 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unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblastsprobably via PDGFR-α. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CORE MODULE:CAF References:CASCADE:PDGFPMID:19118022fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblastsprobably via PDGFR-α. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN*:CK1_alpha_*:GSK3*:G_alpha_o*:_beta_-Arrestin2*</p> <p>References:</p> <p>s_wca1_re45:(MAP:survival) PMID:20460648 PMID:18077588 PMID:19705439 PMID:17426148</p> <p>s_wca1_re33(MAP:survival):</p> <p>PMID:19561074 PMID:20460648 PMID:19581931 PMID:21304492 PMID:21498506</p> <p>AMER1 recruits axin</p> <p>s_wca1_re37(MAP:survival):</p> <p>PMID:20229235 PMID:18077588 PMID:21304492 PMID:21498506</p> <p>Phosphorylation of the repeat PPSP A allows recruitment of additional GSK/AXIN which phosphorylates LRP5/6 on other PPSP repeats resulting of sequestering of GSK3 and AXIN away from the destruction complex</p> <p>AMER1 recruits axin and GSk3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN*:CK1α*:GSK3*:Gαo*:β-Arrestin2*"/> <bbox w="192.0" h="121.0" x="21247.56" y="18375.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa213_wca1_wca1_sa213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21258.56" y="18424.0"/> <glyph class="state variable" id="_0d960d39-49b5-4c39-90ca-37ea792dad57"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21251.553" y="18419.0"/> </glyph> <glyph class="state variable" 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variable" id="_c41ed12f-3193-437d-86b7-d5d003a47799"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21243.56" y="18458.72"/> </glyph> <glyph class="state variable" id="_6542b6ec-561c-47f1-932c-864b55be456f"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21286.092" y="18419.0"/> </glyph> <glyph class="state variable" id="_aeca45df-0408-425d-a02a-a4441734f4bd"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21246.553" y="18419.0"/> </glyph> <glyph class="state variable" id="_3e4b5afb-8743-4404-b243-ba05a8c15aab"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21325.441" y="18459.0"/> </glyph> <glyph class="state variable" id="_8d4b5033-5fe0-426f-b4df-3a5761bb0219"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21253.564" y="18419.0"/> </glyph> <glyph class="state variable" id="_316ea1a7-75c9-4918-9089-03b2ee1fd8c5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21333.56" y="18419.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa212_wca1_wca1_sa212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21258.31" y="18382.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa573_wca1_wca1_sa573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21344.56" y="18381.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa177_wca1_wca1_sa177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21334.56" y="18462.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa214_wca1_wca1_sa214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21347.56" y="18423.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4219_rc_sa4219" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4219_rc_sa4244"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB3BP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRIF*"/> <clone/> <bbox w="80.0" h="40.0" x="21759.06" y="9519.0"/> <glyph class="state variable" id="_d517b65e-e174-4098-bfd2-17da0add3673"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21810.629" y="9514.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc2_sa127_wnc1_wnc2_sa127" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:CASCADE:TGFBPMID:18423981 Collagen type I maturation enzyme prolyl-4-hydroxylase (P4H) is induced by TGFB signaling on protein level.. ----- content merged by Celldesigner to SBGN-ML translation ------ References:CASCADE:TGFBPMID:18423981 Collagen type I maturation enzyme prolyl-4-hydroxylase (P4H) is induced by TGFB signaling on protein level.. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> <p>CASCADE:IL15</p> <p>PMID:12906785, PMID:19022819 </p> <p>AKT activates Rapamycin associated protein FRAP2 ( mTOR ) probably through Tuberin/GTP-binding protein Ras homolog enriched in brain ( RHEB ) pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa70_ad_csa70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4193_ca_sa860"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRS1"/> <clone/> <bbox w="80.0" h="40.0" x="5340.0" y="1390.0"/> <glyph class="state variable" id="_32c4b8f4-f154-4516-b524-9d719b8f6fe8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5391.5684" y="1385.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa210_ce_sa210" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa210_ce_sa210"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PALB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCN*"/> <bbox w="80.0" h="40.0" x="14899.246" y="15614.328"/> </glyph> <glyph class="complex" id="s_id_em_csa334_em_csa334" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2519"/> <bbox w="109.0" h="52.0" x="1068.0" y="15926.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1782_emtc_em_sa1782"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> <p>HUGO:CDH1, HGNC:1748, ENTREZ:999, GENECARDS:GC16P068771, UNIPROT:P12830</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME, MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:10671552</p> <p>PMID:11348595</p> <p>PMID:17928543</p> <p>in vitro phosphorylation of Cadherin at S834, 836, 842 significantly enhances the affinity with which beta-catenin binds cadherins.</p> <p>GSK3B and CSNK2 (casein kinase II) have been shown to phosphorylate these sites in vitro.</p> <p>PMID:16371504</p> <p>N-cadherin is phosphorylated by c-Src at Tyr-820, Tyr-853, Tyr-860, Tyr-884, and Tyr-886. </p> <p>Phosphorylation of Tyr-860 (Tyr-835 in E-cadherin) can disrupt cadherin binding to beta-catenin</p> <p>The endocytosis of trans-interacting E-cadherin was inhibited by Rac and Cdc42 small G proteins, which were activated by trans-interacting E-cadherin.</p> <p> PMID:22674073</p> <p>Studies have suggested that cadherin endocytosis may occur through both caveolin-mediated and macropinocytosis-like pathways. Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin</p> <p>Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin </p> <p>In contrast, Bryant and colleagues characterized the EGF-induced internalization of E-cadherin in a breast carcinoma cell line, in which E-cadherin was internalized along with the cadherin-binding proteins p120 and β-catenin, as Rac1-modulated macropinocytosis</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:11413131</p> <p>E-cadherin dimerization is essential for adhesion to the integrin aEb7</p> <p>PMID:17325197</p> <p>Interaction between E-cadherin and aEb7 integrin plays major role in effective tumor cell lysis, during cytolytic granule polarization and subsequent exocytosis</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="86.0" h="26.0" x="1072.5" y="15934.75"/> <glyph class="unit of information" 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autophosphorylation the protein Shc is recruited to the receptor and becomes phosphorylated on tyrosine residues.36 Activated Shc then binds the adaptor Grb2 in an IRS-1-independent manner, leading to activation of the Ras-ERK pathway.36 This pathway of IGF-IR signaling has been most closely associated with cell differentiation and migration, but in some cases also can regulate the machinery of apoptosis, for example, in detachment-induced death, or anoikis, in fibroblasts.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 7543512, 14610620, 21115385 <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>IL-10 treatment of monocytes results in the tyrosine phosphorylation of tyk2 and Jakl</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2341_in_sa2341"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7543512"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TYK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21115385"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TYK2"/> <clone/> <bbox w="80.0" h="40.0" x="9740.0" y="4315.0"/> <glyph class="state variable" id="_fe13784c-66f4-4873-8f4b-95a1df4dc979"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9735.0" y="4330.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2341_in_sa1847" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 7543512, 14610620, 21115385 <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>IL-10 treatment of monocytes results in the tyrosine phosphorylation of tyk2 and Jakl</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2341_in_sa1847"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7543512"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TYK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21115385"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TYK2"/> <clone/> <bbox w="80.0" h="40.0" x="23565.0" y="5020.0"/> <glyph class="state variable" id="_fcdb66e8-5939-4a89-957b-b14a05b91150"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23560.0" y="5035.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa285_ca_sa285" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa285_ca_sa285"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD74"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD74"/> <bbox w="80.0" h="40.0" x="4100.0" y="1110.0"/> </glyph> <glyph class="phenotype" id="s_id_ce_sa1540_ce_sa1540" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR, MODULE:NER</p> </body> </html> </notes> <label text="Phagocytes"/> <bbox w="134.0" h="34.0" x="11329.77" y="14269.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa34_akt1_akt2_csa34" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:FOXO4</p> <p>References:</p> <p>s_akt2_re115:(MAP:survival) PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa34_akt1_akt2_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:FOXO4"/> <bbox w="100.0" h="120.0" x="12152.061" y="21362.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa220_akt1_akt2_sa220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O4</p> <p>HUGO:FOXO4 HGNC:7139 ENTREZ:4303 UNIPROT:P98177 GENECARDS:FOXO4 REACTOME:404982 KEGG:4303 ATLASONC:AFX1ID57 WIKI:FOXO4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="12159.561" y="21374.0"/> <glyph class="state variable" id="_0427d362-10b2-453f-b44e-f052a886d697"> <state value="P" variable="T28"/> <bbox w="30.0" h="10.0" x="12145.053" y="21369.0"/> </glyph> <glyph class="state variable" id="_7385424a-79ac-44a5-8193-37cf817c8293"> <state value="P" variable="S258"/> <bbox w="35.0" h="10.0" x="12221.442" y="21409.0"/> </glyph> <glyph class="state variable" id="_340a5dee-ed83-4d27-af96-fa10d5984327"> <state value="P" variable="S193"/> <bbox w="35.0" h="10.0" x="12222.061" y="21369.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa221_akt1_akt2_sa221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="12159.561" y="21419.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca4_sa70_wca1_wca4_sa70" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="Sonic hedgehog pathway"/> <clone/> <bbox w="80.0" h="30.0" x="23812.06" y="21818.0"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca4_sa70_shh1_shh2_sa286" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="Sonic hedgehog pathway"/> <clone/> <bbox w="80.0" h="30.0" x="26898.06" y="21344.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1878_emtc_em_sa1878" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1878_emtc_em_sa1878"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCE"/> <bbox w="46.0" h="20.0" x="3081.0" y="17583.0"/> </glyph> <glyph class="complex" id="s_id_te_csa2_te_csa2" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:shelterin_complex</p> <p>ALT_NAME:POT1/RAP1A/Telomeric_DNA/TERF1/TERF2/TINF2/TPP1</p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN</p> <p>Modules_end</p> <p>References:</p> <p>PMID:18680434, PMID;16166375, PMID:19965504, PMID:18828880</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa2_te_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18680434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19965504"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18828880"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="shelterin_complex"/> <bbox w="330.0" h="230.0" x="3033.06" y="20905.0"/> <glyph class="macromolecule" id="s_id_te_sa35_te_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protection of telomere 1</p> <p>HUGO:POT1, HGNC:17284, ENTREZ:25913, UNIPROT:Q9NUX5, GENECARDS:POT1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of POT1</p> <p>PMID:11349150</p> </body> </html> </notes> <label text="POT1"/> <bbox w="80.0" h="40.0" x="3043.06" y="21015.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa33_te_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TERF1 (TRF1-)interacting nuclear factor 2</p> <p>HUGO:TINF2, HGNC:11824, ENTREZ:26277, UNIPROT:Q9BSI4, GENECARDS:TINF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of TINF2</p> <p>PMID:10581025</p> </body> </html> </notes> <label text="TINF2"/> <bbox w="80.0" h="40.0" x="3163.06" y="20925.0"/> <glyph class="state variable" id="_9c297e53-9603-4d91-bca3-3e238c85e39a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3158.06" y="20939.969"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa31_te_sa31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor 2</p> <p>HUGO:TERF2, HGNC:11728, ENTREZ:7014, UNIPROT:Q15554, GENECARDS:TERF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF2</p> <p>PMID:9326951</p> </body> </html> </notes> <label text="TERF2"/> <bbox w="86.0" h="46.0" x="3250.06" y="21002.0"/> <glyph class="unit of information" id="_d0014212-4257-4223-8764-5fd9d006b231"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3283.06" y="20997.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa34_te_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tripeptidyl peptidase I</p> <p>HUGO:TPP1, HGNC:2073, ENTREZ:1200, UNIPROT:O14773, GENECARDS:TPP1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504</p> <p>Identification of TPP1</p> <p>PMID:15231715</p> </body> </html> </notes> <label text="TPP1"/> <bbox w="80.0" h="40.0" x="3043.06" y="20965.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa37_te_sa37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor (NIMA-interacting) 1</p> <p>HUGO:TERF1, HGNC:11728, ENTREZ:7013, UNIPROT:P54274, GENECARDS:TERF1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF1</p> <p>PMID:7502076</p> </body> </html> </notes> <label text="TERF1*"/> <bbox w="86.0" h="46.0" x="3140.06" y="20972.0"/> <glyph class="unit of information" id="_7611c586-74eb-4c55-a1b8-f35b19ea615d"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3173.06" y="20967.0"/> </glyph> <glyph class="state variable" id="_bd1a6256-7d7b-4695-88d5-58b23ec3a0a2"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="3132.56" y="20990.0"/> </glyph> <glyph class="state variable" id="_4988ba87-a533-40a7-9235-22e64c7d739f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3221.06" y="20990.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa32_te_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAP1A, member of RAS oncogene family</p> <p>HUGO:RAP1A, HGNC:9855, ENTREZ:5906, UNIPROT:P62834, GENECARDS:RAP1A </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of RAP1A</p> <p>PMID:10850490</p> </body> </html> </notes> <label text="RAP1A"/> <bbox w="80.0" h="40.0" x="3253.06" y="21055.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa36_te_sa36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 ----- content merged by Celldesigner to SBGN-ML translation ------ Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 </body> </html> </notes> <label text="Telomeric_DNA*"/> <bbox w="115.0" h="23.0" x="3130.56" y="21024.75"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa974_emtc_em_sa974" compartmentRef="s_id_emtc_em_ca36_emtc_em_ca36"> <label text="Degradation of Cyclin E after in nucleus phosphorylation by GSK3B or CDK2"/> <bbox w="30.0" h="30.0" x="4025.0" y="13818.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa260_rc_csa260" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BIRC7:DIABLO</p> </body> </html> </notes> <label text="BIRC7:DIABLO"/> <bbox w="100.0" h="120.0" x="24839.06" y="12489.0"/> <glyph class="macromolecule" id="s_id_rc_sa1967_rc_sa1967"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>diablo, IAP-binding mitochondrial protein</p> <p>HUGO:DIABLO HGNC:21528 ENTREZ:56616 UNIPROT:Q9NR28</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="DIABLO"/> <bbox w="80.0" h="40.0" x="24851.06" y="12545.0"/> <glyph class="state variable" id="_90ce14b8-2cc3-4dc2-9982-afb15dd60d5f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24902.629" y="12540.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1966_rc_sa1966"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>baculoviral IAP repeat containing 7</p> <p>HUGO:BIRC7 HGNC:13702 ENTREZ:79444 UNIPROT:Q96CA5</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> <p>References:</p> <p>synonym:ML-IAP</p> </body> </html> </notes> <label text="BIRC7"/> <bbox w="80.0" h="40.0" x="24851.12" y="12500.725"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4204_rc_sa4204" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1277_ce_sa1277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAG3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAG*"/> <bbox w="80.0" h="40.0" x="12828.158" y="11130.479"/> <glyph class="state variable" id="_717739a2-cc66-481b-9a9a-0ffaf506fb0a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12903.158" y="11145.479"/> </glyph> </glyph> <glyph 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HEY1_2*:RUNX2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:18497317</p> <p>Notch1, Hey1, and Hey2 physically interact with and repress the function of the transcription factor RUNX2.</p> <p>PMID:16025100</p> <p>Heys transcriptional repressors, which are activated by Notch1 signalling, physically interacted with Runx2 and repressed Runx2 transcriptional activity, independent of histone deacetylase activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa316_emtc_em_csa316"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497317"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16025100"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HEY1_2*/RUNX2"/> <bbox w="108.0" h="46.0" x="3054.0" y="14683.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2196_emtc_em_sa2196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>runt-related transcription factor 2</p> <p>HUGO:RUNX2, HGNC:10427, ENTREZ:860, UNIPROT:Q13950 , GENECARDS:GC06P045295</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:18497317</p> <p>Notch1, Hey1, and Hey2 physically interact with and repress the function of the transcription factor RUNX2.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RUNX2"/> <bbox w="42.0" h="19.0" x="3061.0" y="14684.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2197_emtc_em_sa2197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hes-related family bHLH transcription factor with YRPW motif 1</p> <p>HUGO:HEY1, HGNC:4880, ENTREZ:23462, UNIPROT:Q9Y5J3, GENECARDS:GC08M080676</p> <p>hes-related family bHLH transcription factor with YRPW motif 2</p> <p>HUGO:HEY2, HGNC:4881, ENTREZ:23493, UNIPROT:Q9UBP5, GENECARDS:GC06P126068</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:18497317</p> <p>Notch1, Hey1, and Hey2 physically interact with and repress the function of the transcription factor RUNX2.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HEY1_2*"/> <bbox w="56.0" h="21.0" x="3105.0" y="14684.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4460_rc_sa4460" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4460_rc_sa4460"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:A2MRAP~withdrawn"/> </rdf:Bag> </bqbiol:isEncodedBy> 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Calpain*"/> <clone/> <bbox w="80.0" h="40.0" x="15875.061" y="18234.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3181_rc_sa3181" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3181_rc_sa3181"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <bbox w="80.0" h="40.0" x="21899.06" y="11249.0"/> <glyph class="state variable" id="_01fcd759-5ebf-4bb0-8139-70f1d29c0760"> <state value="P" variable="Y185"/> <bbox w="35.0" h="10.0" x="21938.51" y="11244.0"/> </glyph> <glyph class="state variable" id="_3432d23b-a64b-4a7d-b8cf-32655ab54082"> <state value="P" variable="T183"/> <bbox w="35.0" h="10.0" x="21905.156" y="11244.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa61_te_csa61" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:R2TP_complex</p> <p>ALT_NAME:PIH1D1/RPAP3/Pontin/Reptin</p> <p>Modules_begin:</p> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RuvB-like AAA ATPase 2</p> <p>HUGO:RUVBL2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="Reptin*"/> <bbox w="92.0" h="52.0" x="5361.06" y="22523.5"/> <glyph class="unit of information" id="_f9ed4fca-f402-4ca4-9f6f-209fd2836626"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="5397.06" y="22518.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa413_te_sa413"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RNA polymerase II associated protein 3</p> <p>HUGO:RPAP3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:22923768 </p> </body> </html> </notes> <label text="RPAP3"/> <bbox w="80.0" h="40.0" x="5356.06" y="22465.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa410_te_sa410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PIH1 domain containing 1</p> <p>HUGO:PIH1D1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:22923768 </p> </body> </html> </notes> <label text="PH1D1"/> <bbox w="80.0" h="40.0" x="5257.06" y="22466.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa411_te_sa411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RuvB-like AAA ATPase 1</p> <p>HUGO:RUVBL1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="Pontin*"/> <bbox w="92.0" h="52.0" x="5257.06" y="22522.5"/> <glyph class="unit of information" id="_d72871a3-2262-4e76-999b-910d8a8e9172"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="5293.06" y="22517.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2067_em_sa2067" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groupsConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. 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Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. Knockdown and gene transfection studies confirmed that Nox4 requires p22phox for ROS generation</p> <p>PMID:16179589 </p> <p>NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.</p> <p>On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.</p> <p>Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylation</p> <p>Nox4 mediates TGFB1–induced SMalpha actin in human cardiac fibroblasts.</p> <p>PMID:21273445 </p> <p>ROS signaling by NOX4 drives fibroblast-to-myofibroblast transdifferentiation in the diseased prostatic stroma downstream of TGFB</p> </body> </html> </notes> <label text="NOX4"/> <bbox w="80.0" h="40.0" x="2938.875" y="4062.0"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1063_ca_sa1063"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:30413</p> <p>MODULE:CAF</p> </body> </html> </notes> <label text="heme"/> <bbox w="70.0" h="25.0" x="2944.9688" y="4157.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1085_ca_sa1085"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:POLDIP2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:19644055 </p> <p>Poldip2 co-localizes with p22phox at sites of Nox4 in SMCs and, when present, increases Nox4 activity by three-fold. In addition, Nox4-Poldip2-derived ROS activate RhoA to strengthen focal adhesions and increase stress fiber formation.</p> </body> </html> </notes> <label text="POLDIP2"/> <bbox w="80.0" h="40.0" x="3022.9375" y="4107.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1069_ca_sa1069"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CYBA</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:15927447 </p> <p>Nox4, in contrast to other Nox proteins, produces large amounts of hydrogen peroxide constitutively. Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PCNA:p21CIP1*</p> <p>References:</p> <p>s_akt2_re149:(MAP:survival) PMID:19440234</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa51_akt1_akt2_csa51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCNA:p21CIP1*"/> <bbox w="100.0" h="120.0" x="13431.561" y="21458.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa290_akt1_akt2_sa290"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA HGNC:8729 ENTREZ:5111 UNIPROT:P12004 GENECARDS:PCNA REACTOME:97870 ATLASONC:PCNAID41670ch20p12 WIKI:PCNA</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:BER, MAP:dnarepair / MODULE:MMR, MAP:dnarepair / MODULE:TLS, MAP:cellcycle / MODULE:P21CIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="13441.061" y="21467.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa291_akt1_akt2_sa291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (P21 Cip1)</p> <p>CDKN1</p> <p>HUGO:CDKN1A HGNC:1784 ENTREZ:1026 UNIPROT:P38936 GENECARDS:CDKN1A REACTOME:87048 KEGG:1026 ATLASONC:CDKN1AID139 WIKI:CDKN1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:P21CIP, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <label text="p21CIP1*"/> <bbox w="80.0" h="40.0" x="13441.061" y="21511.0"/> <glyph class="state variable" id="_a5d52d99-001b-4a26-a834-a99b0fb17dc0"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="13431.061" y="21545.72"/> </glyph> <glyph class="state variable" id="_95c7d725-15d6-4b96-98e2-4d8b43960eee"> <state value="" variable="T146"/> <bbox w="30.0" h="10.0" x="13466.093" y="21506.0"/> </glyph> <glyph class="state variable" id="_96cb4656-1f19-457e-8809-8e0d7b50f341"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13436.061" y="21514.508"/> </glyph> <glyph class="state variable" id="_334f5c5f-31f7-4a35-8871-c0e29776b54b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13436.061" y="21519.338"/> </glyph> <glyph class="state variable" id="_33157143-f708-4c25-8eda-2fbc4b31acf8"> <state value="" variable="T145"/> <bbox w="30.0" h="10.0" x="13426.553" y="21506.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2124_in_sa2124" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MAP2K3"/> <bbox w="80.0" h="40.0" x="18591.0" y="3410.0"/> <glyph class="state variable" id="_fb73d64f-e3f1-4050-975c-847aa8135082"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18583.5" y="3425.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa831_emtc_em_sa831" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa831_emtc_em_sa831"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1*"/> <bbox w="48.0" h="44.0" x="6218.0" y="13590.25"/> <glyph class="state variable" id="_cb73e971-45ba-426a-818d-835e24e471f0"> <state value="" variable="T"/> <bbox w="15.0" h="10.0" x="6210.5" y="13587.486"/> </glyph> <glyph class="state variable" id="_e4bf989a-b2f6-4499-8ec6-3fa690230267"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="6258.5" y="13585.474"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa20_wnc1_wnc1_csa20" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EGFR:HB-EGF*:HER2*</p> <p>References:</p> <p>s_wnc1_re37(MAP:survival):</p> <p>PMID:18372913</p> <p>PAR1 activates EGFR</p> <p>PMID:16525676</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa20_wnc1_wnc1_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372913"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16525676"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR:HB-EGF*:HER2*"/> <bbox w="105.0" h="170.0" x="14712.561" y="18972.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa136_wnc1_wnc1_sa136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>@heparin-binding EGF-like growth factor</p> <p>"diphtheria toxin receptor (heparin-binding epidermal growth factor-like growth factor)", DTR, DTS, HEGFL</p> <p>HUGO:HBEGF HGNC:3059 ENTREZ:1839 UNIPROT:Q99075 GENECARDS:HBEGF REACTOME:56374 KEGG:1839 ATLASONC:GC_HBEGF WIKI:HBEGF</p> <p>Map modules:</p> </body> </html> </notes> <label text="HB-EGF*"/> <bbox w="80.0" h="40.0" x="14727.561" y="18982.0"/> <glyph class="unit of information" id="_74ff34eb-3ac8-4b51-a3da-212c33a635ef"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="14742.561" y="18977.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa135_wnc1_wnc1_sa135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL, "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 GENECARDS:ERBB2 REACTOME:54422 KEGG:2064 ATLASONC:ERBB2ID162ch17q11 WIKI:ERBB2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:ECM</p> </body> </html> </notes> <label text="HER2*"/> <bbox w="80.0" h="50.0" x="14727.561" y="19067.0"/> <glyph class="unit of information" id="_29eaf766-d5b2-41c1-8708-433e0cbdc408"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14745.061" y="19062.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa134_wnc1_wnc1_sa134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)", ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 GENECARDS:EGFR REACTOME:54208 KEGG:1956 ATLASONC:GC_EGFR WIKI:EGFR</p> <p>Map modules:</p> </body> </html> </notes> <label text="EGFR"/> <bbox w="80.0" h="50.0" x="14727.561" y="19027.0"/> <glyph class="unit of information" id="_1003b8fa-bd69-4e9f-88c3-10d5f17e2980"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14745.061" y="19022.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1073_rc_sa1073" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1073_rc_sa1073"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DAPK1"/> <bbox w="80.0" h="40.0" x="26204.06" y="12114.0"/> <glyph class="state variable" id="_7311d7c5-5859-49ff-a68c-95120b175eac"> <state value="P" variable="S289"/> <bbox w="35.0" h="10.0" x="26243.129" y="12109.0"/> </glyph> <glyph class="state variable" id="_781d96d9-0daf-4829-ab81-3cb431c3993b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26222.492" y="12109.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa52_akt1_akt2_csa52" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CBP*:promoter_region</p> <p>References:</p> <p>s_akt2_re153:(MAP:survival) PMID:9829964</p> <p>s_akt2_re151:(MAP:survival) PMID:10753867</p> <p>s_akt2_re154:(MAP:survival) PMID:10454566</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa52_akt1_akt2_csa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9829964"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10753867"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10454566"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREB_CRP_promoter"/> <bbox w="103.0" h="147.0" x="13712.061" y="21888.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa300_akt1_akt2_sa300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CREB binding protein</p> <p>HUGO:CREBBP HGNC:2348 ENTREZ:1387 UNIPROT:Q92793 GENECARDS:CREBBP REACTOME:51510 KEGG:1387 ATLASONC:CBPID42 WIKI:CREBBP </p> <p>cAMP responsive element binding protein 3</p> <p>HUGO:CREB3 HGNC:2347 ENTREZ:10488 UNIPROT:O43889 GENECARDS:CREB3 KEGG:10488 ATLASONC:GC_CREB3 WIKI:CREB3 </p> <p>cAMP responsive element binding protein 5</p> <p>HUGO:CREB5 HGNC:16844 ENTREZ:9586 UNIPROT:Q02930 GENECARDS:CREB5 KEGG:9586 WIKI:CREB5 </p> <p>CBP KAT3A RTS</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:E2F1, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17565603</p> <p>PMID:15337521</p> </body> </html> </notes> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="13718.561" y="21938.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa301_akt1_akt2_sa301"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="13722.561" y="21982.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa300_akt1_akt2_sa299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CREB binding protein</p> <p>HUGO:CREBBP HGNC:2348 ENTREZ:1387 UNIPROT:Q92793 GENECARDS:CREBBP REACTOME:51510 KEGG:1387 ATLASONC:CBPID42 WIKI:CREBBP </p> <p>cAMP responsive element binding protein 3</p> <p>HUGO:CREB3 HGNC:2347 ENTREZ:10488 UNIPROT:O43889 GENECARDS:CREB3 KEGG:10488 ATLASONC:GC_CREB3 WIKI:CREB3 </p> <p>cAMP responsive element binding protein 5</p> <p>HUGO:CREB5 HGNC:16844 ENTREZ:9586 UNIPROT:Q02930 GENECARDS:CREB5 KEGG:9586 WIKI:CREB5 </p> <p>CBP KAT3A RTS</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:E2F1, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17565603</p> <p>PMID:15337521</p> </body> </html> </notes> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="13718.561" y="21897.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa108_ce_sa108" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<bbox w="100.0" h="120.0" x="12010.0" y="8150.0"/> <glyph class="macromolecule" id="s_id_in_sa2700_in_sa2700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="trVEGFR1*"/> <bbox w="80.0" h="40.0" x="12020.0" y="8160.0"/> <glyph class="unit of information" id="_43c0c47c-0182-4de6-9380-abad610399f3"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="12035.0" y="8155.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2701_in_sa2701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="8985.186" y="19172.0"/> <glyph class="state variable" id="_2a0e0f08-2af4-46be-8fc2-93d82afcd93e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8977.686" y="19179.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa623_mpk1_mpk1_sa623"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="9033.686" y="19171.25"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa628_mpk1_mpk1_sa628"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="66.0" h="26.0" x="8931.061" y="19222.75"/> <glyph class="state variable" id="_53192b8e-176a-4a48-8fe5-aea9142a81e4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8923.561" y="19235.281"/> </glyph> <glyph class="state variable" id="_643fe17d-c82f-4e07-b891-27097f99988a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8923.561" y="19225.604"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa622_mpk1_mpk1_sa622"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="9033.686" y="19146.25"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa629_mpk1_mpk1_sa629"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="66.0" h="26.0" x="8930.686" y="19198.25"/> <glyph class="state variable" id="_005f4eba-efd0-4df5-90c4-22d22ac0880d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8923.186" y="19210.582"/> </glyph> <glyph class="state variable" id="_9b7551fd-821f-4be9-8836-1e703956b067"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8923.186" y="19201.701"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa621_mpk1_mpk1_sa621"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="9034.686" y="19125.0"/> <glyph class="unit of information" id="_14128ce4-493c-4032-97f0-af7f4883c8b3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9037.186" y="19120.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa630_mpk1_mpk1_sa630"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf murine sarcoma viral oncogene homolog B1</p> <p>HUGO:BRAF HGNC:1097 ENTREZ:673 UNIPROT:P15056</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>B-Raf is the MAPKKK for ERK cascade on plasma membrane. It is phosphorylated by RasGTP and phosphorylates MEK1/2 on plasma membrane.</p> </body> </html> </notes> <label text="BRAF"/> <bbox w="66.0" h="26.0" x="8926.186" y="19173.25"/> <glyph class="state variable" id="_52b63564-cf83-4a28-a9f4-812d35f2e806"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8918.686" y="19181.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa627_mpk1_mpk1_sa627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is a scaffold protein for ERK cascade. It normally localises in the cytosol but after GF treatment it moves to the plasma membrane. Its interaction with MEK1/2 is constitutive. Under endogenous conditions KSR1 facilitates the association of MEK and B-Raf (and not C-Raf) thus promoting MEK and ERK activation (on plasma membrane).</p> </body> </html> </notes> <label text="KSR1"/> <bbox w="41.0" h="77.0" x="8886.186" y="19172.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa106_ca_csa106" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR149:PTGER2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> </body> </html> </notes> <label text="ca_s4817"/> <bbox w="100.0" h="120.0" x="1070.0" y="2080.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa964_ca_sa964"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:PTGER2Map modules:MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF References:PMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsPGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression.PMID:21209948 PGE2 can induce IL-6 expression in fibroblasts through EP2 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF References:PMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsPGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression.PMID:21209948 PGE2 can induce IL-6 expression in fibroblasts through EP2 </body> </html> </notes> <label text="PTGER2"/> <bbox w="90.0" h="25.0" x="1075.0" y="2107.5"/> <glyph class="unit of information" id="_a30ef16f-318f-49b3-bfab-ca185cf8683a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1110.0" y="2102.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa963_ca_sa963"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR149Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:CASCADE:PGEPMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsmiR-149 mimics significantly suppressed the stimulatory effect of CAFs on GC cell proliferation, colony forming ability, migration and invasion; conversely, miR-149 inhibitors conferred NFs the enhancing effects.PGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:CASCADE:PGEPMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsmiR-149 mimics significantly suppressed the stimulatory effect of CAFs on GC cell proliferation, colony forming ability, migration and invasion; conversely, miR-149 inhibitors conferred NFs the enhancing effects.PGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression. </body> </html> </notes> <label text="MIR149"/> <bbox w="90.0" h="25.0" x="1075.0" y="2137.5"/> <glyph class="unit of information" id="_e3230e33-eaf0-42aa-8209-568f7a6e00af"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="1105.0" y="2132.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa463_ca_sa463" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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</annotation> </extension> <label text="Fanconi_DNA_st2*"/> <bbox w="120.0" h="26.0" x="15710.611" y="15542.109"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa168_ad_sa168" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:24076050,PMID:12538684</p> <p>PDL1 and PDL2 are expressed in DCs.</p> <p>blockade of PD-L2 on dendritic cells results in enhanced T cell proliferation and cytokine production, including that of IFN-gamma and IL-10, while blockade of PD-L1 results in similar, more modest, effects. 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<title/> </head> <body> <p>Charge: 0</p> <p>NAME:BBC3:BCL2-XL*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11463392</p> <p>BBC3 (so-called PUMA, p53 upregulated modulator of apoptosis) as a target for activation by p53. </p> <p>This gene encodes two BH3 domain–containing proteins that are induced in cells following p53 activation. </p> <p>BBC3 binds to BCL2, localize to the mitochondria to induce cytochrome c release, and activate the rapid induction of programmed cell death. </p> <p>Antisense inhibition of PUMA expression reduced the apoptotic response to p53, and PUMA is likely to play a role inmediating p53-induced cell death through the cytochrome c/Apaf-1–dependent pathway.</p> <p>PMID:11463391</p> <p>PUMA was found to be exclusively mitochondrial and to bind to BCL2 and BCL2L1 through a BH3 domain.</p> <p>It is via this binding to BBC3 (an apoptic inducer) that BCL2L1 exhibits its anti-apoptic effect.</p> <p>Confidence_begin:</p> 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class="macromolecule" id="s_id_emtc_em_sa911_emtc_em_sa911"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1, HGNC:992, ENTREZ:598, UNIPROT:Q07817, GENECARDS:GC20M030252</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:12667443</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:22836101</p> <p>BCL2L1 (BCL-X) promotes survival of adult and developing retinal ganglion cells.</p> <p>The activation of the pro-death family member BAX is often the final step before cell death in neurons. </p> <p>Pro-survival family members such as BCL2L1 act to inhibit BAX activation</p> <p>PMID:23064052</p> <p>PMID:11085534</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers. </p> <p>In particular, BCL2L1 overexpression has been correlated with cancer cells resistance to chemotherapeutic agents</p> 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<p>integrin, alpha 11</p> <p>HUGO:ITGA11 HGNC:6136 ENTREZ:22801 UNIPROT:Q9UKX5</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA11"/> <bbox w="40.0" h="20.0" x="4723.809" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa564_emtc_em_sa564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4723.809" y="18508.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa254_ca_sa254" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TNF, CASCADE:TGFBPMID:15653932 Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. Western blot analysis showed that TNF-α activated the extracellular signal–regulated kinase (ERK), and inhibitors of the ERK-specific mitogen-activated protein kinase pathway (PD98059 or U0126) blocked TNF-α induction of TGF-β1 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TNF, CASCADE:TGFBPMID:15653932 Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. 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h="25.0" x="9865.0" y="2202.5"/> <glyph class="unit of information" id="_f87bc738-7fa3-4798-8eab-2e825c01d66f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="9900.0" y="2197.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2049_rc_sa2049" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20424262</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa531_rc_sa531"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR221"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR221"/> <clone/> <bbox w="90.0" h="25.0" x="20397.56" y="15644.0"/> <glyph class="unit of information" id="_a1e4a871-1fcf-4589-94f1-678aa363ff38"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20427.56" y="15639.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa531_ca_sa893" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa531_ca_sa893"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR221"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR221"/> <clone/> <bbox w="90.0" h="25.0" x="1745.0" y="4427.5"/> <glyph class="unit of information" id="_1c5beeb8-7835-48e2-a1e9-03f0384c10f9"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="1775.0" y="4422.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa16_wnc1_wnc2_csa16" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO1:PPP3CB_sub_trunc_endsub_*:PPP3R*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa16_wnc1_wnc2_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1:PPP3CBtrunc*:PPP3R*"/> <bbox w="103.0" h="175.0" x="18313.56" y="18459.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa76_wnc1_wnc2_sa76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18323.56" y="18511.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa75_wnc1_wnc2_sa75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="18323.56" y="18468.0"/> <glyph class="unit of information" id="_0ca060fc-fa77-43ff-9631-0ef69766a154"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18338.56" y="18463.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa77_wnc1_wnc2_sa77"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="18326.31" y="18559.0"/> <glyph class="state variable" id="_25771b23-7a22-444f-b718-4a5581f45d8b"> <state value="P" variable="T24"/> <bbox w="30.0" h="10.0" x="18311.803" y="18554.0"/> </glyph> <glyph class="state variable" id="_11ba367d-95b4-41e1-9d4f-66182ef6d568"> <state value="P" variable="S319"/> <bbox w="35.0" h="10.0" x="18388.81" y="18554.213"/> </glyph> <glyph class="state variable" id="_393e7ce9-aba9-4c09-b168-3f371569fefa"> <state value="" variable="S329"/> <bbox w="30.0" h="10.0" x="18311.31" y="18593.72"/> </glyph> <glyph class="state variable" id="_958aecbd-bacf-400b-ac29-345aa56d7c2e"> <state value="" variable="S325"/> <bbox w="30.0" h="10.0" x="18351.215" y="18594.0"/> </glyph> <glyph class="state variable" id="_eccdfac1-8541-4564-b1f6-5c538e067df2"> <state value="" variable="S322"/> <bbox w="30.0" h="10.0" x="18390.691" y="18594.0"/> </glyph> <glyph class="state variable" id="_085573b1-f492-4d98-89a3-62d905f3a605"> <state value="" variable="S256"/> <bbox w="30.0" h="10.0" x="18351.342" y="18554.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa812_rc_sa812" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17363 KEGGCOMPOUND:C00199 CAS:4151-19-3</p> </body> </html> </notes> <label text="ribulose-5P"/> <bbox w="85.0" h="23.0" x="18429.06" y="10282.75"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa489_ad_sa489" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>2</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:19349987</p> <p>Both ROCK and MLCK phosphorylate and activate MLC and both ML7 and Y27632 inhibited phosphorylation of MLC during T cell stimulation with soluble TCR antibody</p> <p>PMID:27241914</p> <p> Ca2+-dependent calmodulin signaling leads to MLCK activation and, subsequently, pulling forces. Indeed, loss of calmodulin leads to unresponsiveness in T cells (Lin et al., 2005). Our experiments perturbing Ca2+ entry showed that at low Ca2+ levels, the magnitude of the pull force became more dependent on integrated Ca2+ concentration. The etiology of this Ca2+ threshold is as yet unknown, and could be caused by calmodulin.</p> <p>Probably via CAMK </p> <p>PMID:19349987 </p> <p>Ca2+ signaling requires myosin IIA activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa489_ad_sa489"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYLK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYLK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19349987"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27241914"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19349987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MLCK*"/> <bbox w="80.0" h="40.0" x="30398.5" y="5665.0"/> <glyph class="state variable" id="_91ce8667-8ace-4994-9b77-e57d28c19050"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="30393.5" y="5680.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1330_in_sa1330" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL18"/> <bbox w="90.0" h="25.0" x="14435.0" y="2522.5"/> <glyph class="unit of information" id="_d039a713-77af-4cc6-8aaa-f694de82bc37"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="14470.0" y="2517.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa269_mo_sa269" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>protein tyrosine phosphatase, non-receptor type 1 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa269_mo_sa269"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP1B*"/> <bbox w="80.0" h="40.0" x="6144.0" y="11312.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa232_ce_sa232" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa232_ce_sa232"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POLH"/> <bbox w="80.0" h="40.0" x="17134.305" y="15908.073"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3004_rc_sa3004" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3004_rc_sa3004"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PANK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PANK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="pre-mRNA~PANK1*"/> <bbox w="90.0" h="25.0" x="20759.06" y="16040.75"/> <glyph class="unit of information" id="_4843f705-25fe-4d17-80ac-4f95c3a43dc5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20794.06" y="16035.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa509_rc_sa509" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa509_rc_sa509"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase7*"/> <bbox w="80.0" h="40.0" x="24539.06" y="13640.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1172_emtc_em_sa1172" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1172_emtc_em_sa1172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Plakoglobin*"/> <bbox w="80.0" h="21.0" x="2319.0" y="16954.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa66_wca1_wca3_csa66" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HDAC1_2*:LEF_TCF*:TLE*:WRE*</p> <p>References:</p> <p>PMID:11266540</p> <p>s_wca3_re146(MAP:survival):</p> <p>HIPK2 phosphorylates any TCF/LEF</p> <p>PMID:21285352</p> <p>s_wca3_re147(MAP:survival):</p> <p>Phosphorylated TCF/LEF transcription factor dissociates and is replaced by another unphosphorylated one. For example TCF3 (repressor) is phosphorylated by HIPK2 and will dissociate from the complex and is replaced by TCF1.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa66_wca1_wca3_csa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11266540"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285352"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Repressor_complex)"/> <bbox w="101.0" h="187.0" x="22244.56" y="21543.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa407_wca1_wca3_sa407"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transducin-like enhancer of split 1 (E(sp1) homolog Drosophila)</p> <p>"transducin-like enhancer of split 1 homolog of Drosophila E(sp1)"</p> <p>HUGO:TLE1 HGNC:11837 ENTREZ:7088 UNIPROT:Q04724 GENECARDS:TLE1 REACTOME:66083 KEGG:7088 ATLASONC:GC_TLE1 WIKI:TLE1 </p> <p>transducin-like enhancer of split 2 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE2 HGNC:11838 ENTREZ:7089 UNIPROT:Q04725 GENECARDS:TLE2 REACTOME:66085 KEGG:7089 WIKI:TLE2 </p> <p>transducin-like enhancer of split 3 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE3 HGNC:11839 ENTREZ:7090 UNIPROT:Q04726 GENECARDS:TLE3 REACTOME:405165 KEGG:7090 ATLASONC:GC_TLE3 WIKI:TLE3 </p> <p>transducin-like enhancer of split 4 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE4 HGNC:11840 ENTREZ:7091 UNIPROT:Q04727 GENECARDS:TLE4 REACTOME:66089 KEGG:7091 WIKI:TLE4 </p> <p>amino-terminal enhancer of split</p> <p>GRG5 TLE5</p> <p>HUGO:AES HGNC:307 ENTREZ:166 UNIPROT:Q08117 GENECARDS:AES KEGG:166 ATLASONC:GC_AES WIKI:AES </p> <p>transducin-like enhancer of split 6 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE6 HGNC:30788 ENTREZ:79816 UNIPROT:Q9H808 GENECARDS:TLE6 KEGG:79816 ATLASONC:GC_TLE6 WIKI:TLE6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>References:</p> <p>non-DNA binding transcription factor</p> <p>PMID:20925119</p> </body> </html> </notes> <label text="TLE*"/> <bbox w="80.0" h="40.0" x="22254.56" y="21592.5"/> <glyph class="state variable" id="_b4059ddc-f372-4e4d-98a3-f0476bd2705c"> <state value="" variable="S239"/> <bbox w="30.0" h="10.0" x="22240.053" y="21587.5"/> </glyph> <glyph class="state variable" id="_b85b2723-ac5c-44a3-bc52-54ecdcd8aa26"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22329.56" y="21587.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa408_wca1_wca3_sa408"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="22254.56" y="21551.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa406_wca1_wca3_sa406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, 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w="20.0" h="10.0" x="4336.5" y="17141.445"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa339_te_sa339" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>nuclear activator of activated T-cells 5, tonicity-responsive</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa339_te_sa339"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFAT5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="6576.06" y="21294.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa52_shh1_shh2_sa52" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa52_shh1_shh2_sa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXQ1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXQ1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXQ1"/> <bbox w="70.0" h="25.0" x="26451.06" y="20912.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1045_ad_sa1045" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:23620508</p> <p>LCP2(SLP76)</p> <p>SLP-76 (SH2 domain-containing leukocyte protein of 76 kDa, also known as LCP2), an adaptor that mediates interactions between a host of proteins, including LAT and the actin-regulatory proteins Nck and Vav1. SLP-76 is activated through phosphorylation by Lck and ZAP70 as well as through TCR-independent pathways</p> <p>PMID:12640133 </p> <p>the induced Gab2 potentially competes with SLP-76 for Gads binding, and this may play a role in the efficient negative regulation of TCR signaling through Gab2.</p> <p>PMID:24584089 </p> <p>CD6, which is expressed on the surface of T cells, is also phosphorylated by Zap70 regardless of the presence of Lat. CD6 nucleates the assembly of a signalosome that also involves SLP-76 and probably accounts for the many TCR-induced tyrosine-phosphorylated species that remain in the absence of Lat</p> <p>CD6–SLP-76 association requires Zap70</p> <p>SLP-76 associates with CD6 in a Lat-independent manner.</p> <p>PMID:21536650 </p> <p>Lat-bound SLP-76 also interacts with Nck and with Vav1 to promote reorganization of the actin cytoskeleton</p> <p>PMID:23474202</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation </p> <p>GCK-like kinase (GLK), a SLP76-regulated kinase, was recently reported to phosphorylate directly PKCθ both in vitro and in primary T cells and T cell lines in response to TCR stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1045_ad_sa1045"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LCP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23620508"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12640133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24584089"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21536650"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23474202"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LCP2"/> <bbox w="80.0" h="40.0" x="27536.0" y="3840.0"/> <glyph class="state variable" id="_6af12df6-d6cc-4cbe-afa8-872bd619400e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27528.5" y="3855.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa83_mpk1_mpk1_csa83" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IL1R1:IRAK1:MYD88:TAK1*:TRAF6</p> </body> </html> </notes> <label text="IL1R1:IRAK1:MYD88:TAK1*:TRAF6"/> <bbox w="256.0" h="88.0" x="11329.057" y="19615.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa462_mpk1_mpk1_sa462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin-1 receptor-associated kinase 1</p> <p>HUGO:IRAK1 HGNC:6112 ENTREZ:3654 UNIPROT:P51617</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Similar to RIP recruitment by TRADD the death domain of receptor-bound MyD88 binds IRAK1.</p> </body> </html> </notes> <label text="IRAK1"/> <bbox w="50.0" h="25.0" x="11423.9795" y="19649.654"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa464_mpk1_mpk1_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 6 E3 ubiquitin protein ligase</p> <p>"TNF receptor-associated factor 6"</p> <p>HUGO:TRAF6 HGNC:12036 ENTREZ:7189 UNIPROT:Q9Y4K3</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon recruitment to the IL-1R complex IRAK1 binds TRAF6 forming a MyD88-IRAK1-TRAF6 complex analogous to the TNFR-associated complex of TRADD RIP and TRAF2.</p> </body> </html> </notes> <label text="TRAF6"/> <bbox w="50.0" h="25.0" x="11417.9795" y="19623.654"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa465_mpk1_mpk1_sa465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="76.0" h="25.0" x="11474.9795" y="19650.23"/> <glyph class="state variable" id="_e76fa172-bf02-4fdf-b08d-35bf238d5eef"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11467.4795" y="19657.73"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa463_mpk1_mpk1_sa463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid differentiation primary response 88</p> <p>"myeloid differentiation primary response gene (88)"</p> <p>HUGO:MYD88 HGNC:7562 ENTREZ:4615 UNIPROT:Q99836</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>The IL-1R/IL-1RAcP heterodimer recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="MYD88"/> <bbox w="64.0" h="25.0" x="11360.9795" y="19649.654"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa574_mpk1_mpk1_sa574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor type I</p> <p>IL1R IL1RA</p> <p>HUGO:IL1R1 HGNC:5993 ENTREZ:3554 UNIPROT:P14778</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>IL-1 likely requires TRAF6 to signal to the SAPKs. IL-1 binding to its receptor (IL-1R) triggers heterodimerisation of IL-1R with IL-1RAcP (not modelled) a transmembrane protein necessary for IL-1 signal transduction. The IL-1R/IL-1RAcP heterodimer then recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="IL1R1"/> <bbox w="50.0" h="25.0" x="11368.242" y="19625.908"/> <glyph class="unit of information" id="_559e6aa3-a52d-4870-ac7a-5fe1ab65eabf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11370.742" y="19620.908"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa322_in_sa322" compartmentRef="s_id_in_ca13_in_ca13"> <label text="LAMP1"/> <bbox w="80.0" h="40.0" x="17400.0" y="7960.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1603_emtc_em_sa1603" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1603_emtc_em_sa1603"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COL4A6"/> <bbox w="50.0" h="18.0" x="5561.0" y="18440.5"/> </glyph> <glyph class="phenotype" id="s_id_in_sa217_in_sa217" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa217_in_sa217"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887996"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14612578"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Actin_polymerization"/> <bbox w="160.0" h="35.0" x="17680.0" y="7312.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa8_shh1_shh3_csa8" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRK*:G_beta_*:G_gamma_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re7(MAP:survival):</p> <p>PMID:12764189</p> <p>PMID:18815277</p> <p>s_shh3_re8(MAP:survival):</p> <p>PMID:16885213</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa8_shh1_shh3_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12764189"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Grk_Giβgamma_dimer"/> <bbox w="103.0" h="163.0" x="26268.06" y="22809.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa46_shh1_shh3_sa46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="80.0" h="40.0" x="26280.31" y="22907.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa44_shh1_shh3_sa44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein-coupled receptor kinase 1</p> <p>HUGO:GRK1 HGNC:10013 ENTREZ:6011 UNIPROT:Q15835 GENECARDS:GRK1 KEGG:6011 ATLASONC:GC_GRK1 WIKI:GRK1 </p> <p>G protein-coupled receptor kinase 4</p> <p>HUGO:GRK4 HGNC:4543 ENTREZ:2868 UNIPROT:P32298 GENECARDS:GRK4 KEGG:2868 ATLASONC:GC_GRK4 WIKI:GRK4 </p> <p>G protein-coupled receptor kinase 5</p> <p>HUGO:GRK5 HGNC:4544 ENTREZ:2869 UNIPROT:P34947 GENECARDS:GRK5 REACTOME:55956 KEGG:2869 WIKI:GRK5 </p> <p>G protein-coupled receptor kinase 6</p> <p>HUGO:GRK6 HGNC:4545 ENTREZ:2870 UNIPROT:P43250 GENECARDS:GRK6 KEGG:2870 ATLASONC:GC_GRK6 WIKI:GRK6 </p> <p>G protein-coupled receptor kinase 7</p> <p>HUGO:GRK7 HGNC:17031 ENTREZ:131890 UNIPROT:Q8WTQ7 GENECARDS:GRK7 KEGG:131890 WIKI:GRK7 </p> <p>adrenergic beta receptor kinase 1</p> <p>HUGO:ADRBK1 HGNC:289 ENTREZ:156 UNIPROT:P25098 GENECARDS:ADRBK1 REACTOME:50271 KEGG:156 ATLASONC:GC_ADRBK1 WIKI:ADRBK1 </p> <p>adrenergic beta receptor kinase 2</p> <p>HUGO:ADRBK2 HGNC:290 ENTREZ:157 UNIPROT:P35626 GENECARDS:ADRBK2 KEGG:157 ATLASONC:GC_ADRBK2 WIKI:ADRBK2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK</p> <p>References:</p> <p>PMID:16525728</p> <p>PMID:15618519</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> </body> </html> </notes> <label text="GRK*"/> <bbox w="80.0" h="40.0" x="26280.56" y="22821.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa45_shh1_shh3_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="80.0" h="40.0" x="26280.31" y="22864.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa526_rc_sa526" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa526_rc_sa526"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGFBP3"/> <bbox w="80.0" h="40.0" x="20799.06" y="17139.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa77_wnc1_wnc1_csa77" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC2*:CK1_epsilon_*:CTHRC1:DAAM1:DVL*:FZD*:GSK3*:PAR6*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WGEF*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re146:(MAP:survival) Not sure if Rho dissociates when active</p> <p>s_wnc1_re143(MAP:survival):</p> <p>Activated Daam1 is responisble for the inhibition</p> <p>PMID:20351293</p> <p>Referenes_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa77_wnc1_wnc1_csa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20351293"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="381.0" h="244.0" x="14863.936" y="18858.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa693_wnc1_wnc1_sa693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15053.186" y="18981.0"/> <glyph class="state variable" id="_e2376b4b-cb9e-4e56-b5c8-1563cddc65c1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15048.189" y="19016.0"/> </glyph> <glyph class="state variable" id="_b3f43bd5-5d81-4805-a9f8-072c43ebf780"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15125.319" y="18976.0"/> </glyph> <glyph class="state variable" id="_c0460941-5798-4065-bddf-00bf66c657d3"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15115.067" y="19016.0"/> </glyph> <glyph class="state variable" id="_137f1a10-154d-4311-92c5-4349a95d2f46"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15048.189" y="18976.0"/> </glyph> <glyph class="state variable" id="_0747d236-c656-435b-a35b-6c21f133138c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15128.186" y="18976.0"/> </glyph> <glyph class="state variable" id="_c3fa2c27-b4b1-49a4-aefa-646736ca17f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15128.186" y="19016.0"/> </glyph> <glyph class="state variable" id="_935c90e3-056c-4803-893c-28ffce4aac99"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15035.686" y="19015.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa689_wnc1_wnc1_sa689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15064.436" y="18885.5"/> <glyph class="unit of information" id="_6bc33454-6448-47ce-a399-37f2d955f801"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15081.936" y="18880.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa702_wnc1_wnc1_sa702"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="14875.936" y="18982.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa701_wnc1_wnc1_sa701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15148.436" y="18889.5"/> <glyph class="state variable" id="_0fc1ba4a-fb33-4f2a-9086-5d6220468c47"> <state value="P" variable="S864"/> <bbox w="35.0" h="10.0" x="15210.936" y="18884.766"/> </glyph> <glyph class="state variable" id="_fa4ae2c4-81c8-4081-a44b-df7e5a7ababa"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15180.936" y="18934.5"/> </glyph> <glyph class="state variable" id="_16241a1c-aeed-4608-b7df-dfd834f0b15c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15143.439" y="18884.5"/> </glyph> <glyph class="state variable" id="_0b3398ce-84d0-41ee-ad64-34db8684c5d5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15220.936" y="18934.5"/> </glyph> <glyph class="unit of information" id="_b9332493-a92e-4b0a-b0de-83e9bb5421eb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15165.936" y="18884.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa700_wnc1_wnc1_sa700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="14871.686" y="18933.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa705_wnc1_wnc1_sa705"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled associated activator of morphogenesis 1</p> <p>HUGO:DAAM1 HGNC:18142 ENTREZ:23002 UNIPROT:Q9Y4D1 GENECARDS:DAAM1 ATLASONC:GC_DAAM1 WIKI:DAAM1</p> <p>Map modules:</p> </body> </html> </notes> <label text="DAAM1"/> <bbox w="80.0" h="40.0" x="15054.686" y="19030.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa704_wnc1_wnc1_sa704"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rho guanine nucleotide exchange factor (GEF) 19</p> <p>HUGO:ARHGEF19 HGNC:26604 ENTREZ:128272 UNIPROT:Q8IW93 GENECARDS:ARHGEF19 KEGG:128272 ATLASONC:GC_ARHGEF19 WIKI:ARHGEF19</p> <p>Map modules:</p> </body> </html> </notes> <label text="WGEF*"/> <bbox w="80.0" h="40.0" x="14968.686" y="19029.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa691_wnc1_wnc1_sa691"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="14957.936" y="18937.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa690_wnc1_wnc1_sa690"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15052.436" y="18863.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa694_wnc1_wnc1_sa694"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6 GENECARDS:ANAPC2 REACTOME:84976 KEGG:29882 ATLASONC:GC_ANAPC2 WIKI:ANAPC2 </p> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="15151.936" y="18942.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa703_wnc1_wnc1_sa703"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15164.936" y="19026.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa697_wnc1_wnc1_sa697"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="14966.686" y="18879.0"/> <glyph class="unit of information" id="_a45f59c4-0855-4145-9f37-ac33993943a4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14984.186" y="18874.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa698_wnc1_wnc1_sa698"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="14960.686" y="18985.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa695_wnc1_wnc1_sa695"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="15151.936" y="18984.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa699_wnc1_wnc1_sa699"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="14881.686" y="18879.0"/> <glyph class="state variable" 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<title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15095.686" y="18864.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa693_wnc1_wnc1_sa692"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15053.186" y="18935.0"/> <glyph class="state variable" id="_cbd6be2a-98af-4ec6-a051-106f6186cfc8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15048.189" y="18970.0"/> </glyph> <glyph class="state variable" id="_7411ec3f-6fba-499b-9df0-dfd235f2af97"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15125.319" y="18930.0"/> </glyph> <glyph class="state variable" id="_e9d8f6e0-2d8d-4f57-8fe2-eee3fdfcd375"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15115.067" y="18970.0"/> </glyph> <glyph class="state variable" id="_3e52687b-ed77-4dd2-861d-62ab85f766a6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15048.189" y="18930.0"/> </glyph> <glyph class="state variable" 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plays important in the degradation and remodeling of theextracellular matrix at sites of inflammation. HMOX1 (HO1) mediates IL-10-induced suppressionof MMP9 expression.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasion ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 22461508, 11875494, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:MATRIX_REMODELLINGCASCADE:MIF, CASCADE:IL10, CASCADE:IL4, CASCADE:IFNABReferences:PMID:11875494MMPs plays important in the degradation and remodeling of theextracellular matrix at sites of inflammation. HMOX1 (HO1) mediates IL-10-induced suppressionof MMP9 expression.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasion </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1382_in_sa1382"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22461508"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa70_wca1_wca3_csa70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12711682"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15834423"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327769"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:JUN"/> <bbox w="100.0" h="120.0" x="22276.06" y="21873.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa464_wca1_wca3_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="22286.31" y="21884.0"/> <glyph class="state variable" id="_c643712a-161b-4dab-b1bd-828cd497fa8a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22278.814" y="21879.0"/> </glyph> <glyph class="state variable" id="_6eff9402-ea3b-4994-b0f4-16aa856e7234"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22278.814" y="21919.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa465_wca1_wca3_sa465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22286.31" y="21929.0"/> <glyph class="state variable" id="_479c054c-6b0b-4832-82e1-145da503a0fb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22361.31" y="21924.0"/> </glyph> <glyph class="state variable" id="_3c61a9fa-233e-4a18-a4b8-725c20f5dc60"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="22271.31" y="21963.72"/> </glyph> <glyph class="state variable" id="_98221569-2cfc-462c-bc33-474b360ddbd2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22281.314" y="21924.0"/> </glyph> <glyph class="state variable" id="_491b14a0-9c5f-4d5f-ab21-ebe4a32a1abf"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="22350.691" y="21964.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa158_ad_csa158" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5792"/> <bbox w="110.0" h="160.0" x="26091.0" y="2610.0"/> <glyph class="macromolecule" id="s_id_ad_sa1348_ad_sa1348"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:PD1</p> <p>HUGO:PTPN11</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:11572860</p> <p>Gab2 is phosphorylated by ZAP-70, is associated with the TCR signaling complex, and acts as an inhibitory adaptor molecule via recruitment of SHP-2 upon TCR engagement</p> <p> CD247 chain has been reported to be a substrate of SHP-2 in T cells (12), we examined the phosphorylation levels of CD267 in these lines after TCR engagement by immunoprecipitation with anti-CD247 mAb,followed by blotting with anti-PY mAb. As shown in Fig. 3 D, the phosphorylation levels of theCD247 chain were attenuated by Gab2(WT) expression but not by Gab2(Y614F). Therefore, the inhibitory function of Gab2 is mediated, at least in part, through SHP-2-dependent dephosphorylation of the CD247 chain.</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> </body> </html> </notes> <label text="PTPN11"/> <bbox w="80.0" h="40.0" x="26101.0" y="2710.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa195_ad_sa195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>HUGO:BTLA</p> <p>PMID:22437870, PMID:20007250 </p> <p>rew</p> <p> PMID:12796776 </p> <p>BTLA is a lymphocyte inhibitory receptor with similarities to CTLA-4 and PD-1.</p> <p>BTLA is not expressed by naive T cells, but it is induced during activation and remains expressed on T helper type 1 (T(H)1) but not T(H)2 cells. Crosslinking BTLA with antigen receptors induces its tyrosine phosphorylation and association with the Src homology domain 2 (SH2)-containing protein tyrosine phosphatases SHP-1 and SHP-2, and attenuates production of interleukin 2 (IL-2). BTLA-deficient T cells show increased proliferation</p> <p>PMID:20038811</p> <p>BTLA activation inhibits the function of human CD8+ cancer-specific T cells</p> </body> </html> </notes> <label text="BTLA"/> <bbox w="80.0" h="50.0" x="26106.0" y="2615.0"/> <glyph class="unit of information" id="_b6cc23c9-ce6d-4e68-bdf6-b37c6d4885c8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26123.5" y="2610.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1349_ad_sa1349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:PD1</p> <p>HUGO:PTPN6</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> </body> </html> </notes> <label text="PTPN6"/> <bbox w="80.0" h="40.0" x="26101.0" y="2670.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa313_ce_sa313" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa313_ce_sa313"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="10999.77" y="9634.137"/> <glyph class="state variable" id="_7792da48-8ea0-46f0-aa19-ee9dcb85b3b2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10994.77" y="9649.137"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2015_em_sa2015" compartmentRef="s_id_em_ca11_em_ca11"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2015_em_sa2015"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="80.0" h="20.0" x="1566.25" y="13520.556"/> <glyph class="state variable" id="_668bcfe7-89a7-41d2-b969-1d17165a8287"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1638.75" y="13516.785"/> </glyph> <glyph class="state variable" id="_1bf350a2-50c2-4dba-b603-dae5f101e3d3"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="1558.75" y="13516.3955"/> </glyph> <glyph class="state variable" id="_3260a8d7-755b-431b-b530-bd5135f3fb74"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1638.1322" y="13535.556"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2787_in_sa2787"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 18633355, 18980965, 15099563 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>CASCADE:TNF, CASCADE:CSF2, CASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:IL8, CASCADE:TLR2_4</p> <p>MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>References:</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as VEGF, basic fibroblast growth factor (bFGF, also known as FGF2), tumour necrosis factor (TNF), interleukin 1 (IL1), chemokine (C-X-C motif) ligand 8 (CXCL8; also known as IL8), cyclooxygenase 2 (COX2, also known as PTGS2), plasminogen activator, urokinase (uPA, also known as PLAU), platelet derived growth factor beta.</p> <p>Release of the pro-angiogenic chemokines CXCL8 and CXCL1 by neutrophils is also triggered by TNF, and by granulocyte-macrophage colony-stimulating factor (GM-CSF, CSF2), platelet-activating factor and CXCL8 itself</p> <p> iDC in ovarian cancer ascites promote angiogenesis in vivo through production of TNF and CXCL8</p> <p> PMID:18980965</p> <p> Interleukin 8-stimulated phosphatidylinositol-3-kinase activity regulates the migration of human</p> <p>neutrophils</p> <p>PMID:15099563</p> <p>Mast cells produce heparin, interleukin-8 (IL-8) and vascular</p> <p>endothelial cell growth factor (VEGF), which induce</p> <p>neovascularization,</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2787_in_sa2787"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18980965"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15099563"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL8*"/> <clone/> <bbox w="80.0" h="40.0" x="12780.0" y="8190.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2787_in_sa2621"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 18633355, 18980965, 15099563 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>CASCADE:TNF, CASCADE:CSF2, CASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:IL8, CASCADE:TLR2_4</p> <p>MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>References:</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as VEGF, basic fibroblast growth factor (bFGF, also known as FGF2), tumour necrosis factor (TNF), interleukin 1 (IL1), chemokine (C-X-C motif) ligand 8 (CXCL8; also known as IL8), cyclooxygenase 2 (COX2, also known as PTGS2), plasminogen activator, urokinase (uPA, also known as PLAU), platelet derived growth factor beta.</p> <p>Release of the pro-angiogenic chemokines CXCL8 and CXCL1 by neutrophils is also triggered by TNF, and by granulocyte-macrophage colony-stimulating factor (GM-CSF, CSF2), platelet-activating factor and CXCL8 itself</p> <p> iDC in ovarian cancer ascites promote angiogenesis in vivo through production of TNF and CXCL8</p> <p> PMID:18980965</p> <p> Interleukin 8-stimulated phosphatidylinositol-3-kinase activity regulates the migration of human</p> <p>neutrophils</p> <p>PMID:15099563</p> <p>Mast cells produce heparin, interleukin-8 (IL-8) and vascular</p> <p>endothelial cell growth factor (VEGF), which induce</p> <p>neovascularization,</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2787_in_sa2621"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18980965"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15099563"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL8*"/> <clone/> <bbox w="80.0" h="40.0" x="13630.0" y="1125.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa3_shh1_shh2_csa3" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:GLI1</p> <p>References:</p> <p>s_shh2_re8:(MAP:survival) PMID:12138125</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa3_shh1_shh2_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1_CRM1*"/> <bbox w="100.0" h="120.0" x="26090.06" y="21117.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa23_shh1_shh2_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 1</p> <p>HUGO:GLI1 HGNC:4317 ENTREZ:2735 UNIPROT:P08151 GENECARDS:GLI1 KEGG:2735 ATLASONC:GLIID310ch12q13 WIKI:GLI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="26100.56" y="21125.0"/> <glyph class="state variable" id="_7e2ec40c-131d-443a-a4b0-2830966a3e54"> <state value="" variable="K518"/> <bbox w="30.0" h="10.0" x="26108.535" y="21160.0"/> </glyph> <glyph class="state variable" id="_af13f440-7622-4571-bad7-4efb473bdfb6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26095.564" y="21160.0"/> </glyph> <glyph class="state variable" id="_defa9ea1-1eac-4c8f-88e1-4ee3aaa4ca01"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26095.564" y="21120.0"/> </glyph> <glyph class="state variable" id="_2b85878e-a42c-4c9b-ae84-8e6a27f62ebf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26175.56" y="21120.0"/> 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<p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="26100.56" y="21169.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_em_sa2044_em_sa2044" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:CYTOSKELETON_POLARITY MODULE:CELL_CELL_ADHESIONS MODULE:CELL_MATRIX_ADHESIONS MODULE:ECM MODULE:TIGHT_JUNCTIONS MODULE:GAP_JUNCTIONS MODULE:ADHERENS_JUNCTIONS MODULE:DESMOSOMES </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Coordination of membrane spreading and retraction"/> <bbox w="380.0" h="25.0" x="2255.0" y="13774.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa21_ca_sa21" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa21_ca_sa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF2"/> <bbox w="80.0" h="40.0" x="3970.0" y="4431.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa12_in_sa12" compartmentRef="s_id_in_ca13_in_ca13"> <label text="MSR1"/> <bbox w="80.0" h="50.0" x="15512.5" y="1295.0"/> <glyph class="unit of information" id="_f0a30c00-1749-4dbb-862f-3a631c0d6683"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15530.0" y="1290.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa408_in_sa408" compartmentRef="s_id_in_ca47_in_ca47"> <label text="Immunoglobulins*"/> <bbox w="80.0" h="40.0" x="18121.25" y="730.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa193_ad_sa193" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:20116985</p> <p> ICOS has diverse functions in CD4+ T cell subsets. Following initial TCR engagement and CD28 costimulation, ICOS is upregulated on CD4+ T cells through NFATc2 and ERK signaling. In the early stages of priming, binding of ICOS to ICOSL promotes Th2 polarization through IL-4 secretion, IL-4 receptor signaling, and upregulation of the transcription factors NFATc1 and c-Maf. However, in a Th1, Th17, or Tfh polarizing environment, activated CD4+ T cells differentiate into the T helper lineages dictated by the environment. Upon differentiation into Th1 or Th2 lineages, ICOS expression is regulated by T-bet and NFATc2 in Th1 cells and GATA-3 and NFATc2 in Th2 cells. In differentiated CD4+ T cells, ICOS signaling through PI3K promotes T helper activity through secretion of the Th1, Th2, and Tfh associated cytokines IFN-γ, IL-4, and IL-21, respectively. In Tfh cells, ICOS regulates development and homeostasis through upregulation of the Tfh associated transcription factor c-Maf and secretion of IL-21, which acts in an autocrine manner to expand Tfh and promote their survival. Likewise, in Th17 cells, ICOS signaling upregulates the IL-23 receptor, which promotes survival and expansion of differentiated Th17 cells. In all CD4+ T cell lineages, activation of the ICOS pathway results in PI3K and Akt signaling, mediating T cell survival, proliferation, and memory.</p> <p> PMID:11343122</p> <p>ICOS co-stimulation induces CD40L expression by T cells</p> <p>PMID:21708958 </p> <p>The ICOS/ICOSL pathway is required for optimal antitumor responses mediated by anti-CTLA-4 therapy.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa193_ad_sa193"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ICOS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20116985"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11343122"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21708958"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ICOS"/> <clone/> <bbox w="80.0" h="50.0" x="30286.0" y="2585.0"/> <glyph class="unit of information" id="_75ade82b-dd03-4874-89fc-8cc085ce3b39"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30303.5" y="2580.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa193_ad_sa192" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:20116985</p> <p> ICOS has diverse functions in CD4+ T cell subsets. Following initial TCR engagement and CD28 costimulation, ICOS is upregulated on CD4+ T cells through NFATc2 and ERK signaling. In the early stages of priming, binding of ICOS to ICOSL promotes Th2 polarization through IL-4 secretion, IL-4 receptor signaling, and upregulation of the transcription factors NFATc1 and c-Maf. However, in a Th1, Th17, or Tfh polarizing environment, activated CD4+ T cells differentiate into the T helper lineages dictated by the environment. Upon differentiation into Th1 or Th2 lineages, ICOS expression is regulated by T-bet and NFATc2 in Th1 cells and GATA-3 and NFATc2 in Th2 cells. In differentiated CD4+ T cells, ICOS signaling through PI3K promotes T helper activity through secretion of the Th1, Th2, and Tfh associated cytokines IFN-γ, IL-4, and IL-21, respectively. In Tfh cells, ICOS regulates development and homeostasis through upregulation of the Tfh associated transcription factor c-Maf and secretion of IL-21, which acts in an autocrine manner to expand Tfh and promote their survival. Likewise, in Th17 cells, ICOS signaling upregulates the IL-23 receptor, which promotes survival and expansion of differentiated Th17 cells. In all CD4+ T cell lineages, activation of the ICOS pathway results in PI3K and Akt signaling, mediating T cell survival, proliferation, and memory.</p> <p> PMID:11343122</p> <p>ICOS co-stimulation induces CD40L expression by T cells</p> <p>PMID:21708958 </p> <p>The ICOS/ICOSL pathway is required for optimal antitumor responses mediated by anti-CTLA-4 therapy.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa193_ad_sa192"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PDGF family*:PDGFR family*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(PDGF/PDGFR)"/> <bbox w="105.0" h="120.0" x="3223.0" y="18440.5"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2419_emtc_em_sa2419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PDGFR family*"/> <bbox w="86.0" h="56.0" x="3231.0" y="18481.5"/> <glyph class="unit of information" id="_4be74584-21ca-4db8-a49d-e81d7524ce2c"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3264.0" y="18476.5"/> </glyph> <glyph class="unit of information" id="_69c0e634-9aed-4c06-ba2d-8aac739dd160"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3251.5" y="18476.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2422_emtc_em_sa2422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>platelet-derived growth factor alpha polypeptide</p> <p>HUGO:PDGFA HGNC:8799 ENTREZ:5154 UNIPROT:P04085 </p> <p>platelet-derived growth 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:26523</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27646922</p> <p>ROS play a central role in cell signalling as well as in regulation of the main pathways ofapoptosis mediated by mitochondria, death receptors and the endoplasmic reticulum (ER)</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2323_rc_sa2323"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="27616.06" y="10636.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2323_rc_sa2263" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:26523</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27646922</p> <p>ROS play a central role in cell signalling as well as in regulation of the main pathways ofapoptosis mediated by mitochondria, death receptors and the endoplasmic reticulum (ER)</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2323_rc_sa2263"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="25777.81" y="15670.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2323_rc_sa1233" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:26523</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27646922</p> <p>ROS play a central role in cell signalling as well as in regulation of the main pathways ofapoptosis mediated by mitochondria, death receptors and the endoplasmic reticulum (ER)</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2323_rc_sa1233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="26384.06" y="10526.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2323_rc_sa5295" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:26523</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27646922</p> <p>ROS play a central role in cell signalling as well as in regulation of the main pathways ofapoptosis mediated by mitochondria, death receptors and the endoplasmic reticulum (ER)</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2323_rc_sa5295"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="26624.06" y="9266.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2323_rc_sa1151" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:26523</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27646922</p> <p>ROS play a central role in cell signalling as well as in regulation of the main pathways ofapoptosis mediated by mitochondria, death receptors and the endoplasmic reticulum (ER)</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2323_rc_sa1151"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="25254.06" y="14886.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa8_emtc_em_csa8" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRB3:LIN7C:PALS1*:PATJ*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:10102271 </p> <p>PATJ* is a component of the Crb complex. The L27 domain of PATJ* binds to the L27 domain of PALS1*</p> <p>PMID:18177979</p> <p>Lin7 is a component of the Crumbs complex in Drosophila epithelia and photoreceptor cells</p> <p>PMID:2288140</p> <p>Apical recuritment of PATJ* and LIN7 depends on the CRB3/PALS1* complex</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa8_emtc_em_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10102271"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18177979"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2288140"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRB3/PALS1*/PATJ*/LIN7C"/> <bbox w="156.0" h="71.0" x="6647.0" y="15075.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa189_emtc_em_sa189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>InaD-like (Drosophila)</p> <p>HUGO:INADL, HGNC:28881, ENTREZ:10207, UNIPROT:Q8NI35, GENECARDS:GC01P062208 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:17486063</p> <p>PATJ* is repressed by ZEB1</p> <p>PMID:10102271 </p> <p>PATJ* is a component of the Crb complex. The L27 domain of PATJ* binds to the L27 domain of PALS1*</p> <p>PMID:22881460</p> <p>Apical recuritment if PATJ* depends on the CRB3/PALS1* complex</p> <p>PMID:18005931</p> <p>PATJ contains one L27 domain (interacting with the N-ter L27 of PALS1) and has up to 10 PDZ domains. </p> <p>The 6th PDZ interacts with ZO3 and the 8th interacts with Claudin1. </p> <p>The ZO3 cytoplasmic protein is linked to tight junctions via its association with Occludin. Occludin and Claudin1 are transmembrane proteins</p> <p>PMID:16129888</p> <p>PATJ expression affects the localization of ZO1, ZO3, Occludin, CRB3 and PALS1</p> <p>PATJ provides a link between the lateral (Occludin and ZO3) and apical (PALS1 and CRB3) components of tight junctions and stabilizes the CRB3 complex</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PATJ*"/> <bbox w="45.0" h="16.0" x="6675.0" y="15110.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa190_emtc_em_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lin-7 homolog C (C. elegans)</p> <p>HUGO:LIN7C, HGNC:17789, ENTREZ:55327, UNIPROT:Q9NUP9, GENECARDS:GC11M027472  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9753323</p> <p>Heterotrimeric complex Lin2-Lin7-Lin10 (C. elegans)</p> <p>PMID:9822620</p> <p>human lin10 contains 2 PDZ domains</p> <p>human lin10 interacts with mammalian lin2 (CASK)</p> <p>mammalian lin7 interacts with mammalian lin2 (CASK)</p> <p>heterotrimeric complex Lin2-lin7-Lin10 in mouse brain</p> <p>PMID:9753324</p> <p>Trimeric complex Lin2-Lin7-Lin10 in brain. </p> <p>Each protein contains PDZ domains-not involved in complex formation </p> <p>PMID:10871881</p> <p>LIN2(CASK) contains two L27 domains, 1 PDZ domain, 1 SH3 domain, 1 inactive Guanylate Kinase domain</p> <p>LIN7 contains one L27 domain, 1 PDZ domain</p> <p>Interaction LIN2-LIN7 via L27 domain</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LIN7C"/> <bbox w="47.0" h="16.0" x="6724.0" y="15110.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa164_emtc_em_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>crumbs homolog 3 (Drosophila)</p> <p>HUGO:CRB3, HGNC:20237, ENTREZ:92359, UNIPROT:Q9BUF7, GENECARDS:GC19P006414 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:22881460</p> <p>CRB3 is the only transmembrane protein among apical polarity regulators</p> <p>PMID:2344615</p> <p>Link between Drosophila apical membrane Crb and epithelia organization</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CRB3"/> <bbox w="53.0" h="16.0" x="6697.0" y="15076.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa163_emtc_em_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>membrane protein, palmitoylated 5 (MAGUK p55 subfamily member 5)</p> <p>HUGO:MPP5, HGNC:18669, ENTREZ:64398, UNIPROT:Q8NI35, GENECARDS:GC14P067708  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:11927608</p> <p>PALS1 is an adapter linking Crumbs and PATJ*</p> <p>PALS1 contains two L27 domains, 1 PDZ domain, 1 SH3 domain, 1 inactive Guanylate kinase domain</p> <p>Interaction PALS1 -LIN7 via the C-terminal L27 domain of PALS1</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:17486063</p> </body> </html> </notes> <label text="PALS1*"/> <bbox w="55.0" h="16.0" x="6690.5" y="15095.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa407_an_sa407" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa407_an_sa407"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOS1"/> <clone/> <bbox w="80.0" h="40.0" x="6472.0" y="6205.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa407_emtc_em_sa2015" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa407_emtc_em_sa2015"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOS1"/> <clone/> <bbox w="39.0" h="19.0" x="6331.0" y="15783.5"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa504_emtc_em_sa504" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="S phase"/> <bbox w="60.0" h="20.0" x="3028.0" y="13617.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2850_rc_sa2850" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29036 CAS:15158-11-9</p> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="20102.81" y="14015.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa306_emtc_em_csa306" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:DTX1:UBE2D1:UBE2D2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="UBE2D1/UBE2D2/DTX1"/> <bbox w="159.0" h="39.0" x="1412.0" y="14199.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2100_emtc_em_sa2100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>deltex homolog 1 </p> 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w="176.0" h="112.0" x="25650.06" y="11364.5"/> <glyph class="macromolecule" id="s_id_rc_sa1031_rc_sa1031"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, AMP-activated, gamma 1 non-catalytic subunit</p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 </p> <p>protein kinase, AMP-activated, gamma 2 non-catalytic subunit</p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 </p> <p>protein kinase, AMP-activated, gamma 3 non-catalytic subunit</p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PRKAG*"/> <bbox w="80.0" h="40.0" x="25740.06" y="11370.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1030_rc_sa1030"> <notes> <html 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</rdf:RDF> </body> </html> </notes> <label text="LEO1 promoter*"/> <bbox w="135.0" h="23.0" x="3016.5" y="10702.75"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa502_mo_sa502"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone cluster 1 H3 family member a </p> <p>HUGO:HIST1H3A </p> <p>histone cluster 1 H3 family member b </p> <p>HUGO:HIST1H3B </p> <p>histone cluster 1 H3 family member c </p> <p>HUGO:HIST1H3C </p> <p>histone cluster 1 H3 family member d </p> <p>HUGO:HIST1H3D </p> <p>histone cluster 1 H3 family member e </p> <p>HUGO:HIST1H3E </p> <p>histone cluster 1 H3 family member f </p> <p>HUGO:HIST1H3F </p> <p>histone cluster 1 H3 family member g</p> <p>HUGO:HIST1H3G</p> <p>histone cluster 1 H3 family member h </p> <p>HUGO:HIST1H3H </p> <p>histone cluster 1 H3 family member i </p> <p>HUGO:HIST1H3I</p> <p>histone cluster 1 H3 family member j</p> <p>HUGO:HIST1H3J </p> <p>histone cluster 1 H3 pseudogene 1</p> </body> </html> </notes> <label text="Histone H3*"/> <bbox w="96.0" h="33.0" x="3031.25" y="10667.5"/> <glyph class="state variable" id="_4ddfd7e7-a2d7-437c-8fdf-04fa22b7f6e8"> <state value="Me" variable="K9"/> <bbox w="30.0" h="10.0" x="3044.564" y="10662.5"/> </glyph> <glyph class="state variable" id="_c7bb036b-da7a-4810-b827-8d76eabdb565"> <state value="" variable="K9"/> <bbox w="20.0" h="10.0" x="3089.589" y="10662.5"/> </glyph> <glyph class="state variable" id="_c8e9a00d-1ba0-4bdc-8852-2cd6e0aa64f5"> <state value="" variable="K9"/> <bbox w="20.0" h="10.0" x="3069.2883" y="10662.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa500_mo_sa500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lysine demethylase 4C </p> <p>"jumonji domain containing 2C", "lysine (K)-specific demethylase 4C"</p> </body> </html> </notes> <label text="JMJD2C*"/> <bbox w="80.0" h="40.0" x="3044.0" y="10604.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa357_wca1_wca3_sa357" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="Differentiation"/> <bbox w="80.0" h="30.0" x="22144.06" y="22021.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4103_rc_sa4103" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4103_rc_sa4103"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NTN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NTN1"/> <clone/> <bbox w="80.0" h="40.0" x="19647.111" y="9038.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4103_rc_sa4104" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4103_rc_sa4104"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NTN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NTN1"/> <clone/> <bbox w="80.0" h="40.0" x="20177.111" y="9038.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4103_rc_sa3602" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4103_rc_sa3602"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NTN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NTN1"/> <clone/> <bbox w="80.0" h="40.0" x="19057.111" y="9058.431"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa554_rc_sa554" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa554_rc_sa554"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BID"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BID"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BID"/> <bbox w="90.0" h="25.0" x="21383.06" y="16010.5"/> <glyph class="unit of information" id="_a9cc776c-0a9d-47fc-9e8b-082b41dca4d9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21418.06" y="16005.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa28_ce_csa28" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NTH1*:XPG*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> </body> </html> </notes> <label text="NTH1*/XPG*"/> <bbox w="166.0" h="79.0" x="9319.473" y="15540.356"/> <glyph class="macromolecule" id="s_id_ce_sa495_ce_sa495"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 5</p> <p>HUGO:ERCC5, HGNC:3437, ENTREZ:2073, UNIPROT:P28715</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPG*"/> <bbox w="80.0" h="40.0" x="9325.016" y="15556.3955"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa494_ce_sa494"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nth endonuclease III-like 1 (E. coli)</p> <p>HUGO:NTHL1, HGNC:8028, ENTREZ:4913, UNIPROT:P78549</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="NTH1*"/> <bbox w="80.0" h="40.0" x="9400.473" y="15556.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa223_ce_csa223" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MYC:p107*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> </body> </html> </notes> <label text="MYC/p107*"/> <bbox w="100.0" h="120.0" x="11946.473" y="9641.356"/> <glyph class="macromolecule" id="s_id_ce_sa1129_ce_sa1129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma-like 1 (p107)</p> <p>HUGO:RBL1, HGNC:9893, ENTREZ:5933, UNIPROT:P28749</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="p107*"/> <bbox w="80.0" h="40.0" x="11953.784" y="9703.199"/> <glyph class="state variable" id="_d1b7c8d1-741e-4cc0-b076-5652d4b137d4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12028.784" y="9714.612"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1130_ce_sa1130"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC, HGNC:7553, ENTREZ:4609, UNIPROT:P01106</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:20551172, PMID:21406394, PMID:17873522, PMID:17558397</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="11955.784" y="9658.199"/> <glyph class="state variable" id="_d6e4ce44-d9cd-40ef-9375-382bafd1026f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11950.784" y="9673.199"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa972_ca_sa972" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>PMID:21339327</p> <p>The Th2 chemoattractants thymus and activation-regulated chemokine (TARC/CCL17) and macrophage-derived chemokine (MDC/CCL22) were secreted as expected by TSLP-treated DCs and, importantly, by DCs conditioned with the supernatant of activated CAFs</p> <p>PMID:18514095; PMID:18514095</p> <p>MDC/CCL22 expression in the stroma was not attributable to fibroblasts</p> <p>PMID:24127572 </p> <p>CCL17 and CCL22 have common receptor ccr4</p> <p>Anti-CCR4 mAb selectively depletes effector-type FoxP3+CD4+ regulatory T cells, evoking antitumor immune responses in humans.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa972_ca_sa972"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL22"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21339327"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18514095"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18514095"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24127572"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL22"/> <bbox w="80.0" h="40.0" x="407.5" y="4595.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1285_in_sa1285" compartmentRef="s_id_in_ca12_in_ca12"> <label text="GSF3"/> <bbox w="80.0" h="40.0" x="12800.0" y="5410.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1861_emtc_em_sa1861" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1861_emtc_em_sa1861"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFBR1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFBR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFBR1"/> <bbox w="53.0" h="21.0" x="5099.0" y="16242.291"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3358_rc_sa3358" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3358_rc_sa3358"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCA"/> <clone/> <bbox w="80.0" h="40.0" x="22749.06" y="12429.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3358_emtc_em_sa1321" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3358_emtc_em_sa1321"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCA"/> <clone/> <bbox w="46.0" h="16.0" x="1218.0" y="17464.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5018_rc_sa5018" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5018_rc_sa5018"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDF2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SDF2L1"/> <bbox w="80.0" h="40.0" x="28829.06" y="15809.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa36_wca1_wca1_csa36" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:AXIN*:CK1_alpha_*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:GSK3*:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> <p>s_wca1_re36(MAP:survival):</p> <p>PMID:20229235 PMID:18077588 PMID:20059949 PMID:20627573</p> <p>ANNOTATION:GSK3 phosphorylates first LRP @ S1490 followed by CK1 in the repeat PPSP A</p> <p>ANNOTATION:CYCLINY/PFTK complex is able to phosphorylate s1490 on LRP6 which primes the receptor for CK1 phosphorylisation. The complex is present during G2/M phase and stimulates wnt signalling it has synergetic effect together with the wnt ligand</p> <p>WNT/b-catenin signalling oscillates durring cell cycle and peaks at G2/M</p> <p>s_wca1_re37(MAP:survival):</p> <p>PMID:20229235 PMID:18077588 PMID:21304492 PMID:21498506</p> <p>Phosphorylation of the repeat PPSP A allows recruitment of additional GSK/AXIN which phosphorylates LRP5/6 on other PPSP repeats resulting of sequestering of GSK3 and AXIN away from the destruction complex</p> <p>AMER1 recruits axin and GSk3</p> <p>s_wca1_re38(MAP:survival):</p> <p>PMID:20229235 PMID:18077588</p> <p>ANNOTATION:GSK3 phosphorylates first @ S1490 followed by CK1 in the repeat PPSP A</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa36_wca1_wca1_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20059949"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20627573"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="490.0" h="305.0" x="22024.56" y="18114.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa241_wca1_wca1_sa233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22070.06" y="18179.5"/> <glyph class="state variable" id="_ed39419e-89d2-4efa-a42c-0e249cc9c3c0"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22050.06" y="18199.46"/> </glyph> <glyph class="state variable" id="_2dfefdd1-bfb1-4e48-9924-f9c891dbf947"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22130.06" y="18174.766"/> </glyph> <glyph class="state variable" id="_dc0805a8-1c26-4e5f-8c3d-dfd3a673e387"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22129.441" y="18224.5"/> </glyph> <glyph class="state variable" id="_ea525a64-06fa-46e5-a34b-1c8b011695fd"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="22091.664" y="18224.5"/> </glyph> <glyph class="state variable" id="_229f1aec-7377-4ea8-957e-e7fee315bdd7"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="22052.8" y="18224.5"/> </glyph> <glyph class="state variable" id="_38155cac-e2a1-4444-bcc5-d8f6e12c04f1"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22090.092" y="18174.5"/> </glyph> <glyph class="unit of information" id="_4abead73-0669-4372-b429-ee854cc382d6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22087.56" y="18174.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa415_wca1_wca1_sa415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22202.56" y="18164.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa244_wca1_wca1_sa244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22286.81" y="18273.5"/> <glyph class="state variable" id="_92ae1b8e-58f0-43da-b4c4-2d4876b31658"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22359.31" y="18268.5"/> </glyph> <glyph class="state variable" id="_1e2f92ea-8968-434f-955d-b32cf4011007"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="22269.31" y="18308.22"/> </glyph> <glyph class="state variable" id="_3c61d2ff-c812-4bf0-8d06-783696bbc2b4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22281.814" y="18268.5"/> </glyph> <glyph class="state variable" id="_996f8626-f8c1-4998-bb6c-b37e80b4a92f"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22348.691" y="18308.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa242_wca1_wca1_sa242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22286.06" y="18225.5"/> <glyph class="unit of information" id="_5b8f0a27-60ce-4578-8ee0-eb9b99fea678"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22303.56" y="18220.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa247_wca1_wca1_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="22158.06" y="18326.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa560_wca1_wca1_sa560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22239.56" y="18325.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa515_wca1_wca1_sa517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22198.31" y="18289.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa244_wca1_wca1_sa236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22070.81" y="18271.5"/> <glyph class="state variable" id="_efcc4cf5-0af9-4c89-a683-bb6c355f886a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22143.31" y="18266.5"/> </glyph> <glyph class="state variable" id="_2812da1c-5029-47c6-93f7-7a73b950fdef"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="22053.31" y="18306.22"/> </glyph> <glyph class="state variable" id="_fab9d293-804c-4716-b94b-01ebe4a12bfe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22065.814" y="18266.5"/> </glyph> <glyph class="state variable" id="_cb2159d3-24c7-42cd-afcd-e294a9ccd54c"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22132.691" y="18306.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa415_wca1_wca1_sa414"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22418.56" y="18166.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa585_wca1_wca1_sa585"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22202.56" y="18123.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa607_wca1_wca1_sa606"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22087.06" y="18163.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa248_wca1_wca1_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22072.56" y="18374.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa607_wca1_wca1_sa607"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22307.06" y="18163.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa560_wca1_wca1_sa559"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22320.56" y="18325.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa238_wca1_wca1_sa230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22150.56" y="18127.5"/> <glyph class="state variable" id="_aa757c7b-2643-42d6-9948-193d27bdbda8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22198.56" y="18122.5"/> </glyph> <glyph class="state variable" id="_0bb387b8-d42f-43b2-8c22-e76c03b301e5"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22188.56" y="18123.152"/> </glyph> <glyph class="state variable" id="_281b73a4-13db-4d02-9957-6f95c1b96f2c"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22186.629" y="18245.5"/> </glyph> <glyph class="state variable" id="_5238cebd-5faf-4461-9960-293cc4ca490d"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22136.404" y="18122.5"/> </glyph> <glyph class="state variable" id="_ea0c61b6-7d69-4b69-aac0-d879cd57cc96"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22135.719" y="18245.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa657_wca1_wca1_sa657"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="22027.242" y="18252.182"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa246_wca1_wca1_sa246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22073.06" y="18326.0"/> <glyph class="state variable" id="_674cd173-7ccb-4924-8210-aed725a32742"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22066.053" y="18321.0"/> </glyph> <glyph class="state variable" id="_c26f08c8-a37b-4c19-9cc0-f1178fdfa3e3"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22145.56" y="18321.213"/> </glyph> <glyph class="state variable" id="_a2099644-c480-47cd-903e-2d52751af4ee"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22060.56" y="18360.72"/> </glyph> <glyph class="state variable" id="_d89e27cd-40dd-4ef7-b555-49934704c566"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22138.06" y="18321.213"/> </glyph> <glyph class="state variable" id="_ffbf9bcc-4d0e-4d9d-a497-b7f2691cf082"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22137.441" y="18361.0"/> </glyph> <glyph class="state variable" id="_bbcc58b3-cded-49a6-929b-63968ae7d9dd"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22100.465" y="18361.0"/> </glyph> <glyph class="state variable" id="_6b34007d-b026-4698-b33f-baac15e2bdd0"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="22097.965" y="18361.0"/> </glyph> <glyph class="state variable" id="_c495db64-dc09-4c49-83a7-58c178eb1c28"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="22058.06" y="18360.72"/> </glyph> <glyph class="state variable" id="_72703027-656f-4a86-973c-fe9aadc37e1a"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="22100.592" y="18321.0"/> </glyph> <glyph class="state variable" id="_7fecf0ea-330b-4428-9072-bcdc7b2eb368"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="22061.053" y="18321.0"/> </glyph> <glyph class="state variable" id="_c165ed33-ecca-4998-91fd-3235b01295fc"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22139.941" y="18361.0"/> </glyph> <glyph class="state variable" id="_91cbbcb5-37e0-4c78-8b3e-1ba3be1d34d6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22068.064" y="18321.0"/> </glyph> <glyph class="state variable" id="_d9d6a9d1-3267-4819-9dbc-be7a32409c8e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22148.06" y="18321.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa241_wca1_wca1_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22286.06" y="18181.5"/> <glyph class="state variable" id="_0d617983-b9d7-43fc-a461-a71e39599683"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22266.06" y="18201.46"/> </glyph> <glyph class="state variable" id="_c12b8a04-b54b-47ed-af20-a17f02f759cd"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22346.06" y="18176.766"/> </glyph> <glyph class="state variable" id="_23047ada-b1ee-40a0-aea2-da2d256f4a23"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22345.441" y="18226.5"/> </glyph> <glyph class="state variable" id="_8292df8f-fa1c-4907-ac1e-05d0dc4e0038"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="22307.664" y="18226.5"/> </glyph> <glyph class="state variable" id="_c423881a-a5ef-4472-a2b0-5b32e214c65c"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="22268.8" y="18226.5"/> </glyph> <glyph class="state variable" id="_2e7872de-caf6-4276-97da-0f48ba8d8fe5"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22306.092" y="18176.5"/> </glyph> <glyph class="unit of information" id="_c7ef478d-e0ca-4393-9571-0ee629421441"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22303.56" y="18176.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa240_wca1_wca1_sa240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22418.56" y="18250.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa239_wca1_wca1_sa239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22420.56" y="18210.5"/> <glyph class="state variable" id="_7167a467-283a-4b44-81a1-48bb0abee87b"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="22406.053" y="18205.5"/> </glyph> <glyph class="state variable" id="_44088a0d-427c-4b90-8777-a2e6ff2ce6e7"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="22445.592" y="18205.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa514_wca1_wca1_sa516"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22157.31" y="18289.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa245_wca1_wca1_sa245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="22156.56" y="18385.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa240_wca1_wca1_sa232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22202.56" y="18248.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa242_wca1_wca1_sa234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22070.06" y="18223.5"/> <glyph class="unit of information" id="_b33bfb6c-29c0-4be4-8fbd-007c1ce1539d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22087.56" y="18218.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa514_wca1_wca1_sa514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22370.31" y="18294.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa239_wca1_wca1_sa231"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22204.56" y="18208.5"/> <glyph class="state variable" id="_efc190a0-c205-4508-9387-1965effa5379"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="22190.053" y="18203.5"/> </glyph> <glyph class="state variable" id="_d03a4d95-baaf-40b7-8613-33bbeec77230"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="22229.592" y="18203.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa238_wca1_wca1_sa238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22366.56" y="18129.5"/> <glyph class="state variable" id="_c16967f3-cea5-433f-a819-88adc9f5adee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22414.56" y="18124.5"/> </glyph> <glyph class="state variable" id="_98a68e16-e4a4-4669-a1de-5eb0be1a058e"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22404.56" y="18125.152"/> </glyph> <glyph class="state variable" id="_65ca5fd2-2b6a-48eb-ae4a-5cc003ed0b6f"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22402.629" y="18247.5"/> </glyph> <glyph class="state variable" id="_1592d93f-2c16-4038-8017-0e7482ffbce0"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22352.404" y="18124.5"/> </glyph> <glyph class="state variable" id="_003a9589-0bc8-43ef-b2a8-3e76b766dde5"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22351.719" y="18247.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa515_wca1_wca1_sa515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 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id="s_id_wca1_wca1_sa585_wca1_wca1_sa587"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22417.56" y="18126.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2746_rc_sa2746" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2746_rc_sa2746"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TE"/> <bbox w="90.0" h="25.0" x="21402.31" y="14637.5"/> <glyph class="unit of information" id="_bbff675f-e9cb-4b92-a499-faa79e802685"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21437.31" y="14632.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2270_in_sa2270" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP3"/> <bbox w="80.0" h="40.0" x="11590.0" y="6900.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa236_emtc_em_sa236" 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y="16856.25"/> </glyph> <glyph class="state variable" id="_539f1fb5-32cb-437e-876c-b6a1e6ff7932"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="6694.188" y="16859.191"/> </glyph> <glyph class="unit of information" id="_4143ce0d-c5f7-4f3d-8977-49d0ac377150"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6709.688" y="16856.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2855_in_sa2855" compartmentRef="s_id_in_ca47_in_ca47"> <label text="PECAM1"/> <bbox w="80.0" h="50.0" x="10653.75" y="127.5"/> <glyph class="unit of information" id="_8582f8db-83ce-4607-aeaa-b9a3cbc286ab"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10671.25" y="122.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa207_wca1_wca3_sa207" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca3_re143:(MAP:survival) PMID:15082531</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa207_wca1_wca3_sa207"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGF-β pathway"/> <bbox w="80.0" h="30.0" x="22268.06" y="21482.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa409_rc_sa409" compartmentRef="s_id_rc_ca3_rc_ca3"> 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y="13003.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa409_rc_sa387" compartmentRef="s_id_rc_ca3_rc_ca3"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="19365.81" y="13280.33"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa112_emtc_em_sa112" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa112_emtc_em_sa112"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VIM"/> </rdf:Bag> </bqbiol:isEncodedBy> 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compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2528_emtc_em_sa2528"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF binding partners*"/> <bbox w="144.0" h="19.0" x="2535.0" y="18959.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4258_rc_sa4258" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> </body> </html> </notes> <label text="cleaved Caspase2*"/> <bbox w="130.0" h="40.0" x="21384.06" y="9829.0"/> <glyph class="unit of information" id="_5bb2110f-bf24-405c-93bc-548134f2dec1"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21424.06" y="9824.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa68_te_csa68" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RFC Heteropentamer</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:14624239</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa68_te_csa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14624239"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RFC Heteropentamer"/> <bbox w="205.0" h="171.0" x="4254.06" y="22254.0"/> <glyph class="macromolecule" id="s_id_te_sa449_te_sa449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C subunit 2</p> <p>HUGO:RFC2</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RFC2"/> <bbox w="80.0" h="40.0" x="4364.06" y="22266.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa450_te_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C subunit 3</p> <p>HUGO:RFC3</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RFC3"/> <bbox w="80.0" h="40.0" x="4271.06" y="22315.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa452_te_sa452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C subunit 5</p> <p>HUGO:RFC5</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RFC5"/> <bbox w="80.0" h="40.0" x="4270.06" y="22365.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa451_te_sa451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C subunit 4</p> <p>HUGO:RFC4</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RFC4"/> <bbox w="80.0" h="40.0" x="4363.06" y="22316.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa448_te_sa448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C subunit 1</p> <p>HUGO:RFC1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RFC1"/> <bbox w="80.0" h="40.0" x="4269.06" y="22265.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa19_wca1_wca2_csa19" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGA3:TGFB1:TGFBR*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re46:(MAP:survival) PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa19_wca1_wca2_csa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:ITGA3:TGFB1:TGFBR*:p120*"/> <bbox w="202.0" h="249.0" x="24224.06" y="18835.166"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa116_wca1_wca2_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="24246.06" y="18893.166"/> <glyph class="state variable" id="_293bc1a9-64e8-4fd5-a006-c7c88c8b4599"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24364.06" y="18888.166"/> </glyph> <glyph class="state variable" id="_be7030f0-91bd-437d-a42d-16eae2381aaa"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="24354.06" y="18888.385"/> </glyph> <glyph class="state variable" id="_ddd0c0b9-0743-4aa6-9fec-86774eab045e"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="24349.58" y="18929.166"/> </glyph> <glyph class="state variable" id="_69f24fa9-d658-4f14-b9b7-7d8df17f36c6"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="24233.021" y="18888.166"/> </glyph> <glyph class="state variable" id="_fe06c6c9-946d-4dd2-8d40-d114a87e9556"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="24231.43" y="18929.166"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa120_wca1_wca2_sa120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897 GENECARDS:TGFBR1 REACTOME:65969 KEGG:7046 ATLASONC:GC_TGFBR1 WIKI:TGFBR1 </p> <p>transforming growth factor beta receptor 2</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173 GENECARDS:TGFBR2 REACTOME:65971 KEGG:7048 ATLASONC:GC_TGFBR2 WIKI:TGFBR2 </p> <p>transforming growth factor beta receptor 3</p> <p>HUGO:TGFBR3 HGNC:11774 ENTREZ:7049 UNIPROT:Q03167 GENECARDS:TGFBR3 KEGG:7049 ATLASONC:TGFBR3ID42541ch1p33 WIKI:TGFBR3</p> <p>Map modules:</p> </body> </html> </notes> <label text="TGFBR*"/> <bbox w="80.0" h="50.0" x="24286.06" y="18997.166"/> <glyph class="unit of information" id="_df523510-37b1-40e0-b5f0-19fc7587e8b8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24303.56" y="18992.166"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa119_wca1_wca2_sa119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 GENECARDS:TGFB1 REACTOME:65937 KEGG:7040 ATLASONC:GC_TGFB1 WIKI:TGFB1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:emtcellmotility / MODULE:ECM</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="52.0" h="29.0" x="24299.06" y="18973.166"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa115_wca1_wca2_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin alpha 3 (antigen CD49C alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143" MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006 GENECARDS:ITGA3 REACTOME:57565 KEGG:3675 ATLASONC:GC_ITGA3 WIKI:ITGA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_MATRIX_ADHESIONS</p> </body> </html> </notes> <label text="ITGA3"/> <bbox w="80.0" h="40.0" x="24306.06" y="18847.166"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa117_wca1_wca2_sa117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="24242.06" y="18941.166"/> <glyph class="state variable" id="_ddd705e3-1e97-4ec9-8a66-06db924b5768"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="24227.553" y="18936.166"/> </glyph> <glyph class="state variable" id="_cef5240b-345b-4eb9-b4a0-5f4bed0ba104"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="24267.092" y="18936.166"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_gf1_sa63_gf1_sa63" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <label text="csa102_degraded"/> <bbox w="30.0" h="30.0" x="9920.561" y="18164.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2416_emtc_em_sa2416" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2416_emtc_em_sa2416"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFRA"/> <bbox w="86.0" h="56.0" x="3085.0" y="18482.5"/> <glyph class="unit of information" id="_461cd2db-da86-42d2-95e3-a9df1d569cd1"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3118.0" y="18477.5"/> </glyph> <glyph class="unit of information" id="_c8b30cf2-b217-47c5-bb90-fc9a99d17084"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3105.5" y="18477.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa351_an_sa351" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa351_an_sa351"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1*"/> <bbox w="80.0" h="40.0" x="5785.0" y="6431.0"/> <glyph class="state variable" id="_2f869026-64e9-40db-9c3d-1e859dcb4480"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5834.0684" y="6426.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa24_wnc1_wnc2_csa24" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*:KPNB1:NFAT*:PPP3CB:PPP3R*:TNPO1:Tubulin-_alpha_*</p> <p>References:</p> <p>s_wnc2_re44(MAP:survival):</p> <p>Tubulin-alpha binds both NFAT and KPNB1 after dephosphorylation of NFAT.</p> <p>PMID:21278340</p> <p>TNPO1 is a transport protein that helps in the import of proteins into the nucleus. Although it has been described with associated with NRON, it is most likely that it binds first to NFAT complex, making this complex ready for import, then NRON can bind to this complex to hinder the import of the complex</p> <p>PMID:21709260</p> <p>s_wnc2_re43:(MAP:survival) PMID:19136967</p> <p>s_wnc2_re47(MAP:survival):</p> <p>LRKK2 mediates binding of NFAT to NRON and other components, but this is independent of its kinase activity and independent of the phosphorylation status of NFAT</p> <p>PMID:21983832</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa24_wnc1_wnc2_csa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21278340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21983832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin/Calmodulin/Ca2+_BR_KPNB1/Tubulin-α)"/> <bbox w="179.0" h="261.0" x="18625.06" y="18798.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa114_wnc1_wnc2_sa114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="18634.56" y="18890.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa117_wnc1_wnc2_sa117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a </p> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt: Q71U36</p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt: P68363</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt: Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>tubulin, alpha 3d </p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt: Q6PEY2</p> <p>tubulin, alpha 4a </p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>tubulin, alpha 8 </p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt: Q9NY65</p> <p>Map modules:</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="18718.31" y="18849.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa112_wnc1_wnc2_sa112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="18634.56" y="18804.5"/> <glyph class="state variable" id="_f3833154-76ac-490d-96bd-1f3da200073e"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="18699.56" y="18799.713"/> </glyph> <glyph class="state variable" id="_865d1663-599b-4095-a51c-de5d87d2f0da"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18629.56" y="18819.5"/> </glyph> <glyph class="state variable" id="_5e734a60-0953-4a5b-b158-e4741b718585"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18629.564" y="18839.5"/> </glyph> <glyph class="state variable" id="_842cc9be-2456-49c5-8fc2-181a8571d4aa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18629.564" y="18799.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa116_wnc1_wnc2_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>karyopherin (importin) beta 1</p> <p>HUGO:KPNB1 HGNC:6400 ENTREZ:3837 UNIPROT:Q14974 GENECARDS:KPNB1 REACTOME:57343 KEGG:3837 ATLASONC:GC_KPNB1 WIKI:KPNB1</p> <p>Map modules:</p> </body> </html> </notes> <label text="KPNB1"/> <bbox w="80.0" h="40.0" x="18718.31" y="18807.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa167_wnc1_wnc2_sa167"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transportin 1</p> <p>"karyopherin (importin) beta 2", KPNB2</p> <p>HUGO:TNPO1 HGNC:6401 ENTREZ:3842 UNIPROT:Q92973 GENECARDS:TNPO1 REACTOME:57345 KEGG:3842 ATLASONC:GC_TNPO1 WIKI:TNPO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="TNPO1"/> <bbox w="80.0" h="40.0" x="18715.56" y="18890.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa115_wnc1_wnc2_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18662.31" y="18931.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa113_wnc1_wnc2_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18634.56" y="18847.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa111_wnc1_wnc2_sa111"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18634.56" y="18958.0"/> <glyph class="state variable" id="_2662dc65-7cd7-4548-87bd-2e663f3b069a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18709.56" y="18973.0"/> </glyph> <glyph class="state variable" id="_beea45dc-56f4-4c4d-af5b-82deef161b4f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18709.56" y="18981.285"/> </glyph> <glyph class="state variable" id="_8f5da389-787e-4588-893c-78ce7929b7dd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18709.56" y="18993.0"/> </glyph> <glyph class="state variable" id="_64de659b-2e89-42ea-9418-9b943847b936"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18669.56" y="18953.0"/> </glyph> <glyph class="state variable" id="_588f4d25-fdea-479c-a8ba-3d140fdc71ff"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18686.129" y="18953.0"/> </glyph> <glyph class="state variable" id="_1377e218-33a2-4679-94b2-1fc1f24d33ef"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18686.129" y="18993.0"/> </glyph> <glyph class="state variable" id="_4a14df9f-9f91-467f-b164-1d027a2f5ff0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18709.56" y="18953.0"/> </glyph> <glyph class="state variable" id="_4bed147b-ff23-438e-aec7-1127189bf3cc"> <state value="" 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compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2176_rc_sa2176"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytochrome_C*"/> <clone/> <bbox w="80.0" h="40.0" x="21427.06" y="13238.0"/> <glyph class="state variable" id="_7cce7846-9daa-4d95-b0ad-39dcf444a34a"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="21439.56" y="13233.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2176_rc_sa2534" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2176_rc_sa2534"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytochrome_C*"/> <clone/> <bbox w="80.0" h="40.0" x="20718.725" y="13248.259"/> <glyph class="state variable" id="_5c45b75d-0438-4b55-bf11-7d4431207148"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="20731.225" y="13243.259"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa30_wnc1_wnc1_csa30" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD*:GDP:G_alpha_*:G_beta_*:G_gamma_*</p> <p>References:</p> <p>Ca2+/Wnt MODULE</p> <p>s_wnc1_re49(MAP:survival):</p> <p>PMID:20628572</p> <p>PMID:12839624</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa30_wnc1_wnc1_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Fzl-GPCR)"/> <bbox w="140.0" h="110.0" x="17064.06" y="18351.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa200_wnc1_wnc1_sa200"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 11 (Gq class) </p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12 </p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 5Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="17080.06" y="18404.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa187_wnc1_wnc1_sa187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17094.06" y="18356.0"/> <glyph class="unit of information" id="_c93028f1-b3eb-471e-b7a3-b6757f8ec042"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17111.56" y="18351.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa191_wnc1_wnc1_sa191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="17161.56" y="18403.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa192_wnc1_wnc1_sa192"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="25.0" h="25.0" x="17081.56" y="18418.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa190_wnc1_wnc1_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="17120.56" y="18403.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1975_emtc_em_sa1975" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1975_emtc_em_sa1975"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF2α*"/> <bbox w="48.0" h="18.0" x="4369.0" y="14215.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa139_wnc1_wnc2_sa139" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa139_wnc1_wnc2_sa139"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DYRK1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DYRK1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DYRK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DYRK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DYRK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DYRK*"/> <bbox w="80.0" h="40.0" x="19046.686" y="18233.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa770_rc_sa770" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:4170 KEGGCOMPOUND:C00092 CAS:56-73-5</p> </body> </html> </notes> <label text="glucose-6P"/> <bbox w="80.0" h="20.0" x="18269.06" y="9779.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa438_rc_csa438" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NGFR-ICD*:NRIF*:TRAF6</p> <p>References:</p> <p>15548667</p> <p>15721744</p> <p>16252010</p> <p>NRIF is a substrate for TRAF6-mediated K63 polyubiquitination and that this modification is necessary for its nuclear translocation</p> </body> </html> </notes> <label text="NGFR-ICD*:NRIF*:TRAF6"/> <bbox w="100.0" h="185.0" x="21669.06" y="9224.0"/> <glyph class="macromolecule" id="s_id_rc_sa4240_rc_sa4240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nerve growth factor receptor</p> <p>HUGO:NGFR HGNC:7809 ENTREZ:4804 UNIPROT:P08138</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:16630834</p> <p>Ligand-dependent cleavage of the P75 neurotrophin receptor is necessary for NRIF nuclear translocation and apoptosis in sympathetic neurons</p> </body> </html> </notes> <label text="NGFR-ICD*"/> <bbox w="80.0" h="40.0" x="21679.06" y="9234.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4243_rc_sa4243"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 6, E3 ubiquitin protein ligase</p> <p>HUGO:TRAF6 HGNC:12036 ENTREZ:7189 UNIPROT:Q9Y4K3</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:16252010</p> </body> </html> </notes> <label text="TRAF6"/> <bbox w="80.0" h="40.0" x="21679.06" y="9339.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4239_rc_sa4239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin beta 3 binding protein (beta3-endonexin)</p> <p>HUGO:ITGB3BP HGNC:6157 ENTREZ:23421 UNIPROT:Q13352</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:15721744</p> <p>PMID:16252010</p> <p>NRIF is a substrate for TRAF6-mediated K63 polyubiquitination and that this modification is necessary for its nuclear translocation.</p> </body> </html> </notes> <label text="NRIF*"/> <bbox w="80.0" h="40.0" x="21679.06" y="9284.0"/> <glyph class="state variable" id="_8b23aca7-ddf1-4fdc-9f47-2b0d5ea1882c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21730.629" y="9279.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa43_mo_csa43" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="miR-19a_PTEN"/> <bbox w="100.0" h="120.0" x="6522.0" y="10376.0"/> <glyph class="nucleic acid feature" id="s_id_mo_sa477_mo_sa477"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:PTEN ----- content merged by Celldesigner to SBGN-ML translation ------ phosphatase and tensin homolog </body> </html> </notes> <label text="PTEN"/> <bbox w="90.0" h="25.0" x="6527.0" y="10423.5"/> <glyph class="unit of information" id="_95282c94-0457-4848-b896-f33cecb9d655"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6562.0" y="10418.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa478_mo_sa478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR19A"/> <bbox w="90.0" h="25.0" x="6527.0" y="10393.5"/> <glyph class="unit of information" id="_e71d483e-5911-4f00-bf6b-057ac595c9b5"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="6557.0" y="10388.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa701_emtc_em_sa701" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa701_emtc_em_sa701"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR106B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR106B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR106B_25*"/> <bbox w="84.0" h="20.0" x="3474.5" y="16921.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa333_rc_csa333" compartmentRef="s_id_rc_ca14_rc_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TNF:TNFRSF1A</p> <p>References:</p> <p>21920725</p> </body> </html> </notes> <label text="engaged~TNFRSF1A"/> <bbox w="112.0" h="154.0" x="22203.06" y="9522.0"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3403_rc_sa3403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor</p> <p>HUGO:TNF HGNC:11892 ENTREZ:7124 UNIPROT:P01375</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="TNF"/> <bbox w="86.0" h="46.0" x="22210.06" y="9530.0"/> <glyph class="unit of information" id="_d338ac53-a7cf-4eea-8621-3f17c6ab35d4"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="22243.06" y="9525.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3405_rc_sa3405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily, member 1A</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:28765050</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="86.0" h="56.0" x="22214.06" y="9578.0"/> <glyph class="unit of information" id="_2c53e2ae-2561-4433-9a90-fcb5ef219d28"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="22247.06" y="9573.0"/> </glyph> <glyph class="unit of information" id="_a5f183c1-f825-42ac-bfcd-690bee30663c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22234.56" y="9573.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1197_emtc_em_sa1197" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2033_em_sa2033"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="80.0" h="20.0" x="1453.0" y="13284.0"/> <glyph class="state variable" id="_91ff14f0-37e3-4a59-9656-07035cc027c5"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1525.5" y="13280.2295"/> </glyph> <glyph class="state variable" id="_a4ccfb30-1cf4-4012-b73e-0ae94eed6ae1"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="1445.5" y="13279.84"/> </glyph> <glyph class="state variable" id="_49809cdf-0588-46d7-b24c-838d7f8d5303"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1524.8818" y="13299.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa31_mo_sa31" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>glycogen synthase kinase 3 beta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa31_mo_sa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="80.0" h="40.0" x="3129.0" y="9787.0"/> <glyph class="state variable" id="_ad13e58a-b1f9-4364-a44c-502949a47826"> <state value="" variable="Ser9"/> <bbox w="30.0" h="10.0" x="3194.0" y="9810.296"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa31_shh1_shh1_sa126" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>glycogen synthase kinase 3 beta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa31_shh1_shh1_sa126"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="80.0" h="40.0" x="26553.56" y="18237.0"/> <glyph class="state variable" id="_4aab6f97-6186-424b-8040-84fc55c2286d"> <state value="" variable="Ser9"/> <bbox w="30.0" h="10.0" x="26618.56" y="18260.295"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa31_rc_sa1005" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>glycogen synthase kinase 3 beta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa31_rc_sa1005"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="80.0" h="40.0" x="25589.06" y="10809.0"/> <glyph class="state variable" id="_fe0aa536-a6c4-49bd-a63a-d4f581b21cca"> <state value="" variable="Ser9"/> <bbox w="30.0" h="10.0" x="25654.06" y="10832.296"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa2_akt1_akt2_csa2" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO3:promoter_region</p> <p>References:</p> <p>s_akt2_re2:(MAP:survival) PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa2_akt1_akt2_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(FOXO_gene)"/> <bbox w="100.0" h="110.0" x="12338.811" y="20436.25"/> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa11_akt1_akt2_sa11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="12352.811" y="20496.75"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa10_akt1_akt2_sa10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 ATLASONC:AF6q21ID125 WIKI:FOXO3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16288288</p> </body> </html> </notes> 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<rdf:Description rdf:about="#s_id_mpk1_mpk1_sa422_mpk1_mpk1_sa422"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DDIT3"/> <bbox w="67.0" h="24.0" x="10567.89" y="20611.334"/> <glyph class="state variable" id="_69eb8a00-1e5a-4d73-b0a9-e59706567646"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10560.39" y="20618.334"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa120_ad_csa120" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="LAT_signalosome"/> <bbox w="215.0" h="195.0" x="28398.5" y="3512.5"/> <glyph class="macromolecule" id="s_id_ad_sa1012_ad_sa1012"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:CD226</p> <p>HUGO:GRB2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="28513.5" y="3637.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1011_ad_sa1011"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:GRAP2, CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>GRAP2 (GADS, GRPL)</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:10209041 </p> <p>GrpL, a Grb2-related Adaptor Protein, Interacts with SLP-76 to Regulate Nuclear Factor of Activated T Cell Activation</p> </body> </html> </notes> <label text="GRAP2"/> <bbox w="80.0" h="40.0" x="28516.0" y="3580.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1034_ad_sa1034"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:GRAP</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:8995379; PMID:9489702</p> <p>The Grb2‐like adaptor Grap is specifically expressed in lymphocytes. GRAP itreacts with LAT.</p> </body> </html> </notes> <label text="GRAP"/> <bbox w="80.0" h="40.0" x="28513.5" y="3527.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1018_ad_sa1018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PLCG1</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:CD226, CASCADE:TCR</p> <p>PMID:1712101; PMID:25456276 </p> <p>Functional activation of the T-cell antigen receptor induces tyrosine phosphorylation of phospholipase C-gamma 1.</p> <p>The exception is T-cell receptor activation, which is linked to PLCG1, not PLCG2.</p> <p>PLCγ enzymes are mainly activated through tyrosine </p> <p>phosphorylation by receptor and non-receptor kinases. As in all other PLC families, </p> <p>the main signaling output is generation of the second messengers inositol 1,4,5-</p> <p>trisphosphate (IP3, or InsP3) and diacylglycerol (DAG), from phosphatidylinositol 4,5-</p> <p>bisphosphate (PIP2, or PtdIns(4,5)P2). The released IP3 binds to IP3 receptors on the </p> <p>endoplasmic reticulum resulting in Ca2+ release into the cytoplasm. D</p> <p>PMID:10811803; PMID:9846483</p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>LAT Is Required for TCR-Mediated Activation of PLCγ1 and the Ras Pathways.</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>Tec family kinases directly activate PLCγ1 and regulate Ca2+ responses in immune cells</p> <p>AP-1 activation by Tec is largely dependent on PLCγ1 function. Moreover, ionomycin did not enhance Tec-induced AP-1 activation (Fig. 4C), also suggesting that Tec contributes to AP-1 activation upstream of Ca2+ release.</p> <p>PMID:14764585; PMID:11994416 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of Phospholipase C-γ1 via Phosphoinositide 3-Kinase-dependent and -independent Pathways</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> </body> </html> </notes> <label text="PLCG1"/> <bbox w="80.0" h="40.0" x="28416.0" y="3580.0"/> <glyph class="state variable" id="_321b7a55-2e03-4ede-adb7-fdffe3fdb3a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28411.0" y="3595.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1013_ad_sa1013"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>HUGO:LAT</p> <p>PMID:23620508</p> <p>LAT (linker for activation of T cells) is a scaffold protein that assembles key effectors of T cell activation, such as SLP-76, PLCγ1, Grb2 and others. After its phosphorylation by ZAP70 and Lck, LAT recruits many other signaling proteins to form protein microclusters that are distinct from TCR microclusters</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:25137453; PMID:16102570</p> <p>LAT as a signaling hub in TCR signaling</p> <p>Subsequent biochemical studies helped define the binding partners of phosphorylated LAT molecules and showed that in T cells most of the signalling activity of LAT is funnelled through the four COOH‐terminal tyrosine residues found at positions 136, 175, 195, and 235 of the mouse LAT sequence (Figure 1 ; Figure 2) (Lin 2001; Paz 2001; Zhang 2000 ; Zhu 2003). After TCR‐induced phosphorylation, these four tyrosines manifest some specialization in the SH2‐domain‐containing proteins they recruit. For instance, mutation of tyrosine (Y) 136 primarily eliminates binding of phospholipase C‐γ1 (PLC‐γ1), whereas the simultaneous mutation of Y175 and Y195, or of Y175, Y195, and Y235 results in loss of binding of the Gads and Grb2/Grap adaptors, respectively</p> <p>Gads interacts constitutively with the adaptor SLP‐76, thereby recruiting it to LAT, together with its constellation of associated molecules (Vav, Nck, Itk, adhesion and degranulation promoting adaptor protein (ADAP)). SLP‐76 contributes to PLC‐γ1 activation by stabilizing the LAT‐PLC‐γ1 association and by bringing the Tec family PTK Itk in the vicinity of its PLC‐γ1‐substrate</p> <p>In addition to PLC‐γ1, another major effector molecule functioning downstream of LAT is the Ras GTPase, whose activation is defective in both Lat‐ and Slp‐76‐deficient T cells. In T cells, the functional coupling between LAT and Ras occurs mainly through an SLP‐76‐PLC‐γ1‐RasGRP1 pathway, and secondarily via a Grb2‐Sos axis</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:14764585 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>pathway. In Vav1-deficient cells there is a failure to form a LAT-Grb2-Sos complex following TCR stimulation, probably because of reduced phosphorylation of key tyrosine residues on LAT. This in turn may contribute to the profound defect in TCR-induced Ras and ERK activation.</p> <p>PMID:19494291</p> </body> </html> </notes> <label text="LAT"/> <bbox w="80.0" h="40.0" x="28418.5" y="3522.5"/> <glyph class="state variable" id="_179f6981-cd39-4dc0-8c91-af80e3475e95"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28411.0" y="3537.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa272_emtc_em_sa272" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa755_rc_sa755"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR133A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR133A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR133A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR133A2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR133A*"/> <bbox w="90.0" h="25.0" x="23373.56" y="15630.0"/> <glyph class="unit of information" 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</extension> <label text="p70α*"/> <bbox w="80.0" h="40.0" x="12364.061" y="19227.0"/> <glyph class="state variable" id="_971425c7-8afa-4dcf-b584-660091cbbab0"> <state value="P" variable="T389"/> <bbox w="35.0" h="10.0" x="12426.561" y="19259.656"/> </glyph> <glyph class="state variable" id="_c446a154-d81c-4162-b5cf-3aab8e6b3af2"> <state value="P" variable="T229"/> <bbox w="35.0" h="10.0" x="12346.561" y="19224.404"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4990_rc_sa4990" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>References:</p> <p>"mitochondria associated ER membranes" arecontact sites between the ER and mitochondria with high calcium concentrations enabling mitochondrial calcium uptake</p> </body> </html> </notes> <label text="MAM"/> <bbox w="80.0" h="30.0" x="26259.06" y="13904.0"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa278_mo_sa278"> <label text="PI3K AKT MTOR pathway"/> <bbox w="80.0" h="30.0" x="6924.0" y="11298.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa861_rc_sa861" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="18699.06" y="10431.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa861_rc_sa901" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="18791.277" y="11387.398"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa861_rc_sa5352" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="26149.06" y="10195.25"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa60_akt1_akt1_csa60" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAD:BCL2-XL*</p> <p>References:</p> <p>s_akt1_re123:(MAP:survival) PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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cell death</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817 GENECARDS:BCL2L1 REACTOME:50772 KEGG:598 ATLASONC:BCL2L1ID129ch20q11 WIKI:BCL2L1 </p> <p>BCL2-like 1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="14143.561" y="18229.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa354_akt1_akt1_sa354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, 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Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="14142.561" y="18185.0"/> <glyph class="state variable" id="_83f91a5d-7df4-479d-ae5e-1354c30f423e"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="14125.553" y="18180.0"/> </glyph> <glyph class="state variable" id="_02058cfa-450d-4c7f-892b-bfa22d6021ae"> <state value="" variable="S155"/> <bbox w="30.0" h="10.0" x="14206.942" y="18220.0"/> </glyph> <glyph class="state variable" id="_9c199427-4844-4e59-bfbf-6aa516bee012"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="14205.061" y="18180.213"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1178_in_sa1178" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="S100A9"/> <bbox w="90.0" h="25.0" x="13065.0" y="2192.5"/> <glyph class="unit of information" id="_3a291a0d-fcd4-4ad3-a74e-6c8618d294a5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="13100.0" y="2187.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa245_shh1_shh2_sa245" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa245_shh1_shh2_sa245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR20A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR20A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR20A"/> <bbox w="90.0" h="25.0" x="26997.06" y="22035.5"/> <glyph class="unit of information" id="_33f7c099-1584-4cac-ba4f-6f4345c17afd"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27027.06" y="22030.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa317_an_sa317" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Cytoskeletal rearrangement"/> <bbox w="180.0" h="35.0" x="6342.0" y="7065.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1092_ad_sa1092" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19592273 </p> <p>Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. DTX1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1092_ad_sa1092"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DTX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592273"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text=" DTX1"/> <bbox w="80.0" h="40.0" x="28186.0" y="7335.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2815_in_sa2815" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24030977, 20644162, 16327802, 21372296 Charge: 0 Map modules:MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSIONMAP:MACROPHAGE, MAP:MDSC, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELLCASCADE:TGFB, CASCADE:STING, CASCADE:IL4, CASCADE:IL13, CASCADE:TNF, CASCADE:TLR2_4References:PMID:16327802IL13 and TNF inducese TGFB1 expression via AP-1 transcription factors.IL13 induces binding of c-jun and fra2 ti TGFB1 promotor, and TNF binding of c-jun, JunD and c-fos.PMID:21372296HMGB1 markedly increased the expression of the genes for VEGF, and TGFB1 inperitoneal macrophages.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-aARG1, TGFB, COX2 expression is downregulated in IL4R-/- MDSC (probably via STAT3 and MYC). ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 24030977, 20644162, 16327802, 21372296 Charge: 0 Map modules:MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSIONMAP:MACROPHAGE, MAP:MDSC, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELLCASCADE:TGFB, CASCADE:STING, CASCADE:IL4, CASCADE:IL13, CASCADE:TNF, CASCADE:TLR2_4References:PMID:16327802IL13 and TNF inducese TGFB1 expression via AP-1 transcription factors.IL13 induces binding of c-jun and fra2 ti TGFB1 promotor, and TNF binding of c-jun, JunD and c-fos.PMID:21372296HMGB1 markedly increased the expression of the genes for VEGF, and TGFB1 inperitoneal macrophages.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-aARG1, TGFB, COX2 expression is downregulated in IL4R-/- MDSC (probably via STAT3 and MYC). </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2815_in_sa2815"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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<label text="asRNA"/> <bbox w="30.0" h="10.0" x="21110.025" y="15624.348"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa131_emtc_em_csa131" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BIM1_KLF4_SOX2*:MIR200C</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19935649</p> <p>Targets of miR-200c include stem cell factors, such as Bmi1, Sox2 and KLF4</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa131_emtc_em_csa131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19935649"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MIR200C/BIM1_KLF4_SOX2*)"/> <bbox w="175.0" h="63.0" x="3263.5" y="17813.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1912_emtc_em_sa1912"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BMI1_KLF4_SOX2*</p> <p>BMI1 polycomb ring finger oncogene</p> <p>HUGO:BMI1, HGNC:1066, ENTREZ:648, GENECARDS:GC10P022605</p> <p>Kruppel-like factor 4 (gut)</p> <p>HUGO:KLF4, HGNC:6348, ENTREZ:9314, GENECARDS:GC09M110247</p> <p>SRY (sex determining region Y)-box 2</p> <p>HUGO:SOX2, HGNC:11195, ENTREZ:6657, GENECARDS:GC03P181429</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BIM1_KLF4_SOX2*"/> <bbox w="135.0" h="21.0" x="3293.5" y="17834.5"/> <glyph class="unit of information" id="_97df4038-1306-466d-999f-47b41f690e4b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3351.0" y="17829.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1913_emtc_em_sa1913"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 200c</p> <p>HUGO:MIR200C, HGNC:31580, ENTREZ:406985, GENECARDS:GC12P007072</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR200C"/> <bbox w="84.0" h="17.0" x="3314.5" y="17815.5"/> <glyph class="unit of information" id="_ade682d6-d850-44ef-ad34-0e743be07f6f"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3341.5" y="17810.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa234_mo_sa234" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Capped RNA Translation"/> <bbox w="80.0" h="30.0" x="3054.0" y="10128.0"/> </glyph> <glyph class="source and sink" id="s_id_in_sa438_in_sa438" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa108_degraded"/> <bbox w="30.0" h="30.0" x="21100.0" y="2465.0"/> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa868_emtc_em_sa868" compartmentRef="s_id_emtc_em_ca36_emtc_em_ca36"> <label text="Degradation of HIF1A by Ubiquitin/Proteasome pathway"/> <bbox w="30.0" h="30.0" x="4146.0" y="13835.5"/> </glyph> <glyph class="complex" id="s_id_mo_csa50_mo_csa50" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="(EGF family/EGFR)"/> <bbox w="100.0" h="120.0" x="6724.0" y="11230.0"/> <glyph class="macromolecule" id="s_id_mo_sa494_mo_sa494"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, alpha</p> <p>HUGO:TGFA</p> <p>heparin-binding EGF-like growth factor</p> <p>HUGO:HBEGF</p> <p>epidermal growth factor</p> </body> </html> </notes> <label text="EGF family*"/> <bbox w="80.0" h="40.0" x="6734.0" y="11240.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa493_mo_sa493"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Receptor tyrosine kinase</p> <p>epidermal growth factor receptor</p> <p>HUGO:EGFR</p> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa168_ce_sa168"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMARCAL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMARCAL1"/> <bbox w="80.0" h="40.0" x="14683.269" y="15628.0"/> <glyph class="state variable" id="_02a4f502-db06-42ed-ba86-451bd9665d81"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14675.769" y="15642.968"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2843_in_sa2843" compartmentRef="s_id_in_ca47_in_ca47"> <label text="ENPP3"/> <bbox w="80.0" h="50.0" x="9874.75" y="597.5"/> <glyph class="unit of information" id="_d95533ec-618c-4302-b122-9fb3c3b93229"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9892.25" y="592.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa265_emtc_em_csa265" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:VE-Cadherin*:_beta_-Catenin*_p120*1_Plakoglobin*_Plakophilin4*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:10685062</p> <p>Adherens junctions are ubiquitously expressed in endothelia of all vascular beds?</p> <p>Adherens junction in endothelila cells are formed by homofilic binding of VE-cahderin (cadherin-5)</p> <p>Cadherins are cell adhesion molecules anchored by their cytoplasmic tails to a network of intracellular cytoplasmic proteins connected to the actin-based microfilament system.</p> <p>Association with catenins is nessesary for cadherin-mediated cell adhesion.</p> <p>PMID:12426320</p> <p>VE-cadhein interacts with catenin delta 1 (p120-catenin, CTNND1)</p> <p>VE-cadhein interacts with Plakophilin 4 (PKP4)</p> <p>PMID:7962210</p> <p>VE-cadhein interacts with catenin beta 1 (CTNNB1)</p> <p>PKP4 and CTNND1 bind to the same region on the cytoplasmic tail of VE-cadherin.</p> <p>Overexpression of PKP4 can displace CTNND1 from intercellular junctions.</p> <p>PMID:9739078</p> <p>VE-cadhein interacts with Plakoglobin (JUP)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa265_emtc_em_csa265"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10685062"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12426320"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7962210"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9739078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(VE-Cadherin*/β-Catenin*_p120*1_Plakoglobin*_Plakophilin4*)"/> <bbox w="380.0" h="47.0" x="1122.0" y="16790.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1784_emtc_em_sa1784"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>_beta_-Catenin*_p120*_JUP_PKP4*</p> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>catenin (cadherin-associated protein), delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716</p> <p>junction plakoglobin</p> <p>"catenin (cadherin-associated protein), gamma 80kDa", CTNNG</p> <p>HUGO:JUP HGNC:6207 ENTREZ:3728 UNIPROT:P14923</p> <p>plakophilin 4</p> <p>HUGO:PKP4 HGNC:9026 ENTREZ:8502 UNIPROT:Q99569</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:10685062</p> <p>Adherens junctions are ubiquitously expressed in endothelia of all vascular beds?</p> <p>Adherens junction in endothelila cells are formed by homofilic binding of VE-cahderin (cadherin-5)</p> <p>Cadherins are cell adhesion molecules anchored by their cytoplasmic tails to a network of intracellular cytoplasmic proteins connected to the actin-based microfilament system.</p> <p>Association with catenins is nessesary for cadherin-mediated cell adhesion.</p> <p>PMID:12426320</p> <p>VE-cadhein interacts with catenin delta 1 (p120-catenin, CTNND1)</p> <p>VE-cadhein interacts with Plakophilin 4 (PKP4)</p> <p>PMID:7962210</p> <p>VE-cadhein interacts with catenin beta 1 (CTNNB1)</p> <p>PKP4 and CTNND1 bind to the same region on the cytoplasmic tail of VE-cadherin.</p> <p>Overexpression of PKP4 can displace CTNND1 from intercellular junctions.</p> <p>PMID:9739078</p> <p>VE-cadhein interacts with Plakoglobin (JUP)</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="β-Catenin*_p120*1_Plakoglobin*_Plakophilin4*"/> <bbox w="290.0" h="20.0" x="1209.5" y="16795.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1742_emtc_em_sa1742"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 5, type 2 (vascular endothelium)</p> <p>HUGO:CDH5, HGNC:1764, ENTREZ:1003, UNIPROT:P33151, GENECARDS:GC16P066400  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:10685062</p> <p>Adherens junctions are ubiquitously expressed in endothelia of all vascular beds?</p> <p>Adherens junction in endothelila cells are formed by homofilic binding of VE-cahderin (cadherin-5)</p> <p>Cadherins are cell adhesion molecules anchored by their cytoplasmic tails to a network of intracellular cytoplasmic proteins connected to the actin-based microfilament system.</p> <p>Association with catenins is nessesary for cadherin-mediated cell adhesion.</p> <p>PMID:12426320</p> <p>VE-cadhein interacts with catenin delta 1 (p120-catenin, CTNND1)</p> <p>VE-cadhein interacts with Plakophilin 4 (PKP4)</p> <p>PMID:7962210</p> <p>VE-cadhein interacts with catenin beta 1 (CTNNB1)</p> <p>PKP4 and CTNND1 bind to the same region on the cytoplasmic tail of VE-cadherin.</p> <p>Overexpression of PKP4 can displace CTNND1 from intercellular junctions.</p> <p>PMID:9739078</p> <p>VE-cadhein interacts with Plakoglobin (JUP)</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="VE-Cadherin*"/> <bbox w="84.0" h="19.0" x="1125.5" y="16795.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa188_emtc_em_csa188" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JAM1*:MPDZ</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MPDZ/JAM1*"/> <bbox w="89.0" h="39.0" x="1289.0" y="15024.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1255_emtc_em_sa1255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>F11 receptor</p> <p>HUGO:F11R, HGNC:14685, ENTREZ:50848, UNIPROT:Q9Y624, GENECARDS:GC01M160965 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="JAM1*"/> <bbox w="40.0" h="17.0" x="1335.5" y="15026.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1254_emtc_em_sa1254"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>multiple PDZ domain protein</p> <p>HUGO:MPDZ HGNC:7208 ENTREZ:8777 UNIPROT:O75970</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:11689568</p> <p>MPDZ accumulates at the TJ in epithelial cells through its binding to Claudins and JAMs. </p> <p>MPDZ is believed to function as a multivalent scaffold protein that recruits various proteins to TJ</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MPDZ"/> <bbox w="39.0" h="18.0" x="1293.5" y="15026.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2390_in_sa2390" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="HLX"/> <bbox w="70.0" h="25.0" x="19750.0" y="4822.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa7_ce_csa7" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:TC-NER_DNA_st1*:Transcription machine_br_</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>UV light causes bulky adducts damage in DNA that repared by NER pathway</p> <p>PMID:22743272, PMID:22822215, PMID:22492724, NER:22373527</p> <p>Transcription-dependent NER and damage by UV</p> <p>PMID:20045328, PMID:14599741</p> <p>Interstrand crosslinking agents induce NER </p> <p>PMID:21701511</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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class="nucleic acid feature" id="s_id_ce_sa403_ce_sa403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>TC-NER:DNA st1Transcriptionaly-active chemically or structurally damaged DNA coupled to transcription machineryNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:NERReferences:PMID:23892398PMID:20211143PMID:22258607, PMID:22918414PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761UV light causes bulky adducts damage in DNA that repared by NER pathwayPMID:22743272, PMID:22822215, PMID:22492724, NER:22373527Transcription-dependent NER and damage by UVPMID:20045328, PMID:14599741Interstrand crosslinking agents induce NER PMID:21701511 ----- content merged by Celldesigner to SBGN-ML translation ------ TC-NER:DNA st1Transcriptionaly-active chemically or structurally damaged DNA coupled to transcription machineryNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:NERReferences:PMID:23892398PMID:20211143PMID:22258607, PMID:22918414PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761UV light causes bulky adducts damage in DNA that repared by NER pathwayPMID:22743272, PMID:22822215, PMID:22492724, NER:22373527Transcription-dependent NER and damage by UVPMID:20045328, PMID:14599741Interstrand crosslinking agents induce NER PMID:21701511 </body> </html> </notes> <label text="TC-NER_DNA_st1*"/> <bbox w="170.0" h="26.0" x="7441.472" y="15559.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1190_ce_sa1190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Transcription complex </p> <p>Node_Type:Generic</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="Transcription machine_BR_(RNAPII)*"/> <bbox w="123.0" h="40.0" x="7466.972" y="15517.856"/> <glyph class="state 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1062_emtc_em_sa1062"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ABR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ABR"/> <bbox w="36.0" h="19.0" x="6604.3" y="14236.0"/> </glyph> <glyph class="complex" id="s_id_mo_csa33_mo_csa33" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <label text="RHEB:GDP"/> <bbox w="100.0" h="120.0" x="4016.125" y="9427.5"/> <glyph class="macromolecule" id="s_id_mo_sa447_mo_sa447"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RHEB</p> </body> </html> </notes> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="4026.125" y="9437.5"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa448_mo_sa448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="4031.125" y="9485.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa536_ca_sa536" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa536_ca_sa536"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL1B"/> <bbox w="90.0" h="25.0" x="585.0" y="3247.5"/> <glyph class="unit of information" id="_2c757134-0808-4ae0-b29c-5eea14846b84"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="620.0" y="3242.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa258_in_csa258" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s1225"/> <bbox w="215.0" h="178.0" x="23802.5" y="3676.25"/> <glyph class="macromolecule" id="s_id_in_sa1945_in_sa1945"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL12RB1"/> <bbox w="80.0" h="50.0" x="23822.5" y="3736.25"/> <glyph class="unit of information" id="_8039d956-d519-4854-b748-0e8cbd34fb47"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23840.0" y="3731.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1947_in_sa1947"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL12*"/> <bbox w="80.0" h="40.0" x="23822.5" y="3686.25"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2643_in_sa2643"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="23820.0" y="3795.0"/> <glyph class="state variable" id="_1ad84d17-63a1-497d-978c-bf95a19ab508"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23812.5" y="3810.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2642_in_sa2642"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC, HGNC:7553, ENTREZ:4609, UNIPROT:P01106</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:20551172, PMID:21406394, PMID:17873522, PMID:17558397</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="11926.589" y="11369.164"/> <glyph class="state variable" id="_d01243b6-da01-4b77-85ce-d2d356602d88"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11921.589" y="11384.164"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1122_ce_sa1122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger and BTB domain containing 17, MIZ1</p> <p>HUGO:ZBTB17, HGNC:12936, ENTREZ:7709, UNIPROT:Q13105</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:9312026, PMID:15095404, PMID:19901969, PMID:19815509</p> </body> </html> </notes> <label text="MIZ1*"/> <bbox w="80.0" h="40.0" x="11924.443" y="11319.892"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa908_ce_sa908"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, membrane associated tyrosine/threonine 1</p> <p>HUGO:PKMYT1, HGNC:29650, ENTREZ:9088, UNIPROT:Q99640</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:10504341, PMID:10373560, PMID:12738781</p> </body> </html> </notes> <label text="PKMYT1"/> <bbox w="80.0" h="40.0" x="11925.973" y="11277.856"/> <glyph class="state variable" id="_491617ba-c785-4e83-b1e9-d5559324ce2e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11918.473" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BOC:HH Ligand</p> <p>References:</p> <p>s_shh1_re114:(MAP:survival) PMID:16647304</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa58_shh1_shh1_csa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16647304"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BOC_ligand"/> <bbox w="84.0" h="120.0" x="27469.06" y="17582.0"/> <glyph class="simple chemical" id="s_id_shh1_shh1_sa333_shh1_shh1_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="27473.56" y="17594.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa332_shh1_shh1_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>brother of CDO</p> <p>HUGO:BOC HGNC:17173 ENTREZ:91653 UNIPROT:Q9BWV1 GENECARDS:BOC REACTOME:197762 KEGG:91653 ATLASONC:GC_BOC WIKI:BOC</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11782431</p> </body> </html> </notes> <label text="BOC"/> <bbox w="80.0" h="50.0" x="27470.06" y="17615.0"/> <glyph class="unit of information" id="_ae10f210-c8a4-47ec-9984-e8fef48e713d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27487.56" y="17610.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4156_rc_sa4156" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4156_rc_sa4156"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKD1"/> <bbox w="80.0" h="40.0" x="19797.111" y="9378.431"/> <glyph class="state variable" id="_168f1651-ad89-40a7-a4ac-f1472aa4bb50"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19848.68" y="9373.431"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa180_ca_sa180" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa180_ca_sa180"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847259"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL3"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="_8888c98c-9090-4039-80f4-7416a2e723fb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9548.75" y="217.5"/> </glyph> <glyph class="unit of information" id="_649bcd5d-6fcb-428b-bd86-0f1cccbd1a75"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9571.25" y="192.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa30_rc_csa30" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cytochrome_C*:cardiolipin</p> </body> </html> </notes> <label text="ferriCYCS"/> <bbox w="100.0" h="120.0" x="19227.81" y="14013.33"/> <glyph class="simple chemical" id="s_id_rc_sa404_rc_sa404"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:28494</p> </body> </html> </notes> <label text="cardiolipin"/> <bbox w="70.0" h="25.0" x="19242.81" y="14074.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2248_rc_sa2248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="19237.81" y="14027.0"/> <glyph class="state variable" id="_086cf172-e536-4cc8-90c0-2a54e15dffc6"> <state value="ferriheme" variable=""/> <bbox w="55.0" h="10.0" x="19250.31" y="14022.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" 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h="25.0" x="25687.264" y="16042.5"/> <glyph class="unit of information" id="_dad6c5b9-cfab-4a0f-9cc5-f5c3b791f39c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25722.264" y="16037.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa204_in_sa204" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR30E"/> <bbox w="70.0" h="25.0" x="13295.0" y="4325.375"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4838_rc_sa4838" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4838_rc_sa4838"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB3L2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BBF2H7*"/> <bbox w="80.0" h="40.0" x="28049.06" y="14939.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1658_emtc_em_sa1658" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1658_emtc_em_sa1658"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYL10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYL10"/> <bbox w="42.0" h="19.0" x="5734.0" y="16196.791"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1133_emtc_em_sa1133" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1133_emtc_em_sa1133"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p120*"/> <bbox w="52.0" h="16.0" x="1967.0" y="15950.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa5_wnc1_wnc3_csa5" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MEF2*:NFAT*:promoter binding site*</p> <p>References:</p> <p>s_wnc3_re8:(MAP:survival) PMID:11796223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa5_wnc1_wnc3_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11796223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEF2*:NFAT*:promoter binding site*"/> <bbox w="179.0" h="105.0" x="15379.061" y="21333.0"/> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa31_wnc1_wnc3_sa31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:It's not a gene but indicating a promoter binding siteReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:It's not a gene but indicating a promoter binding siteReferences:It's not a gene but indicating a promoter binding site </body> </html> </notes> <label text="promoter binding site*"/> <bbox w="166.0" h="25.0" x="15385.561" y="21389.75"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa33_wnc1_wnc3_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="15384.561" y="21347.0"/> <glyph class="state variable" id="_595b5684-768f-4412-b472-0a9dbba5c95d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15459.561" y="21362.0"/> </glyph> <glyph class="state variable" id="_588364d5-9946-4198-931d-0f0245c181b2"> <state value="" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myocyte enhancer factor 2A</p> <p>HUGO:MEF2A HGNC:6993 ENTREZ:4205 UNIPROT:Q02078 GENECARDS:MEF2A REACTOME:59133 KEGG:4205 ATLASONC:GC_MEF2A WIKI:MEF2A </p> <p>myocyte enhancer factor 2B </p> <p>HUGO:MEF2B HGNC:6995 ENTREZ:100271849 UNIPROT:Q02080 GENECARDS:MEF2B REACTOME:59135 KEGG:100271849 ATLASONC:GC_MEF2B WIKI:MEF2B </p> <p>myocyte enhancer factor 2C</p> <p>HUGO:MEF2C HGNC:6996 ENTREZ:4208 UNIPROT:Q06413 GENECARDS:MEF2C REACTOME:59137 KEGG:4208 ATLASONC:GC_MEF2C WIKI:MEF2C </p> <p>myocyte enhancer factor 2D</p> <p>HUGO:MEF2D HGNC:6997 ENTREZ:4209 UNIPROT:Q14814 GENECARDS:MEF2D REACTOME:59139 ATLASONC:MEF2DID43636ch1q22 WIKI:MEF2D</p> <p>Map modules:</p> </body> </html> </notes> <label text="MEF2*"/> <bbox w="80.0" h="40.0" x="15471.061" y="21347.0"/> <glyph class="state variable" id="_c8414614-d6be-4328-b2bf-1af7e30f51fe"> <state value="" 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HGF:c-MET*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(HGF/c-MET)"/> <bbox w="100.0" h="120.0" x="1657.5" y="12563.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2569_emtc_em_sa2569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hepatocyte growth factor (hepapoietin A; scatter factor)</p> <p>HUGO:HGF HGNC:4893 ENTREZ:3082 UNIPROT:P14210</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HGF"/> <bbox w="38.0" h="17.0" x="1690.5" y="12588.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2571_emtc_em_sa2571"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>met proto-oncogene</p> <p>synonym "hepatocyte growth factor receptor", HGFR</p> <p>HUGO:MET HGNC:7029 ENTREZ:4233 UNIPROT:P08581</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:22128289</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="c-MET*"/> <bbox w="86.0" h="56.0" x="1665.5" y="12602.5"/> <glyph class="unit of information" id="_907fe2ac-c620-4bb3-b7e4-99741423dacf"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1698.5" y="12597.5"/> </glyph> <glyph class="unit of information" id="_2ee75ecb-4444-4f8b-b3d8-754519ed7144"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1686.0" y="12597.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa274_rc_csa274" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ALAS*:pyridoxal 5</p> </body> </html> </notes> <label text="ALAS"/> <bbox w="98.0" h="94.0" x="18478.834" y="12838.75"/> <glyph class="macromolecule" id="s_id_rc_sa2184_rc_sa2184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aminolevulinate, delta-, synthase 1</p> <p>HUGO:ALAS1 HGNC:396 ENTREZ:211 UNIPROT:P13196 </p> <p>aminolevulinate, delta-, synthase 2</p> <p>HUGO:ALAS2 HGNC:397 ENTREZ:212 UNIPROT:P22557</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="ALAS*"/> <bbox w="80.0" h="40.0" x="18481.787" y="12845.146"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2184_rc_sa2185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aminolevulinate, delta-, synthase 1</p> <p>HUGO:ALAS1 HGNC:396 ENTREZ:211 UNIPROT:P13196 </p> <p>aminolevulinate, delta-, synthase 2</p> <p>HUGO:ALAS2 HGNC:397 ENTREZ:212 UNIPROT:P22557</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="ALAS*"/> <bbox w="80.0" h="40.0" x="18491.787" y="12855.146"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2186_rc_sa2186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18405</p> <p>KEGGCOMPOUND: C00018</p> </body> </html> </notes> <label text="pyridoxal 5'-phosphate"/> <bbox w="70.0" h="25.0" x="18489.834" y="12884.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa18_an_csa18" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="an_s186"/> <bbox w="100.0" h="120.0" x="6311.0" y="7700.5"/> <glyph class="macromolecule" id="s_id_an_sa162_an_sa162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HuR*"/> <bbox w="80.0" h="40.0" x="6321.0" y="7750.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_an_sa163_an_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="VEGFA"/> <bbox w="90.0" h="25.0" x="6316.0" y="7718.0"/> <glyph class="unit of information" id="_56634271-f6cd-48f1-b92f-ec6e1efe5b60"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6351.0" y="7713.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa293_emtc_em_sa293" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa293_emtc_em_sa293"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB7"/> <bbox w="60.0" h="20.0" x="5169.654" y="17722.5"/> <glyph class="unit of information" id="_16017996-969e-4dd6-b900-6d33e30e6204"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5189.654" y="17717.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2380_in_sa2380" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MRC1"/> <bbox w="70.0" h="25.0" x="10230.648" y="528.125"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa499_an_sa499" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21378271</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa499_an_sa499"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FYN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21378271"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FYN"/> <bbox w="80.0" h="40.0" x="4362.0" y="6235.0"/> <glyph class="state variable" id="_18d1d85c-dd37-4872-a4e6-5a75166822ce"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4434.5" y="6241.716"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa4_wnc1_wnc1_csa4" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha__sub_13q_endsub_*:G_beta_*:G_gamma_*:PAR1_sub_TRUNC_endsub_*:_beta_-Arrestin*</p> <p>References:</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa4_wnc1_wnc1_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(GPCR)"/> <bbox w="152.0" h="146.0" x="15202.561" y="17693.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa34_wnc1_wnc1_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="15260.061" y="17757.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa35_wnc1_wnc1_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="15301.061" y="17757.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa37_wnc1_wnc1_sa37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="15222.561" y="17772.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa48_wnc1_wnc1_sa48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin, beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>arrestin, beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2</p> <p>Map modules:</p> </body> </html> </notes> <label text="β-Arrestin*"/> <bbox w="80.0" h="40.0" x="15249.561" y="17779.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa32_wnc1_wnc1_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>coagulation factor II (thrombin) receptor</p> <p>HUGO:F2R HGNC:3537 ENTREZ:2149 UNIPROT:P25116 GENECARDS:F2R REACTOME:61310 KEGG:2149 ATLASONC:GC_F2R WIKI:F2R</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PAR1TRUNC*"/> <bbox w="80.0" h="40.0" x="15241.561" y="17707.0"/> <glyph class="unit of information" id="_54417e87-f982-46ee-b819-a6c1698ca1f2"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="15256.561" y="17702.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa33_wnc1_wnc1_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα13q*"/> <bbox w="50.0" h="20.0" x="15210.061" y="17757.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa358_wca1_wca3_sa358" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICALs_wca3_re125(MAP:survival):CBP-mediated transcription effects genes that are involved in stemm cell or progenitor cell maintenance and proliferationPMID:20920541Repressor complex is default present on the enhance of wnt-target genesPMID:16510874 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICALs_wca3_re125(MAP:survival):CBP-mediated transcription effects genes that are involved in stemm cell or progenitor cell maintenance and proliferationPMID:20920541Repressor complex is default present on the enhance of wnt-target genesPMID:16510874 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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x="26451.06" y="21566.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2277_in_sa2277" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP2"/> <bbox w="80.0" h="40.0" x="11600.0" y="6820.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa257_emtc_em_csa257" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NISCH:PAK1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:11121431</p> <p>PMID:15157156</p> <p>PMID:15229651</p> <p>Nischarin binds preferentially to the cytoplasmic tail of ITGA5 subunit ti inhibit cell migration.</p> <p>Nischarin is not found in focal adhesion sites.</p> <p>Once integrins enter into adhesion sites, Nischarin is released, allowing it to bind to the activated PAK1 in order to inactive PAK1..</p> <p>This binding is enhaced by active Rac1.</p> <p>The ability of Nischarin to inhibit PAK1 is related to its ability to inhibit cell motility.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa257_emtc_em_csa257"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11121431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15157156"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15229651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NISCH/PAK1"/> <bbox w="98.0" h="49.0" x="5520.0" y="15997.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1664_emtc_em_sa1664"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Nischarin</p> <p>HUGO:NISCH HGNC:18006 ENTREZ:11188 UNIPROT:Q9Y2I1 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:11121431</p> <p>PMID:15157156</p> <p>PMID:15229651</p> <p>Nischarin binds preferentially to the cytoplasmic tail of ITGA5 subunit ti inhibit cell migration.</p> <p>Nischarin is not found in focal adhesion sites.</p> <p>Once integrins enter into adhesion sites, Nischarin is released, allowing it to bind to the activated PAK1 in order to inactive PAK1..</p> <p>This binding is enhaced by active Rac1.</p> <p>The ability of Nischarin to inhibit PAK1 is related to its ability to inhibit cell motility.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NISCH"/> <bbox w="49.0" h="16.0" x="5523.5" y="16005.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1665_emtc_em_sa1665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>p21 protein (Cdc42/Rac)-activated kinase 1</p> <p>"p21/Cdc42/Rac1-activated kinase 1 (STE20 homolog, yeast)", "p21/Cdc42/Rac1-activated kinase 1 (yeast Ste20-related)"</p> <p>HUGO:PAK1 HGNC:8590 ENTREZ:5058 UNIPROT:Q13153</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PAK1"/> <bbox w="35.0" h="20.0" x="5577.5" y="16003.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa318_rc_csa318" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2-XL*:SIVA1</p> </body> </html> </notes> <label text="BCL2L1:SIVA1"/> <bbox w="100.0" h="120.0" x="23019.06" y="14069.0"/> <glyph class="macromolecule" id="s_id_rc_sa2873_rc_sa2873"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="23029.56" y="14078.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2872_rc_sa2872"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SIVA1, apoptosis-inducing factor</p> <p>HUGO:SIVA1 HGNC:17712 ENTREZ:10572 UNIPROT:O15304</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="SIVA1"/> <bbox w="80.0" h="40.0" x="23029.56" y="14121.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa297_mo_sa297" compartmentRef="s_id_mo_ca7_mo_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transferrin receptor </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</glyph> <glyph class="phenotype" id="s_id_rc_sa5426_rc_sa5426" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pyroptosis</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>the amino-terminal gasdermin D</p> <p>domain may oligomerize to form a membrane pore akin to</p> <p>how MLKL may act during necroptosis [80, 81]. Alternatively, the pyroptotic gasdermin D domain may induce cell</p> <p>lysis indirectly by damaging intracellular organelles that</p> <p>result in disruption of mitochondrial respiration and ATP</p> <p>synthesis</p> <p>PMID:27066895</p> <p>PMID:27984721</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5426_rc_sa5426"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1771_emtc_em_sa1771"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHUK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHUK"/> <clone/> <bbox w="40.0" h="16.0" x="2089.0" y="16154.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1771_rc_sa3041" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1771_rc_sa3041"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHUK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHUK"/> <clone/> <bbox w="80.0" h="40.0" x="23504.06" y="9294.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa119_rc_sa119" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="rc_s398"/> <bbox w="30.0" h="30.0" x="19071.06" y="15066.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1547_in_sa1547" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 16597464, 11399519, 18345002, 10820262, 12417340 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSTIMULATORY</p> <p>CASCADE:IL2, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNG, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:11399519</p> <p>STAT1, IRF1 and NF-kB interact with NOS2 promoter and cooperatively activate NOS2 expression in macrophages downstteam of IFNG.</p> <p>PMID:10820262</p> <p>Probably IFNG induces SOCS1 expressiov via IRF1 upregulation downstream of STAT1</p> <p>PMID:18345002</p> <p>TNF induces IRF1 expression both through TNFR1 and TNFR2.</p> <p>TNF induced IFNB expression through IRF1</p> <p>PMID:12417340</p> <p>IRF-8/ICSBP and IRF-1 cooperatively stimulate mouse IL-12 p40 promoter activity in macrophages.</p> <p>IRF-1 can be acetylated by p300. p300 is recruited to the IL-12p40 promoter depending on both ICSBP and IRF-1</p> <p>and acts as coactivator.</p> <p>PMID:16597464</p> <p>IRF-8 and IRF-1 are the target genes in activated macrophages.</p> <p>The expression levels of CXCL16, H28, IL-17R, LIF, MAP4K4, MMP9, MYC, PCDH7, PML, and SOCS7 were significantly increased in macrophages</p> <p>extracted form WT mice following activation</p> <p>for 4 h with IFNG and LPS. However, no changes in the expression of these genes were observed in cells extracted from IRF-8,</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1547_in_sa1547"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16597464"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11399519"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18345002"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10820262"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12417340"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRF1"/> <bbox w="80.0" h="40.0" x="18675.0" y="4685.0"/> <glyph class="state variable" id="_09a2a871-b04b-4525-b2e4-3dc8482eaa87"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18670.0" y="4700.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa529_in_sa529" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PI4,5-P2"/> <bbox w="70.0" h="25.0" x="13715.0" y="3137.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa16_wca1_wca2_csa16" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGA3:TGFB1:TGFBR*:_beta_-Catenin*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re37:(MAP:survival) PMID:19171760</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa16_wca1_wca2_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:ITGA3:TGFB1:TGFBR*:β-Catenin*:p120*"/> <bbox w="202.0" h="249.0" x="23081.06" y="18852.5"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa94_wca1_wca2_sa94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 GENECARDS:TGFB1 REACTOME:65937 KEGG:7040 ATLASONC:GC_TGFB1 WIKI:TGFB1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:emtcellmotility / MODULE:ECM</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="52.0" h="29.0" x="23156.06" y="19005.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa89_wca1_wca2_sa89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin alpha 3 (antigen CD49C alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143" MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006 GENECARDS:ITGA3 REACTOME:57565 KEGG:3675 ATLASONC:GC_ITGA3 WIKI:ITGA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_MATRIX_ADHESIONS</p> </body> </html> </notes> <label text="ITGA3"/> <bbox w="80.0" h="40.0" x="23163.06" y="18864.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa92_wca1_wca2_sa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23194.06" y="18957.5"/> <glyph class="state variable" id="_9737191c-80ec-4ed3-8112-59d1fc826e54"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="23181.56" y="18992.22"/> </glyph> <glyph class="state variable" id="_6e0b1c8b-ba23-413f-b8ff-924ade1aa306"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23259.06" y="18952.713"/> </glyph> <glyph class="state variable" id="_7967487d-f6b4-47a1-88fa-3de375663860"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23179.553" y="18952.5"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="23103.06" y="18910.5"/> <glyph class="state variable" id="_7eefce57-beac-447d-9c92-a6aaebeee78b"> <state value="P" variable="S840"/> <bbox w="35.0" h="10.0" x="23085.93" y="18946.5"/> </glyph> <glyph class="state variable" id="_e1a054d8-16bd-4801-86a7-2bac478a541e"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="23204.08" y="18946.5"/> </glyph> <glyph class="state variable" id="_1da19bec-63a8-4322-804b-8d97c60e3a60"> <state value="P" variable="S849"/> <bbox w="35.0" h="10.0" x="23087.521" y="18905.5"/> </glyph> <glyph class="state variable" id="_7b927ba4-2ec2-41b5-93d4-244e42c3a201"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23221.06" y="18905.5"/> </glyph> <glyph class="state variable" id="_61c2a5fb-22e9-43df-9e53-fc18dec14c03"> <state value="P" variable="S853"/> <bbox w="35.0" h="10.0" x="23208.56" y="18905.719"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa95_wca1_wca2_sa95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897 GENECARDS:TGFBR1 REACTOME:65969 KEGG:7046 ATLASONC:GC_TGFBR1 WIKI:TGFBR1 </p> <p>transforming growth factor beta receptor 2</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173 GENECARDS:TGFBR2 REACTOME:65971 KEGG:7048 ATLASONC:GC_TGFBR2 WIKI:TGFBR2 </p> <p>transforming growth factor beta receptor 3</p> <p>HUGO:TGFBR3 HGNC:11774 ENTREZ:7049 UNIPROT:Q03167 GENECARDS:TGFBR3 KEGG:7049 ATLASONC:TGFBR3ID42541ch1p33 WIKI:TGFBR3</p> <p>Map modules:</p> </body> </html> </notes> <label text="TGFBR*"/> <bbox w="80.0" h="50.0" x="23143.06" y="19014.5"/> <glyph class="unit of information" id="_e8678a1f-9bc4-4483-98a3-3def0d864262"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23160.56" y="19009.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa91_wca1_wca2_sa91"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="23099.06" y="18958.5"/> <glyph class="state variable" id="_b9602cc0-751d-4c8b-86e9-880e9a0fbc26"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="23084.553" y="18953.5"/> </glyph> <glyph class="state variable" id="_e414cc58-3a90-48bd-8006-81765518b335"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="23124.092" y="18953.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa60_ce_csa60" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CUL1:RBX1:SKP1:SKP2:_beta_TRCP*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>FANCM is phosphorylated by PLK1 and ubiquitinated by beta-TRCP (in the SCF complex) in response to G2/M checkpoint. Phosphorylated FANCM is degraded and FANCONI pathway is inhibited during mitosis. </p> <p>PMID:19270156, PMID:19686080, PMID:15459660</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa60_ce_csa60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19270156"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BTRC/CUL1/RBX1/SKP1/SKP2"/> <bbox w="168.0" h="163.0" x="10597.473" y="9564.356"/> <glyph class="macromolecule" id="s_id_ce_sa631_ce_sa631"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>beta-transducin repeat containing</p> <p>HUGO:BTRC, HGNC:1144, ENTREZ:8945, UNIPROT:Q9Y297</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>FANCM is phosphorylated by PLK1 and ubiquitinated by beta-TRCP (in the SCF complex) in response to G2/M checkpoint. </p> <p>Phosphorylated FANCM is degraded and FANCONI pathway is inhibited during mitosis. </p> <p>PMID:19270156, PMID:19686080</p> <p>For checkpoint</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="10645.182" y="9574.66"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa633_ce_sa633"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 1</p> <p>HUGO:CUL1, HGNC:2551, ENTREZ:8454, UNIPROT:Q13616</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>Regulates Fanconi pathway in cell cycle dependent manner</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For checkpoint</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="10601.182" y="9663.66"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa632_ce_sa632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1, HGNC:10899, ENTREZ:6500, UNIPROT:P63208</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>Regulates Fanconi pathway in cell cycle dependent manner</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For checkpoint</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="10603.182" y="9621.66"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa634_ce_sa634"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1</p> <p>HUGO:RBX1, HGNC:9928, ENTREZ:9978, UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:NER, MODULE:FANCONI</p> <p>References:</p> <p>PMID:15459660</p> <p>For NER pathway:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For Fanconi pathway:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="10684.942" y="9663.367"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1114_ce_sa1114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2, HGNC:10901, ENTREZ:6502, UNIPROT:Q13309</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="SKP2"/> <bbox w="80.0" h="40.0" x="10684.668" y="9620.38"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa10_shh1_shh3_csa10" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*:p101*:p110_beta__gamma_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re10(MAP:survival):</p> <p>PMID:12297047</p> <p>PMID:16847462</p> <p>s_wnc1_re31:(MAP:survival) PMID:21736902</p> <p>s_shh3_re21(MAP:survival):</p> <p>PMID:11955434</p> <p>:Activation of P-Rex can be synergistically by PIP3 and Gi-proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa10_shh1_shh3_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297047"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16847462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21736902"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955434"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Giβgamma_dimer_PI3K)"/> <bbox w="184.0" h="123.0" x="26318.06" y="23022.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa55_shh1_shh3_sa55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="80.0" h="40.0" x="26412.56" y="23072.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa53_shh1_shh3_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta</p> <p>"phosphoinositide-3-kinase, catalytic, beta polypeptide", PIK3C1</p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma</p> <p>"phosphoinositide-3-kinase, catalytic, gamma polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p110βγ*"/> <bbox w="80.0" h="40.0" x="26329.56" y="23072.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa54_shh1_shh3_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="80.0" h="40.0" x="26412.56" y="23032.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa52_shh1_shh3_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Phosphoinositide-3-kinase, regulatory subunit 5, p101</p> <p>HUGO:PIK3R5 HGNC:30035 ENTREZ:23533 UNIPROT:Q8WYR1 GENECARDS:PIK3R5 REACTOME:242723 KEGG:23533 ATLASONC:GC_PIK3R5 WIKI:PIK3R5 </p> <p>phosphoinositide-3-kinase, regulatory subunit 5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p101*"/> <bbox w="80.0" h="40.0" x="26329.56" y="23032.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa239_wnc1_wnc2_sa239" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa239_wnc1_wnc2_sa239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ASK1*"/> <bbox w="80.0" h="40.0" x="17453.06" y="18459.0"/> <glyph class="state variable" id="_3f4cd7f1-f3fa-494c-92dc-18d1c917a33c"> <state value="" variable="S967"/> <bbox w="30.0" h="10.0" x="17443.734" y="18454.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa88_emtc_em_sa88" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa88_emtc_em_sa88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZO3*"/> <bbox w="40.0" h="20.0" x="1634.5" y="15086.36"/> </glyph> <glyph class="complex" id="s_id_rc_csa210_rc_csa210" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BBC3:MCL1</p> </body> </html> </notes> <label text="BBC3:MCL1"/> <bbox w="100.0" h="120.0" x="22209.06" y="13689.0"/> <glyph class="macromolecule" id="s_id_rc_sa1665_rc_sa1665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>synonym:PUMA</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="80.0" h="40.0" x="22221.06" y="13698.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1664_rc_sa1664"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid cell leukemia sequence 1 (BCL2-related)</p> <p>HUGO:MCL1 HGNC:6943 ENTREZ:4170 UNIPROT:Q07820</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="MCL1"/> <bbox w="80.0" h="40.0" x="22219.06" y="13749.0"/> <glyph class="state variable" id="_4f217ddf-90e9-423e-b6e7-0445af1eb002"> <state value="?" variable="S159"/> <bbox w="35.0" h="10.0" x="22220.225" y="13744.0"/> </glyph> <glyph class="state variable" id="_cb44ac97-4e14-4824-8ba4-0b500cd5b6ef"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22274.055" y="13744.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1508_in_sa1508" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11964313 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:TLR2_4, CASCADE:IFNG</p> <p>References:</p> <p>PMID:11964313</p> <p>INFG upregulates expression components of TLR signaling: MD2 (LY96) and MYD88.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1508_in_sa1508"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11964313"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LY96"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LY96"/> <bbox w="80.0" h="40.0" x="23420.0" y="1495.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa47_wnc1_wnc2_csa47" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PKA_C*:PKA_R*</p> <p>References:</p> <p>s_wnc2_re85(MAP:survival):</p> <p>S272 and S89 are PKA sites in NFAT3</p> <p>PMID:10611249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa47_wnc1_wnc2_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10611249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PKA)"/> <bbox w="110.0" h="92.0" x="19101.06" y="19396.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa261_wnc1_wnc2_sa260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <bbox w="45.0" h="25.0" x="19110.06" y="19436.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa258_wnc1_wnc2_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <bbox w="45.0" h="25.0" x="19108.06" y="19407.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa261_wnc1_wnc2_sa261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <bbox w="45.0" h="25.0" x="19158.06" y="19436.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa258_wnc1_wnc2_sa259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <bbox w="45.0" h="25.0" x="19155.06" y="19407.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5057_rc_sa5057" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3461_rc_sa3461"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NBN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="17901.56" y="16614.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa40_akt1_akt2_csa40" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO4</p> </body> </html> </notes> <label text="14-3-3*:FOXO4"/> <bbox w="100.0" h="120.0" x="11883.061" y="21668.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa242_akt1_akt2_sa242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="21442.5" y="4069.5"/> <glyph class="unit of information" id="_d82c1ebb-67b8-4108-966f-9aed650dcc05"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21457.5" y="4064.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2049_in_sa2049"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="21440.0" y="4021.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa958_emtc_em_sa958" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa958_emtc_em_sa958"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNAI1"/> <bbox w="50.0" h="20.0" x="3219.5" y="14564.0"/> <glyph class="state variable" id="_af4c29eb-fce7-496c-b380-abb4d0d6b0fe"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3212.0" y="14560.022"/> </glyph> <glyph class="state variable" id="_702d6deb-6207-4e92-8539-5952505bb3df"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3264.5" y="14560.051"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1356_rc_sa1356" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1356_rc_sa1356"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="N1ICD*"/> <bbox w="80.0" h="40.0" x="22969.06" y="17129.0"/> <glyph class="unit of information" id="_97bc0a77-6187-46f3-8d29-5dd95c8e1e86"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22984.06" y="17124.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa331_rc_csa331" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DHODH:FMN</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="DHODH"/> <bbox w="92.0" h="98.0" x="18157.31" y="13485.0"/> <glyph class="macromolecule" id="s_id_rc_sa2991_rc_sa2991"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydroorotate dehydrogenase (quinone)</p> <p>HUGO:DHODH HGNC:2867 ENTREZ:1723 UNIPROT:Q02127</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="DHODH"/> <bbox w="80.0" h="40.0" x="18165.31" y="13495.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2992_rc_sa2992"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17621</p> <p>KEGGCOMPOUND:C00061</p> </body> </html> </notes> <label text="FMN"/> <bbox w="70.0" h="25.0" x="18170.31" y="13532.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa590_ca_sa590" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF References:CASCADE:INTEGRINPMID:18353785; PMID:10964912,PMID:22470492 TGFB upregulates ITGB5 expression via SMAD Pathway ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF References:CASCADE:INTEGRINPMID:18353785; PMID:10964912,PMID:22470492 TGFB upregulates ITGB5 expression via SMAD Pathway </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa590_ca_sa590"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18353785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10964912"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18353785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10964912"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB5"/> <bbox w="90.0" h="25.0" x="7235.0" y="2857.5"/> <glyph class="unit of information" id="_1f1175e7-7d24-4c55-ae20-55d02f676270"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="7270.0" y="2852.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa2_ce_csa2" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EXO1:PCNA:RFC*:RPA1:RPA2:RPA3:hMutL*:hMutS*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="EXO1/hMutL*/hMutS*/PCNA/RFC*/RPA1/RPA2/RPA3"/> <bbox w="288.0" h="171.0" x="11124.473" y="15843.356"/> <glyph class="macromolecule" id="s_id_ce_sa1253_ce_sa1253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hMutL* </p> <p>Node_Type:Generic</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="hMutL*"/> <bbox w="80.0" h="40.0" x="11136.575" y="15851.497"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa371_ce_sa371"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="11311.354" y="15895.58"/> <glyph class="state variable" id="_8a7306a0-0430-4633-9726-3f230423f0b5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11306.354" y="15910.58"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1254_ce_sa1254"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hMutS* </p> <p>Node_Type:Generic</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="hMutS*"/> <bbox w="80.0" h="40.0" x="11217.575" y="15850.497"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa368_ce_sa368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exonuclease 1</p> <p>HUGO:EXO1, HGNC:3511, ENTREZ:9156, UNIPROT:Q9UQ84</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:14676842, PMID:15474417, PMID:18756267, PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:19490890, PMID:11438669, PMID:20019063, PMID:18048416</p> </body> </html> </notes> <label text="EXO1"/> <bbox w="80.0" h="40.0" x="11225.818" y="15893.769"/> <glyph class="state variable" id="_28e8c7fc-294d-4435-a8bc-f352e0b84926"> <state value="" variable="S692"/> <bbox w="30.0" h="10.0" x="11267.768" y="15888.769"/> </glyph> <glyph class="state variable" id="_58c8ae99-cc9b-4f98-8b25-dd6a8f44d40f"> <state value="" variable="S567"/> <bbox w="30.0" h="10.0" x="11210.818" y="15892.773"/> </glyph> <glyph class="state variable" id="_fb1a34dc-ccd8-4de2-952c-a71084c86e8b"> <state value="" variable="S587"/> <bbox w="30.0" h="10.0" x="11210.818" y="15906.762"/> </glyph> <glyph class="state variable" id="_098855b1-c814-4aa2-9e4c-49f02eadb222"> <state value="" variable="S372"/> <bbox w="30.0" h="10.0" x="11210.818" y="15925.039"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa369_ce_sa369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="11309.836" y="15852.922"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa367_ce_sa367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="11224.473" y="15941.356"/> <glyph class="state variable" id="_54b24488-5e0b-41dc-9088-47718fafaf75"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="11209.473" y="15956.356"/> </glyph> <glyph class="state variable" id="_48e9a383-f715-4c73-bd92-4dc68265cabe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11219.474" y="15976.356"/> </glyph> <glyph class="state variable" id="_fbfea4bb-1fdd-4de6-b714-8181404fab95"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11242.904" y="15976.356"/> </glyph> <glyph class="state variable" id="_ddc02230-5b0f-4775-9714-62c255d4099b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11259.473" y="15976.356"/> </glyph> <glyph class="state variable" id="_30726650-73a1-4ccc-bb56-c5a1d8c80d7e"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="11213.457" y="15936.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa370_ce_sa370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="11313.836" y="15936.922"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa366_ce_sa366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C (activator 1) 1, 145kDa</p> <p>HUGO:RFC1, HGNC:9969, ENTREZ:5981, UNIPROT:P35251</p> <p>replication factor C (activator 1) 2, 40kDa</p> <p>HUGO:RFC2, HGNC:9970, ENTREZ:5982, UNIPROT:P35250</p> <p>replication factor C (activator 1) 3, 38kDa</p> <p>HUGO:RFC3, HGNC:9971, ENTREZ:5983, UNIPROT:P40938</p> <p>replication factor C (activator 1) 4, 37kDa</p> <p>HUGO:RFC4, HGNC:9972, ENTREZ:5984, UNIPROT:P35249</p> <p>replication factor C (activator 1) 5, 36.5kDa</p> <p>HUGO:RFC5, HGNC:9973, 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x="10802.25" y="3890.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2479_in_sa2476" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PPARG"/> <clone/> <bbox w="80.0" h="40.0" x="10797.25" y="3801.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1184_rc_sa1184" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1184_rc_sa1184"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <clone/> <bbox w="80.0" h="40.0" x="23641.56" y="16564.0"/> <glyph class="state variable" id="_a835b5f4-a1c4-47b0-b712-6a82ea1f370b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23693.129" y="16559.0"/> </glyph> <glyph class="state variable" id="_b96f2948-39df-4de0-89e2-cb4d0ebcc0e8"> <state value="" variable="N803"/> <bbox w="30.0" h="10.0" x="23649.062" y="16599.0"/> </glyph> <glyph class="state variable" id="_e0638c98-15c1-4480-a8c9-a95c16774e09"> <state value="" variable="P564"/> <bbox w="30.0" h="10.0" x="23650.156" y="16559.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1184_rc_sa3583" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1184_rc_sa3583"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <clone/> <bbox w="80.0" h="40.0" x="22984.06" y="16394.0"/> <glyph class="state variable" id="_0c27fc5f-e114-4e30-a658-4f1b7183099e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23035.629" y="16389.0"/> </glyph> <glyph class="state variable" id="_000c749a-a21d-4f3c-9b3e-438f314ee17e"> <state value="" variable="N803"/> <bbox w="30.0" h="10.0" x="22991.562" y="16429.0"/> </glyph> <glyph class="state variable" id="_1369ee68-9641-4244-b3c1-6d53561f147c"> <state value="" variable="P564"/> <bbox w="30.0" h="10.0" x="22992.656" y="16389.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1429_in_sa1429"> <label text="CALR"/> <bbox w="80.0" h="40.0" x="15620.0" y="1070.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa512_in_sa512" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PI3KR(p85)*"/> <clone/> <bbox w="80.0" h="40.0" x="17275.0" y="3300.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa512_in_sa513" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PI3KR(p85)*"/> <clone/> <bbox w="80.0" h="40.0" x="17275.0" y="3200.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2809_rc_sa2809" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17677</p> </body> </html> </notes> <label text="CTP"/> <bbox w="55.0" h="23.0" x="19391.56" y="12007.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa444_in_sa444" compartmentRef="s_id_in_ca12_in_ca12"> <label text="BCAR1"/> <clone/> <bbox w="80.0" h="40.0" x="15350.0" y="4050.0"/> <glyph class="state variable" id="_adec28ec-b3f2-4029-a8a9-cb7bbf5df80f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15345.0" y="4065.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa444_in_sa2262" compartmentRef="s_id_in_ca12_in_ca12"> <label text="BCAR1"/> <clone/> <bbox w="80.0" h="40.0" x="16450.0" y="3310.0"/> <glyph class="state variable" id="_9bd5ed1e-b952-4349-8c2d-37a09b50741f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16445.0" y="3325.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa400_mpk1_mpk1_sa400" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa400_mpk1_mpk1_sa400"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K7"/> <bbox w="62.0" h="25.0" x="10559.057" y="19999.0"/> <glyph class="state variable" id="_9ee6cfa7-2706-41ba-be7a-90d30b541ca4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10554.057" y="20010.82"/> </glyph> <glyph class="state variable" id="_b1e14a46-e6b0-4aad-813f-a8079d452cd6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10554.057" y="20002.18"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa466_in_sa466" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LCP2"/> <bbox w="80.0" h="40.0" x="20425.0" y="2410.0"/> <glyph class="state variable" id="_e6b03531-259b-4d56-a92a-63b2e784112e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="20417.5" y="2425.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2132_in_sa2132" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CEBPB"/> <bbox w="80.0" h="40.0" x="13200.0" y="4516.875"/> <glyph class="state variable" id="_021fc0b3-9833-4677-b90f-9464d432ea41"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13192.5" y="4531.8433"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa5503_rc_sa5503" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa123_wnc1_wnc4_sa123"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8TRUNC*"/> <bbox w="80.0" h="40.0" x="18195.06" y="20802.0"/> <glyph class="unit of information" id="_16121e7d-cdb1-4ba2-89b4-bd49cc961b7e"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18210.06" y="20797.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa96_in_csa96" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s1115"/> <bbox w="100.0" h="120.0" x="17070.0" y="3590.0"/> <glyph class="simple chemical" id="s_id_in_sa2103_in_sa2103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="17085.0" y="3657.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa682_in_sa682"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3458_rc_sa3458"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDC1"/> <bbox w="80.0" h="40.0" x="18368.4" y="16877.656"/> <glyph class="state variable" id="_729375e5-e49a-4d7f-b460-ccc7bb142ed4"> <state value="P" variable="Nter-SDT-motifs"/> <bbox w="80.0" h="10.0" x="18350.902" y="16912.656"/> </glyph> <glyph class="state variable" id="_7d33d684-aca6-4539-af2a-6dbfb609e2a3"> <state value="" variable="T699"/> <bbox w="30.0" h="10.0" x="18376.996" y="16872.656"/> </glyph> <glyph class="state variable" 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to nucleus signalling 1"</p> <p>HUGO:ERN1 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>ER stress lead to the oligomerisation and activation of mammalian Ire1p (ERN1). ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="ERN1"/> <bbox w="50.0" h="25.0" x="10359.557" y="19023.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa455_mpk1_mpk1_sa455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. 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id="_006cffc8-56cc-449f-8ed4-6ea29e748ff8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16549.129" y="20778.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1222_ad_sa1222" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTSPMID:12796776expression of BTLA mRNA is partially dependent on STAT1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTSPMID:12796776expression of BTLA mRNA is partially dependent on STAT1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1222_ad_sa1222"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BTLA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12796776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BTLA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12796776"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BTLA"/> <bbox w="90.0" h="25.0" x="26111.0" y="2877.5"/> <glyph class="unit of information" id="_11cae29e-bc09-4fe8-aa98-f19ee9d2326b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26146.0" y="2872.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa86_rc_csa86" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:14-3-3*:RPTOR</p> </body> </html> </notes> <label text="14-3-3:RPTOR"/> <bbox w="100.0" h="120.0" x="26198.059" y="10885.326"/> <glyph class="macromolecule" id="s_id_rc_sa1096_rc_sa1096"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="26207.559" y="10940.326"/> <glyph class="state variable" id="_01e6066c-6fc5-4090-bbd0-ea362af22264"> <state value="P" variable="S722"/> <bbox w="35.0" h="10.0" x="26213.654" y="10935.326"/> </glyph> <glyph class="state variable" id="_8bac869f-5ea4-4324-b5db-b6b0be9f3f00"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26225.99" y="10975.326"/> </glyph> <glyph class="state variable" id="_0b045dab-2287-4296-a48d-df77ac32d87f"> <state value="P" variable="S792"/> <bbox w="35.0" h="10.0" x="26247.008" y="10935.326"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1097_rc_sa1097"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="26207.059" y="10896.326"/> <glyph class="state variable" id="_cb29f487-46d8-4ccc-8542-f9535fcbd310"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="26256.156" y="10891.326"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa36_ce_sa36" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa36_ce_sa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERCC4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XPF*"/> <bbox w="80.0" h="40.0" x="8398.88" y="16171.067"/> </glyph> <glyph class="complex" id="s_id_rc_csa205_rc_csa205" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BBC3:BCL2L2</p> </body> </html> </notes> <label text="BBC3:BCL2L2"/> <bbox w="98.0" h="120.0" x="22201.31" y="13409.0"/> <glyph class="macromolecule" id="s_id_rc_sa1655_rc_sa1655"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>synonym:PUMA</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="80.0" h="40.0" x="22209.06" y="13419.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1654_rc_sa1654"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 2</p> <p>HUGO:BCL2L2 HGNC:995 ENTREZ:599 UNIPROT:Q92843</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL-W</p> </body> </html> </notes> <label text="BCL2L2"/> <bbox w="80.0" h="40.0" x="22209.06" y="13469.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa18_ce_sa18" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0BER:B-glyc:DNA:st3DNA with 3'ddR5P DNA with ssbNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0BER:B-glyc:DNA:st3DNA with 3'ddR5P DNA with ssbNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER </body> </html> </notes> <label text="BER_B-glyc_DNA_st3*"/> <bbox w="150.0" h="26.0" x="9082.643" y="16120.559"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3055_rc_sa3055" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16027 KEGGCOMPOUND:C00020 CAS:61-19-8</p> </body> </html> </notes> <label text="AMP"/> <bbox w="70.0" h="25.0" x="23408.06" y="14828.25"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1270_in_sa1270" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL7"/> <bbox w="70.0" h="25.0" x="14325.0" y="2612.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2379_rc_sa2379" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2379_rc_sa2379"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPARGC1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPARGC1A"/> <bbox w="80.0" h="40.0" x="18781.56" y="16054.0"/> <glyph class="state variable" id="_bbf3fe82-9f0b-48bb-b177-6d0e544b2ce4"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="18828.129" y="16049.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa79_akt1_akt2_sa79" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa79_akt1_akt2_sa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UHMK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KIS*"/> <bbox w="80.0" h="40.0" x="12860.061" y="20484.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2663_in_sa2663" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Adenylyl_cyclase*"/> <clone/> <bbox w="80.0" h="40.0" x="12430.0" y="3320.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2663_in_sa2662" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Adenylyl_cyclase*"/> <clone/> <bbox w="80.0" h="40.0" x="12430.0" y="3420.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa389_rc_csa389" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DR4/5*:FADD:TRAIL*</p> <p>References:</p> <p>20531300</p> <p>19090789</p> <p>8777713</p> <p>8663110</p> <p>TRAIL*:DR4/5*:FADD</p> <p>17914579</p> <p>Palmitoylation of the TRAIL receptor DR4 confers an efficient TRAIL-induced cell death signalling</p> <p>17767167</p> </body> </html> </notes> <label text="DR4/5*:FADD:TRAIL*"/> <bbox w="210.0" h="148.0" x="24334.06" y="9085.25"/> <glyph class="macromolecule" id="s_id_rc_sa3845_rc_sa3851"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="24454.06" y="9112.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3847_rc_sa3853"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24374.06" y="9157.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3846_rc_sa3849"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="24444.06" y="9147.75"/> <glyph class="state variable" id="_668687c0-7112-4acb-8d7c-b4a58739fd53"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="24516.56" y="9167.75"/> </glyph> <glyph class="state variable" id="_22dba8f4-5ad8-4ec8-8e79-6f60627ba9c7"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="24474.06" y="9192.75"/> </glyph> <glyph class="unit of information" id="_318a0395-692b-47da-9b49-601dd2e8b2f2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24461.56" y="9142.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3846_rc_sa3846"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="24434.06" y="9137.75"/> <glyph class="state variable" id="_3ce20eee-41d1-462f-b10d-fb9222be72b5"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="24506.56" y="9157.75"/> </glyph> <glyph class="state variable" id="_f1d53b70-4b58-4959-8968-6a1b69087c01"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="24464.06" y="9182.75"/> </glyph> <glyph class="unit of information" id="_3a03ac71-0c24-4c4e-b0de-f225220708df"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24451.56" y="9132.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3846_rc_sa3852"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="24454.06" y="9157.75"/> <glyph class="state variable" id="_b949f5e9-0765-4e27-8416-3843e6f0e54d"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="24526.56" y="9177.75"/> </glyph> <glyph class="state variable" id="_5fd77524-3cbc-4fbe-bfdc-a0990798a591"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="24484.06" y="9202.75"/> </glyph> <glyph class="unit of information" id="_13433158-6c36-4efb-b310-e0256d3a9e64"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24471.56" y="9152.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3847_rc_sa3847"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24354.06" y="9137.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3845_rc_sa3845"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="24434.06" y="9092.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3847_rc_sa3850"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24364.06" y="9147.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3845_rc_sa3848"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="24444.06" y="9102.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa545_wca1_wca1_sa545" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa545_wca1_wca1_sa545"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAF*"/> <bbox w="80.0" h="40.0" x="20579.06" y="19714.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa959_ca_sa959" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF References:PMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsPGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression.PMID:21209948 PGE2 can induce IL-6 expression in fibroblasts through EP2 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF References:PMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsPGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression.PMID:21209948 PGE2 can induce IL-6 expression in fibroblasts through EP2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa959_ca_sa959"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGER2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25916550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGER2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25916550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209948"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTGER2"/> <bbox w="70.0" h="25.0" x="1005.0" y="1997.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa729_rc_sa729" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa729_rc_sa729"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2A1"/> <bbox w="80.0" h="40.0" x="24079.06" y="15879.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa57_wnc1_wnc1_csa57" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DACT1:VANGL*</p> <p>References:</p> <p>s_wnc1_re91(MAP:survival):</p> <p>PMID:19701191</p> <p>Dac1 primarly functions in beta-catenin-independent MODULEs</p> <p>PMID:21718540</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa57_wnc1_wnc1_csa57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19701191"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21718540"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DACT1:VANGL*"/> <bbox w="100.0" h="120.0" x="16329.061" y="18426.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa463_wnc1_wnc1_sa463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dapper antagonist of beta-catenin homolog 1 (Xenopus laevis)</p> <p>"dapper homolog 1 antagonist of beta-catenin (xenopus)"</p> <p>HUGO:DACT1 HGNC:17748 ENTREZ:51339 UNIPROT:Q9NYF0 GENECARDS:DACT1 KEGG:51339 ATLASONC:GC_DACT1 WIKI:DACT1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="DACT1"/> <bbox w="80.0" h="40.0" x="16339.561" y="18440.0"/> <glyph class="state variable" id="_6db49dc3-9d79-403a-8411-77d194d4ca6b"> <state value="" variable="S237"/> <bbox w="30.0" h="10.0" x="16325.053" y="18435.0"/> </glyph> <glyph class="state variable" id="_d09f90d8-c579-4426-9120-7675e503306d"> <state value="" variable="S827"/> <bbox w="30.0" h="10.0" x="16403.941" y="18475.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa464_wnc1_wnc1_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16340.561" y="18483.0"/> <glyph class="state variable" id="_5c5548f7-224e-48fc-bf3a-4a94030283d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16335.564" y="18478.0"/> </glyph> <glyph class="state variable" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1592_ce_sa1592"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WRN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WRN"/> <bbox w="80.0" h="40.0" x="14654.587" y="16968.408"/> <glyph class="state variable" id="_fbaee999-37d8-40c6-a57a-4a56b40410ca"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="14685.835" y="16963.408"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa30_in_csa30" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MHC_class_II*:Tumor_antigen_fragment"/> <bbox w="120.0" h="140.0" x="21030.0" y="7740.0"/> <glyph class="macromolecule" id="s_id_in_sa182_in_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MHC_class_II*"/> <bbox w="80.0" h="40.0" x="21040.0" y="7820.0"/> <glyph class="state variable" id="_0266e243-eec9-4113-8e09-bc15e5000344"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="21030.0" y="7835.0"/> </glyph> <glyph class="unit of information" id="_c03f0285-ff60-4fdd-91a1-49767f230c54"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21057.5" y="7815.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa183_in_sa183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Tumor_antigen_fragment"/> <bbox w="80.0" h="40.0" x="21050.0" y="7760.0"/> <glyph class="unit of information" id="_20337160-8818-4a8e-951a-d44ceaf5ee4a"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21065.0" y="7755.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1008_ca_sa1008" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CASCADE:GAST</p> <p>PMID:23523669 </p> <p>Progastrin-induced secretion of insulin-like growth factor 2 from colonic myofibroblasts stimulates colonic epithelial proliferation in mice.</p> <p> Incubation of CCD18Co myofibroblasts with 0.1 nmol/L rhPG(1-80) increased their proliferation, which required activation of protein kinase C and phosphatidylinositol-3 kinase.</p> <p>http://cancerres.aacrjournals.org/content/75/1_Supplement/B16.short</p> <p>Progastrin activates colon fibroblasts and participates to the dialogue between tumor epithelial cells and stromal fibroblasts in colorectal cancer</p> <p>PMID:24584707</p> <p>A network map of the gastrin signaling pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<p>PMID:21602792 </p> <p>In presence of WNT ligand</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa58_wca1_wca1_csa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21602792"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JBN*:β-Catenin*"/> <bbox w="100.0" h="120.0" x="20630.06" y="18649.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa543_wca1_wca1_sa543"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Abelson helper integration site 1</p> <p>HUGO:AHI1 HGNC:21575 ENTREZ:54806 UNIPROT:Q8N157 GENECARDS:AHI1 KEGG:54806 ATLASONC:GC_AHI1 WIKI:AHI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19718039</p> </body> </html> </notes> <label text="JBN*"/> <bbox w="80.0" h="40.0" x="20641.06" y="18707.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa542_wca1_wca1_sa542"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20641.31" y="18664.0"/> <glyph class="state variable" id="_933a3973-0d6b-4f12-8fac-ca14034876cf"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20706.31" y="18659.213"/> </glyph> <glyph class="state variable" id="_88b3bf95-6b8b-4e89-870e-615363587f2b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20655.527" y="18659.0"/> </glyph> <glyph class="state variable" id="_f0467197-968e-4f49-a778-05c0475ca734"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20626.803" y="18659.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17588</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5310_rc_sa5310"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label 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id="s_id_mo_sa200_mo_sa200" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine phosphatase type IVA, member 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa200_mo_sa200"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa200_mo_sa215"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP4A3"/> <clone/> <bbox w="80.0" h="40.0" x="4437.0" y="11565.0"/> <glyph class="state variable" id="_38a2899f-56df-439e-b18f-ccd374609635"> <state value="" variable="Y53"/> <bbox w="25.0" h="10.0" x="4481.0684" y="11560.0"/> </glyph> <glyph class="state variable" id="_06b2cacb-c1f2-46ce-92a4-34faa7be8409"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4432.0" y="11571.716"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3499_rc_sa3499" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3499_rc_sa3499"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST2H2AC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="H2A*"/> <bbox w="80.0" h="40.0" x="18879.06" y="16669.0"/> <glyph class="state variable" id="_1ed0a046-68bf-40fa-93ba-1d58281c9807"> <state value="K63ubi" variable=""/> <bbox w="40.0" h="10.0" x="18899.06" y="16664.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa231_emtc_em_csa231" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:WASF2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Actin/WASF2"/> <bbox w="126.0" h="77.0" x="6355.0" y="15396.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1500_emtc_em_sa1500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WAS protein family, member 2</p> <p>HUGO:WASF2 HGNC:12733 ENTREZ:10163 UNIPROT:Q9Y6W5</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="WASF2"/> <bbox w="47.0" h="21.0" x="6393.5" y="15429.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1499_emtc_em_sa1499"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2079_em_sa2079"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIM*"/> <clone/> <bbox w="70.0" h="25.0" x="4776.0" y="14486.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2079_rc_sa4591" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2079_rc_sa4591"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIM*"/> <clone/> <bbox w="70.0" h="25.0" x="21013.56" y="16214.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2870_in_sa2870" compartmentRef="s_id_in_ca47_in_ca47"> <label text="SPN"/> <bbox w="80.0" h="40.0" x="9781.25" y="672.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa461_rc_csa461" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BIF1*:UVRAG</p> <p>References:</p> <p>PMID:16227588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa461_rc_csa461"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<head> <title/> </head> <body> <p>SH3-domain GRB2-like endophilin B1</p> <p>HUGO:SH3GLB1 HGNC:10833 ENTREZ:51100 UNIPROT:Q9Y371</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:16227588</p> <p>PMID:19265852</p> <p>PMID:17891140</p> </body> </html> </notes> <label text="BIF1*"/> <bbox w="80.0" h="40.0" x="28202.56" y="11248.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa240_wca1_wca3_sa240" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>karyopherin alpha 2 (RAG cohort 1 importin alpha 1)</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>s_wca3_re79(MAP:survival):</p> <p>This transport is enhanced upon phosphorylation however it is not necessary for import of APC into nucleus</p> <p>PMID:11689703 PMID:15649893 PMID:11050185 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16474 KEGGCOMPOUND:C00005 CAS:53-57-6</p> </body> </html> </notes> <label text="NADPH"/> <clone/> <bbox w="70.0" h="25.0" x="18323.303" y="11854.625"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa898_rc_sa2633" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16474 KEGGCOMPOUND:C00005 CAS:53-57-6</p> </body> </html> </notes> <label text="NADPH"/> <clone/> <bbox w="70.0" h="25.0" x="27001.56" y="9791.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa898_rc_sa3254" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16474 KEGGCOMPOUND:C00005 CAS:53-57-6</p> </body> </html> </notes> <label text="NADPH"/> <clone/> <bbox w="70.0" h="25.0" x="24568.06" y="10537.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa898_rc_sa2318" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16474 KEGGCOMPOUND:C00005 CAS:53-57-6</p> </body> </html> </notes> <label text="NADPH"/> <clone/> <bbox w="70.0" h="25.0" x="27938.06" y="10520.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa898_rc_sa2275" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16474 KEGGCOMPOUND:C00005 CAS:53-57-6</p> </body> </html> </notes> <label text="NADPH"/> <clone/> <bbox w="70.0" h="25.0" x="29212.06" y="10695.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa898_rc_sa1210" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16474 KEGGCOMPOUND:C00005 CAS:53-57-6</p> </body> </html> </notes> <label text="NADPH"/> <clone/> <bbox w="70.0" h="25.0" x="28405.9" y="10677.362"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa898_rc_sa806" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16474 KEGGCOMPOUND:C00005 CAS:53-57-6</p> </body> </html> </notes> <label text="NADPH"/> <clone/> <bbox w="70.0" h="25.0" x="18404.06" y="10326.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa3_wnc1_wnc2_csa3" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CASR:Ca2+</p> <p>References:</p> <p>s_wnc2_re4(MAP:survival):</p> <p>PMID:21506126, PMID:21303971</p> <p>Path to phosphorylation of b-catenin is not completely depicted here. 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<rdf:li rdf:resource="urn:miriam:pubmed:22094462"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CASR:Ca2+"/> <bbox w="100.0" h="120.0" x="18642.06" y="17867.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa16_wnc1_wnc2_sa16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calcium-sensing receptor</p> <p>HHC, HHC1, "hypocalciuric hypercalcemia 1"</p> <p>HUGO:CASR HGNC:1514 ENTREZ:846 UNIPROT:P41180 GENECARDS:CASR REACTOME:51416 KEGG:846 ATLASONC:GC_CASR WIKI:CASR</p> <p>Map modules:</p> </body> </html> </notes> <label text="CASR"/> <bbox w="80.0" h="50.0" x="18651.31" y="17900.75"/> <glyph class="unit of information" id="_3dc485ab-9f73-47ae-85bb-8c0c1cbe3cb9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18668.81" y="17895.75"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa15_wnc1_wnc2_sa15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18678.81" y="17881.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa1_wca1_wca1_csa1" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re15:(MAP:survival) PMID:10581160</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa1_wca1_wca1_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="163.0" x="20020.06" y="17984.5"/> <glyph class="simple chemical" id="s_id_wca1_wca1_sa697_wca1_wca1_sa697"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20130.06" y="18041.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa3_wca1_wca1_sa3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20031.06" y="18082.5"/> <glyph class="state variable" id="_cbe1b27c-2004-4b20-8fef-d71162e3b0da"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.053" y="18077.5"/> </glyph> <glyph class="state variable" id="_e8cf5bee-f3d3-4787-8e48-e6c8a06ea10f"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20013.56" y="18117.22"/> </glyph> <glyph class="state variable" id="_3dc0f23d-5d98-4ea1-a81e-d2266648f6d0"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20092.941" y="18117.5"/> </glyph> <glyph class="state variable" 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class="state variable" id="_92d6896d-4c80-441c-a99b-3db853ac382d"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20014.053" y="18077.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa5_wca1_wca1_sa5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="17994.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa73_wca1_wca1_sa73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20032.06" y="18039.5"/> <glyph class="state variable" id="_f62a5ecf-a287-4701-8e6f-f6f9caec335c"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20025.053" y="18034.5"/> </glyph> <glyph class="state variable" id="_c45baa45-739a-4c8a-a738-7ff8e534beac"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20104.56" y="18034.713"/> </glyph> <glyph class="state variable" id="_5c03b25d-a2f7-44b0-93ae-125f58754f0e"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.56" y="18074.22"/> </glyph> <glyph class="state variable" id="_7c3256d8-a3d2-4c5c-b6be-1a4f43776b49"> <state value="P" variable="S222"/> <bbox w="35.0" h="10.0" x="20094.56" y="18034.713"/> </glyph> <glyph class="state variable" id="_5839a0af-1765-49ae-87b5-6d3429956c5a"> <state value="P" variable="S473"/> <bbox w="35.0" h="10.0" x="20093.941" y="18074.5"/> </glyph> <glyph class="state variable" id="_604a0fc7-9b1c-46fe-89c5-bd79bc37191d"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="20059.465" y="18074.5"/> </glyph> <glyph class="state variable" id="_eb903333-15a0-4354-9f48-69784373b461"> <state value="P" variable="S614"/> <bbox w="35.0" h="10.0" x="20054.465" y="18074.5"/> </glyph> <glyph class="state variable" id="_44858cb4-094e-40b7-a6a2-8a6881af3d5a"> <state value="P" variable="S621"/> <bbox w="35.0" h="10.0" x="20014.56" y="18074.22"/> </glyph> <glyph class="state variable" id="_c8787ef1-3034-4f2b-802d-0100a9387723"> <state value="P" variable="S82"/> <bbox w="30.0" h="10.0" x="20057.092" y="18034.5"/> </glyph> <glyph class="state variable" id="_f15d1c84-d828-4a5c-b3f9-646edd361973"> <state value="P" variable="S80"/> <bbox w="30.0" h="10.0" x="20017.553" y="18034.5"/> </glyph> <glyph class="state variable" id="_5e5c0cd4-8dfa-4c76-aa61-34fd16b3e88a"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="20098.941" y="18074.5"/> </glyph> <glyph class="state variable" id="_e459645b-23f1-48cc-bc19-3dbc9a525741"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20027.064" y="18034.5"/> </glyph> <glyph class="state variable" id="_8e0a38ee-2341-4d78-885e-0f7b1d2e17bf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20107.06" y="18034.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa4_wca1_wca1_sa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20115.06" y="17994.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa698_wca1_wca1_sa698"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20122.06" y="18070.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa73_akt1_akt1_sa73" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa73_akt1_akt1_sa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90*"/> <bbox w="80.0" h="40.0" x="13558.811" y="17964.0"/> </glyph> <glyph class="complex" id="s_id_in_csa321_in_csa321" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa321_in_csa321"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12907458"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s4004"/> <bbox w="100.0" h="120.0" x="20836.25" y="5285.0"/> <glyph class="macromolecule" id="s_id_in_sa2459_in_sa2459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="86.0" h="47.0" x="20846.25" y="5295.0"/> <glyph class="unit of information" id="_d1d9c8b0-3926-43e1-a6c7-092692faf89e"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20864.25" y="5290.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2458_in_sa2458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="BCL3"/> <bbox w="80.0" h="40.0" x="20846.25" y="5345.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1995_emtc_em_sa1995" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HUS1:NEIL1:RAD1:RAD9*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>9-1-1 complex stimulates NEIL1 glycosylase and BER </p> <p>PMID:17395641</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa262_ce_csa262"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17395641"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HUS1/NEIL1/RAD1/RAD9*"/> <bbox w="177.0" h="110.0" x="9307.473" y="15627.356"/> <glyph class="macromolecule" id="s_id_ce_sa1380_ce_sa1380"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD1 homolog (S. pombe)</p> <p>HUGO:RAD1, HGNC:9806, ENTREZ:5810, UNIPROT:O60671</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="RAD1"/> <bbox w="80.0" h="40.0" x="9397.658" y="15634.352"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1382_ce_sa1382"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nei like 1 (E. coli) </p> <p>HUGO:NEIL1, HGNC:18448, ENTREZ:79661, UNIPROT:Q96FI4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054</p> </body> </html> </notes> <label text="NEIL1"/> <bbox w="80.0" h="40.0" x="9313.931" y="15634.826"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1381_ce_sa1381"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD9 homolog A (S. pombe)</p> <p>HUGO:RAD9A, HGNC:9827, ENTREZ:5883, UNIPROT:Q99638</p> <p>RAD9 homolog B (S. pombe)</p> <p>HUGO:RAD9B, HGNC:21700, ENTREZ:144715, UNIPROT:Q6WBX8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:8943031, PMID:17493829</p> </body> </html> </notes> <label text="RAD9*"/> <bbox w="80.0" h="40.0" x="9396.263" y="15676.69"/> <glyph class="state variable" id="_4f97ebd2-961d-4550-90a8-36c6470e78af"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9428.763" y="15671.69"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1379_ce_sa1379"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUS1 checkpoint homolog (S. pombe)</p> <p>HUGO:HUS1, HGNC:5309, ENTREZ:3364, UNIPROT:O60921</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:9524127, PMID:17493829</p> </body> </html> </notes> <label text="HUS1"/> <bbox w="80.0" h="40.0" x="9315.658" y="15677.352"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa9_wnc1_wnc4_csa9" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN1:GSK3*:MYC:PIN1</p> <p>References:</p> <p>s_wnc4_re14:(MAP:survival) PMID:19131971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa9_wnc1_wnc4_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(c-Myc destruction complex)"/> <bbox w="267.0" h="123.0" x="18605.06" y="21867.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa59_wnc1_wnc4_sa59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peptidylprolyl cis/trans isomerase, NIMA-interacting 1</p> <p>"protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting 1"</p> <p>HUGO:PIN1 HGNC:8988 ENTREZ:5300 UNIPROT:Q13526 GENECARDS:PIN1 REACTOME:69717 KEGG:5300 ATLASONC:GC_PIN1 WIKI:PIN1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE</p> </body> </html> </notes> <label text="PIN1"/> <bbox w="80.0" h="40.0" x="18778.06" y="21923.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa58_wnc1_wnc4_sa58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="18700.06" y="21923.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa60_wnc1_wnc4_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="80.0" h="40.0" x="18614.06" y="21879.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa57_wnc1_wnc4_sa57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>"v-myc avian myelocytomatosis viral oncogene homolog"</p> <p>HUGO:MYC HGNC:7553 ENTREZ:4609 UNIPROT:P01106 GENECARDS:MYC REACTOME:59773 KEGG:4609 ATLASONC:MYCID27 WIKI:MYC</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>C-MYC is a key regulator of cell proliferation differentiaton and apoptosis. The biological functions of C-MYC are thought to depend in part on the polypeptide binding partners with which it interacts.</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="18615.31" y="21923.0"/> <glyph class="state variable" id="_f500713c-83a3-48f4-84c1-eed46840e590"> <state value="P" variable="S62"/> <bbox w="30.0" h="10.0" x="18600.803" y="21918.0"/> </glyph> <glyph class="state variable" id="_2748e8c4-7cac-4dfe-a39b-50d5daf82459"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="18682.81" y="21918.213"/> </glyph> <glyph class="state variable" id="_cfd74cb6-2202-4416-b5a4-7d889f2b9b02"> <state value="P" variable="T58"/> <bbox w="30.0" h="10.0" x="18600.31" y="21957.72"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa62_ca_sa62"> <label text="Angiogenesis"/> <clone/> <bbox w="200.0" h="65.0" x="4040.0" y="5277.5"/> </glyph> <glyph class="phenotype" id="s_id_ca_sa62_mo_sa168"> <label text="Angiogenesis"/> <clone/> <bbox 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id="s_id_ca_sa33_ca_sa33" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa33_ca_sa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FN*"/> <bbox w="80.0" h="40.0" x="5490.0" y="4080.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2737_in_sa2737" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL3RA"/> <bbox w="80.0" h="50.0" x="9590.0" y="2135.0"/> <glyph class="unit of information" id="_25eeb6d1-3b9d-493f-b268-3233fdbeaca3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9607.5" y="2130.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5508_rc_sa5508" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:48584</p> <p>synonyms:Mediterranean fever, pyrin</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:24919149</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5508_rc_sa5508"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ADP-ribose*"/> <bbox w="70.0" h="25.0" x="29214.06" y="9626.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa723_wnc1_wnc1_sa723" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17404308, 12598651, 18633355, 16410834, 17043764, 15099563 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL</p> <p>MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>CASCADE:TLR2_4, CASCADE:IL15</p> <p>References:</p> <p>PMID:17043764</p> <p>IL1 signaling has both antitumor effect (low dose of IL B and menbran associated IL1A) and protumor effect (high dose of IL1) in tumor microevironment,</p> <p>PMID:12598651</p> <p>Microenvironmental IL-1 beta and, to a lesser extent, IL-1 alpha are required for in vivo angiogenesis and invasiveness of different tumor cells.</p> <p>PMID:17404308</p> <p>CSF1 downregulates TNF, IL-23p19, IL-12p40 expression probably via induction of acomulation of p50 homodimer and inhibition of p65/p50 NF-kB signaling.</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as 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<p>MODULE:INHIBITING_CHECKPOINTS</p> </body> </html> </notes> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="27151.0" y="2367.5"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa1342_in_sa1431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> </body> </html> </notes> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="15237.5" y="1127.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa306_ce_sa306" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0BER:B-glyc:DNA:st2Base-free DNA containing an apurinic/apyrimidinic (AP) siteNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0BER:B-glyc:DNA:st2Base-free DNA containing an apurinic/apyrimidinic (AP) siteNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR </body> </html> </notes> <label text="BER_B-glyc_DNA_st2*"/> <bbox w="150.0" h="26.0" x="9082.643" y="15883.679"/> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa5_shh1_shh3_csa5" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha__sub_i_endsub_*:G_beta_*:G_gamma_*:HH Ligand:PTCH*:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re2(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:18815277</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:17430994</p> <p>PMID:21474452</p> <p>PMID:20081366</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="80.0" h="40.0" x="26043.56" y="22476.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa31_shh1_shh3_sa31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gαi*"/> <bbox w="80.0" h="40.0" x="25962.56" y="22477.5"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa75_shh1_shh3_sa75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="30.0" h="30.0" x="25987.56" y="22518.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa33_shh1_shh3_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="80.0" h="40.0" x="26125.56" y="22476.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa30_shh1_shh3_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Smoothened</p> <p>HUGO:SMO HGNC:11119 ENTREZ:6608 UNIPROT:Q99835 GENECARDS:SMO REACTOME:64670 KEGG:6608 ATLASONC:GC_SMO WIKI:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18820483</p> <p>PMID:17641202</p> </body> </html> </notes> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26123.56" y="22430.5"/> <glyph class="state variable" id="_5c578a8a-6e02-4c7a-8b08-e91ea4bbea58"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26198.56" y="22425.5"/> </glyph> <glyph class="state variable" id="_2551edcf-0b8c-4c73-9bc1-df27ffad20b4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26198.56" y="22425.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa28_shh1_shh3_sa28"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="78.0" h="114.0" x="26205.06" y="22401.5"/> <glyph class="unit of information" id="_0bad353b-5925-4d3a-9269-f78c28e46a58"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26221.56" y="22396.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1356_in_sa1356" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL4"/> <bbox w="90.0" h="25.0" x="11942.745" y="5433.25"/> <glyph class="unit of information" id="_c181a28f-d2af-4f7d-8d40-ba29e14f5562"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11977.745" y="5428.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa711_mpk1_mpk1_sa711" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa711_mpk1_mpk1_sa711"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SPRY2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SPRY2"/> <bbox w="50.0" h="25.0" x="10068.061" y="20174.5"/> <glyph class="state variable" id="_7c0b4631-fd28-4ab7-ab46-e8f0cdc8cf70"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10060.561" y="20182.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa48_akt1_akt2_csa48" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PCNA:p21CIP1*</p> <p>References:</p> <p>s_akt2_re143:(MAP:survival) PMID:11756412</p> <p>s_akt2_re149:(MAP:survival) PMID:19440234</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa48_akt1_akt2_csa48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756412"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCNA:p21CIP1*"/> <bbox w="100.0" h="120.0" x="13570.061" y="21458.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa279_akt1_akt2_sa279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (P21 Cip1)</p> <p>CDKN1</p> <p>HUGO:CDKN1A HGNC:1784 ENTREZ:1026 UNIPROT:P38936 GENECARDS:CDKN1A REACTOME:87048 KEGG:1026 ATLASONC:CDKN1AID139 WIKI:CDKN1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:P21CIP, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <label text="p21CIP1*"/> <bbox w="80.0" h="40.0" x="13579.561" y="21511.0"/> <glyph class="state variable" id="_e997bdab-0f85-4d3a-bf5a-4a950460aee8"> <state value="" variable="T145"/> <bbox w="30.0" h="10.0" x="13565.053" y="21506.0"/> </glyph> <glyph class="state variable" id="_d24180e8-b657-416c-b6b6-05d27d3ad8ea"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13574.561" y="21514.508"/> </glyph> <glyph class="state variable" id="_8c3b1fc7-3fc8-4c09-88ea-960949c6099c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13574.561" y="21519.338"/> </glyph> <glyph class="state variable" id="_f10e3d1c-bcf4-4ef1-bb44-9299b4962b47"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13574.561" y="21545.72"/> </glyph> <glyph class="state variable" id="_7b36a920-7fb2-40ed-b654-a832730ed1fc"> <state value="" variable="T146"/> <bbox w="30.0" h="10.0" x="13604.593" y="21506.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa278_akt1_akt2_sa278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA HGNC:8729 ENTREZ:5111 UNIPROT:P12004 GENECARDS:PCNA REACTOME:97870 ATLASONC:PCNAID41670ch20p12 WIKI:PCNA</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:BER, MAP:dnarepair / MODULE:MMR, MAP:dnarepair / MODULE:TLS, MAP:cellcycle / MODULE:P21CIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="13579.561" y="21467.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa20_ca_sa20"> <label text="TUMOR_GROWTH"/> <bbox w="266.0" h="53.0" x="3427.0" y="5333.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1826_in_sa1826" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL15"/> <bbox w="70.0" h="25.0" x="22221.25" y="5222.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa204_mo_sa204" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>mitogen-activated protein kinase 2</p> <p>mitogen-activated protein kinase 3</p> <p>mitogen-activated protein kinase 4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa204_mo_sa204"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK*"/> <bbox w="80.0" h="40.0" x="5405.0" y="11344.0"/> <glyph class="state variable" id="_d93cd4ee-21ad-48c8-94a6-276cc49d9738"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5454.0684" y="11339.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2885_in_sa2885" compartmentRef="s_id_in_ca12_in_ca12"> <label text="FADD"/> <bbox w="80.0" h="40.0" x="23653.5" y="3242.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1371_emtc_em_sa1371" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1371_emtc_em_sa1371"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LEF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LEF1_TCF3_4*"/> <bbox w="100.0" h="26.0" x="2892.0" y="16054.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1945_emtc_em_sa1945" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1945_emtc_em_sa1945"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COPS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSN2*"/> <bbox w="45.0" h="20.0" x="3503.0" y="13210.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2781_rc_sa2781" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16027 KEGGCOMPOUND:C00020 CAS:61-19-8</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2781_rc_sa2781"> <bqbiol:isEncodedBy> <rdf:Bag> 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text="COX10"/> <bbox w="80.0" h="40.0" x="21695.31" y="14295.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa115_ad_csa115" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5190"/> <bbox w="110.0" h="150.0" x="29231.0" y="7420.0"/> <glyph class="macromolecule multimer" id="s_id_ad_sa933_ad_sa933"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="86.0" h="66.0" x="29238.312" y="7477.3125"/> <glyph class="unit of information" id="_ba06cec1-860d-40f7-9f58-93857026d371"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="29271.312" y="7472.3125"/> </glyph> <glyph class="unit of information" id="_72f7b9c0-fe7d-4f32-9cfd-2d466b75edd8"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="29256.312" y="7472.3125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa935_ad_sa935"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:BCL3</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14668329</p> <p>Bcl-3 protein was induced after stimulation of tolerant but not 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rdf:resource="urn:miriam:hgnc.symbol:IKBKB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="13337.061" y="18605.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa74_wnc1_wnc1_csa74" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:POSH*:RAC1</p> <p>References:</p> <p>s_wnc1_re122:(MAP:survival) PMID:12514131</p> <p>s_wnc1_re155:(MAP:survival) PMID:21619876</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa74_wnc1_wnc1_csa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12514131"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21619876"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POSH*:RAC1"/> <bbox w="100.0" h="120.0" x="15557.061" y="18812.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa646_wnc1_wnc1_sa646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="15568.311" y="18864.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa647_wnc1_wnc1_sa647"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SH3 domain containing ring finger 1</p> <p>"SH3 multiple domains 2", SH3MD2</p> <p>HUGO:SH3RF1 HGNC:17650 ENTREZ:57630 UNIPROT:Q7Z6J0 GENECARDS:SH3RF1 KEGG:57630 ATLASONC:GC_SH3RF1 WIKI:SH3RF1</p> <p>Map modules:</p> </body> </html> </notes> <label text="POSH*"/> <bbox w="80.0" h="40.0" x="15568.311" y="18820.5"/> <glyph class="state variable" id="_3633f27e-f34a-4ff4-9085-74655ca80403"> <state value="" variable="S304"/> <bbox w="30.0" h="10.0" x="15633.311" y="18815.713"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa54_te_csa54" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAX/MXD1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <label text="MAX/MXD1"/> <bbox w="100.0" h="120.0" x="6306.06" y="21040.0"/> <glyph class="macromolecule" id="s_id_te_sa373_te_sa373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MYC associated factor X</p> <p>HUGO:MAX</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="MAX"/> <bbox w="80.0" h="40.0" x="6314.56" y="21096.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa344_te_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MAX dimerization protein 1</p> <p>HUGO:MXD1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="MXD1"/> <bbox w="80.0" h="40.0" x="6316.06" y="21046.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa337_mo_sa337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Tumor necrosis factor</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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<label text="TSC2"/> <bbox w="70.0" h="25.0" x="20776.441" y="16257.367"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2276_in_sa2276" compartmentRef="s_id_in_ca12_in_ca12"> <label text="TIMP3"/> <bbox w="80.0" h="40.0" x="11560.0" y="6580.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa488_ad_sa488" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa488_ad_sa488"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYL6"/> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa120_ce_sa120"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XRCC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ku70*"/> <clone/> <bbox w="80.0" h="40.0" x="13145.269" y="15583.407"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa120_ce_sa1596" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa120_ce_sa1596"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XRCC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ku70*"/> <clone/> <bbox w="80.0" h="40.0" x="13152.093" y="16570.941"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa451_akt1_akt1_sa451" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa451_akt1_akt1_sa451"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCA"/> <bbox w="80.0" h="40.0" x="12286.061" y="17800.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1599_emtc_em_sa1599" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1599_emtc_em_sa1599"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COL4A2"/> <bbox w="50.0" h="18.0" x="5682.0" y="18426.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa92_in_sa92" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MHC class I*"/> <bbox w="70.0" h="25.0" x="23045.0" y="6065.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2653_rc_sa2653" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16480 KEGGCOMPOUND:C00533 CAS:10102-43-9</p> <p>References:</p> <p>PMID:10792026</p> <p>Nitric oxide inhibits tumor necrosis factor-alpha-induced apoptosis by reducing the generation of ceramide.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2653_rc_sa2655"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10792026"/> </rdf:Bag> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CLIP*"/> <bbox w="80.0" h="40.0" x="20550.0" y="6610.0"/> <glyph class="unit of information" id="_2fda54c4-1ba1-4545-b4f2-0fddb96faf24"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20565.0" y="6605.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa155_in_sa155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MHC_class_II*"/> <bbox w="80.0" h="40.0" x="20553.125" y="6657.5"/> <glyph class="state variable" id="_c638ad42-759e-4459-b8c1-350d3736d2bb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20548.125" y="6672.5"/> </glyph> <glyph class="unit of information" id="_6fb41c6f-64d5-4e28-98e8-7777f74faaf1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20570.625" y="6652.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa548_rc_csa548" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NLRP3:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> 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<p>NAME:LRP5_6*:WNT*</p> <p>References:</p> <p>s_wnc2_re1(MAP:survival):</p> <p>Wnt5 can binds to LRP5/6 and in this way, physiologically inhibits non-canonical pathway. In Xenopus and mice.</p> <p>PMID:19056682</p> <p>s_wnc2_re3(MAP:survival):</p> <p>Binding of Wnt5 and LRP5/6 leads to phosphorylation of Dvl. Most likely the same residues as picture shows same speed of migration on gel compared to Wnt3 stimulation. No phosphorylation of LRP5/6 by Wnt5. This complex formation sequesters away Wnt5 from the non-canonical pathway receptors</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa1_wnc1_wnc2_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19056682"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRP5_6*:WNT*"/> <bbox w="100.0" h="120.0" x="17519.06" y="17845.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa2_wnc1_wnc2_sa2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="17548.06" y="17879.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa1_wnc1_wnc2_sa1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1807_emtc_em_sa1807"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT8"/> <bbox w="54.0" h="16.0" x="5362.5" y="15595.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa7_rc_csa7" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:14-3-3*:BAX</p> </body> </html> </notes> <label text="14-3-3:BAX"/> <bbox w="100.0" h="120.0" x="23609.06" y="11959.0"/> <glyph class="macromolecule" id="s_id_rc_sa70_rc_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="23619.06" y="11969.0"/> <glyph class="state variable" id="_1da37862-dd8d-4ce0-99c3-08bcd0874da6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23670.658" y="11964.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa71_rc_sa71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="23619.06" y="12009.0"/> <glyph class="state variable" id="_f80b081a-615e-45b9-b3fb-1634c9ae241d"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="23665.145" y="12004.0"/> </glyph> <glyph class="state variable" id="_a2eb8c77-ef06-43b0-ba80-3a8acf285d32"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="23665.38" y="12044.0"/> </glyph> <glyph class="state variable" id="_815cb212-8375-4a35-b136-43acafae53c5"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="23620.139" y="12004.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa64_mo_csa64" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="CCL26/CCR3"/> <bbox w="100.0" h="120.0" x="4572.5" y="8827.0"/> <glyph class="macromolecule" id="s_id_mo_sa526_mo_sa526"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CCR3</p> </body> </html> </notes> <label text="CCR3"/> <bbox w="80.0" h="50.0" x="4588.3335" y="8885.667"/> <glyph class="unit of information" id="_f528c217-f7dd-4365-ad9a-0e59aec60892"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4605.8335" y="8880.667"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa527_mo_sa527"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CCL26</p> </body> </html> </notes> <label text="CCL26"/> <bbox w="80.0" h="40.0" x="4586.3335" y="8840.667"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa397_rc_csa397" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:XAF1:XIAP</p> <p>References:</p> <p>23070005</p> </body> </html> </notes> <label text="XAF1:XIAP"/> <bbox w="100.0" h="120.0" x="24521.56" y="11834.0"/> <glyph class="macromolecule" id="s_id_rc_sa3945_rc_sa3945"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XIAP associated factor 1</p> <p>HUGO:XAF1 HGNC:30932 ENTREZ:54739 UNIPROT:Q6GPH4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XAF1"/> <bbox w="80.0" h="40.0" x="24531.56" y="11844.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3946_rc_sa3946"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24531.56" y="11884.0"/> <glyph class="state variable" id="_a04a3610-f3cf-4795-b28e-6be9f3edc438"> <state value="" variable="S87"/> <bbox w="25.0" h="10.0" x="24576.01" y="11879.0"/> </glyph> <glyph class="state variable" id="_8386534a-d772-423c-b31a-273255dc4034"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24549.992" y="11879.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa84_mo_sa84" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0catenin (cadherin-associated protein), delta 1 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0catenin (cadherin-associated protein), delta 1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa84_mo_sa84"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="γ-catenin*"/> <bbox w="90.0" h="25.0" x="2741.0" y="10262.5"/> <glyph class="unit of information" id="_0771077b-c0a2-4ad8-a579-8dc87d29cdba"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2776.0" y="10257.5"/> </glyph> </glyph> <glyph class="macromolecule" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN2:MIR34A</p> <p>References:</p> <p>s_wca3_re132(MAP:survival):</p> <p>Actually the whole MIR-34 family targets AXIN2</p> <p>PMID:22421157</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa61_wca1_wca3_csa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22421157"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN2:MIR34A"/> <bbox w="100.0" h="120.0" x="21171.06" y="22404.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa380_wca1_wca3_sa380"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL, MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM</p> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR34A"/> <bbox w="90.0" h="25.0" x="21172.06" y="22458.0"/> <glyph class="unit of information" id="_34fbaa37-ed82-4425-992a-4a3c41c1bfa4"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21202.06" y="22453.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa379_wca1_wca3_sa379"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL, MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> </body> </html> </notes> <label text="AXIN2"/> <bbox w="90.0" h="25.0" x="21173.06" y="22430.0"/> <glyph class="unit 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h="25.0" x="27879.06" y="9046.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa220_emtc_em_csa220" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:RHOA</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>RhoA is an important modulator of cell junction formation and stability:</p> <p>PMID:7479854</p> <p>Rho protein regulates tight junctions and perjunctional actin organization in polarized epithelia</p> <p>PMID:9362522</p> <p>Rho subfamily is necessary for the formation of both the cadherin-based cell–cell adhesion and the tight junction</p> <p>PMID:9660866</p> <p>RhoA and Rac1 regulate gate and fence functions of the TJ, and play a role in the spatial organization of TJ proteins at the apex of the lateral membrane</p> <p>PMID:12361600</p> <p>PMID:11992112</p> <p>RhoA functions to maintain apical-basal polarity and cell junctions. </p> <p>PMID:11739775</p> <p>PMID:11729192</p> <p>RhoA can stabilize tight junctions and increase transepithelial resistance</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9660866"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12361600"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11992112"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11739775"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11729192"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_GDP"/> <bbox w="67.0" h="59.0" x="5367.5" y="14363.0"/> <glyph class="simple chemical" id="s_id_emtc_em_sa1414_emtc_em_sa1414"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="35.0" h="17.0" x="5386.5" y="14385.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa684_emtc_em_sa684"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>HUGO:RHOA, HGNC:667, ENTREZ:387, GENECARDS:GC03M049371, UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>RhoA is an important modulator of cell junction formation and stability:</p> <p>PMID:7479854</p> <p>Rho protein regulates tight junctions and perjunctional actin organization in polarized epithelia</p> <p>PMID:9362522</p> <p>Rho subfamily is necessary for the formation of both the cadherin-based cell–cell adhesion and the tight junction</p> <p>PMID:9660866</p> <p>RhoA and Rac1 regulate gate and fence functions of the TJ, and play a role in the spatial organization of TJ proteins at the apex of the lateral membrane</p> <p>PMID:12361600</p> <p>PMID:11992112</p> <p>RhoA functions to maintain apical-basal polarity and cell junctions. </p> <p>PMID:11739775</p> <p>PMID:11729192</p> <p>RhoA can stabilize tight junctions and increase transepithelial resistance</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="52.0" h="20.0" x="5380.5" y="14364.0"/> <glyph class="state variable" id="_beafd779-2a5e-41f7-a177-698e426eeb98"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5375.5" y="14368.984"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa129_shh1_shh2_sa129" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<p>CASCADE:TCR, CASCADE:B4H4</p> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>PMID:22437870</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:1313950 </p> <p>Costimulatory signaling by CD28 has been described as critical for the enhancement of T cell proliferation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1"/> <bbox w="90.0" h="25.0" x="15248.269" y="10787.97"/> <glyph class="unit of information" id="_fee3b826-f337-461a-bc2c-d898b7a0b4bd"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15283.269" y="10782.97"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1475_ce_sa1475" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1475_ce_sa1475"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKDC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNA-PK*"/> <bbox w="80.0" h="40.0" x="13555.298" y="16361.382"/> <glyph class="state variable" id="_d1bdfdbe-4194-479e-89df-2fe91cf2f35c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13547.798" y="16376.382"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa42_akt1_akt1_csa42" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EIF3*:EIF4E*:M7GTP*:MLST8:MTOR:RPTOR:mRNA generic*</p> <p>References:</p> <p>s_akt1_re66:(MAP:survival) PMID:16286006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa42_akt1_akt1_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(eIF3/mRNA/mTOR)"/> <bbox w="356.0" h="269.0" x="11936.686" y="19057.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa461_akt1_akt1_sa461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12083.832" y="19067.764"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt1_sa227_akt1_akt1_sa227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:PI3K_AKT_MTOR ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR </body> </html> </notes> <label text="mRNA generic*"/> <bbox w="318.0" h="29.0" x="11965.686" y="19269.0"/> <glyph class="unit of information" id="_6ac5ec19-cb57-4954-ab08-103a22ba19bc"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12114.686" y="19264.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa230_akt1_akt1_sa230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 3 subunit A</p> <p>HUGO:EIF3A HGNC:3271 ENTREZ:8661 UNIPROT:Q14152 GENECARDS:EIF3A REACTOME:72545 KEGG:3692 ATLASONC:EIF3AID40425ch10q26 WIKI:EIF3A </p> <p>eukaryotic translation initiation factor 3 subunit B</p> <p>HUGO:EIF3B HGNC:3280 ENTREZ:8662 UNIPROT:P55884 GENECARDS:EIF3B REACTOME:72541 KEGG:8662 ATLASONC:GC_EIF3B WIKI:EIF3B </p> <p>eukaryotic translation initiation factor 3 subunit C</p> <p>HUGO:EIF3C HGNC:3279 ENTREZ:8663 UNIPROT:Q99613 GENECARDS:EIF3C REACTOME:72549 KEGG:8663 ATLASONC:EIF3CID44187ch16p11 WIKI:EIF3C </p> <p>eukaryotic translation initiation factor 3 subunit D</p> <p>HUGO:EIF3D HGNC:3278 ENTREZ:8664 UNIPROT:O15371 GENECARDS:EIF3D REACTOME:72547 KEGG:8664 WIKI:EIF3D </p> <p>eukaryotic translation initiation factor 3 subunit E</p> <p>HUGO:EIF3E HGNC:3277 ENTREZ:3646 UNIPROT:P60228 GENECARDS:EIF3E REACTOME:72551 KEGG:3646 ATLASONC:GC_EIF3E WIKI:EIF3E </p> <p>eukaryotic translation initiation factor 3 subunit F</p> <p>HUGO:EIF3F HGNC:3275 ENTREZ:8665 UNIPROT:O00303 GENECARDS:EIF3F REACTOME:72539 KEGG:8665 ATLASONC:EIF3FID44407ch11p15 WIKI:EIF3F </p> <p>eukaryotic translation initiation factor 3 subunit G</p> <p>HUGO:EIF3G HGNC:3274 ENTREZ:8666 UNIPROT:O75821 GENECARDS:EIF3G REACTOME:72537 KEGG:8666 WIKI:EIF3G </p> <p>eukaryotic translation initiation factor 3 subunit H</p> <p>HUGO:EIF3H HGNC:3273 ENTREZ:8667 UNIPROT:O15372 GENECARDS:EIF3H REACTOME:72543 KEGG:8667 ATLASONC:GC_EIF3H WIKI:EIF3H </p> <p>eukaryotic translation initiation factor 3 subunit I</p> <p>HUGO:EIF3I HGNC:3272 ENTREZ:8668 UNIPROT:Q13347 GENECARDS:EIF3I REACTOME:72535 KEGG:8668 ATLASONC:GC_EIF3I WIKI:EIF3I </p> <p>eukaryotic translation initiation factor 3 subunit J</p> <p>HUGO:EIF3J HGNC:3270 ENTREZ:8669 UNIPROT:O75822 GENECARDS:EIF3J REACTOME:72533 KEGG:8669 WIKI:EIF3J </p> <p>eukaryotic translation initiation factor 3 subunit K</p> <p>HUGO:EIF3K HGNC:24656 ENTREZ:27335 UNIPROT:Q9UBQ5 GENECARDS:EIF3K REACTOME:72553 KEGG:27335 ATLASONC:GC_EIF3K WIKI:EIF3K </p> <p>eukaryotic translation initiation factor 3 subunit L</p> <p>HUGO:EIF3L HGNC:18138 ENTREZ:51386 UNIPROT:Q9Y262 GENECARDS:EIF3L KEGG:51386 WIKI:EIF3L </p> <p>eukaryotic translation initiation factor 3 subunit M</p> <p>HUGO:EIF3M HGNC:24460 ENTREZ:10480 UNIPROT:Q7L2H7 GENECARDS:EIF3M KEGG:10480 ATLASONC:GC_EIF3M WIKI:EIF3M</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <label text="EIF3*"/> <bbox w="80.0" h="40.0" x="12054.686" y="19226.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa229_akt1_akt1_sa229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E</p> <p>HUGO:EIF4E HGNC:3287 ENTREZ:1977 UNIPROT:P06730 GENECARDS:EIF4E REACTOME:72577 KEGG:1977 ATLASONC:EIF4EID40431ch4q23 WIKI:EIF4E </p> <p>eukaryotic translation initiation factor 4E family member 1B</p> <p>HUGO:EIF4E1B HGNC:33179 ENTREZ:253314 UNIPROT:A6NMX2 GENECARDS:EIF4E1B WIKI:EIF4E1B </p> <p>eukaryotic translation initiation factor 4E family member 2</p> <p>HUGO:EIF4E2 HGNC:3293 ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2 </p> <p>eukaryotic translation initiation factor 4E family member 3</p> <p>HUGO:EIF4E3 HGNC:31837 ENTREZ:317649 UNIPROT:Q8N5X7 GENECARDS:EIF4E3 REACTOME:232515 WIKI:EIF4E3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19597330</p> <p>PMID:19339977</p> </body> </html> </notes> <label text="EIF4E*"/> <bbox w="113.0" h="38.0" x="11939.686" y="19228.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa459_akt1_akt1_sa459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="160.0" h="62.0" x="12054.082" y="19160.764"/> <glyph class="state variable" id="_4056792b-dcac-479c-a227-64b47e4e570d"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="12041.152" y="19155.764"/> </glyph> <glyph class="state variable" 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ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="M7GTP*"/> <bbox w="49.0" h="45.0" x="11939.686" y="19266.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa460_akt1_akt1_sa460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="140.0" h="46.0" x="12064.582" y="19110.764"/> 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x="12081.595" y="19105.764"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5036_rc_sa5036" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5036_rc_sa5036"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GALNT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GALNT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GALNT3"/> <bbox w="90.0" h="25.0" x="28676.326" y="16271.5"/> <glyph class="unit of information" id="_38265248-20d4-4823-96c9-7817a3ea8f4b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28711.326" y="16266.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa125_rc_csa125" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:HECTH9*:p14ARF*</p> </body> </html> </notes> <label text="ARF:HUWE1"/> <bbox w="100.0" h="120.0" x="21271.56" y="16814.0"/> <glyph class="macromolecule" id="s_id_rc_sa1336_rc_sa1336"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 2A</p> <p>HUGO:CDKN2A HGNC:1787 ENTREZ:1029 UNIPROT:P42771</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>uniprot:Q8N726</p> </body> </html> </notes> <label text="p14ARF*"/> <bbox w="80.0" h="40.0" x="21280.56" y="16826.0"/> <glyph class="state variable" id="_6e536242-0ac5-470b-bad9-a494ca825b31"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21332.129" y="16821.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1335_rc_sa1335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase</p> <p>HUGO:HUWE1 HGNC:30892 ENTREZ:10075 UNIPROT:Q7Z6Z7</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:MULE</p> </body> </html> </notes> <label text="HECTH9*"/> <bbox w="80.0" h="40.0" x="21282.56" y="16869.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5321_rc_sa5321" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18361</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>PMID:26184909</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5321_rc_sa5321"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="19674.375" y="6302.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa124_in_sa124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NCF4"/> <bbox w="80.0" h="40.0" x="19769.375" y="6205.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa128_in_sa128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="heme"/> <bbox w="70.0" h="25.0" x="19724.375" y="6332.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa125_in_sa125"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NCF2"/> <bbox w="80.0" h="40.0" x="19769.375" y="6255.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa126_in_sa126"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="19669.375" y="6255.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa123_in_sa123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NCF1"/> <bbox w="80.0" h="40.0" x="19769.375" y="6155.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa129_in_sa129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="19774.375" y="6302.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa121_in_sa121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CYBB"/> <bbox w="80.0" h="40.0" x="19669.375" y="6155.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa122_in_sa122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CYBA"/> <bbox w="80.0" h="40.0" x="19669.375" y="6205.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3498_rc_sa3498" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3498_rc_sa3498"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST2H2AC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="H2A*"/> <bbox w="80.0" h="40.0" x="19019.06" y="16469.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa515_emtc_em_sa515" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa515_emtc_em_sa515"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <bbox w="40.0" h="20.0" x="3774.0" y="14651.25"/> <glyph class="state variable" id="_4a9f8820-7636-490d-901c-e3163f266fdc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3769.0" y="14656.234"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1929_emtc_em_sa1929" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1929_emtc_em_sa1929"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p16INK4A*"/> <bbox w="91.0" h="21.0" x="4163.0" y="14478.5"/> <glyph class="unit of information" id="_99e0d896-b7c5-43b6-81ca-3dbf68dee576"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4198.5" y="14473.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa61_shh1_shh1_csa61" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta__sub_i_endsub_*:G_gamma__sub_i_endsub_*</p> <p>References:</p> <p>s_shh1_re27:(MAP:survival) PMID:17430994</p> <p>s_shh1_re115(MAP:survival):</p> <p>PMID:12764189</p> <p>PMID:18815277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa61_shh1_shh1_csa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12764189"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gβi_endsubγdimer"/> <bbox w="102.0" h="62.0" x="26045.06" y="17766.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa348_shh1_shh1_sa348"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gγi*"/> <bbox w="40.0" h="30.0" x="26097.56" y="17774.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa347_shh1_shh1_sa347"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gβi*"/> <bbox w="40.0" h="30.0" x="26054.56" y="17774.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa185_ce_sa185" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa185_ce_sa185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RECQL5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RECQL5 "/> <bbox w="80.0" h="40.0" x="14427.6875" y="14052.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa560_rc_sa560" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa560_rc_sa560"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <bbox w="70.0" h="25.0" x="21516.441" y="16257.367"/> </glyph> <glyph class="complex" id="s_id_gf1_csa15_gf1_csa15" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <label text="gf1_s4530"/> <bbox w="100.0" h="120.0" x="10125.561" y="18019.5"/> <glyph class="macromolecule" id="s_id_gf1_sa121_gf1_sa121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MET</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> </body> </html> </notes> <label text="MET"/> <bbox w="80.0" h="50.0" x="10135.561" y="18074.5"/> <glyph class="state variable" id="_3a7cc863-bf70-4163-9379-2e57327c25ee"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10128.061" y="18094.5"/> </glyph> <glyph class="unit of information" id="_b2dbc9cf-6700-4cee-8037-44ee6f4d1e73"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10153.061" y="18069.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa120_gf1_sa120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HGF</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> </body> </html> </notes> <label text="HGF"/> <bbox w="80.0" h="40.0" x="10135.561" y="18029.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa506_an_sa506" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22975327</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa506_an_sa506"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22975327"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="internalization"/> <bbox w="110.0" h="25.0" x="4171.0" y="7572.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa149_emtc_em_csa149" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:HRAS:RAF1:YWHAB</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa149_emtc_em_csa149"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9069260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HRAS_GTP/RAF1"/> <bbox w="138.0" h="130.0" x="6462.375" y="13175.5"/> <glyph class="simple chemical" id="s_id_emtc_em_sa812_emtc_em_sa812"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6539.625" y="13178.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa813_emtc_em_sa813"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HUGO:HRAS, HGNC:5173, ENTREZ:3265, GENECARDS:GC11M000522, UNIPROT:P01112</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HRAS"/> <bbox w="40.0" h="18.0" x="6474.625" y="13184.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa814_emtc_em_sa814"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf-1 murine leukemia viral oncogene homolog 1</p> <p>HUGO:RAF1, HGNC:9829, ENTREZ:5894 , GENECARDS:GC03M012625, UNIPROT:P04049</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:9069260</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB.</p> <p>YWHAB binds to RAF1 via the Ser259 phosphorylation site.</p> <p>This interaction stabilises the inactive conformation of RAF1, in which the RAS-binding Cysteine-rich doomain (CRD) is obscured.</p> <p>RAF1 contains an additional RAS-binding domain (RBD).</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RAF1"/> <bbox w="102.0" h="43.0" x="6481.0" y="13208.0"/> <glyph class="state variable" id="_4bc185e8-f9af-4ec0-8d29-5e37d08a69d3"> <state value="closed" variable=""/> <bbox w="40.0" h="10.0" x="6512.0" y="13203.0"/> </glyph> <glyph class="state variable" id="_03e05b74-3c4d-467e-afd3-c5e188256075"> <state value="P" variable="S259"/> <bbox w="35.0" h="10.0" x="6463.5" y="13203.102"/> </glyph> <glyph class="state variable" id="_ce0d8c9f-3f6b-4507-9167-ea84a34684ee"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="6573.0" y="13224.5"/> </glyph> <glyph class="state variable" id="_7ae79703-64e0-42d6-8a94-043e3c8ad960"> <state value="" variable="Y340"/> <bbox w="30.0" h="10.0" x="6567.4487" y="13203.0"/> </glyph> <glyph class="state variable" id="_b39bdaa6-244c-4783-a335-bc07765eb711"> <state value="" variable="Y341"/> <bbox w="30.0" h="10.0" x="6566.896" y="13246.0"/> </glyph> <glyph class="state variable" id="_e25cdd36-c57d-4def-9295-95ac98ee2b8f"> <state value="" variable="S338"/> <bbox w="30.0" h="10.0" x="6466.0" y="13224.466"/> </glyph> <glyph class="state variable" id="_9b9a91f9-af9e-48ba-b335-095c83e8e83c"> <state value="P" variable="S621"/> <bbox w="35.0" h="10.0" x="6463.5" y="13244.87"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2173_em_sa2173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB, HGNC:12849, ENTREZ:7529, GENECARDS:GC20P043515, UNIPROT:P31946 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>YWHAB is so-called 14-3-3 alpha/beta</p> <p>PMID:9069260</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="YWHAB"/> <bbox w="60.0" h="20.0" x="6505.0586" y="13254.117"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1785_emtc_em_sa1785" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1785_emtc_em_sa1785"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Plakophilin*"/> <bbox w="79.0" h="16.0" x="2310.0" y="17087.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa377_in_sa377" compartmentRef="s_id_in_ca47_in_ca47"> <label text="ULBP2"/> <bbox w="80.0" h="40.0" x="20730.0" y="670.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1397_ce_sa1397" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1397_ce_sa1397"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NEDD8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NEDD8"/> <bbox w="80.0" h="40.0" x="7717.3804" y="15381.067"/> </glyph> <glyph class="complex" id="s_id_in_csa219_in_csa219" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa219_in_csa219"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393492"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s610"/> <bbox w="195.0" h="90.0" x="24167.5" y="5445.0"/> <glyph class="macromolecule" id="s_id_in_sa1649_in_sa1649"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:CSF2</p> <p>References:</p> <p>PMID:12393492</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits</p> <p>PMID:11306493</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF2RA"/> <bbox w="80.0" h="50.0" x="24170.0" y="5470.0"/> <glyph class="unit of information" id="_ac575d96-75bb-4447-aaeb-9c98d753ce57"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24187.5" y="5465.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1648_in_sa1648"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>CASCADE:CSF2, CASCADE:IL3</p> <p>References:</p> <p>PMID:12393492, PMID:22323450</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits anf use JAK2 kinase</p> <p>PMID:23046136</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF2RB"/> <bbox w="80.0" h="50.0" x="24270.0" y="5470.0"/> <glyph class="unit of information" id="_0c3e84c1-482f-4c53-adda-7bbb02aecd74"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24287.5" y="5465.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2576_emtc_em_sa2576" 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2260_emtc_em_sa2260"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCD"/> <bbox w="54.0" h="20.0" x="5046.0" y="13595.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2137_em_sa2137" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" 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<title/> </head> <body> <p>Charge: 0</p> <p>NAME:NDUFA8:p97*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>enzymes*</p> <p>PMID:19164757</p> <p>PMID:18199748</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa513_rc_csa513"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19164757"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18199748"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:CASCADE:TGFBPMID:21498085 TGF-β1 treatment significantly upregulated LOX mRNA and protein expression in cardiac fibroblasts, as well as activity in the cell-conditioned media.The increase of LOX protein in response to TGF-β1 was prevented by inhibitors of PI3K, Smad3, p38-MAPK, JNK and ERK1/2. Blockade of PI3K also decreased TGF-β1 induced phosphorylation of Smad3, suggesting that the PI3K/Akt and Smad pathways may be integrated in TGF-β1 signaling. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:CASCADE:TGFBPMID:21498085 TGF-β1 treatment significantly upregulated LOX mRNA and protein expression in cardiac fibroblasts, as well as activity in the cell-conditioned media.The increase of LOX protein in response to TGF-β1 was prevented by inhibitors of PI3K, Smad3, p38-MAPK, JNK and ERK1/2. Blockade of PI3K also decreased TGF-β1 induced phosphorylation of Smad3, suggesting that the PI3K/Akt and Smad pathways may be integrated in TGF-β1 signaling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa668_ca_sa668"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LOX"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498085"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LOX"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LOX"/> <bbox w="70.0" h="25.0" x="5375.0" y="4237.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa145_rc_sa145" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:30031 KEGGCOMPOUND:C00042 CAS:56-14-4</p> <p>References:</p> <p>charge:2-</p> </body> </html> </notes> <label text="succinate"/> <bbox w="70.0" h="25.0" x="18240.81" y="14527.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa91_ca_csa91" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:GTP:RAC1_2*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:PDGF, CASCADE:CAV</p> <p>CASCAFE:EGF</p> <p>PMID:11747822</p> <p>Rac and Cdc42 are capable of inducing phosphorylation of Akt and that PDGF induces phosphorylation of Akt at least in part through Rac in fibroblasts.</p> <p>Expression of Rac V12 or Cdc42 V12 stimulated cell motility Figure 2 and Figure 3[14]. Coexpression of dominant-negative Akt suppressed cell motility stimulated by active Rac and Cdc42 to the basal levels (Figure 2d), suggesting that Akt is an essential downstream effector of Rac and Cdc42 in stimulating cell motility</p> <p>PMID:10753747</p> <p>Pten regulates PI3K pathway via its phosphatase activity on phosphatidylinositol (PI) 3,4,5-trisphosphate (PI(3,4,5)P3), a product of PI 3-kinase.</p> <p>Pten-deficient fibroblasts migrate faster than wild type.</p> <p> there are marked increases of the GTP-bound forms of Rac1 and Cdc42 in logarithmically growing Pten−/− cells compared to wild-type cells, although the total protein levels are not affected by the Pten status. </p> <p>similar to Akt, Rac1 and Cdc42 activation in Pten−/− cells is downstream of PI 3-kinase.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa91_ca_csa91"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11747822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10753747"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s94"/> <bbox w="90.0" h="105.0" x="5965.0" y="3034.0"/> <glyph class="simple chemical" id="s_id_ca_sa765_ca_sa765"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="5980.0" y="3086.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa766_ca_sa766"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rac family small GTPase 1</p> <p>HUGO:RAC1 hgnc_id:HGNC:9801 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 </p> <p>Rac family small GTPase 2</p> <p>HUGO:RAC2 hgnc_id:HGNC:9802 HGNC:9802 ENTREZ:5880 UNIPROT:P15153</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:PDGF, CASCADE:CAV</p> <p>CASCAFE:EGF</p> <p>PMID:17517963 </p> <p>caveolin-deficient MEFs showed a notable decrease in basal Rho activity and a significant increase in Rac and Cdc42 activity</p> <p>PMID:11747822</p> <p>Rac and Cdc42 are capable of inducing phosphorylation of Akt and that PDGF induces phosphorylation of Akt at least in part through Rac in fibroblasts.</p> <p>Expression of Rac V12 or Cdc42 V12 stimulated cell motility Figure 2 and Figure 3[14]. Coexpression of dominant-negative Akt suppressed cell motility stimulated by active Rac and Cdc42 to the basal levels (Figure 2d), suggesting that Akt is an essential downstream effector of Rac and Cdc42 in stimulating cell motility</p> <p>PMID:18423981 </p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>EGF down-regulated Rho-GTP levels in fibroblasts, giving permissive signals for Rac1 activation, fibroblast polarization, and invasion.</p> <p>PMID:21178402</p> <p> RhoA was thought to be activated mainly at the retracting tail (red) to promote tail contraction, while Rac1 was thought to be activated at the front of the cell to promote lamellipodial protrusion.</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="5970.0" y="3036.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2299_in_sa2299" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="S100A9"/> <bbox w="80.0" h="40.0" x="12960.0" y="1675.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1186_in_sa1186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="S100A8"/> <bbox w="80.0" h="40.0" x="12960.0" y="1715.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1184_in_sa1184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RAGE*"/> <bbox w="80.0" h="50.0" x="12960.0" y="1760.0"/> <glyph class="unit of information" id="_d47f2fdb-6854-45fb-ab4f-292a8b2a573c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12977.5" y="1755.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1793_emtc_em_sa1793" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1793_emtc_em_sa1793"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmocolin*"/> <bbox w="74.0" h="20.0" x="2308.0" y="16638.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1169_in_sa1169" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="FN1"/> <bbox w="70.0" h="25.0" x="14405.0" y="2332.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa38_akt1_akt1_csa38" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:4E-BP*:EIF3*:EIF4E*:M7GTP*:mRNA generic*:p70_alpha_*</p> <p>References:</p> <p>s_akt1_re65:(MAP:survival) PMID:16286006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa38_akt1_akt1_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(eIF3/mRNA)"/> <bbox w="362.0" h="147.0" x="11939.811" y="18461.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa209_akt1_akt1_sa209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E family member 2</p> <p>4EHP IF4e</p> <p>HUGO:EIF4E2 HGNC:3293 ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="M7GTP*"/> <bbox w="49.0" h="45.0" x="11946.811" y="18546.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa212_akt1_akt1_sa212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E binding protein 1</p> <p>HUGO:EIF4EBP1 HGNC:3288 ENTREZ:1978 UNIPROT:Q13541 GENECARDS:EIF4EBP1 REACTOME:84152 KEGG:1978 ATLASONC:EIF4EBP1ID40432ch8p12 WIKI:EIF4EBP1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19339977</p> <p>PMID:15314020</p> </body> </html> </notes> <label text="4E-BP*"/> <bbox w="80.0" h="40.0" x="11979.811" y="18466.0"/> <glyph class="state variable" id="_ad038e43-701e-43a0-8c90-a89ae0de8ba5"> <state value="" variable="T37"/> <bbox w="25.0" h="10.0" x="11967.311" y="18463.404"/> </glyph> <glyph class="state variable" id="_a87bae37-98ed-422e-96ee-571cce64ed30"> <state value="" variable="S65"/> <bbox w="25.0" h="10.0" x="11967.311" y="18498.484"/> </glyph> <glyph class="state variable" id="_5f59e5dd-2696-4232-9316-32342bafe7ff"> <state value="" variable="T70"/> <bbox w="25.0" h="10.0" x="12046.692" y="18501.0"/> </glyph> <glyph class="state variable" id="_79c2b12e-f364-476d-8755-31419758ea73"> <state value="" variable="T46"/> <bbox w="25.0" h="10.0" x="12047.311" y="18461.99"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa210_akt1_akt1_sa210"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E</p> <p>HUGO:EIF4E HGNC:3287 ENTREZ:1977 UNIPROT:P06730 GENECARDS:EIF4E REACTOME:72577 KEGG:1977 ATLASONC:EIF4EID40431ch4q23 WIKI:EIF4E </p> <p>eukaryotic translation initiation factor 4E family member 1B</p> <p>HUGO:EIF4E1B HGNC:33179 ENTREZ:253314 UNIPROT:A6NMX2 GENECARDS:EIF4E1B WIKI:EIF4E1B </p> <p>eukaryotic translation initiation factor 4E family member 2</p> <p>HUGO:EIF4E2 HGNC:3293 ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2 </p> <p>eukaryotic translation initiation factor 4E family member 3</p> <p>HUGO:EIF4E3 HGNC:31837 ENTREZ:317649 UNIPROT:Q8N5X7 GENECARDS:EIF4E3 REACTOME:232515 WIKI:EIF4E3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19597330</p> <p>PMID:19339977</p> </body> </html> </notes> <label text="EIF4E*"/> <bbox w="113.0" h="38.0" x="11946.811" y="18508.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa142_akt1_akt1_sa142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ribosomal protein S6 kinase 70kDa polypeptide 1</p> <p>"ribosomal protein S6 kinase 70kD polypeptide 1" STK14A</p> <p>HUGO:RPS6KB1 HGNC:10436 ENTREZ:6198 UNIPROT:P23443 GENECARDS:RPS6KB1 REACTOME:57803 KEGG:6198 ATLASONC:GC_RPS6KB1 WIKI:RPS6KB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> <p>PMID:20647036</p> </body> </html> </notes> <label text="p70α*"/> <bbox w="80.0" h="40.0" x="12143.811" y="18506.0"/> <glyph class="state variable" id="_a03127e1-df1c-4a08-b35c-e47e8e8e70dd"> <state value="" variable="T389"/> <bbox w="30.0" h="10.0" x="12208.811" y="18538.656"/> </glyph> <glyph class="state variable" id="_44055c84-2e76-477e-8396-508f3def8867"> <state value="" variable="T229"/> <bbox w="30.0" h="10.0" x="12128.811" y="18503.404"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa213_akt1_akt1_sa213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 3 subunit A</p> <p>HUGO:EIF3A HGNC:3271 ENTREZ:8661 UNIPROT:Q14152 GENECARDS:EIF3A REACTOME:72545 KEGG:3692 ATLASONC:EIF3AID40425ch10q26 WIKI:EIF3A </p> <p>eukaryotic translation initiation factor 3 subunit B</p> <p>HUGO:EIF3B HGNC:3280 ENTREZ:8662 UNIPROT:P55884 GENECARDS:EIF3B REACTOME:72541 KEGG:8662 ATLASONC:GC_EIF3B WIKI:EIF3B </p> <p>eukaryotic translation initiation factor 3 subunit C</p> <p>HUGO:EIF3C HGNC:3279 ENTREZ:8663 UNIPROT:Q99613 GENECARDS:EIF3C REACTOME:72549 KEGG:8663 ATLASONC:EIF3CID44187ch16p11 WIKI:EIF3C </p> <p>eukaryotic translation initiation factor 3 subunit D</p> <p>HUGO:EIF3D HGNC:3278 ENTREZ:8664 UNIPROT:O15371 GENECARDS:EIF3D REACTOME:72547 KEGG:8664 WIKI:EIF3D </p> <p>eukaryotic translation initiation factor 3 subunit E</p> <p>HUGO:EIF3E HGNC:3277 ENTREZ:3646 UNIPROT:P60228 GENECARDS:EIF3E REACTOME:72551 KEGG:3646 ATLASONC:GC_EIF3E WIKI:EIF3E </p> <p>eukaryotic translation initiation factor 3 subunit F</p> <p>HUGO:EIF3F HGNC:3275 ENTREZ:8665 UNIPROT:O00303 GENECARDS:EIF3F REACTOME:72539 KEGG:8665 ATLASONC:EIF3FID44407ch11p15 WIKI:EIF3F </p> <p>eukaryotic translation initiation factor 3 subunit G</p> <p>HUGO:EIF3G HGNC:3274 ENTREZ:8666 UNIPROT:O75821 GENECARDS:EIF3G REACTOME:72537 KEGG:8666 WIKI:EIF3G </p> <p>eukaryotic translation initiation factor 3 subunit H</p> <p>HUGO:EIF3H HGNC:3273 ENTREZ:8667 UNIPROT:O15372 GENECARDS:EIF3H REACTOME:72543 KEGG:8667 ATLASONC:GC_EIF3H WIKI:EIF3H </p> <p>eukaryotic translation initiation factor 3 subunit I</p> <p>HUGO:EIF3I HGNC:3272 ENTREZ:8668 UNIPROT:Q13347 GENECARDS:EIF3I REACTOME:72535 KEGG:8668 ATLASONC:GC_EIF3I WIKI:EIF3I </p> <p>eukaryotic translation initiation factor 3 subunit J</p> <p>HUGO:EIF3J HGNC:3270 ENTREZ:8669 UNIPROT:O75822 GENECARDS:EIF3J REACTOME:72533 KEGG:8669 WIKI:EIF3J </p> <p>eukaryotic translation initiation factor 3 subunit K</p> <p>HUGO:EIF3K HGNC:24656 ENTREZ:27335 UNIPROT:Q9UBQ5 GENECARDS:EIF3K REACTOME:72553 KEGG:27335 ATLASONC:GC_EIF3K WIKI:EIF3K </p> <p>eukaryotic translation initiation factor 3 subunit L</p> <p>HUGO:EIF3L HGNC:18138 ENTREZ:51386 UNIPROT:Q9Y262 GENECARDS:EIF3L KEGG:51386 WIKI:EIF3L </p> <p>eukaryotic translation initiation factor 3 subunit M</p> <p>HUGO:EIF3M HGNC:24460 ENTREZ:10480 UNIPROT:Q7L2H7 GENECARDS:EIF3M KEGG:10480 ATLASONC:GC_EIF3M WIKI:EIF3M</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <label text="EIF3*"/> <bbox w="80.0" h="40.0" x="12061.811" y="18506.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt1_sa205_akt1_akt1_sa205"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:PI3K_AKT_MTOR ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR </body> </html> </notes> <label text="mRNA generic*"/> <bbox w="318.0" h="29.0" x="11972.811" y="18548.5"/> <glyph class="unit of information" id="_06a4f70c-6bd8-4ee2-9129-fd073b329c1c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12121.811" y="18543.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1812_emtc_em_sa1812" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1812_emtc_em_sa1812"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT1"/> <bbox w="41.0" h="18.0" x="5362.5" y="15649.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa210_wca1_wca2_sa210" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa210_wca1_wca2_sa210"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:USP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="USP8"/> <bbox w="80.0" h="40.0" x="25012.06" y="19374.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4421_rc_sa4421" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> <p>PMID:23846383</p> <p>PMID:27048813</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4421_rc_sa4421"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048813"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Stress"/> <bbox w="80.0" h="30.0" x="27551.56" y="11616.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa796_ad_sa796" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:PD1</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16982858</p> <p>An additional level of regulation is provided by phosphatase and tensin homolog deleted on chromosome 10 (PTEN) (13), which does not act on PI3K directly, but rather dephosphorylates PIP3 on the 3′ position to regenerate PIP2, thus limiting the amount of available PI3K product</p> <p>PTEN-deficient CD4+ T cells are hyperresponsive to TCR stimulation.</p> <p>Augmented response of PTENΔT T cells is correlated with enhanced activation of the PI3K pathway </p> <p>PTEN regulates anergy induction in vitro and in vivo</p> <p>PMID:23732914 </p> <p>during T cell receptor (TCR)/CD3- and CD28-mediated stimulation, PTEN is phosphorylated by casein kinase 2 (CK2) in the Ser380-Thr382-Thr383 cluster within the C-terminal regulatory domain, which stabilizes PTEN, resulting in increased protein abundance but suppressed PTEN phosphatase activity. PD-1 inhibited the stabilizing phosphorylation of the Ser380-Thr382-Thr383 cluster within the C-terminal domain of PTEN, thereby resulting in ubiquitin-dependent degradation and diminished abundance of PTEN protein but increased PTEN phosphatase activity.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa796_ad_sa796"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16982858"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23732914"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <bbox w="80.0" h="40.0" x="29826.0" y="3635.0"/> <glyph class="state variable" id="_a4444133-250d-450c-bf0f-377fa45486a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29821.0" y="3650.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa10_mo_csa10" compartmentRef="s_id_mo_ca6_mo_ca6"> <label text="ULBP2/HSP60*"/> <bbox w="100.0" h="120.0" x="6221.0" y="9775.0"/> <glyph class="macromolecule" id="s_id_mo_sa390_mo_sa390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family D (Hsp60) member 1 </p> </body> </html> </notes> <label text="HSP60*"/> <bbox w="80.0" h="40.0" x="6231.0" y="9835.0"/> <glyph class="state variable" id="_b631c26e-a899-44c7-a24e-d2f946773c94"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6282.5684" y="9830.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa389_mo_sa389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>UL16 binding protein 2 </p> </body> </html> </notes> <label text="ULBP2"/> <bbox w="80.0" h="40.0" x="6231.0" y="9785.0"/> <glyph class="state variable" id="_5bba6629-ea7d-4676-8996-7e2bdf47fd06"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6282.5684" y="9780.0"/> </glyph> <glyph class="state variable" id="_3172cb41-812f-411f-bb51-5b1ca1db608d"> <state value="" variable="GPI"/> <bbox w="25.0" h="10.0" x="6242.095" y="9780.0"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4858_rc_sa4858" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:17991856</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4858_rc_sa4858"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26587781"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17991856"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Persistant ER Stress"/> <bbox w="170.0" h="25.0" x="28237.967" y="13376.5"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc1_sa711_wnc1_wnc1_sa711" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Cell contraction"/> <bbox w="80.0" h="30.0" x="14878.061" y="18796.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa971_ca_sa971" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:19509166 </p> <p>FGFR2, WNT2, WNT5A, WISP1, MMP1, MMP10, IGFBP2, IL8, FZD9, CD14, IL32, CXCL14, PKP2 are upregulated in CAFs, ISL1, HIST1H4K, BRCA2, BRCA1, CCNA2, CCNB2, and CDC2 are downregulated</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa971_ca_sa971"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19509166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP10"/> <clone/> <bbox w="80.0" h="40.0" x="5340.0" y="4590.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa971_emtc_em_sa2201" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:19509166 </p> <p>FGFR2, WNT2, WNT5A, WISP1, MMP1, MMP10, IGFBP2, IL8, FZD9, CD14, IL32, CXCL14, PKP2 are upregulated in CAFs, ISL1, HIST1H4K, BRCA2, BRCA1, CCNA2, CCNB2, and CDC2 are downregulated</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa971_emtc_em_sa2201"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19509166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP10"/> <clone/> <bbox w="46.0" h="20.0" x="2602.0" y="17433.75"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa971_mo_sa321" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:19509166 </p> <p>FGFR2, WNT2, WNT5A, WISP1, MMP1, MMP10, IGFBP2, IL8, FZD9, CD14, IL32, CXCL14, PKP2 are upregulated in CAFs, ISL1, HIST1H4K, BRCA2, BRCA1, CCNA2, CCNB2, and CDC2 are downregulated</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa971_mo_sa321"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19509166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP10"/> <clone/> <bbox w="80.0" h="40.0" x="4467.0" y="11394.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2169_em_sa2169" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MAPK6"/> <bbox w="51.0" h="20.0" x="3097.0" y="16402.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3290_rc_sa3290" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3290_rc_sa3290"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKBIA"/> <bbox w="80.0" h="40.0" x="23463.56" y="10231.0"/> <glyph class="state variable" id="_93100ac5-de48-4a91-a778-26d4707ce6da"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23512.629" y="10226.0"/> </glyph> <glyph class="state variable" id="_645d1eef-9920-4c94-8bbe-222076429de6"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="23476.992" y="10226.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa22_wnc1_wnc3_sa22" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa22_wnc1_wnc3_sa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUN"/> <clone/> <bbox w="80.0" h="40.0" x="15181.561" y="21000.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa22_wnc1_wnc1_sa649" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa22_wnc1_wnc1_sa649"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUN"/> <clone/> <bbox w="40.0" h="20.0" x="15667.061" y="18486.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa117_rc_csa117" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ENO1:N1ICD*</p> </body> </html> </notes> <label text="ENO1:N1ICD"/> <bbox w="100.0" h="120.0" x="23111.56" y="16654.0"/> <glyph class="macromolecule" id="s_id_rc_sa1275_rc_sa1275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>enolase 1, (alpha)</p> <p>HUGO:ENO1 HGNC:3350 ENTREZ:2023 UNIPROT:P06733</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="ENO1"/> <bbox w="80.0" h="40.0" x="23121.56" y="16664.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1276_rc_sa1276"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>notch 1</p> <p>HUGO:NOTCH1 HGNC:7881 ENTREZ:4851 UNIPROT:P46531</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> <p>References:</p> <p>proteolytically activated NOTCH1</p> </body> </html> </notes> <label text="N1ICD*"/> <bbox w="80.0" h="40.0" x="23121.56" y="16704.0"/> <glyph class="unit of information" id="_8ad3c396-e4dd-41ee-a7eb-5e633d4a8caf"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23136.56" y="16699.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa203_mo_sa203" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>keratin 8</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa203_mo_sa203"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT8"/> <bbox w="80.0" h="40.0" x="5117.0" y="11711.0"/> <glyph class="state variable" id="_6b799556-304a-462a-a48b-ac10bededb24"> <state value="P" variable="S73"/> <bbox w="30.0" h="10.0" x="5125.595" y="11706.0"/> </glyph> <glyph class="state variable" id="_e2ededd1-92ef-43c8-a76d-f4aaef089e5a"> <state value="P" variable="S431"/> <bbox w="35.0" h="10.0" x="5156.449" y="11706.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa54_ce_csa54" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BRCA2:DSS1*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="BRCA2/DSS1*"/> <bbox w="96.0" h="111.0" x="14885.473" y="15886.356"/> <glyph class="macromolecule" id="s_id_ce_sa601_ce_sa601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 2, early onset, FANCD1</p> <p>HUGO:BRCA2, HGNC:1101, ENTREZ:675, UNIPROT:P51587</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="BRCA2"/> <bbox w="80.0" h="40.0" x="14891.649" y="15891.588"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa602_ce_sa602"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>split hand/foot malformation (ectrodactyly) type 1</p> 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rdf:resource="urn:miriam:hgnc.symbol:ATP6AP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP6AP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRR*"/> <clone/> <bbox w="80.0" h="40.0" x="17092.06" y="18991.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa490_rc_csa490" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CHUK:IKBKB:IKBKG</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>kinase</p> <p>PMID:23430059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<p>PMID:23430059</p> <p>IKBK-alpha</p> <p>synonym:IKBKA synonym:IKK_alpha_</p> </body> </html> </notes> <label text="CHUK"/> <bbox w="80.0" h="40.0" x="27679.06" y="14084.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5111_rc_sa5111"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of nuclear factor kappa B kinase subunit beta</p> <p>HUGO:IKBKB hgnc_id:HGNC:5960 HGNC:5960 ENTREZ:3551 UNIPROT:O14920</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="IKBKB"/> <bbox w="80.0" h="40.0" x="27679.06" y="14124.0"/> <glyph class="state variable" id="_feae26a2-57da-4fcf-9009-d1aa67860230"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27674.06" y="14139.0"/> </glyph> <glyph class="state variable" id="_37c84edd-3233-4281-871d-ea2716ce2075"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27754.06" y="14139.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5112_rc_sa5112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma</p> <p>HUGO:IKBKG HGNC:5961 ENTREZ:8517 UNIPROT:Q9Y6K9</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>NEMO</p> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="27679.06" y="14164.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1366_emtc_em_sa1366" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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text="CD36"/> <clone/> <bbox w="80.0" h="50.0" x="16112.5" y="1295.0"/> <glyph class="unit of information" id="_161829cf-7970-471a-a8f3-1677f9be1e7e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16130.0" y="1290.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa14_in_sa2362" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD36"/> <clone/> <bbox w="80.0" h="50.0" x="8970.0" y="5470.0"/> <glyph class="unit of information" id="_d4e09456-29b9-4648-af22-f7124186931e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8987.5" y="5465.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa475_rc_csa475" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2-XL*:Cleaved ATG5*</p> </body> </html> </notes> <label text="BCL2-XL:Cleaved ATG5*"/> <bbox w="100.0" h="120.0" x="29224.56" y="10961.5"/> <glyph 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="16735.0" y="4317.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa268_ce_sa268" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0MMR:DNA:st4DNA with newly synthesized un-ligated DNA fragmentNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:MMR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0MMR:DNA:st4DNA with newly synthesized un-ligated DNA fragmentNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:MMR </body> </html> </notes> <label text="MMR_DNA_st4*"/> <bbox w="120.0" h="26.0" x="10994.961" y="16281.988"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5347_rc_sa5347" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="3-P-serine"/> <bbox w="70.0" h="25.0" x="26016.56" y="10005.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1945_rc_sa1945" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1945_rc_sa1945"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~AIFM1*"/> <bbox w="80.0" h="40.0" x="18521.56" y="16124.0"/> <glyph class="state variable" id="_7fe5d392-5681-440f-9e56-7d226833de11"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18573.129" y="16119.0"/> </glyph> <glyph class="unit of information" id="_dae5209a-24bd-46dd-87ff-b490c93a5483"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18536.56" y="16119.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa237_emtc_em_csa237" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC42:GTP:PAR6*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:10873802</p> <p>PARD6 contains a PDZ domain and a Cdc42/Rac interactive binding (CRIB) motif</p> <p>PARD6 interacts with Rac1 and Cdc42 in a GTP-dependent manner</p> <p>PMID:10934475</p> <p>PARD6 binds to Cdc42/Rac1 GTPases</p> <p>PMID:10954424</p> <p>PARD6 is a binding partner for the Rho GTPases Cdc42 and Rac1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa237_emtc_em_csa237"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10873802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10934475"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10954424"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC42_GTP/PARD6*"/> <bbox w="122.0" h="64.0" x="6596.0" y="14924.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1539_emtc_em_sa1539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 42</p> <p>HUGO:CDC42, HGNC:1736, ENTREZ:998, UNIPROT:P60953, GENECARDS:GC01P022379</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 is a member of the RAS superfamily of small GTPases and plays an essential role in control of cell polarity, actin cytoskeleton rearrangements, protein traffickinf and directed cell movements.</p> <p>PMID:10934474</p> <p>PMID:11248548</p> <p>PMID:11340065</p> <p>PMID:15003621</p> <p>CDC42 and cell polarity:</p> <p>PMID:15020669</p> <p>CDC42 functions in vivo:</p> <p>PMID:18719708</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDC42"/> <bbox w="45.0" h="19.0" x="6616.5" y="14928.5"/> <glyph class="state variable" id="_ace75524-aec9-4464-8b9c-1ddd29e4c92a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6656.5" y="14923.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1538_emtc_em_sa1538"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6659.5" y="14927.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1540_emtc_em_sa1540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6</p> <p>par-6 partitioning defective 6 homolog beta (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog beta"</p> <p>HUGO:PARD6B HGNC:16245 ENTREZ:84612 UNIPROT:Q9BYG5</p> <p>par-6 partitioning defective 6 homolog gamma (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog gamma"</p> <p>HUGO:PARD6G HGNC:16076 ENTREZ:84552 UNIPROT:Q9BYG4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="60.0" h="20.0" x="6631.5" y="14948.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa300_rc_csa300" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1"/> <clone/> <bbox w="100.0" h="170.0" x="27219.06" y="11699.0"/> <glyph class="macromolecule" id="s_id_rc_sa2574_rc_sa2574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <clone/> <bbox w="80.0" h="40.0" x="27229.06" y="11799.0"/> <glyph class="state variable" id="_b873a598-1886-44af-9f02-7d35b8c400e8"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="27244.992" y="11834.0"/> </glyph> <glyph class="state variable" id="_4451402c-6308-4e86-af91-840b3091bd77"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="27271.01" y="11794.0"/> </glyph> <glyph class="state variable" id="_7301fe07-f5bf-4202-804e-ae5b4fa7e534"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="27237.656" y="11794.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2573_rc_sa2573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <clone/> <bbox w="80.0" h="40.0" x="27229.06" y="11749.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2575_rc_sa2575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <clone/> <bbox w="80.0" h="40.0" x="27229.06" y="11709.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa300_rc_csa93" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1"/> <clone/> <bbox w="102.0" h="171.0" x="27407.56" y="11698.5"/> <glyph class="macromolecule" id="s_id_rc_sa2574_rc_sa1115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <clone/> <bbox w="80.0" h="40.0" x="27419.06" y="11799.0"/> <glyph class="state variable" id="_70673843-8d8c-4630-bc73-556e6c6b10e4"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="27434.992" y="11834.0"/> </glyph> <glyph class="state variable" id="_272018ba-63c4-4d69-8583-14a7c54f962a"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="27461.01" y="11794.0"/> </glyph> <glyph class="state variable" id="_2869f8ff-d439-46fb-b713-77621e238bc7"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="27427.656" y="11794.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2573_rc_sa1114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <clone/> <bbox w="80.0" h="40.0" x="27419.06" y="11749.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2575_rc_sa1116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <clone/> <bbox w="80.0" h="40.0" x="27414.56" y="11704.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa218_an_sa218" compartmentRef="s_id_an_ca1_an_ca1"> <label text="PPAP2C"/> <bbox w="80.0" h="40.0" x="4132.0" y="6715.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa117_ce_csa117" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycE*"/> <clone/> <bbox w="97.0" h="106.0" x="11227.473" y="9009.356"/> <glyph class="macromolecule" id="s_id_ce_sa783_ce_sa783"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1, HGNC:1589, ENTREZ:898, UNIPROT:P24864</p> <p>cyclin E2</p> <p>HUGO:CCNE2, HGNC:1590, ENTREZ:9134, UNIPROT:O96020</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinE*"/> <clone/> <bbox w="80.0" h="40.0" x="11238.973" y="9013.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa784_ce_sa784"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <clone/> <bbox w="80.0" h="40.0" x="11237.973" y="9054.356"/> <glyph class="state variable" id="_0e00345d-c488-4f69-b2ca-aef46bdd14b7"> <state value="P" variable="T160"/> <bbox w="35.0" h="10.0" x="11220.473" y="9069.324"/> </glyph> <glyph class="state variable" id="_38aa9869-0004-41d8-aff5-56ee496f4a69"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="11237.798" y="9049.356"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa117_ce_csa130" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycE*"/> <clone/> <bbox w="97.0" h="110.0" x="11530.473" y="9009.356"/> <glyph class="macromolecule" id="s_id_ce_sa783_ce_sa813"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1, HGNC:1589, ENTREZ:898, UNIPROT:P24864</p> <p>cyclin E2</p> <p>HUGO:CCNE2, HGNC:1590, ENTREZ:9134, UNIPROT:O96020</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinE*"/> <clone/> <bbox w="80.0" h="40.0" x="11541.973" y="9016.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa784_ce_sa814"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <clone/> <bbox w="80.0" h="40.0" x="11540.973" y="9057.356"/> <glyph class="state variable" id="_2e987bad-8eb5-406e-82c1-b292bc758b3a"> <state value="P" variable="T160"/> <bbox w="35.0" h="10.0" x="11523.473" y="9072.324"/> </glyph> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa437_an_sa103"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <clone/> <bbox w="80.0" h="40.0" x="7098.0" y="6651.0"/> <glyph class="state variable" id="_162cc265-9cc6-4eb9-be5b-2a9fe0b36850"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7090.5" y="6666.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa437_an_sa353" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" 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y="6405.0"/> <glyph class="state variable" id="_d42451ea-c10d-4e0c-90a6-cd355f7da884"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5444.5" y="6420.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa357_rc_csa357" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NFKB1_p50*:RELA</p> </body> </html> </notes> <label text="RELA:p50"/> <bbox w="108.0" h="130.0" x="23937.81" y="16499.0"/> <glyph class="macromolecule" id="s_id_rc_sa3312_rc_sa3312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-rel reticuloendotheliosis viral oncogene homolog A (avian)</p> <p>HUGO:RELA HGNC:9955 ENTREZ:5970 UNIPROT:Q04206</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="23951.56" y="16554.0"/> <glyph class="state variable" id="_edc31451-e172-4cdf-8961-5609a4fdd545"> <state value="" variable="T254"/> <bbox w="30.0" h="10.0" x="23992.482" y="16589.0"/> </glyph> <glyph class="state variable" id="_17e8fa70-f949-4f38-8278-1da2913dc926"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23969.992" y="16589.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3313_rc_sa3313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of kappa light polypeptide gene enhancer in B-cells 1</p> <p>HUGO:NFKB1 HGNC:7794 ENTREZ:4790 UNIPROT:P19838</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="23951.56" y="16514.0"/> <glyph class="unit of information" id="_cbc08a7e-0612-4e2a-ab34-04a98d6986fd"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23966.56" y="16509.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4416_rc_sa4416" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4416_rc_sa4416"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UVRAG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UVRAG"/> <clone/> <bbox w="80.0" h="40.0" x="27901.56" y="11281.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4416_rc_sa4630" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4416_rc_sa4630"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UVRAG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UVRAG"/> <clone/> <bbox w="80.0" h="40.0" x="25046.06" y="15866.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa882_ca_sa882" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:21178402</p> <p>Activation of LIMK by ROCK has been linked to the phosphoregulation of ADF/cofilin.52,54–56 ADF/cofilin has been shown to be one of the key regulators of actin severing, nucleation and capping within the protrusive machinery</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa882_ca_sa882"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIMK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21178402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK1"/> <clone/> <bbox w="80.0" h="40.0" x="6700.0" y="3870.0"/> <glyph class="state variable" id="_8bbe9965-8650-45b4-97aa-35a70880b780"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6695.0" y="3885.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa882_emtc_em_sa1030" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:21178402</p> <p>Activation of LIMK by ROCK has been linked to the phosphoregulation of ADF/cofilin.52,54–56 ADF/cofilin has been shown to be one of the key regulators of actin severing, nucleation and capping within the protrusive machinery</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa882_emtc_em_sa1030"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIMK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21178402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK1"/> <clone/> <bbox w="42.0" h="18.0" x="5354.5" y="14981.5"/> <glyph class="state variable" id="_40dbb5ad-cc72-47ea-bdfd-1f6656e1b3f1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5349.5" y="14985.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa54_wca1_wca1_csa54" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:Iversin*</p> <p>References:</p> <p>s_wca1_re53:(MAP:survival) PMID:15852005</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa54_wca1_wca1_csa54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15852005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:Iversin*"/> <bbox w="100.0" h="120.0" x="20373.06" y="18724.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa532_wca1_wca1_sa532"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inversin</p> <p>HUGO:INVS HGNC:17870 ENTREZ:27130 UNIPROT:Q9Y283 GENECARDS:INVS KEGG:27130 WIKI:INVS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Iversin*"/> <bbox w="80.0" h="40.0" x="20382.06" y="18737.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa533_wca1_wca1_sa533"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="20382.06" y="18780.0"/> <glyph class="state variable" id="_06e75d8e-d258-43a1-bab1-b9e95a77f745"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20457.06" y="18775.0"/> </glyph> <glyph class="state variable" id="_27f42f39-8958-4341-b595-d3c2298e3927"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="20367.06" y="18814.72"/> </glyph> <glyph class="state variable" id="_21169c89-a859-490b-a3b2-bf44070b23c0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20377.064" y="18775.0"/> </glyph> <glyph class="state variable" id="_c969900e-1615-4cee-892c-c236f95cbb6a"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="20446.441" y="18815.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa876_emtc_em_sa876" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa876_emtc_em_sa876"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PROK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EG-VEGF*"/> <bbox w="60.0" h="20.0" x="5399.0" y="17342.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1350_in_sa1350" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CSF2"/> <bbox w="70.0" h="25.0" x="20171.25" y="5212.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa392_te_sa392" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulator of telomere elongation helicase 1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa392_te_sa392"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RTEL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RTEL1"/> <bbox w="80.0" h="40.0" x="3096.06" y="21755.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1446_ce_sa1446" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>TLS:DNA:st1DNA with AP site or ICL or intrastrand crosslinks. These lesions resulting in stalled replication fork, resolved by TLS during DNA replication. Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:TLSReferences:PMID:22258607, PMID:22918414, PMID:21701511, PMID:23637285, PMID:23892398UV double strand damage is repaired by TLS (ICL or intrastrand crosslinks)PMID:22521143For activation of TLS by cross-linking agentsPMID:20015866, PMID:15155842, PMID:22122464, PMID:23106263 ----- content merged by Celldesigner to SBGN-ML translation ------ TLS:DNA:st1DNA with AP site or ICL or intrastrand crosslinks. These lesions resulting in stalled replication fork, resolved by TLS during DNA replication. Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:TLSReferences:PMID:22258607, PMID:22918414, PMID:21701511, PMID:23637285, PMID:23892398UV double strand damage is repaired by TLS (ICL or intrastrand crosslinks)PMID:22521143For activation of TLS by cross-linking agentsPMID:20015866, PMID:15155842, PMID:22122464, PMID:23106263 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1446_ce_sa1446"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23637285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22521143"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20015866"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15155842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22122464"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23106263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23637285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22521143"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20015866"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15155842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22122464"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23106263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TLS_DNA_st1*"/> <bbox w="120.0" h="26.0" x="16648.768" y="15396.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa119_ad_csa119" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24560716</p> <p>Following TCR stimulation, CARMA1 is phosphorylated by PKCθ, and this phosphorylation results in a conformational change that enable CARMA1 to associate with BCL10 [15], [16] and [17] and MALT1, a protein with paracaspase proteolitic activity required for NF-κB activation also involved in MALT lymphomas [18]. Correct assembly of the CBM complex is believed to be anessential step for triggering the subsequent events that lead to activation of NF-κB following antigen receptor stimulation. </p> <p>The exact mechanism by which the CBM complex activates NF-κB is still unknown. The CBM complex most likely serves as a molecular platform to recruit signaling components responsible for K63-linked polyubiquitination of NEMO, a regulatory subunit of the IKK complex that is responsible for activation of NF-κB [19] and [20]. Evidence for scaffolding filamentous assembly structures involving BCL10 and CARMA1 first came from cell microscopy observations, subsequently confirmed by structural studies [21] and [22]. Indeed, activation of the IKK complex is not only dependent on IKK phosphorylation but also on CARMA1-dependent recruitment and non-degradative ubiquitination of NEMO [19], [20] and [23]. The importance of the ubiquitination events for the CBM-dependent activation of NF-κB is furthermore underlined by the fact that enzymatic deubiquitinases such as A20 significantly inhibits activation of NF-κB mediated by the CBM complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa119_ad_csa119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24560716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s5148"/> <bbox w="130.0" h="190.0" x="28951.0" y="4850.0"/> <glyph class="macromolecule" id="s_id_ad_sa967_ad_sa967"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CARD11</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12356734</p> <p>CARD11(CARMA1) mediates NF-kappaB activation by alphaCD3/alphaCD28 cross-linking.</p> <p>CARD11 functions upstream of the IKK complex. </p> <p> wild‐type CARD11 co‐precipitating with endogenous Bcl10</p> <p>CARMA1 only expresses in lymphocytes</p> <p>PMID:20685844 </p> <p>CARMA1, a critical target of PKCθ phosphorylation, resides in lymphocytes in an inactive state. Extensive CARMA1 mutagenesis data suggest that this inactive state is maintained by intramolecular interactions that prevent the CARMA1 CARD from interacting with the CARD of BCL10 12 and 13. PKCθ phosphorylates human CARMA1 at three serine residues, S552, S645 and S637 (S564, S657, S649 in mice)</p> <p>PMID:11356195; PMID:17052756; PMID:21199863 </p> <p>CARMA1 induces BCL10 phosphorylation via CaMKII </p> <p>PMID:16809782;PMID:17052756 </p> <p>In the immune synapse, CaMKII phosphorylates Carma1 on Ser109 and the phosphorylation increases the interaction between Carma1 and Bcl10.</p> <p>Carma1/Bcl10/Malt1 complex induces NF-κB activation (Sun et al., 2004). Accordingly based on the findings in the present study, CaMKII phosphorylates Bcl10 on Ser138 while IKKβ phosphorylates residues Ser134, 136, 138, 141 and 144 (Wegener et al., 2006). Phosphorylation of Bcl10 disrupts Bcl10/Malt1 association (Wegener et al., 2006), and attenuates NF-κB activation.</p> <p>PMID:17363905 </p> <p>PKC-θ regulates TGF-β–activated kinase 1 (TAK1), a member of the MAPKK kinase family, leading to activation of IKK and NF-κB in a CARMA1-independent manner in the TCR pathway</p> <p>TAK1 activation was significantly inhibited with the pretreatment of the PKC inhibitor in both Jurkat and JPM50.6 cells (Figure 6A, lower panels). Together, these results suggest that PKC functions upstream of TAK1 and TAK1 regulates IKKα/β phosphorylation in the TCR signaling pathway.</p> <p>PKCθ, TAK1, and IKK assemble into a complex in a signal‐dependent but CARMA1‐independent manner, whereas BCL10 and MALT1 require CARMA1 to associate with the PKCθ–TAK1–IKK complex. Together, our results suggest a model in which TAK1 functions downstream of PKC and phosphorylates IKKα/β in a CARMA1‐independent manner, and, together with CARMA1‐dependent ubiquitination of NEMO, leads to activation of the IKK complex and NF‐κB in antigen receptor signaling pathways</p> <p>CARMA1 is essential for the ubiquitination of NEMO</p> </body> </html> </notes> <label text="CARD11"/> <bbox w="80.0" h="40.0" x="28971.0" y="4970.0"/> <glyph class="state variable" id="_344da66e-8325-420d-939e-c34680ecfce5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28963.5" y="4985.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa969_ad_sa969"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>HUGO:BCL10</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18264101 </p> <p>Lymphocyte activation induces a smaller Bcl-10 isoform downstream of CD3 and CD28</p> <p>Formation of the faster migrating Bcl-10 isoform depends on its recruitment by CARMA1 and on the formation of CARMA1 oligomers.</p> <p>activation of the NF-B pathway by antigen-presenting cells or by drugs that mimic the antigen receptor signal does not require MALT1-dependent cleavage of Bcl-10 but most likely depends on other MALT1 substrates.</p> <p>After activation with either anti-CD3 and anti-CD28 or PMA, cells expressing the R228G mutant had less adhesion to fibronectin than did cells expressing wild-type Bcl-10</p> <p>(. In Jurkat T cells, adhesion to the 1 ligand fibronectin is mediated mainly by the integrin a4b1, with a minor contribution from a5b1)</p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>In the CARMA1–Bcl-10–MALT1 signaling complex, Bcl-10 acts as an adaptor protein that binds, through its caspase-recruitment domain (CARD), to the CARD motif of CARMA1 (refs. 6,7,8,9,10,11,12); this interaction leads to the recruitment of MALT1 and/or the stabilization of the MALT1-CARMA1 interaction13, 14, 15. The formation of the CARMA1–Bcl-10–MALT1 complex is central to antigen receptor–mediated activation of the NF-B pathway and thereby controls the antigen receptor–induced expression and secretion of cytokines that are essential for lymphocyte proliferation</p> <p>PMID:11356195; PMID:17052756 </p> <p>CARMA1 induces BCL10 phosphorylation (data from non immune cells)</p> <p>Phosphorylation of Bcl10 at S138 Negatively Regulates T-Cell Receptor-Mediated NF-κB Activation.</p> <p>CaMKII phosphorylates Bcl10 on Ser138. Furthermore, a CaMKII inhibitor, KN93, and CaMKII siRNA substantially reduce Bcl10 phosphorylation induced by phorbol myristate acetate/ionomycin. S138A mutation prolongs Bcl10-induced NF-κB activation, suggesting that Bcl10 phosphorylation is involved in attenuation of NF-κB activation.</p> <p>Phosphorylation of Bcl10, especially at Ser138, has been linked to a signal-induced degradation of Bcl10. </p> <p>PMID:16818229 </p> <p>IKK2 (IKBKB) phoshorylates BCL10 downstream of TCR.</p> <p>Mutation of the IKKbeta phosphorylation sites on Bcl10 enhances expression of NF-kappaB target genes IL-2 and TNFalpha after activation of primary T cells.</p> <p>PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> <p>Mechanistically, the positive effect of calcineurin on the CBM complex formation seems to be linked to a dephosphorylation of Bcl10. </p> <p>PMID:17462996</p> </body> </html> </notes> <label text="BCL10"/> <bbox w="80.0" h="40.0" x="28971.0" y="4910.0"/> <glyph class="state variable" id="_4c2bb08c-5182-40d9-858f-353d65871525"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28966.0" y="4925.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa968_ad_sa968"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>HUGO:MALT1</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21873235 </p> <p>Malt1 cleaved the NF-κB family member RelB after Arg-85. RelB cleavage induced its proteasomal degradation and specifically controlled DNA binding of RelA- or c-Rel–containing NF-κB complexes.</p> <p>PMID:18264101 </p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>PMID:17948050</p> <p>TRAF6 associates with Malt1 in response to T-cell activation and can function as an E3 ligase for Malt1 in vitro and in vivo, mediating lysine 63-linked ubiquitination of Malt1.</p> </body> </html> </notes> <label text="MALT1"/> <bbox w="80.0" h="40.0" x="28971.0" y="4860.0"/> <glyph class="state variable" id="_243ce55f-8593-40b8-a341-0c530e0a7328"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="28961.0" y="4875.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1174_ad_sa1174" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:20634814</p> <p>Following antigen recognition and proximal signalling events, cytotoxic granules are polarized towards the cytotoxic T lymphocyte (CTL)–target cell contact site where the immunological synapse forms. Actin filaments are cleared away from the site of secretion (not shown). Mature cytotoxic granules dock at the plasma membrane through the interaction of RAB27a with synaptotagmin-like protein 1 (SLP1) or SLP2. In addition, cytotoxic granules interact with a docking complex of MUNC18-2 and syntaxin 11 in the closed conformation. Docked vesicles are then primed by MUNC13-4, which probably triggers the switch of syntaxin 11 from a closed to an open conformation. A SNARE (soluble N-ethylmaleimide-sensitive factor accessory protein receptor) complex then forms between a vesicle membrane SNARE, possibly vesicle-associated membrane protein 7 (VAMP7) and/or VAMP8, on one side and the target membrane SNAREs syntaxin 11 and SNAP23 (synaptosomal-associated protein of 23 kDa), on the other side. Completion of the fusion reaction occurs when MUNC18-2 clasps across the zippering four-helix SNARE complex bundle.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1174_ad_sa1174"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UNC13D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20634814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UNC13D"/> <bbox w="80.0" h="40.0" x="29406.0" y="7755.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1101_in_sa1101" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20644162, 12496409, 26819959, 17476345, 12193690 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MDSC</p> <p>MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTION</p> <p>CASCADE:LACTIC, CASCADE:TGFB, CASCADE:MIF</p> <p>References:</p> <p>PMID:12193690, PMID:17476345</p> <p>A hallmark of 'alternative activation' (M2) of macrophages</p> <p> is high arginase activity, which competes with inducible NO</p> <p> synthase for L-arginine, the common substrate</p> <p>of both enzymes. ARG1 activation has been regarded as one of</p> <p>the most specific markers of M2 macrophages.</p> <p>PMID:20644162</p> <p>Human MDSC express AGR1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:26819959</p> <p>TANs (G-MDSC) produced much more ARG1 and ROS than autologous neutrophils and inhibited proliferation of activated autologous T cells and IFN-g productionReferences_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34A"/> <clone/> <bbox w="80.0" h="20.0" x="3757.5" y="17532.834"/> <glyph class="unit of information" id="_f65b5232-cb84-4e7c-ac76-dc1223195c1f"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.5" y="17527.834"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa721_wca1_wca3_sa169" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa721_wca1_wca3_sa169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34A"/> <clone/> <bbox w="90.0" h="25.0" x="20919.06" y="22235.5"/> <glyph class="unit of information" id="_2401d2fa-3d1b-46f0-9ab6-7f51c4394cf2"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20949.06" y="22230.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa42_wnc1_wnc2_csa42" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD*:ROR2:WNT3</p> <p>References:</p> <p>s_wnc2_re73:(MAP:survival) PMID:18762249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa42_wnc1_wnc2_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18762249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD*:ROR2:WNT3"/> <bbox w="98.0" h="139.0" x="17345.06" y="19712.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa224_wnc1_wnc2_sa224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="17354.06" y="19731.5"/> <glyph class="state variable" id="_832adc4b-729b-4636-b493-c5def77275c6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17346.564" y="19726.5"/> </glyph> <glyph class="state variable" id="_70972c18-69c7-450a-8ef4-b61507648960"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17429.06" y="19776.5"/> </glyph> <glyph class="state variable" id="_64a694c2-680c-4d30-8b71-8c02bb0d60ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17389.06" y="19776.5"/> </glyph> <glyph class="state variable" id="_83a7fdc1-9ef4-4dd0-8431-d2ea0fe52a52"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="17419.06" y="19726.766"/> </glyph> <glyph class="unit of information" id="_dd99190a-0468-487e-87e1-279e563c098e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17371.56" y="19726.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa236_wnc1_wnc2_sa236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family, member 3</p> <p>INT4</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3</p> <p>Map modules:</p> </body> </html> </notes> <label text="WNT3"/> <bbox w="40.0" h="22.0" x="17375.06" y="19720.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa237_wnc1_wnc2_sa237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17355.06" y="19773.5"/> <glyph class="unit of information" id="_3410ac95-16fb-4722-a779-bd0cff216903"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17372.56" y="19768.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa49_an_sa49" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. Although Ang2 is a weaker agonist than Ang1, endogenous Ang2 maintains a level of Tie2 activation that is critical to a spectrum of EC functions</p> <p>Ang-2 levels are upregulated by hypoxia</p> <p> Davis S, Aldrich TH, Jones PF et al (1996) Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap</p> <p>expression cloning. Cell 87:1161–1169. doi:10.1016/S0092-8674(00)81812-7</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa49_an_sa49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19223473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ANGPT2"/> <clone/> <bbox w="80.0" h="40.0" x="7002.0" y="5705.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa49_an_sa337" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. Although Ang2 is a weaker agonist than Ang1, endogenous Ang2 maintains a level of Tie2 activation that is critical to a spectrum of EC functions</p> <p>Ang-2 levels are upregulated by hypoxia</p> <p> Davis S, Aldrich TH, Jones PF et al (1996) Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap</p> <p>expression cloning. Cell 87:1161–1169. doi:10.1016/S0092-8674(00)81812-7</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa49_an_sa337"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19223473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ANGPT2"/> <clone/> <bbox w="80.0" h="40.0" x="7758.0" y="7885.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1279_in_sa1279" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CXCL2"/> <bbox w="70.0" h="25.0" x="13185.0" y="2606.0"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa45_gf1_sa45" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:20430953</p> <p>All EGF family members bind to a group of four receptor tyrosine kinases, namely ErbB-1/EGFR through -4 (also called HER1???4). Like other tyrosine kinases, each ErbB molecule comprises an extracellular domain to allow ligand binding, a single transmembrane part, and an intracellular protein tyrosine kinase domain. It is important noting that not all ErbB receptors act autonomously: ErbB-2 (also called HER2 and Neu) binds no known EGF-like ligand (56), and ErbB-3 shows no tyrosine kinase activity (40).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa45_gf1_sa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB3"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:INTEGRINPMID:26148229LOX family oxidases (LOX and LOXL 1–4) are collagen cross-linking enzymes40 that influence tumor progression41 and metastasis.LOXL1 expression in CAFS is correlated with a11 expression and probably is regulated by this pathway. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:INTEGRINPMID:26148229LOX family oxidases (LOX and LOXL 1–4) are collagen cross-linking enzymes40 that influence tumor progression41 and metastasis.LOXL1 expression in CAFS is correlated with a11 expression and probably is regulated by this pathway. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa667_ca_sa667"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LOXL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26148229"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LOXL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26148229"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LOXL1"/> <bbox w="90.0" h="25.0" x="5770.0" y="4406.5"/> <glyph class="unit of information" id="_69e4f863-8801-401a-a380-5d3d5646b8d1"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5805.0" y="4401.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa228_ad_sa228" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22285893 </p> <p>Immunoglobulin receptors that bind nectin and nectin-like proteins include CD226, TIGIT, CRTAM and CD96</p> <p>All of these receptors are expressed on both NK cells and CD8 T cells</p> <p>CD226 and TIGIT may control CD8 T cell effector function through mechanisms analogous to that of CD28/CTLA-4 interactions with CD80/86.</p> <p>CD226 and CRTAM promote NK and CD8 T cell function, where as TIGIT has an inhibitory function.</p> <p>PMID:12913096 </p> <p>Identification of PVR (CD155) and Nectin-2 (CD112) as cell surface ligands for the human DNAM-1 (CD226) activating molecule (NK model)</p> <p>DNAM-1 Contributes to NK-mediated Lysis of Tumor Cells.</p> <p>PMID:19029380; PMID:8673704; PMID:26840537</p> <p>DNAM-1 promotes activation of cytotoxic lymphocytes by nonprofessional antigen-presenting cells and tumors. (T-cell models)</p> <p>DNAM-1 blockade inhibits T cell priming </p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> <p>multiple Src family kinases, including not only Fyn but also Lyn, Src, and Lck, were able to trigger DNAM-1 tyrosine phosphorylation.</p> <p>PMID:10591186; PMID:14676297</p> <p> LFA-1 physically associates with DNAM-1 in NK cells and anti-CD3 mAb stimulated T cells, for which serine phosphorylation of DNAM-1 plays a critical role.</p> <p>CD226 (DNAM-1) Is Involved in Lymphocyte Function–associated Antigen 1 Costimulatory Signal for Naive T Cell Differentiation and Proliferation</p> <p>Upon antigen recognition by the T cell receptor, lymphocyte function–associated antigen 1 (LFA-1) physically associates with the leukocyte adhesion molecule CD226 (DNAM-1) and the protein tyrosine kinase Fyn. </p> <p>proliferation induced by LFA-1 costimulatory signal was suppressed in mutant (Y-F322) CD226-transduced naive CD4+ and CD8+ T cells in the absence of IL-2. These results suggest that CD226 is involved in LFA-1–mediated costimulatory signals for triggering naive T cell differentiation and proliferation.</p> <p>PMID:24337740</p> <p>DNAM-1 interacts with LFA-1, a critical molecule for immunological synapse formation between T cells and APCs, and for cytotoxic killing of target cells. Mice that lack DNAM-1 display abnormal T cell responses and antitumor activity; </p> <p>DNAM-1 deficiency results in reduced proliferation of CD8+ T cells after Ag presentation and impaired cytotoxic activity. We also demonstrate that DNAM-1–deficient T cells show reduced conjugations with tumor cells and decreased recruitment of both LFA-1 and lipid rafts to the immunological synapse, which correlates with reduced tumor cell killing in vitro. This synapse defect may explain why DNAM-1–deficient mice cannot clear tumors in vivo, and highlights the importance of DNAM-1 and the immunological synapse in T cell–mediated antitumor immunity.</p> <p>PMID:24658051</p> <p> CD96 competed with CD226 for CD155 binding and limited NK cell function by direct inhibition. As a result, Cd96(-/-) mice displayed hyperinflammatory responses to the bacterial product lipopolysaccharide (LPS) and resistance to carcinogenesis and experimental lung metastases.</p> <p>PMID:28893624</p> <p>Frequencies of PD-1+ TIGIT+ CD226− CD8+ T cells are increased in AML patients and correlate with poor clinical prognosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa228_ad_sa228"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD226"/> 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<body> <p>Charge: 0</p> <p>NAME:ATR:FANCD2:MRE11*:NBS1*:RAD50</p> <p>Map modules:</p> <p>MODULE:REGULATORS</p> <p>References:</p> <p>PMID:15136767</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa68_ce_csa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15136767"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATR/FANCD2/MRE11*/NBS*/RAD50A"/> <bbox w="200.0" h="178.0" x="12743.473" y="13213.356"/> <glyph class="macromolecule" id="s_id_ce_sa665_ce_sa665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD50 homolog (S. cerevisiae)</p> <p>HUGO:RAD50, HGNC:9816, ENTREZ:10111, UNIPROT:Q92878</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="RAD50"/> <bbox w="80.0" h="40.0" x="12752.615" y="13261.714"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa666_ce_sa666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="12756.223" y="13309.856"/> <glyph class="state variable" id="_c17d2e63-dda8-4c92-ac54-9483e188e0cc"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="12738.723" y="13333.04"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa664_ce_sa664"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRE11 meiotic recombination 11 homolog A (S. cerevisiae)</p> <p>HUGO:MRE11A, HGNC:7230, ENTREZ:4361, UNIPROT:P49959</p> <p>MRE11 meiotic recombination 11 homolog B (S. cerevisiae)</p> <p>HUGO:RE11B, HGNC:7231, ENTREZ:4362</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="12752.615" y="13221.714"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa663_ce_sa663"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group D2</p> <p>HUGO:FANCD2, HGNC:3585, ENTREZ:2177, UNIPROT:Q9BXW9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22751496, PMID:23444773, PMID:20723763</p> </body> </html> </notes> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="12854.223" y="13278.356"/> <glyph class="state variable" id="_3a372c96-89f8-4a22-a953-51261a85a6bb"> <state value="Ub" variable="K561"/> <bbox w="40.0" h="10.0" x="12874.127" y="13313.356"/> </glyph> <glyph class="state variable" id="_6cbf32c1-21fb-4292-9569-3e41d5a4a885"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="12880.055" y="13273.356"/> </glyph> <glyph class="state variable" id="_d856718e-d128-4b2c-b1ce-a87e53f85309"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" 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<body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Migration = motility</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Cell motility"/> <bbox w="108.0" h="29.0" x="2391.0" y="13612.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa228_ce_csa228" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:H2AFX:PARP1</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> </body> </html> </notes> <label text="H2AX*/PARP*"/> <bbox w="100.0" h="120.0" x="11787.473" y="13115.356"/> <glyph class="macromolecule" id="s_id_ce_sa1168_ce_sa1168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>H2A histone family, member X</p> <p>HUGO:H2AFX , HGNC:4739, ENTREZ:3014, UNIPROT:P16104</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:9488723, PMID:19772495, PMID:17303408</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003</p> </body> </html> </notes> <label text="H2AFX"/> <bbox w="80.0" h="40.0" x="11802.473" y="13115.356"/> <glyph class="state variable" id="_5e980f9b-8a80-4a68-b508-58b4543b8022"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="11787.473" y="13130.356"/> </glyph> <glyph class="state variable" id="_20f43914-1074-4844-bead-0958005075df"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11797.473" y="13113.289"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1169_ce_sa1169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, 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CASCADE:IL18, CASCADE:IL2</p> <p>References:</p> <p>PMID:12413632</p> <p>IFNG is a major factor of M1 activation of macrophages.</p> <p>PMID:6425450</p> <p>Monoclonal antibody to IFNG inhibits macrophage tumoricidal activities.</p> <p>PMID:11964313</p> <p>INFG potentiates TLR signaling and NFkB activation downstream of TLR.</p> <p>PMID:9864217</p> <p>IFNG cooperates with TNF and TLR signaling in NF-kB activation.</p> <p>PMID:19833085</p> <p>IFNG achieves strong activation effects is by enhancing macrophage</p> <p>responsiveness to other inflammatory stimuli, such as TLR ligands and TNF.</p> <p>PMID:14607900, PMID:16713974</p> <p>IFNG impairs IL-10 anti-inflammatory activity.</p> <p>PMID:10485906</p> <p>IFNG downregulates IL4 signaling pathway via SOCS1.</p> <p>PMID:16713974</p> <p>INFG signaling inhibits p38 activation</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>activation of MSCs is initiated in response to IFN-gamma, presumably produced in situ by antitumor T cells in the tumor microenvironment.</p> <p>PMID:16424049</p> <p>The secretion of interleukin (IL)-10 and transforming growth factor-beta by Gr-1(+)CD115(+) MSCs and iNOS expression was induced and enhanced, respectively, on IFN-gamma stimulation.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 expression.</p> <p>NK cells stimuletad by IL4 have NK2 subtype</p> <p>PMID:21149606</p> <p> Nkp80 signaling induces marked IFNG production</p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway</p> <p>PMID:11489965, PMID:15778339</p> <p>KIR2DL4 transduces signals into human NK cells through association with the Fc receptor gamma protein. It induces IFNG production but not cytotoxicity in resting NK cells</p> <p>PMID:16713974, PMID:11579131</p> <p>INFG pathway inhibits activation (phosphorylation) of ERK, JNK, p38 kinases and PI3K pathway induced by TLR. Inhibition of AKT pathway by IFNG resulted in activation of GSK3. GSK3 inhibits downstream AP-1 and CREB1 signaling and downregulates IL10 expression induced by TLR.IFNG inhibits CREB activation via p38 induced by TLR signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1581_in_sa1581"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11870632"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11489965"/> </rdf:Bag> </bqbiol:isDescribedBy> 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As shown in Fig. 3 D, the phosphorylation levels of theCD247 chain were attenuated by Gab2(WT) expression but not by Gab2(Y614F). 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text="ARF1/GGA1"/> <bbox w="100.0" h="130.0" x="6026.0" y="12046.0"/> <glyph class="simple chemical" id="s_id_mo_sa514_mo_sa514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="6041.0" y="12093.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa513_mo_sa513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ADP ribosylation factor 1 </p> </body> </html> </notes> <label text="ARF1"/> <bbox w="80.0" h="40.0" x="6036.0" y="12056.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa512_mo_sa512"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>golgi associated, gamma adaptin ear containing, ARF binding protein 1</p> </body> </html> </notes> <label text="GGA1"/> <bbox w="80.0" h="40.0" x="6036.0" y="12116.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa813_rc_sa813" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa813_rc_sa813"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALDOA"/> <clone/> <bbox w="80.0" h="40.0" x="18499.06" y="10429.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa813_rc_sa629" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa813_rc_sa629"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALDOA"/> <clone/> <bbox w="80.0" h="40.0" x="22854.56" y="15881.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa230_emtc_em_csa230" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ARP2_3*:Actin cytoskeletal*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15094799</p> <p>ARP2_3 complex nucleates new actin filaments from the sides of preexisting filaments.</p> <p>PMID:15866889</p> <p>The ARP2_3 complex and Cofilin are involved in protrusion at the leading edge: the actin-severing activity of cofilin and the actin-branching activity of Arp2_3 act in synergy to drive the extension of lamellipodia.</p> <p>Cofilin is also required for the maintenance of a polarized cytoskeleton and thus for directional cell migration.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa230_emtc_em_csa230"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15094799"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15866889"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Actin/ARP2_3*"/> <bbox w="122.0" h="74.0" x="6060.0" y="15177.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1498_emtc_em_sa1498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="6066.0" y="15182.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1558_emtc_em_sa1558"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ARP2/3*</p> <p>ARP2 actin-related protein 2 homolog (yeast)</p> <p>"ARP2 (actin-related protein 2, yeast) homolog"</p> <p>HUGO:ACTR2 HGNC:169 ENTREZ:10097 UNIPROT:P61160 </p> <p>ARP3 actin-related protein 3 homolog (yeast)</p> <p>"ARP3 (actin-related protein 3, yeast) homolog"</p> <p>HUGO:ACTR3 HGNC:170 ENTREZ:10096 UNIPROT:P61158</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ARP2_3*"/> <bbox w="60.0" h="20.0" x="6089.5" y="15205.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa18_shh1_shh3_csa18" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase9*:DRAL*:PTCH*:TUCAN*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re26:(MAP:survival) PMID:19465923</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa18_shh1_shh3_csa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19465923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Caspase_activating_complex)"/> <bbox w="192.0" h="160.0" x="27457.06" y="22369.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa92_shh1_shh3_sa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Four and half LIM domains 2, Dral</p> <p>HUGO:FHL2 HGNC:3703 ENTREZ:2274 UNIPROT:Q14192 GENECARDS:FHL2 REACTOME:64554 KEGG:2274 ATLASONC:FHL2ID44092ch2q12 WIKI:FHL2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="DRAL*"/> <bbox w="80.0" h="40.0" x="27556.06" y="22382.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa95_shh1_shh3_sa95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="78.0" h="114.0" x="27469.56" y="22390.0"/> <glyph class="unit of information" id="_cafd388e-331d-49d0-8eb0-cd87e190cb60"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27486.06" y="22385.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_shh1_shh3_sa99_shh1_shh3_sa99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211 GENECARDS:CASP9 REACTOME:57034 KEGG:842 ATLASONC:CASP9ID423ch1p36 WIKI:CASP9 </p> <p>"caspase 9 apoptosis-related cysteine protease"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:CASPASES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19788417</p> <p>PMID:16977332</p> <p>Caspase9 is phosphorylated on Thr125 in a MEK1/2-dependent manner in vivo. Furthermore caspase9 is efficiently phosphorylated on Thr125 by ERK in vitro suggesting that it is targeted directly by ERK in vivo.</p> <p>This is one of the ways ERK plays its anti-apoptotic role.</p> </body> </html> </notes> <label text="Caspase9*"/> <bbox w="86.0" h="46.0" x="27550.56" y="22463.0"/> <glyph class="unit of information" id="_5be0bac4-8595-42f1-b138-1d035def0bc6"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="27583.56" y="22458.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa93_shh1_shh3_sa93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Caspase recruitment domain family 8</p> <p>HUGO:CARD8 HGNC:17057 ENTREZ:22900 UNIPROT:Q9Y2G2 GENECARDS:CARD8 KEGG:22900 ATLASONC:CARD8ID913ch19q13 WIKI:CARD8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="TUCAN*"/> <bbox w="80.0" h="40.0" x="27556.06" y="22423.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa418_mpk1_mpk1_sa418" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa418_mpk1_mpk1_sa418"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAX"/> <bbox w="50.0" h="25.0" x="10371.057" y="20184.0"/> <glyph 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text="proPLAU*"/> <bbox w="80.0" h="40.0" x="850.0" y="3321.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa188_ad_sa188" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:B4H4</p> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>PMID:22437870</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:1313950 </p> <p>Costimulatory signaling by CD28 has been described as critical for the enhancement of T cell proliferation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa188_ad_sa188"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD28"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15197224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7523569"/> </rdf:Bag> </bqbiol:isEncodedBy> 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of information" id="_7b7395e4-617d-4503-b059-a9ee8de25cb3"> <label text="drug"/> <bbox w="25.0" h="10.0" x="5470.5" y="10317.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa495_emtc_em_sa495" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa495_emtc_em_sa495"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <bbox w="71.0" h="20.0" x="3303.0" y="14385.5"/> <glyph class="unit of information" id="_3387e83f-f145-4f2b-90fe-2956f179f026"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3328.5" y="14380.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa157_te_sa157" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa157_te_sa157"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERT"/> <bbox w="80.0" h="40.0" x="5521.06" y="20252.0"/> <glyph class="state variable" id="_52051d7d-c88e-4f8a-b6da-bd1c3d0468dc"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="5543.689" y="20247.0"/> </glyph> <glyph class="state variable" id="_925922ab-f652-49d9-950b-0754baffc2ca"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5516.06" y="20266.969"/> </glyph> <glyph class="state variable" id="_13ea459c-444f-4d52-9db5-32d5f8afed68"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5553.561" y="20287.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa965_in_sa965" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MAF"/> <bbox w="90.0" h="25.0" x="12625.0" y="4434.375"/> <glyph class="unit of information" id="_bf339156-c672-4112-b7f9-228de4523a12"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12660.0" y="4429.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1059_emtc_em_sa1059" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1059_emtc_em_sa1059"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NCKAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCKAP1"/> <bbox w="52.0" h="18.0" x="6452.0" y="14804.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa124_rc_csa124" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CISH:CUL2:RBX1:TCEB1:TCEB2:TCEB3</p> </body> </html> </notes> <label text="CISH:Elongin:CUL2~E3_ligase_complex"/> <bbox w="182.0" h="170.0" x="21768.06" y="12004.0"/> <glyph class="macromolecule" id="s_id_rc_sa1313_rc_sa1313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytokine inducible SH2-containing protein</p> <p>HUGO:CISH HGNC:1984 ENTREZ:1154 UNIPROT:Q9NSE2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CISH"/> <bbox w="80.0" h="40.0" x="21774.06" y="12010.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1309_rc_sa1309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription elongation factor B (SIII), polypeptide 3 (110kDa, elongin A)</p> <p>HUGO:TCEB3 HGNC:11620 ENTREZ:6924 UNIPROT:Q14241</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>subunit A1</p> </body> </html> </notes> <label text="TCEB3"/> <bbox w="80.0" h="40.0" x="21860.06" y="12094.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1310_rc_sa1310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription elongation factor B (SIII), polypeptide 2 (18kDa, elongin B)</p> <p>HUGO:TCEB2 HGNC:11619 ENTREZ:6923 UNIPROT:Q15370</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>subunit B</p> </body> </html> </notes> <label text="TCEB2"/> <bbox w="80.0" h="40.0" x="21860.06" y="12054.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1312_rc_sa1312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="21777.06" y="12095.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1311_rc_sa1311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 2</p> <p>HUGO:CUL2 HGNC:2552 ENTREZ:8453 UNIPROT:Q13617</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CUL2"/> <bbox w="80.0" h="40.0" x="21776.06" y="12054.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1308_rc_sa1308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C)</p> <p>HUGO:TCEB1 HGNC:11617 ENTREZ:6921 UNIPROT:Q15369</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>subunit C</p> </body> </html> </notes> <label text="TCEB1"/> <bbox w="80.0" h="40.0" x="21858.06" y="12010.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa53_gf1_sa53" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:24668028 </p> <p>IGF2 expressed by CAFs promotes tumor growth</p> <p>PMID:11237532 </p> <p>In breast cancers, both IGF-I and IGF-II</p> <p>are expressed in the stromal ???broblasts and expression</p> <p>of IGF-II in particular correlates with tumor progression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa53_gf1_sa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24668028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11237532"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF2"/> <bbox w="80.0" h="40.0" x="9595.561" y="17629.5"/> </glyph> <glyph class="simple chemical" id="s_id_ce_sa1542_ce_sa1542" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Lipid peroxides cause damage similar to reactive oxygen species (ROS)</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR</p> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22257221, PMID:16909291</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1542_ce_sa1542"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22257221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16909291"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Lipid peroxides*"/> <bbox w="171.0" h="30.0" x="11176.77" y="14402.5"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa38_mpk1_mpk1_csa38" compartmentRef="s_id_mpk1_mpk1_ca5_mpk1_mpk1_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:DAG:RAF1:RAS*:RASGRP1</p> </body> </html> </notes> <label text="Ca2+:DAG:RAF1:RAS*:RASGRP1"/> <bbox w="226.0" h="90.0" x="7619.06" y="20042.0"/> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa277_mpk1_mpk1_sa277"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="61.0" h="38.0" x="7638.5044" y="20060.223"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa601_mpk1_mpk1_sa601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Generic_begin:</p> <p>DAG</p> <p>Generic_end</p> <p>References:</p> <p>DAG activates the C1-domain of RasGRP1.</p> <p>PLCG acts on PIP2 in the PM to produce DAG and IP3.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+, in a manner analogous to members of the PKC family.</p> <p>PMID:17496910, PMID:16488589, PMID:17496910</p> <p>DAG remains in the inner layer of the plasma membrane. It recruits Protein Kinase C (PKC) ??? a calcium-dependent kinase that phosphorylates many other proteins that bring about the changes in the cell.</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="7682.185" y="20054.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa206_mpk1_mpk1_sa206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS guanyl releasing protein 1 (calcium and DAG-regulated)</p> <p>HUGO:RASGRP1 HGNC:9878 ENTREZ:10125 UNIPROT:O95267</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGRP1 specifically activates H-Ras in the Golgi. It is localised in the cytosol in quiescent cells. After PMA stimulus at first it moves to the PM and then shifts towards other subcellular compartments like the Golgi apparatus.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+ in a manner analogous to members of the PKC family.</p> <p>PMID:12782630 PMID:17496910</p> </body> </html> </notes> <label text="RASGRP1"/> <bbox w="64.0" h="25.0" x="7686.56" y="20078.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa603_mpk1_mpk1_sa603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="7754.435" y="20054.0"/> <glyph class="state variable" id="_f8c78b34-e02d-4f07-9148-f84790095775"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7746.935" y="20061.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa604_mpk1_mpk1_sa604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf-1 murine leukemia viral oncogene homolog 1</p> <p>HUGO:RAF1 HGNC:9829 ENTREZ:5894 UNIPROT:P04049</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Active KRas (on late endosomes) recruits Raf1 (C-Raf) to elicit a MODULE:MAPK signalling pathway.</p> <p>Raf1 MEK1/2 and ERK1/2 may act in the outer side of the Golgi apparatus and attenuate proliferation.</p> </body> </html> </notes> <label text="RAF1"/> <bbox w="66.0" h="26.0" x="7752.435" y="20080.0"/> <glyph class="state variable" id="_61df2269-2b94-4ac8-8663-20cd28ab0aa6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7744.935" y="20088.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa992_in_sa992" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 15356132, 19380816, 23454751, 18776941, 15573129, 12223527, 20237412, 10347215, 15218058, 14607900, 20581311, 20093776, 20406969, 7543512, 16418395, 14670306, 21115385, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:NEUTROPHIL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IFNAB</p> <p>References:</p> <p>21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates JAK1</p> <p>Two tyrosines (Tyr 446 and Tyr 496) of IL-10RA</p> <p>are phosphorylated by the JAK1, to which</p> <p> the transcription factor STAT3 binds via its SH2 domain</p> <p> and in turn becomes itself phosphorylated.</p> <p>PMID:10347215</p> <p>Only JAK1/STAT3 pathway (but not TYK) plays role in</p> <p>anti-inflammatory action of IL10 in macrophages.</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Stat3 activation (tyr 705) by IL-4 requires Jak1 kinase in monocytes</p> <p>PMID:15218058</p> <p>Stat3 binds ILR1N promoter and upregulates expression of IL1RN downstream of IL10</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:23454751</p> <p>MDSC showed high phosphorylated STAT3 levels that correlated with arginase-I expression levels and activity.</p> <p>phosphorylated STAT3 binds to multiple sites in the arginase-I promoter. Rescue of arginase-I activity after STAT3 blockade restored MDSC's suppressive function.</p> <p>Taken together, these results demonstrate that the suppressive function of arginase-I in both infiltrating and circulating MDSC is a downstream target of activated STAT3.</p> <p>PMID:20581311</p> <p>STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.</p> <p>STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.</p> <p>PMID:19380816</p> <p>MDSC-induced immune suppression is mediated by reactive oxygen species (ROS).</p> <p>STAT3 mediates the function of MDSCs by regulating NADPH oxidase (NOX2) expression</p> <p> In the absence of NOX2 activity, MDSC lost the ability to suppress T cell responses</p> <p>PMID:20093776</p> <p>IL6 signaling ilduces STAT3 phosphorylation in MDSC cells.</p> <p>PMID:20406969</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> <p>PMID:18776941</p> <p>Expression of VEGF and bFGF, but also IL-1B, MMP9, CCL2, and CXCL2 is STAT3-dependent in myeloid cells.</p> <p>PMID:15573129</p> <p>Constitutively active STAT3 inhibited the functional maturation of DCs in vitro.</p> <p>PMID:15356132</p> <p>The activation of STAT3 by IL-6 was required for the suppression of LPS-induced DC maturation. In addition, STAT3 was required for the IL-6-mediated suppression of bone-marrow-derived DC activation and/or maturation.</p> <p>16286017</p> <p>IL-6-STAT3 Controls Intracellular MHC Class II aB Dimer Level through Cathepsin S Activity in Dendritic Cells. IL-6 Stimulation via STAT3 Decreased Cystatin C Expression, Increased the Cathepsin S Activity, and Reduced the MHCII aB Dimer Level in DCs In Vivo</p> <p>G-CSF signaling by STAT3 controls c-myc transcription by regulating the ratio of C/EBPa to C/EBPB at the c-myc promoter</p> <p>Stat3 activity is required for tumor factor-induced migration of ECs.</p> <p>PMID:14670306, PMID:16418395</p> <p>FLT3 sidnaling in Dcs acts via STAT3</p> <p>PMID:20237412</p> <p>IFN-B regulates expression of homing and angiogenic factors in neutrophils.</p> <p>IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophils</p> <p>additionally Stat3 and c-myc are downregulated by IFN-B.</p> <p>(STAT3 is known to be required for full activation of the Cxcr4 gene )</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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class="macromolecule" id="s_id_in_sa992_in_sa1820" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 15356132, 19380816, 23454751, 18776941, 15573129, 12223527, 20237412, 10347215, 15218058, 14607900, 20581311, 20093776, 20406969, 7543512, 16418395, 14670306, 21115385, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:NEUTROPHIL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IFNAB</p> <p>References:</p> <p>21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates JAK1</p> <p>Two tyrosines (Tyr 446 and Tyr 496) of IL-10RA</p> <p>are phosphorylated by the JAK1, to which</p> <p> the transcription factor STAT3 binds via its SH2 domain</p> <p> and in turn becomes itself phosphorylated.</p> <p>PMID:10347215</p> <p>Only JAK1/STAT3 pathway (but not TYK) plays role in</p> <p>anti-inflammatory action of IL10 in macrophages.</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Stat3 activation (tyr 705) by IL-4 requires Jak1 kinase in monocytes</p> <p>PMID:15218058</p> <p>Stat3 binds ILR1N promoter and upregulates expression of IL1RN downstream of IL10</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:23454751</p> <p>MDSC showed high phosphorylated STAT3 levels that correlated with arginase-I expression levels and activity.</p> <p>phosphorylated STAT3 binds to multiple sites in the arginase-I promoter. Rescue of arginase-I activity after STAT3 blockade restored MDSC's suppressive function.</p> <p>Taken together, these results demonstrate that the suppressive function of arginase-I in both infiltrating and circulating MDSC is a downstream target of activated STAT3.</p> <p>PMID:20581311</p> <p>STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.</p> <p>STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.</p> <p>PMID:19380816</p> <p>MDSC-induced immune suppression is mediated by reactive oxygen species (ROS).</p> <p>STAT3 mediates the function of MDSCs by regulating NADPH oxidase (NOX2) expression</p> <p> In the absence of NOX2 activity, MDSC lost the ability to suppress T cell responses</p> <p>PMID:20093776</p> <p>IL6 signaling ilduces STAT3 phosphorylation in MDSC cells.</p> <p>PMID:20406969</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> <p>PMID:18776941</p> <p>Expression of VEGF and bFGF, but also IL-1B, MMP9, CCL2, and CXCL2 is STAT3-dependent in myeloid cells.</p> <p>PMID:15573129</p> <p>Constitutively active STAT3 inhibited the functional maturation of DCs in vitro.</p> <p>PMID:15356132</p> <p>The activation of STAT3 by IL-6 was required for the suppression of LPS-induced DC maturation. In addition, STAT3 was required for the IL-6-mediated suppression of bone-marrow-derived DC activation and/or maturation.</p> <p>16286017</p> <p>IL-6-STAT3 Controls Intracellular MHC Class II aB Dimer Level through Cathepsin S Activity in Dendritic Cells. IL-6 Stimulation via STAT3 Decreased Cystatin C Expression, Increased the Cathepsin S Activity, and Reduced the MHCII aB Dimer Level in DCs In Vivo</p> <p>G-CSF signaling by STAT3 controls c-myc transcription by regulating the ratio of C/EBPa to C/EBPB at the c-myc promoter</p> <p>Stat3 activity is required for tumor factor-induced migration of ECs.</p> <p>PMID:14670306, PMID:16418395</p> <p>FLT3 sidnaling in Dcs acts via STAT3</p> <p>PMID:20237412</p> <p>IFN-B regulates expression of homing and angiogenic factors in neutrophils.</p> <p>IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophils</p> <p>additionally Stat3 and c-myc are downregulated by IFN-B.</p> <p>(STAT3 is known to be required for full activation of the Cxcr4 gene )</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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class="nucleic acid feature" id="s_id_ca_sa535_ca_sa535" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa535_ca_sa535"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL1B"/> <bbox w="70.0" h="25.0" x="595.0" y="3168.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4550_rc_sa4550" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4550_rc_sa4550"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FASLG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FASLG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FASL"/> <bbox w="70.0" h="25.0" x="20601.56" y="16231.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa192_an_sa192" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11324699</p> <p>PMID:15258919</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa192_an_sa192"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <clone/> <bbox w="80.0" h="40.0" x="22459.06" y="9409.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3026_rc_sa4788" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3026_rc_sa4788"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <clone/> <bbox w="80.0" h="40.0" x="27179.06" y="14179.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3026_rc_sa4787" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3026_rc_sa4787"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <clone/> <bbox w="80.0" h="40.0" x="27179.06" y="14269.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3026_rc_sa4841" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3026_rc_sa4841"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <clone/> <bbox w="80.0" h="40.0" x="26939.06" y="14039.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3026_rc_sa3930" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3026_rc_sa3930"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <clone/> <bbox w="80.0" h="40.0" x="24219.06" y="9429.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2537_rc_sa2537" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:24480 KEGGCOMPOUND:C15672 CAS:137397-56-9</p> </body> </html> </notes> <label text="heme o"/> <bbox w="70.0" h="25.0" x="19015.383" y="12880.355"/> </glyph> <glyph class="complex" id="s_id_rc_csa380_rc_csa380" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CYBA:FAD:FADD:NOX*:NOXA*:NOXO*:RAC1_2*:RIPK1:TRADD:heme</p> <p>References:</p> <p>17560373</p> </body> </html> </notes> <label text="NADPH oxidase"/> <bbox w="337.0" h="160.0" x="24120.936" y="10329.0"/> <glyph class="simple chemical" id="s_id_rc_sa3676_rc_sa3676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="24212.186" y="10396.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3674_rc_sa3674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neutrophil cytosolic factor 1</p> <p>HUGO:NCF1 HGNC:7660 ENTREZ:653361 UNIPROT:P14598 </p> <p>NADPH oxidase organizer 1</p> <p>HUGO:NOXO1 HGNC:19404 ENTREZ:124056 UNIPROT:Q8NFA2</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="NOXO*"/> <bbox w="80.0" h="40.0" x="24127.186" y="10389.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3675_rc_sa3675"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neutrophil cytosolic factor 2</p> <p>HUGO:NCF2 HGNC:7661 ENTREZ:4688 UNIPROT:P19878 </p> <p>NADPH oxidase activator 1</p> <p>HUGO:NOXA1 HGNC:10668 ENTREZ:10811 UNIPROT:Q86UR1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="NOXA*"/> <bbox w="80.0" h="40.0" x="24127.186" y="10439.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3677_rc_sa3677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 </p> <p>ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)</p> <p>HUGO:RAC2 HGNC:9802 ENTREZ:5880 UNIPROT:P15153</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27331412</p> <p>Methuosis is a caspase-independent cell death accompanied by vacuolization of macropinosomes resulting from dysregulation of macropinocytosis.</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="24249.686" y="10426.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3679_rc_sa3679"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="24369.686" y="10336.5"/> <glyph class="state variable" id="_381468c4-cba8-42fb-9091-4d8b5f08c7f9"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="24434.686" y="10342.749"/> </glyph> <glyph class="state variable" id="_7a24582d-98b9-4138-be2a-025e3373913e"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="24411.016" y="10371.5"/> </glyph> <glyph class="state variable" id="_2bb461ed-e6e5-48a8-80ab-18557ca7d9e9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24407.521" y="10331.5"/> </glyph> <glyph class="state variable" id="_b8eacef1-8e12-4901-9a06-595127a93f2b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24364.686" y="10342.671"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3671_rc_sa3671"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADPH oxidase 1</p> <p>HUGO:NOX1 HGNC:7889 ENTREZ:27035 UNIPROT:Q9Y5S8 </p> <p>cytochrome b-245, beta polypeptide</p> <p>HUGO:CYBB HGNC:2578 ENTREZ:1536 UNIPROT:P04839 </p> <p>NADPH oxidase 3</p> <p>HUGO:NOX3 HGNC:7890 ENTREZ:50508 UNIPROT:Q9HBY0 </p> <p>NADPH oxidase 4</p> <p>HUGO:NOX4 HGNC:7891 ENTREZ:50507 UNIPROT:Q9NPH5 </p> <p>NADPH oxidase, EF-hand calcium binding domain 5</p> <p>HUGO:NOX5 HGNC:14874 ENTREZ:79400 UNIPROT:Q96PH1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="NOX*"/> <bbox w="80.0" h="40.0" x="24367.186" y="10389.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3678_rc_sa3678"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="24247.186" y="10339.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5536_rc_sa5536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24140.56" y="10336.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3672_rc_sa3672"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome b-245, alpha polypeptide</p> <p>HUGO:CYBA HGNC:2577 ENTREZ:1535 UNIPROT:P13498</p> <p>Map modules:</p> 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id="s_id_emtc_em_sa1385_emtc_em_sa1385" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1385_emtc_em_sa1385"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZO1_3*"/> <bbox w="60.0" h="20.0" x="1711.0" y="14962.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa217_emtc_em_csa217" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJD2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJD2 is so-called Connexin 36</p> <p>PMID:19418635</p> <p>GJD2 is widely expressed in neurons and was previously shown to interact with the PDZ domain-containing protein ZO-1.</p> <p>Direct association of connexin36 (GJD2) with ZO-2 and ZO-3 was also demonstrated.</p> <p>PMID:15558297</p> <p>Association of connexin36 with ZO-1 in HeLa cells, betaTC-3 cells, pancreas, and adrenal gland.</p> <p>PMID:16650609</p> <p>Association of connexin36 and ZO-1 with ZO-2 and the transcription factor ZO-1-associated nucleic acid-binding protein at neuronal gap junctions in rodent retina.</p> 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class="macromolecule" id="s_id_emtc_em_sa1394_emtc_em_sa1395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, delta 2, 36kDa</p> <p>HUGO:GJD2, HGNC:19154, ENTREZ:57369, UNIPROT:Q9UKL4, GENECARDS:GC15M035043  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJD2 is so-called Connexin 36</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJD2"/> <bbox w="34.0" h="16.0" x="1098.0" y="18435.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1394_emtc_em_sa1394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, delta 2, 36kDa</p> <p>HUGO:GJD2, HGNC:19154, ENTREZ:57369, UNIPROT:Q9UKL4, GENECARDS:GC15M035043  </p> <p>Map modules:</p> 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rdf:about="#s_id_emtc_em_sa2370_emtc_em_sa2370"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KIT"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KIT"/> <clone/> <bbox w="80.0" h="50.0" x="1166.0" y="12611.0"/> <glyph class="unit of information" id="_4164a3c9-66ed-47e4-8d86-e6dc3313ab27"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1183.5" y="12606.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2370_emtc_em_sa2045" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2370_emtc_em_sa2045"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KIT"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KIT"/> <clone/> <bbox w="80.0" h="50.0" x="1255.5" y="12609.5"/> <glyph class="unit of information" id="_a212f14e-cc81-41ba-8a11-8065e65dd41e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1273.0" y="12604.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa52_te_csa52" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HSP90*/PTGES3/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <extension> <annotation 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<body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="5889.56" y="21385.5"/> <glyph class="unit of information" id="_20a938b1-5a29-41de-b74c-c1eeaaa2a2b9"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="5922.56" y="21380.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa366_te_sa366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <bbox w="80.0" h="40.0" x="5852.56" y="21438.5"/> </glyph> <glyph class="macromolecule" 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<p>CASCADE:TCR, CASCADE:IL18</p> <p>MODULE:TCR_SIGNALING, MODULE:TCELL</p> <p>PMID:19302050; PMID:11148124 </p> <p>NFkB signaling is activated in T-cells downstream of TCR activation.</p> <p>PMID:25648675 </p> <p>T cell-NF-κB activation is required for tumor control in vivo.</p> <p>Mice with impaired T cell-NF-κB activity were unable to reject tumors that were otherwise eliminated by wildtype mice, despite equal accumulation of tumor-reactive T cells. In addition, specific impairment of NF-κB signaling downstream of the TCR was sufficient to prevent tumor rejection. Tumor antigen-specific T cell-IFN-γ and TNF-α production, as well as cytotoxic ability, were all reduced in mice with impaired T cell-NF-κB, suggesting an important role for this transcription factor in the effector differentiation of tumor-specific effector T cells.</p> <p>PMID:21411734 </p> <p>T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doses</p> <p>when cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.</p> <p>NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells.</p> <p>PMID:10221648</p> <p>NF-κB/Rel binding sites are present in the promoter regions of several cytokines and cytokine receptors, including IL-2, IL-3, GM-CSF, TNF-α, IL-6, and IL-2Rα chain</p> <p>PMID:11175814</p> <p> IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.</p> <p>GADD45B significantly increased phosphorylated p38 MAPK compared to the control</p> <p>MEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18</p> <p>IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNG</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa825_ad_sa825"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19302050"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11148124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25648675"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10221648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11175814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFkB*"/> <clone/> <bbox w="230.0" h="180.0" x="28511.0" y="6930.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa825_ad_sa824" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:IL18</p> <p>MODULE:TCR_SIGNALING, MODULE:TCELL</p> <p>PMID:19302050; PMID:11148124 </p> <p>NFkB signaling is activated in T-cells downstream of TCR activation.</p> <p>PMID:25648675 </p> <p>T cell-NF-κB activation is required for tumor control in vivo.</p> <p>Mice with impaired T cell-NF-κB activity were unable to reject tumors that were otherwise eliminated by wildtype mice, despite equal accumulation of tumor-reactive T cells. In addition, specific impairment of NF-κB signaling downstream of the TCR was sufficient to prevent tumor rejection. Tumor antigen-specific T cell-IFN-γ and TNF-α production, as well as cytotoxic ability, were all reduced in mice with impaired T cell-NF-κB, suggesting an important role for this transcription factor in the effector differentiation of tumor-specific effector T cells.</p> <p>PMID:21411734 </p> <p>T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doses</p> <p>when cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.</p> <p>NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells.</p> <p>PMID:10221648</p> <p>NF-κB/Rel binding sites are present in the promoter regions of several cytokines and cytokine receptors, including IL-2, IL-3, GM-CSF, TNF-α, IL-6, and IL-2Rα chain</p> <p>PMID:11175814</p> <p> IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.</p> <p>GADD45B significantly increased phosphorylated p38 MAPK compared to the control</p> <p>MEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18</p> <p>IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNG</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa825_ad_sa824"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19302050"/> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa278_rc_sa278"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMA"/> <bbox w="80.0" h="40.0" x="17806.56" y="13305.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1221_ad_sa1221" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection.PMID:12796776expression of BTLA mRNA is partially dependent on STAT1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection.PMID:12796776expression of BTLA mRNA is partially dependent on STAT1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1221_ad_sa1221"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BTLA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21623380"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12796776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BTLA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21623380"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12796776"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BTLA"/> <bbox w="70.0" h="25.0" x="26121.0" y="2937.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa53_shh1_shh1_csa53" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IFT122:IFT140:WDR19</p> <p>References:</p> <p>s_shh1_re48(MAP:survival):</p> <p>PMID:20360384</p> <p>PMID:19996169</p> <p>PMID:18559511</p> <p>s_shh1_re108:(MAP:survival) PMID:20889716</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa53_shh1_shh1_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20360384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996169"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18559511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20889716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(IFT-A complex)"/> <bbox w="251.0" h="89.0" x="27340.06" y="18906.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa315_shh1_shh1_sa315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Intraflagellar transport 140 homologue (Chlamydomonas)</p> <p>HUGO:IFT140 HGNC:29077 ENTREZ:9742 UNIPROT:Q96RY7 GENECARDS:IFT140 KEGG:9742 WIKI:IFT140</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="IFT140"/> <bbox w="80.0" h="40.0" x="27506.06" y="18926.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa314_shh1_shh1_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Intraflagellar transport 122 homologue (Chlamydomonas)</p> <p>HUGO:IFT122 HGNC:13556 ENTREZ:55764 UNIPROT:Q9HBG6 GENECARDS:IFT122 KEGG:55764 WIKI:IFT122</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="IFT122"/> <bbox w="80.0" h="40.0" x="27425.06" y="18926.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa316_shh1_shh1_sa316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat domain 19</p> <p>HUGO:WDR19 HGNC:18340 ENTREZ:57728 UNIPROT:Q8NEZ3 GENECARDS:WDR19 KEGG:57728 ATLASONC:GC_WDR19 WIKI:WDR19</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="WDR19"/> <bbox w="80.0" h="40.0" x="27344.06" y="18926.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa327_em_csa327" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:VE-Cadherin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2504"/> <bbox w="97.0" h="53.0" x="1076.0" y="16637.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa946_emtc_em_sa946"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 5, type 2 (vascular endothelium)</p> <p>HUGO:CDH5, HGNC:1764, ENTREZ:1003, UNIPROT:P33151, GENECARDS:GC16P066400  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:10685062</p> <p>Adherens junctions are ubiquitously expressed in endothelia of all vascular beds?</p> <p>Adherens junction in endothelila cells are formed by homofilic binding of VE-cahderin (cadherin-5)</p> <p>Cadherins are cell adhesion molecules anchored by their cytoplasmic tails to a network of intracellular cytoplasmic proteins connected to the actin-based microfilament system.</p> <p>Association with catenins is nessesary for cadherin-mediated cell adhesion.</p> <p>PMID:12426320</p> <p>VE-cadhein interacts with catenin delta 1 (p120-catenin, CTNND1)</p> <p>VE-cadhein interacts with Plakophilin 4 (PKP4)</p> <p>PMID:7962210</p> <p>VE-cadhein interacts with catenin beta 1 (CTNNB1)</p> <p>PKP4 and CTNND1 bind to the same region on the cytoplasmic tail of VE-cadherin.</p> <p>Overexpression of PKP4 can displace CTNND1 from intercellular junctions.</p> <p>PMID:9739078</p> <p>VE-cadhein interacts with Plakoglobin (JUP)</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="VE-Cadherin*"/> <bbox w="86.0" h="26.0" x="1080.0" y="16643.5"/> <glyph class="unit of information" id="_c0a47557-51cd-4ec1-888c-e53ae613d541"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1113.0" y="16638.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" 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regulated by miR-320 via their 3′ UTR target sequences </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa775_ca_sa775"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR320A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22179046"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR320A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22179046"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR320A"/> <bbox w="70.0" h="25.0" x="2745.0" y="2728.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1094_ad_sa1094" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. DTX1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. 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<rdf:Description rdf:about="#s_id_wnc1_wnc3_sa75_wnc1_wnc3_sa75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL2"/> <bbox w="90.0" h="25.0" x="15777.061" y="21035.5"/> <glyph class="unit of information" id="_f2639a86-7968-48aa-a8b8-ff8a45e79b6b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15812.061" y="21030.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa17_wnc1_wnc2_sa17" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa17_wnc1_wnc2_sa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="64.0" h="90.0" x="18808.844" y="18194.0"/> <glyph class="state variable" id="_4ae50422-6063-42d7-957f-6056c9da2a31"> <state value="P" variable="S522"/> <bbox w="35.0" h="10.0" x="18855.344" y="18189.482"/> </glyph> <glyph class="state variable" id="_b0d1623c-c3fd-4c1f-a750-84fd64f8b59b"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" x="18847.307" y="18189.0"/> </glyph> <glyph class="state variable" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa17_wnc1_wnc1_sa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="80.0" h="40.0" x="15695.061" y="18177.0"/> <glyph class="state variable" id="_2de2018e-da4f-4bac-9673-1aa8b65c887a"> <state value="P" variable="S522"/> <bbox w="35.0" h="10.0" x="15757.561" y="18172.215"/> </glyph> <glyph class="state variable" id="_8ae72517-babd-43d9-b816-da5d058284c0"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" x="15746.889" y="18172.0"/> </glyph> <glyph class="state variable" id="_74aa0b51-6aa8-4907-8591-2d492ece1882"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15746.54" y="18172.0"/> </glyph> <glyph class="state variable" id="_5f1147c5-b81a-4c01-ad9e-028ae8fd0821"> <state value="" variable="Y142"/> <bbox w="30.0" h="10.0" x="15727.786" y="18172.0"/> </glyph> <glyph class="state variable" id="_fa35ecbd-24e9-49d1-9fb8-258db1be65b0"> <state value="P" variable="S675"/> <bbox w="35.0" h="10.0" x="15756.942" y="18212.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa16_wca1_wca1_csa16" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPP1C*:PPP1R*</p> <p>References:</p> <p>s_wca1_re19:(MAP:survival) PMID:17318175</p> <p>s_wca1_re16:(MAP:survival) PMID:17318175 PMID:19581931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa16_wca1_wca1_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPP1C*:PPP1R*"/> <bbox w="99.0" h="115.0" x="20444.06" y="18007.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa85_wca1_wca1_sa85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1A</p> <p>HUGO:PPP1R1A HGNC:9286 ENTREZ:5502 UNIPROT:Q13522 GENECARDS:PPP1R1A KEGG:5502 ATLASONC:GC_PPP1R1A WIKI:PPP1R1A </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1B</p> <p>HUGO:PPP1R1B HGNC:9287 ENTREZ:84152 UNIPROT:Q9UD71 GENECARDS:PPP1R1B REACTOME:57451 KEGG:84152 ATLASONC:PPP1R1BID44096ch17q12 WIKI:PPP1R1B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1C</p> <p>HUGO:PPP1R1C HGNC:14940 ENTREZ:151242 UNIPROT:Q8WVI7 GENECARDS:PPP1R1C KEGG:151242 ATLASONC:GC_PPP1R1C WIKI:PPP1R1C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 2</p> <p>HUGO:PPP1R2 HGNC:9288 ENTREZ:5504 UNIPROT:P41236 GENECARDS:PPP1R2 KEGG:5504 ATLASONC:GC_PPP1R2 WIKI:PPP1R2 </p> <p>protein phosphatase 1 regulatory subunit 3A</p> <p>HUGO:PPP1R3A HGNC:9291 ENTREZ:5506 UNIPROT:Q16821 GENECARDS:PPP1R3A KEGG:5506 ATLASONC:GC_PPP1R3A WIKI:PPP1R3A </p> <p>protein phosphatase 1 regulatory subunit 3B</p> <p>HUGO:PPP1R3B HGNC:14942 ENTREZ:79660 UNIPROT:Q86XI6 GENECARDS:PPP1R3B KEGG:79660 ATLASONC:GC_PPP1R3B WIKI:PPP1R3B </p> <p>protein phosphatase 1 regulatory subunit 3C</p> <p>HUGO:PPP1R3C HGNC:9293 ENTREZ:5507 UNIPROT:Q9UQK1 GENECARDS:PPP1R3C KEGG:5507 ATLASONC:GC_PPP1R3C WIKI:PPP1R3C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 3D</p> <p>HUGO:PPP1R3D HGNC:9294 ENTREZ:5509 UNIPROT:O95685 GENECARDS:PPP1R3D KEGG:5509 ATLASONC:GC_PPP1R3D WIKI:PPP1R3D </p> <p>protein phosphatase 1 regulatory subunit 3E</p> <p>HUGO:PPP1R3E HGNC:14943 ENTREZ:90673 UNIPROT:Q9H7J1 GENECARDS:PPP1R3E ATLASONC:GC_PPP1R3E WIKI:PPP1R3E </p> <p>protein phosphatase 1 regulatory subunit 3F</p> <p>HUGO:PPP1R3F HGNC:14944 ENTREZ:89801 UNIPROT:Q6ZSY5 GENECARDS:PPP1R3F KEGG:89801 ATLASONC:GC_PPP1R3F WIKI:PPP1R3F </p> <p>protein phosphatase 1 regulatory subunit 3G</p> <p>HUGO:PPP1R3G HGNC:14945 ENTREZ:648791 UNIPROT:B7ZBB8 GENECARDS:PPP1R3G ATLASONC:GC_PPP1R3G WIKI:PPP1R3G </p> <p>protein phosphatase 1 regulatory subunit 7</p> <p>HUGO:PPP1R7 HGNC:9295 ENTREZ:5510 UNIPROT:Q15435 GENECARDS:PPP1R7 KEGG:5510 ATLASONC:GC_PPP1R7 WIKI:PPP1R7 </p> <p>protein phosphatase 1 regulatory subunit 8</p> <p>HUGO:PPP1R8 HGNC:9296 ENTREZ:5511 UNIPROT:Q12972 GENECARDS:PPP1R8 KEGG:5511 ATLASONC:PPP1R8ID41811ch1p35 WIKI:PPP1R8 </p> <p>protein phosphatase 1 regulatory subunit 9A</p> <p>HUGO:PPP1R9A HGNC:14946 ENTREZ:55607 UNIPROT:Q9ULJ8 GENECARDS:PPP1R9A KEGG:55607 ATLASONC:GC_PPP1R9A WIKI:PPP1R9A </p> <p>protein phosphatase 1 regulatory subunit 9B</p> <p>HUGO:PPP1R9B HGNC:9298 ENTREZ:84687 UNIPROT:Q96SB3 GENECARDS:PPP1R9B KEGG:84687 ATLASONC:PPP1R9BID51558ch17q21 WIKI:PPP1R9B </p> <p>protein phosphatase 1 regulatory subunit 10</p> <p>HUGO:PPP1R10 HGNC:9284 ENTREZ:5514 UNIPROT:Q96QC0 GENECARDS:PPP1R10 KEGG:5514 ATLASONC:GC_PPP1R10 WIKI:PPP1R10 </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 11</p> <p>HUGO:PPP1R11 HGNC:9285 ENTREZ:6992 UNIPROT:O60927 GENECARDS:PPP1R11 KEGG:6992 ATLASONC:GC_PPP1R11 WIKI:PPP1R11 </p> <p>protein phosphatase 1 regulatory subunit 12A</p> <p>HUGO:PPP1R12A HGNC:7618 ENTREZ:4659 UNIPROT:O14974 GENECARDS:PPP1R12A REACTOME:150515 KEGG:4659 ATLASONC:GC_PPP1R12A WIKI:PPP1R12A </p> <p>protein phosphatase 1 regulatory subunit 12B</p> <p>HUGO:PPP1R12B HGNC:7619 ENTREZ:4660 UNIPROT:O60237 GENECARDS:PPP1R12B REACTOME:150526 KEGG:4660 ATLASONC:GC_PPP1R12B WIKI:PPP1R12B </p> <p>protein phosphatase 1 regulatory subunit 12C</p> <p>HUGO:PPP1R12C HGNC:14947 ENTREZ:54776 UNIPROT:Q9BZL4 GENECARDS:PPP1R12C KEGG:54776 ATLASONC:GC_PPP1R12C WIKI:PPP1R12C </p> <p>protein phosphatase 1 regulatory subunit 13B</p> <p>HUGO:PPP1R13B HGNC:14950 ENTREZ:23368 UNIPROT:Q96KQ4 GENECARDS:PPP1R13B KEGG:23368 ATLASONC:GC_PPP1R13B WIKI:PPP1R13B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14A</p> <p>HUGO:PPP1R14A HGNC:14871 ENTREZ:94274 UNIPROT:Q96A00 GENECARDS:PPP1R14A KEGG:94274 ATLASONC:GC_PPP1R14A WIKI:PPP1R14A </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14B</p> <p>HUGO:PPP1R14B HGNC:9057 ENTREZ:26472 UNIPROT:Q96C90 GENECARDS:PPP1R14B KEGG:26472 ATLASONC:GC_PPP1R14B WIKI:PPP1R14B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14C</p> <p>HUGO:PPP1R14C HGNC:14952 ENTREZ:81706 UNIPROT:Q8TAE6 GENECARDS:PPP1R14C KEGG:81706 ATLASONC:GC_PPP1R14C WIKI:PPP1R14C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14D</p> <p>HUGO:PPP1R14D HGNC:14953 ENTREZ:54866 UNIPROT:Q9NXH3 GENECARDS:PPP1R14D KEGG:54866 ATLASONC:GC_PPP1R14D WIKI:PPP1R14D </p> <p>protein phosphatase 1 regulatory subunit 15A</p> <p>HUGO:PPP1R15A HGNC:14375 ENTREZ:23645 UNIPROT:O75807 GENECARDS:PPP1R15A REACTOME:243750 KEGG:23645 ATLASONC:GC_PPP1R15A WIKI:PPP1R15A </p> <p>protein phosphatase 1 regulatory subunit 15B</p> <p>HUGO:PPP1R15B HGNC:14951 ENTREZ:84919 UNIPROT:Q5SWA1 GENECARDS:PPP1R15B KEGG:84919 ATLASONC:GC_PPP1R15B WIKI:PPP1R15B HUGO:PPP1R15A HGNC:14375 ENTREZ:23645 UNIPROT:O75807 GENECARDS:PPP1R15A REACTOME:243750 KEGG:23645 ATLASONC:GC_PPP1R15A WIKI:PPP1R15A </p> <p>protein phosphatase 1 regulatory subunit 16A</p> <p>HUGO:PPP1R16A HGNC:14941 ENTREZ:84988 UNIPROT:Q96I34 GENECARDS:PPP1R16A KEGG:84988 ATLASONC:GC_PPP1R16A WIKI:PPP1R16A </p> <p>protein phosphatase 1 regulatory subunit 16B</p> <p>HUGO:PPP1R16B HGNC:15850 ENTREZ:26051 UNIPROT:Q96T49 GENECARDS:PPP1R16B KEGG:26051 ATLASONC:GC_PPP1R16B WIKI:PPP1R16B </p> <p>protein phosphatase 1 regulatory subunit 17</p> <p>HUGO:PPP1R17 HGNC:16973 ENTREZ:10842 UNIPROT:O96001 GENECARDS:PPP1R17 KEGG:10842 WIKI:PPP1R17 </p> <p>protein phosphatase 1 regulatory subunit 18</p> <p>HUGO:PPP1R18 HGNC:29413 ENTREZ:170954 UNIPROT:Q6NYC8 GENECARDS:PPP1R18 KEGG:170954 WIKI:PPP1R18 </p> <p>protein phosphatase 1 regulatory subunit 21</p> <p>HUGO:PPP1R21 HGNC:30595 ENTREZ:129285 UNIPROT:Q6ZMI0 GENECARDS:PPP1R21 KEGG:129285 WIKI:PPP1R21 </p> <p>protein phosphatase 1 regulatory subunit 26</p> <p>HUGO:PPP1R26 HGNC:29089 ENTREZ:9858 UNIPROT:Q5T8A7 GENECARDS:PPP1R26 KEGG:9858 ATLASONC:GC_PPP1R26 WIKI:PPP1R26 </p> <p>protein phosphatase 1 regulatory subunit 27</p> <p>HUGO:PPP1R27 HGNC:16813 ENTREZ:116729 UNIPROT:Q86WC6 GENECARDS:PPP1R27 KEGG:116729 WIKI:PPP1R27 </p> <p>protein phosphatase 1 regulatory subunit 32</p> <p>HUGO:PPP1R32 HGNC:28869 ENTREZ:220004 UNIPROT:Q7Z5V6 GENECARDS:PPP1R32 KEGG:220004 WIKI:PPP1R32 </p> <p>protein phosphatase 1 regulatory subunit 35</p> <p>HUGO:PPP1R35 HGNC:28320 ENTREZ:221908 UNIPROT:Q8TAP8 GENECARDS:PPP1R35 KEGG:221908 WIKI:PPP1R35 </p> <p>protein phosphatase 1 regulatory subunit 36</p> <p>HUGO:PPP1R36 HGNC:20097 ENTREZ:145376 UNIPROT:Q96LQ0 GENECARDS:PPP1R36 KEGG:145376 WIKI:PPP1R36 </p> <p>protein phosphatase 1 regulatory subunit 37</p> <p>HUGO:PPP1R37 HGNC:27607 ENTREZ:284352 UNIPROT:O75864 GENECARDS:PPP1R37 KEGG:284352 WIKI:PPP1R37 </p> <p>protein phosphatase 1 regulatory subunit 39</p> <p>HUGO:PPP1R39 GENECARDS:PPP1R39 KEGG:153769 WIKI:PPP1R39 </p> <p>protein phosphatase 1 regulatory subunit 42</p> <p>HUGO:PPP1R42 HGNC:33732 ENTREZ:286187 UNIPROT:Q7Z4L9 GENECARDS:PPP1R42 KEGG:286187 WIKI:PPP1R42</p> <p>Map modules:</p> <p>MAP:cellcycle / MODULE:RB, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PPP1R*"/> <bbox w="80.0" h="40.0" x="20453.06" y="18061.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa84_wca1_wca1_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Protein phosphatase 1 catalytic subunit alpha isozyme</p> <p>HUGO:PPP1CA HGNC:9281 ENTREZ:5499 UNIPROT:P62136 GENECARDS:PPP1CA REACTOME:61996 KEGG:5499 ATLASONC:GC_PPP1CA WIKI:PPP1CA </p> <p>Protein phosphatase 1 catalytic subunit beta isozyme</p> <p>HUGO:PPP1CB HGNC:9282 ENTREZ:5500 UNIPROT:P62140 GENECARDS:PPP1CB REACTOME:62004 KEGG:5500 ATLASONC:GC_PPP1CB WIKI:PPP1CB </p> <p>Protein phosphatase 1 catalytic subunit gamma isozyme</p> <p>HUGO:PPP1CC HGNC:9283 ENTREZ:5501 UNIPROT:P36873 GENECARDS:PPP1CC REACTOME:62014 KEGG:5501 ATLASONC:GC_PPP1CC WIKI:PPP1CC</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:cellcycle / MODULE:RB, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PPP1C*"/> <bbox w="80.0" h="40.0" x="20453.06" y="18018.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1531_in_sa1531" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10734131, 11672593, 16283355, 12811837., 12803886, 11964313, 12032143 Map modules:MAP:MACROPHAGE, MAP:MDSCCASCADE:MIF, CASCADE:TLR2_4, CASCADE:IFNGMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSReferences:PMID:11964313, PMID:11672593, PMID:12032143, PMID:12811837.INFG upregulates mRNA level and surface expression of TLR4 and TLR2.PMID:10734131, PMID:12803886, PMID:16283355MIF upregulates expression of TLR4 in macrothages via PU.1 (SPI1) activation via PU.1 (SPI1) activation; PU.1 (SPI1) together with IRF8 relulates TLR4 expression in myeloid cells ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 10734131, 11672593, 16283355, 12811837., 12803886, 11964313, 12032143 Map modules:MAP:MACROPHAGE, MAP:MDSCCASCADE:MIF, CASCADE:TLR2_4, CASCADE:IFNGMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSReferences:PMID:11964313, PMID:11672593, PMID:12032143, PMID:12811837.INFG upregulates mRNA level and surface expression of TLR4 and TLR2.PMID:10734131, PMID:12803886, PMID:16283355MIF upregulates expression of TLR4 in macrothages via PU.1 (SPI1) activation via PU.1 (SPI1) activation; PU.1 (SPI1) together with IRF8 relulates TLR4 expression in myeloid cells </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1531_in_sa1531"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10734131"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11672593"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16283355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12811837."/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12803886"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLR4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11964313"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12032143"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TLR4"/> <bbox w="70.0" h="25.0" x="23420.0" y="2047.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4491_rc_sa4491" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23846383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4491_rc_sa4491"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Energy production"/> <bbox w="140.0" h="29.0" x="28352.56" y="12556.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa119_akt1_akt1_sa119" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa119_akt1_akt1_sa119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HERC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HERC1"/> <bbox w="80.0" h="40.0" x="13221.282" y="18576.555"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa140_rc_sa140" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16810 KEGGCOMPOUND:C00026 CAS:64-15-3</p> </body> </html> </notes> <label text="2-oxoglutarate"/> <bbox w="70.0" h="25.0" x="18516.81" y="14733.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa1_wca1_wca3_sa1" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa1_wca1_wca3_sa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DACT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DACT1"/> <bbox w="80.0" h="40.0" x="21287.56" y="20984.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5481_rc_sa5481" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5481_rc_sa5481"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NAIP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NAIP"/> <clone/> <bbox w="80.0" h="40.0" x="27999.06" y="9239.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5481_rc_sa1858" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5481_rc_sa1858"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NAIP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NAIP"/> <clone/> <bbox w="80.0" h="40.0" x="24889.06" y="13569.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4564_rc_sa4564" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4564_rc_sa4564"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR16-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR16-2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR16-2"/> <bbox w="90.0" h="25.0" x="20201.06" y="15590.5"/> <glyph class="unit of information" id="_35c38fe6-fc1a-49db-831c-a9688ab30b1d"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20231.06" y="15585.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa137_shh1_shh2_sa137" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re87(MAP:survival):</p> <p>s_shh2_re93:(MAP:survival) PMID:21228116</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa137_shh1_shh2_sa137"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21228116"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK pathway"/> <bbox w="80.0" h="30.0" x="26898.06" y="20995.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4808_rc_sa4808" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4808_rc_sa4808"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K4"/> <bbox w="80.0" h="40.0" x="26079.06" y="14719.0"/> <glyph class="state variable" id="_6f542b6b-a6b9-4103-adca-9eb411567034"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26130.629" y="14714.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1341_in_sa1341" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL2"/> <bbox w="70.0" h="25.0" x="20041.25" y="5212.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa401_an_sa401" compartmentRef="s_id_an_ca4_an_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa401_an_sa401"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NCK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCK1"/> <bbox w="80.0" h="40.0" x="5172.0" y="5725.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2670_in_sa2670" compartmentRef="s_id_in_ca12_in_ca12"> <label text="TAB3"/> <bbox w="80.0" h="40.0" x="19485.0" y="3070.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3787_rc_sa3787" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>EC 4.2.3.3</p> <p>PMID:11945504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3787_rc_sa3787"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11945504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="methylglyoxal synthase"/> <bbox w="160.0" h="30.0" x="18949.06" y="10124.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2135_in_sa2135" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CEBPD"/> <bbox w="90.0" h="25.0" x="12366.0" y="4434.375"/> <glyph class="unit of information" id="_14da2d4f-24a1-4c31-a314-1b72980d364c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12401.0" y="4429.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa416_mpk1_mpk1_sa416" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa416_mpk1_mpk1_sa416"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MKNK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MKNK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MNK*"/> <bbox w="50.0" h="25.0" x="9612.057" y="20174.0"/> <glyph class="state variable" id="_752378a7-a689-41c8-b1c9-3a44f1c4b250"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9607.057" y="20181.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa515_in_sa515" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PTK2"/> <clone/> <bbox w="80.0" h="40.0" x="17107.5" y="2325.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa515_in_sa472" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PTK2"/> <clone/> <bbox w="80.0" h="40.0" x="17097.5" y="2195.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa66_akt1_akt1_csa66" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GF:RTK*</p> <p>References:</p> <p>s_akt1_re137(MAP:survival):</p> <p>PMID:10514377</p> <p>PMID:17635922</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa66_akt1_akt1_csa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10514377"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17635922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GF:RTK*"/> <bbox w="105.0" h="175.0" x="13963.811" y="17636.5"/> <glyph class="simple chemical" id="s_id_akt1_akt1_sa382_akt1_akt1_sa382"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GF"/> <bbox w="70.0" h="25.0" x="13978.72" y="17653.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_akt1_akt1_sa383_akt1_akt1_sa383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 GENECARDS:EGFR REACTOME:54208 KEGG:1956 ATLASONC:GC_EGFR WIKI:EGFR </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 GENECARDS:ERBB2 REACTOME:54422 KEGG:2064 ATLASONC:ERBB2ID162ch17q11 WIKI:ERBB2 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860 GENECARDS:ERBB3 REACTOME:403310 KEGG:2065 ATLASONC:ERBB3ID40479ch12q13 WIKI:ERBB3 </p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 GENECARDS:ERBB4 REACTOME:54426 KEGG:2066 ATLASONC:GC_ERBB4 WIKI:ERBB4 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 GENECARDS:FGFR1 REACTOME:402793 KEGG:2260 ATLASONC:FGFR1113 WIKI:FGFR1 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 GENECARDS:FGFR2 REACTOME:403305 KEGG:2263 ATLASONC:FGFR2ID40570ch10q26 WIKI:FGFR2 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 GENECARDS:FGFR3 REACTOME:403340 KEGG:2261 ATLASONC:FGFR99 WIKI:FGFR3 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 GENECARDS:FGFR4 REACTOME:54820 KEGG:2264 ATLASONC:FGFR4ID512ch5q35 WIKI:FGFR4 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 GENECARDS:FLT1 REACTOME:403120 KEGG:2321 ATLASONC:GC_FLT1 WIKI:FLT1 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 GENECARDS:FLT3 KEGG:2322 ATLASONC:FLT3ID144 WIKI:FLT3 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 GENECARDS:FLT4 REACTOME:67176 KEGG:2324 ATLASONC:GC_FLT4 WIKI:FLT4 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 GENECARDS:PDGFRA REACTOME:61602 KEGG:5156 ATLASONC:GC_PDGFRA WIKI:PDGFRA </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619 GENECARDS:PDGFRB REACTOME:61600 KEGG:5159 ATLASONC:PDGFRBID21ch5q32 WIKI:PDGFRB </p> <p>A generic name for this family of receptors that contain a tyrosine kinase activity.</p> <p>rhotekin</p> <p>HUGO:RTKN HGNC:10466 ENTREZ:6242 UNIPROT:Q9BST9 GENECARDS:RTKN ATLASONC:GC_RTKN WIKI:RTKN</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="90.0" h="139.0" x="13970.811" y="17659.5"/> <glyph class="unit of information" id="_6cc2552d-ed4b-4af0-a15b-5d6fce4c2b2b"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="14005.811" y="17654.5"/> </glyph> <glyph class="state variable" id="_c6405f68-72df-4a84-be82-565ce914d55a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14053.311" y="17752.79"/> </glyph> <glyph class="state variable" id="_7e8b297e-617a-4807-bc97-91bf6cf51b7e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14055.811" y="17752.79"/> </glyph> <glyph class="state variable" id="_dd927446-c0c5-42a6-bec9-81d963e9c31d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14053.311" y="17724.0"/> </glyph> <glyph class="unit of information" id="_01d5752a-3369-4e4f-8c3c-51fd3687fcf0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13993.311" y="17654.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_gf1_csa22_gf1_csa22" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <label text="gf1_s5200"/> <bbox w="100.0" h="120.0" x="8295.561" y="18009.5"/> <glyph class="macromolecule" id="s_id_gf1_sa41_gf1_sa41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:FGFR1</p> <p>HUGO:FGFR2</p> <p>HUGO:FGFR3</p> <p>HUGO:FGFR4</p> <p>HUGO:FGFRL1</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:25467007 </p> <p>FGFRs _rew</p> </body> </html> </notes> <label text="FGFR*"/> <bbox w="80.0" h="50.0" x="8305.561" y="18064.5"/> <glyph class="unit of information" id="_52a7b7f6-6c14-4b8b-ba47-f4284e135308"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8323.061" y="18059.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa154_gf1_sa154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:FGF1</p> <p>HUGO:FGF2</p> <p>HUGO:FGF3</p> <p>HUGO:FGF4</p> <p>HUGO:FGF5</p> <p>HUGO:FGF6</p> <p>HUGO:FGF7</p> <p>HUGO:FGF8</p> <p>HUGO:FGF9</p> <p>HUGO:FGF10</p> <p>HUGO:FGF11</p> <p>HUGO:FGF12</p> <p>HUGO:FGF13</p> <p>HUGO:FGF14</p> <p>HUGO:FGF16</p> <p>HUGO:FGF17</p> <p>HUGO:FGF18</p> <p>HUGO:FGF19</p> <p>HUGO:FGF20</p> <p>HUGO:FGF21</p> <p>HUGO:FGF22</p> <p>HUGO:FGF23</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> </body> </html> </notes> <label text="FGF*"/> <bbox w="80.0" h="40.0" x="8305.561" y="18019.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca4_sa65_wca1_wca4_sa65" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca4_re35:(MAP:survival) PMID:20439735</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa65_wca1_wca4_sa65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20439735"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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rdf:resource="urn:miriam:hgnc.symbol:MIR145"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR145"/> <bbox w="90.0" h="25.0" x="23201.06" y="15632.5"/> <glyph class="unit of information" id="_9f630bb6-25b4-4843-9481-c1dd2e0874a4"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23231.06" y="15627.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa745_ad_sa745" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10465784</p> <p>ECSIT (evolutionarilyconserved signaling intermediate inToll pathways), is specific for the Toll/IL-1 pathways and is a regulator of MEKK-1 processing. Expression of wild-type ECSIT accelerates processing of MEKK-1, whereas a dominant-negative fragment of ECSIT blocks MEKK-1 processing and activation of NF-κB</p> <p>ECSIT mutant also strongly inhibited MEKK-1 activation of AP-1 (probably via MAP2K4/JNK),</p> <p>additionally TRAF6-induced signaling is inhibited by dominant-negative constructs of MEKK-1.</p> <p>PMID:9582321</p> <p>DeltaMEKK1 overexpression results in activation of both c-Jun N-terminal kinases/extracellular signal-regulated kinases (JNK/SAPK) and p38 MAPK (non_immune model). </p> <p>PMID:15170913, PMID:9582321, PMID:11668179 </p> <p>MEKK1 --> SEK1/MKK4 --> p38 mitogen-activated protein kinase pathway upregulates COX2 expression and PGE2 production in macrophages,</p> <p>via activation of transcription factor C/EBP beta.</p> <p>PMID:9379049</p> <p>MKK3 and MKK4 are capable of phosphorylating p38mapk in macrophages,</p> <p>downstream of TNF/Tnf receptor signaling.</p> <p>PMID:12048245</p> <p>IFN-γ-Induced Gene Expression is MEKK1/p38 dependent and MEKK1/ERK dependent</p> <p>MEKK1 upregulates CEBPB activation via ERK</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa745_ad_sa745"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10465784"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9582321"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15170913"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9582321"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11668179"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9379049"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12048245"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K1"/> <clone/> <bbox w="80.0" h="40.0" x="26726.0" y="4645.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa745_ad_sa747" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10465784</p> <p>ECSIT (evolutionarilyconserved signaling intermediate inToll pathways), is specific for the Toll/IL-1 pathways and is a regulator of MEKK-1 processing. Expression of wild-type ECSIT accelerates processing of MEKK-1, whereas a dominant-negative fragment of ECSIT blocks MEKK-1 processing and activation of NF-κB</p> <p>ECSIT mutant also strongly inhibited MEKK-1 activation of AP-1 (probably via MAP2K4/JNK),</p> <p>additionally TRAF6-induced signaling is inhibited by dominant-negative constructs of MEKK-1.</p> <p>PMID:9582321</p> <p>DeltaMEKK1 overexpression results in activation of both c-Jun N-terminal kinases/extracellular signal-regulated kinases (JNK/SAPK) and p38 MAPK (non_immune model). </p> <p>PMID:15170913, PMID:9582321, PMID:11668179 </p> <p>MEKK1 --> SEK1/MKK4 --> p38 mitogen-activated protein kinase pathway upregulates COX2 expression and PGE2 production in macrophages,</p> <p>via activation of transcription factor C/EBP beta.</p> <p>PMID:9379049</p> <p>MKK3 and MKK4 are capable of phosphorylating p38mapk in macrophages,</p> <p>downstream of TNF/Tnf receptor signaling.</p> <p>PMID:12048245</p> <p>IFN-γ-Induced Gene Expression 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa146_emtc_em_sa2057"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <clone/> <bbox w="90.0" h="25.0" x="4168.0" y="14669.0"/> <glyph class="unit of information" id="_d540b0cd-01de-46e0-a512-3a003fc78719"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4203.0" y="14664.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2218_rc_sa2218" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> </body> </html> </notes> <label text="O2"/> <clone/> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2489_emtc_em_sa2489"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBLN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Elastin partners*"/> <bbox w="107.0" h="22.0" x="6366.0" y="18845.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa8_rc_csa8" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAX:humanin*</p> </body> </html> </notes> <label text="BAX:humanin"/> <bbox w="100.0" h="120.0" x="23589.06" y="11569.0"/> <glyph class="macromolecule" id="s_id_rc_sa72_rc_sa72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded 16S RNA</p> <p>HUGO:MT-RNR2 HGNC:7471 ENTREZ:4550 UNIPROT:Q8IVG9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="humanin*"/> <bbox w="80.0" h="40.0" x="23599.459" y="11624.379"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa73_rc_sa73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa424_an_sa424"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL8"/> <clone/> <bbox w="80.0" h="40.0" x="7532.0" y="6165.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa424_ca_sa154" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa424_ca_sa154"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL8"/> <clone/> <bbox w="80.0" h="40.0" x="1160.0" y="3851.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2547_emtc_em_sa2547" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2547_emtc_em_sa2547"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAQ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAZ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SFN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*"/> <bbox w="105.0" h="17.0" x="5844.0" y="13503.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa224_rc_csa224" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2:HRK</p> </body> </html> </notes> <label text="BCL2:HRK"/> <bbox w="102.0" h="124.0" x="22208.186" y="13897.0"/> <glyph class="macromolecule" id="s_id_rc_sa1692_rc_sa1692"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="22220.186" y="13910.0"/> <glyph class="state variable" id="_b4111a0c-7842-4513-9e9f-afeefe208721"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22271.754" y="13905.0"/> </glyph> <glyph class="state variable" id="_bbff7e10-b85e-41db-8d15-946e37a0f092"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22215.186" y="13925.0"/> </glyph> <glyph class="state variable" id="_991ecbb4-1a11-4b6e-89c2-600db7f4aaa0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22238.617" y="13905.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1693_rc_sa1693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>harakiri, BCL2 interacting protein (contains only BH3 domain)</p> <p>HUGO:HRK HGNC:5185 ENTREZ:8739 UNIPROT:O00198</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="HRK"/> <bbox w="80.0" h="40.0" x="22220.186" y="13954.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa306_rc_csa306" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GCLC:GCLM</p> </body> </html> </notes> <label text="GCL*"/> <bbox w="104.0" h="117.0" x="26347.06" y="9475.5"/> <glyph class="macromolecule" id="s_id_rc_sa2611_rc_sa2611"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutamate-cysteine ligase, catalytic subunit</p> <p>HUGO:GCLC HGNC:4311 ENTREZ:2729 UNIPROT:P48506</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <label text="GCLC"/> <bbox w="80.0" h="40.0" x="26357.06" y="9486.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2614_rc_sa2614"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutamate-cysteine ligase, modifier subunit</p> <p>HUGO:GCLM HGNC:4312 ENTREZ:2730 UNIPROT:P48507</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <label text="GCLM"/> <bbox w="80.0" h="40.0" x="26357.06" y="9530.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa271_in_csa271" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cREL*"/> <bbox w="80.0" h="40.0" x="20319.04" y="3835.9614"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2040_in_sa2040"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="p100"/> <bbox w="80.0" h="40.0" x="20319.04" y="3785.9614"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2042_in_sa2042"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="82.0" h="46.0" x="20318.414" y="3872.9614"/> <glyph class="unit of information" id="_e57689a6-da9d-402d-921d-1f1e8366429d"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20334.414" y="3867.9614"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa80_wnc1_wnc1_csa80" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*</p> </body> </html> </notes> <label text="Ca2+:Calmodulin*"/> <clone/> <bbox w="101.0" h="105.0" x="15167.061" y="18031.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa724_wnc1_wnc1_sa724"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <clone/> <bbox w="80.0" h="40.0" x="15178.561" y="18045.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa725_wnc1_wnc1_sa725"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="15204.561" y="18088.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa80_wnc1_wnc2_csa5" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*</p> </body> </html> </notes> <label text="Ca2+:Calmodulin*"/> <clone/> <bbox w="101.0" h="99.0" x="18065.06" y="17970.0"/> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa725_wnc1_wnc2_sa22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="18105.56" y="18023.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa724_wnc1_wnc2_sa21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <clone/> <bbox w="80.0" h="40.0" x="18077.06" y="17981.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa498_rc_csa498" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CASP8</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>CASP8:CASP8-ubq</p> <p>PMID:26587781</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa498_rc_csa498"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26587781"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CASP8:CASP8-ubq"/> <bbox w="110.0" h="100.0" x="28412.275" y="14838.286"/> <glyph class="macromolecule" id="s_id_rc_sa5128_rc_sa5129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28422.275" y="14858.286"/> <glyph class="state variable" id="_26af69c5-4645-4ccc-830d-241400a8d499"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28484.775" y="14865.065"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5128_rc_sa5128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28422.275" y="14858.286"/> <glyph class="state variable" id="_eb37d835-6b49-4600-ac45-a72b4556917b"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28484.775" y="14865.065"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5128_rc_sa5130"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28432.275" y="14868.286"/> <glyph class="state variable" id="_3029ae9f-10f3-4aad-9c33-fff69bb4dcf2"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28494.775" y="14875.065"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa439_rc_csa439" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NRIF*:SQSTM1:TRAF6</p> <p>References:</p> <p>16252010</p> <p>NRIF undergoes K63 polyubiquitination, associates with TRAF6 and p62, and translocates to the nucleus</p> </body> </html> </notes> <label text="NRIF*:SQSTM1:TRAF6"/> <bbox w="100.0" h="188.0" x="21589.06" y="9691.5"/> <glyph class="macromolecule" id="s_id_rc_sa4296_rc_sa4296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 6, E3 ubiquitin protein ligase</p> <p>HUGO:TRAF6 HGNC:12036 ENTREZ:7189 UNIPROT:Q9Y4K3</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:16252010</p> </body> </html> </notes> <label text="TRAF6"/> <bbox w="80.0" h="40.0" x="21599.06" y="9819.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4246_rc_sa4246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sequestosome 1</p> <p>HUGO:SQSTM1 HGNC:11280 ENTREZ:8878 UNIPROT:Q13501</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:26587781</p> <p>Sequestosme 1, p62</p> <p>PMID:20531300</p> <p>PMID:16252010</p> <p>PMID:15340068</p> <p>Sequestosome 1/p62 is a polyubiquitin chain binding protein involved in ubiquitin proteasome degradation.PMID:19450509</p> <p>polyubiquitination of caspase-8, rather than targeting it for proteasomal degradation, is critical for sustaining caspase-8 activity after dissociation from the DISC</p> <p>PMID:28574505</p> </body> </html> </notes> <label text="SQSTM1"/> <bbox w="80.0" h="40.0" x="21599.06" y="9759.0"/> <glyph class="state variable" id="_f3b65c9e-96db-4117-b40e-fb46ceb2fcce"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21650.629" y="9754.0"/> </glyph> <glyph class="state variable" id="_5337ad14-48bd-49e6-b63b-77821caeaca9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21634.06" y="9794.0"/> </glyph> <glyph class="state variable" id="_00cea5c6-37a2-49ef-a2f6-fd2066e93c0a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21617.492" y="9754.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4248_rc_sa4248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin beta 3 binding protein (beta3-endonexin)</p> <p>HUGO:ITGB3BP HGNC:6157 ENTREZ:23421 UNIPROT:Q13352</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:15721744</p> <p>PMID:16252010</p> <p>NRIF is a substrate for TRAF6-mediated K63 polyubiquitination and that this modification is necessary for its nuclear translocation.</p> </body> </html> </notes> <label text="NRIF*"/> <bbox w="80.0" h="40.0" x="21599.06" y="9706.5"/> <glyph class="state variable" id="_6717ac83-4e44-4b70-9976-63f751599cf3"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="21645.629" y="9701.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2859_rc_sa2859" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2859_rc_sa2859"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR449B"/> <bbox w="90.0" h="25.0" x="21473.56" y="15590.0"/> <glyph class="unit of information" id="_da504e51-2180-4029-b71d-ae52c4fbd9e4"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21503.56" y="15585.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5239_rc_sa5239" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16283</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5239_rc_sa5239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-cystine"/> <bbox w="70.0" h="25.0" x="26354.06" y="9301.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1172_ad_sa1172" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:20634814</p> <p>Following antigen recognition and proximal signalling events, cytotoxic granules are polarized towards the cytotoxic T lymphocyte (CTL)–target cell contact site where the immunological synapse forms. Actin filaments are cleared away from the site of secretion (not shown). Mature cytotoxic granules dock at the plasma membrane through the interaction of RAB27a with synaptotagmin-like protein 1 (SLP1) or SLP2. In addition, cytotoxic granules interact with a docking complex of MUNC18-2 and syntaxin 11 in the closed conformation. Docked vesicles are then primed by MUNC13-4, which probably triggers the switch of syntaxin 11 from a closed to an open conformation. A SNARE (soluble N-ethylmaleimide-sensitive factor accessory protein receptor) complex then forms between a vesicle membrane SNARE, possibly vesicle-associated membrane protein 7 (VAMP7) and/or VAMP8, on one side and the target membrane SNAREs syntaxin 11 and SNAP23 (synaptosomal-associated protein of 23 kDa), on the other side. Completion of the fusion reaction occurs when MUNC18-2 clasps across the zippering four-helix SNARE complex bundle.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1172_ad_sa1172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAB27A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20634814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label 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id="s_id_emtc_em_sa1517_rc_sa1756" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1517_rc_sa1756"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAK1"/> <clone/> <bbox w="80.0" h="40.0" x="20998.31" y="11692.608"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa144_ad_sa144" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:11007762</p> <p>ICOSLG (B7RP1) is expressed on PB B cells and monocytes, and on PB monocyte-derived DC.</p> <p>It is the ligand to the co-stimulatory protein ICOS of T cells.</p> <p>PMID:20116985</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa144_ad_sa144"> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa94_te_sa94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM"/> <clone/> <bbox w="80.0" h="40.0" x="2245.06" y="21150.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa94_emtc_em_sa1943" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa94_emtc_em_sa1943"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM"/> <clone/> <bbox w="40.0" h="19.0" x="4195.0" y="14810.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3827_rc_sa3827" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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rdf:about="#s_id_emtc_em_sa278_emtc_em_sa278"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA9"/> <bbox w="60.0" h="20.0" x="4460.184" y="17722.5"/> <glyph class="unit of information" id="_08320093-7ee9-4097-97b1-eba1ad209aad"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4480.184" y="17717.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa362_rc_csa362" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAK1:MCL1</p> </body> </html> </notes> <label text="BAK1:MCL1"/> <bbox w="100.0" h="130.0" x="22709.06" y="14584.0"/> <glyph class="macromolecule" id="s_id_rc_sa3369_rc_sa3369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22720.06" y="14595.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3368_rc_sa3368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid cell leukemia sequence 1 (BCL2-related)</p> 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TRAFs 2 and 5 are required downstream of GITR for maximal activation of the MAPK and canonical NF-κB pathways and up-regulation of the anti-apoptotic molecule Bcl-xL</p> <p>PMID:23758787</p> <p>The tumor necrosis factor receptor (TNF-R)-associated factor (TRAF) family of intracellular proteins were originally identified as signaling adaptors that bind directly to the cytoplasmic regions of receptors of the TNF-R superfamily [1-3]. There are six known members of the TRAF family (TRAF1 to 6) in mammals. Although a novel protein was named TRAF7 [4], this claim is controversial as the protein does not have the TRAF homology domain that defines the TRAF family</p> <p> </p> <p> PMID:22017440 </p> <p>TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulation</p> <p>of Bcl-xL and Bfl-1 and downmodulation of BIM protein</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1374_ad_sa1372"> <bqbiol:isEncodedBy> <rdf:Bag> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa197_in_csa197"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12000961"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22035837"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s2206"/> <bbox w="190.0" h="153.0" x="16277.5" y="1483.75"/> <glyph class="macromolecule" id="s_id_in_sa1470_in_sa1470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF 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rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGB3"/> <bbox w="80.0" h="50.0" x="16287.5" y="1543.75"/> <glyph class="unit of information" id="_47e34379-5522-4e9c-a0e8-81afda6df7b8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16305.0" y="1538.75"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa1471_in_sa1471"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdSer"/> <bbox w="70.0" h="25.0" x="16382.5" y="1593.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1469_in_sa1469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGAV"/> <bbox w="80.0" h="50.0" x="16287.5" y="1498.75"/> <glyph class="unit of information" id="_1ad89843-e0f3-4d05-80b0-34ee47b1500b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16305.0" y="1493.75"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa63_ce_csa63" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EME1:MSH2:MSH3:MUS81:SNM1B*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:HR</p> </body> </html> </notes> <label text="EME1/MSH2/MSH3/MUS81/SNM1B*"/> <bbox w="198.0" h="165.0" x="15890.473" y="15958.356"/> <glyph class="macromolecule" id="s_id_ce_sa651_ce_sa651"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) </p> <p>HUGO:MSH2, HGNC:7325, ENTREZ:4436, UNIPROT:P43246</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR , MODULE:BER, MODULE:SSA</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:19847258, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH2"/> <bbox w="80.0" h="40.0" x="15908.473" y="15966.356"/> <glyph class="state variable" id="_d17ff33a-5df0-4efe-bd33-31c766c2dfd3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15903.473" y="15981.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa647_ce_sa647"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>essential meiotic endonuclease 1 homolog 1 (S. pombe)</p> <p>HUGO:EME1, HGNC:24965, ENTREZ:146956, UNIPROT:Q96AY2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="EME1"/> <bbox w="80.0" h="40.0" x="15995.391" y="16010.331"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa650_ce_sa650"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 3 (E. coli)</p> <p>HUGO:MSH3, HGNC:7326, ENTREZ:4437, UNIPROT:P20585</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:SSA</p> <p>References:</p> <p>PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH3"/> <bbox w="80.0" h="40.0" x="15907.973" y="16007.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa649_ce_sa649"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA cross-link repair 1B (PSO2 homolog, S. cerevisiae)</p> <p>HUGO:DCLRE1B, HGNC:17641, ENTREZ:64858, UNIPROT:Q9H816</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:20655466, PMID:18469862</p> </body> </html> </notes> <label text="SNM1B*"/> <bbox w="80.0" h="40.0" x="15994.115" y="15966.214"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa648_ce_sa648"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MUS81 endonuclease homolog (S. cerevisiae)</p> <p>HUGO:MUS81, HGNC:29814, ENTREZ:80198, UNIPROT:Q96NY9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258, PMID:22101340</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MUS81"/> <bbox w="80.0" h="40.0" x="15997.391" y="16055.331"/> </glyph> </glyph> <glyph 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <bbox w="72.0" h="42.0" x="3428.75" y="14485.5"/> <glyph class="state variable" id="_dfd54d0e-962c-49e8-8217-f53a9813122a"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="3421.25" y="14483.022"/> </glyph> <glyph class="state variable" id="_4ca4695a-b4c8-40cc-bf98-2b549f19d95f"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="3492.9202" y="14480.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3075_rc_sa3075" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3075_rc_sa3075"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~BIRC2*"/> <bbox w="80.0" h="40.0" x="22846.314" y="9285.748"/> <glyph class="unit of information" id="_95c14f04-3edf-478c-af7f-2f9d1afb5584"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22861.314" y="9280.748"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1300_in_sa1300" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 18345002 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_ACTIVATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:STING, CASCADE:TLR2_4, CASCADE:TNFReferences:PMID:18345002TNF induced IFNB expression through IRF1. TNF-induced Ifnb1 expression was completely abrogated in IRF1-deficient macrophages. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 18345002 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_ACTIVATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:STING, CASCADE:TLR2_4, CASCADE:TNFReferences:PMID:18345002TNF induced IFNB expression through IRF1. TNF-induced Ifnb1 expression was completely abrogated in IRF1-deficient macrophages. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1300_in_sa1300"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18345002"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="INFB*"/> <bbox w="90.0" h="25.0" x="21851.25" y="5312.5"/> <glyph class="unit of information" id="_b2976cf8-5ab5-4d71-a9ca-82528f644ef6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21886.25" y="5307.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa870_ad_sa870" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:TCR, CASCADE:AR2AMODULE:TCR_SIGNALINGPMID:8383323 The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.PMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.PMID:15079071 when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter PMID:16920910A2AAR agonists decreased the stability of proinflammatory cytokine IL-2 and IFN-γ mRNA. ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:TCR, CASCADE:AR2AMODULE:TCR_SIGNALINGPMID:8383323 The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.PMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.PMID:15079071 when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter PMID:16920910A2AAR agonists decreased the stability of proinflammatory cytokine IL-2 and IFN-γ mRNA. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa870_ad_sa870"> <bqbiol:isEncodedBy> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2420_emtc_em_sa2420"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGF family*"/> <bbox w="77.0" h="24.0" x="3046.0" y="18959.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa6_wca1_wca2_csa6" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:FZD*:GTP:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:WNT*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re25(MAP:survival):</p> <p>Kremen interacts w/ RSPO1 thereby releasing LRP5/6 which can is used for canonical wnt signalling</p> <p>PMID:12050670</p> <p>s_wca2_re21(MAP:survival):</p> <p>DKK1 can disrupt binding of Fz/LRP6/WNT complex</p> <p>PMID:11448771</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa6_wca1_wca2_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12050670"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11448771"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:FZD*:GTP:Gαo*:Gβ*:Gγ*:LRP5_6*:WNT*"/> <bbox w="200.0" h="170.0" x="24121.06" y="18152.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa40_wca1_wca2_sa40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="30.0" h="20.0" x="24181.06" y="18282.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa37_wca1_wca2_sa37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="30.0" h="20.0" x="24186.06" y="18172.0"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca2_sa42_wca1_wca2_sa42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="24138.56" y="18259.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa39_wca1_wca2_sa39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="30.0" h="20.0" x="24141.06" y="18282.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa38_wca1_wca2_sa38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="24244.56" y="18160.5"/> <glyph class="state variable" id="_e36dd0ac-65b2-44e4-ba31-99900542993e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24292.56" y="18155.5"/> </glyph> <glyph class="state variable" id="_5cc8bd59-6aa9-4663-91bc-a7dd065e8ac0"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="24282.56" y="18156.152"/> </glyph> <glyph class="state variable" id="_11698c43-231a-4725-b050-bd2e731215b1"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="24280.629" y="18278.5"/> </glyph> <glyph class="state variable" id="_f7ed1dc9-f61b-4cf7-9469-751cde572207"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="24230.404" y="18155.5"/> </glyph> <glyph class="state variable" id="_0cf77f66-d792-48ab-8229-a7e770abfc5d"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="24229.719" y="18278.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa35_wca1_wca2_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="24161.06" y="18222.0"/> <glyph class="state variable" id="_64371883-4278-4db9-b082-81f8ed2e1eea"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="24143.56" y="18241.96"/> </glyph> <glyph class="state variable" id="_f811a674-ecc0-4a45-a0e2-17af6fd2dd84"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="24223.56" y="18217.266"/> </glyph> <glyph class="state variable" id="_1f5e0dd1-34da-467b-83a5-3371c384affc"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="24222.941" y="18267.0"/> </glyph> <glyph class="state variable" id="_5fe8344a-9ab4-4782-9b81-bc144cc40928"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="24182.664" y="18267.0"/> </glyph> <glyph class="state variable" id="_2be7c5d6-490b-4cf8-a7c1-5ec5c707a6b1"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="24143.8" y="18267.0"/> </glyph> <glyph class="state variable" id="_6cf41aa3-ba50-47e1-86cd-79179011aa41"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="24183.592" y="18217.0"/> </glyph> <glyph class="unit of information" id="_669b4105-870c-48bf-ab8d-361eb2961e4a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24178.56" y="18217.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa41_wca1_wca2_sa41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="30.0" h="20.0" x="24221.06" y="18282.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa36_wca1_wca2_sa36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2910_rc_sa2910"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC2"/> <bbox w="90.0" h="25.0" x="23853.56" y="16050.5"/> <glyph class="unit of information" id="_9c3a28fc-8b25-4d46-af84-53ce63494c79"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23888.56" y="16045.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa97_te_sa97" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa97_te_sa97"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBXO4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FBXO4"/> <bbox w="80.0" h="40.0" x="3405.06" y="20790.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa256_emtc_em_csa256" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA5:NISCH</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:11121431</p> <p>PMID:15157156</p> <p>PMID:15229651</p> <p>Nischarin binds preferentially to the cytoplasmic tail of ITGA5 subunit ti inhibit cell migration.</p> <p>Nischarin is not found in focal adhesion sites.</p> <p>Once integrins enter into adhesion sites, Nischarin is released, allowing it to bind to the activated PAK1 in order to inactive PAK1..</p> <p>This binding is enhaced by active Rac1.</p> <p>The ability of Nischarin to inhibit PAK1 is related to its ability to inhibit cell motility.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa256_emtc_em_csa256"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11121431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15157156"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15229651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA5/NISCH"/> <bbox w="97.0" h="47.0" x="5412.0" y="15999.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1663_emtc_em_sa1663"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Nischarin</p> <p>HUGO:NISCH HGNC:18006 ENTREZ:11188 UNIPROT:Q9Y2I1 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:11121431</p> <p>PMID:15157156</p> <p>PMID:15229651</p> <p>Nischarin binds preferentially to the cytoplasmic tail of ITGA5 subunit ti inhibit cell migration.</p> <p>Nischarin is not found in focal adhesion sites.</p> <p>Once integrins enter into adhesion sites, Nischarin is released, allowing it to bind to the activated PAK1 in order to inactive PAK1..</p> <p>This binding is enhaced by active Rac1.</p> <p>The ability of Nischarin to inhibit PAK1 is related to its ability to inhibit cell motility.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NISCH"/> <bbox w="49.0" h="16.0" x="5457.5" y="16007.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1662_emtc_em_sa1662"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 5 (fibronectin receptor, alpha polypeptide)</p> <p>HUGO:ITGA5, HGNC:6141, ENTREZ:3678, UNIPROT:P08648, GENECARDS:GC12M054789</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="ITGA5"/> <bbox w="40.0" h="20.0" x="5413.5" y="16004.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa642_rc_sa642" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa642_rc_sa642"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TPI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TPI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TPI1"/> <bbox w="90.0" h="25.0" x="23106.06" y="16049.5"/> <glyph class="unit of information" id="_e1a219fc-fca8-419c-87bf-53c41fd50457"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23141.06" y="16044.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa124_rc_sa124" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:26523</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27646922</p> <p>ROS play a central role in cell signalling as well as in regulation of the main pathways ofapoptosis mediated by mitochondria, death receptors and the endoplasmic reticulum (ER).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa124_rc_sa124"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="18938.31" y="14841.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa124_rc_sa350" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:26523</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27646922</p> <p>ROS play a central role in cell signalling as well as in regulation of the main pathways ofapoptosis mediated by mitochondria, death receptors and the endoplasmic reticulum (ER).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa124_rc_sa350"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="19598.31" y="14701.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1096_ca_sa1096" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>MUDULE:METABOLIC</p> <p>PMID:25732824</p> <p>CAFs from tumor samples exhibit low levels of IDH3α, and overexpression of IDH3α prevents transformation of fibroblasts into CAFs.</p> <p>DH3A downregulation occurred mainly through transcriptional regulation downstream of TGFB</p> <p>IDH3A converts isocitrate into alpha-KG</p> <p>The activity of PHD requires oxygen and alpha-KG</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1096_ca_sa1096"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IDH3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25732824"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IDH3A"/> <bbox w="80.0" h="40.0" x="2780.0" y="3500.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa61_emtc_em_sa61" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa61_emtc_em_sa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LMO2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LMO2"/> <bbox w="40.0" h="20.0" x="4378.5" y="16363.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa104_wnc1_wnc1_sa104" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa104_wnc1_wnc1_sa104"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="15139.561" y="18306.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa104_mpk1_mpk1_sa275" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa104_mpk1_mpk1_sa275"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+"/> <clone/> <bbox w="61.0" h="38.0" x="7800.5044" y="19434.445"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa104_wnc1_wnc2_sa59" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa104_wnc1_wnc2_sa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="18270.56" y="18147.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa29_wnc1_wnc2_csa29" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*:PPP3R*</p> <p>References:</p> <p>s_wnc2_re49:(MAP:survival) PMID:2550447, PMID:19608982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa29_wnc1_wnc2_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2550447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19608982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin/_BR_Calmodulin/_BR_Ca2+)"/> <bbox w="102.0" h="216.0" x="17979.56" y="18443.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa161_wnc1_wnc2_sa161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="17989.06" y="18535.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa160_wnc1_wnc2_sa160"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="17989.06" y="18492.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa162_wnc1_wnc2_sa162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18016.81" y="18576.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa1114_in_sa1114" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1406_ce_sa1406"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POLM"/> <bbox w="80.0" h="40.0" x="13042.731" y="16572.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa123_mo_sa123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>UL16 binding protein 2 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="24200.0" y="3340.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2893_in_sa2893"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TNFR1*"/> <bbox w="80.0" h="50.0" x="24200.0" y="3285.0"/> <glyph class="unit of information" id="_aafb0e61-cf7c-4af4-9e0a-a1ce9a9fe6bd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24217.5" y="3280.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2894_in_sa2894"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24100.0" y="3240.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2895_in_sa2895"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="24100.0" y="3290.0"/> <glyph class="state variable" id="_8d3a134f-e14c-4b9f-994e-3eea47b1d5b5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24175.0" y="3305.4336"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2896_in_sa2896"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="24100.0" y="3340.0"/> <glyph class="state variable" id="_fe4f9625-e321-44e0-877f-22573869220e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24175.0" y="3353.6672"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2892_in_sa2892"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:EXOCYTOSIS_AND_PHAGOCYTOSIS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSION</p> <p>CASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:KLRG1, CASCADE:FCAR, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:IL15, CASCADE:CSF2, CASCADE:CSF1, CASCADE:TNF, CASCADE:IFNG</p> <p>PMID:19732719</p> <p>Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)</p> <p>References:</p> <p>PMID:21133840</p> <p>TNF is a pleiotropic cytokine produced by many different types of cells in the body. However, cells of the monocytic lineage-such as macrophages, astroglia, microglia, Langerhans cells, Kupffer cells, and alveolar macrophages-are the primary synthesizers of TNF</p> <p>PMID:1431106</p> <p>TNF induced tumoricidal activity of macrophages.</p> <p>PMID:14607933, 14625680</p> <p>TNF and IFNG cooperate in the activation of macrophages.</p> <p>PMID:18633355</p> <p>TNF is pro-angiogenic facror.</p> <p>PMID:23510023, PMID:23170255</p> <p>TRAIL, FASL and TNF provides Dendritic cell tumor killing activity.()</p> <p>L10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expression</p> <p>PMID:22955274</p> <p>SHIP inhibit MAPKp38 activation and prevent MNK1 phosphorylation by inhibiting the p38 MAPK pathway downstream of IL10. MNK1 regulates TNFa mRNA polysome assembly and upregulates TNFa translation.IL-10 Inhibits TNF Translation through SHIP1-mediated Inhibition of Mnk1</p> <p>PMID:15699106, PMID:12646658</p> <p>Phosphorylated STAT1 binds to TNF promoter end induces TNF expression downstream of IFNG.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:24092389</p> <p>TANs from early tumors are more cytotoxic toward tumor cells and produce higher levels of TNF-a, NO, and H2O2 and, in established tumors, these functions are downregulated and TAN acquire a more protumorigenic phenotype</p> <p>PMID:21826665</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TNF"/> <bbox w="80.0" h="40.0" x="24205.0" y="3240.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa95_ce_sa95" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa95_ce_sa95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="11700.777" y="11430.551"/> <glyph class="state variable" id="_0fa10ce9-aedc-4305-b928-cb1caafc58b9"> <state value="P" variable="S422"/> <bbox w="35.0" h="10.0" x="11759.637" y="11425.551"/> </glyph> <glyph class="state variable" id="_55283494-7793-41de-bfa8-8523bebc8187"> <state value="" variable="T179"/> <bbox w="30.0" h="10.0" x="11704.426" y="11425.551"/> </glyph> <glyph class="state variable" id="_4b8dfb92-50b1-44d9-b4f6-b7aec2b4f9c9"> <state value="" variable="S185"/> <bbox w="30.0" h="10.0" x="11719.643" y="11425.551"/> </glyph> <glyph class="state variable" id="_7874934d-195a-4592-ae37-4c88f10be1d9"> <state value="" variable="S181"/> <bbox w="30.0" h="10.0" x="11736.746" y="11425.551"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa38_rc_sa38" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa38_rc_sa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VDAC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VDAC2"/> <bbox w="80.0" h="40.0" x="23366.77" y="14554.497"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa3_wnc1_wnc1_csa3" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha__sub_13q_endsub_*:G_beta_*:G_gamma_*:PAR1_sub_TRUNC_endsub_*</p> <p>References:</p> <p>s_wnc1_re7(MAP:survival):</p> <p>PAR1 is activated by cleavage of exodomain at Arg41-Ser42</p> <p>PMID:14652070</p> <p>PAR1 can be activated by MMP1</p> <p>PMID:15707890</p> <p>s_wnc1_re1(MAP:survival):</p> <p>PMID:21506126</p> <p>PAR1 can induce AKT phosphorylation; exact mechanism unknown also wich residues are unknown</p> <p>PMID:17374729</p> <p>s_wnc1_re8:(MAP:survival) PMID:11694535</p> <p>s_wnc1_re15:(MAP:survival) PMID:20223821</p> <p>s_wnc1_re21(MAP:survival):</p> <p>PAR1 silencing leads to increased protein level of activated caspase3 and 9. 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h="40.0" x="15016.061" y="17727.0"/> <glyph class="unit of information" id="_2e53aaa5-d23d-4380-abf8-2d0e10d4ca3c"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="15031.061" y="17722.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa27_wnc1_wnc1_sa27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="15075.561" y="17777.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa25_wnc1_wnc1_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα13q*"/> <bbox w="50.0" h="20.0" x="14984.561" y="17777.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa26_wnc1_wnc1_sa26"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5043_rc_sa5043"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NUCB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NUCB2"/> <bbox w="80.0" h="40.0" x="28959.06" y="15709.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc1_sa628_wnc1_wnc1_sa628" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="JNK pathway"/> <bbox w="80.0" h="30.0" x="15730.061" y="18857.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1147_in_sa1147" compartmentRef="s_id_in_ca12_in_ca12"> <label 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id="s_id_mo_sa495_mo_sa495"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lysine demethylase 4C </p> <p>"jumonji domain containing 2C", "lysine (K)-specific demethylase 4C"</p> </body> </html> </notes> <label text="JMJD2C*"/> <bbox w="80.0" h="40.0" x="3010.0" y="10822.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa497_mo_sa497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone cluster 1 H3 family member a </p> <p>HUGO:HIST1H3A </p> <p>histone cluster 1 H3 family member b </p> <p>HUGO:HIST1H3B </p> <p>histone cluster 1 H3 family member c </p> <p>HUGO:HIST1H3C </p> <p>histone cluster 1 H3 family member d </p> <p>HUGO:HIST1H3D </p> <p>histone cluster 1 H3 family member e </p> <p>HUGO:HIST1H3E </p> <p>histone cluster 1 H3 family member f </p> <p>HUGO:HIST1H3F </p> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4718_rc_sa4718"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XBP1"/> <bbox w="70.0" h="25.0" x="25876.326" y="16131.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1239_emtc_em_sa1239" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1239_emtc_em_sa1239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MLLT4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Afadin*"/> <bbox w="47.0" h="19.0" x="2017.5" y="14663.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa430_in_sa430" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LAT"/> <bbox w="80.0" h="50.0" x="17675.0" y="2885.0"/> <glyph class="state variable" id="_575ae529-20b0-4138-a88e-69a7cac22569"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17670.0" y="2905.0"/> </glyph> <glyph class="unit of information" id="_289d1244-3065-4c01-bc5e-53920102fa04"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17692.5" y="2880.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa46_wca1_wca3_csa46" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:CTBP*:HDAC1_2*</p> <p>References:</p> <p>s_wca3_re107:(MAP:survival) PMID:15327769</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa46_wca1_wca3_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327769"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:CTBP*:HDAC1_2*"/> <bbox w="98.0" h="161.0" x="21471.56" y="21941.0"/> <glyph class="macromolecule multimer" id="s_id_wca1_wca3_sa291_wca1_wca3_sa291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="86.0" h="46.0" x="21476.56" y="22000.5"/> <glyph class="unit of information" id="_22be78b1-dc7d-4aa3-b6cf-dc6ac4e3da9f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="21509.56" y="21995.5"/> </glyph> <glyph class="state variable" id="_e0c6b7ef-8055-4615-9aab-c33b421f0a66"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="21547.56" y="21995.744"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa287_wca1_wca3_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="21481.56" y="21953.0"/> <glyph class="state variable" id="_7818c0fd-65a9-4d61-a725-126e5e1fb05a"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="21464.06" y="21987.72"/> </glyph> <glyph class="state variable" id="_670979be-e38b-486d-b2b8-53c91758219a"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21469.553" y="21948.0"/> </glyph> <glyph class="state variable" id="_2e8f3956-a944-4166-b31e-2ff2b7361f72"> <state value="P" variable="T1487"/> <bbox w="40.0" h="10.0" x="21541.56" y="21987.133"/> </glyph> <glyph class="state variable" id="_6d4fd4e0-cb55-455a-bbf7-0a04e0c94dd7"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="21464.06" y="21987.72"/> </glyph> <glyph class="state variable" id="_806430b5-9bb1-499a-9a00-4d188c9a861b"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="21464.553" y="21948.0"/> </glyph> <glyph class="state variable" id="_917e3027-bd13-49c8-a15f-32f3c0eae27f"> <state value="" variable="S1504"/> <bbox w="35.0" 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HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="21480.56" y="22038.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa108_mpk1_mpk1_csa108" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD2:SMAD4</p> </body> </html> </notes> <label text="SMAD2:SMAD4"/> <bbox w="100.0" h="80.0" x="11053.061" y="20467.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa674_mpk1_mpk1_sa674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>"MAD mothers against decapentaplegic homolog 2 (Drosophila)" MADH2 "SMAD mothers against DPP homolog 2 (Drosophila)"</p> <p>HUGO:SMAD2 HGNC:6768 ENTREZ:4087 UNIPROT:Q15796</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-?? exerts its biological effects by binding to a cell surface receptor complex composed of type I (TbRI) and type II (TbRII) receptor serine/threonine kinases. Upon ligand binding TbRII phosphorylates and activates TbRI which subsequently phosphorylates the cytoplasmic Smad2 and Smad3 proteins. Phosphorylated Smad proteins form stable complexes with a common partner Smad4. The activated Smad2/4 and Smad3/4 complexes translocate into the nucleus where the Smad oligomers induce transcriptional activation (or inhibition) of specific target genes.</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="50.0" h="25.0" x="11078.061" y="20471.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa675_mpk1_mpk1_sa675"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>"MAD mothers against decapentaplegic homolog 4 (Drosophila)" MADH4 "SMAD mothers against DPP homolog 4 (Drosophila)"</p> <p>HUGO:SMAD4 HGNC:6770 ENTREZ:4089 UNIPROT:Q13485</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-?? exerts its biological effects by binding to a cell surface receptor complex composed of type I (TbRI) and type II (TbRII) receptor serine/threonine kinases. Upon ligand binding TbRII phosphorylates and activates TbRI which subsequently phosphorylates the cytoplasmic Smad2 and Smad3 proteins. Phosphorylated Smad proteins form stable complexes with a common partner Smad4. The activated Smad2/4 and Smad3/4 complexes translocate into the nucleus where the Smad oligomers induce transcriptional activation (or inhibition) of specific target genes.</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="50.0" h="25.0" x="11078.061" y="20496.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa643_rc_sa643" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa643_rc_sa643"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BNIP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BNIP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BNIP3"/> <bbox w="70.0" h="25.0" x="23053.393" y="16269.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa240_emtc_em_csa240" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ARHGAP5:RASA1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8537347</p> <p>PMID:10769036</p> <p>GAP activity of ARHGAP5 is abrogated by binding to RASA1 (p120GAP)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa240_emtc_em_csa240"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8537347"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10769036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP5/RASA1"/> <bbox w="111.0" h="38.0" x="5785.0" y="14186.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1555_emtc_em_sa1555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS p21 protein activator (GTPase activating protein) 1</p> <p>RASA</p> <p>HUGO:RASA1 HGNC:9871 ENTREZ:5921 UNIPROT:P20936</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8537347</p> <p>PMID:10769036</p> <p>GAP activity of ARHGAP5 is abrogated by binding to RASA1 (p120GAP)</p> <p>PMID:8360177</p> <p>RASA1 is a GAP for HRAS.</p> <p>PMID:18829532</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RASA1"/> <bbox w="42.0" h="16.0" x="5852.5" y="14191.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1556_emtc_em_sa1556"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rho GTPase activating protein 5</p> <p>GFI2, "growth factor independent 2"</p> <p>HUGO:ARHGAP5 HGNC:675 ENTREZ:394 UNIPROT:Q13017</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8537347</p> <p>PMID:10769036</p> <p>ARHGAP5 as a GAP of CDC42</p> <p>GAP activity of ARHGAP5 is abrogated by binding to RASA1 (p120GAP)</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ARHGAP5"/> <bbox w="66.0" h="16.0" x="5787.5" y="14190.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa38_shh1_shh2_csa38" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CyclinD*:MIR20A</p> <p>References:</p> <p>s_shh2_re155:(MAP:survival) PMID:18695042</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa38_shh1_shh2_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18695042"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-20a_CYCLIND"/> <bbox w="100.0" h="120.0" x="27747.06" y="22083.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa272_shh1_shh2_sa272"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18414028</p> <p>PMID:19887899</p> <p>PMID:20673124</p> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>References:</p> <p>PMID:18414028</p> <p>PMID:19887899</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="90.0" h="25.0" x="27752.06" y="22113.0"/> <glyph class="unit of information" id="_d9bf381c-4f2d-40ee-8ee4-5336489a4c4f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27787.06" y="22108.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa271_shh1_shh2_sa271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 20a</p> <p>HUGO:MIR20A HGNC:31577 ENTREZ:406982 GENECARDS:MIR20A KEGG:406982 ATLASONC:GC_MIR20A WIKI:MIR20A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 20a</p> <p>HUGO:MIR20A HGNC:31577 ENTREZ:406982 GENECARDS:MIR20A KEGG:406982 ATLASONC:GC_MIR20A WIKI:MIR20A</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR20A"/> <bbox w="90.0" h="25.0" x="27755.06" y="22087.0"/> <glyph class="unit of information" id="_db2c6351-acc0-484e-bfc1-1b9d54fa8378"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27785.06" y="22082.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1275_emtc_em_sa1275" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1275_emtc_em_sa1275"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAV1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caveolin1*"/> <bbox w="75.0" h="19.0" x="1821.0" y="15439.5"/> </glyph> <glyph class="complex" id="s_id_em_csa323_em_csa323" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:L1CAM</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2500"/> <bbox w="77.0" h="56.0" x="1106.0" y="16125.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa894_emtc_em_sa894"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>L1 cell adhesion molecule</p> <p>HUGO:L1CAM, HGNC:6470, ENTREZ:3897, GENECARDS:GC0XM153126, UNIPROT:P32004</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>ISBN:978-953-51-0410-0</p> <p>PMID:8893017</p> <p>PMID:20044598</p> <p>The adhesion molecule L1CAM (CD171) is a 220 kD transmembrane glyocoprotein and belongs to the immunoglobulin superfamily.</p> <p>The extracellular part of the molecule comprises six Ig-like domains followed by 5 fibronectin type III repeats. </p> <p>The transmembrane domain is followed by a short cytoplasmic tail of 32kD </p> <p>PMID:10413675</p> <p>L1CAM can be expressed and mediate its effects as a membrane-bound form.</p> <p>L1CAM can also be proteolytically cleaved by different proteases releasing a soluble ectodomain that is likewise functionally active. </p> <p>PMID:16199880</p> <p>PMID:11706054</p> <p>The metalloproteases ADAM 10 and 17 as well as plasmin have been described to cleave L1CAM generating a soluble 200 kD and 150 kD form, respectively</p> <p>After ADAM-mediated cleavage, the membrane-bound intracellular C-terminal fragment of L1CAM can be further processed by the presenilin/gamma-secretase complex giving rise of a 28 kD fragment. </p> <p>PMID:19260824</p> <p>This small intracellular fragment translocates into the nucleus where it is thought to contribute to L1CAM-dependent gene regulation.</p> <p>L1CAM can bind to different substrates/molecules in a cell and context dependent manner. </p> <p>PMID:10469653</p> <p>LACAM can undergo homophilic binding to itself as a membrane-bound or shedded form.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>PMID:8898967 </p> <p>PMID:8636223</p> <p>PMID:11553709</p> <p>PMID:10455125</p> <p>PMID:16377081</p> <p>PMID:7613634</p> <p>PMID:1720120</p> <p>L1CAM can interact with a plethora of other proteins, e.g. integrins aVb1, aVb3, aVb5, a5b1, neuropilin-1, CD24, neurocan, and axonin-1/TAX-1.</p> <p>PMID:6368220</p> <p>L1CAM was originally identified in cells of the nervous system</p> <p>PMID:9127006</p> <p>L1CAM expression has been also found in certain populations of hematopoietic cells.</p> <p>PMID:19273627</p> <p>Potential role for L1CAM in transendothelial migration and trafficking of murine dendritic cells. </p> <p>PMID:9864376</p> <p>Furthermore, L1CAM is expressed by renal tubular epithelial cells under physiological conditions being involved in branching of renal tubes in the kidney </p> <p>However, distribution of L1CAM in adults is quite restricted so that its elevated expression in cancerous tissues which is discussed in the next paragraph favours its suitability as therapeutic target in anti-cancer therapy.</p> <p>PMID:19356150</p> <p>PMID:21195665</p> <p>L1CAM expression in tumors can be associated with the activation of several signalling pathways that are known to play a pivotal role in tumor progression e.g. the MAPK/ERK and AKT pathway or FAK-mediated signalling</p> <p>PMID:15716380</p> <p>PMID:17699774</p> <p>PMID:20501702</p> <p>L1CAM is a target gene of b-catenin-TCF signaling in colorectal cancer cells.</p> <p>L1 expression conferred increased cell motility, growth in low serum, transformation and tumorigenesis</p> <p>The transmembrane localization and shedding of L1CAM by metalloproteases, including ADAM10 could be useful for detection and as target for colon cancer therapy.</p> <p>Expression of L1CAM and ADAM10 in human colon cancer cells induces metastasis. NFkB signaling and ezrin are essential for L1CAM-mediated metastasis of colon cancer cells.</p> <p>PMID:21123622</p> <p>Gavert and al. showed that L1CAM-mediated colon cancer cell metastasis does not require changes in EMT and cancer stem cell markers.</p> <p>BUT in other context,</p> <p>PMID:19435915</p> <p>PMID:21109948</p> <p>Geismann and al. showed that upregulation of L1CAM in pancreatic duct cells is TGFB1- and SNAI2-dependent.</p> <p>Binding of SNAI2 to the L1CAM promoter is essential for TGFB1-induced L1CAM expression in human pancreatic ductal adenocarcinoma cells.</p> <p>TGFB1–mediated L1CAM expression is SMAD independent but requires JNK activation.</p> <p>In the context of the human PDAC (pancreatic ductal epithelial cell) line H6em_c7 which mimics the early steps in PDAC tumorigenesis,TGFB1 induces SNAI2 expression in H6em_c7 cells through JNK activation.</p> <p>THUS, the impact of L1CAM on EMT might be either tumor specific and/or tumor stage dependent.</p> <p>Further studies are required to elaborate whether upregulation of L1CAM is part of the EMT or even the inducing event.</p> <p>If it is the case, elevated cell migration and apoptosis resistance could be abolished by interfering wih TGFB1 signaling or by supression of SNAI2 or L1CAM.</p> <p>PMID:16506207</p> <p>PMID:17952127</p> <p>PMID:21373966</p> <p>Binding of L1CAM to aVb3 or aVb5 seemed to be pivotal for L1CAM-mediated cell migration leading to the activation of Erk1/2 and FAK signalling</p> <p>In carcinoma cell lines, L1 overexpression augments cell motility, tumor growth in mice and induces expression of Erk-dependent genes</p> <p>L1CAM-mediated Erk1/2 activate genes encoding for pro-migratory proteins such as cathepsin-B or b3-integrins were upregulated.</p> <p>A mechanism in the glioma cells context was proposed: upregulated ADAM10 proteolyzes surface L1CAM and the resultant ectodomain of L1CAM increases human glioma cell migration and invasion by binding to integrin receptors, activating FAK, and increasing turnover of focal complexes.</p> <p>Besides its ability to induce Erk1/2 and FAK signalling pathways, L1CAM can also lead to the activation of NF-kB, so that inhibition of NF-kB reduced L1CAM-mediated metastasis of colon cancer cells.</p> <p>PMID:17145883</p> <p>Cell adhesion molecule L1 disrupts E-cadherin-containing adherens junctions and increases B-catenin transcriptional activity, thus increases scattering and motility of MCF7 breast carcinoma cells.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="L1CAM"/> <bbox w="66.0" h="26.0" x="1113.0" y="16133.5"/> <glyph class="unit of information" id="_bc74223d-650a-4934-8c34-d66e4fdda38a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1136.0" y="16128.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2155_em_sa2155" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:11283614Myc: an ubiquitous mediator of cell growth and proliferationMyc can both activate and repress transcription, depending on the nature of associated factorsTGFB downregulates Myc to cause cell cycle arrest.TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFBTGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFBPMID:2191300Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.PMID :28536364 c-myc is transcriptionally upregulated by NF-κBPMID:20027199MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repairPMID:20713526MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genesPMID :20713526MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.PMID : PMID:17055429MYC stimulate P53 and ARFConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:11283614Myc: an ubiquitous mediator of cell growth and proliferationMyc can both activate and repress transcription, depending on the nature of associated factorsTGFB downregulates Myc to cause cell cycle arrest.TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFBTGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFBPMID:2191300Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.PMID :28536364 c-myc is transcriptionally upregulated by NF-κBPMID:20027199MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repairPMID:20713526MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genesPMID :20713526MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.PMID : PMID:17055429MYC stimulate P53 and ARFConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2155_em_sa2155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERT"/> <clone/> <bbox w="90.0" h="25.0" x="4130.0" y="14949.5"/> <glyph class="unit of information" id="_ef10332a-20b6-4bb9-a620-3ad0ad715e10"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4165.0" y="14944.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2155_te_sa167" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:11283614Myc: an ubiquitous mediator of cell growth and proliferationMyc can both activate and repress transcription, depending on the nature of associated factorsTGFB downregulates Myc to cause cell cycle arrest.TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFBTGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFBPMID:2191300Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.PMID :28536364 c-myc is transcriptionally upregulated by NF-κBPMID:20027199MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repairPMID:20713526MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genesPMID :20713526MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.PMID : PMID:17055429MYC stimulate P53 and ARFConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:11283614Myc: an ubiquitous mediator of cell growth and proliferationMyc can both activate and repress transcription, depending on the nature of associated factorsTGFB downregulates Myc to cause cell cycle arrest.TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFBTGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFBPMID:2191300Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.PMID :28536364 c-myc is transcriptionally upregulated by NF-κBPMID:20027199MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repairPMID:20713526MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genesPMID :20713526MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.PMID : PMID:17055429MYC stimulate P53 and ARFConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2155_te_sa167"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERT"/> <clone/> <bbox w="90.0" h="25.0" x="6764.06" y="21188.5"/> <glyph class="unit of information" id="_c162e6ca-5dd6-45dc-81d2-327b04fca38d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6799.06" y="21183.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa208_ce_csa208" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC1*/APC2*/APC3*/APC4*/APC5*/APC6*/APC7*/APC8*/APC9*/APC10*/APC11*/APC12"/> <bbox w="259.0" h="197.0" x="10660.473" y="10047.356"/> <glyph class="macromolecule" id="s_id_ce_sa943_ce_sa943"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16 homolog (S. cerevisiae)</p> <p>HUGO:CDC16, HGNC:1720, ENTREZ:8881, UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="10751.473" y="10094.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa941_ce_sa941"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4, HGNC:19990, ENTREZ:29945, UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="10667.473" y="10179.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa942_ce_sa942"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5, HGNC:15713, ENTREZ:51433, UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="10751.473" y="10052.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa947_ce_sa947"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26 homolog (S. cerevisiae)</p> <p>HUGO:CDC26, HGNC:17839, ENTREZ:246184, UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="10831.473" y="10179.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa938_ce_sa938"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2, HGNC:19989, ENTREZ:29882, UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="10666.473" y="10095.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa939_ce_sa939"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC1, HGNC:19988, ENTREZ:64682, UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="10667.559" y="10052.735"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa951_ce_sa951"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10, HGNC:24077, ENTREZ:10393, UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="10833.473" y="10095.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa940_ce_sa940"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27 homolog (S. cerevisiae)</p> <p>HUGO:CDC27, HGNC:1728, ENTREZ:996, UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="10666.473" y="10139.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa946_ce_sa946"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23 homolog (S. cerevisiae)</p> <p>HUGO:CDC23, HGNC:1724, ENTREZ:8697, UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="10749.473" y="10179.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa948_ce_sa948"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11, HGNC:14452, ENTREZ:51529, UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="10831.473" y="10139.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa944_ce_sa944"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7, HGNC:17380, ENTREZ:51434, UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="10750.473" y="10137.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1747_rc_sa1747" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1747_rc_sa1747"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RSK*"/> <clone/> <bbox w="80.0" h="40.0" x="20575.31" y="11697.608"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1747_rc_sa1071" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1747_rc_sa1278"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RSK*"/> <clone/> <bbox w="80.0" h="40.0" x="22549.06" y="11549.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5515_rc_sa5515" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>bacterial type IV secretion systems (T6SS)</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:24919149</p> <p>Burkholderia</p> <p>cenocepaciainactivates RHOA by deamidating Asn 41</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5515_rc_sa5515"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="T6SS*"/> <bbox w="70.0" h="25.0" x="29154.06" y="9206.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_in_sa1982_in_sa1982" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17485448, 23086447, 21807870, 17237376, 23422957, 17254973, 2649237 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17485448</p> <p>TNIP3 (ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <p>of downstream NFkB signaling downstream of IL10.</p> <p>PMID:17237376, PMID:21807870</p> <p>Alternative pathways involeved IKKa activation by NIK. This signaling is important for DC maturation and T-cell activation (). NIK signaling is required in DCs to deliver co-stimulatory signals to CD4+ T cells</p> <p>PMID:23086447</p> <p>Alternative NFkB pathway induces via phosphorylation of IkB-specific kinase a (IKK-a) the cleavage of p100-RelB to p52-RelB, which then translocates as heterodimer into the nucleus.</p> <p>Both complete p100 degradation and p100 processing to p52 may occur in Dcs and expression of IKKa, the kinase determining the activity of noncanonical NF-kB pathway, gradually increased during DC differentiation with concomitant p100 processing to p52</p> <p>PMID:2649237</p> <p>In macrophages RELB /p52 pathway is associated with M1 polarization</p> <p>PMID:23422957</p> <p>IKKa could regulate IRF3 activity and IRF3-dependent IFNB and IL-12 production by DC. TAK1 (MAP3K7)-mediated IKKa/B activation is required for IRF3-dependent IFNB expression in DC. At the same time IKKa regulates IRF3-mediated transcription downstream of IKKe/TBK1mediated IRF3 phosphorylation. IKKa increases the association of IRF3 with the transcriptional co-activator CBP. The increased recruitment of CBP after overexpression of IKKa was also associated with increased transcription of endogenous IFNB mRNA.</p> <p>PMID:17254973</p> <p>NfkB heterodiners could be also bloked by p52 precursor, protein p100. Dissosiation of p100 from the comprex reactivate NF-kB signaling</p> <p>NIK and IKK1 regulates the degradation of nfkb2 p100 to effect NF-kB/RelA activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1982_in_sa1982"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHUK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17485448"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23086447"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21807870"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17237376"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23422957"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17254973"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2649237"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKKα*"/> <bbox w="86.0" h="46.0" x="20142.0" y="2997.0"/> <glyph class="unit of information" id="_d009d819-8706-4dec-b1e1-f8e3094cca0d"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="20175.0" y="2992.0"/> </glyph> <glyph class="state variable" id="_0f610839-2cb3-4be8-9a8f-975cee3b7073"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20137.0" y="3015.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa15_ce_csa15" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:POLD*:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="POLD*/RPA1/RPA2/RPA3"/> <bbox w="96.0" h="211.0" x="11268.473" y="16056.356"/> <glyph class="macromolecule" id="s_id_ce_sa460_ce_sa460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), delta 1, catalytic subunit 125kDa</p> <p>HUGO:POLD1, HGNC:9175, ENTREZ:5424, UNIPROT:P28340</p> <p>polymerase (DNA directed), delta 2, regulatory subunit 50kDa</p> <p>HUGO:POLD2, HGNC:9176, ENTREZ:5425, UNIPROT:P49005</p> <p>polymerase (DNA-directed), delta 3, accessory subunit</p> <p>HUGO:POLD3, HGNC:20932, ENTREZ:10714, UNIPROT:Q15054</p> <p>polymerase (DNA-directed), delta 4</p> <p>HUGO:POLD4, HGNC:14106, ENTREZ:57804, UNIPROT:Q9HCU8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER, MODULE:MMR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20478261</p> <p>For A_NHEJ</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292</p> </body> </html> </notes> <label text="POLD*"/> <bbox w="80.0" h="40.0" x="11276.6875" y="16071.125"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa462_ce_sa462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="11274.124" y="16156.114"/> <glyph class="state variable" id="_18a776f3-ad11-4f25-8d8e-ae0bdf79031e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11266.624" y="16171.114"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa461_ce_sa461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="11275.463" y="16199.319"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa463_ce_sa463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="11273.786" y="16116.605"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1001_in_sa1001" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR155"/> <bbox w="90.0" h="25.0" x="20400.0" y="4531.25"/> <glyph class="unit of information" id="_774ac5d8-46dc-4d6d-87e6-88b5b3ac3ff3"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20430.0" y="4526.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa822_ad_sa822" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21873235 </p> <p>Malt1-dependent RelB cleavage promotes canonical NF-kappaB activation in lymphocytes and lymphoma cell lines.</p> <p>RelB inhibits expression of NF-κB gene targets (IL2) in T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa822_ad_sa822"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21873235"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELB"/> <bbox w="90.0" h="40.0" x="28841.0" y="5750.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa11_wnc1_wnc2_csa11" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX_sub_TRUNC_endsub_*:BCL2-XL*</p> <p>References:</p> <p>s_wnc2_re22(MAP:survival):</p> <p>PMID:14681224, PMID:14612448</p> <p>However, the mechanism in which truncated Bax increases apoptosis remains controversial.</p> <p>PMID:20008353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa11_wnc1_wnc2_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14681224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14612448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAXTRUNC*:BCL2-XL*"/> <bbox w="100.0" h="120.0" x="17488.06" y="18618.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa52_wnc1_wnc2_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812 GENECARDS:BAX REACTOME:50715 KEGG:581 ATLASONC:BAXID128ch19q13 WIKI:BAX</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAXTRUNC*"/> <bbox w="80.0" h="40.0" x="17498.56" y="18671.0"/> <glyph class="unit of information" id="_927d392c-252b-48f4-b67a-0b9382cedaae"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="17513.56" y="18666.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa51_wnc1_wnc2_sa51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1BCL2-associated agonist of cell death</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817 GENECARDS:BCL2L1 REACTOME:50772 KEGG:598 ATLASONC:BCL2L1ID129ch20q11 WIKI:BCL2L1 </p> <p>BCL2-like 1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="17497.56" y="18630.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2346_emtc_em_sa2346" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2346_emtc_em_sa2346"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HBEGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HBEGF*"/> <bbox w="80.0" h="40.0" x="6105.5" y="12559.5"/> <glyph class="unit of information" id="_697ef90c-f34c-4b3b-be7e-477e33b7a29c"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="6120.5" y="12554.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa2_shh1_shh2_csa2" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI3-83_sub_TRUNC_endsub_*:HDAC3:SKI:promoter_region</p> <p>References:</p> <p>s_shh2_re3:(MAP:survival) PMID:12435627 PMID:19032343</p> <p>s_shh2_re4:(MAP:survival) PMID:20562908</p> <p>s_shh2_re42:(MAP:survival) PMID:16396903 PMID:20107231 PMID:16054035 PMID:16406505 PMID:16880536 PMID:17000779</p> <p>s_shh2_re45:(MAP:survival) PMID:15087129</p> <p>s_shh2_re51(MAP:survival):</p> <p>PMID:9216996 PMID:16413481 PMID:17000779 </p> <p>ANNOTATION: it was shown that Med12 binds to Gli1 promoter</p> <p>s_shh2_re104:(MAP:survival) PMID:19809516</p> <p>s_shh2_re106:(MAP:survival) PMID:16169709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa2_shh1_shh2_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12435627"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19032343"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20562908"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396903"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20107231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16406505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17000779"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15087129"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9216996"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16413481"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17000779"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19809516"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16169709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(GLI3R_DNA_binding_site)"/> <bbox w="177.0" h="143.0" x="26185.06" y="20568.5"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa12_shh1_shh2_sa12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 3</p> <p>HUGO:GLI3 HGNC:4319 ENTREZ:2737 UNIPROT:P10071 GENECARDS:GLI3 KEGG:2737 ATLASONC:GC_GLI3 WIKI:GLI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI3-83TRUNC*"/> <bbox w="80.0" h="40.0" x="26234.81" y="20578.25"/> <glyph class="unit of information" id="_d8091e9a-59ca-4e06-929a-277ffdd8418c"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="26249.81" y="20573.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa13_shh1_shh2_sa13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="26237.06" y="20622.75"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa203_shh1_shh2_sa203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Histone deacetylase 3</p> <p>HUGO:HDAC3 HGNC:4854 ENTREZ:8841 UNIPROT:O15379 GENECARDS:HDAC3 REACTOME:401336 KEGG:8841 ATLASONC:HDAC3ID40804ch5q31 WIKI:HDAC3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21234400</p> </body> </html> </notes> <label text="HDAC3"/> <bbox w="80.0" h="40.0" x="26192.06" y="20652.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa202_shh1_shh2_sa202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ski</p> <p>HUGO:SKI HGNC:10896 ENTREZ:6497 UNIPROT:P12755 GENECARDS:SKI REACTOME:64528 KEGG:6497 ATLASONC:GC_SKI WIKI:SKI</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19114989</p> </body> </html> </notes> <label text="SKI"/> <bbox w="80.0" h="40.0" x="26274.06" y="20652.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa82_wnc1_wnc3_sa82" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa82_wnc1_wnc3_sa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4"/> <clone/> <bbox w="90.0" h="25.0" x="15769.061" y="21083.5"/> <glyph class="unit of information" id="_13f1cb59-4a4d-4f59-8112-ce612c657eb0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15804.061" y="21078.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa82_em_sa2118" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa82_em_sa2118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4"/> <clone/> <bbox w="61.0" h="20.0" x="3696.0" y="14949.5"/> <glyph class="unit of information" id="_41eaa0ee-07ec-4df5-acaf-3fa29e4d0296"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3716.5" y="14944.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1929_rc_sa1929" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1929_rc_sa1929"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MXD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MXD1"/> <bbox w="80.0" h="40.0" x="24280.06" y="16582.0"/> <glyph 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBLN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ELN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Laminin 1 partners*"/> <bbox w="121.0" h="22.0" x="6606.0" y="18824.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1348_ce_sa1348" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1348_ce_sa1348"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GINS3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GINS3"/> <bbox w="80.0" h="40.0" x="13820.5" y="9699.384"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa977_ca_sa977" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>PMID:12642832</p> <p>Some subpopulations of fibroblasts could express IL17 after IL4/IL13 + TNF stimulation</p> <p>The combination of TNF-alpha with either IL-4 or IL-13, however, markedly increased both TARC release and the abundance of TARC mRNA in corneal and dermal fibroblasts, but not in lung fibroblasts.</p> <p>PMID:24127572 </p> <p>CCL17 and CCL22 have common receptor ccr4</p> <p>Anti-CCR4 mAb selectively depletes effector-type FoxP3+CD4+ regulatory T cells, evoking antitumor immune responses in humans.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa977_ca_sa977"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL17"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12642832"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24127572"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL17"/> <bbox w="80.0" h="40.0" x="972.5" y="4595.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2318_in_sa2318" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IDO1"/> <bbox w="80.0" h="40.0" x="12750.0" y="5930.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa26_ce_csa26" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RAD23*:TDG:XPC</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa26_ce_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17129768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD23*/TDG/XPC"/> <bbox w="115.0" h="158.0" x="10477.473" y="15701.356"/> <glyph class="macromolecule" id="s_id_ce_sa491_ce_sa491"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>thymine-DNA glycosylase </p> <p>HUGO:TDG, HGNC:11700, ENTREZ:6996, UNIPROT:Q13569</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="TDG"/> <bbox w="80.0" h="40.0" x="10493.681" y="15754.806"/> <glyph class="state variable" id="_ae62c530-7287-468a-83de-b7be01289177"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10488.681" y="15761.521"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa490_ce_sa490"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD23 homolog A (S. cerevisiae)</p> <p>HUGO:RAD23A, HGNC:9812, ENTREZ:5886, UNIPROT:P54725</p> <p>RAD23 homolog B</p> <p>HUGO:RAD23B, HGNC:9813, ENTREZ:5887, UNIPROT:P54727</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="RAD23*"/> <bbox w="80.0" h="40.0" x="10492.681" y="15794.806"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa489_ce_sa489"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>xeroderma pigmentosum, complementation group C</p> <p>HUGO:XPC, HGNC:12816, ENTREZ:7508, UNIPROT:Q01831</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPC"/> <bbox w="80.0" h="40.0" x="10492.681" y="15714.806"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1290_rc_sa1290" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1290_rc_sa1290"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIF"/> <bbox w="80.0" h="40.0" x="21829.06" y="11857.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2185_emtc_em_sa2185" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2185_emtc_em_sa2185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HEY1"/> <bbox w="63.0" h="17.0" x="2870.0" y="14625.0"/> <glyph class="unit of information" id="_c3070b4b-cb17-4f92-a0f9-3454782446ee"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2891.5" y="14620.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa321_em_csa321" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:MYC:p27KIP1*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK2/MYC/p27KIP1*"/> <bbox w="135.0" h="91.0" x="3469.0" y="14784.0"/> <glyph class="macromolecule" id="s_id_em_sa2151_em_sa2151"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC, HGNC:7553, ENTREZ:4609, GENECARDS:GC08P128748, UNIPROT:P01106   </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID :17055429</p> <p>MYC stimulate P53 and ARF(CDKN2A)</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MYC"/> <bbox w="40.0" h="20.0" x="3516.2222" y="14790.0"/> <glyph class="state variable" id="_ea46b73b-d634-4ff9-8e57-624da0ae1646"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3511.2222" y="14794.984"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2152_em_sa2152"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B, HGNC:1785, ENTREZ:1027, GENECARDS:GC12P012867, UNIPROT:P46527 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:24954210</p> <p>p27, p16 and p15 inhibits CDK4_6. This induces a G1 cell cycle arrest.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="64.0" h="20.0" x="3501.2222" y="14811.0"/> <glyph class="state variable" id="_10b616d6-c70d-4d9f-8b44-a1eb6be7983e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3496.2222" y="14825.861"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2153_em_sa2153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, GENECARDS:GC12P056360, UNIPROT:P24941 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="CDK2"/> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5013_rc_sa5013"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SYVN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SYVN1"/> <bbox w="80.0" h="40.0" x="28739.06" y="15809.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1207_rc_sa1207" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16467 KEGGCOMPOUND:C00062 CAS:74-79-3</p> </body> </html> </notes> <label text="L-arginine"/> <bbox 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x="25514.06" y="16456.5"/> <glyph class="unit of information" id="_04c08b1c-ddd0-4953-856c-80d62c399a0f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25549.06" y="16451.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa994_ca_sa994" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:TREG_MODULATORS MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF </p> <p>References:</p> <p>PMID:18514095</p> <p>CXCL10 and CXCL11 ligands fo CXCR3 receptor are expressed in fibroblasts after TNF stimulation, and CXCL9 after IFNG stimulation</p> <p>PMID:22798340</p> <p>3-CXCR3 ligands (such as CXCL9, 10, and 11), also reportedly contribute to Treg-cell infiltration</p> <p>PMID:23567181</p> <p>CAF-mediated recruitment of T lymphocytes is facilitated by secretion of chemokines and cytokines that promote the recruitment of tumor-promoting T cells, including CXCL9, CXCL10, and CXCL12 (SDF-1α)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa994_ca_sa994"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18514095"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22798340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23567181"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL9"/> <bbox w="80.0" h="40.0" x="1350.0" y="4240.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1170_in_sa1170" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CXCR4"/> <bbox w="70.0" h="25.0" x="13475.0" y="2102.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa321_an_sa321" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:p110D</p> <p>HGNC:8977</p> </body> </html> </notes> <label text="PIK3CD"/> <bbox w="80.0" h="40.0" x="7102.0" y="6335.0"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa434_ca_sa434" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:NK MODULE:CORE_SIGNALING MODULE:CORE_ACTIVATION </p> <p>References:</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa434_ca_sa434"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP2*"/> <clone/> <bbox w="70.0" h="25.0" x="3700.0" y="2367.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa434_rc_sa4189" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:NK MODULE:CORE_SIGNALING MODULE:CORE_ACTIVATION </p> <p>References:</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa434_rc_sa4189"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP2*"/> <clone/> <bbox w="70.0" h="25.0" x="20784.06" y="9336.5"/> </glyph> <glyph class="complex" id="s_id_in_csa186_in_csa186" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Inflammasome"/> <bbox w="110.0" h="150.0" x="13235.0" y="6425.0"/> <glyph class="macromolecule" id="s_id_in_sa1245_in_sa1245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="13245.0" y="6475.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1244_in_sa1244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NLRP3"/> <bbox w="80.0" h="40.0" x="13245.0" y="6515.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1246_in_sa1246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Caspase1*"/> <bbox w="80.0" h="40.0" x="13245.0" y="6435.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1276_ce_sa1276" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1276_ce_sa1276"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD21"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SCC1*"/> <bbox w="80.0" h="40.0" x="12576.158" y="11289.478"/> <glyph class="state variable" id="_ab2afffe-8015-4981-b421-5ceecaf1a913"> <state value="" variable="PLK1-dep."/> <bbox w="55.0" h="10.0" x="12628.658" y="11304.478"/> </glyph> <glyph class="state variable" id="_9474d274-e5aa-465b-a6a3-87f5a3de9f8a"> <state value="" variable="ATM-dep."/> <bbox w="50.0" h="10.0" x="12551.158" y="11304.445"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa7_akt1_akt1_csa7" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RAS*:p110*:p85*</p> <p>References:</p> <p>s_akt1_re6(MAP:survival):</p> <p>PMID:15534002</p> <p>PMID:9779982</p> <p>PMID:14585353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa7_akt1_akt1_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAS*:p110*:p85*"/> <bbox w="176.0" h="116.0" x="12461.061" y="17627.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa23_akt1_akt1_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS p21 protein activator (GTPase activating protein) 1</p> <p>HUGO:RASA1 HGNC:9871 ENTREZ:5921 UNIPROT:P20936 GENECARDS:RASA1 REACTOME:63760 KEGG:5921 ATLASONC:GC_RASA1 WIKI:RASA1 </p> <p>RAS p21 protein activator 2</p> <p>HUGO:RASA2 HGNC:9872 ENTREZ:5922 UNIPROT:Q15283 GENECARDS:RASA2 KEGG:5922 ATLASONC:GC_RASA2 WIKI:RASA2 </p> <p>RAS p21 protein activator 3</p> <p>HUGO:RASA3 HGNC:20331 ENTREZ:22821 UNIPROT:Q14644 GENECARDS:RASA3 KEGG:22821 ATLASONC:GC_RASA3 WIKI:RASA3 </p> <p>RAS p21 protein activator 4</p> <p>HUGO:RASA4 HGNC:23181 ENTREZ:10156 UNIPROT:O43374 GENECARDS:RASA4 KEGG:10156 WIKI:RASA4 </p> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 GENECARDS:HRAS REACTOME:62718 KEGG:3265 ATLASONC:HRASID108 WIKI:HRAS </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 GENECARDS:KRAS REACTOME:62720 KEGG:3845 ATLASONC:KRASID91 WIKI:KRAS </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111 GENECARDS:NRAS REACTOME:62726 KEGG:4893 ATLASONC:NRASID92 WIKI:NRAS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:21102635</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="80.0" h="40.0" x="12547.97" y="17676.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa30_akt1_akt1_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="p110*"/> <bbox w="80.0" h="40.0" x="12467.561" y="17676.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa29_akt1_akt1_sa29"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <bbox w="80.0" h="40.0" x="12467.561" y="17635.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa237_rc_csa237" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAD:GCK:PPP1C*:PRKAC*:WASF1</p> </body> </html> </notes> <label text="BAD:WASF1:GCK:PRKAC:PPP1C"/> <bbox w="180.0" h="168.0" x="21659.06" y="12815.0"/> <glyph class="macromolecule" id="s_id_rc_sa1783_rc_sa1783"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glucokinase (hexokinase 4)</p> <p>HUGO:GCK HGNC:4195 ENTREZ:2645 UNIPROT:P35557</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="GCK"/> <bbox w="80.0" h="40.0" x="21665.06" y="12823.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1784_rc_sa1784"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>there are at least 2 isoforms of BAD. Here, protein BAD refers to any of the different isoforms. Numbering of amino-acids, used for phosphorylation sites, are adjusted to the 'canonical' isoform as defined in Uniprot. This lead to choosing different isoforms for different organisms.</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="21667.06" y="12871.0"/> <glyph class="state variable" id="_d4dadd4b-8600-4255-95c7-2fbfc96831da"> <state value="?" variable="S91"/> <bbox w="30.0" h="10.0" x="21709.01" y="12866.0"/> </glyph> <glyph class="state variable" id="_f3d04462-0ed4-4a6a-8e98-e4ddbeeeac11"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21685.656" y="12866.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1785_rc_sa1785"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1, catalytic subunit, alpha isozyme</p> <p>HUGO:PPP1CA HGNC:9281 ENTREZ:5499 UNIPROT:P62136 </p> <p>protein phosphatase 1, catalytic subunit, beta isozyme</p> <p>HUGO:PPP1CB HGNC:9282 ENTREZ:5500 UNIPROT:P62140 </p> <p>protein phosphatase 1, catalytic subunit, gamma isozyme</p> <p>HUGO:PPP1CC HGNC:9283 ENTREZ:5501 UNIPROT:P36873</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>catalytic subunit of phosphatase PP1A, PP1c</p> <p>3 genes encode 3 isoforms</p> </body> </html> </notes> <label text="PPP1C*"/> <bbox w="80.0" h="40.0" x="21751.06" y="12871.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1786_rc_sa1786"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, cAMP-dependent, catalytic, alpha</p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 </p> <p>protein kinase, cAMP-dependent, catalytic, beta</p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 </p> <p>protein kinase, cAMP-dependent, catalytic, gamma</p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>There are 3 different genes that code for PKA catalytic subunits</p> </body> </html> </notes> <label text="PRKAC*"/> <bbox w="80.0" h="40.0" x="21751.06" y="12823.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1782_rc_sa1782"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WAS protein family, member 1</p> <p>HUGO:WASF1 HGNC:12732 ENTREZ:8936 UNIPROT:Q92558</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="WASF1"/> <bbox w="80.0" h="40.0" x="21667.06" y="12915.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa150_ad_csa150" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5697"/> <bbox w="100.0" h="120.0" x="25756.0" y="2715.0"/> <glyph class="macromolecule" id="s_id_ad_sa1271_ad_sa1271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:FYN</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC, MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves.</p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:12218089</p> <p>Fyn is essential for tyrosine phosphorylation of Csk-binding protein/phosphoprotein associated with glycolipid-enriched microdomains in lipid rafts in resting T cells</p> <p>PMID:10648627 </p> <p>Fyn was able to induce tyrosine phosphorylation of the TCR and recruitment of the ZAP-70 kinase, but the pattern of TCR phosphorylation was altered and activation of ZAP-70 was defective.</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> </body> </html> </notes> <label text="FYN"/> <bbox w="80.0" h="40.0" x="25766.0" y="2720.0"/> <glyph class="state variable" id="_d5f8634a-dc80-4b93-bd71-b27e08a3bfc2"> <state value="" variable="Y528"/> <bbox w="30.0" h="10.0" x="25754.445" y="2715.0"/> </glyph> <glyph class="state variable" id="_7ba19609-5766-425d-b6e8-e54bef53fbda"> <state value="" variable="Y417"/> <bbox w="30.0" h="10.0" x="25831.0" y="2753.2295"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa207_ad_sa207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HAVCR2</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22437870; PMID:28900677</p> <p>TIM3 rew</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>In the absence of ligandmediated Tim-3 signaling, Bat3 is bound</p> <p>to Tim-3 and blocks SH2 domain-binding sites in the Tim-3 tail. In this state, Bat3</p> <p>recruits the catalytically active form of Lck, thereby forming an intracellular molecular complex with Tim-3 that preserves and potentially promotes T cell</p> <p>signaling.Galectin-9 and Ceacam-1 binding to Tim-3 leads to phosphorylation of Y256</p> <p>and Y263 and release of Bat-3 from the Tim-3 tail, thereby promoting Tim-3-mediated T cell inhibition by allowing binding of</p> <p>SH2 domain-containing Src kinases and subsequent regulation</p> <p>of TCR signaling , Fyn binds to the same region on the</p> <p>Tim-3 tail as Bat3. Fyn has been implicated in the induction of</p> <p>T cell anergy (Davidson et al., 2007) and is known to be a key</p> <p>kinase to activate phosphoprotein associated with glycosphingolipid microdomains (PAG), which recruits Csk to suppress</p> <p>Lck function (Salmond et al., 2009; Smida et al., 2007). Because</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> <p>Fyn might trigger the switch of Tim-3 function from being permissive to TCR signaling to inhibition of upstream TCR signaling</p> <p>PMID:16286920</p> <p>The Tim-3 ligand galectin-9 negatively regulates T helper type 1 immunity.</p> <p>Galectin-9 induces TH1 cell death through Tim-3</p> <p>Galectin-9 eliminates IFN-γ-producing TH1 cells</p> <p>PMID:20819927 </p> <p>Targeting Tim-3 and PD-1 pathways to reverse T cell exhaustion and restore anti-tumor immunity</p> </body> </html> </notes> <label text="HAVCR2"/> <bbox w="80.0" h="50.0" x="25766.0" y="2770.0"/> <glyph class="state variable" id="_56ac56f6-81ab-4970-8026-15279e232e93"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="25758.5" y="2790.0"/> </glyph> <glyph class="unit of information" id="_5a942d41-f09f-4a51-8335-c9cf8135b8a0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25783.5" y="2765.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2579_in_sa2579" compartmentRef="s_id_in_ca12_in_ca12"> <label text="GSK3α*"/> <bbox w="80.0" h="40.0" x="17700.0" y="4060.0"/> <glyph class="state variable" id="_5f97b429-11cb-46b7-8a1c-4db0a144d1cc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17695.0" y="4075.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa4_wca1_wca1_csa4" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re3:(MAP:survival) PMID:11955436</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa4_wca1_wca1_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="184.0" x="20020.06" y="18666.938"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa20_wca1_wca1_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="18720.438"/> <glyph class="state variable" id="_55fee1c1-904b-4258-88ec-1b1c3eeec570"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="18715.65"/> </glyph> <glyph class="state variable" id="_91e7bde5-a04b-4af1-9607-d601e2b0b9be"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="18715.438"/> </glyph> <glyph class="state variable" id="_a3351420-8e19-41a5-89d2-53838c2a2050"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="18715.438"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20115.06" y="18789.25"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa703_wca1_wca1_sa703"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> 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compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BMF:MCL1</p> </body> </html> </notes> <label text="BMF:MCL1"/> <bbox w="105.0" h="132.0" x="22476.686" y="13583.0"/> <glyph class="macromolecule" id="s_id_rc_sa1689_rc_sa1689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bcl2 modifying factor</p> <p>HUGO:BMF HGNC:24132 ENTREZ:90427 UNIPROT:Q96LC9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="BMF"/> <bbox w="80.0" h="40.0" x="22488.686" y="13594.0"/> <glyph class="state variable" id="_2c4f456a-ac62-4a16-9ac4-8fe0ee8b9a9f"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22537.754" y="13589.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1688_rc_sa1688"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid cell leukemia sequence 1 (BCL2-related)</p> <p>HUGO:MCL1 HGNC:6943 ENTREZ:4170 UNIPROT:Q07820</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="MCL1"/> <bbox w="80.0" h="40.0" x="22489.06" y="13649.0"/> <glyph class="state variable" id="_778199ac-a739-40e8-bb8e-f522c0f99baa"> <state value="?" variable="S159"/> <bbox w="35.0" h="10.0" x="22490.225" y="13644.0"/> </glyph> <glyph class="state variable" id="_41068bb3-7861-4e72-a14b-3d47ac36c7b1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22544.055" y="13644.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa857_emtc_em_sa857" 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id="s_id_in_sa2436_in_sa2436" compartmentRef="s_id_in_ca12_in_ca12"> <label text="B7H2*"/> <bbox w="80.0" h="40.0" x="9570.0" y="7140.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1202_ad_sa1202" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11698448</p> <p>A Role for a RhoA/ROCK/LIM-Kinase Pathway in the Regulation of Cytotoxic Lymphocytes</p> <p>ROCK inhibition in a a human CD8+ cytotoxic T cell line showed a similar dose-dependent inhibition of cell-mediated killing of anti-CD3-coated P815 (data not shown)</p> <p>Probably via LiMK.</p> <p> PMID:11784854 </p> <p>Stromal cell-derived factor 1alpha activates LIM kinase 1 and induces cofilin phosphorylation for T-cell chemotaxis.</p> <p>PMID:10652353</p> <p>Rho-associated kinase ROCK activates LIM-kinase 1 by phosphorylation at threonine 508 within the activation loop</p> <p>(in vitro assay)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1202_ad_sa1202"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIMK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11698448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11784854"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10652353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK1"/> <bbox w="80.0" h="40.0" x="30136.0" y="6865.0"/> <glyph class="state variable" id="_7c8f6770-c4c8-4cf1-9262-4df6338104a1"> <state value="P" variable="Thr508"/> <bbox w="45.0" h="10.0" x="30115.41" y="6860.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa406_rc_csa406" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN2:Ca2+_</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="98.0" h="84.0" x="22440.06" y="12387.0"/> <glyph class="macromolecule" id="s_id_rc_sa3978_rc_sa3978"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 2, (m/II) large subunit</p> <p>HUGO:CAPN2 HGNC:1479 ENTREZ:824 UNIPROT:P17655</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>synonym:m-calpain</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="80.0" h="40.0" x="22450.06" y="12413.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3979_rc_sa3979"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+_"/> <clone/> <bbox w="25.0" h="25.0" x="22501.56" y="12389.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa406_rc_csa403" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN2:Ca2+_</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="99.0" h="92.0" x="23749.56" y="12623.0"/> <glyph class="macromolecule" id="s_id_rc_sa3978_rc_sa3969"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 2, (m/II) large subunit</p> <p>HUGO:CAPN2 HGNC:1479 ENTREZ:824 UNIPROT:P17655</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>synonym:m-calpain</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="80.0" h="40.0" x="23759.56" y="12649.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3979_rc_sa3970"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+_"/> <clone/> <bbox w="25.0" h="25.0" x="23811.06" y="12625.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa406_rc_csa142" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN2:Ca2+_</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="98.0" h="84.0" x="24569.31" y="11200.5"/> <glyph class="simple chemical" id="s_id_rc_sa3979_rc_sa1455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+_"/> <clone/> <bbox w="25.0" h="25.0" x="24630.81" y="11202.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3978_rc_sa1454"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 2, (m/II) large subunit</p> <p>HUGO:CAPN2 HGNC:1479 ENTREZ:824 UNIPROT:P17655</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>synonym:m-calpain</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="80.0" h="40.0" x="24579.31" y="11226.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa406_rc_csa404" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN2:Ca2+_</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="98.0" h="84.0" x="24460.06" y="12117.0"/> <glyph class="simple chemical" id="s_id_rc_sa3979_rc_sa3973"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+_"/> <clone/> <bbox w="25.0" h="25.0" x="24521.56" y="12119.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3978_rc_sa3972"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 2, (m/II) large subunit</p> <p>HUGO:CAPN2 HGNC:1479 ENTREZ:824 UNIPROT:P17655</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>synonym:m-calpain</p> </body> </html> </notes> <label text="CAPN2"/> <clone/> <bbox w="80.0" h="40.0" x="24470.06" y="12143.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1420_emtc_em_sa1420" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1988_rc_sa1988"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC16A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC16A3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC16A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MCT*"/> <bbox w="80.0" h="40.0" x="17699.06" y="11359.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa120_shh1_shh2_sa120" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa44_wca1_wca4_sa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD3"/> <bbox w="70.0" h="25.0" x="23531.06" y="21367.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa265_ce_csa265" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LIG3:XRCC1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="LIG3/XRCC1"/> <bbox w="100.0" h="120.0" x="8316.473" y="16804.355"/> <glyph class="macromolecule" id="s_id_ce_sa1400_ce_sa1400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XRCC1 , X-ray repair complementing defective repair in Chinese hamster cells 1</p> <p>HUGO:XRCC1, HGNC:12828, ENTREZ:7515, UNIPROT:P18887</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:8978692, PMID:8264637, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20227374</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XRCC1"/> <bbox w="80.0" h="40.0" x="8330.743" y="16855.42"/> <glyph class="state variable" id="_625885ff-2424-4817-9865-a242ba409014"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8379.812" y="16850.42"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1399_ce_sa1399"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ligase III DNA, ATP-dependent</p> <p>HUGO:LIG3, HGNC:6600, ENTREZ:3980, UNIPROT:P49916</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>For BER:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20056333</p> <p>For NER:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> <p>Activation of WRN in cancers</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="LIG3"/> <bbox w="80.0" h="40.0" x="8327.743" y="16812.42"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa47_wnc1_wnc2_sa47" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa47_wnc1_wnc2_sa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAXTRUNC*"/> <bbox w="80.0" h="40.0" x="17541.06" y="18501.0"/> <glyph class="unit of information" id="_0f172eb5-82f0-4b93-b94a-70cdf7f93f6e"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="17556.06" y="18496.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1173_ad_sa1173" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:20634814</p> <p>Following antigen recognition and proximal signalling events, cytotoxic granules are polarized towards the cytotoxic T lymphocyte (CTL)–target cell contact site where the immunological synapse forms. Actin filaments are cleared away from the site of secretion (not shown). Mature cytotoxic granules dock at the plasma membrane through the interaction of RAB27a with synaptotagmin-like protein 1 (SLP1) or SLP2. In addition, cytotoxic granules interact with a docking complex of MUNC18-2 and syntaxin 11 in the closed conformation. Docked vesicles are then primed by MUNC13-4, which probably triggers the switch of syntaxin 11 from a closed to an open conformation. A SNARE (soluble N-ethylmaleimide-sensitive factor accessory protein receptor) complex then forms between a vesicle membrane SNARE, possibly vesicle-associated membrane protein 7 (VAMP7) and/or VAMP8, on one side and the target membrane SNAREs syntaxin 11 and SNAP23 (synaptosomal-associated protein of 23 kDa), on the other side. Completion of the fusion reaction occurs when MUNC18-2 clasps across the zippering four-helix SNARE complex bundle.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1173_ad_sa1173"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SYTL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SYTL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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feature" id="s_id_in_sa2083_in_sa2083" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IRF5"/> <bbox w="70.0" h="25.0" x="18510.0" y="4522.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1585_ce_sa1585" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1585_ce_sa1585"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APEX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APEX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APE*"/> <bbox w="80.0" h="40.0" x="9540.468" y="16070.5"/> <glyph class="state variable" id="_bcbe38ce-d46c-4c99-a23d-469722f93aeb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9535.468" y="16079.419"/> </glyph> <glyph class="state variable" id="_3f4effdf-e618-4151-a134-64b5e0e0936b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9615.468" y="16079.768"/> </glyph> <glyph class="state variable" id="_4ceb738e-2165-4a7b-958a-064a26dfa67d"> <state value="" variable="Thr233"/> <bbox w="40.0" h="10.0" x="9569.761" y="16065.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa2_wca1_wca3_csa2" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:PYGO*:_beta_-Catenin*:p300*</p> <p>References:</p> <p>s_wca3_re10(MAP:survival):</p> <p>P300 acetylates beta-catenin</p> <p>PMID:15060161</p> <p>s_wca3_re64(MAP:survival):</p> <p>Under pathological conditions this complex will be formed. This complex has synergistic positive effect on myc gene expression.</p> <p>PMID:15576399</p> <p>s_wca3_re170:(MAP:survival) PMID:18347071</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa2_wca1_wca3_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15060161"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15576399"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:PYGO*:β-Catenin*:p300*"/> <bbox w="105.0" h="217.0" x="21173.56" y="21264.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa72_wca1_wca3_sa72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="21188.186" y="21272.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa16_wca1_wca3_sa16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. 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ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21188.123" y="21391.0"/> <glyph class="state variable" id="_d684802a-7d31-4fd4-9bd6-bd6f5016b504"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21176.115" y="21386.0"/> </glyph> <glyph class="state variable" id="_245d8db6-510b-4954-99ea-19f1636ea462"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21175.623" y="21425.72"/> </glyph> <glyph class="state variable" id="_07bda13c-3903-45ae-a6ed-edaf32491924"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21253.123" y="21386.213"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21188.623" y="21352.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa15_wca1_wca3_sa15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21188.623" y="21312.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2181_rc_sa2181" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15428 CAS:56-40-6</p> <p>References:</p> <p>COMPOUND:C00037</p> </body> </html> </notes> <label text="glycine"/> <bbox w="70.0" h="25.0" x="18703.834" y="12835.25"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1355_in_sa1355" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 9834059, 18250477, 11870632, 12496409, 20856220, 23124025, 12401408 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <p>NK cells stimuletad by IL4 have NK2 subtype ()</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1355_in_sa1355"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9834059"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18250477"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11870632"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> 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id="s_id_emtc_em_sa2445_emtc_em_sa2445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fibroblast growth factor 1 (acidic)</p> <p>HUGO:FGF1, HGNC:3665, ENTREZ:2246, GENECARDS:GC05M141953, UNIPROT:P05230</p> <p>fibroblast growth factor 2 (basic)</p> <p>FGFB</p> <p>HUGO:FGF2 HGNC:3676 ENTREZ:2247 UNIPROT:P09038</p> <p>fibroblast growth factor 3</p> <p>"fibroblast growth factor 3 (murine mammary tumor virus integration site (v-int-2) oncogene homolog)", </p> <p>INT2, HBGF-3, "INT-2 proto-oncogene protein", "murine mammary tumor virus integration site 2, mouse", </p> <p>HUGO:FGF3 HGNC:3681 ENTREZ:2248 UNIPROT:P11487</p> <p>fibroblast growth factor 4</p> <p>"heparin secretory transforming protein 1", HSTF1</p> <p>HUGO:FGF4 HGNC:3682 ENTREZ:2249 UNIPROT:P08620</p> <p>fibroblast growth factor 6</p> <p>HUGO:FGF6 HGNC:3684 ENTREZ:2251 UNIPROT:P10767 </p> <p>fibroblast growth factor 7</p> <p>HUGO:FGF7 HGNC:3685 ENTREZ:2252 UNIPROT:P21781 </p> <p>fibroblast growth factor 8 (androgen-induced)</p> <p>HUGO:FGF8 HGNC:3686 ENTREZ:2253 UNIPROT:P55075 </p> <p>"fibroblast growth factor 9 (glia-activating factor)"</p> <p>HUGO:FGF9 HGNC:3687 ENTREZ:2254 UNIPROT:P31371 </p> <p>fibroblast growth factor 10</p> <p>HUGO:FGF10 HGNC:3666 ENTREZ:2255 UNIPROT:O15520 </p> <p>fibroblast growth factor 16</p> <p>HUGO:FGF16 HGNC:3672 ENTREZ:8823 UNIPROT:O43320 </p> <p>fibroblast growth factor 19</p> <p>HUGO:FGF19 HGNC:3675 ENTREZ:9965 UNIPROT:O95750</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:14517404</p> <p>Fibroblast growth factor FGF1, a prototypic member of the FGF family, has the ability to stimulate angiogenesis in an in vivo model of angiogenesis.</p> <p>Eggs received secreted FGF1 showed a significant increase in vascularization when compared to eggs received vector alone plasmids. </p> <p>PMID:16272825</p> <p>This FGF1-mediated angiogenesis involves in the PI3K/AKT pathway.</p> <p>Blocked PI3K pathway via LY294002 in FGF1-transfected CAMs (chicken chorio- allantoic membrane) signifi cantly inhibited angiogenesis</p> <p>PMID:16682805</p> <p>Both activity and mRNA expression levels of the Ets1 molecule were increased in response to FGF1 overexpression</p> <p>Ets-1 activation is a requisite for FGF1-mediated angiogenesis in vivo.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="FGF family*"/> <bbox w="78.0" h="28.0" x="3747.0" y="18469.5"/> <glyph class="unit of information" id="_0217bbee-23f1-4c31-9de7-f907ef41e7b6"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3776.0" y="18464.5"/> </glyph> </glyph> <glyph class="simple chemical multimer" id="s_id_emtc_em_sa2446_emtc_em_sa2446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="FGFR family*"/> <bbox w="80.0" h="50.0" x="3744.5" y="18503.0"/> <glyph class="unit of information" id="_33006262-7703-4f42-8978-b5f8393489fe"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3762.0" 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fibroblasts COL1A2, COL3A1, COL6A1, COL6A3, and TIMP-1PMID:8515078; PMID:8559663 OMS, IL-6, LIF, and IL-1 alpha elevated the TIMP-1 expression at the RNA level in fibroblastsprobably via STAT3PMID:16834928TIMP1 expression in fibroblasts is STAT3 dependent </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa270_ca_sa270"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase9*"/> <clone/> <bbox w="80.0" h="40.0" x="20599.06" y="9469.0"/> <glyph class="state variable" id="_b6613cd5-db24-48d7-8183-bc8b8fb5577f"> <state value="" variable="S196"/> <bbox w="30.0" h="10.0" x="20641.01" y="9464.0"/> </glyph> <glyph class="state variable" id="_cf75ee5a-4cc8-4eec-adec-58c209834e40"> <state value="" variable="S144"/> <bbox w="30.0" h="10.0" x="20607.035" y="9504.0"/> </glyph> <glyph class="state variable" id="_105ce430-2621-4f66-b821-ccb08024f607"> <state value="" variable="Y153"/> <bbox w="30.0" h="10.0" x="20640.39" y="9504.0"/> </glyph> <glyph class="state variable" id="_942e6ba4-f3ce-4286-9300-1ab4e1fba8cd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20594.06" y="9484.0"/> </glyph> <glyph class="state variable" id="_cd96eab5-2743-41a8-8f2a-97f089b17039"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20666.56" y="9484.0"/> </glyph> <glyph class="state variable" id="_83065cf7-4e27-4c54-9b14-d9f6042382b5"> <state value="" variable="T125"/> <bbox w="30.0" h="10.0" x="20607.656" y="9464.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa2854_rc_sa2854" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="Cell cycle~arrest"/> <bbox w="80.0" h="30.0" x="22201.56" y="16509.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2261_rc_sa2261" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="Fe2+"/> <clone/> <bbox w="25.0" h="25.0" x="25416.31" y="15485.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2261_rc_sa5264" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="Fe2+"/> <clone/> <bbox w="25.0" h="25.0" x="27396.56" y="9326.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2261_rc_sa5292" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="Fe2+"/> <clone/> <bbox w="25.0" h="25.0" x="26846.56" y="9216.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2261_rc_sa3656" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="Fe2+"/> <clone/> <bbox w="25.0" h="25.0" x="20316.56" y="10216.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2261_rc_sa2312" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="Fe2+"/> <clone/> <bbox w="25.0" h="25.0" x="27931.506" y="10468.731"/> </glyph> <glyph class="complex" id="s_id_rc_csa533_rc_csa533" compartmentRef="s_id_rc_ca49_rc_ca49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KEAP1:SQSTM1</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa533_rc_csa533"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SQSTM1:KEAP1"/> <bbox w="100.0" h="120.0" x="27394.06" y="10159.0"/> <glyph class="macromolecule" id="s_id_rc_sa5283_rc_sa5283"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sequestosome 1</p> <p>HUGO:SQSTM1 HGNC:11280 ENTREZ:8878 UNIPROT:Q13501</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:26587781</p> <p>Sequestosme 1, p62</p> <p>PMID:20531300</p> <p>PMID:16252010</p> <p>PMID:15340068</p> <p>Sequestosome 1/p62 is a polyubiquitin chain binding protein involved in ubiquitin proteasome degradation.PMID:19450509</p> <p>polyubiquitination of caspase-8, rather than targeting it for proteasomal degradation, is critical for sustaining caspase-8 activity after dissociation from the DISC</p> <p>PMID:28574505</p> </body> </html> </notes> <label text="SQSTM1"/> <bbox w="80.0" h="40.0" x="27404.06" y="10179.0"/> <glyph class="state variable" id="_bd5ee33d-788a-44ba-b68c-f47fb09ba2f3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27453.129" y="10174.0"/> </glyph> <glyph class="state variable" id="_46bf800e-1c7f-4a14-8077-484e4be81a7b"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="27434.06" y="10214.0"/> </glyph> <glyph class="state variable" id="_0dc36a45-5761-41d0-9553-3ffe445fccd5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27419.992" y="10174.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5282_rc_sa5282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kelch-like ECH-associated protein 1</p> <p>HUGO:KEAP1 HGNC:23177 ENTREZ:9817 UNIPROT:Q14145</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="KEAP1"/> <bbox w="80.0" h="40.0" x="27404.06" y="10219.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa685_emtc_em_sa685" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa685_emtc_em_sa685"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa254_in_csa254"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4/IL13_receptor- TYPE 2"/> <clone/> <bbox w="200.0" h="90.0" x="24195.0" y="5240.0"/> <glyph class="macromolecule" id="s_id_in_sa1905_in_sa1905"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13RA1"/> <clone/> <bbox w="80.0" h="50.0" x="24210.0" y="5260.0"/> <glyph class="state variable" id="_53b1db9f-2e1b-4900-bd92-ac165a5d3bb5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24285.0" y="5293.757"/> </glyph> <glyph class="unit of information" id="_e39fc84c-1f50-4eba-a77c-eec968fb4bbe"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24227.5" y="5255.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1904_in_sa1904"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> 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<rdf:Description rdf:about="#s_id_in_csa254_in_csa157"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4/IL13_receptor- TYPE 2"/> <clone/> <bbox w="100.0" h="140.0" x="8890.0" y="4645.4375"/> <glyph class="macromolecule" id="s_id_in_sa1904_in_sa1043"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <clone/> <bbox w="80.0" h="50.0" x="8895.0" y="4658.6875"/> <glyph class="state variable" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4727_rc_sa3653"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK1*"/> <clone/> <bbox w="80.0" h="40.0" x="21809.06" y="10836.0"/> <glyph class="state variable" id="_6038faf4-52e6-42e8-a3fe-422f28b5a4cf"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21824.992" y="10831.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4727_an_sa346" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4727_an_sa346"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK1*"/> <clone/> <bbox w="80.0" h="40.0" x="6262.0" y="6465.0"/> <glyph class="state variable" id="_9a60b2ce-fdd9-4420-ae64-9481a004c17f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6277.9316" y="6460.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa757_ca_sa757" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17397400 </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> <p>Microtubule network itself is polarized in migrating cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa757_ca_sa757"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17397400"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Microtubule_polymerization"/> <bbox w="270.0" h="45.0" x="6005.0" y="4317.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_in_sa16_in_sa16" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa865_emtc_em_sa865"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARNT"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1B*"/> <bbox w="46.0" h="20.0" x="4472.0" y="14305.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1078_ca_sa1078" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>PMID:27298374</p> <p>Fibroblast could express OX40L</p> <p>PMID:17641007</p> <p>OX40L prevents Treg transformation of naive T cells by inhibition of Foxp3 expression</p> <p>"we established a two-step T cell culture system with IEk+ fibroblast APC expressing only OX40L. Naive T cells were cultured as before with low-dose Ag for 18 h. These activated cells were then repurified for secondary culture with OX40L-expressing APC in the presence or absence of TGF-β. At 18 h before restimulation, wild-type and OX40−/− T cells expressed equivalent CD25 and TGF-βRII and no Foxp3 (Fig. 4⇓A). After restimulation with Ag and OX40L, wild-type T cells did not develop into Foxp3+ cells without the addition of TGF-β (Fig. 4⇓, B and C). 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Most likely the same residues as picture shows same speed of migration on gel compared to Wnt3 stimulation. No phosphorylation of LRP5/6 by Wnt5. This complex formation sequesters away Wnt5 from the non-canonical pathway receptors</p> <p>PMID:19056682</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa2_wnc1_wnc2_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19056682"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:LRP5_6*:WNT*"/> <bbox w="99.0" h="173.0" x="17719.936" y="17819.75"/> <glyph class="macromolecule" 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ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="17748.936" y="17853.75"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa5_wnc1_wnc2_sa5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="17729.936" y="17870.75"/> <glyph class="unit of information" id="_d49769be-b619-4865-ac79-a8e328843ad3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17747.436" y="17865.75"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa246" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa246"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="25.0" h="25.0" x="16857.56" y="19019.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa36" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="25.0" h="25.0" x="15180.061" y="17859.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa156" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa156"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="25.0" h="25.0" x="16792.56" y="17814.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa196" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa196"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <clone/> <bbox w="25.0" h="25.0" x="16832.56" y="18534.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa246_wnc1_wnc1_sa160" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<p>Confidence_end</p> </body> </html> </notes> <label text="LYRIC*/Occludin*"/> <bbox w="117.0" h="42.0" x="1967.0" y="15316.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1271_emtc_em_sa1271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="59.0" h="20.0" x="2019.5" y="15318.5"/> <glyph class="state variable" id="_68fa04ff-7e7c-4608-96e6-ae34ecc3c475"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2073.5" y="15323.532"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1270_emtc_em_sa1270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>metadherin</p> <p>HUGO:MTDH, HGNC:29608, ENTREZ:92140, UNIPROT:Q86UE4, GENECARDS:GC08P098658  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15383321</p> <p>MTDH is so-called LYRIC</p> <p>LYRIC colocalizes with ZO1 and Occludin in polarized epithelial cells. </p> <p>This protein is most likely not involved in the TJ formation as a structural component. </p> <p>However, it is required for the maturation of the TJ complex</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LYRIC*"/> <bbox w="50.0" h="17.0" x="1970.5" y="15317.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa747_rc_sa747" 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id="_4c8df61e-0144-4981-a7c2-b26a07836c19"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24235.56" y="16050.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1303_ad_sa1303" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. 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CASCADE:CSF2</p> <p>References:</p> <p>PMID:12393492</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits</p> <p>PMID:11306493</p> <p>IL4 induces surface expression of CD116 (CSF2RA) in DC end prevents the blockade of dendritic cell differentiation induced by tumor cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2721_in_sa2723"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393492"/> </rdf:Bag> 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA_R*"/> <bbox w="90.0" h="25.0" x="20684.06" y="16044.75"/> <glyph class="unit of information" id="_7a396466-3e03-49a4-bb58-7555d4686c80"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20719.06" y="16039.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa184_mo_sa184" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of kappa light polypeptide gene enhancer in B-cells 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa184_rc_sa3574"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB1"/> <clone/> <bbox w="80.0" h="40.0" x="23951.56" y="16414.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa184_mo_sa181" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of kappa light polypeptide gene enhancer in B-cells 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa184_mo_sa181"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB1"/> <clone/> <bbox w="80.0" h="40.0" x="2449.0" y="10688.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1511_in_sa1511" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 8683106, 18272812, 17689680, 12967644, 12223527, 25960930, 15814715, 14607900, 17016554, 12193701, 17513775, 11830590, 14764699, 21930765, 12811837, 19833085 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:MDSC</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IL15, CASCADE:IL21, CASCADE:SCF2, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>PMID:19833085</p> <p>STAT1 is activated downstream of IFNG by phosphorylation of tyrosine 701, translocates to the nucleus, binds to a regulatory DNA element termed gamma-activated sequence (GAS) and stimulates transcription of STAT1 target genes.</p> <p>PMID:17689680</p> <p>STAT1 acetilation inhibits its activity in macrophages.</p> <p>PMID:12811837</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:12193701, PMID:11830590</p> <p>CD40 expression is upregulated by STAT1 downstream of INFG</p> <p>and NF-kB downstream of TNF.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and PIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>PMID:21930765, PMID:8683106, PMID:12967644</p> <p>IFNA and IFNB act via STAT1 pathway in DC and NK cells</p> <p>PMID:25960930</p> <p>Reduced IFNa-induced STAT-1 phosphorylation in Ser727 and CXCL10 secretion in NK cells derived from PKC-t-/- mice</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. 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id="_2adee62a-38fd-4eff-aa3a-981a4eb44d1b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21372.5" y="8032.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa116_in_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Tumor_antigen_fragment"/> <bbox w="80.0" h="40.0" x="21410.0" y="7990.0"/> <glyph class="unit of information" id="_68931abb-52a9-431d-9f2a-26daa4fafe9e"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21425.0" y="7985.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2266_in_sa2266" compartmentRef="s_id_in_ca12_in_ca12"> <label text="WNT7B"/> <bbox w="80.0" h="40.0" x="12260.0" y="7510.0"/> </glyph> <glyph class="phenotype" id="s_id_em_sa2088_em_sa2088" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Senescence"/> <clone/> <bbox w="90.0" h="25.0" x="3291.0" y="13875.5"/> </glyph> <glyph class="phenotype" id="s_id_em_sa2088_mo_sa339" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Senescence"/> <clone/> <bbox w="80.0" h="30.0" x="1901.0" y="10432.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4276_rc_sa4276" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4276_rc_sa4276"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K1"/> <bbox w="80.0" h="40.0" x="22488.56" y="10701.0"/> <glyph class="state variable" id="_9431f62d-9474-4b34-9be1-0dcc2c0aa998"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22537.629" y="10696.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa41_shh1_shh1_csa41" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GPC3:HH Ligand</p> <p>References:</p> <p>s_shh1_re81:(MAP:survival) PMID:18477453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa41_shh1_shh1_csa41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18477453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPC3_ligand"/> <bbox w="103.0" h="151.0" x="27984.56" y="19407.5"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa260_shh1_shh1_sa260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Glypican 1</p> <p>HUGO:GPC1 HGNC:4449 ENTREZ:2817 UNIPROT:P35052 GENECARDS:GPC1 REACTOME:55866 KEGG:2817 ATLASONC:GC_GPC1 WIKI:GPC1 </p> <p>Glypican 2</p> <p>HUGO:GPC2 HGNC:4450 ENTREZ:221914 UNIPROT:Q8N158 GENECARDS:GPC2 REACTOME:230962 WIKI:GPC2 </p> <p>Glypican 3</p> <p>HUGO:GPC3 HGNC:4451 ENTREZ:2719 UNIPROT:P51654 GENECARDS:GPC3 REACTOME:55868 KEGG:2719 ATLASONC:GPC3ID156 WIKI:GPC3 </p> <p>Glypican 4</p> <p>HUGO:GPC4 HGNC:4452 ENTREZ:2239 UNIPROT:O75487 GENECARDS:GPC4 REACTOME:55870 KEGG:2239 ATLASONC:GC_GPC4 WIKI:GPC4 </p> <p>Glypican 5</p> <p>HUGO:GPC5 HGNC:4453 ENTREZ:2262 UNIPROT:P78333 GENECARDS:GPC5 REACTOME:55872 ATLASONC:GPC5ID45705ch13q31 WIKI:GPC5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21112773</p> <p>PMID:18477453</p> </body> </html> </notes> <label text="GPC3"/> <bbox w="78.0" h="114.0" x="28000.06" y="19420.5"/> <glyph class="unit of information" id="_140a97fc-4878-4729-a7e5-5a3617a666c1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28016.56" y="19415.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa261_shh1_shh1_sa261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="28004.06" y="19410.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3032_rc_sa3032" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3032_rc_sa3032"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB*"/> <bbox w="80.0" h="40.0" x="23258.215" y="9409.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa111_mo_sa111" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>DNA methyltransferase 1 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa111_mo_sa111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DMNT1PMID:25475733"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNMT*"/> <bbox w="80.0" h="40.0" x="5625.0" y="10443.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1020_rc_sa1020" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1020_rc_sa1020"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SESN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SESN1"/> <bbox w="80.0" h="40.0" x="26132.06" y="11168.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa157_shh1_shh2_sa157" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re100:(MAP:survival) PMID:19211835</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa157_shh1_shh2_sa157"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19211835"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Autophagy"/> <bbox w="80.0" h="30.0" x="26898.06" y="21285.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa57_wca1_wca3_csa57" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP*:KLF8</p> <p>References:</p> <p>s_wca3_re113:(MAP:survival) PMID:21416054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa57_wca1_wca3_csa57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21416054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP*:KLF8"/> <bbox w="93.0" h="128.0" x="20831.06" y="22092.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa344_wca1_wca3_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="20837.56" y="22150.0"/> <glyph class="state variable" id="_cbe41db1-42c5-4f50-9104-78ca91312c56"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="20902.56" y="22145.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa343_wca1_wca3_sa343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kruppel-like factor 8</p> <p>HUGO:KLF8 HGNC:6351 ENTREZ:11279 UNIPROT:O95600 GENECARDS:KLF8 KEGG:11279 ATLASONC:GC_KLF8 WIKI:KLF8</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:WNT_CANONICAL</p> <p>KLF8 is sumoylated by PIAS1, but this cannot be depicted in CellDesigner, instead it is depicted by using "?" as PTM</p> </body> </html> </notes> <label text="KLF8"/> <bbox w="80.0" h="40.0" x="20837.56" y="22108.0"/> <glyph class="state variable" id="_52921933-ba88-4489-8237-4f9ec71536e0"> <state value="?" variable="K67"/> <bbox w="30.0" h="10.0" x="20822.56" y="22103.932"/> </glyph> <glyph class="state variable" id="_d232d310-9f84-4b45-b377-88b8c59a5f5c"> <state value="" variable="K95"/> <bbox w="25.0" h="10.0" x="20905.06" y="22141.38"/> </glyph> <glyph class="state variable" id="_47e62998-f0ca-484e-8132-b00552b2ea74"> <state value="" variable="K93"/> <bbox w="25.0" h="10.0" x="20903.908" y="22103.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa353_ce_sa353" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa353_ce_sa353"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD17"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD17"/> <bbox w="80.0" h="40.0" x="13277.394" y="12162.406"/> <glyph class="state variable" id="_4a6471ba-bf77-4f23-af9f-348e37d21143"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13272.394" y="12177.406"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa77_wca1_wca4_sa77" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa77_wca1_wca4_sa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DKK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DKK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK3"/> <bbox w="90.0" h="25.0" x="23469.56" y="21807.25"/> <glyph class="unit of information" id="_c3b33c66-d4b4-4af1-a328-3d06feebea71"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23504.56" y="21802.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa54_shh1_shh1_csa54" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IFT122:IFT140:TULP3:WDR19</p> <p>References:</p> <p>s_shh1_re108:(MAP:survival) PMID:20889716</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa54_shh1_shh1_csa54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20889716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(IFT-A_TULP3)"/> <bbox w="184.0" h="126.0" x="27072.06" y="18978.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa318_shh1_shh1_sa318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat domain 19</p> <p>HUGO:WDR19 HGNC:18340 ENTREZ:57728 UNIPROT:Q8NEZ3 GENECARDS:WDR19 KEGG:57728 ATLASONC:GC_WDR19 WIKI:WDR19</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="WDR19"/> <bbox w="80.0" h="40.0" x="27165.56" y="18994.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa317_shh1_shh1_sa317"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Tubby like protein 3</p> <p>HUGO:TULP3 HGNC:12425 ENTREZ:7289 UNIPROT:O75386 GENECARDS:TULP3 KEGG:7289 ATLASONC:GC_TULP3 WIKI:TULP3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20889716</p> <p>PMID:19286674</p> </body> </html> </notes> <label text="TULP3"/> <bbox w="80.0" h="40.0" x="27166.06" y="19036.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa319_shh1_shh1_sa319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Intraflagellar transport 122 homologue (Chlamydomonas)</p> <p>HUGO:IFT122 HGNC:13556 ENTREZ:55764 UNIPROT:Q9HBG6 GENECARDS:IFT122 KEGG:55764 WIKI:IFT122</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="IFT122"/> <bbox w="80.0" h="40.0" x="27082.56" y="19036.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa320_shh1_shh1_sa320"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Intraflagellar transport 140 homologue (Chlamydomonas)</p> <p>HUGO:IFT140 HGNC:29077 ENTREZ:9742 UNIPROT:Q96RY7 GENECARDS:IFT140 KEGG:9742 WIKI:IFT140</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="IFT140"/> <bbox w="80.0" h="40.0" x="27082.56" y="18994.0"/> </glyph> 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text="MIR31"/> <clone/> <bbox w="60.0" h="20.0" x="3474.5" y="17350.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa715_wca1_wca4_sa46" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa715_wca1_wca4_sa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR31"/> <clone/> <bbox w="70.0" h="25.0" x="23531.06" y="21406.5"/> </glyph> <glyph class="simple chemical" id="s_id_te_sa485_te_sa485" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanosine 5'-monophosphate</p> <p>CHEBI:17345</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="GMP"/> <bbox w="70.0" h="25.0" x="4236.06" y="22844.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2605_rc_sa2605" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2605_rc_sa2605"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXNRD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TXNRD1"/> <bbox w="80.0" h="40.0" x="29099.06" y="10839.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa463_rc_csa463" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BCL2</p> <p>References:</p> <p>PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa463_rc_csa463"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX:BCL2"/> <bbox w="100.0" h="120.0" x="27631.56" y="10921.5"/> <glyph class="macromolecule" id="s_id_rc_sa4438_rc_sa4438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="27641.502" y="10931.004"/> <glyph class="state variable" id="_247152bf-b15e-444c-a545-75112c1f9531"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="27685.086" y="10926.004"/> </glyph> <glyph class="state variable" id="_bd57c9f3-45d3-4902-aa33-3b402739809c"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="27687.822" y="10966.004"/> </glyph> <glyph class="state variable" id="_93122f06-72a2-4124-b0ca-23af9c719579"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="27640.08" y="10926.004"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4439_rc_sa4439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="27639.502" y="10978.921"/> <glyph class="state variable" id="_e94ed10d-697d-49ba-bcc3-7f46afb8c7e8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" 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id="s_id_emtc_em_csa267_emtc_em_csa267" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:10581160</p> <p>PMID:17318175</p> <p>PMID:10421629</p> <p>Recruitment of CTNNB1 via the degradation complex of APC/AXIN1 is regulated by a series of ordered phosphorylation events.</p> <p>Phosphorylation of AXIN1 by CSNK1 (casein kinase 1) and GSK3B can increase axin binding to CTNNB1.</p> <p>PMID:8638126</p> <p>PMID:11487578</p> <p>PMID:15327768</p> <p>AXIN1 also promotes phosphorylation of APC by CSNK1 and GSK3B.</p> <p>Phosphorylated APC has higher affinity to CTNNB1.</p> <p>PMID:12554650</p> <p>Finally, these phosphorylation events allo CTNNB1 to be a more efficient substrate of both CSNK1 (at S45) and the GSK3B (at T41, S33, S37).</p> <p>The affinity of phosphorylated APC to CTNNB1 is higher than that of phosphorylated AXIN1. </p> <p>Therefore upon phosphorylation, APC can displace AXIN1 from CTNNB1, allowing AXIN1 to bind another molecule of CTNNB1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa267_emtc_em_csa267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> 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where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="40.0" h="20.0" x="1835.0" y="16071.0"/> <glyph class="state variable" id="_d185b124-bd97-41c8-9e9a-b98e0d00a497"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="1847.916" y="16066.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1751_emtc_em_sa1751"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC, HGNC:583, ENTREZ:324, UNIPROT:P25054 , GENECARDS:GC05P112101</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRB2"/> <clone/> <bbox w="80.0" h="40.0" x="5290.0" y="2210.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa440_ca_sa847" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa440_ca_sa847"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRB2"/> <clone/> <bbox w="80.0" h="40.0" x="5260.0" y="2430.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa440_an_sa422" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa440_an_sa422"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRB2"/> <clone/> <bbox w="80.0" h="40.0" x="6722.0" y="6045.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa440_emtc_em_sa2017" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa440_emtc_em_sa2017"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRB2"/> <clone/> <bbox w="38.0" h="17.0" x="6448.0" y="15920.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa742_in_sa742" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="DAP12*"/> <bbox w="90.0" h="25.0" x="20210.0" y="1917.5"/> <glyph class="unit of information" id="_4edd369c-eab4-47d6-b3b4-95da04ecadc9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20245.0" y="1912.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1253_rc_sa1253" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1253_rc_sa1253"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FUBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FUBP1"/> <bbox w="80.0" h="40.0" x="22681.56" y="16834.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa5231_rc_sa5231" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:NECROPTOSIS, MODULE:PARTHANATOS</p> <p>References:</p> <p>PMID:23208502</p> <p>PMID:24582829</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5231_rc_sa5231"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23208502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24582829"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNA Repair"/> <bbox w="80.0" h="30.0" x="19189.06" y="16194.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa426_in_sa426" compartmentRef="s_id_in_ca13_in_ca13"> <label text="NKp46*"/> <bbox w="80.0" h="50.0" x="19135.0" y="1785.0"/> <glyph class="unit of information" id="_65f036db-30cc-48fb-ba35-067cdd575fba"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19152.5" y="1780.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1318_emtc_em_sa1318" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1318_emtc_em_sa1318"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJD2"/> <bbox w="34.0" h="16.0" x="1034.0" y="18411.0"/> </glyph> <glyph class="complex" id="s_id_in_csa175_in_csa175" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s582"/> <bbox w="100.0" h="120.0" x="13390.0" y="1655.0"/> <glyph class="macromolecule" id="s_id_in_sa1182_in_sa1182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CXCR4"/> <bbox w="80.0" h="50.0" x="13400.0" y="1710.0"/> <glyph class="unit of information" id="_f5b3dd1b-eb25-4b54-b3b8-2897f3947f48"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13417.5" y="1705.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1183_in_sa1183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CXCL12"/> <bbox w="80.0" h="40.0" x="13400.0" y="1665.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa208_wnc1_wnc1_sa208" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re67:(MAP:survival) PMID:20562099</p> <p>s_wnc1_re51(MAP:survival):</p> <p>PMID:20628572</p> <p>RGS3 and RGS14 are GTP-ase activating proteins for Gi_alpha and Gq_alpha.</p> <p>PMID:10999941</p> <p>PMID:12534294</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa208_wnc1_wnc1_sa208"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20562099"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10999941"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12534294"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Pi"/> <clone/> <bbox w="25.0" h="25.0" x="16792.56" y="18544.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa208_wca1_wca1_sa625" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re67:(MAP:survival) PMID:20562099</p> <p>s_wnc1_re51(MAP:survival):</p> <p>PMID:20628572</p> <p>RGS3 and RGS14 are GTP-ase activating proteins for Gi_alpha and Gq_alpha.</p> <p>PMID:10999941</p> <p>PMID:12534294</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa208_wca1_wca1_sa625"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20562099"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10999941"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12534294"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Pi"/> <clone/> <bbox w="25.0" h="25.0" x="21438.56" y="18251.5"/> </glyph> <glyph class="complex" id="s_id_in_csa311_in_csa311" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa311_in_csa311"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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Our results establish VISTA as a negative checkpoint regulator that suppresses T-cell activation, induces Foxp3 expression, and is highly expressed within the tumor microenvironment.</p> <p>VISTA enhances conversion of human naïve T cells into FoxP3+ T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1389_ad_sa1390"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VSIR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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across the plasma membrane (Ingham and McMahon, 2001). 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rdf:resource="urn:miriam:hgnc.symbol:PPARGC1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPARGC1A"/> <bbox w="70.0" h="25.0" x="20433.56" y="16271.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa173_ad_sa173" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:INHIBITING_CHECKPOINTS, MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:18097025</p> <p>HVEM is expressed in DCs.</p> <p>PMID:18193050</p> <p>Binding of HVEM to BTLA or CD160 inhibited T cell activation.</p> <p>PMID:20038811</p> <p>expression of HVEM by melanoma cells</p> <p>PMID:27192566</p> <p>HVEM expressed in T cells binds to its ligands: LIGHT and LTα expressed on APC to modulate the proliferation and function of effector T cells</p> <p>via TRAF2 and TRAF3</p> <p>PMID:19332782 </p> <p>The herpesvirus entry mediator (HVEM; TNFRSF14) activates NF-kappaB through the canonical TNF-related cytokine LIGHT, serving as a costimulatory pathway during activation of T cells. 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<head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAD:BCL2L2</p> </body> </html> </notes> <label text="BAD:BCL2L2"/> <bbox w="100.0" h="120.0" x="23179.06" y="13419.0"/> <glyph class="macromolecule" id="s_id_rc_sa1642_rc_sa1642"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 2</p> <p>HUGO:BCL2L2 HGNC:995 ENTREZ:599 UNIPROT:Q92843</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL-W</p> </body> </html> </notes> <label text="BCL2L2"/> <bbox w="80.0" h="40.0" x="23187.31" y="13477.333"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1643_rc_sa1643"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>there are at least 2 isoforms of BAD. 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MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11013220</p> <p>Cooperation and physical interaction of Smad2, Smad3, Smad4 with SP1 at the promoter of CDKN2B (p15INK4B) gene</p> <p>This interaction provides a mechanism underlying the TGFB-induced growth arrest</p> <p>PMID:10331086</p> <p>CDK inhibitors are classified into 2 families: Cip/Kip family and INK4 family</p> <p>INK4 family consists of p16INK4a, p15INK4B, p18INK4c, p19INK4d</p> <p>INK4 family spcially interacts with Cdk4 and Cdk6 but not other Cdks</p> <p>INK4 binding prevents the association of Cdk4 and Cdk6 with the D-type cyclins (D1, D2, D3)</p> <p>The vast majority of INK4 proteins are not found in complexes containing cyclins D. </p> <p>PMID:8078588</p> <p>p15INK4B is a potential effector of TGFB-induced cell cycle arrest</p> <p>PMID:22943793</p> <p>TGFB induces expression of p15INK4B and represses expression of c-Myc</p> <p>p15INK4B is able to prevent cyclin D-CDK4/6 complex formation</p> <p>p15INK4B displaces p21CIP and p27KIP1 from cyclin D-CDK4/6 complexes. </p> <p>These CIP/KIP inhibitors are subsequently able to inactivate other complexes of G1 and S phase and therby inhibit cell cycle.</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:11013220</p> <p>Cooperation and physical interaction of Smad2, Smad3, Smad4 with SP1 at the promoter of CDKN2B (p15INK4B) gene</p> <p>This interaction provides a mechanism underlying the TGFB-induced growth arrest</p> <p>PMID:10331086</p> <p>CDK inhibitors are classified into 2 families: Cip/Kip family and INK4 family</p> <p>INK4 family consists of p16INK4a, p15INK4B, p18INK4c, p19INK4d</p> <p>INK4 family spcially interacts with Cdk4 and Cdk6 but not other Cdks</p> <p>INK4 binding prevents the association of Cdk4 and Cdk6 with the D-type cyclins (D1, D2, D3)</p> <p>The vast majority of INK4 proteins are not found in complexes containing cyclins D. </p> <p>PMID:8078588</p> <p>p15INK4B is a potential effector of TGFB-induced cell cycle arrest</p> <p>PMID:22943793</p> <p>TGFB induces expression of p15INK4B and represses expression of c-Myc</p> <p>p15INK4B is able to prevent cyclin D-CDK4/6 complex formation</p> <p>p15INK4B displaces p21CIP and p27KIP1 from cyclin D-CDK4/6 complexes. </p> <p>These CIP/KIP inhibitors are subsequently able to inactivate other complexes of G1 and S phase and therby inhibit cell cycle.</p> </body> </html> </notes> <label text="p15INK4B*"/> <bbox w="80.0" h="16.0" x="4088.5" y="14192.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1925_emtc_em_sa1925"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDK4_6*</p> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, GENECARDS:GC12M058142, UNIPROT:P11802 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, GENECARDS:GC07M092234, UNIPROT:Q00534  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="58.0" h="17.0" x="4030.5" y="14194.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1003_ad_sa1003" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21411734 </p> <p>T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doses</p> <p>when cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.</p> <p>NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells.</p> <p>PMID:20038811</p> <p>, IFNG as well as TNF secretion was reduced when melanoma cell lines expressed HVEM (Figure ​(Figure6,6, C and D). This inhibition correlated significantly with percentages of T cells expressing BTLA (Figure ​(Figure6E).6E).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1003_ad_sa1003"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20038811"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <bbox w="80.0" h="40.0" x="26926.0" y="8170.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2174_emtc_em_sa2174" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2174_emtc_em_sa2174"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NCOR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCOR1"/> <bbox w="44.0" h="18.0" x="2869.0" y="14483.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2703_rc_sa2703" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2703_rc_sa2703"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKDC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNA-PK*"/> <bbox w="80.0" h="40.0" x="18371.56" y="16064.0"/> <glyph class="state variable" id="_fa77931d-c1d5-4925-bf47-aeef0c6b6721"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18423.129" y="16059.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ce_sa1455_ce_sa1455" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="No DNA replicarion"/> <bbox w="153.0" h="34.0" x="13665.769" y="9266.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4592_rc_sa4592" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4592_rc_sa4592"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIM*"/> <clone/> <bbox w="90.0" h="25.0" x="20997.56" y="15976.5"/> <glyph class="unit of information" id="_f03d0abd-60dd-4374-8472-87f09a32f7bb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21032.56" y="15971.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4592_em_sa2080" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4592_em_sa2080"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIM*"/> <clone/> <bbox w="90.0" h="25.0" x="4766.0" y="14396.5"/> <glyph class="unit of information" id="_1122c712-e5fa-4a3a-88f7-0db3d44f1bf3"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4801.0" y="14391.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa330_rc_csa330" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:TKT*:thiamine diphosphate</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="TKT"/> <bbox w="160.0" h="105.0" x="17979.06" y="10036.5"/> <glyph class="simple chemical" id="s_id_rc_sa2986_rc_sa2986"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> <p>Map modules:</p> <p>MODULE:AKT_MTOR, MODULE:MITOCH_METABOLISM MODULE:DEATH-RECEPTORS MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="75.0" h="41.0" x="17971.56" y="10061.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2982_rc_sa2982"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:9532</p> <p>KEGGCOMPOUND: C00068</p> </body> </html> </notes> <label text="thiamine diphosphate"/> <bbox w="146.0" h="24.0" x="17986.31" y="10039.75"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3394_rc_sa3394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transketolase</p> <p>HUGO:TKT HGNC:11834 ENTREZ:7086 UNIPROT:P29401 </p> <p>transketolase-like 2</p> <p>HUGO:TKTL2 HGNC:25313 ENTREZ:84076 UNIPROT:Q9H0I9</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="TKT*"/> <bbox w="86.0" h="46.0" x="18036.06" y="10068.5"/> <glyph class="unit of information" id="_735dec1d-a11a-40da-856c-229bdb01ee19"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18069.06" y="10063.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2572_in_sa2572" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 11438547, 11477091, 9743347, 24378531, 9064320, 23681101, 16327802, 16713974</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa193_shh1_shh1_sa193"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA*"/> <clone/> <bbox w="80.0" h="40.0" x="26979.56" y="18185.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa193_shh1_shh1_sa195" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa193_shh1_shh1_sa195"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA*"/> <clone/> <bbox w="80.0" h="40.0" x="27128.56" y="18416.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa63_wca1_wca1_csa63" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha_o*</p> <p>References:</p> <p>s_wca1_re28(MAP:survival):</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 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protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21385.06" y="18135.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa832_emtc_em_sa832" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa832_emtc_em_sa832"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK2*"/> <bbox w="48.0" h="44.0" x="6298.0" y="13590.25"/> <glyph class="state variable" id="_bbfb8c65-7a3e-4fe8-befc-37f7c5e99be9"> <state value="" variable="T"/> <bbox w="15.0" h="10.0" x="6290.5" y="13586.942"/> </glyph> <glyph class="state variable" id="_1c51ea96-77a7-4256-9df0-ddaac50d06e9"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="6338.5" y="13585.536"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1069_in_sa1069" compartmentRef="s_id_in_ca13_in_ca13"> <label text="gp130*"/> <bbox w="80.0" h="50.0" 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cytokines). </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1247_ad_sa1247"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL22"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18329370"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL22"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18329370"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ILL22"/> <bbox w="90.0" h="25.0" x="26781.0" y="8082.5"/> <glyph class="unit of information" id="_baf18026-2c93-4ea4-a55a-0ff6252df578"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26816.0" y="8077.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4977_rc_sa4977" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4977_rc_sa4977"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP2A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP2A3"/> <bbox w="80.0" h="40.0" x="27925.154" y="12999.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa8_wca1_wca1_csa8" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re7:(MAP:survival) PMID:17910481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20031.06" y="19655.188"/> <glyph class="state variable" id="_302a3c9d-d0dd-49fd-9b77-ef30bb792b73"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.053" y="19650.188"/> </glyph> <glyph class="state variable" id="_4d9d16f6-e971-497f-ae06-cc3eaac132f3"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20013.56" y="19689.908"/> </glyph> <glyph class="state variable" id="_ebac327b-1e8d-424a-afdd-814885267d7e"> <state value="P" variable="S1505"/> <bbox w="40.0" h="10.0" x="20090.441" y="19690.188"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="19567.188"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa80_wca1_wca1_sa80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20123.06" y="19653.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa39_wca1_wca1_sa39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="19610.688"/> <glyph class="state variable" id="_42d8648d-f49a-495e-b958-b99bf6ff6b94"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="19605.9"/> </glyph> <glyph class="state variable" id="_3830617d-0d22-4331-87e8-3b1467feb74d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="19605.688"/> </glyph> <glyph class="state variable" id="_7d9e766c-0db6-4a82-947c-c673f13ca5e9"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="19605.688"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20115.06" y="19682.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa60_in_csa60" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s1484"/> <bbox w="110.0" h="165.0" x="20720.0" y="1397.5"/> <glyph class="macromolecule" id="s_id_in_sa596_in_sa596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="DAP12*"/> <bbox w="80.0" h="50.0" x="20740.0" y="1412.5"/> <glyph class="state variable" id="_1a827139-695f-41c0-8968-289d407ea722"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20735.0" y="1432.5"/> </glyph> <glyph class="unit of information" id="_abd80bc1-3ce8-4b9e-8d02-25c9b6e3f522"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20757.5" y="1407.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa595_in_sa595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="KIR2DS2"/> <bbox w="80.0" h="50.0" x="20740.0" y="1462.5"/> <glyph class="unit of information" id="_c66a07d7-2500-4ddc-9f76-4ed9b6e37ec1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20757.5" y="1457.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1853_in_sa1853" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20856220, 23124025 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1853_in_sa1853"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2RG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL2RG"/> <clone/> <bbox w="80.0" h="50.0" x="24260.0" y="4700.0"/> <glyph class="unit of information" id="_ea1af6d5-937c-4ceb-9f2b-9b4e322fac6e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24277.5" y="4695.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1853_in_sa975" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20856220, 23124025 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, 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id="s_id_mo_sa56_mo_sa56" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0c-src tyrosine kinase ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0c-src tyrosine kinase </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa56_mo_sa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:17435549</p> <p>Bile salts induce resistance to apoptosis through NF-kappaB-mediated XIAP expression.</p> <p>PMID:22733138</p> <p>XIAP (X-linked IAP, BIRC4) is a critical barrier to apoptosis induction in cancer cells because of its robust affinity to bind and inhibit initiator caspase-9 and effector caspases -3 and -7</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>CD48 interactions with CD2 in cis on T cells can promote T cell activation, by facilitating recruitment of signaling components to the TCR. </p> <p>Anti-CD48 also could partially block antigen-specific target cell lysis by CTLs in an in vitro cytotoxicity assay [94]. Both anti-CD2 and anti-CD48 mAbs reduced IL-2Rα expression, IL-2 and IFNγ production, and target lysis by anti-CD3-stimulated bulk T cells in vitro. The reduced target lysis could be rescued by addition of IL-2 [95], suggesting that CD48:CD2 costimulation may stabilize IL-2 mRNA [96]. 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</head> <body> <p>HUGO:CD3E</p> <p>HUGO:CD3G</p> <p>HUGO:CD3D</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> </body> </html> </notes> <label text="CD3*"/> <bbox w="80.0" h="50.0" x="28426.0" y="2938.125"/> <glyph class="state variable" id="_91971d40-c1cf-43a7-8261-e16e566c3759"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28418.5" y="2958.125"/> </glyph> <glyph class="unit of information" id="_48321990-ecfa-4733-8b52-89e82616f468"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28443.5" y="2933.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa753_ad_sa753"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD247</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> <p>TCR–CD3 complex is lolalized in the central part of immunological synapse.</p> <p>PMID:21059766</p> <p>The TCR of αβ T cells is composed of the ligand-binding 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TSC1:TSC2</p> </body> </html> </notes> <label text="TSC1/2"/> <bbox w="102.0" h="141.0" x="26001.56" y="11705.833"/> <glyph class="macromolecule" id="s_id_rc_sa1079_rc_sa1079"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 1</p> <p>HUGO:TSC1 HGNC:12362 ENTREZ:7248 UNIPROT:Q92574</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="26014.06" y="11724.0"/> <glyph class="state variable" id="_a336ee0b-60b7-401d-8506-fbde451a9734"> <state value="" variable="S487"/> <bbox w="30.0" h="10.0" x="26022.656" y="11719.0"/> </glyph> <glyph class="state variable" id="_79819eda-dd15-428f-b654-cec4a21b4252"> <state value="" variable="S511"/> <bbox w="30.0" h="10.0" x="26056.01" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa473_in_sa20"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15817676"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PtdIns(4)-P"/> <clone/> <bbox w="70.0" h="25.0" x="21875.0" y="7397.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa71_emtc_em_csa71" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA6:ITGB4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> 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text="a6b4*"/> <bbox w="40.0" h="60.0" x="4473.768" y="18485.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa541_emtc_em_sa541"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 6</p> <p>HUGO:ITGA6 HGNC:6142 ENTREZ:3655 UNIPROT:P23229</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA6"/> <bbox w="40.0" h="20.0" x="4473.768" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa542_emtc_em_sa542"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 4</p> <p>HUGO:ITGB4 HGNC:6158 ENTREZ:3691 UNIPROT:P16144</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> 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compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IQGAP1 :TGFBR2</p> <p>Map modules:</p> <p>MODULE:CAF </p> </body> </html> </notes> <label text="ca_s4886"/> <bbox w="100.0" h="120.0" x="3990.0" y="1290.0"/> <glyph class="macromolecule" id="s_id_ca_sa1029_ca_sa1029"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 2</p> <p>HUGO:TGFBR2 hgnc_id:HGNC:11773 HGNC:11773 ENTREZ:7048 UNIPROT:P37173</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS, MODULE:CAF</p> <p>CASCADE:TGFB</p> <p>References:</p> <p>PMID:24132110,PMID:15265520</p> <p>TGFB1, TGFB2, TGFB3 ligands bind to the type 2 TGFβ receptor (TGFBR2), which causes recruitment and phosphorylation of TGFBR1, resulting in downstream signalling activation.</p> <p>PMID:24336330 </p> <p>TGFBR2 in CAFs</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="80.0" h="50.0" x="4000.0" y="1345.0"/> <glyph class="state variable" id="_5b6db841-590c-4901-8b66-bcbfdf6ebe30"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3995.0" y="1365.0"/> </glyph> <glyph class="unit of information" id="_b0f0ad14-468f-45a6-9d5f-5e27a5739e57"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4017.5" y="1340.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1028_ca_sa1028"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:IQGAP1</p> <p>Map modules:</p> <p>MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF </p> <p>References:</p> <p>PMID:23454766</p> <p>IQ motif containing GTPase activating protein 1 (IQGAP1) binds to TGF-β receptor II (TβRII) and suppresses TβRII-mediated signaling in pericytes to prevent myofibroblastic differentiation in the tumor microenvironment.</p> <p>TGF-β1 stimulation increases IQGAP1/TβRII binding.</p> </body> </html> </notes> <label text="IQGAP1 "/> <bbox w="80.0" h="40.0" x="4000.0" y="1300.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca2_sa131_wca1_wca2_sa131" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re50:(MAP:survival) PMID:22659456 PMID:22007144 PMID:19171760 PMID:10931041</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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id="s_id_wca1_wca2_sa131_wca1_wca2_sa81" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re50:(MAP:survival) PMID:22659456 PMID:22007144 PMID:19171760 PMID:10931041</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa131_wca1_wca2_sa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22659456"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22007144"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10931041"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ECM or cell-cell contact"/> <clone/> <bbox w="80.0" h="30.0" x="23045.06" y="18782.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3784_rc_sa3784" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17158</p> <p>References:</p> <p>PMID:20823910</p> <p>PMID:11792832</p> <p> Methylglyoxal covalently binds to proteins and forms advanced glycation end products (AGEs), which alter protein function and constitute new centres of sustained ROS generation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3784_rc_sa3784"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792832"/> </rdf:Bag> 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compartmentRef="s_id_mo_ca6_mo_ca6"> <label text="ULBP2/HSP60*"/> <bbox w="100.0" h="120.0" x="6381.0" y="9947.0"/> <glyph class="macromolecule" id="s_id_mo_sa396_mo_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family D (Hsp60) member 1 </p> </body> </html> </notes> <label text="HSP60*"/> <bbox w="80.0" h="40.0" x="6391.0" y="10007.0"/> <glyph class="state variable" id="_6137834e-6bd7-4cef-b83a-1ec6bfa1a82d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6440.0684" y="10002.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa395_mo_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>UL16 binding protein 2 </p> </body> </html> </notes> <label text="ULBP2"/> <bbox w="80.0" h="40.0" x="6391.0" y="9957.0"/> <glyph class="state 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa372_mpk1_mpk1_sa372"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RIPK1"/> <bbox w="50.0" h="25.0" x="9936.057" y="19361.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa208_emtc_em_csa208" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA1:ZO1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:15980428</p> <p>PMID:19284610</p> <p>The associations between Cx43 and ZO-1 and ZO-2 proteins were shown to be under cell-cycle stage-specific control. </p> <p>Connexin 43 interacts preferentially</p> <p>with ZO-1 during G0 stage, whereas the interaction with ZO-2 is approximately the same during the various stages</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa208_emtc_em_csa208"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15980428"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19284610"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA1/ZO1*"/> <bbox w="100.0" h="40.0" x="1471.0" y="17452.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1381_emtc_em_sa1381"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15558297</p> <p>The localization of ZO-1 at gap junctions serves in part to resolve reports of ZO-1 expression in non-epithelial cells such as fibroblasts that lack tight junctions</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1*"/> <bbox w="40.0" h="16.0" x="1524.0" y="17455.166"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1319_emtc_em_sa1319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 1, 43kDa</p> <p>HUGO:GJA1, HGNC:4274, ENTREZ:2697, UNIPROT:P17302, GENECARDS:GC06P121756  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:16359940</p> <p>PMID:14576341</p> <p>Among the Connexins, Cx43 (GJA1) is the most ubiquitously expressed. </p> <p>Cx43 is endogenously expressed in at least 35 distinct tissues encompassing over 35 cell types that include cardiomyocytes, keratinocytes, astrocytes, endothelial cells and smooth-muscle cells among many others. </p> <p>Cx43 co-oligomerize with other Connexins like Cx26 (GJB2, keratinocytes and hepatocytes), Cx31 (GJB5, keratinocytes), Cx45 (GJC1, myocardium) and Cx46 (GJA3, trans-Golgi network). </p> <p>However Cx43 is unable to co-oligomerize with Cx32 (GJB1).</p> <p>PMID:16492141</p> <p>Binding partners proteins of Connexin 43 (GJA1):</p> <p>-Kinases: v-Src, c-Src, PKC, PKA, MAPK, Casein kinase 1, Cdc2 kinase</p> <p>-TIGHT_JUNCTIONS scaffold proteins: ZO1, ZO2, caveolin 1</p> <p>-Cytoskeleton: b-catenin, a-tubulin, b-tubulin</p> <p>-Others: Drebrin, NOV, CIP85</p> <p>Cx43 binds with ZO-1 and ZO-2, at different stages of the cell cycle to regulate Gap Junctions size and stability; </p> <p>Cx43 interacts directly with b-Catenin to regulate Gap junctional intercelullar communication cross-talk activity with the WNT signaling (essential for cell survival);</p> <p>Binding of CIP85 to Cx43 regulates the turnover of Cx43-containing Gap Junctions, stabilizing the junctions. </p> <p>Drebrin 1 (Actin-binding protein) binds Cx43 and links Gap junctions to the sub-membrane cytoskeleton</p> <p>Other cytoskeletal proteins like a and b-Tubulin bind with Cx43 to facilitate Connexion transport. </p> <p>Binding of NOV to the C-terminus of Cx43 potentially regulates growth suppression. </p> <p>Binding of Cx43 to Caveolin-1 may play a role in internalization of Cx43. </p> <p>Connexin-specific selectivity:</p> <p>Homomeric Connexons made up of Cx32 are permeable both to cAMP and cGMP </p> <p>Heteromeric Connexons containing both Cx26 (GJB2) and Cx32 are not permeable to cAMP but allow passage of cGMP</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA1"/> <bbox w="39.0" h="16.0" x="1479.5" y="17455.166"/> <glyph class="state variable" id="_9488504c-e443-4160-b9f3-7680017b6595"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1513.3213" y="17450.166"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa245_rc_csa245" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SEPT4:XIAP</p> </body> </html> </notes> <label text="SEPT4:XIAP"/> <bbox w="100.0" h="120.0" x="24729.06" y="12309.0"/> <glyph class="macromolecule" id="s_id_rc_sa1853_rc_sa1853"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24737.81" y="12364.0"/> <glyph class="state variable" id="_2387c471-54bd-448c-9ba4-ef887c043524"> <state value="?" variable="S87"/> <bbox w="30.0" h="10.0" 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that express IBM (a mutant IB that cannot be degradaded) under the control of a T-cell-specific promoter have markedly impaired proliferative responses</p> <p> T cells that express IBM cannot activate signal transducer and activator of transcription 5a (STAT5a), a transcription factor that is required for T-cell proliferation induced by IL-2 and IL-4 (Ref. 76). In addition, the development of CD8+ T-cell responses requires p65 (Ref. 77). Similarly, inhibitors of NF-B activation have been shown to block the maturation of dendritic cells74. 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rdf:resource="urn:miriam:hgnc.symbol:ARRB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Arrestin2*"/> <clone/> <bbox w="49.0" h="77.0" x="9958.061" y="19435.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa297_wca1_wca1_sa553" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa297_wca1_wca1_sa553"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARRB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Arrestin2*"/> <clone/> <bbox w="80.0" h="40.0" x="21129.06" y="18186.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1015_ad_sa1015" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>PMID:20164171</p> <p> ADAP (FYB1) can be recruited to the Carma1-Bcl10-Malt1 (CBM) complex upon CD3/CD28 stimulation, a key complex that regulates NF-κB activation via the classical pathway </p> <p>NF-kappaB activation following engagement of the antigen-specific T cell receptor involves protein kinase C-theta-dependent assembly of the CARMA1-BCL10-MALT1 (CBM) signalosome, which coordinates downstream activation of IkappaB kinase (IKK). We previously identified a novel role for the adhesion- and degranulation-promoting adapter protein (ADAP) in regulating the assembly of the CBM complex via an interaction of ADAP with CARMA1. In this study, we identify a novel site in ADAP that is critical for association with the TAK1 kinase. ADAP is critical for recruitment of TAK1 and the CBM complex, but not IKK, to protein kinase C-theta. ADAP is not required for TAK1 activation. Although both the TAK1 and the CARMA1 binding sites in ADAP are essential for IkappaB alpha phosphorylation and degradation and NF-kappaB nuclear translocation, only the TAK1 binding site in ADAP is necessary for IKK phosphorylation. In contrast, only the CARMA1 binding site in ADAP is required for ubiquitination of IKKgamma. Thus, distinct sites within ADAP control two key activation responses that are required for NF-kappaB activation in T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1015_ad_sa1015"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FYB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20164171"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FYB1"/> <bbox w="80.0" h="40.0" x="26806.0" y="4810.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_rc_sa3967" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="23996.56" y="13356.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_mo_sa258" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="2245.0" y="8951.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_rc_sa1017" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="25929.545" y="11160.68"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_mo_sa257" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="2254.0" y="8883.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_rc_sa4973" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="33.0" h="33.0" x="27368.904" y="12972.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_rc_sa4799" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="33.0" h="33.0" x="27268.904" y="12962.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_rc_sa4820" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="33.0" h="33.0" x="26328.904" y="12962.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3967_rc_sa3263" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="24036.56" y="10896.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa468_rc_csa468" compartmentRef="s_id_rc_ca28_rc_ca28"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase8,10*</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="185.0" h="112.0" x="24834.56" y="9837.75"/> <glyph class="macromolecule" id="s_id_rc_sa3894_rc_sa3894"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24864.06" y="9852.75"/> <glyph class="state variable" id="_1f3dfd8b-7940-462a-8269-988ea9c42920"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24854.06" y="9859.466"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3894_rc_sa3896"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24884.06" y="9872.75"/> <glyph class="state variable" id="_3908a935-9ff7-4877-a09f-d8a7e1631fc9"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24874.06" y="9879.466"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3894_rc_sa3895"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24874.06" y="9862.75"/> <glyph class="state variable" id="_dccecddd-1b3f-48ca-b19d-4d4cf8deeb8f"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24864.06" y="9869.466"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3894_rc_sa3897"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24894.06" y="9882.75"/> <glyph class="state variable" id="_3612bb65-aecf-4530-88f5-39be628c362c"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24884.06" y="9889.466"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1509_emtc_em_sa1509" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1509_emtc_em_sa1509"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase*"/> <bbox w="60.0" h="20.0" x="5266.0" y="14328.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa92_ce_csa92" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:H2AFX:MDC1</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:HR</p> <p>References:</p> <p>PMID:17303408, PMID:16377563</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>H2A histone family, member X</p> <p>HUGO:H2AFX , HGNC:4739, ENTREZ:3014, UNIPROT:P16104</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:9488723, PMID:19772495, PMID:17303408</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003</p> </body> </html> </notes> <label text="H2AFX"/> <bbox w="80.0" h="40.0" x="14435.222" y="15232.984"/> <glyph class="state variable" id="_6e478b8f-9b16-411e-9ebe-2b96584c464e"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="14417.722" y="15247.984"/> </glyph> <glyph class="state variable" id="_9ae42200-6933-4418-a427-660ec123617e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="14425.222" y="15230.918"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa721_ce_sa721"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mediator of DNA-damage checkpoint 1</p> <p>HUGO:MDC1, HGNC:21163, ENTREZ:9656, UNIPROT:Q2TAZ4</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:C_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:18006705, PMID:17303408, PMID:18583988, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003, PMID:18583988, PMID:9407949, PMID:18678890</p> </body> </html> </notes> <label text="MDC1"/> <bbox w="80.0" h="40.0" x="14435.007" y="15276.822"/> <glyph class="state variable" id="_dbeaff98-8ae2-493c-8259-7becb7efca95"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14427.507" y="15291.79"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa4_wnc1_wnc3_sa4" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa4_wnc1_wnc3_sa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFβ*"/> <bbox w="80.0" h="40.0" x="15316.061" y="20619.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa210_in_sa210" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR27A*"/> <bbox w="70.0" h="25.0" x="12949.375" y="4316.875"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1273_in_sa1273" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL12p35*"/> <bbox w="70.0" h="25.0" x="20661.25" y="5227.5"/> </glyph> <glyph class="complex" id="s_id_te_csa22_te_csa22" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/NHP2/NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa22_te_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/NHP2/NOP10"/> <bbox w="210.0" h="130.0" x="5794.06" y="22244.0"/> <glyph class="macromolecule" id="s_id_te_sa200_te_sa200"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="5814.06" y="22314.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa198_te_sa198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="5904.06" y="22264.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa199_te_sa199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="5814.06" y="22264.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa90_mpk1_mpk1_csa90" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K1:RIPK1:TNFRSF1A:TRADD:TRAF2</p> </body> </html> </notes> <label text="MAP3K1:RIPK1:TNFRSF1A:TRADD:TRAF2"/> <bbox w="271.0" h="86.0" x="10495.057" y="19631.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa570_mpk1_mpk1_sa570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1A</p> <p>TNFR1</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="10540.605" y="19640.908"/> <glyph class="unit of information" id="_2eefec41-4c8e-4221-858a-0cdf0afd44f0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10553.105" y="19635.908"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa490_mpk1_mpk1_sa490"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="57.0" h="25.0" x="10611.364" y="19638.385"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa489_mpk1_mpk1_sa489"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="10549.364" y="19664.385"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa492_mpk1_mpk1_sa492"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 1 E3 ubiquitin protein ligase</p> <p>MEKK1 "mitogen-activated protein kinase kinase kinase 1"</p> <p>HUGO:MAP3K1 HGNC:6848 ENTREZ:4214 UNIPROT:Q13233</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MEKK1 (MAP3K1) is a key MAP3K.</p> <p>MEKK1 is significantly activated by TNF. Oligomerisation of TRAFs is sufficient to trigger MEKK1 binding. MEKK1 associates selectively with oligomerised TRAF2 in vivo in a TNF-dependent manner. MEKK1 can interact with Ras in a GTP-dependent manner. The GTP-dependent coupling of MEKK1 to Ras indicates that MEKK1 may be an effector for those agonists that recruit JNK through Ras-dependent mechanisms. MEKK1 selectively activates the endogenous JNK pathway. MEKK1 can activate MEK4 and MEK7 in vivo.</p> </body> </html> </notes> <label text="MAP3K1"/> <bbox w="76.0" h="25.0" x="10651.364" y="19664.385"/> <glyph class="state variable" id="_9e2027f2-49d0-4cf7-aff1-c42997b989e7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10643.864" y="19671.885"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa491_mpk1_mpk1_sa491"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TNF treatment is thought to result in the formation of a TRADD-RIP-TRAF2 complex at the membrane.</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="50.0" h="25.0" x="10599.364" y="19664.385"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5277_rc_sa5277" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5277_rc_sa5277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC7A11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC7A11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC7A11"/> <bbox w="90.0" h="25.0" x="25395.06" y="16026.5"/> <glyph class="unit of information" id="_348d704f-1d18-4fac-9f75-455a6f9a2ec7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25430.06" y="16021.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa157_emtc_em_csa157" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB3:L1CAM</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:8636223</p> <p>Integrin aVb3 is distinct in its capacity to recognize the sequence Arg-Gly-Asp (RGD) in many extra-cellular matrix (ECM) components. </p> <p>aVb3 can also interact with the neural cell adhesion molecule L1CAM; a member of the immunoglobulin superfamily (IgSF). In other words, aVb3 undergoes heterophilic binding with L1CAM</p> <p>M21 cells display some aVb3-dependent adhesion and spreading on immunopurified human L1. Ligation between this ligand and aVb3 was also observed to promote significant haptotactic cell migration. </p> <p>Significant aVb3-dependent adhesion and spreading was evident on a L1 fragment containing Ig-like domains 4, 5, and 6. </p> <p>Importantly, mutation of an RGD sequence present in the sixth Ig-like domain of L1 abrogated M21 cell adhesion. </p> <p>Despite high levels of L1 expression the M21 melanoma cells did not display significant adhesion via a homophilic L1-L1 interaction. </p> <p>These data suggest that M21 melanoma cells recognize and adhere to L1 through a mechanism that is primarily heterophilic and integrin dependent. </p> <p>Finally, we present evidence that melanoma cells can shed and deposit L1 in occluding ECM. </p> <p>aVb3 may recognize L1 in a cell-cell or cell-substrate interaction.</p> <p>PMID:11553709</p> <p>Tumor metastasis involves many stage-specific adhesive interactions. The expression of several cell adhesion molecules, notably the integrin aVb3 has been associated with the metastatic potential of tumor cells. </p> <p>In the context of in vitro monolayer of human lung microvascular, L1CAM was shown to serve as a potential ligand for aVb3 during melanoma transendothelial migration.</p> <p>Also, polyclonal antibodies against L1 partially inhibited the transendothelial migration of melanoma cells. </p> <p>However, addition of both L1 and aVb3 antibodies did not show additive effects, suggesting that they are components of the same adhesion system.</p> <p>Together, the data suggest that interactions between the integrin aVb3 on melanoma cells and L1 on endothelial cells play an important role in the transendothelial migration of melanoma cells.</p> <p>Integrin aVb3 on melanoma cells, and not endothelial cells, is involved in the transmigration process.</p> <p>Because L1 is expressed in both melanoma and endothelial cells, it is possible that L1-L1 homophilic interactions at the heterotypic contacts might play a role in the transmigration of melanoma cells.</p> <p>The data thus indicate that transendothelial migration does not involve L1-L1 homophilic binding.</p> <p>These results led us to speculate that L1 on endothelial cells, and not melanoma cells, has a role during transendothelial migration of melanoma cells</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>PMID:16506207</p> <p>PMID:11706054</p> <p>PMID:17952127</p> <p>PMID:21373966</p> <p>Binding of L1CAM to aVb3 or aVb5 seemed to be pivotal for L1CAM-mediated cell migration leading to the activation of Erk1/2 and FAK signalling</p> <p>In carcinoma cell lines, L1 overexpression augments cell motility, tumor growth in mice and induces expression of Erk-dependent genes</p> <p>L1CAM-mediated Erk1/2 activate genes encoding for pro-migratory proteins such as cathepsin-B or b3-integrins were upregulated.</p> <p>A mechanism in the glioma cells context was proposed: upregulated ADAM10 proteolyzes surface L1CAM and the resultant ectodomain of L1CAM increases human glioma cell migration and invasion by binding to integrin receptors, activating FAK, and increasing turnover of focal complexes.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa157_emtc_em_csa157"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8636223"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11553709"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9003039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16506207"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11706054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17952127"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21373966"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Integrin aVb3/L1CAM)"/> <bbox w="149.0" h="85.0" x="1096.5" y="16186.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa891_emtc_em_sa891"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)</p> <p>GP3A</p> <p>HUGO:ITGB3 HGNC:6156 ENTREZ:3690 UNIPROT:P05106 GENECARDS:GC17P045331</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB3"/> <bbox w="40.0" h="20.0" x="1133.0" y="16207.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa893_emtc_em_sa893"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>L1 cell adhesion molecule</p> <p>HUGO:L1CAM, HGNC:6470, ENTREZ:3897, GENECARDS:GC0XM153126, UNIPROT:P32004</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>ISBN:978-953-51-0410-0</p> <p>PMID:8893017</p> <p>PMID:20044598</p> <p>The adhesion molecule L1CAM (CD171) is a 220 kD transmembrane glyocoprotein and belongs to the immunoglobulin superfamily.</p> <p>The extracellular part of the molecule comprises six Ig-like domains followed by 5 fibronectin type III repeats. </p> <p>The transmembrane domain is followed by a short cytoplasmic tail of 32kD </p> <p>PMID:10413675</p> <p>L1CAM can be expressed and mediate its effects as a membrane-bound form.</p> <p>L1CAM can also be proteolytically cleaved by different proteases releasing a soluble ectodomain that is likewise functionally active. </p> <p>PMID:16199880</p> <p>PMID:11706054</p> <p>The metalloproteases ADAM 10 and 17 as well as plasmin have been described to cleave L1CAM generating a soluble 200 kD and 150 kD form, respectively</p> <p>After ADAM-mediated cleavage, the membrane-bound intracellular C-terminal fragment of L1CAM can be further processed by the presenilin/gamma-secretase complex giving rise of a 28 kD fragment. </p> <p>PMID:19260824</p> <p>This small intracellular fragment translocates into the nucleus where it is thought to contribute to L1CAM-dependent gene regulation.</p> <p>L1CAM can bind to different substrates/molecules in a cell and context dependent manner. </p> <p>PMID:10469653</p> <p>LACAM can undergo homophilic binding to itself as a membrane-bound or shedded form.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>PMID:8898967 </p> <p>PMID:8636223</p> <p>PMID:11553709</p> <p>PMID:10455125</p> <p>PMID:16377081</p> <p>PMID:7613634</p> <p>PMID:1720120</p> <p>L1CAM can interact with a plethora of other proteins, e.g. integrins aVb1, aVb3, aVb5, a5b1, neuropilin-1, CD24, neurocan, and axonin-1/TAX-1.</p> <p>PMID:6368220</p> <p>L1CAM was originally identified in cells of the nervous system</p> <p>PMID:9127006</p> <p>L1CAM expression has been also found in certain populations of hematopoietic cells.</p> <p>PMID:19273627</p> <p>Potential role for L1CAM in transendothelial migration and trafficking of murine dendritic cells. </p> <p>PMID:9864376</p> <p>Furthermore, L1CAM is expressed by renal tubular epithelial cells under physiological conditions being involved in branching of renal tubes in the kidney </p> <p>However, distribution of L1CAM in adults is quite restricted so that its elevated expression in cancerous tissues which is discussed in the next paragraph favours its suitability as therapeutic target in anti-cancer therapy.</p> <p>PMID:19356150</p> <p>PMID:21195665</p> <p>L1CAM expression in tumors can be associated with the activation of several signalling pathways that are known to play a pivotal role in tumor progression e.g. the MAPK/ERK and AKT pathway or FAK-mediated signalling</p> <p>PMID:15716380</p> <p>PMID:17699774</p> <p>PMID:20501702</p> <p>L1CAM is a target gene of b-catenin-TCF signaling in colorectal cancer cells.</p> <p>L1 expression conferred increased cell motility, growth in low serum, transformation and tumorigenesis</p> <p>The transmembrane localization and shedding of L1CAM by metalloproteases, including ADAM10 could be useful for detection and as target for colon cancer therapy.</p> <p>Expression of L1CAM and ADAM10 in human colon cancer cells induces metastasis. NFkB signaling and ezrin are essential for L1CAM-mediated metastasis of colon cancer cells.</p> <p>PMID:21123622</p> <p>Gavert and al. showed that L1CAM-mediated colon cancer cell metastasis does not require changes in EMT and cancer stem cell markers.</p> <p>BUT in other context,</p> <p>PMID:19435915</p> <p>PMID:21109948</p> <p>Geismann and al. showed that upregulation of L1CAM in pancreatic duct cells is TGFB1- and SNAI2-dependent.</p> <p>Binding of SNAI2 to the L1CAM promoter is essential for TGFB1-induced L1CAM expression in human pancreatic ductal adenocarcinoma cells.</p> <p>TGFB1–mediated L1CAM expression is SMAD independent but requires JNK activation.</p> <p>In the context of the human PDAC (pancreatic ductal epithelial cell) line H6em_c7 which mimics the early steps in PDAC tumorigenesis,TGFB1 induces SNAI2 expression in H6em_c7 cells through JNK activation.</p> <p>THUS, the impact of L1CAM on EMT might be either tumor specific and/or tumor stage dependent.</p> <p>Further studies are required to elaborate whether upregulation of L1CAM is part of the EMT or even the inducing event.</p> <p>If it is the case, elevated cell migration and apoptosis resistance could be abolished by interfering wih TGFB1 signaling or by supression of SNAI2 or L1CAM.</p> <p>PMID:16506207</p> <p>PMID:17952127</p> <p>PMID:21373966</p> <p>Binding of L1CAM to aVb3 or aVb5 seemed to be pivotal for L1CAM-mediated cell migration leading to the activation of Erk1/2 and FAK signalling</p> <p>In carcinoma cell lines, L1 overexpression augments cell motility, tumor growth in mice and induces expression of Erk-dependent genes</p> <p>L1CAM-mediated Erk1/2 activate genes encoding for pro-migratory proteins such as cathepsin-B or b3-integrins were upregulated.</p> <p>A mechanism in the glioma cells context was proposed: upregulated ADAM10 proteolyzes surface L1CAM and the resultant ectodomain of L1CAM increases human glioma cell migration and invasion by binding to integrin receptors, activating FAK, and increasing turnover of focal complexes.</p> <p>Besides its ability to induce Erk1/2 and FAK signalling pathways, L1CAM can also lead to the activation of NF-kB, so that inhibition of NF-kB reduced L1CAM-mediated metastasis of colon cancer cells.</p> <p>PMID:17145883</p> <p>Cell adhesion molecule L1 disrupts E-cadherin-containing adherens junctions and increases B-catenin transcriptional activity, thus increases scattering and motility of MCF7 breast carcinoma cells.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="L1CAM"/> <bbox w="60.0" h="20.0" x="1123.0" y="16228.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa892_emtc_em_sa892"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, 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class="macromolecule" id="s_id_in_sa2746_in_sa2746"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="21867.5" y="3945.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa63_ca_csa63" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB3</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:15187087 </p> <p>αvβ3 Integrin Interacts with the Transforming Growth Factor β (TGFβ) Type II Receptor to Potentiate the Proliferative Effects of TGFβ1 in Living Human Lung Fibroblasts</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa63_ca_csa63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15187087"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4311"/> <clone/> <bbox w="100.0" h="120.0" x="7640.0" y="2560.0"/> <glyph class="macromolecule" id="s_id_ca_sa583_ca_sa583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha V</p> <p>HUGO:ITGAV hgnc_id:HGNC:6150 HGNC:6150 ENTREZ:3685 UNIPROT:P06756</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785</p> <p>Transforming Growth Factor β1 Induces αvβ3 Integrin Expression in Human Lung Fibroblasts via a β3 Integrin-, c-Src-, and p38 MAPK-dependent Pathway*</p> </body> </html> </notes> <label text="ITGAV"/> <clone/> <bbox w="80.0" h="50.0" x="7650.0" y="2565.0"/> <glyph class="unit of information" id="_08579f5a-9c4d-4059-aa65-10dcf035a18a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7667.5" y="2560.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa582_ca_sa582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 3</p> <p>HUGO:ITGB3 hgnc_id:HGNC:6156 HGNC:6156 ENTREZ:3690 UNIPROT:P05106</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785 </p> <p>TGFβ1-induced β3 Integrin Expression Is Dependent on αvβ3 Activation</p> </body> </html> </notes> <label text="ITGB3"/> <clone/> <bbox w="80.0" h="50.0" x="7650.0" y="2625.0"/> <glyph class="unit of information" id="_435d031d-4980-41aa-b821-dd289eb999a8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7667.5" y="2620.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa63_ca_csa65" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB3</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:15187087 </p> <p>αvβ3 Integrin Interacts with the Transforming Growth Factor β (TGFβ) Type II Receptor to Potentiate the Proliferative Effects of TGFβ1 in Living Human Lung Fibroblasts</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa63_ca_csa65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15187087"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4311"/> <clone/> <bbox w="100.0" h="120.0" x="7450.0" y="2770.0"/> <glyph class="macromolecule" id="s_id_ca_sa583_ca_sa602"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha V</p> <p>HUGO:ITGAV hgnc_id:HGNC:6150 HGNC:6150 ENTREZ:3685 UNIPROT:P06756</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785</p> <p>Transforming Growth Factor β1 Induces αvβ3 Integrin Expression in Human Lung Fibroblasts via a β3 Integrin-, c-Src-, and p38 MAPK-dependent Pathway*</p> </body> </html> </notes> <label text="ITGAV"/> <clone/> <bbox w="80.0" h="50.0" x="7460.0" y="2775.0"/> <glyph class="unit of information" id="_a2097e49-0682-4ad3-9102-b0f33bd0210a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7477.5" y="2770.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa582_ca_sa601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 3</p> <p>HUGO:ITGB3 hgnc_id:HGNC:6156 HGNC:6156 ENTREZ:3690 UNIPROT:P05106</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785 </p> <p>TGFβ1-induced β3 Integrin Expression Is Dependent on αvβ3 Activation</p> </body> </html> </notes> <label text="ITGB3"/> <clone/> <bbox w="80.0" h="50.0" x="7460.0" y="2825.0"/> <glyph class="unit of information" id="_1ccc3eef-baeb-4e81-b7b5-c5e26f753b15"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7477.5" y="2820.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa150_akt1_akt2_sa150" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa150_akt1_akt2_sa150"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <bbox w="80.0" h="40.0" x="13546.561" y="21674.0"/> <glyph class="state variable" id="_b0e4443b-011a-428f-b337-9de0a37d411d"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="13536.564" y="21669.0"/> </glyph> <glyph class="state variable" id="_86d73e80-0a82-4f1d-bba5-74c48cfc3d6c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13621.561" y="21709.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa43_in_sa43" compartmentRef="s_id_in_ca15_in_ca15"> <label text="IFI30"/> <bbox w="80.0" h="40.0" x="20033.125" y="6507.5"/> </glyph> <glyph class="source and sink" id="s_id_in_sa334_in_sa334" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa114_degraded"/> <bbox w="30.0" h="30.0" x="15905.0" y="5725.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa846_in_sa846" compartmentRef="s_id_in_ca13_in_ca13"> <label text="SLAMF7"/> <clone/> <bbox w="80.0" h="50.0" x="12490.0" y="1405.0"/> <glyph class="state variable" id="_daae90a0-d45f-48a6-8e4a-553aac15968c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12485.0" y="1425.0"/> </glyph> <glyph class="unit of information" id="_9678cd1e-ec28-40c7-94c9-d0dbc1406a41"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12507.5" y="1400.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa846_in_sa416" compartmentRef="s_id_in_ca13_in_ca13"> <label text="SLAMF7"/> <clone/> <bbox w="80.0" h="50.0" x="22405.0" y="1335.0"/> <glyph class="state variable" id="_321be624-e294-4c97-823a-ee19c18d2ae7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22400.0" y="1355.0"/> </glyph> <glyph class="unit of information" id="_2f080202-a783-41ad-a1e2-116e14c9c8ea"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22422.5" y="1330.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2382_in_sa2382" compartmentRef="s_id_in_ca47_in_ca47"> <label text="MRC1"/> <bbox w="80.0" h="40.0" x="10225.648" y="645.625"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa11_wca1_wca3_csa11" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:CBP*:DVL*:JUN:LEF_TCF*:PYGO*:WRE*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re12(MAP:survival):</p> <p>CBP-and P300-mediated transcription different cell fates</p> <p>PMID:20530697</p> <p>s_wca3_re125(MAP:survival):</p> <p>CBP-mediated transcription effects genes that are involved in stemm cell or progenitor cell maintenance and proliferation</p> <p>PMID:20920541</p> <p>Repressor complex is default present on the enhance of wnt-target genes</p> <p>PMID:16510874</p> <p>s_wca3_re159(MAP:survival):</p> <p>LEF1 has been identified to be involved in transcription of the MIR371-373 cluster. Only unknown if either P300 or CTBP is involved.</p> <p>PMID:22020335</p> <p>s_wca3_re163(MAP:survival):</p> <p>Though not known if this transcription is mediated by CBP in the transcripoition complex could be otherwise P300</p> <p>PMID:23296977</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa11_wca1_wca3_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20920541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22020335"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23296977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:CBP*:DVL*:JUN:LEF_TCF*:PYGO*:WRE*:β-Catenin*"/> <bbox w="212.0" h="250.0" x="21752.936" y="22170.125"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa87_wca1_wca3_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CREB binding protein</p> <p>HUGO:CREBBP HGNC:2348 ENTREZ:1387 UNIPROT:Q92793 GENECARDS:CREBBP REACTOME:51510 KEGG:1387 ATLASONC:CBPID42 WIKI:CREBBP </p> <p>cAMP responsive element binding protein 3</p> <p>HUGO:CREB3 HGNC:2347 ENTREZ:10488 UNIPROT:O43889 GENECARDS:CREB3 KEGG:10488 ATLASONC:GC_CREB3 WIKI:CREB3 </p> <p>cAMP responsive element binding protein 5</p> <p>HUGO:CREB5 HGNC:16844 ENTREZ:9586 UNIPROT:Q02930 GENECARDS:CREB5 KEGG:9586 WIKI:CREB5 </p> <p>CBP KAT3A RTS</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:E2F1, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17565603</p> <p>PMID:15337521</p> </body> </html> </notes> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="21862.56" y="22180.375"/> <glyph class="state variable" id="_0d53a2fb-3ee0-4c86-b96d-038f2ac011c1"> <state value="P" variable="S92"/> <bbox w="30.0" h="10.0" x="21848.053" y="22175.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa83_wca1_wca3_sa83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21863.936" y="22218.125"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa479_wca1_wca3_sa479"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21862.06" y="22310.5"/> <glyph class="state variable" id="_5402fb4a-c1e8-40af-95c5-8d2c4c974a78"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21937.06" y="22305.5"/> </glyph> <glyph class="state variable" id="_e7fd17a2-cfd0-403c-a3c7-f3c41c9fd460"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="21847.06" y="22345.22"/> </glyph> <glyph class="state variable" id="_a4abe8fe-26f9-4092-bcd2-b30f620ca3a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21857.064" y="22305.5"/> </glyph> <glyph class="state variable" id="_92a604dd-4100-4d1b-9926-4686e350f735"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="21926.441" y="22345.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa478_wca1_wca3_sa478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="21862.06" y="22267.5"/> <glyph class="state variable" id="_8355d634-e2dc-40de-801d-e11c13155b7f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21854.564" y="22262.5"/> </glyph> <glyph class="state variable" id="_ddef5a1f-8c69-4c1b-8e70-265c68fca518"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21854.564" y="22302.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa82_wca1_wca3_sa82"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21770.936" y="22220.125"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa84_wca1_wca3_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21770.936" y="22260.125"/> <glyph class="state variable" id="_92156f30-627a-4184-9dec-976bc2e3f9cd"> <state value="" variable="S33"/> <bbox w="25.0" h="10.0" x="21798.467" y="22255.125"/> </glyph> <glyph class="state variable" id="_b20272fa-bee7-44dd-baba-b8dff9c09536"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21758.928" y="22255.125"/> </glyph> <glyph class="state variable" id="_356221ba-a3f1-4102-952d-8da99271fed0"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21758.436" y="22294.846"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="21776.186" y="22355.625"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa85_wca1_wca3_sa85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> 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class="simple chemical" id="s_id_rc_sa2015_rc_sa2015" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:37737 KEGGCOMPOUND:C03090</p> </body> </html> </notes> <label text="ribosylamine-5P"/> <bbox w="135.0" h="23.0" x="18961.56" y="11547.75"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa66_mo_sa66" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Profilin 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa66_mo_sa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Profilin*"/> <bbox w="80.0" h="40.0" x="6379.0" y="9216.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa5288_rc_sa5288" compartmentRef="s_id_rc_ca49_rc_ca49"> <label text="rc_s7835"/> <bbox w="30.0" h="30.0" x="27539.06" y="10204.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa964_rc_sa964" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa964_rc_sa964"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XIAP"/> <clone/> <bbox w="70.0" h="25.0" x="24226.307" y="16300.767"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa964_rc_sa4849" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa964_rc_sa4849"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XIAP"/> <clone/> <bbox w="70.0" h="25.0" x="27356.326" y="16142.5"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa17_shh1_shh2_sa17" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re114:(MAP:survival) PMID:18379348</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa17_shh1_shh2_sa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18379348"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Apoptosis"/> <clone/> <bbox w="80.0" h="30.0" x="26900.06" y="20541.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa17_wnc1_wnc4_sa36" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re114:(MAP:survival) PMID:18379348</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa17_wnc1_wnc4_sa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18379348"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Apoptosis"/> <clone/> <bbox w="80.0" h="30.0" x="18829.06" y="21477.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa17_wca1_wca3_sa404" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re114:(MAP:survival) PMID:18379348</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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necessary The immunological synapse (A.Kupfer and M. 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<title/> </head> <body>ferritin, heavy polypeptide 1Map modules:MODULE:FERROPTOSIS, MODULE:NECROPTOSIS ----- content merged by Celldesigner to SBGN-ML translation ------ ferritin, heavy polypeptide 1Map modules:MODULE:FERROPTOSIS, MODULE:NECROPTOSIS </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5334_rc_sa5334"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IREB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IREB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IREB2"/> <bbox w="70.0" h="25.0" x="25524.06" y="16556.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa108_rc_csa108" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NFE2L2:small~MAF*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="NFE2L2:small_Maf"/> <bbox w="100.0" h="120.0" x="24871.56" y="16524.0"/> <glyph class="macromolecule" id="s_id_rc_sa1240_rc_sa1240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor (erythroid-derived 2)-like 2</p> <p>HUGO:NFE2L2 HGNC:7782 ENTREZ:4780 UNIPROT:Q16236</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:23850759</p> <p>NOTE: * means activated form</p> </body> </html> </notes> <label text="NFE2L2"/> <bbox w="80.0" h="40.0" x="24876.56" y="16537.0"/> <glyph class="state variable" id="_d06fd596-edb1-477b-8d54-b7a0182024e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24894.992" y="16532.0"/> </glyph> <glyph class="state variable" id="_6083487d-e688-4a8b-9c54-d3fc32612b7b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24928.129" y="16532.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1241_rc_sa1241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog K (avian)</p> <p>HUGO:MAFK HGNC:6782 ENTREZ:7975 UNIPROT:O60675 </p> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian)</p> <p>HUGO:MAFG HGNC:6781 ENTREZ:4097 UNIPROT:O15525</p> <p>Map modules:</p> <p>MODULE:RCD_GENES, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>genetic entity</p> </body> </html> </notes> <label text="small~MAF*"/> <bbox w="80.0" h="40.0" x="24878.56" y="16586.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa145_te_sa145" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>resected telomeric DNAModules_begin:MODULE:ReplicationModules_endPMID: ----- content merged by Celldesigner to SBGN-ML translation ------ resected telomeric DNAModules_begin:MODULE:ReplicationModules_endPMID: </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa145_te_sa145"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Resected_telomeric_DNA*"/> <bbox w="159.0" h="22.0" x="2678.56" y="21973.75"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa261_an_sa261" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa261_an_sa261"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD36"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD36"/> <bbox w="80.0" h="50.0" x="4132.0" y="6160.0"/> <glyph class="unit of information" id="_43e96ec4-5611-46ca-bc5a-c5e4344b3366"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4149.5" y="6155.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa128_wca1_wca2_sa128" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa128_wca1_wca2_sa128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA3"/> <bbox w="80.0" h="40.0" x="23163.06" y="18391.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa99_mo_sa99" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0catenin (cadherin-associated protein), delta 1 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0catenin (cadherin-associated protein), delta 1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa99_mo_sa99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="γ-catenin*"/> <bbox w="70.0" h="25.0" x="2736.0" y="10369.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa174_shh1_shh2_sa174" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa174_shh1_shh2_sa174"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="26980.56" y="21773.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa3298_rc_sa3298" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s1791"/> <bbox w="30.0" h="30.0" x="23216.56" y="10609.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa541_in_sa541" compartmentRef="s_id_in_ca12_in_ca12"> <label text="EIF4E"/> <bbox w="80.0" h="40.0" x="18735.0" y="4275.0"/> <glyph class="state variable" id="_593003d8-fa0a-467b-bfb2-7082e41d2b64"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18730.0" y="4290.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1183_rc_sa1183" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> </body> </html> </notes> <label text="O2"/> <bbox w="70.0" h="25.0" x="23566.56" y="16711.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2608_rc_sa2608" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17561 KEGGCOMPOUND:C00097 CAS:52-90-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2608_rc_sa2608"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-cysteine"/> <clone/> <bbox w="70.0" h="25.0" x="26300.06" y="9638.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2608_rc_sa5314" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17561 KEGGCOMPOUND:C00097 CAS:52-90-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2608_rc_sa5314"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-cysteine"/> <clone/> <bbox w="70.0" h="25.0" x="26521.56" y="10117.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2608_rc_sa5317" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17561 KEGGCOMPOUND:C00097 CAS:52-90-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2608_rc_sa5317"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-cysteine"/> <clone/> <bbox w="70.0" h="25.0" x="26314.06" y="9391.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2608_rc_sa5316" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17561 KEGGCOMPOUND:C00097 CAS:52-90-4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2608_rc_sa5316"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-cysteine"/> <clone/> <bbox w="70.0" h="25.0" x="26394.06" y="9391.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4674_rc_sa4674" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4674_rc_sa4674"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG16L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG16L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG16*"/> <bbox w="70.0" h="25.0" x="24572.56" y="16213.5"/> </glyph> <glyph class="phenotype" id="s_id_ad_sa485_ad_sa485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>PMID:20439993</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa485_ad_sa485"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20439993"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Granules exocytosis"/> <bbox w="160.0" h="45.0" x="29336.0" y="8747.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa46_emtc_em_csa46" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Latency-associated protein*:TGFB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>Each TGFB gene encodes a preproprotein sequence consisting of a signal peptide, a propeptide (LAP) and the mature TGFB</p> <p>After translocation into the endoplamic reticulum, TGFB proprotein monomers form homomdimers liked by disulfide bonds, forming pro-TGFB</p> <p>In the Golgi, the prodomains undergo glycosylation.</p> <p>Also in the Golgi, FURIN hydolyzes the leavage site from LAP, creating TGFB and LAP-derived homodimers</p> <p>The 2 homodimers remain noncovalently associated and are secreted.</p> <p>The LAP-derived homodimer prevents TGFB from binding TGFB receptors.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="40.0" h="20.0" x="1035.0" y="18644.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa417_emtc_em_sa417"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="170.0" h="19.0" x="973.5" y="18625.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3691_rc_sa3691" 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<head> <title/> </head> <body>Charge: 0SRY (sex determining region Y)-box 4 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0SRY (sex determining region Y)-box 4 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa294_mo_sa294"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX4"/> </rdf:Bag> 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id="s_id_rc_sa3581_rc_sa3581" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3581_rc_sa3581"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BACH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BACH1"/> <clone/> <bbox w="80.0" h="40.0" x="24721.56" y="16504.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3581_rc_sa2327" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> 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class="macromolecule" id="s_id_mo_sa434_mo_sa434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ADP ribosylation factor 1 </p> </body> </html> </notes> <label text="ARF1"/> <bbox w="80.0" h="40.0" x="5079.0" y="12063.0"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa435_mo_sa435"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="5083.0" y="12105.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa31_mo_csa31" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="EIF4E:4EBP1"/> <bbox w="100.0" h="120.0" x="3194.0" y="10113.0"/> <glyph class="macromolecule" id="s_id_mo_sa443_mo_sa443"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:EIF4E</p> </body> </html> </notes> <label text="EIF4E"/> <bbox w="80.0" h="40.0" x="3204.0" y="10123.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa444_mo_sa444"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:EIF4EBP1</p> </body> </html> </notes> <label text="4E-BP1"/> <bbox w="80.0" h="40.0" x="3204.0" y="10173.0"/> <glyph class="state variable" id="_188f4e86-91dc-4776-b666-5cff736223ee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3255.5686" y="10168.0"/> </glyph> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa21_wca1_wca4_sa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT5A"/> <bbox w="70.0" h="25.0" x="23609.06" y="22653.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa113_rc_sa113" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa113_rc_sa113"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MCL1"/> <bbox w="80.0" h="40.0" x="22199.209" y="14521.0"/> <glyph class="state variable" id="_9fd739c4-9c83-40ce-b653-647d71d4effa"> <state value="P" variable="S159"/> <bbox w="35.0" h="10.0" x="22200.373" y="14516.0"/> </glyph> <glyph class="state variable" id="_252d6345-9bf0-4753-a204-213225da7d5e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="22249.203" y="14516.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa31_shh1_shh1_csa31" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re61:(MAP:survival) PMID:16611981</p> <p>s_shh1_re64(MAP:survival):</p> <p>PMID:16611981</p> <p>PMID:16651270</p> <p>Gli2 ubi by bTrCP2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa31_shh1_shh1_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16611981"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16611981"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16651270"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gli2-185_SUFU_ULK3"/> <bbox w="196.0" h="150.0" x="26327.56" y="18450.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa220_shh1_shh1_sa220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" 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GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Unc-51-like kinase</p> </body> </html> </notes> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="26428.31" y="18478.0"/> <glyph class="state variable" id="_c5922506-1d87-48d3-8e8f-1769e9665c6a"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26413.803" y="18473.0"/> </glyph> <glyph class="state variable" id="_517d52d4-3701-4178-9596-fe08b5591204"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26492.691" y="18513.0"/> </glyph> <glyph class="state variable" id="_d5eeaa13-4631-4024-800f-29465d380149"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="26413.31" y="18512.72"/> </glyph> <glyph class="state variable" id="_b6d9e78d-8fb9-476c-b62f-5cee33a3ce1f"> <state value="" variable="S350"/> <bbox w="30.0" h="10.0" x="26493.31" y="18473.213"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa201_rc_csa201" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2A1:PMAIP1</p> </body> </html> </notes> <label text="BCL2A1:PMAIP1"/> <bbox w="102.0" h="124.0" x="21817.31" y="14205.0"/> <glyph class="macromolecule" id="s_id_rc_sa1646_rc_sa1646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-related protein A1</p> <p>HUGO:BCL2A1 HGNC:991 ENTREZ:597 UNIPROT:Q16548</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="BCL2A1"/> <bbox w="80.0" h="40.0" x="21824.56" y="14215.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1647_rc_sa1647"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phorbol-12-myristate-13-acetate-induced protein 1</p> <p>HUGO:PMAIP1 HGNC:9108 ENTREZ:5366 UNIPROT:Q13794</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:NOXA</p> </body> </html> </notes> <label text="PMAIP1"/> <bbox w="80.0" h="40.0" x="21825.31" y="14260.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1106_ce_sa1106" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1106_ce_sa1106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Menin*"/> <bbox w="80.0" h="40.0" x="11324.77" y="10427.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2196_rc_sa2196" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:9905 KEGGCOMPOUND:C01051 CAS:1976-85-8</p> </body> </html> </notes> <label text="uroporphyrinogen III"/> <bbox w="140.0" h="26.0" x="17769.06" y="13043.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3093_rc_sa3093" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16284</p> </body> </html> </notes> <label text="(d)ATP"/> <bbox w="70.0" h="25.0" x="24135.123" y="14774.875"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3692_rc_sa3692" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3692_rc_sa3692"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMPD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMPD3"/> <bbox w="80.0" 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id="s_id_wca1_wca3_csa26_wca1_wca3_csa26" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LEF1:MI34*</p> <p>References:</p> <p>s_wca3_re49:(MAP:survival) PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa26_wca1_wca3_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LEF1:MI34*"/> <bbox w="100.0" h="120.0" x="21046.06" y="22131.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa180_wca1_wca3_sa180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL, MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1</p> <p>Map modules:</p> </body> </html> </notes> <label text="LEF1"/> <bbox w="90.0" h="25.0" x="21052.06" y="22167.5"/> <glyph class="unit of information" id="_dd8a9246-c12a-4561-9a97-0bda7ad114ea"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21087.06" y="22162.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa181_wca1_wca3_sa181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Its the miR34 family depcited here</p> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MI34*"/> <bbox w="90.0" h="25.0" x="21052.06" y="22194.0"/> <glyph class="unit of information" id="_df2e1482-94f3-4c2b-8a90-8816d12d31f2"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21082.06" y="22189.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2853_in_sa2853" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD14"/> <clone/> <bbox w="80.0" h="40.0" x="10543.75" y="132.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2853_in_sa2830" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD14"/> <clone/> <bbox w="80.0" h="40.0" x="9470.219" y="603.03125"/> 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<p>HUGO:NOTCH1 HGNC:7881 ENTREZ:4851 UNIPROT:P46531</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> <p>References:</p> <p>proteolytically activated NOTCH1</p> </body> </html> </notes> <label text="N1ICD*"/> <bbox w="80.0" h="40.0" x="23121.56" y="16524.0"/> <glyph class="unit of information" id="_8a19087c-09b5-4c89-bc17-402e2ae30d3f"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23136.56" y="16519.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1273_rc_sa1273"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>YY1 transcription factor</p> <p>HUGO:YY1 HGNC:12856 ENTREZ:7528 UNIPROT:P25490</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="YY1"/> <bbox w="80.0" h="40.0" x="23121.56" y="16564.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa506_akt1_akt1_sa506" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa506_akt1_akt1_sa506"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8*"/> <clone/> <bbox w="80.0" h="40.0" x="12985.061" y="19603.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa506_wnc1_wnc4_sa122" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa506_wnc1_wnc4_sa122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8*"/> <clone/> <bbox w="80.0" h="40.0" x="18195.06" y="20708.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa965_ad_sa965" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:17462996</p> <p>Following TCR ligation, a small portion of total cellular caspase-8 and c-FLIP(L) rapidly migrate to lipid rafts where they associate in an active caspase complex. Activation of caspase-8 in lipid rafts is followed by rapid cleavage of c-FLIP(L) at a known caspase-8 cleavage site. The active caspase.c-FLIP complex forms in the absence of Fas (CD95/APO1) and associates with the NF-kappaB signaling molecules RIP1, TRAF2, and TRAF6, as well as upstream NF-kappaB regulators PKC theta, CARMA1, Bcl-10, and MALT1, which connect to the TCR.</p> <p>PMID:19392652 </p> <p>Siva-1 promotes K-48 polyubiquitination of TRAF2 and inhibits TCR-mediated activation of NF-kappaB.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa965_ad_sa965"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17462996"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19392652"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="28836.0" y="4565.0"/> <glyph class="state variable" id="_1454921f-f436-47ec-9f8f-9c56007f71f7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28831.0" y="4580.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa307_em_csa307" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DNM2:GDP</p> <p>Map modules:</p> <p>References:</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>DNM2 induces E-cadherin internalisation</p> <p>- Promoting cytokinesis and chromosome stability thanks to NDPKA</p> <p> Loss of NDPK-A is linked to cytokinesis failure and tetraploidy</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_csa307_em_csa307"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNM2_GDP"/> <bbox w="100.0" h="120.0" x="1123.0" y="13717.0"/> <glyph class="macromolecule" id="s_id_em_sa1989_em_sa1989"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS , MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>DNM2 induces E-cadherin internalisation</p> <p>- Promoting cytokinesis and chromosome stability thanks to NDPKA</p> <p> Loss of NDPK-A is linked to cytokinesis failure and tetraploidy</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="DNM2"/> <bbox w="80.0" h="40.0" x="1133.0" y="13737.0"/> </glyph> <glyph class="simple chemical" id="s_id_em_sa1990_em_sa1990"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="1138.0" y="13764.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa998_in_sa998" compartmentRef="s_id_in_ca13_in_ca13"> <label text="IL13RA1"/> <clone/> <bbox w="80.0" h="50.0" x="8930.0" y="4420.0"/> <glyph class="state variable" id="_cfdadcd4-47c2-4205-9565-1a0281f0c22d"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EIF4A*:PDCD4</p> <p>References:</p> <p>s_akt1_re73:(MAP:survival) PMID:17053147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa45_akt1_akt1_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17053147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF4A*:PDCD4"/> <bbox w="100.0" h="120.0" x="12777.561" y="19469.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa250_akt1_akt1_sa250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4A1</p> <p>HUGO:EIF4A1 HGNC:3282 ENTREZ:1973 UNIPROT:P60842 GENECARDS:EIF4A1 REACTOME:72572 KEGG:1973 ATLASONC:GC_EIF4A1 WIKI:EIF4A1 </p> <p>eukaryotic translation initiation factor 4A2</p> <p>HUGO:EIF4A2 HGNC:3284 ENTREZ:1974 UNIPROT:Q14240 GENECARDS:EIF4A2 REACTOME:72574 KEGG:1974 ATLASONC:EIF4A2ID262 WIKI:EIF4A2 </p> <p>eukaryotic translation initiation factor 4A3</p> <p>HUGO:EIF4A3 HGNC:18683 ENTREZ:9775 UNIPROT:P38919 GENECARDS:EIF4A3 REACTOME:57148 KEGG:9775 ATLASONC:GC_EIF4A3 WIKI:EIF4A3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12867079</p> </body> </html> </notes> <label text="EIF4A*"/> <bbox w="80.0" h="40.0" x="12788.561" y="19523.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa249_akt1_akt1_sa249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>programmed cell death 4 (neoplastic transformation inhibitor)</p> <p>HUGO:PDCD4 HGNC:8763 ENTREZ:27250 UNIPROT:Q53EL6 GENECARDS:PDCD4 KEGG:27250 ATLASONC:PDCD4ID41675ch10q24 WIKI:PDCD4</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17053147</p> </body> </html> </notes> <label text="PDCD4"/> <bbox w="80.0" h="40.0" x="12787.561" y="19483.5"/> <glyph class="state variable" id="_ffe82667-7c83-4af4-85d0-5cf4a6ec121b"> <state value="P" variable="S67"/> <bbox w="30.0" h="10.0" x="12811.792" y="19478.5"/> </glyph> <glyph class="state variable" id="_eb7270c0-f1bf-40e1-b38c-56fedd449206"> <state value="" variable=""/> <bbox w="10.0" 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rdf:about="#s_id_mo_sa6_mo_sa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EZR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EZR"/> <clone/> <bbox w="80.0" h="40.0" x="3403.5" y="9182.5"/> <glyph class="state variable" id="_1eecde09-8691-481e-98f6-c3d2b4792fc5"> <state value="P" variable="Thr 567"/> <bbox w="50.0" h="10.0" x="3435.4492" y="9177.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2370_in_sa2370" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 1431106, 19732719, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:MIF, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:CSF2, CASCADE:CSF1, CASCADE:IFNGPMID:19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)References:PMID:1431106TNF is ploinfammatory cytokine inducedtumoricidal activity of macrophagesPMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23 ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 1431106, 19732719, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:MIF, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:CSF2, CASCADE:CSF1, CASCADE:IFNGPMID:19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)References:PMID:1431106TNF is ploinfammatory cytokine inducedtumoricidal activity of macrophagesPMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2370_in_sa2370"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1431106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19732719"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23390297"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <bbox w="125.0" h="63.0" x="20963.75" y="5533.75"/> <glyph class="unit of information" id="_c6fd2910-12a8-4e44-86ff-1b0d26464147"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21016.25" y="5528.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa233_emtc_em_csa233" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:NCK1:RAC1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:12181570</p> <p>Rac1 binds to NCKAP1 and CYFIP2 and also promotes NCK1 binding to NCKAP1.</p> <p>This binding inhibits NCKAP1 and CYFIP2 binding to WASF1 and promotes release of the complex of WASF1 and BRK1, thus activating WASF1.</p> <p>Activated WASF1 then stimulates ARP2/3 that mediates actin cytoskeletal polymerizatioin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa233_emtc_em_csa233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12181570"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCK1/RAC1"/> <bbox w="85.0" h="73.0" x="6471.0" y="14660.5"/> <glyph class="simple chemical" id="s_id_em_sa2175_em_sa2175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6478.2" y="14663.6"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1506_emtc_em_sa1506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NCK adaptor protein 1</p> <p>HUGO:NCK1 HGNC:7664 ENTREZ:4690 UNIPROT:P16333</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NCK1"/> <bbox w="37.0" h="18.0" x="6503.5" y="14697.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1505_emtc_em_sa1505"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="42.0" h="18.0" x="6501.0" y="14681.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa235_emtc_em_csa235" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC42:GDP</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDC42_GDP"/> <bbox w="76.0" h="62.0" x="6542.0" y="14459.5"/> <glyph class="simple chemical" id="s_id_emtc_em_sa1523_emtc_em_sa1523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="35.0" h="17.0" x="6561.0" y="14486.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa931_emtc_em_sa931"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 42</p> <p>HUGO:CDC42, HGNC:1736, ENTREZ:998, UNIPROT:P60953, GENECARDS:GC01P022379</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 is a member of the RAS superfamily of small GTPases and plays an essential role in control of cell polarity, actin cytoskeleton rearrangements, protein traffickinf and directed cell movements.</p> <p>PMID:10934474</p> <p>PMID:11248548</p> <p>PMID:11340065</p> <p>PMID:15003621</p> <p>CDC42 and cell polarity:</p> <p>PMID:15020669</p> <p>CDC42 functions in vivo:</p> <p>PMID:18719708</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDC42"/> <bbox w="45.0" h="19.0" x="6561.5" y="14467.0"/> <glyph class="state variable" id="_1fd98305-78ce-461f-a055-34e89fea4b14"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6601.5" y="14462.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa24_rc_csa24" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:AIFM1:FAD</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="AIFM1"/> <bbox w="100.0" h="120.0" x="18928.25" y="13579.777"/> <glyph class="macromolecule" id="s_id_rc_sa329_rc_sa329"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptosis-inducing factor, mitochondrion-associated, 1</p> <p>HUGO:AIFM1 HGNC:8768 ENTREZ:9131 UNIPROT:O95831</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:RCD_GENES, MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:AIF</p> <p>NOTE: * means carbonylated</p> <p>PMID:24684389</p> <p>There is a small pool of AIF on the outer mitochondrial membrane (cytosolic side)</p> </body> </html> </notes> <label text="AIFM1"/> <bbox w="80.0" h="40.0" x="18939.25" y="13594.777"/> <glyph class="state variable" id="_af10ec66-1f32-43d6-882d-3960b0cce8aa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18975.688" y="13589.777"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa328_rc_sa328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16238</p> <p>KEGGCOMPOUND:C00016</p> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="18937.25" y="13646.777"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa6_wnc1_wnc1_csa6" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:G_alpha__sub_13q_endsub_*:_beta_-Arrestin*</p> <p>References:</p> <p>s_wnc1_re11:(MAP:survival) PMID:20223821</p> <p>s_wnc1_re16(MAP:survival):</p> <p>It is possible that the signalling downstream occurs as for the canonical MODULE</p> <p>PMID:20223821</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa6_wnc1_wnc1_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20223821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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<p>arrestin, beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>arrestin, beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2</p> <p>Map modules:</p> </body> </html> </notes> <label text="β-Arrestin*"/> <bbox w="80.0" h="40.0" x="14999.561" y="18040.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa42_wnc1_wnc1_sa42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2515_emtc_em_sa2515"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL3A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COL3A1"/> <bbox w="59.0" h="19.0" x="5448.0" y="18533.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa651_ad_sa651" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>CHEBI:15996, 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<title/> </head> <body> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>MODULE:INHIBITING_CHECKPOINTS, MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="GTP"/> <clone/> <bbox w="70.0" h="25.0" x="27361.0" y="2657.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa680_ad_sa680" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:CD226</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa680_ad_sa680"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10811803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12640133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26552706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRB2"/> <clone/> <bbox w="80.0" h="40.0" x="29006.0" y="3540.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa680_ad_sa1242" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:CD226</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa680_ad_sa1242"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10811803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12640133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26552706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRB2"/> <clone/> <bbox w="80.0" h="40.0" x="29006.0" y="3460.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa214_rc_csa214" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAD:BCL2</p> </body> </html> </notes> <label text="BAD:BCL2"/> <bbox w="98.0" h="122.0" x="23180.06" y="13148.0"/> <glyph class="macromolecule" id="s_id_rc_sa1673_rc_sa1673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>there are at least 2 isoforms of BAD. Here, protein BAD refers to any of the different isoforms. Numbering of amino-acids, used for phosphorylation sites, are adjusted to the 'canonical' isoform as defined in Uniprot. This lead to choosing different isoforms for different organisms.</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="23190.06" y="13157.333"/> <glyph class="state variable" id="_c254da89-362c-4a75-b76e-f1e16b2f62bc"> <state value="?" variable="S91"/> <bbox w="30.0" h="10.0" x="23232.01" y="13152.333"/> </glyph> <glyph class="state variable" id="_db6bc194-29a9-4fc4-b942-3d33a478d51e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23208.656" y="13152.333"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1672_rc_sa1672"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1436_rc_sa1436"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase9*"/> <bbox w="80.0" h="40.0" x="24749.06" y="14087.0"/> <glyph class="state variable" id="_1ebf927f-99ba-4c71-a581-3ad7bfa4f631"> <state value="?" variable="S196"/> <bbox w="35.0" h="10.0" x="24788.51" y="14082.0"/> </glyph> <glyph class="state variable" id="_51549ede-66cf-4e89-aaf0-2ebc476e3ab0"> <state value="?" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4984_rc_sa4984"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PADI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PADI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDI*"/> <bbox w="70.0" h="25.0" x="27044.06" y="16126.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa76_emtc_em_csa76" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA1:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa76_emtc_em_csa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a1b1*"/> <bbox w="40.0" h="60.0" x="4075.5" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa557_emtc_em_sa557"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 1</p> <p>HUGO:ITGA1 HGNC:6134 ENTREZ:3672 UNIPROT:P56199</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA1"/> <bbox w="40.0" h="20.0" x="4075.5" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa555_emtc_em_sa555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4075.5" y="18035.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa261_shh1_shh2_sa261" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa261_shh1_shh2_sa261"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTGF"/> <bbox w="90.0" h="25.0" x="27315.06" y="21939.5"/> <glyph class="unit of information" id="_8cef2549-5c2d-4b48-bc19-f3440659a9ab"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27350.06" y="21934.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa246_rc_csa246" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:XIAP:cleaved~GSPT1*</p> </body> </html> </notes> <label text="GSPT1:XIAP"/> <bbox w="100.0" h="130.0" x="24969.06" y="11959.0"/> <glyph class="macromolecule" id="s_id_rc_sa1857_rc_sa1857"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24979.06" y="12019.0"/> <glyph class="state variable" id="_4370d977-e641-423f-8cc6-9ca0b3259b31"> <state value="?" variable="S87"/> <bbox w="30.0" h="10.0" x="25021.01" y="12014.0"/> </glyph> <glyph class="state variable" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4892_rc_sa4892"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PMAIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PMAIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOXA*"/> <bbox w="90.0" h="25.0" x="28096.326" y="16041.5"/> <glyph class="unit of information" id="_143bcac0-cb1d-4531-9979-a9aae74ef59c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28131.326" y="16036.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa3_wca1_wca3_csa3" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:DVL*:JUN:LEF_TCF*:PYGO*:WRE*:_beta_-Catenin*:p300*</p> <p>References:</p> <p>s_wca3_re6(MAP:survival):</p> <p>PMID:16169192</p> <p>B-catenin competes with TLE for Lef-1</p> <p>PMID:15768032</p> <p>CBP-and P300-mediated transcription different cell fates</p> <p>PMID:20530697</p> <p>(phosphorylated) C-JUN can bind to TCF4</p> <p>PMID:18347071 PMID:16007074</p> <p>s_wca3_re7(MAP:survival):</p> <p>The transcription complex containing P300 initiates transcription of genes that are involved in differentiation.</p> <p>PMID:20920541</p> <p>The repressor complex is is by default present on the enhancers of wnt-target genes</p> <p>PMID:16510874</p> <p>s_wca3_re65(MAP:survival):</p> <p>PMID:22761862</p> <p>Smad1 alone inhibits myc expression while b-catenin/TCF4 activates gene expression. Highest gene expression obtained when SMAD1/b-catenin/TCF4 complex is formed</p> <p>PMID:15576399</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> <p>s_wca3_re154(MAP:survival):</p> <p>SOX9</p> <p>PMID:23306204</p> <p>p300 transcription complex</p> <p>PMID:15806138</p> <p>WNT-target gene:</p> <p>PMID:20122174</p> <p>s_wca3_re155(MAP:survival):</p> <p>Transcription complex containing b-catenin and P300</p> <p>PMID:17050667 PMID:21767405</p> <p>RAD6B is overexpressed in breast cancer</p> <p>PMID:11929833</p> <p>RAD6B upregulated in invasive breast cancer</p> <p>PMID:22705350</p> <p>s_wca3_re157(MAP:survival):</p> <p>BCL9 is a target gene of the wnt pathway.</p> <p>PMID:18627596</p> <p>However not known which transcription complex is involved either with CBP or P300. I have chosen this complex randomly</p> <p>s_wca3_re166(MAP:survival):</p> <p>Not known if P300 transcription complex mediates this trancription either it is CBP transcription complex</p> <p>PMID:17291450</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa3_wca1_wca3_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16169192"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15768032"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16007074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20920541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15576399"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23306204"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15806138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20122174"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17050667"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21767405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11929833"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22705350"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18627596"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17291450"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:DVL*:JUN:LEF_TCF*:PYGO*:WRE*:β-Catenin*:p300*"/> <bbox w="121.0" h="384.0" x="21609.56" y="21775.125"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa21_wca1_wca3_sa21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> <p>PMID:21285352</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="21632.873" y="21952.625"/> <glyph class="state variable" id="_3c9752e4-f2d4-44a3-9815-670306c33942"> <state value="" variable="S166"/> <bbox w="30.0" h="10.0" x="21618.365" y="21947.625"/> </glyph> <glyph class="state variable" id="_e2abe7a7-fd95-4080-9297-f0de61ee69b7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21707.873" y="21948.502"/> </glyph> <glyph class="state variable" id="_52ae53eb-780b-4190-902f-a0e5fb4ad104"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="21700.373" y="21984.24"/> </glyph> <glyph class="state variable" id="_31774a15-1511-4080-bc8c-d472b81f30a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21707.873" y="21967.625"/> </glyph> <glyph class="state variable" id="_8b4ce728-0fba-4f12-87d6-579e3e17e391"> <state value="" variable="T155"/> <bbox w="30.0" h="10.0" x="21617.873" y="21987.346"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa481_wca1_wca3_sa481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21631.06" y="22072.5"/> <glyph class="state variable" id="_6e38bdaf-6317-4dd5-9d3e-29325dc8091d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21706.06" y="22067.5"/> </glyph> <glyph class="state variable" id="_c957700f-d959-48c5-8261-5a77e2d16b4d"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="21616.06" y="22107.22"/> </glyph> <glyph class="state variable" id="_3d29c464-207a-4b3c-8dbe-fc64316d1160"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21626.064" y="22067.5"/> </glyph> <glyph class="state variable" id="_e02a5b0f-76e6-4d81-8341-c75662dcd6b7"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="21695.441" y="22107.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa22_wca1_wca3_sa22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="21637.373" y="21997.625"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa480_wca1_wca3_sa480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="21631.06" y="22027.5"/> <glyph class="state variable" id="_d1f57403-95db-43fe-a04a-8efe54df4037"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21623.564" y="22022.5"/> </glyph> <glyph class="state variable" id="_01c779db-91ce-483d-8255-bc2871f28b7e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21623.564" y="22062.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa18_wca1_wca3_sa18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21633.123" y="21867.125"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa20_wca1_wca3_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21633.373" y="21907.125"/> <glyph class="state variable" id="_cf683829-7271-44da-8d5d-893a7af22dba"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21621.365" y="21902.125"/> </glyph> <glyph class="state variable" id="_fcae7069-47e8-4d30-b8bc-8e9c2343130c"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21620.873" y="21941.846"/> </glyph> <glyph class="state variable" id="_e925a6c4-55b0-4b16-82c5-c1290e7b4dbe"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21698.373" y="21902.338"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21633.123" y="21827.125"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa73_wca1_wca3_sa73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="21632.936" y="21789.375"/> </glyph> </glyph> <glyph class="nucleic acid 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</body> </html> </notes> <label text="AIFM1:HSP70"/> <bbox w="110.0" h="120.0" x="24124.06" y="12169.0"/> <glyph class="macromolecule" id="s_id_rc_sa1958_rc_sa1958"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptosis-inducing factor, mitochondrion-associated, 1</p> <p>HUGO:AIFM1 HGNC:8768 ENTREZ:9131 UNIPROT:O95831</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PARTHANATOS</p> <p>References:</p> <p>PMID:21887410</p> </body> </html> </notes> <label text="cleaved~AIFM1*"/> <bbox w="80.0" h="40.0" x="24142.06" y="12178.0"/> <glyph class="state variable" id="_45219cf9-975d-4024-a2a9-e13af3809ace"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24193.629" y="12173.0"/> </glyph> <glyph class="unit of information" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa698_ca_sa698"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIF"/> <bbox w="80.0" h="40.0" x="470.0" y="3321.5"/> </glyph> <glyph class="complex" id="s_id_ad_csa79_ad_csa79" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. Activated Calcineurin dephosphorylates Nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 2 ( NF-AT1(NFATC2) ). </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa79_ad_csa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10089876"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7650486"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9973469"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s1822"/> <bbox w="100.0" h="120.0" x="27696.0" y="5605.0"/> <glyph class="macromolecule" id="s_id_ad_sa709_ad_sa709"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, alpha isozyme</p> <p>CALN, CALNA, "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform (calcineurin A alpha)"</p> <p>HUGO:PPP3CA HGNC:9314 ENTREZ:5530 UNIPROT:Q08209 GENECARDS:PPP3CA REACTOME:61110 KEGG:5530 ATLASONC:GC_PPP3CA WIKI:PPP3CA </p> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB </p> <p>protein phosphatase 3, catalytic subunit, gamma isozyme</p> <p>"protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform (calcineurin A gamma)"</p> <p>HUGO:PPP3CC HGNC:9316 ENTREZ:5533 UNIPROT:P48454 GENECARDS:PPP3CC REACTOME:61114 KEGG:5533 ATLASONC:GC_PPP3CC WIKI:PPP3CC</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. Activated Calcineurin dephosphorylates Nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 2 ( NF-AT1(NFATC2) ). </p> <p> </p> <p>PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="27706.0" y="5615.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa710_ad_sa710"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. Activated Calcineurin dephosphorylates Nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 2 ( NF-AT1(NFATC2) ). </p> <p> PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="27706.0" y="5665.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ad_sa744_ad_sa744" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Following engagement by B7, human CD28 binds Vav1 that in turn favors the recruitment of PIP5Kα and PIP5Kβ. PIP5Kα generates PIP2 that favors the recruitment of the WASP/Cdc42/ARP2/3 complex, which, in turn, promotes actin polymerization. PIP5Kβ mediates the recruitment of filamin-A (FLN-A) and lipid rafts to the T:APC contact zone. (B) Upon TCR recognition of peptide–MHC complexes presented on the surface of APCs, Lck and Fyn phosphorylate CD3 and ζ chains, which bind ZAP-70. ZAP-70 phosphorylates LAT that in turn binds PLC-γ1. CD28 mediates the recruitment of Vav-associated PIP5Kα that generates PIP2. PLC-γ1 hydrolyzes PIP2 in IP3 and DAG. IP3 induces the activation of Ca2+/calcineurin (CN) and NF-AT. CD28 also binds class 1A PI3K that phosphorylates PIP2 and generates PIP3 that favors the recruitment and activation of Akt. Akt cooperates with DAG to activate PKCθ/CARMA1/Bcl10/MALT1 complex and NF-κB.</p> <p> PMID:19132916</p> <p>rew</p> <p>PMID:17544292</p> <p>Recent studies have indicated several potential candidate substrates of PKCθ. The PKCθ-mediated phosphorylation of SPAK41 and CARMA152, which is required for proper activation of the AP-1 and NF-κB signaling pathways, respectively, in T cells, has been discussed earlier. The first PKCθ substrate to be identified was moesin53, a member of the ezrin-radixin-moesin (ERM) family of cytoskeletal proteins, which serve to link intracellular signaling proteins to the actin cytoskeleton. Interaction of ERM proteins with actin is regulated by phosphorylation of a conserved Thr residue near their C-terminus, and that conserved residue (Thr-558) was found to be phosphorylated by PKCθ53. Of interest, other tested PKC enzymes did not phosphorylate moesin53. However, it is not clear whether PKCθ phosphorylates moesin (or other ERM proteins) in intact T cells and, if so, whether other kinases can phosphorylate ERM proteins. The biological role of moesin phosphorylation in the context of T cell activation is not clear, but it may be involved in remodeling of the actin cytoskeleton, which occurs following the interaction of an Ag-specific T cells with an APC and the organization of the IS, given the findings that upon assembly of the IS, ERM proteins translocate to the T cell membrane at a site opposite the IS54-56.</p> <p>PKCθ may potentially regulate actin cytoskeleton remodeling in Ag-stimulated T cells by phosphorylating another substrate, i.e., WASP-interacting protein (WIP)57. Actin polymerization following TCR engagement is dependent on Wiskott-Aldrich syndrome protein (WASP), which is one of the effectors of the small GTPase Cdc42, and is critical for T cell activation58. WIP associates with WASP and thereby inhibits its Cdc42-mediated activation. TCR engagement was found to lead to PKCθ-dependent phosphorylation of WIP, most likely on Ser-488, resulting in dissociation of WIP from WASP and, consequently, WASP activation57. The importance of PKCθ for WIP phosphorylation was evident from the finding that WIP phosphorylation was largely impaired in PKCθ−/− T cells57.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa744_ad_sa744"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19132916"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17544292"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytoskeleton_remodeling"/> <bbox w="180.0" h="55.0" x="29576.0" y="7737.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa24_emtc_em_csa24" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for aVb1: Latent TGFB, fibronectin, osteopontin, vitronectin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa24_emtc_em_csa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb1*"/> <bbox w="40.0" h="60.0" x="5023.434" y="18485.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa349_emtc_em_sa349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="5023.434" y="18508.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa549_emtc_em_sa549"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5023.434" y="18488.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa255_emtc_em_sa255" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa255_emtc_em_sa255"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGAD"/> <bbox w="40.0" h="20.0" x="4612.615" y="17647.5"/> </glyph> <glyph class="complex" id="s_id_an_csa8_an_csa8" compartmentRef="s_id_an_ca1_an_ca1"> <label text="an_s63"/> <bbox w="180.0" h="110.0" x="4184.5" y="5917.5"/> <glyph class="macromolecule" id="s_id_an_sa53_an_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8893</p> </body> </html> </notes> <label text="PGF"/> <bbox w="80.0" h="40.0" x="4194.5" y="5927.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa55_an_sa55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3763</p> <p>synonyms : VEGFR1</p> </body> </html> </notes> <label text="FLT1"/> <bbox w="80.0" h="50.0" x="4194.5" y="5962.5"/> <glyph class="unit of information" id="_c34a4648-5743-439c-a569-97797b419d1f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4212.0" y="5957.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa54_an_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> </body> </html> </notes> <label text="NRP1"/> <bbox w="80.0" h="40.0" x="4274.5" y="5957.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa538_an_sa538" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16076871</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa538_an_sa538"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRKL"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16076871"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRKL"/> <bbox w="80.0" h="40.0" x="5636.0" y="6048.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa374_rc_csa374" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FADD:RIPK1:RIPK3</p> <p>References:</p> <p>23010170</p> <p>RIP1 deubiquitination leads to the formation of complex II which is composed of TRADD, FADD, RIP1 and caspase-8</p> <p>PMID:23073834</p> <p>PMID:22421439</p> <p>PMID:12887920</p> <p>If caspase 8 is inhibited, necroptosis is triggered.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa374_rc_csa374"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22421439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12887920"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Complex IIB"/> <bbox w="100.0" h="170.0" x="20079.56" y="9491.0"/> <glyph class="macromolecule" id="s_id_rc_sa3599_rc_sa3599"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor-interacting serine-threonine kinase 3</p> <p>HUGO:RIPK3 HGNC:10021 ENTREZ:11035 UNIPROT:Q9Y572</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:23010170</p> <p>PMID:27558815</p> <p>PMID:23073834</p> <p>PMID:19524512</p> <p>PMID:19632174</p> <p>PMID:19498109</p> <p>PMID:19524513</p> <p>The kinase activity of RIP3 is essential for necrosis execution.</p> <p>PMID:26024392</p> <p>The phosphorylation of Ser345 is not required for the interaction between RIPK3 and MLKL in the necrosome, but is essential for MLKL translocation, accumulation in the plasma membrane, and consequent necroptosis.</p> <p>PMID:26900751</p> <p>CHIP controls necroptosis through ubiquitylation- and lysosome-dependent degradation of RIPK3.</p> </body> </html> </notes> <label text="RIPK3"/> <bbox w="80.0" h="40.0" x="20089.56" y="9551.0"/> <glyph class="state variable" id="_8404344e-9d2a-40a6-b3ad-18d0fcef7738"> <state value="P" variable="S199"/> <bbox w="35.0" h="10.0" x="20129.01" y="9546.0"/> </glyph> <glyph class="state variable" id="_03ce8db4-4f9d-4c7e-8e39-cc1b664ed7db"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="20075.053" y="9546.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3598_rc_sa3598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="20089.56" y="9601.0"/> <glyph class="state variable" id="_1b67b6c0-41f9-41fd-8ce1-b5af8f43da6d"> <state value="P" variable="S161"/> <bbox w="35.0" h="10.0" x="20128.39" y="9636.0"/> </glyph> <glyph class="state variable" id="_684e54b2-00bb-44b2-a72c-c51db2f83832"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20084.56" y="9607.171"/> </glyph> <glyph class="state variable" id="_2feaead3-5f9b-485e-a558-a1069337450a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20127.396" y="9596.0"/> </glyph> <glyph class="state variable" id="_b0f08cc8-64dc-4c7e-8620-93b23dfa71c8"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="20154.56" y="9607.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3600_rc_sa3600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="20089.56" y="9501.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1080_emtc_em_sa1080" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1080_emtc_em_sa1080"> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TSC1:TSC2</p> </body> </html> </notes> <label text="TSC1/2"/> <clone/> <bbox w="115.0" h="118.0" x="25999.57" y="12026.55"/> <glyph class="macromolecule" id="s_id_rc_sa1082_rc_sa1082"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="TSC2"/> <clone/> <bbox w="80.0" h="40.0" x="26014.06" y="12084.0"/> <glyph class="state variable" id="_1f3d1cdc-32c2-4554-9930-032cbdba1305"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26009.06" y="12099.0"/> </glyph> <glyph class="state variable" id="_21094d93-ac08-4e73-bde2-ef9b00fcfdc7"> <state value="" variable="S1337"/> <bbox w="35.0" h="10.0" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1637_emtc_em_sa1637"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH10"/> <bbox w="45.0" h="16.0" x="5789.867" y="16119.791"/> </glyph> <glyph class="complex" id="s_id_an_csa58_an_csa58" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11415936</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa58_an_csa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11415936"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s480"/> <clone/> <bbox w="100.0" h="100.0" x="5244.0" y="7901.0"/> <glyph class="macromolecule" id="s_id_an_sa470_an_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HRAS, HUGO:KRAS, HUGO:NRAS</p> </body> </html> </notes> <label text="RAS*"/> <clone/> <bbox w="80.0" h="40.0" x="5254.0" y="7911.0"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa471_an_sa471"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="5259.0" y="7958.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa58_an_csa44" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11415936</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa58_an_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11415936"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s480"/> <clone/> <bbox w="100.0" h="100.0" x="6722.0" y="6345.0"/> <glyph class="simple chemical" id="s_id_an_sa471_an_sa413"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <clone/> <bbox w="70.0" h="25.0" x="6737.0" y="6402.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa470_an_sa411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HRAS, HUGO:KRAS, HUGO:NRAS</p> </body> </html> </notes> <label text="RAS*"/> <clone/> <bbox w="80.0" h="40.0" x="6732.0" y="6355.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2356_rc_sa2356" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2356_rc_sa2356"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytochrome_C*"/> <bbox w="70.0" h="25.0" x="20515.56" y="16274.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa362_in_sa362" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="UDLP3"/> <bbox w="70.0" h="25.0" x="20825.0" y="327.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa30_shh1_shh2_csa30" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAK1:MIR29B*</p> <p>References:</p> <p>s_shh2_re134:(MAP:survival) PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa30_shh1_shh2_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-29b_N-BAK"/> <bbox w="100.0" h="120.0" x="27605.06" y="21789.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa240_shh1_shh2_sa240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21359530</p> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR29B*"/> <bbox w="90.0" h="25.0" x="27610.56" y="21804.0"/> <glyph class="unit of information" id="_96f71f1d-8a18-4314-be19-59f48a679463"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27640.56" y="21799.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa242_shh1_shh2_sa242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bak</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611 GENECARDS:BAK1 REACTOME:50691 KEGG:578 ATLASONC:BAK1ID752ch6p21 WIKI:BAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21195116</p> <p>Bak</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611 GENECARDS:BAK1 REACTOME:50691 KEGG:578 ATLASONC:BAK1ID752ch6p21 WIKI:BAK1</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="90.0" h="25.0" x="27614.56" y="21833.0"/> <glyph class="unit of information" id="_c01a3886-a479-4197-b82a-b3a5e5c7b9e4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27649.56" y="21828.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa1091_in_sa1091" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1091_in_sa1091"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10925299"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14568929"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-arginine"/> <clone/> <bbox w="100.0" h="28.0" x="14124.219" y="5553.1875"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa1091_in_sa1124" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1091_in_sa1124"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10925299"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14568929"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-arginine"/> <clone/> <bbox w="100.0" h="28.0" x="13624.219" y="7193.1875"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1532_in_sa1532" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TLR2"/> <bbox w="90.0" h="25.0" x="23300.0" y="1977.5"/> <glyph class="unit of information" id="_12005647-d71a-430b-ac90-5208d2058985"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23335.0" y="1972.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa22_wnc1_wnc1_csa22" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha__sub_s_endsub_*:G_beta_*:G_gamma_*</p> <p>References:</p> <p>s_wnc1_re46:(MAP:survival) PMID:21406690</p> <p>s_wnc1_re54:(MAP:survival) PMID:10999941</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa22_wnc1_wnc1_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10999941"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP:Gαs*:Gβ*:Gγ*"/> <bbox w="158.0" h="48.0" x="16626.248" y="17893.312"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa141_wnc1_wnc1_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="16727.873" y="17897.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa157_wnc1_wnc1_sa157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="25.0" h="25.0" x="16632.56" y="17914.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa163_wnc1_wnc1_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GNAS complex locus</p> <p>GNAS1, "guanine nucleotide binding protein (G protein), alpha stimulating activity polypeptide 1"</p> <p>HUGO:GNAS HGNC:4392 ENTREZ:2778 UNIPROT:O95467 GENECARDS:GNAS KEGG:2778 ATLASONC:GNASID40727ch20q13 WIKI:GNAS</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gαs*"/> <bbox w="40.0" h="20.0" x="16645.06" y="17897.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa140_wnc1_wnc1_sa140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="16686.873" y="17897.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa730_ca_sa730" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_PRODUCTION MODULE:CAF References:CASCADE:IL6PMID:24346288 IL-6 promoted VEGF expression by fibroblasts but not by cancer cell linesPMID:12629515; PMID:11960372 Probably IL6 induces VEGF expression in fibroblasts via STAT3 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_PRODUCTION MODULE:CAF References:CASCADE:IL6PMID:24346288 IL-6 promoted VEGF expression by fibroblasts but not by cancer cell linesPMID:12629515; PMID:11960372 Probably IL6 induces VEGF expression in fibroblasts via STAT3 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa730_ca_sa730"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24346288"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12629515"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11960372"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24346288"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12629515"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11960372"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFA"/> <bbox w="70.0" h="25.0" x="4315.0" y="4242.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2489_in_sa2489" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CD209"/> <bbox w="70.0" h="25.0" x="10613.75" y="528.125"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa260_emtc_em_sa260" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa260_emtc_em_sa260"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAV"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAV"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="4848.914" y="17647.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa94_akt1_akt1_sa94" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa94_akt1_akt1_sa94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <bbox w="80.0" h="40.0" x="12407.588" y="18660.223"/> <glyph class="state variable" id="_c21816b1-aeec-4dc6-aadc-51701e8f043d"> <state value="" variable="T383"/> <bbox w="30.0" h="10.0" x="12392.588" y="18657.623"/> </glyph> <glyph class="state variable" 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class="state variable" id="_002aceb5-c2cd-41c1-8e85-b349cccd2c44"> <state value="" variable="S380"/> <bbox w="30.0" h="10.0" x="12442.836" y="18655.223"/> </glyph> <glyph class="state variable" id="_6456f5de-a140-45a2-bd69-cdf7f206625c"> <state value="" variable="T382"/> <bbox w="30.0" h="10.0" x="12421.12" y="18655.223"/> </glyph> <glyph class="state variable" id="_ce9b7053-a895-4a03-93be-62a935436f64"> <state value="" variable="K289"/> <bbox w="30.0" h="10.0" x="12433.292" y="18695.223"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa226_ce_sa226" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Fanconi:DNA:st4Reversed-fork structured DNA with unhooked and insices inter chromasomal crosslinks (ICL) regionNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:FANCONI ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Fanconi:DNA:st4Reversed-fork structured DNA with unhooked and insices inter chromasomal crosslinks (ICL) regionNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:FANCONI </body> </html> </notes> <label text="Fanconi_DNA_st4*"/> <bbox w="120.0" h="26.0" x="15710.611" y="16320.975"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa63_wca1_wca3_csa63" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AES:TLE*</p> <p>References:</p> <p>s_wca3_re138:(MAP:survival) PMID:20925119</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa63_wca1_wca3_csa63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20925119"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AES:TLE*"/> <bbox w="100.0" h="120.0" x="22136.06" y="21269.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa391_wca1_wca3_sa391"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transducin-like enhancer of split 1 (E(sp1) homolog Drosophila)</p> <p>"transducin-like enhancer of split 1 homolog of Drosophila E(sp1)"</p> <p>HUGO:TLE1 HGNC:11837 ENTREZ:7088 UNIPROT:Q04724 GENECARDS:TLE1 REACTOME:66083 KEGG:7088 ATLASONC:GC_TLE1 WIKI:TLE1 </p> <p>transducin-like enhancer of split 2 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE2 HGNC:11838 ENTREZ:7089 UNIPROT:Q04725 GENECARDS:TLE2 REACTOME:66085 KEGG:7089 WIKI:TLE2 </p> <p>transducin-like enhancer of split 3 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE3 HGNC:11839 ENTREZ:7090 UNIPROT:Q04726 GENECARDS:TLE3 REACTOME:405165 KEGG:7090 ATLASONC:GC_TLE3 WIKI:TLE3 </p> <p>transducin-like enhancer of split 4 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE4 HGNC:11840 ENTREZ:7091 UNIPROT:Q04727 GENECARDS:TLE4 REACTOME:66089 KEGG:7091 WIKI:TLE4 </p> <p>amino-terminal enhancer of split</p> <p>GRG5 TLE5</p> <p>HUGO:AES HGNC:307 ENTREZ:166 UNIPROT:Q08117 GENECARDS:AES KEGG:166 ATLASONC:GC_AES WIKI:AES </p> <p>transducin-like enhancer of split 6 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE6 HGNC:30788 ENTREZ:79816 UNIPROT:Q9H808 GENECARDS:TLE6 KEGG:79816 ATLASONC:GC_TLE6 WIKI:TLE6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>References:</p> <p>non-DNA binding transcription factor</p> <p>PMID:20925119</p> </body> </html> </notes> <label text="TLE*"/> <bbox w="80.0" h="40.0" x="22146.31" y="21285.0"/> <glyph class="state variable" id="_3f80643d-4fcf-4a40-8d64-f9bb1dd5b18e"> <state value="" variable="S239"/> <bbox w="30.0" h="10.0" x="22131.803" y="21280.0"/> </glyph> <glyph class="state variable" id="_6675dc39-893f-4cb5-9169-61d2c9b238cd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22221.31" y="21280.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa390_wca1_wca3_sa390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>amino-terminal enhancer of split</p> <p>HUGO:AES HGNC:307 ENTREZ:166 UNIPROT:Q08117 GENECARDS:AES KEGG:166 ATLASONC:GC_AES WIKI:AES</p> <p>Map modules:</p> </body> </html> </notes> <label text="AES"/> <bbox w="80.0" h="40.0" x="22146.31" y="21330.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2085_in_sa2085" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRF8"/> <bbox w="80.0" h="40.0" x="18380.0" y="4626.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa12_akt1_akt1_csa12" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:SOS*</p> </body> </html> </notes> <label text="GRB2:SOS*"/> <clone/> <bbox w="104.0" h="114.0" x="13810.561" y="17797.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa51_akt1_akt1_sa51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <clone/> <bbox w="80.0" h="40.0" x="13820.061" y="17805.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa52_akt1_akt1_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <clone/> <bbox w="80.0" h="40.0" x="13821.061" y="17852.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa12_mpk1_mpk1_csa21" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:SOS*</p> </body> </html> </notes> <label text="GRB2:SOS*"/> <clone/> <bbox w="75.0" h="84.0" x="8063.56" y="19359.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa52_mpk1_mpk1_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <clone/> <bbox w="50.0" h="25.0" x="8076.56" y="19394.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa51_mpk1_mpk1_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <clone/> <bbox w="50.0" h="25.0" x="8076.56" y="19369.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa21_shh1_shh1_csa21" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI3-190*:KIF7:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re37(MAP:survival):</p> <p>PMID:20956384</p> <p>PMID:19592253</p> <p>s_shh1_re39(MAP:survival):</p> <p>PMID:21209912</p> <p>PMID:19549984</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa21_shh1_shh1_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592253"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209912"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19549984"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SUFU_Gli3"/> <bbox w="206.0" h="178.0" x="25978.06" y="18026.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa176_shh1_shh1_sa176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 7</p> <p>HUGO:KIF7 HGNC:30497 ENTREZ:374654 UNIPROT:Q2M1P5 GENECARDS:KIF7 KEGG:374654 WIKI:KIF7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19666503</p> <p>PMID:19906571</p> <p>PMID:19592253</p> </body> </html> </notes> <label text="KIF7"/> <bbox w="80.0" h="40.0" x="26044.56" y="18134.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa162_shh1_shh1_sa162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="26001.56" y="18036.0"/> 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value="" variable=""/> <bbox w="10.0" h="10.0" x="25995.81" y="18097.824"/> </glyph> <glyph class="state variable" id="_2bd0301e-a54f-4e73-b241-dccdefd0f4c1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26001.084" y="18120.0"/> </glyph> <glyph class="state variable" id="_0746e669-fb5a-44d0-a5b7-9bdfa585848a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26047.332" y="18079.0"/> </glyph> <glyph class="state variable" id="_49a9c2fb-0d0e-4671-b966-ac3b7f2335ca"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26060.795" y="18079.0"/> </glyph> <glyph class="state variable" id="_6721dbe0-2155-4655-841d-78fc9b85b10e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25995.81" y="18095.736"/> </glyph> <glyph class="state variable" id="_98fe125a-a05a-49b6-85f4-78c57ae7584b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26027.82" y="18079.0"/> </glyph> <glyph class="state variable" id="_1a8316e4-eaf1-42e5-89b6-b03190df46ff"> <state value="" variable="S910"/> <bbox w="30.0" h="10.0" x="25986.305" y="18120.0"/> </glyph> <glyph class="state variable" id="_580e9d4e-7b39-4739-a27b-23c355cdf41c"> <state value="" variable="S1006"/> <bbox w="35.0" h="10.0" x="25983.31" y="18094.012"/> </glyph> <glyph class="state variable" id="_61260611-d879-4e28-895b-4594cdfb2934"> <state value="" variable="S980"/> <bbox w="30.0" h="10.0" x="25985.81" y="18101.73"/> </glyph> <glyph class="state variable" id="_09a48ab9-103b-4b84-8fc2-da59eace0c41"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26027.82" y="18079.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa182_shh1_shh1_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Unc-51-like kinase</p> </body> </html> </notes> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="26085.56" y="18037.0"/> <glyph class="state variable" id="_7b7d5077-04ca-43fe-8bc5-bdc9c7ca856d"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26071.053" y="18032.0"/> </glyph> <glyph class="state variable" id="_d50280b5-f253-46d3-b7a1-3de418081ed1"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26149.941" y="18072.0"/> </glyph> <glyph class="state variable" id="_45dc4641-a4c1-4353-a7ed-26d10ec61fbc"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="26070.56" y="18071.72"/> </glyph> <glyph class="state variable" id="_676a4ee1-1725-4192-a741-c0fa07f6f421"> <state value="" variable="S350"/> <bbox w="30.0" h="10.0" x="26150.56" y="18032.213"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa89_emtc_em_csa89" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA5:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa89_emtc_em_csa89"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19487819"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a5b1*"/> <bbox w="40.0" h="60.0" x="4374.139" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa598_emtc_em_sa598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 5 (fibronectin receptor, alpha polypeptide)</p> <p>HUGO:ITGA5, HGNC:6141, ENTREZ:3678, UNIPROT:P08648, GENECARDS:GC12M054789</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA5"/> <bbox w="40.0" h="20.0" x="4374.139" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa596_emtc_em_sa596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4374.139" y="18035.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa227_mo_sa227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>matrix metallopeptidase 2 (in extracellular space)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa227_mo_sa227"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2*"/> <bbox w="80.0" h="40.0" x="4950.0" y="12367.0"/> <glyph class="unit of information" id="_b869201e-d915-419f-aa00-b9530e6ede5b"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="4965.0" y="12362.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1200_ad_sa1200" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p> </p> <p> </p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11093160</p> <p>Following co-stimulation through accessory receptors (e.g. CD2 or CD28) - however, not following TCR/CD3 stimulation alone - cofilin undergoes dephosphorylation. The subcellular localization as well as the actin-binding activity of cofilin are regulated by the phosphorylation state of serine-3. Thus, only the dephosphorylated form of cofilin associates with the actin cytoskeleton and possesses the capability to translocate into the nucleus. Recently, LIM-kinase 1 was shown to inactivate cofilin through phosphorylation. Here, we have identified the functional counterparts of LIM-kinase 1: the serine/threonine phosphatases of type 1 and type 2A not only associate with cofilin but also dephosphorylate this 19-kDa protein and thereby mediate cofilin activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1200_ad_sa1200"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11093160"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PP1*"/> <bbox w="80.0" h="40.0" x="30186.0" y="7795.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1604_emtc_em_sa1604" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1604_emtc_em_sa1604"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL4A6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Collagen4*"/> <bbox w="70.0" h="17.0" x="5722.0" y="18534.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5040_rc_sa5040" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5040_rc_sa5040"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAR1"/> <bbox w="80.0" h="40.0" x="28869.06" y="15709.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa293_mo_sa293" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0SRY (sex determining region Y)-box 2 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0SRY (sex determining region Y)-box 2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa293_mo_sa293"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOX2"/> <clone/> <bbox w="90.0" h="25.0" x="3488.0" y="11005.5"/> <glyph class="unit of information" id="_e4976c6b-2301-49ba-a071-de8207d468bb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3523.0" y="11000.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa293_emtc_em_sa760" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0SRY (sex determining region Y)-box 2 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0SRY (sex determining region Y)-box 2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa293_emtc_em_sa760"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOX2"/> <clone/> <bbox w="60.0" h="20.0" x="4741.5" y="17075.084"/> <glyph class="unit of information" id="_1ddac36f-1b23-4e65-8eab-3b360f558669"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4761.5" y="17070.084"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5216_rc_sa5216" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5216_rc_sa5216"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIFM1"/> <bbox w="80.0" h="40.0" x="19659.06" y="16769.0"/> <glyph class="state variable" id="_113bbfd0-f36a-40be-9d4c-a3adc4a4d182"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19695.498" y="16764.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa43_te_csa43" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:telomerase</p> <p>ALT_NAME:DKC1/GAR1/NHP2/NOP10/TERC/WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa43_te_csa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="telomerase"/> <clone/> <bbox w="425.0" h="200.0" x="4210.727" y="21284.555"/> <glyph class="macromolecule" id="s_id_te_sa319_te_sa319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <clone/> <bbox w="80.0" h="40.0" x="4335.727" y="21374.555"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa326_te_sa326"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <clone/> <bbox w="86.0" h="46.0" x="4227.727" y="21381.555"/> <glyph class="unit of information" id="_cac423cb-72f1-461a-9790-6d53df23de92"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="4260.727" y="21376.555"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa318_te_sa318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <clone/> <bbox w="80.0" h="40.0" x="4435.727" y="21314.555"/> <glyph class="state variable" id="_9865136f-5d74-4db1-876e-2cde8a4bf532"> <state value="P" variable="S227"/> <bbox w="35.0" h="10.0" x="4455.856" y="21309.555"/> </glyph> <glyph class="state variable" id="_d10cbf0d-6346-46f3-b446-73e0221249c2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4430.727" y="21329.523"/> </glyph> <glyph class="state variable" id="_429a136d-6211-4158-8d91-477549c706cb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4468.228" y="21349.555"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa321_te_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <clone/> <bbox w="80.0" h="40.0" x="4335.727" y="21424.555"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa322_te_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <clone/> <bbox w="80.0" h="40.0" x="4425.727" y="21424.555"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa325_te_sa325"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <clone/> <bbox w="80.0" h="40.0" x="4330.727" y="21314.555"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa324_te_sa324"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <clone/> <bbox w="90.0" h="25.0" x="4520.727" y="21332.055"/> <glyph class="state variable" id="_7fda2358-c5a4-46ad-9895-b3b28067bcd3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4556.227" y="21327.055"/> </glyph> <glyph class="unit of information" id="_b85633ae-8bfe-4582-b57f-1c349c7460e0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4555.727" y="21327.055"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa320_te_sa320"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <clone/> <bbox w="80.0" h="40.0" x="4435.727" y="21364.555"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa323_te_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat containing, antisens to TP53</p> <p>HUGO:WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="WRAP53"/> <clone/> <bbox w="80.0" h="40.0" x="4515.727" y="21424.555"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa43_te_csa75" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:telomerase</p> <p>ALT_NAME:DKC1/GAR1/NHP2/NOP10/TERC/WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa43_te_csa75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="telomerase"/> <clone/> <bbox w="425.0" h="200.0" x="3388.9648" y="21869.572"/> <glyph class="macromolecule" id="s_id_te_sa319_te_sa500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <clone/> <bbox w="80.0" h="40.0" x="3513.9648" y="21959.572"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa322_te_sa503"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <clone/> <bbox w="80.0" h="40.0" x="3603.9648" y="22009.572"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa320_te_sa501"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <clone/> <bbox w="80.0" h="40.0" x="3613.9648" y="21949.572"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa324_te_sa505"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <clone/> <bbox w="90.0" h="25.0" x="3698.9648" y="21917.072"/> <glyph class="state variable" id="_80e77696-e36f-41d8-a0e0-f93d337c98b8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3734.4648" y="21912.072"/> </glyph> <glyph class="unit of information" id="_cd83c9c0-bab8-4990-9044-15aa5eabad32"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3733.9648" y="21912.072"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa325_te_sa506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <clone/> <bbox w="80.0" h="40.0" x="3508.9648" y="21899.572"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa321_te_sa502"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <clone/> <bbox w="80.0" h="40.0" x="3513.9648" y="22009.572"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa323_te_sa504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat containing, antisens to TP53</p> <p>HUGO:WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="WRAP53"/> <clone/> <bbox w="80.0" h="40.0" x="3693.9648" y="22009.572"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa326_te_sa507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <clone/> <bbox w="86.0" h="46.0" x="3405.9648" y="21966.572"/> <glyph class="unit of information" id="_789d7c32-9d35-4c15-9a31-4b58ba2664e4"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3438.9648" y="21961.572"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa318_te_sa499"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <clone/> <bbox w="80.0" h="40.0" x="3613.9648" y="21899.572"/> <glyph class="state variable" id="_256ab60b-9633-4673-b23c-7116cee3853b"> <state value="P" variable="S227"/> <bbox w="35.0" h="10.0" x="3634.094" y="21894.572"/> </glyph> <glyph class="state variable" id="_a6108401-0985-47c5-b5c5-cb93ac38fc2d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3608.9648" y="21914.541"/> </glyph> <glyph class="state variable" id="_f323c3f5-439a-455f-a329-4a9b910c5751"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3646.466" y="21934.572"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa43_te_csa44" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:telomerase</p> <p>ALT_NAME:DKC1/GAR1/NHP2/NOP10/TERC/WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa43_te_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="telomerase"/> <clone/> <bbox w="425.0" h="200.0" x="4219.06" y="20938.555"/> <glyph class="macromolecule multimer" id="s_id_te_sa326_te_sa335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <clone/> <bbox w="86.0" h="46.0" x="4236.06" y="21035.555"/> <glyph class="unit of information" id="_1d8d3269-efc8-4820-aeaf-8b8620663cfe"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="4269.06" y="21030.555"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa322_te_sa331"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <clone/> <bbox w="80.0" h="40.0" x="4434.06" y="21078.555"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa324_te_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <clone/> <bbox w="90.0" h="25.0" x="4529.06" y="20986.055"/> <glyph class="state variable" id="_1e33a750-8cc6-4e78-86ab-50510a833b35"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4564.56" y="20981.055"/> </glyph> <glyph class="unit of information" id="_1fa99cd5-b3f2-46c7-8790-d5698dfc2d7a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4564.06" y="20981.055"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa321_te_sa330"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <clone/> <bbox w="80.0" h="40.0" x="4344.06" y="21078.555"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa320_te_sa329"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <clone/> <bbox w="80.0" h="40.0" x="4444.06" y="21018.555"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa325_te_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <clone/> <bbox w="80.0" h="40.0" x="4339.06" y="20968.555"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa318_te_sa327"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <clone/> <bbox w="80.0" h="40.0" x="4444.06" y="20968.555"/> <glyph class="state variable" id="_d9412e68-747b-4e04-bf2b-3d6ec93be984"> <state value="P" variable="S227"/> <bbox w="35.0" h="10.0" x="4464.189" y="20963.555"/> </glyph> <glyph class="state variable" id="_1b40ed77-a895-4b48-b7c2-a04ebd1588f4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4439.06" y="20983.523"/> </glyph> <glyph class="state variable" id="_af612880-c153-4131-994a-b1d67c2f9fe7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4476.561" y="21003.555"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa323_te_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat containing, antisens to TP53</p> <p>HUGO:WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="WRAP53"/> <clone/> <bbox w="80.0" h="40.0" x="4524.06" y="21078.555"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa319_te_sa328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <clone/> <bbox w="80.0" h="40.0" x="4344.06" y="21028.555"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4655_rc_sa4655" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4655_rc_sa4655"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDKN2A"/> <bbox w="90.0" h="25.0" x="21690.56" y="16007.5"/> <glyph class="unit of information" id="_a9f2c4e3-4646-4af4-bcf9-31a2a7d79536"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21725.56" y="16002.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa185_akt1_akt2_sa185" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa185_akt1_akt2_sa185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1"/> <bbox w="90.0" h="25.0" x="12721.061" y="21280.5"/> <glyph class="unit of information" id="_d7510954-3ac6-4056-b22d-eb9b61fba3a2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12756.061" y="21275.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1946_rc_sa1946" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1946_rc_sa1946"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTSS"/> <bbox w="80.0" h="40.0" x="18066.81" y="12923.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa611_rc_sa611" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa611_rc_sa611"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PFKFB3"/> <bbox w="70.0" h="25.0" x="22648.06" y="16272.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa815_rc_sa815" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17797 KEGGCOMPOUND:C00117 CAS:4300-28-1</p> </body> </html> </notes> <label text="ribose-5P"/> <bbox w="70.0" h="25.0" x="18435.06" y="10553.689"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4542_rc_sa4542" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4542_rc_sa4542"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR1-2"/> <bbox w="90.0" h="25.0" x="19959.06" y="15592.5"/> <glyph class="unit of information" id="_eb190960-97ea-4ce8-bddd-872e6834e0c4"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="19989.06" y="15587.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2336_in_sa2336" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 7543512, 14610620, 21115385 <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>IL-10 treatment of monocytes results in the tyrosine phosphorylation of tyk2 and Jakl</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2336_in_sa2336"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7543512"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TYK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21115385"/> </rdf:Bag> </bqbiol:isDescribedBy> 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD9"/> <bbox w="60.0" h="20.0" x="5393.75" y="16563.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1115_ca_sa1115" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="isocitrate"/> <clone/> <bbox w="70.0" h="25.0" x="2905.0" y="3727.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1115_rc_sa905" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="isocitrate"/> <clone/> <bbox w="70.0" h="25.0" x="18529.037" y="11604.735"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa78_akt1_akt1_csa78" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL4*:DCAF*:FBW5*:RBX1:TSC2</p> <p>References:</p> <p>s_akt1_re182:(MAP:survival) PMID:18381890</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa78_akt1_akt1_csa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18381890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL4*:DCAF*:FBW5*:RBX1:TSC2"/> <bbox w="182.0" h="165.0" x="13274.061" y="18775.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa486_akt1_akt1_sa486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="13365.061" y="18826.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa488_akt1_akt1_sa488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 4A</p> <p>HUGO:CUL4A HGNC:2554 ENTREZ:8451 UNIPROT:Q13619 GENECARDS:CUL4A ATLASONC:GC_CUL4A WIKI:CUL4A </p> <p>cullin 4B</p> <p>HUGO:CUL4B HGNC:2555 ENTREZ:8450 UNIPROT:Q13620 GENECARDS:CUL4B KEGG:8450 ATLASONC:GC_CUL4B WIKI:CUL4B</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:NER, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <label text="CUL4*"/> <bbox w="80.0" h="40.0" x="13283.061" y="18783.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa485_akt1_akt1_sa485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DDB1 and CUL4 associated factor 4</p> <p>HUGO:DCAF4 HGNC:20229 ENTREZ:26094 UNIPROT:Q8WV16 GENECARDS:DCAF4 KEGG:26094 WIKI:DCAF4 </p> <p>DDB1 and CUL4 associated factor 5</p> <p>HUGO:DCAF5 HGNC:20224 ENTREZ:8816 UNIPROT:Q96JK2 GENECARDS:DCAF5 KEGG:8816 ATLASONC:GC_DCAF5 WIKI:DCAF5 </p> <p>DDB1 and CUL4 associated factor 6</p> <p>HUGO:DCAF6 HGNC:30002 ENTREZ:55827 UNIPROT:Q58WW2 GENECARDS:DCAF6 KEGG:55827 ATLASONC:GC_DCAF6 WIKI:DCAF6 </p> <p>DDB1 and CUL4 associated factor 7</p> <p>HUGO:DCAF7 HGNC:30915 ENTREZ:10238 UNIPROT:P61962 GENECARDS:DCAF7 KEGG:10238 ATLASONC:GC_DCAF7 WIKI:DCAF7 </p> <p>DDB1 and CUL4 associated factor 8</p> <p>HUGO:DCAF8 HGNC:24891 ENTREZ:50717 UNIPROT:Q5TAQ9 GENECARDS:DCAF8 KEGG:50717 WIKI:DCAF8 </p> <p>DDB1 and CUL4 associated factor 10</p> <p>HUGO:DCAF10 HGNC:23686 ENTREZ:79269 UNIPROT:Q5QP82 GENECARDS:DCAF10 KEGG:79269 WIKI:DCAF10 </p> <p>DDB1 and CUL4 associated factor 11</p> <p>HUGO:DCAF11 HGNC:20258 ENTREZ:80344 UNIPROT:Q8TEB1 GENECARDS:DCAF11 KEGG:80344 WIKI:DCAF11 </p> <p>DDB1 and CUL4 associated factor 12</p> <p>HUGO:DCAF12 HGNC:19911 ENTREZ:25853 UNIPROT:Q5T6F0 GENECARDS:DCAF12 KEGG:25853 ATLASONC:GC_DCAF12 WIKI:DCAF12 </p> <p>DDB1 and CUL4 associated factor 13</p> <p>HUGO:DCAF13 HGNC:24535 ENTREZ:25879 UNIPROT:Q9NV06 GENECARDS:DCAF13 KEGG:25879 ATLASONC:GC_DCAF13 WIKI:DCAF13 </p> <p>DDB1 and CUL4 associated factor 15</p> <p>HUGO:DCAF15 HGNC:25095 ENTREZ:90379 UNIPROT:Q66K64 GENECARDS:DCAF15 KEGG:90379 WIKI:DCAF15 </p> <p>DDB1 and CUL4 associated factor 16</p> <p>HUGO:DCAF16 HGNC:25987 ENTREZ:54876 UNIPROT:Q9NXF7 GENECARDS:DCAF16 KEGG:54876 WIKI:DCAF16 </p> <p>DDB1 and CUL4 associated factor 17</p> <p>HUGO:DCAF17 HGNC:25784 ENTREZ:80067 UNIPROT:Q5H9S7 GENECARDS:DCAF17 KEGG:80067 WIKI:DCAF17</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18381890</p> </body> </html> </notes> <label text="DCAF*"/> <bbox w="80.0" h="40.0" x="13283.061" y="18870.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa484_akt1_akt1_sa484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>F-box and WD repeat domain containing 5</p> <p>HUGO:FBXW5 HGNC:13613 ENTREZ:54461 UNIPROT:Q969U6 GENECARDS:FBXW5 REACTOME:147217 KEGG:54461 WIKI:FBXW5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="FBW5*"/> <bbox w="80.0" h="40.0" x="13285.061" y="18827.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa487_akt1_akt1_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="13364.061" y="18871.0"/> <glyph class="state variable" id="_f5f8b11e-13b8-49c9-ac85-05113dca0cf3"> <state value="" variable="S1086"/> <bbox w="35.0" h="10.0" x="13426.561" y="18887.467"/> </glyph> <glyph class="state variable" id="_76615617-bfb9-40bd-8b22-70b09ac847d6"> <state value="" variable="S981"/> <bbox w="30.0" h="10.0" x="13425.643" y="18866.0"/> </glyph> <glyph class="state variable" id="_95382355-8652-4a4d-8c4b-5c83e0893970"> <state value="" variable="T1462"/> <bbox w="35.0" h="10.0" x="13347.053" y="18866.0"/> </glyph> <glyph class="state variable" id="_8ec9e12e-80c2-4bb2-8cf0-c6da0f891a1c"> <state value="" variable="S1132"/> <bbox w="35.0" h="10.0" x="13346.561" y="18904.947"/> </glyph> <glyph class="state variable" id="_cc168ea5-3fc1-44f3-82a1-5af31066cca5"> <state value="" variable="S939"/> <bbox w="30.0" h="10.0" x="13387.091" y="18866.0"/> </glyph> <glyph class="state variable" id="_f9df8982-0456-4e05-ade0-e23bac45c85c"> <state value="" variable="S1088"/> <bbox w="35.0" h="10.0" x="13425.942" y="18906.0"/> </glyph> <glyph class="state variable" id="_84ca0b04-e2d8-4193-b372-76e32d2e1528"> <state value="" variable="S1130"/> <bbox w="35.0" h="10.0" x="13384.463" y="18906.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1703_rc_sa1703" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1703_rc_sa1703"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGR2"/> <bbox w="80.0" h="40.0" x="25161.56" y="16344.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa78_shh1_shh2_sa78" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa78_shh1_shh2_sa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1"/> <bbox w="90.0" h="25.0" x="26604.06" y="21184.5"/> <glyph class="unit of information" id="_434b302f-ec6a-40ca-832a-3fd26e95aa46"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21179.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa423_rc_csa423" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPP2CB:PPPR1B</p> <p>References:</p> <p>21172653</p> </body> </html> </notes> <label text="PP2A"/> <bbox w="100.0" h="120.0" x="19567.111" y="9368.431"/> <glyph class="macromolecule" id="s_id_rc_sa4142_rc_sa4142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2, catalytic subunit, beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:21172653</p> <p>subunit PR65β of the holoenzyme protein phosphatase 2A (PP2A)</p> </body> </html> </notes> <label text="PPP2CB"/> <bbox 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1281_ce_sa1281"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAG3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAG*"/> <bbox w="80.0" h="40.0" x="12829.27" y="11299.0"/> <glyph class="state variable" id="_3dd7cfac-77c0-4051-8ce2-f3631482eda2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12901.77" y="11314.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa391_te_sa391" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Blomm syndrome, RecQ helicase-like</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa391_te_sa391"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BLM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BLM"/> <clone/> <bbox w="80.0" h="40.0" x="3003.06" y="21800.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa391_ce_sa176" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Blomm syndrome, RecQ helicase-like</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa391_ce_sa176"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BLM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BLM"/> <clone/> <bbox w="80.0" h="40.0" x="14679.606" y="14964.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa8_wca1_wca3_csa8" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:PYGO*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re10(MAP:survival):</p> <p>P300 acetylates beta-catenin</p> <p>PMID:15060161</p> <p>s_wca3_re11(MAP:survival):</p> <p>CBP acetylates beta-catenin</p> <p>PMID:11973335</p> <p>s_wca3_re114(MAP:survival):</p> <p>KLF8 recruits P300</p> <p>PMID:22761862 PMID:20107328</p> <p>s_wca3_re127:(MAP:survival) PMID:19901072 PMID:19751731</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa8_wca1_wca3_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15060161"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11973335"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21885.488" y="21287.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa68_wca1_wca3_sa68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21885.488" y="21327.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5051_rc_sa5051" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa298_ce_sa298"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BRIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCJ*"/> <bbox w="80.0" h="40.0" x="14680.106" y="15527.5"/> <glyph class="state variable" id="_85fa26ea-230f-4c20-b0c4-2b7ec9c782d3"> <state value="P" variable="S990"/> <bbox w="35.0" h="10.0" x="14702.639" y="15522.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa447_an_sa447" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Differenciation"/> <bbox w="130.0" h="25.0" 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compartmentRef="s_id_in_ca12_in_ca12"> <label text="GSK3α*"/> <bbox w="80.0" h="40.0" x="17700.0" y="3980.0"/> <glyph class="state variable" id="_5d22eef9-fd2f-466d-8618-f01412426fd5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17692.5" y="3995.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa74_te_csa74" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta complex</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:27760777, PMID:27760120, PMID:1974050</p> <p>References_End</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<title/> </head> <body> <p>DNA polymerase delta 3, accessory subunit</p> <p>HUGO:POLD3</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLD3"/> <clone/> <bbox w="80.0" h="40.0" x="2935.2825" y="22832.223"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa493_te_sa493"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 2, accessory subunit</p> <p>HUGO:POLD2</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLD2"/> <clone/> <bbox w="80.0" h="40.0" x="2847.2825" y="22832.223"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa495_te_sa495"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 4, accessory subunit</p> <p>HUGO:POLD4</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLD4"/> <clone/> <bbox w="80.0" h="40.0" x="2934.2825" y="22788.223"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa492_te_sa492"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 1, catalytic subunit</p> <p>HUGO:POLD1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLD1"/> <clone/> <bbox w="80.0" h="40.0" x="2846.2825" y="22789.223"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa74_te_csa69" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta complex</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:27760777, PMID:27760120, PMID:1974050</p> <p>References_End</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa74_te_csa69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27760777"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27760120"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1974050"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Polymerase delta complex"/> <clone/> <bbox w="227.0" h="133.0" x="4617.06" y="22662.0"/> <glyph class="macromolecule" id="s_id_te_sa494_te_sa459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 3, accessory subunit</p> <p>HUGO:POLD3</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLD3"/> <clone/> <bbox w="80.0" h="40.0" x="4731.06" y="22728.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa493_te_sa458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 2, accessory subunit</p> <p>HUGO:POLD2</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLD2"/> <clone/> <bbox w="80.0" h="40.0" x="4644.06" y="22729.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa492_te_sa456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 1, catalytic subunit</p> <p>HUGO:POLD1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLD1"/> <clone/> <bbox w="80.0" h="40.0" x="4643.06" y="22686.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa495_te_sa460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase delta 4, accessory subunit</p> <p>HUGO:POLD4</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> 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class="macromolecule" id="s_id_in_sa67_in_sa67" compartmentRef="s_id_in_ca12_in_ca12"> <label text="OX40L*"/> <bbox w="80.0" h="40.0" x="22920.625" y="7747.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2039_rc_sa2039" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2039_rc_sa2039"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLUL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa13_wca1_wca4_sa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN2"/> <clone/> <bbox w="70.0" h="25.0" x="23531.06" y="21129.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa13_wca1_wca3_sa377" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa13_wca1_wca3_sa377"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN2"/> <clone/> <bbox w="70.0" h="25.0" x="20823.06" y="22508.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa13_emtc_em_sa2236" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa13_emtc_em_sa2236"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN2"/> <clone/> <bbox w="50.0" h="20.0" x="2700.0" y="16230.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa900_rc_sa900" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="18772.777" y="11421.398"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa900_rc_sa5350" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="26086.56" y="10155.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa900_rc_sa860" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="18666.56" y="10491.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa900_rc_sa2320" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16908 KEGGCOMPOUND:C00004</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> <p>References:</p> <p>charge:0</p> </body> </html> </notes> <label text="NADH"/> <clone/> <bbox w="70.0" h="25.0" x="27772.06" y="10526.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1829_emtc_em_sa1829" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1829_emtc_em_sa1829"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR200C"/> <bbox w="84.0" h="17.0" x="4019.0" y="16983.334"/> <glyph class="unit of information" id="_de915172-1f09-4be6-8367-1126f44e800c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="4046.0" y="16978.334"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5493_rc_sa5493" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TcdB cytotxin*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5493_rc_sa5493"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TcdB cytotxin*"/> <bbox w="70.0" h="25.0" x="29404.06" y="9096.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa345_te_sa345" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa345_te_sa345"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX4I2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX4I2"/> <bbox w="90.0" h="25.0" x="22889.06" y="16051.5"/> <glyph class="unit of information" id="_54d90362-80df-4da8-88cf-e6198bb70ef8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22924.06" y="16046.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1205_ad_sa1205" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS, MODULE:TCR_SIGNALING, MODULE:SMAC</p> <p>PMID:11093160</p> <p>Following co-stimulation through accessory receptors (e.g. CD2 or CD28) - however, not following TCR/CD3 stimulation alone - cofilin undergoes dephosphorylation. The subcellular localization as well as the actin-binding activity of cofilin are regulated by the phosphorylation state of serine-3. Thus, only the dephosphorylated form of cofilin associates with the actin cytoskeleton and possesses the capability to translocate into the nucleus. Recently, LIM-kinase 1 was shown to inactivate cofilin through phosphorylation. Here, we have identified the functional counterparts of LIM-kinase 1: the serine/threonine phosphatases of type 1 and type 2A not only associate with cofilin but also dephosphorylate this 19-kDa protein and thereby mediate cofilin activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1205_ad_sa1205"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP2CA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP2CB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11093160"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PP2A*"/> <clone/> <bbox w="80.0" h="40.0" x="26246.0" y="3290.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1205_ad_sa1201" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS, MODULE:TCR_SIGNALING, MODULE:SMAC</p> <p>PMID:11093160</p> <p>Following co-stimulation through accessory receptors (e.g. CD2 or CD28) - however, not following TCR/CD3 stimulation alone - cofilin undergoes dephosphorylation. The subcellular localization as well as the actin-binding activity of cofilin are regulated by the phosphorylation state of serine-3. Thus, only the dephosphorylated form of cofilin associates with the actin cytoskeleton and possesses the capability to translocate into the nucleus. Recently, LIM-kinase 1 was shown to inactivate cofilin through phosphorylation. Here, we have identified the functional counterparts of LIM-kinase 1: the serine/threonine phosphatases of type 1 and type 2A not only associate with cofilin but also dephosphorylate this 19-kDa protein and thereby mediate cofilin activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1205_ad_sa1201"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP2CA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP2CB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11093160"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PP2A*"/> <clone/> <bbox w="80.0" h="40.0" x="30346.0" y="7795.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa436_akt1_akt1_sa436" compartmentRef="s_id_akt1_akt1_ca3_akt1_akt1_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa436_akt1_akt1_sa436"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TSC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="13505.942" y="18749.0"/> <glyph class="state variable" id="_4317c808-af17-41c6-8850-de5b613e6372"> <state value="P" variable="S487"/> <bbox w="35.0" h="10.0" x="13568.442" y="18744.213"/> </glyph> <glyph class="state variable" id="_e33ef80e-43be-4f62-9d7f-90099a64b6eb"> <state value="" variable="T417"/> <bbox w="30.0" h="10.0" x="13491.435" y="18744.0"/> </glyph> <glyph class="state variable" id="_1c9f5768-f266-4ce7-9019-d1eebe1f1bd1"> <state value="" variable="S584"/> <bbox w="30.0" h="10.0" x="13568.028" y="18784.0"/> </glyph> <glyph class="state variable" id="_e7d0e26e-814e-4ced-927d-1d8af0862c5c"> <state value="" variable="T1047"/> <bbox w="35.0" h="10.0" x="13488.442" y="18783.72"/> </glyph> <glyph class="state 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<annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa1_wca1_wca3_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11266540"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22304967"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16169192"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15768032"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16007074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Repressor_complex)"/> <bbox w="101.0" h="187.0" x="21886.498" y="21793.125"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa9_wca1_wca3_sa9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transducin-like enhancer of split 1 (E(sp1) homolog Drosophila)</p> <p>"transducin-like enhancer of split 1 homolog of Drosophila E(sp1)"</p> <p>HUGO:TLE1 HGNC:11837 ENTREZ:7088 UNIPROT:Q04724 GENECARDS:TLE1 REACTOME:66083 KEGG:7088 ATLASONC:GC_TLE1 WIKI:TLE1 </p> <p>transducin-like enhancer of split 2 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE2 HGNC:11838 ENTREZ:7089 UNIPROT:Q04725 GENECARDS:TLE2 REACTOME:66085 KEGG:7089 WIKI:TLE2 </p> <p>transducin-like enhancer of split 3 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE3 HGNC:11839 ENTREZ:7090 UNIPROT:Q04726 GENECARDS:TLE3 REACTOME:405165 KEGG:7090 ATLASONC:GC_TLE3 WIKI:TLE3 </p> <p>transducin-like enhancer of split 4 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE4 HGNC:11840 ENTREZ:7091 UNIPROT:Q04727 GENECARDS:TLE4 REACTOME:66089 KEGG:7091 WIKI:TLE4 </p> <p>amino-terminal enhancer of split</p> <p>GRG5 TLE5</p> <p>HUGO:AES HGNC:307 ENTREZ:166 UNIPROT:Q08117 GENECARDS:AES KEGG:166 ATLASONC:GC_AES WIKI:AES </p> <p>transducin-like enhancer of split 6 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE6 HGNC:30788 ENTREZ:79816 UNIPROT:Q9H808 GENECARDS:TLE6 KEGG:79816 ATLASONC:GC_TLE6 WIKI:TLE6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>References:</p> <p>non-DNA binding transcription factor</p> <p>PMID:20925119</p> </body> </html> </notes> <label text="TLE*"/> <bbox w="80.0" h="40.0" x="21896.498" y="21842.125"/> <glyph class="state variable" id="_d3cc0afd-7e84-445d-997e-b4f14a1f333e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="21966.498" y="21837.125"/> </glyph> <glyph class="state variable" id="_26ffff06-8eca-4f3d-af4d-e81857deafbb"> <state value="" variable="S239"/> <bbox w="30.0" h="10.0" x="21881.99" y="21837.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa10_wca1_wca3_sa10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="21896.498" y="21801.125"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa6_wca1_wca3_sa6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="21901.498" y="21922.625"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa7_wca1_wca3_sa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 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x="26895.56" y="9836.0"/> <glyph class="macromolecule" id="s_id_rc_sa2645_rc_sa2645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutathione reductase</p> <p>HUGO:GSR HGNC:4623 ENTREZ:2936 UNIPROT:P00390</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="GSR"/> <bbox w="80.0" h="40.0" x="26901.56" y="9842.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2646_rc_sa2648"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="26916.56" y="9884.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2645_rc_sa2647"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutathione reductase</p> <p>HUGO:GSR HGNC:4623 ENTREZ:2936 UNIPROT:P00390</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="GSR"/> <bbox w="80.0" h="40.0" x="26911.56" y="9852.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2646_rc_sa2646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="26906.56" y="9874.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa110_wnc1_wnc2_sa110" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa110_wnc1_wnc2_sa110"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KPNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KPNB1"/> <bbox w="80.0" h="40.0" x="18598.56" y="18656.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2512_emtc_em_sa2512" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2512_emtc_em_sa2512"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP10*"/> <bbox w="61.0" h="19.0" x="1814.0" y="18800.0"/> <glyph class="unit of information" id="_afff8a6b-d537-4654-9326-313ef767647f"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1819.5" y="18795.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5055_rc_sa5055" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5055_rc_sa5055"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITPR3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITPR3"/> <bbox w="80.0" h="40.0" x="26589.06" y="13369.0"/> <glyph class="unit of information" id="_a09a05e5-5985-4741-ab3a-2520cbddec48"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26606.56" y="13364.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa967_in_sa967" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10542212, 10623821, 16424049, 14607900, 17404308, 11875494, 9834059, 11207245, 21191065, 15579430, 21220452, 21115385, 16713974 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL10, CASCADE:TGFB, CASCADE:MIF, CASCADE:CSF1, CASCADE:IL12, CASCADE:STING, CASCADE:TLR2_4, CASCADE:IFNAB, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IL4</p> <p>References:</p> <p>PMID:21115385</p> <p>IL10 is immunosuppressive cytokine.</p> <p>PMID:10623821, PMID:10623821</p> <p>IL10 expression in macrophages is assosiated</p> <p>with TAM (M2) phenotype.</p> <p>PMID:10542212</p> <p>IL10 promotes M2 phenotype of macrophages</p> <p> trough suppression of NFkB signaling</p> <p>and inhibition of synthesis of pro-inflammatory cytokines.</p> <p>PMID:11875494</p> <p>IL10 stimulates HO1 expression via MAPK p38 stimulation.</p> <p>PMID:16713974, PMID:14607900</p> <p>IL10 and Stat3 mediate feedback inhibition of TLR signaling. TLR2/TLR4 induces</p> <p>IL10 expression. IL10 inhibits exppression of TNF downstream of TLR.</p> <p>PMID:16713974</p> <p>Production of IL10 is partially ERK dependent.</p> <p>PMID:21191065</p> <p> regulatory effect of galectin-1 is mediated, in part, through its ability to induce, in an Id3 (inhibitor of DNA binding 3)-dependent manner, the expression of IL-10 in monocytes and MdDCs.</p> <p>At the same tyme IL10 siglaning also participates in ID3 upregulation via PI3K/AKT pathway</p> <p>PMID:17404308</p> <p>CSF1 induces IL10 and CCL2 mRNA expression in macrophages</p> <p>PMID:9834059</p> <p>NK cells stimulated by IL12 induces IL10 production.</p> <p>PMID:11207245</p> <p>IFNA induces IL10 production in Dcs (negative loop)</p> <p>PMID:21220452</p> <p>that IL-10 increased March1 mRNA by approximately six fold</p> <p>PMID:15579430</p> <p>Metastatic Melanoma Secreted IL-10 Down-Regulates CD1(CD1a, CD1b, CD1c, and CD1d) protein Molecules on Dendritic Cells in Metastatic Tumor Lesions (</p> <p>PMID:16424049</p> <p>IFNG induces INOS and IL10 expression and TGFB secretion in MDSC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa967_in_sa967"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10542212"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10623821"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16424049"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14607900"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17404308"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11875494"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9834059"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11207245"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21191065"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15579430"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21220452"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21115385"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL10"/> <bbox w="127.0" h="73.0" x="10379.375" y="5461.375"/> </glyph> <glyph class="complex" id="s_id_an_csa61_an_csa61" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11544274</p> <p>PMID:9655398</p> <p>PMID:24459205</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa61_an_csa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11544274"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9655398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24459205"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s554"/> <bbox w="95.0" h="100.0" x="4699.0" y="7436.0"/> <glyph class="simple chemical" id="s_id_an_sa482_an_sa482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="4714.0" y="7443.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa448_an_sa448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="4704.0" y="7476.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa94_ce_csa94" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RAD52:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:11571269, PMID:20081207</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa94_ce_csa94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11571269"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081207"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD52/RPA1/RPA2/RPA3"/> <bbox w="107.0" h="195.0" x="12164.473" y="15785.356"/> <glyph class="macromolecule" id="s_id_ce_sa728_ce_sa728"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="12175.544" y="15863.07"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa729_ce_sa729"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="12176.205" y="15822.864"/> <glyph class="state variable" id="_a90822b2-d6bb-4160-85cb-a96b6bd9727b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12168.705" y="15837.864"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa726_ce_sa726"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD52 homolog (S. cerevisiae)</p> <p>HUGO:RAD52, HGNC:9824, ENTREZ:5893, UNIPROT:P43351</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387</p> <p>RAD52 in SSA pathway is acting as RAD51 in HR. RAD52 is a key factor initating SSA pathway</p> <p>PMID:11571269, PMID:20081207</p> </body> </html> </notes> <label text="RAD52"/> <bbox w="80.0" h="40.0" x="12176.044" y="15914.07"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa727_ce_sa727"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="12176.544" y="15789.07"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa26_wnc1_wnc2_csa26" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CSE1L:Ca2+:Calmodulin*:KPNB1:LRRK2:NFAT*:NRON:PPP3CB:PPP3R*:TNPO1:Tubulin-_alpha_*</p> <p>References:</p> <p>s_wnc2_re47(MAP:survival):</p> <p>LRKK2 mediates binding of NFAT to NRON and other components, but this is independent of its kinase activity and independent of the phosphorylation status of NFAT</p> <p>PMID:21983832</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa26_wnc1_wnc2_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21983832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSE1L:Ca2+:Calmodulin*:KPNB1:LRRK2:NFAT*:NRON:PPP3CB:PPP3R*:TNPO1:Tubulin-α*"/> <bbox w="179.0" h="327.0" x="19255.56" y="18326.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa131_wnc1_wnc2_sa131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="19265.06" y="18418.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa128_wnc1_wnc2_sa128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="19265.06" y="18486.5"/> <glyph class="state variable" id="_87e2792f-d707-4654-9453-73576cecc4e9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19340.06" y="18501.5"/> </glyph> <glyph class="state variable" id="_a50d7e51-5c8c-4e25-a316-8ed303bc735d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19340.06" y="18509.785"/> </glyph> <glyph class="state variable" id="_a83a6277-1e54-40de-a066-19ea2fa8d531"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19340.06" y="18521.5"/> </glyph> <glyph class="state variable" id="_6648e566-11da-41a3-bad9-59e335b80d68"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19300.06" y="18481.5"/> </glyph> <glyph class="state variable" id="_a294981c-20a0-4fb6-a8d6-e8ce46e22d33"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19316.629" y="18481.5"/> </glyph> <glyph class="state variable" id="_a57f0717-40f0-4ddb-8514-25f3c6c35326"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19316.629" y="18521.5"/> </glyph> <glyph class="state variable" id="_054ef057-c239-4337-b770-ccb11fcc84fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19340.06" y="18481.5"/> </glyph> <glyph class="state variable" id="_30511fef-9f74-423e-8dfc-d721d7991ef7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19340.06" y="18493.215"/> </glyph> <glyph class="state variable" id="_6e4ba05c-1740-44ea-be25-ddc7b4df9e85"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19283.492" y="18481.5"/> </glyph> <glyph class="state variable" id="_f6a5d502-ac97-40f4-a0b0-2b46a683c72e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.064" y="18481.5"/> </glyph> <glyph class="state variable" id="_370cc91d-797e-43e5-8451-c206c02b8f4e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.064" y="18481.5"/> </glyph> <glyph class="state variable" id="_ddcd2e7a-2ead-4dfa-92ff-d9952fe5d715"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.06" y="18493.217"/> </glyph> <glyph class="state variable" id="_c23089b4-3672-4e9f-a0e7-af9a8ed8b24b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.06" y="18509.783"/> </glyph> <glyph class="state variable" id="_2dd9a117-4b38-41b1-8a59-db72bcac57a9"> <state value="" variable="S289"/> <bbox w="30.0" h="10.0" x="19263.717" y="18521.5"/> </glyph> <glyph class="state variable" id="_673cdd9b-a5bf-4366-86f0-e3e135cf79d6"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="19283.918" y="18521.5"/> </glyph> <glyph class="state variable" id="_68ccdd94-db00-449e-919c-856301cce43d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19300.06" y="18521.5"/> </glyph> <glyph class="state variable" id="_1335c7fd-87e5-4615-bd9e-901226355ff0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19283.492" y="18521.5"/> </glyph> <glyph class="state variable" id="_683cfe75-09b9-4ee2-986d-d17e003bde11"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.064" y="18521.5"/> </glyph> <glyph class="state variable" id="_06868d58-c709-44c2-909f-b5a4dd650a8e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.06" y="18501.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa130_wnc1_wnc2_sa130"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="19265.06" y="18376.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc2_sa148_wnc1_wnc2_sa148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>non-protein coding RNA, repressor of NFAT</p> <p>HUGO:NRON HGNC:37079 ENTREZ:641373 GENECARDS:NRON KEGG:641373 WIKI:NRON</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>non-protein coding RNA, repressor of NFAT</p> <p>HUGO:NRON HGNC:37079 ENTREZ:641373 GENECARDS:NRON KEGG:641373 WIKI:NRON</p> <p>Map modules:</p> </body> </html> </notes> <label text="NRON"/> <bbox w="90.0" h="25.0" x="19342.686" y="18424.0"/> <glyph class="unit of information" id="_ae4ec4ba-9d3f-43ec-99d2-ff6eb1c255d8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19377.686" y="18419.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa149_wnc1_wnc2_sa149"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CSE1 chromosome segregation 1-like (yeast)</p> <p>"chromosome segregation 1 (yeast homolog)-like"</p> <p>HUGO:CSE1L HGNC:2431 ENTREZ:1434 UNIPROT:P55060 GENECARDS:CSE1L KEGG:1434 ATLASONC:CSE1LID40159ch20q13 WIKI:CSE1L</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:CASPASES</p> </body> </html> </notes> <label text="CSE1L"/> <bbox w="80.0" h="40.0" x="19347.436" y="18452.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa150_wnc1_wnc2_sa150"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transportin 1</p> <p>"karyopherin (importin) beta 2", KPNB2</p> <p>HUGO:TNPO1 HGNC:6401 ENTREZ:3842 UNIPROT:Q92973 GENECARDS:TNPO1 REACTOME:57345 KEGG:3842 ATLASONC:GC_TNPO1 WIKI:TNPO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="TNPO1"/> <bbox w="80.0" h="40.0" x="19347.436" y="18496.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa133_wnc1_wnc2_sa133"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>karyopherin (importin) beta 1</p> <p>HUGO:KPNB1 HGNC:6400 ENTREZ:3837 UNIPROT:Q14974 GENECARDS:KPNB1 REACTOME:57343 KEGG:3837 ATLASONC:GC_KPNB1 WIKI:KPNB1</p> <p>Map modules:</p> </body> </html> </notes> <label text="KPNB1"/> <bbox w="80.0" h="40.0" x="19348.81" y="18335.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa132_wnc1_wnc2_sa132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="19292.81" y="18459.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa129_wnc1_wnc2_sa129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="19265.06" y="18333.0"/> <glyph class="state variable" id="_208d4ae9-7905-440a-856c-6a38b6ebc922"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="19330.06" y="18328.213"/> </glyph> <glyph class="state variable" id="_693f4e39-b116-45f5-b86f-f022ff372d5f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.06" y="18348.0"/> </glyph> <glyph class="state variable" id="_a95eff38-13f1-4f5c-ab50-c73d293df4d2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.064" y="18368.0"/> </glyph> <glyph class="state variable" id="_f1311434-6d3f-4f19-ae5d-a0cc42ce3ca4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19260.064" y="18328.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa152_wnc1_wnc2_sa152"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>leucine-rich repeat kinase 2</p> <p>HUGO:LRRK2 HGNC:18618 ENTREZ:120892 UNIPROT:Q5S007 GENECARDS:LRRK2 KEGG:120892 ATLASONC:GC_LRRK2 WIKI:LRRK2</p> <p>Map modules:</p> </body> </html> </notes> <label text="LRRK2"/> <bbox w="80.0" h="40.0" x="19263.56" y="18538.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa134_wnc1_wnc2_sa134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a </p> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt: Q71U36</p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt: P68363</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt: Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>tubulin, alpha 3d </p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt: Q6PEY2</p> <p>tubulin, alpha 4a </p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>tubulin, alpha 8 </p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt: Q9NY65</p> <p>Map modules:</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="19348.81" y="18377.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa41_wnc1_wnc2_csa41" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD*:ROR2:WNT3</p> <p>References:</p> <p>s_wnc2_re73:(MAP:survival) PMID:18762249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa41_wnc1_wnc2_csa41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18762249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD*:ROR2:WNT3"/> <bbox w="98.0" h="139.0" x="17345.06" y="19519.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa222_wnc1_wnc2_sa222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="17355.06" y="19538.0"/> <glyph class="state variable" id="_29d99728-0b8e-497d-a70f-a0e6064f7213"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="17420.06" y="19533.266"/> </glyph> <glyph class="state variable" id="_8f54327e-ac58-4cd0-8f9f-114e976a8a60"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17390.06" y="19583.0"/> </glyph> <glyph class="state variable" id="_13bed239-b202-4da1-804b-824bb0432529"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17350.064" y="19533.0"/> </glyph> <glyph class="state variable" id="_ca46540e-a100-4be8-9c3f-f5312041ccb0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17430.06" y="19583.0"/> </glyph> <glyph class="unit of information" id="_af4f9360-d47e-4e7b-b99f-54775be78422"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17372.56" y="19533.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa232_wnc1_wnc2_sa232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family, member 3</p> <p>INT4</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3</p> <p>Map modules:</p> </body> </html> </notes> <label text="WNT3"/> <bbox w="40.0" h="22.0" x="17375.06" y="19527.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa234_wnc1_wnc2_sa234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17355.06" y="19580.5"/> <glyph class="unit of information" id="_78c80a5b-5bfe-495f-8e60-e39792419389"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17372.56" y="19575.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa222_ad_sa222" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:26755705</p> <p>CD112R, Identification of CD112R as a novel checkpoint for human T cells</p> <p>Signal through CD112R inhibits TCR-mediated signal</p> <p>SHIP was strongly associated with CD112R in untreated Molt4 cells, and pervanadate treatment further increased this interaction (Fig. 2 J). SHP-1 and SHP-2 weakly associated with CD112R in untreated Molt4 cells, but these associations were enhanced greatly upon pervanadate treatment</p> <p>when CD112R was used as a competitor, the CD112–CD226 interaction was significantly inhibited even in a relatively low concentration. Thus, our competition studies indicate that CD112R and CD226 share a common binding site on CD112.</p> <p>CD112 interacts with CD112R to suppress T cell response </p> <p> the combinatory blockade of CD112R and TIGIT significantly promoted the secretion of cytokines, including IL-2, IL-5, IL-10, IL-13, and IFN-γ</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa222_ad_sa222"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26755705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PVRIG"/> <bbox w="80.0" h="50.0" x="25406.0" y="2510.0"/> <glyph class="state variable" id="_6df8b72b-802f-4d52-bff0-b8edfb3ae7ac"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25401.0" y="2530.0"/> </glyph> <glyph class="unit of information" id="_375d7395-d1b3-45cb-89ce-2399e7c58c3c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25423.5" y="2505.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa3_emtc_em_csa3" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LMO2:ZEB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="LMO2/ZEB1"/> <bbox w="71.0" h="64.0" x="4363.0" y="16503.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa51_emtc_em_sa51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>LIM domain only 2 (rhombotin-like 1)</p> <p>HUGO:LMO2, HGNC:6642, ENTREZ:4005, UNIPROT:P25791, GENECARDS:GC11M033880 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Complex ZEB1-LMO2</p> <p>PMID:20731704</p> <p>PMID:22349261</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LMO2"/> <bbox w="40.0" h="20.0" x="4378.0" y="16506.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa60_emtc_em_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger E-box binding homeobox 1</p> <p>HUGO:ZEB1, HGNC:11642, ENTREZ:6935, UNIPROT:P37275, GENECARDS:GC10P031648</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19839049</p> <p>ZEB1 inhibits MIR200</p> <p>PMID:21224848</p> <p>Feedback loops</p> <p>PMID:225147423</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZEB1"/> <bbox w="40.0" h="20.0" x="4378.0" y="16529.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa235_an_sa235" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Miigration"/> <bbox w="100.0" h="35.0" x="6282.0" y="7337.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa51_wnc1_wnc1_csa51" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:FZD*:PAR6*:PRICKLE1:RACK1*:ROR2:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>This ends the signalling of the PCP-MODULE</p> </body> </html> </notes> <label text="CK1ε*:CTHRC1:FZD*:PAR6*:PRICKLE1:RACK1*:ROR2:SYN4*:VANGL*:WNT*:β-Arrestin2*"/> <bbox w="400.0" h="201.0" x="16237.561" y="19179.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa366_wnc1_wnc1_sa366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16245.311" y="19254.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa363_wnc1_wnc1_sa363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16340.311" y="19200.5"/> <glyph class="unit of information" id="_2df54685-1153-4637-ab31-04c4990b9dec"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16357.811" y="19195.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa545_wnc1_wnc1_sa545"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="16529.06" y="19207.0"/> <glyph class="state variable" id="_9d8547e3-f3fc-4f50-a170-a28503c11d31"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="16594.06" y="19202.266"/> </glyph> <glyph class="state variable" id="_42ac8263-1e98-4e84-9f14-1bb8aab5a61f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16564.06" y="19252.0"/> </glyph> <glyph class="state variable" id="_b9438527-0b00-469b-88b3-1e357ff64d2a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16524.064" y="19202.0"/> </glyph> <glyph class="state variable" id="_a4e97c5e-b252-4dba-a5aa-b0a191849ac9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16604.06" y="19252.0"/> </glyph> <glyph class="unit of information" id="_c42c6588-ec88-4d0b-9643-df07327a8570"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16546.56" y="19202.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa354_wnc1_wnc1_sa354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="16438.06" y="19207.0"/> <glyph class="unit of information" id="_062c10a2-0ec6-499b-aa5e-84a8becd6135"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16455.56" y="19202.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa356_wnc1_wnc1_sa356"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16331.561" y="19258.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa355_wnc1_wnc1_sa355"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="16426.06" y="19184.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa544_wnc1_wnc1_sa544"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16250.561" y="19198.0"/> <glyph class="state variable" id="_e15aa782-9ba8-4ae0-bf9c-3e68c62fdc7a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16245.564" y="19193.0"/> </glyph> <glyph class="state variable" id="_434d6329-db91-427a-b7e0-276784b302d0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16325.561" y="19193.0"/> </glyph> <glyph class="state variable" id="_30c86304-3d59-475a-8872-63df01818bf2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16325.561" y="19218.0"/> </glyph> <glyph class="state variable" id="_779b13da-33a7-4443-a32d-c5c59ba8917f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16245.561" y="19218.0"/> </glyph> <glyph class="unit of information" id="_07cba7a4-8895-4b99-8d3c-006d05ba788e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16268.061" y="19193.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa362_wnc1_wnc1_sa362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="16469.31" y="19185.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa538_wnc1_wnc1_sa538"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16248.561" y="19307.0"/> <glyph class="state variable" id="_42c65246-eb5d-4539-b43b-fe95b0154c25"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16321.061" y="19302.0"/> </glyph> <glyph class="state variable" id="_e8ccb0aa-3fca-451c-941d-b4788392aa38"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16243.564" y="19302.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa539_wnc1_wnc1_sa539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16335.561" y="19304.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa364_wnc1_wnc1_sa364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="16417.31" y="19309.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa517_in_sa517" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ROCK1"/> <clone/> <bbox w="80.0" h="40.0" x="15289.75" y="3457.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa517_in_sa496" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ROCK1"/> <clone/> <bbox w="80.0" h="40.0" x="15296.25" y="3565.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1110_ce_sa1110" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1110_ce_sa1110"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KAT2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KAT2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EP300"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCAF*"/> <clone/> <bbox w="80.0" h="40.0" x="12459.77" y="13726.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1110_rc_sa2378" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<label text="MT-RNR2"/> <bbox w="90.0" h="25.0" x="20569.06" y="14952.5"/> <glyph class="unit of information" id="_566cdb2d-21ca-46da-a56c-ad622a9c1db9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20604.06" y="14947.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1622_ce_sa1622" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:DNA_REPAIR MODULE:HR MODULE:C_NHEJ MODULE:A_NHEJ MODULE:SSA References:PMID:23892398, PMID:23804754Node_Type:Generic ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:DNA_REPAIR MODULE:HR MODULE:C_NHEJ MODULE:A_NHEJ MODULE:SSA References:PMID:23892398, PMID:23804754Node_Type:Generic </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1622_ce_sa1622"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23804754"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23804754"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Double_strand_breaks_DSB*"/> <bbox w="245.0" h="22.0" x="12236.77" y="15241.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa263_emtc_em_csa263" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:Actinin*:BCAR1:FAK1*:PXN:Talin*:Vinculin*:ZYX:c-SRC*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:15688067</p> <p>Zyxin is an alpha-actinin- and stress-fibre- binding protein that is present in mature contacts</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa263_emtc_em_csa263"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15688067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Mature focal adhesion complex)"/> <bbox w="227.0" h="100.0" x="6156.0" y="18387.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1712_emtc_em_sa1712"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vinculin</p> <p>HUGO:VCL HGNC:12665 ENTREZ:7414 UNIPROT:P18206</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Vinculin*"/> <bbox w="46.0" h="16.0" x="6157.502" y="18391.246"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1713_emtc_em_sa1713"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actinin*</p> <p>actinin, alpha 1</p> <p>HUGO:ACTN1 HGNC:163 ENTREZ:87 UNIPROT:P12814 </p> <p>actinin, alpha 2</p> <p>HUGO:ACTN2 HGNC:164 ENTREZ:88 UNIPROT:P35609 </p> <p>actinin, alpha 4</p> <p>"focal segmental glomerulosclerosis 1", FSGS1</p> <p>HUGO:ACTN4 HGNC:166 ENTREZ:81 UNIPROT:O43707</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:15688067</p> <p>Alpha-actinin is a cytoskeletal protein that binds to viculin (VCL).</p> <p>Via this binding, Alpha-actinin crosslinks actin (in actomyosin stress fibres) and tether them to the focal contacts.</p> <p>Phosphorylation of alpha-actinin by FAK1 (PTK2) reduces the crossliking of stress fibres and prevents the maturation of focal contacts.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actinin*"/> <bbox w="62.0" h="18.0" x="6204.252" y="18391.246"/> <glyph class="state variable" id="_41527f89-ac32-47c0-8deb-3b16662b71e0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6260.9673" y="18386.246"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1717_emtc_em_sa1717"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>c-src tyrosine kinase</p> <p>HUGO:CSK HGNC:2444 ENTREZ:1445 UNIPROT:P41240</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:18829532</p> <p>PMID:9819392</p> <p>PTK6 and CSK both can phosphorylate ARHGAP35 (p190) at Y1105</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by CSK or by PTK6.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="c-SRC*"/> <bbox w="51.0" h="18.0" x="6236.902" y="18432.246"/> <glyph class="state variable" id="_fb0ec1db-d164-4fdb-9cc7-aae56d3cda5b"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="6280.402" y="18428.027"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1718_emtc_em_sa1718"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer anti-estrogen resistance 1</p> <p>HUGO:BCAR1 HGNC:971 ENTREZ:9564 UNIPROT:P56945</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCAR1"/> <bbox w="50.0" h="19.0" x="6236.502" y="18453.246"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1711_emtc_em_sa1711"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="6265.074" y="18390.48"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1715_emtc_em_sa1715"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Talin*</p> <p>talin 1</p> <p>HUGO:TLN1 HGNC:11845 ENTREZ:7094 UNIPROT:Q9Y490 </p> <p>talin 2</p> <p>HUGO:TLN2 HGNC:15447 ENTREZ:83660 UNIPROT:Q9Y4G6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Talin*"/> <bbox w="39.0" h="16.0" x="6196.502" y="18416.246"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1714_emtc_em_sa1714"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>paxillin</p> <p>HUGO:PXN HGNC:9718 ENTREZ:5829 UNIPROT:P49023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:16000375</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>PMID:15308668</p> <p>CRK bound to DOCK1 (so-called DOCK180) forms complex with phosphorylated paxillin.</p> <p>The complex is necessary for collagen-dependent cell migration, mainly through Rac1 activation.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PXN"/> <bbox w="35.0" h="29.0" x="6160.502" y="18408.496"/> <glyph class="state variable" id="_34b4e8a5-cd30-4dc4-9568-d63b3d5db1a9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6154.5483" y="18403.496"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1720_emtc_em_sa1720"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zyxin</p> <p>HUGO:ZYX HGNC:13200 ENTREZ:7791 UNIPROT:Q15942</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:15688067</p> <p>Zyxin is an alpha-actinin- and stress-fibre- binding protein that is present in mature contacts</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZYX"/> <bbox w="29.0" h="17.0" x="6254.818" y="18409.863"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1716_emtc_em_sa1716"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine kinase 2</p> <p>"PTK2 protein tyrosine kinase 2"</p> <p>HUGO:PTK2 HGNC:9611 ENTREZ:5747 UNIPROT:Q05397</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FAK1*"/> <bbox w="64.0" h="21.0" x="6165.152" y="18442.246"/> <glyph class="state variable" id="_178e8ba3-6ffa-4427-ae9f-959d81b13996"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="6155.152" y="18437.734"/> </glyph> <glyph class="state variable" id="_fc3855bd-942d-451f-89df-cf79d642fc34"> <state 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re87:(MAP:survival) PMID:10980707 PMID:12606575</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa37_wca1_wca3_csa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10980707"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12606575"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11964313 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSCASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15References:PMID:11964313INFG upregulates expression components of TLR signaling: MD2 (LY96) and MYD88. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 11964313 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSCASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15References:PMID:11964313INFG upregulates expression components of TLR signaling: MD2 (LY96) and MYD88. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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<bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22035837"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PtdSer"/> <bbox w="70.0" h="25.0" x="15685.0" y="917.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa3_akt1_akt1_csa3" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GF:RTK*:p110*:p85*</p> <p>References:</p> <p>s_akt1_re2(MAP:survival):</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> <p>s_akt1_re3(MAP:survival):</p> <p>PMID:15534002</p> <p>PMID:9779982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa3_akt1_akt1_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19568798"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GF:RTK*:p110*:p85*"/> <bbox w="201.0" h="178.0" x="12247.97" y="17606.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa32_akt1_akt1_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="p110*"/> <bbox w="80.0" h="40.0" x="12352.561" y="17723.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_akt1_akt1_sa381_akt1_akt1_sa381"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 GENECARDS:EGFR REACTOME:54208 KEGG:1956 ATLASONC:GC_EGFR WIKI:EGFR </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 GENECARDS:ERBB2 REACTOME:54422 KEGG:2064 ATLASONC:ERBB2ID162ch17q11 WIKI:ERBB2 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860 GENECARDS:ERBB3 REACTOME:403310 KEGG:2065 ATLASONC:ERBB3ID40479ch12q13 WIKI:ERBB3 </p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 GENECARDS:ERBB4 REACTOME:54426 KEGG:2066 ATLASONC:GC_ERBB4 WIKI:ERBB4 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 GENECARDS:FGFR1 REACTOME:402793 KEGG:2260 ATLASONC:FGFR1113 WIKI:FGFR1 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 GENECARDS:FGFR2 REACTOME:403305 KEGG:2263 ATLASONC:FGFR2ID40570ch10q26 WIKI:FGFR2 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 GENECARDS:FGFR3 REACTOME:403340 KEGG:2261 ATLASONC:FGFR99 WIKI:FGFR3 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 GENECARDS:FGFR4 REACTOME:54820 KEGG:2264 ATLASONC:FGFR4ID512ch5q35 WIKI:FGFR4 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 GENECARDS:FLT1 REACTOME:403120 KEGG:2321 ATLASONC:GC_FLT1 WIKI:FLT1 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 GENECARDS:FLT3 KEGG:2322 ATLASONC:FLT3ID144 WIKI:FLT3 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 GENECARDS:FLT4 REACTOME:67176 KEGG:2324 ATLASONC:GC_FLT4 WIKI:FLT4 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 GENECARDS:PDGFRA REACTOME:61602 KEGG:5156 ATLASONC:GC_PDGFRA WIKI:PDGFRA </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619 GENECARDS:PDGFRB REACTOME:61600 KEGG:5159 ATLASONC:PDGFRBID21ch5q32 WIKI:PDGFRB </p> <p>A generic name for this family of receptors that contain a tyrosine kinase activity.</p> <p>rhotekin</p> <p>HUGO:RTKN HGNC:10466 ENTREZ:6242 UNIPROT:Q9BST9 GENECARDS:RTKN ATLASONC:GC_RTKN WIKI:RTKN</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="90.0" h="139.0" x="12256.561" y="17632.5"/> <glyph class="unit of information" id="_6178ce10-4bf0-409b-81fd-d88fb570717a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="12291.561" y="17627.5"/> </glyph> <glyph class="state variable" id="_8d9a7ecf-f52b-4250-b8c3-91897607d217"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12339.061" y="17725.79"/> </glyph> <glyph class="state variable" id="_7266c931-dd97-44ad-ae60-c33713c2ab45"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12341.561" y="17725.79"/> </glyph> <glyph class="state variable" id="_d4f7ccd6-3760-4496-b8d7-0c21a7907fb2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12339.061" y="17697.0"/> </glyph> <glyph class="unit of information" id="_0f241670-f42f-446a-9eff-5c75f8dcceb1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12279.061" y="17627.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa31_akt1_akt1_sa31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <bbox w="80.0" h="40.0" x="12352.561" y="17683.0"/> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa7_akt1_akt1_sa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GF"/> <bbox w="70.0" h="25.0" x="12262.878" y="17624.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa472_ca_sa472" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CORE MODULE:CAF </p> <p>References:</p> <p>PMID:25732845 PMID:16139227 </p> <p>Akt-Girdin signaling in cancer-associated fibroblasts contributes to tumor progression, probably via regulation of fibroblast migration.</p> <p>Phosphorylation of Girdin by Akt Is Required for Cell Migration.</p> <p>Girdin Is Required for the Formation of Actin Stress Fibers and Cell Migration</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa472_ca_sa472"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCDC88A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25732845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16139227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCDC88A"/> <bbox w="80.0" h="40.0" x="4460.0" y="3020.0"/> <glyph class="state variable" id="_9a2925cd-05d0-4e2b-aa67-cf55e1691c9f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4452.5" y="3035.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa45_mo_csa45" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Calmodulin/Ca2+"/> <bbox w="100.0" h="110.0" x="2255.0" y="9046.0"/> <glyph class="simple chemical" id="s_id_mo_sa481_mo_sa481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="2292.5" y="9103.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa482_mo_sa482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>HUGO:CALM1</p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2</p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="2265.0" y="9056.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1634_rc_sa1634" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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class="complex" id="s_id_ca_csa81_ca_csa81" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ELC_MYOSIN_II*:MYH*:RLC_MYOSIN_II*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:TGFB, CASCADE:LIF</p> <p>PMID:18037882</p> <p>Rho–ROCK function is required in leading fibroblasts probably downstream of integrins a5b1 and a3b1</p> <p>Actomyosin contractility in CAFs, as in many other cell types, results from phosphorylation of MLC2 in myosin II downstream of the Rho kinases ROCK I and II</p> <p>PMID:24857661</p> <p>Long-term stimulation of both TGF-β and LIF cytokines also upregulated RhoA small GTPase and myosin light chain 2 (MLC2) proteins, leading to an increase in MLC2 phosphorylation at ser19, which attests for an increased activity (Figure S2D). Finally, forced expression of an active form of ROCK (ROCK-ER) (Croft and Olson, 2006) following 4-hydroxytamoxifen (4OHT) treatment was sufficient to induce hDF contractility (Figure S2E), proinvasive capacity (Figures S2Fa and b), and MLC2 phosphorylation (Figure S2G) and also rescued the inhibitory effect of P6 or anti-LIF antibody treatments under TGF-β1 stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa81_ca_csa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18037882"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24857661"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYOSIN_II"/> <bbox w="100.0" h="170.0" x="7250.0" y="3715.0"/> <glyph class="macromolecule" id="s_id_ca_sa684_ca_sa684"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myosin light chain 9</p> <p>HUGO:MYL9 hgnc_id:HGNC:15754 HGNC:15754 ENTREZ:10398 UNIPROT:P24844 </p> <p>myosin light chain 12A</p> <p>HUGO:MYL12A hgnc_id:HGNC:16701 HGNC:16701 ENTREZ:10627 UNIPROT:P19105 </p> <p>myosin light chain 12B</p> <p>HUGO:MYL12B hgnc_id:HGNC:29827 HGNC:29827 ENTREZ:103910 UNIPROT:O14950</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p> </p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B.</p> <p>MLCK and ROCK phosphorylares RLC</p> <p>PMID:21840487 </p> <p>JAK1 expression with four different siRNAs reduced MLC2 phosphorylation</p> <p>PMID:24857661</p> <p>Long-term stimulation of both TGF-β and LIF cytokines also upregulated RhoA small GTPase and myosin light chain 2 (MLC2) proteins, leading to an increase in MLC2 phosphorylation at ser19, which attests for an increased activity (Figure S2D). Finally, forced expression of an active form of ROCK (ROCK-ER) (Croft and Olson, 2006) following 4-hydroxytamoxifen (4OHT) treatment was sufficient to induce hDF contractility (Figure S2E), proinvasive capacity (Figures S2Fa and b), and MLC2 phosphorylation (Figure S2G) and also rescued the inhibitory effect of P6 or anti-LIF antibody treatments under TGF-β1 stimulation</p> </body> </html> </notes> <label text="RLC_MYOSIN_II*"/> <bbox w="80.0" h="40.0" x="7260.0" y="3815.0"/> <glyph class="state variable" id="_09a8ce04-271b-4b53-9048-264fa71e979a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7252.5" y="3830.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ca_sa682_ca_sa682"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myosin heavy chain 9</p> <p>HUGO:MYH9 hgnc_id:HGNC:7579 HGNC:7579 ENTREZ:4627 UNIPROT:P35579 </p> <p>myosin heavy chain 10</p> <p>HUGO:MYH10 hgnc_id:HGNC:7568 HGNC:7568 ENTREZ:4628 UNIPROT:P35580 </p> <p>myosin heavy chain 14</p> <p>HUGO:MYH14 hgnc_id:HGNC:23212 HGNC:23212 ENTREZ:79784 UNIPROT:Q7Z406</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B.</p> <p>MLCK and ROCK phosphorylares RLC</p> </body> </html> </notes> <label text="MYH*"/> <bbox w="86.0" h="46.0" x="7257.0" y="3727.0"/> <glyph class="unit of information" id="_5331c32e-a846-48f7-aaeb-9e4e7e3eb85e"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="7290.0" y="3722.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa683_ca_sa683"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myosin light chain 6</p> <p>HUGO:MYL6 hgnc_id:HGNC:7587 HGNC:7587 ENTREZ:4637 UNIPROT:P60660 </p> <p>myosin light chain 6B</p> <p>HUGO:MYL6B hgnc_id:HGNC:29823 HGNC:29823 ENTREZ:140465 UNIPROT:P14649</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p> </p> <p>B</p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B</p> </body> </html> </notes> <label text="ELC_MYOSIN_II*"/> <bbox w="80.0" h="40.0" x="7260.0" y="3770.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa566_rc_sa566" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa566_rc_sa566"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APAF1"/> <bbox w="70.0" h="25.0" x="21680.82" y="16254.598"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2095_rc_sa2095" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2095_rc_sa2095"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RRM2B"/> <bbox w="70.0" h="25.0" x="21275.215" y="16258.558"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa697_rc_sa697" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa697_rc_sa697"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT5A"/> <bbox w="90.0" h="25.0" x="23662.56" y="16016.5"/> <glyph class="unit of information" id="_ff1e8b6c-f643-4820-aa45-1517c274ea80"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23697.56" y="16011.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa12_akt1_akt1_sa12" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1-Phosphatidyl-D-myo-inositol 4,5-bisphosphate</p> <p>CAS:N/A PUBCHEM:7726, CHEBI:18348, KEGGCOMPOUND:C04637</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>s_akt1_re4(MAP:survival):</p> <p>PMID:12040186</p> <p>PMID:16288286</p> <p>s_akt1_re3(MAP:survival):</p> <p>PMID:15534002</p> <p>PMID:9779982</p> <p>PMID:14585353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa12_akt1_akt1_sa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16288286"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="12650.061" y="17615.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1287_in_sa1287" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CSF3"/> <bbox w="70.0" h="25.0" x="12805.0" y="5257.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa239_ad_sa239" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CASCADE:TCR</p> <p>PMID:3263576</p> <p>CD4 and CD8 are cell-surface glycoproteins expressed on mutually exclusive subsets of peripheral T cells. T cells that express CD4 have T-cell antigen receptors that are specific for antigens presented by major histocompatibility complex class II molecules, whereas T cells that express CD8 have receptors specific for antigens presented by MHC class I molecules</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa239_ad_sa239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD8A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD8B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:3263576"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD8*"/> <bbox w="80.0" h="50.0" x="28726.0" y="2525.0"/> <glyph class="unit of information" id="_651730bc-42a6-408e-9abc-6b935373bbd9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28743.5" y="2520.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa30_akt1_akt1_csa30" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> <p>References:</p> <p>s_akt1_re56(MAP:survival):</p> <p>PMID:19864431</p> <p>PMID:12150925</p> <p>PMID:15755954</p> <p>s_akt1_re57(MAP:survival):</p> <p>PMID:18372248</p> <p>PMID:20138985</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa30_akt1_akt1_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19864431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12150925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15755954"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372248"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138985"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="171.0" h="240.0" x="14095.811" y="19362.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa173_akt1_akt1_sa173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="14108.311" y="19419.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa175_akt1_akt1_sa175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="153.0" h="63.0" x="14105.311" y="19517.0"/> <glyph class="state variable" id="_93a80701-7771-4a57-ad16-542aa9682eb7"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="14092.071" y="19512.0"/> </glyph> <glyph class="state variable" id="_d25739e5-b195-4b76-b1b9-4374861bc096"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="14085.311" y="19573.342"/> </glyph> <glyph class="state variable" id="_dde85f68-6851-45ca-94cb-a9d1f6318b49"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="14234.273" y="19512.0"/> </glyph> <glyph class="state variable" id="_ec238526-1829-4a65-947a-bbdaf1e8c417"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="14090.311" y="19543.5"/> </glyph> <glyph class="state variable" id="_bbbb4980-12bb-4941-b8bb-ff5d88e6dd59"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="14239.628" y="19575.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa176_akt1_akt1_sa176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="150.0" h="42.0" x="14104.561" y="19366.0"/> <glyph class="state variable" id="_993077f3-c894-48ca-853a-3e3b08831558"> <state value="" variable="S183"/> <bbox w="30.0" h="10.0" x="14090.484" y="19361.0"/> </glyph> <glyph class="state variable" id="_8cc41fd6-0635-4f84-afb0-1f0aca13375b"> <state value="" variable="S212"/> <bbox w="30.0" h="10.0" x="14239.561" y="19362.04"/> </glyph> <glyph class="state variable" id="_973235a4-41c6-4939-990b-a17eff2caf9d"> <state value="" variable="S221"/> <bbox w="30.0" h="10.0" x="14239.561" y="19402.088"/> </glyph> <glyph class="state variable" id="_ec0ddd22-fda7-4cbb-91fe-05d9ce5f6ce5"> <state value="" variable="T246"/> <bbox w="30.0" h="10.0" x="14089.561" y="19398.926"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa524_akt1_akt1_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="14183.561" y="19416.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa174_akt1_akt1_sa174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="140.0" h="46.0" x="14112.311" y="19462.5"/> <glyph class="state variable" id="_9a0a4ebf-1d02-4089-a833-eeaa2d810d52"> <state value="P" variable="S696"/> <bbox w="35.0" h="10.0" x="14094.811" y="19480.463"/> </glyph> <glyph class="state variable" id="_ad06c7e8-6b91-4728-a293-9f1cfe2b8ede"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="14194.472" y="19457.5"/> </glyph> <glyph class="state variable" 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E2F1"/> <clone/> <bbox w="90.0" h="25.0" x="27320.06" y="21822.5"/> <glyph class="unit of information" id="_439723e7-30d2-4418-89f0-899d01e95683"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27355.06" y="21817.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa13_shh1_shh2_csa13" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JUN:promoter_region</p> <p>References:</p> <p>s_shh2_re84:(MAP:survival) PMID:19219074</p> <p>s_shh2_re22:(MAP:survival) PMID:18813803 PMID:16880536 PMID:19190345</p> <p>s_shh2_re36:(MAP:survival) PMID:16880536 PMID:18813803 PMID:19190345</p> <p>s_shh2_re42:(MAP:survival) PMID:16396903 PMID:20107231 PMID:16054035 PMID:16406505 PMID:16880536 PMID:17000779</p> <p>s_shh2_re86:(MAP:survival) PMID:19190345 PMID:16880536</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa13_shh1_shh2_csa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19219074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396903"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20107231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16406505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17000779"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(JUN_gene)"/> <bbox w="100.0" h="120.0" x="26229.06" y="20427.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa134_shh1_shh2_sa134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="26246.998" y="20491.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa133_shh1_shh2_sa133"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="26240.717" y="20448.0"/> <glyph class="state variable" id="_0b4ede88-9004-4663-b148-f417c05a27ca"> <state value="P" variable="S63"/> <bbox w="30.0" h="10.0" x="26226.209" y="20443.0"/> </glyph> <glyph class="state variable" id="_cf5bc290-d985-431e-9ff3-f760d55e80a8"> <state value="P" variable="S73"/> <bbox w="30.0" h="10.0" x="26265.748" y="20443.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa807_ca_sa807" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:CASCADE:TGFBPMID:18423981 Collagen type I maturation enzyme prolyl-4-hydroxylase (P4H) is induced by TGFB signaling on protein level.. ----- content merged by Celldesigner to SBGN-ML translation ------ References:CASCADE:TGFBPMID:18423981 Collagen type I maturation enzyme prolyl-4-hydroxylase (P4H) is induced by TGFB signaling on protein level.. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa807_ca_sa807"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:P4HTM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18423981"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:P4HTM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18423981"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="P4HTM"/> <bbox w="70.0" h="25.0" x="5265.0" y="4227.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1831_in_sa1831" compartmentRef="s_id_in_ca12_in_ca12"> <label text="STAT5*"/> <bbox w="80.0" h="40.0" x="22755.0" y="5300.0"/> <glyph class="state variable" id="_bf2d52dd-686b-40ad-99d9-1799b4066c02"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22750.0" y="5315.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa12_rc_csa12" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IDH2:Mg2+</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="IDH2"/> <bbox w="102.0" h="90.0" x="18614.81" y="14895.0"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3418_rc_sa3418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>isocitrate dehydrogenase 2 (NADP+), mitochondrial</p> <p>HUGO:IDH2 HGNC:5383 ENTREZ:3418 UNIPROT:P48735</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="IDH2"/> <bbox w="86.0" h="46.0" x="18620.81" y="14918.0"/> <glyph class="unit of information" id="_fbd86890-01b3-4e05-8788-5eba0355153e"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18653.81" y="14913.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3419_rc_sa3419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="18681.322" y="14899.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa4_wca1_wca3_csa4" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HDAC1_2*:TLE*</p> <p>References:</p> <p>s_wca3_re6(MAP:survival):</p> <p>PMID:16169192</p> <p>B-catenin competes with TLE for Lef-1</p> <p>PMID:15768032</p> <p>CBP-and P300-mediated transcription different cell fates</p> <p>PMID:20530697</p> <p>(phosphorylated) C-JUN can bind to TCF4</p> <p>PMID:18347071 PMID:16007074</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa4_wca1_wca3_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16169192"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15768032"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16007074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC1_2*:TLE*"/> <bbox w="100.0" h="120.0" x="21630.498" y="22290.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa24_wca1_wca3_sa24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transducin-like enhancer of split 1 (E(sp1) homolog Drosophila)</p> <p>"transducin-like enhancer of split 1 homolog of Drosophila E(sp1)"</p> <p>HUGO:TLE1 HGNC:11837 ENTREZ:7088 UNIPROT:Q04724 GENECARDS:TLE1 REACTOME:66083 KEGG:7088 ATLASONC:GC_TLE1 WIKI:TLE1 </p> <p>transducin-like enhancer of split 2 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE2 HGNC:11838 ENTREZ:7089 UNIPROT:Q04725 GENECARDS:TLE2 REACTOME:66085 KEGG:7089 WIKI:TLE2 </p> <p>transducin-like enhancer of split 3 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE3 HGNC:11839 ENTREZ:7090 UNIPROT:Q04726 GENECARDS:TLE3 REACTOME:405165 KEGG:7090 ATLASONC:GC_TLE3 WIKI:TLE3 </p> <p>transducin-like enhancer of split 4 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE4 HGNC:11840 ENTREZ:7091 UNIPROT:Q04727 GENECARDS:TLE4 REACTOME:66089 KEGG:7091 WIKI:TLE4 </p> <p>amino-terminal enhancer of split</p> <p>GRG5 TLE5</p> <p>HUGO:AES HGNC:307 ENTREZ:166 UNIPROT:Q08117 GENECARDS:AES KEGG:166 ATLASONC:GC_AES WIKI:AES </p> <p>transducin-like enhancer of split 6 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE6 HGNC:30788 ENTREZ:79816 UNIPROT:Q9H808 GENECARDS:TLE6 KEGG:79816 ATLASONC:GC_TLE6 WIKI:TLE6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>References:</p> <p>non-DNA binding transcription factor</p> <p>PMID:20925119</p> </body> </html> </notes> <label text="TLE*"/> <bbox w="80.0" h="40.0" x="21640.498" y="22344.0"/> <glyph class="state variable" id="_8c7a36ca-a7b2-4165-8c0c-127ca0eba547"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="21710.498" y="22339.0"/> </glyph> <glyph class="state variable" id="_11c58843-164d-436b-b863-1350e79dbb1b"> <state value="" variable="S239"/> <bbox w="30.0" h="10.0" x="21625.99" y="22339.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa23_wca1_wca3_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="21640.498" y="22303.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa94_ca_csa94" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR320A:MMP9</p> </body> </html> </notes> <label text="ca_s4496"/> <bbox w="100.0" h="120.0" x="4795.0" y="4531.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa789_ca_sa789"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MMP9Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. </body> </html> </notes> <label text="MMP9"/> <bbox w="90.0" h="25.0" x="4800.0" y="4578.5"/> <glyph class="unit of information" id="_6767a641-e67c-4ddc-8f52-d6cdf2b40b7e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4835.0" y="4573.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa788_ca_sa788"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR320AMap modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences </body> </html> </notes> <label text="MIR320A"/> <bbox w="90.0" h="25.0" x="4800.0" y="4548.5"/> <glyph class="unit of information" id="_7a389341-4a33-45b1-93df-13e18b067a7b"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="4830.0" y="4543.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa504_an_sa504" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Vascular stability"/> <bbox w="120.0" h="35.0" x="4954.0" y="7945.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3383_rc_sa3383" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3383_rc_sa3383"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PFKFB*"/> <bbox w="86.0" h="46.0" x="18806.06" y="9686.0"/> <glyph class="unit of information" id="_3b0ed040-51a5-4c8a-93a9-73b63204fd70"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18839.06" y="9681.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa21_akt1_akt1_csa21" compartmentRef="s_id_akt1_akt1_ca3_akt1_akt1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TSC1:TSC2</p> </body> </html> </notes> <label text="(TSC)"/> <bbox w="100.0" h="125.0" x="13892.282" y="18629.535"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa116_akt1_akt1_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 1</p> <p>HUGO:TSC1 HGNC:12362 ENTREZ:7248 UNIPROT:Q92574 GENECARDS:TSC1 REACTOME:66499 KEGG:7248 ATLASONC:TSC1ID183 WIKI:TSC1 </p> <p>Q92574</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="13901.282" y="18635.535"/> <glyph class="state variable" id="_500c6474-7bca-48a8-a11d-3d60081e03d0"> <state value="" variable="T417"/> <bbox w="30.0" h="10.0" x="13886.774" y="18630.535"/> </glyph> <glyph class="state variable" id="_13c9a8e3-281e-4614-854f-8a00332c5855"> <state value="" variable="S584"/> <bbox w="30.0" h="10.0" x="13963.368" y="18670.535"/> </glyph> <glyph class="state variable" id="_0800253f-dab3-4c37-8b11-6017dda27bda"> <state value="" variable="T1047"/> <bbox w="35.0" h="10.0" x="13883.782" y="18670.258"/> </glyph> <glyph class="state variable" id="_3125adec-141b-44d1-a32e-a93766896742"> <state value="" variable="S511"/> <bbox w="30.0" h="10.0" x="13966.282" y="18650.535"/> </glyph> <glyph class="state variable" id="_521cafb0-b14d-4042-9729-c95016e02682"> <state value="" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa609_ca_sa609"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB5"/> <bbox w="80.0" h="50.0" x="7950.0" y="2755.0"/> <glyph class="state variable" id="_b293187b-9c5e-4882-b4f6-1852fe1603dc"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="7940.0" y="2774.9602"/> </glyph> <glyph class="unit of information" id="_1e7dfd36-f095-4be7-838e-8671d6d120bf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7967.5" y="2750.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4488_rc_sa4488" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> <p>PMID:12546687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4488_rc_sa4488"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Low AMP/ATP ratio"/> <bbox w="132.0" h="31.0" x="25699.06" y="11606.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa540_rc_csa540" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AIM2:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa540_rc_csa540"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIM2:AIM2:PYCARD"/> <bbox w="120.0" h="145.0" x="28629.06" y="9606.5"/> <glyph class="macromolecule" id="s_id_rc_sa5409_rc_sa5414"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:AIM2</p> <p>synonyms:absent in melanoma 2</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="AIM2"/> <bbox w="80.0" h="50.0" x="28654.06" y="9631.5"/> <glyph class="unit of information" id="_68c34b70-78f2-4bf5-8abd-44f24106f51f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28671.56" y="9626.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5409_rc_sa5409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:AIM2</p> <p>synonyms:absent in melanoma 2</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="AIM2"/> <bbox w="80.0" h="50.0" x="28644.06" y="9621.5"/> <glyph class="unit of information" id="_03228f3f-966f-4fb4-9b14-842d88a2d9e6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28661.56" y="9616.5"/> </glyph> 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</rdf:RDF> </annotation> </extension> <label text="PIRH2*"/> <clone/> <bbox w="80.0" h="40.0" x="13321.061" y="20602.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2840_in_sa2840" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NEUTROPHIL</p> <p>MODULE:MARKERS_DC, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:MIF, CASCADE:IL3, CASCADE:IL10, CASCADE:TLR2_4, CASCADE:TNF, CASCADE:FLT3LG, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:20805416</p> <p>Expression of CD86, a critical costimulatory molecule for efficient T cell priming, is enhanced in activated MDSC during mTOR inhibition</p> <p>This phenotype was not observed in moDCs, in which surface expression of CD80 and CD86 was inhibited by rapamycin.</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p>FLT3L induces Ag-presenting ability of Dcs. Probably via induction of surface expression of class II MHC and CD86.</p> <p>PMID:22076556, PMID:21220452 , PMID:24218453</p> <p>CD83 increases MHC II and CD86 on dendritic cells by opposing IL-10-driven MARCH1-mediated ubiquitination and degradation.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> PMID:15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:9359474</p> <p>DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p> PMID:11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. 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id="_b4bc8f1a-ae3c-4421-b21c-adbf851c8fd2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25640.629" y="9774.0"/> </glyph> <glyph class="state variable" id="_311abb4f-a7f4-4524-a5b6-7e4dc3f104f8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25624.06" y="9814.0"/> </glyph> <glyph class="state variable" id="_f7343605-50d5-43ec-88b5-620bd1cc7a05"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25607.492" y="9774.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1969_emtc_em_sa1969" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1969_emtc_em_sa1969"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Endothelin1*"/> <bbox w="93.0" h="17.0" x="5208.0" y="17256.5"/> <glyph class="unit of information" id="_c75d4947-c407-4cb6-978e-769ceb7d0963"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5244.5" y="17251.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa99_rc_csa99" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HIF1A:HIF1B*</p> </body> </html> </notes> <label text="HIF1aHIF1b"/> <bbox w="98.0" h="130.0" x="23462.81" y="16549.0"/> <glyph class="macromolecule" id="s_id_rc_sa1189_rc_sa1189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aryl hydrocarbon receptor nuclear translocator</p> <p>HUGO:ARNT HGNC:700 ENTREZ:405 UNIPROT:P27540</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:HIF1beta</p> </body> </html> </notes> <label text="HIF1B*"/> <bbox w="80.0" h="40.0" x="23470.31" y="16559.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1188_rc_sa1188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)</p> <p>HUGO:HIF1A HGNC:4910 ENTREZ:3091 UNIPROT:Q16665</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="80.0" h="40.0" x="23470.31" y="16609.0"/> <glyph class="state variable" id="_97e153b6-30d8-4b23-90b3-86d4660ef56e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23521.879" y="16604.0"/> </glyph> <glyph class="state variable" id="_320c6250-b389-4905-b862-2e973c87b090"> <state value="" variable="N803"/> <bbox w="30.0" h="10.0" x="23477.812" y="16644.0"/> </glyph> <glyph class="state variable" id="_7110e40f-9e9f-42ab-bf36-41414d23e542"> <state value="" variable="P564"/> <bbox w="30.0" h="10.0" x="23478.906" y="16604.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa822_rc_sa822" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15846 KEGGCOMPOUND:C00003 CAS:53-84-9</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NAD+"/> <clone/> <bbox w="70.0" h="25.0" x="18756.56" y="10351.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa822_rc_sa2321" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15846 KEGGCOMPOUND:C00003 CAS:53-84-9</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NAD+"/> <clone/> <bbox w="70.0" h="25.0" x="27770.06" y="10644.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa822_rc_sa893" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15846 KEGGCOMPOUND:C00003 CAS:53-84-9</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NAD+"/> <clone/> <bbox w="70.0" h="25.0" x="18772.777" y="11251.398"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa822_rc_sa5351" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15846 KEGGCOMPOUND:C00003 CAS:53-84-9</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NAD+"/> <clone/> <bbox w="70.0" h="25.0" x="25946.56" y="10235.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa822_rc_sa5510" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15846 KEGGCOMPOUND:C00003 CAS:53-84-9</p> <p>References:</p> <p>charge:+1</p> </body> </html> </notes> <label text="NAD+"/> <clone/> <bbox w="70.0" h="25.0" x="29134.06" y="9666.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa337_te_sa337" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>makorin ring finger protein 1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:15805468</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa337_te_sa337"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MKRN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15805468"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MKRN1"/> <bbox w="80.0" h="40.0" x="4472.949" y="21169.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2751_in_sa2751" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IDO1"/> <bbox w="90.0" h="25.0" x="12745.0" y="5827.5"/> <glyph class="unit of information" id="_6a76a439-2b18-4490-b8c1-214fb11c9b2d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12780.0" y="5822.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa275_mo_sa275" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="Actin fibers disassembly"/> <bbox w="200.0" h="25.0" x="5977.0" y="11079.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3438_rc_sa3438" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="Mitochondrial~DNA damage"/> <bbox w="110.0" h="45.0" x="21041.31" y="14806.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa914_ce_sa914" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa914_ce_sa914"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLK1"/> <bbox w="80.0" h="40.0" x="12359.473" y="11297.101"/> <glyph class="state variable" id="_2a79267d-0876-4189-93d1-8d63620bc36e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12354.473" y="11312.101"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa10_akt1_akt1_csa10" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GAB1:GF:GRB2:PI3,4,5-P3:RAS*:RTK*:SOS*:p110*:p85*</p> <p>References:</p> <p>s_akt1_re11(MAP:survival):</p> <p>PMID:15584861</p> <p>PMID:10648629</p> <p>s_akt1_re3(MAP:survival):</p> <p>PMID:15534002</p> <p>PMID:9779982</p> <p>PMID:14585353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa10_akt1_akt1_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15584861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648629"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAB1:GF:GRB2:PI3,4,5-P3:RAS*:RTK*:SOS*:p110*:p85*"/> <bbox w="282.0" h="232.0" x="13082.061" y="17612.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa45_akt1_akt1_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GRB2-associated binding protein 1</p> <p>HUGO:GAB1 HGNC:4066 ENTREZ:2549 UNIPROT:Q13480 GENECARDS:GAB1 REACTOME:147726 ATLASONC:GC_GAB1 WIKI:GAB1 </p> <p>GRB2-associated binding protein 2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313945</p> </body> </html> </notes> <label text="GAB1"/> <bbox w="80.0" h="40.0" x="13271.561" y="17699.5"/> <glyph class="state variable" id="_4a81b5d3-c21b-4930-bc8c-afb98a14b7f0"> <state value="P" variable="Y977"/> <bbox w="35.0" h="10.0" x="13254.553" y="17694.5"/> </glyph> <glyph class="state variable" id="_b5ea6c6f-208a-47da-b068-e453ded92cd8"> <state value="P" variable="Y989"/> <bbox w="35.0" h="10.0" x="13334.061" y="17694.713"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa38_akt1_akt1_sa38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-3,4,5-triphosphate</p> <p>CAS:N/A PUBCHEM:8260 CHEBI:16618 KEGGCOMPOUND:C05981</p> <p>Map modules:</p> </body> </html> </notes> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="13274.561" y="17673.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa53_akt1_akt1_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 GENECARDS:SOS1 REACTOME:64848 KEGG:6654 ATLASONC:GC_SOS1 WIKI:SOS1 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890 GENECARDS:SOS2 REACTOME:64850 ATLASONC:GC_SOS2 WIKI:SOS2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> <p>PMID:17496910</p> <p>PMID:15574420</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="80.0" h="40.0" x="13189.561" y="17741.75"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa42_akt1_akt1_sa42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993 GENECARDS:GRB2 REACTOME:404631 KEGG:2885 ATLASONC:GRB2ID386ch17q25 WIKI:GRB2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> <p>PMID:17496910</p> <p>PMID:15574420</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="13190.061" y="17699.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_akt1_akt1_sa394_akt1_akt1_sa394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 GENECARDS:EGFR REACTOME:54208 KEGG:1956 ATLASONC:GC_EGFR WIKI:EGFR </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 GENECARDS:ERBB2 REACTOME:54422 KEGG:2064 ATLASONC:ERBB2ID162ch17q11 WIKI:ERBB2 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860 GENECARDS:ERBB3 REACTOME:403310 KEGG:2065 ATLASONC:ERBB3ID40479ch12q13 WIKI:ERBB3 </p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 GENECARDS:ERBB4 REACTOME:54426 KEGG:2066 ATLASONC:GC_ERBB4 WIKI:ERBB4 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 GENECARDS:FGFR1 REACTOME:402793 KEGG:2260 ATLASONC:FGFR1113 WIKI:FGFR1 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 GENECARDS:FGFR2 REACTOME:403305 KEGG:2263 ATLASONC:FGFR2ID40570ch10q26 WIKI:FGFR2 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 GENECARDS:FGFR3 REACTOME:403340 KEGG:2261 ATLASONC:FGFR99 WIKI:FGFR3 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 GENECARDS:FGFR4 REACTOME:54820 KEGG:2264 ATLASONC:FGFR4ID512ch5q35 WIKI:FGFR4 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 GENECARDS:FLT1 REACTOME:403120 KEGG:2321 ATLASONC:GC_FLT1 WIKI:FLT1 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 GENECARDS:FLT3 KEGG:2322 ATLASONC:FLT3ID144 WIKI:FLT3 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 GENECARDS:FLT4 REACTOME:67176 KEGG:2324 ATLASONC:GC_FLT4 WIKI:FLT4 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 GENECARDS:PDGFRA REACTOME:61602 KEGG:5156 ATLASONC:GC_PDGFRA WIKI:PDGFRA </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619 GENECARDS:PDGFRB REACTOME:61600 KEGG:5159 ATLASONC:PDGFRBID21ch5q32 WIKI:PDGFRB </p> <p>A generic name for this family of receptors that contain a tyrosine kinase activity.</p> <p>rhotekin</p> <p>HUGO:RTKN HGNC:10466 ENTREZ:6242 UNIPROT:Q9BST9 GENECARDS:RTKN ATLASONC:GC_RTKN WIKI:RTKN</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="90.0" h="139.0" x="13101.605" y="17639.455"/> <glyph class="unit of information" id="_11d09ae7-926b-455a-8f8a-7341029e8fbd"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="13136.605" y="17634.455"/> </glyph> <glyph class="state variable" id="_8e5ba4e0-c33e-40eb-bfb5-f4b691581e03"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13184.105" y="17732.746"/> </glyph> <glyph class="state variable" id="_6fc1679b-e848-4515-88cc-130a6b06f425"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13186.605" y="17732.746"/> </glyph> <glyph class="state variable" id="_24e27081-7bc2-463c-8668-f5d54f053d1a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13184.105" y="17703.955"/> </glyph> <glyph class="unit of information" id="_3e5f8e48-165f-4a2c-9675-4c8ee3dc7e60"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13124.105" y="17634.455"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa54_akt1_akt1_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS p21 protein activator (GTPase activating protein) 1</p> <p>HUGO:RASA1 HGNC:9871 ENTREZ:5921 UNIPROT:P20936 GENECARDS:RASA1 REACTOME:63760 KEGG:5921 ATLASONC:GC_RASA1 WIKI:RASA1 </p> <p>RAS p21 protein activator 2</p> <p>HUGO:RASA2 HGNC:9872 ENTREZ:5922 UNIPROT:Q15283 GENECARDS:RASA2 KEGG:5922 ATLASONC:GC_RASA2 WIKI:RASA2 </p> <p>RAS p21 protein activator 3</p> <p>HUGO:RASA3 HGNC:20331 ENTREZ:22821 UNIPROT:Q14644 GENECARDS:RASA3 KEGG:22821 ATLASONC:GC_RASA3 WIKI:RASA3 </p> <p>RAS p21 protein activator 4</p> <p>HUGO:RASA4 HGNC:23181 ENTREZ:10156 UNIPROT:O43374 GENECARDS:RASA4 KEGG:10156 WIKI:RASA4 </p> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 GENECARDS:HRAS REACTOME:62718 KEGG:3265 ATLASONC:HRASID108 WIKI:HRAS </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 GENECARDS:KRAS REACTOME:62720 KEGG:3845 ATLASONC:KRASID91 WIKI:KRAS </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111 GENECARDS:NRAS REACTOME:62726 KEGG:4893 ATLASONC:NRASID92 WIKI:NRAS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:21102635</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="80.0" h="40.0" x="13190.561" y="17784.0"/> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa48_akt1_akt1_sa48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GF"/> <bbox w="70.0" h="25.0" x="13105.561" y="17630.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa43_akt1_akt1_sa43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <bbox w="80.0" h="40.0" x="13271.561" y="17741.75"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa44_akt1_akt1_sa44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>Phosphoinositide-3-kinase catalytic subunit p110</p> <p>HUGO:PI3KCD HGNC:8977 ENTREZ:5293 UNIPROT:O00329</p> <p>Map modules:</p> <p>MODULE:PI3K_AKT_MTOR</p> <p>Mapsp_Modules_end</p> <p>References:</p> <p>PMID:16847462</p> <p>:Three genes ??? PIK3CA, PIK3CB and PIK3CD ??? encode the highly homologous p110 catalytic subunit isoforms p110??, p110?? and p110??, respectively101. They possess an N-terminal p85-binding domain that interacts with the</p> <p>p85 regulatory subunit, a Ras-binding domain (RBD) that mediates activation by the small GTPase Ras, a C2 domain, a phosphatidylinositol kinase homology (PIK) domain and a C-terminal catalytic domain. The PIK and catalytic domains of p110 are homologous to domains found in a family of protein kinases that includes mTOR (mammalian target of rapamycin), ATM (ataxia telangiectasia mutated), ATR (ataxia telangiectasia Rad3 related) and DNA-PK (DNA-dependent serine/threonine protein kinase), indicating that these proteins share an ancient evolutionary origin.</p> <p>PMID:19568798</p> <p>The 110-kDa catalytic subunit consists of a catalytic lipid kinase domain, a Ras binding domain (RasB), a C2 phospholipid binding domain (protein kinase C homology domain), a helical PI kinase (PIK) domain and an N-terminal domain, which forms a tight association with the regulatory subunit.</p> <p>PMID:12040186</p> </body> </html> </notes> <label text="p110*"/> <bbox w="80.0" h="40.0" x="13271.561" y="17784.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa243_emtc_em_sa243" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa243_emtc_em_sa243"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA1"/> <clone/> <bbox w="40.0" h="20.0" x="4034.5" y="17647.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa243_mo_sa167" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa243_mo_sa167"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA1"/> <clone/> <bbox w="70.0" h="25.0" x="3726.0" y="10623.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa387_mpk1_mpk1_sa387" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa387_mpk1_mpk1_sa387"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TXN"/> <bbox w="50.0" h="25.0" x="11556.057" y="19428.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa912_ca_sa912" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:27548915 One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. Therefore, reduction in IGF2R following treatment with miR-211 or melanosomes may increase IGF2 levels, promoting its binding to IGF1R, and thus leading to hyperactivation of this pathway and increased proliferation. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:27548915 One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. 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class="macromolecule" id="s_id_shh1_shh1_sa206_shh1_shh1_sa206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="26670.31" y="18721.0"/> <glyph class="state variable" id="_36c1f4fb-aef4-468a-90f9-d86fce4d7fca"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="26655.803" y="18716.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa207_shh1_shh1_sa207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 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id="s_id_shh1_shh1_sa84_shh1_shh1_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 3</p> <p>HUGO:GLI3 HGNC:4319 ENTREZ:2737 UNIPROT:P10071 GENECARDS:GLI3 KEGG:2737 ATLASONC:GC_GLI3 WIKI:GLI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI3-190*"/> <bbox w="165.0" h="41.0" x="26672.06" y="18771.0"/> <glyph class="state variable" id="_3c37134c-e95f-4e0a-9476-5e660cdbb165"> <state value="P" variable="S877"/> <bbox w="35.0" h="10.0" x="26818.285" y="18807.0"/> </glyph> <glyph class="state variable" id="_1f87db48-4929-4e5b-9ba3-6a3964624c0b"> <state value="P" variable="S903"/> <bbox w="35.0" h="10.0" x="26738.514" y="18807.0"/> </glyph> <glyph class="state variable" id="_2b1ba68a-b20e-4728-99f6-cefc89f59254"> <state value="P" variable="S860"/> <bbox w="35.0" h="10.0" x="26754.713" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa109_wnc1_wnc2_sa109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA1C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA3C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA3D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA3E"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA4A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="18598.56" y="18698.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa292_wca1_wca3_sa292" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elements_wca3_re127:(MAP:survival) PMID:19901072 PMID:19751731 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elements_wca3_re127:(MAP:survival) PMID:19901072 PMID:19751731 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa292_wca1_wca3_sa292"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19901072"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19751731"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19901072"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19751731"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="21839.56" y="21491.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa316_in_sa316"> <label text="GNLY"/> <clone/> <bbox w="80.0" h="40.0" x="17010.0" y="8210.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa316_ad_sa480"> <label text="GNLY"/> <clone/> <bbox w="80.0" h="40.0" x="29226.0" y="8615.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa1_wnc1_wnc1_csa1" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*</p> </body> </html> </notes> <label text="(CK2)"/> <bbox w="102.0" h="162.0" x="15509.061" y="18050.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa3_wnc1_wnc1_sa3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="80.0" h="40.0" x="15520.061" y="18064.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa4_wnc1_wnc1_sa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="80.0" h="40.0" x="15522.061" y="18148.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa350_wnc1_wnc1_sa350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20988.31" y="18426.5"/> <glyph class="state variable" id="_05b7bec9-b499-4dcb-9d1d-0120eada203d"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20981.303" y="18421.5"/> </glyph> <glyph class="state variable" id="_7f1578b3-0ce6-44e0-b8d9-99c0f87e5f13"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21060.81" y="18421.713"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21069.56" y="18383.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa209_wca1_wca1_sa209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20988.06" y="18384.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4796_rc_sa4796" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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id="s_id_mpk1_mpk1_sa412_mpk1_mpk1_sa412" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa412_mpk1_mpk1_sa412"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPKAPK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPKAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPKAPK5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPKAPK*"/> <bbox w="85.0" h="25.0" x="11290.057" y="20252.0"/> <glyph class="state variable" id="_c69a3feb-a497-41ac-8473-67c45d2fdb7e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11285.057" y="20259.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1479_ce_sa1479" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>DR:DNA:st1Direct reversalAlkylated/methylated DNA or pyrimidine dimersNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:DRReferences:PMID:22258607, PMID:22918414, PMID:21701511, PMID:23892398 ----- content merged by Celldesigner to SBGN-ML translation ------ DR:DNA:st1Direct reversalAlkylated/methylated DNA or pyrimidine dimersNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:DRReferences:PMID:22258607, PMID:22918414, PMID:21701511, PMID:23892398 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1479_ce_sa1479"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DR_DNA_st1*"/> <bbox w="120.0" h="26.0" x="17331.27" y="15393.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa347_rc_csa347" compartmentRef="s_id_rc_ca14_rc_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CHUK:IKBKG:IKK_beta_*</p> </body> </html> </notes> <label text="IKK complex"/> <bbox w="102.0" h="173.0" x="23241.31" y="9787.75"/> <glyph class="macromolecule" id="s_id_rc_sa3238_rc_sa3238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> <p>IKBK-alpha</p> <p>synonym:IKBKA synonym:IKK_alpha_</p> </body> </html> </notes> <label text="CHUK"/> <bbox w="80.0" h="40.0" x="23251.31" y="9897.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3237_rc_sa3237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase beta</p> <p>HUGO:IKBKB HGNC:5960 ENTREZ:3551 UNIPROT:O14920</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:28462531</p> </body> </html> </notes> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="23251.31" y="9849.75"/> <glyph class="state variable" id="_3ab548a2-3c77-4c88-b93d-483fdeccd00e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23267.242" y="9844.75"/> </glyph> <glyph class="state variable" id="_0365d27f-4057-4586-8d99-62c5cd2f9b3f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23302.879" y="9844.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3236_rc_sa3236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma</p> <p>HUGO:IKBKG HGNC:5961 ENTREZ:8517 UNIPROT:Q9Y6K9</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>NEMO</p> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="23251.31" y="9799.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1599_ce_sa1599" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1599_ce_sa1599"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APLF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APLF"/> <bbox w="80.0" h="40.0" x="13252.769" y="16846.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa226_an_sa226" compartmentRef="s_id_an_ca4_an_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa226_an_sa226"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S1PR1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S1PR3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S1PR*"/> <bbox w="80.0" h="50.0" x="4648.0" y="8206.0"/> <glyph class="unit of information" id="_7d0246d5-9a47-49ef-9833-76ddc879da33"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4665.5" y="8201.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa492_rc_csa492" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAK1:TMBIM6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa492_rc_csa492"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2:BAK1"/> <bbox w="100.0" h="120.0" x="27832.967" y="13619.0"/> <glyph class="macromolecule" id="s_id_rc_sa5115_rc_sa5115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="27842.967" y="13629.0"/> <glyph class="state variable" id="_6502e798-4a89-4e14-b389-27055e922bb0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27894.535" y="13624.0"/> </glyph> <glyph class="state variable" id="_310bc88e-96b6-4630-be78-53e84b7e14e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27837.967" y="13644.0"/> </glyph> <glyph class="state variable" id="_974053fb-583b-4cb2-90b7-050da99d91e4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27861.398" y="13624.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5116_rc_sa5116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="27842.967" y="13679.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa209_ce_sa209" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa209_ce_sa209"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BRIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCJ*"/> <bbox w="80.0" h="40.0" x="14891.36" y="15524.0"/> <glyph class="state variable" id="_38f4e34a-6406-4a20-9a44-2af15317f22a"> <state value="" variable="S990"/> <bbox w="30.0" h="10.0" x="14916.393" y="15519.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2426_emtc_em_sa2426" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2426_emtc_em_sa2426"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFD"/> <bbox w="50.0" h="22.0" x="3187.0" y="19075.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa152_mo_sa152" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lysine demethylase 4B </p> <p>"jumonji domain containing 2B", "lysine (K)-specific demethylase 4B" </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa152_mo_sa152"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDM4B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JMJD2B*"/> <clone/> <bbox w="80.0" h="40.0" x="2869.9622" y="11053.439"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa152_mo_sa170" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lysine demethylase 4B </p> <p>"jumonji domain containing 2B", "lysine (K)-specific demethylase 4B" </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa152_mo_sa170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDM4B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JMJD2B*"/> <clone/> <bbox w="80.0" h="40.0" x="2897.4167" y="11148.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa107_ce_sa107" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa107_ce_sa107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC25B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC25B"/> <bbox w="80.0" h="40.0" x="12233.742" y="10238.492"/> <glyph class="state variable" id="_d4ed9ef7-f695-4298-ac60-96dddcb82716"> <state value="P" variable="S230"/> <bbox w="35.0" h="10.0" x="12216.242" y="10253.46"/> </glyph> <glyph class="state variable" id="_392b1178-d716-4bbf-81d0-7f8771c886fa"> <state value="P" variable="S323"/> <bbox w="35.0" h="10.0" x="12216.242" y="10264.377"/> </glyph> <glyph class="state variable" id="_8fac507a-6aa2-4b2d-80c0-a053e1740d9c"> <state value="" variable="S353"/> <bbox w="30.0" h="10.0" x="12275.222" y="10233.492"/> </glyph> <glyph class="state variable" id="_627d3fd8-e2d8-49ef-88eb-90c52fb51987"> <state value="P" variable="S151"/> <bbox w="35.0" h="10.0" x="12216.242" y="10242.749"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa17_te_csa17" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NHP2/NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>Refenreces_begin:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa17_te_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NHP2/NOP10"/> <bbox w="100.0" h="120.0" x="5639.06" y="22308.0"/> <glyph class="macromolecule" id="s_id_te_sa178_te_sa178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="5649.06" y="22363.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa177_te_sa177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="5649.06" y="22313.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_mo_sa1_mo_sa1" compartmentRef="s_id_mo_ca4_mo_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>1-Phosphatidyl-1D-myo-inositol 3-phosphate</p> <p>CAS:N/A</p> <p>PUBCHEM:7155 CHEBI:17283 KEGGCOMPOUND:C04549</p> </body> </html> </notes> <label text="PIP"/> <bbox w="70.0" h="25.0" x="3179.5" y="9178.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1186_rc_sa1186" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16810 KEGGCOMPOUND:C00026 CAS:64-15-3</p> </body> </html> </notes> <label text="2-oxoglutarate"/> <bbox w="70.0" h="25.0" x="23566.56" y="16671.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa963_ce_sa963" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa963_ce_sa963"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ANAPC10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="10508.281" y="10095.0205"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1123_ca_sa1123" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:27833036</p> <p>CAFs secrete large amounts of ketone bodies which are then re-utilized by tumor cells for anabolic metabolism or OXPHOS like lactat</p> <p>PMID:23082722</p> <p>Coculture with fibroblasts overexpressing BDH1 or HMGCS2 increases the cancer cell </p> <p>population. Probably via keton bodies production.</p> <p>PMID:21109197 </p> <p>SIRT3 Deacetylates Mitochondrial 3-Hydroxy-3-Methylglutaryl CoA Synthase 2 and Regulates Ketone Body Production (in vitro data)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1123_ca_sa1123"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HMGCS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27833036"/> </rdf:Bag> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:30413 </p> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="heme"/> <clone/> <bbox w="70.0" h="25.0" x="2827.9688" y="4075.0"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1054_rc_sa3268" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:30413 </p> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="heme"/> <clone/> <bbox w="70.0" h="25.0" x="23736.06" y="10674.0"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1054_rc_sa2344" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:30413 </p> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="heme"/> <clone/> <bbox w="70.0" h="25.0" x="29374.06" y="16486.5"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1054_rc_sa2241" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:30413 </p> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="heme"/> <clone/> <bbox w="70.0" h="25.0" x="18224.06" y="12506.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2636_in_sa2636" compartmentRef="s_id_in_ca13_in_ca13"> <label text="P2RY2"/> <clone/> <bbox w="80.0" h="50.0" x="15142.5" y="1355.0"/> <glyph class="unit of information" id="_24d7bd4c-b2a7-43b2-8ca8-e459020c9ecb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15160.0" y="1350.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2636_in_sa2637" compartmentRef="s_id_in_ca13_in_ca13"> <label text="P2RY2"/> <clone/> <bbox w="80.0" h="50.0" x="15142.5" y="1465.0"/> <glyph class="unit of information" id="_cf08a3c9-6bd0-4f7a-bf4e-2deb063e60db"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15160.0" y="1460.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2811_in_sa2811" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CTSG"/> <bbox w="80.0" h="40.0" x="11005.0" y="7360.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa40_shh1_shh1_csa40" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GPC3:HH Ligand</p> <p>References:</p> <p>s_shh1_re80:(MAP:survival) PMID:18477453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa40_shh1_shh1_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18477453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPC3_ligand"/> <bbox w="103.0" h="151.0" x="27973.06" y="17570.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa258_shh1_shh1_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Glypican 1</p> <p>HUGO:GPC1 HGNC:4449 ENTREZ:2817 UNIPROT:P35052 GENECARDS:GPC1 REACTOME:55866 KEGG:2817 ATLASONC:GC_GPC1 WIKI:GPC1 </p> <p>Glypican 2</p> <p>HUGO:GPC2 HGNC:4450 ENTREZ:221914 UNIPROT:Q8N158 GENECARDS:GPC2 REACTOME:230962 WIKI:GPC2 </p> <p>Glypican 3</p> <p>HUGO:GPC3 HGNC:4451 ENTREZ:2719 UNIPROT:P51654 GENECARDS:GPC3 REACTOME:55868 KEGG:2719 ATLASONC:GPC3ID156 WIKI:GPC3 </p> <p>Glypican 4</p> <p>HUGO:GPC4 HGNC:4452 ENTREZ:2239 UNIPROT:O75487 GENECARDS:GPC4 REACTOME:55870 KEGG:2239 ATLASONC:GC_GPC4 WIKI:GPC4 </p> <p>Glypican 5</p> <p>HUGO:GPC5 HGNC:4453 ENTREZ:2262 UNIPROT:P78333 GENECARDS:GPC5 REACTOME:55872 ATLASONC:GPC5ID45705ch13q31 WIKI:GPC5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21112773</p> <p>PMID:18477453</p> </body> </html> </notes> <label text="GPC3"/> <bbox w="78.0" h="114.0" x="27988.56" y="17583.0"/> <glyph 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:20823158 </p> <p>CAFs have been identified as a source of hyaluronan, and genetic ablation of the hyaluronan synthase gene (Has2) in fibroblasts strongly diminishes the entry of macrophages into the tumour microenvironment.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Damaged DNANode_Type:GenericMap modules:MODULE:DNA_REPAIRReferences:PMID:23892398 ----- content merged by Celldesigner to SBGN-ML translation ------ Damaged DNANode_Type:GenericMap modules:MODULE:DNA_REPAIRReferences:PMID:23892398 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa228_ce_sa228"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Damaged_DNA*"/> <bbox w="315.0" h="32.0" x="11991.27" y="14688.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa222_emtc_em_csa222" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DIA*:GTP:RHOA</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15866170</p> <p>DRFs (DIAPH1,2,3) are autoinhibited through intramolecular binding of a Diaphanous autoinhibitory domain to a conserved N-terminal regulatory element. </p> <p>Autoinhibition is relieved through binding of the GTPase RhoA to the N-terminal element.</p> <p>PMID:16292343</p> <p>DRFs are regulated by a RhoGTPase-binding domain situated in the N-terminal region and a C-terminal Diaphanous-autoregulatory domain, whose interaction stabilises an autoinhibited inactive conformation. </p> <p>Binding of active Rho releases DAD and activates the catalytic activity of mDia</p> <p>PMID:17575049</p> <p>Positive feedback between Dia1, LARG, and RhoA regulates cell morphology and invasion.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa222_emtc_em_csa222"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15866170"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16292343"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17575049"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_GTP/DIA*"/> <bbox w="101.0" h="62.0" x="5524.0" y="14760.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1423_emtc_em_sa1423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DIA*</p> <p>diaphanous homolog 1 (Drosophila)</p> <p>HUGO:DIAPH1, HGNC:2876, ENTREZ:1729, GENECARDS:GC05M140875, UNIPROT:O60610</p> <p>diaphanous homolog 3 (Drosophila)</p> <p>HUGO:DIAPH3, HGNC:15480, ENTREZ:81624, GENECARDS:GC13M060239, UNIPROT:Q9NSV4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15866170</p> <p>DRFs (DIAPH1,2,3) are autoinhibited through intramolecular binding of a Diaphanous autoinhibitory domain to a conserved N-terminal regulatory element. </p> <p>Autoinhibition is relieved through binding of the GTPase RhoA to the N-terminal element.</p> <p>PMID:16292343</p> <p>DRFs are regulated by a RhoGTPase-binding domain situated in the N-terminal region and a C-terminal Diaphanous-autoregulatory domain, whose interaction stabilises an autoinhibited inactive conformation. </p> <p>Binding of active Rho releases DAD and activates the catalytic activity of mDia</p> <p>PMID:17575049</p> <p>Positive feedback between Dia1, LARG, and RhoA regulates cell morphology and invasion.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="DIA*"/> <bbox w="44.0" h="29.0" x="5575.0" y="14767.5"/> <glyph class="state variable" id="_241b8507-3612-4657-8723-b66784d0988a"> <state value="open" variable=""/> <bbox w="30.0" h="10.0" x="5582.0" y="14762.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1422_emtc_em_sa1422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="5529.5" y="14780.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1421_emtc_em_sa1421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>HUGO:RHOA, HGNC:667, ENTREZ:387, GENECARDS:GC03M049371, UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>RhoA is an important modulator of cell junction formation and stability:</p> <p>PMID:7479854</p> <p>Rho protein regulates tight junctions and perjunctional actin organization in polarized epithelia</p> <p>PMID:9362522</p> <p>Rho subfamily is necessary for the formation of both the cadherin-based cell–cell adhesion and the tight junction</p> <p>PMID:9660866</p> <p>RhoA and Rac1 regulate gate and fence functions of the TJ, and play a role in the spatial organization of TJ proteins at the apex of the lateral membrane</p> <p>PMID:12361600</p> <p>PMID:11992112</p> <p>RhoA functions to maintain apical-basal polarity and cell junctions. </p> <p>PMID:11739775</p> <p>PMID:11729192</p> <p>RhoA can stabilize tight junctions and increase transepithelial resistance</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="52.0" h="20.0" x="5530.5" y="14762.5"/> <glyph class="state variable" id="_4e486f96-bd68-4f6c-a3c5-6127688c8cfa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5525.5" y="14767.484"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa34_wca1_wca3_csa34" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re88:(MAP:survival) PMID:10984057 PMID:11263497</p> <p>s_wca3_re86:(MAP:survival) PMID:10980707 PMID:12606575</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa34_wca1_wca3_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10984057"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11263497"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10980707"/> </rdf:Bag> 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UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20904.81" y="21553.0"/> <glyph class="state variable" id="_a823b6b3-5d62-4ee6-ae16-121cf729e79f"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20969.81" y="21548.213"/> </glyph> <glyph class="state variable" id="_c1eb79d8-ad80-4a95-bfd4-98ef1eb7f059"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20919.027" y="21548.0"/> </glyph> <glyph class="state variable" id="_90269490-a40b-4ed6-bc6e-aabae342ff1b"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20890.303" y="21548.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:APAF1:HSP90*</p> </body> </html> </notes> <label text="APAF1:HSP90A*"/> <bbox w="100.0" h="120.0" x="24599.06" y="14779.0"/> <glyph class="macromolecule" id="s_id_rc_sa1415_rc_sa1415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1 HGNC:5253 ENTREZ:3320 UNIPROT:P07900 </p> <p>heat shock protein 90kDa alpha (cytosolic), class A member 2</p> <p>HUGO:HSP90AA2 HGNC:5256 ENTREZ:3324 UNIPROT:Q14568</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="80.0" h="40.0" x="24609.06" y="14829.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1416_rc_sa1416"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24609.06" y="14789.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa29_shh1_shh1_csa29" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re68:(MAP:survival) PMID:18455992</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa29_shh1_shh1_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18455992"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gli2-185_SUFU_ULK3"/> <clone/> <bbox w="193.0" h="148.0" x="25766.06" y="18451.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa214_shh1_shh1_sa214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 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id="s_id_shh1_shh1_sa215_shh1_shh1_sa215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <clone/> <bbox w="80.0" h="40.0" x="25781.31" y="18477.0"/> <glyph class="state variable" id="_e86da18f-e5ed-4675-9a62-ec053e9563db"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="25766.803" y="18472.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa213_shh1_shh1_sa213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 2</p> <p>HUGO:GLI2 HGNC:4318 ENTREZ:2736 UNIPROT:P10070 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<glyph class="state variable" id="_5d6aa369-13e1-4967-a585-961957cae63d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25857.31" y="18523.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa29_shh1_shh1_csa34" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re68:(MAP:survival) PMID:18455992</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa51_wca1_wca4_sa51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD4"/> <bbox w="90.0" h="25.0" x="23659.06" y="21465.5"/> <glyph class="unit of information" id="_111d817c-e42a-4d0e-a09f-402f8df81aea"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23694.06" y="21460.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5460_rc_sa5460" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:NOD-like Receptor protein 3</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27439607</p> <p>PMID:27439607</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5460_rc_sa5460"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NLRP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27439607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27439607"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5460_rc_sa5396"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NLRP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27439607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27439607"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRP3"/> <clone/> <bbox w="80.0" h="50.0" x="28379.06" y="9434.0"/> <glyph class="unit of information" id="_78e24817-9203-41ee-be6a-4553722d6078"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28396.56" y="9429.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa976_ca_sa976" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>PMID:18514095</p> <p>CXCL10 and CXCL11 ligands fo CXCR3 receptor are expressed in fibroblasts after TNF stimulation, and CXCL9 after IFNG stimulation</p> <p>PMID:22798340</p> <p>3-CXCR3 ligands (such as CXCL9, 10, and 11), also reportedly contribute 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa293_em_sa2082"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2"/> <clone/> <bbox w="90.0" h="25.0" x="4896.0" y="14396.5"/> <glyph class="unit of information" id="_291c60f0-2e3a-4090-8949-4b112475782b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4931.0" y="14391.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa293_shh1_shh2_sa89" 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class="unit of information" id="_c22e4199-2487-48a6-bd22-5164d4bb9aa9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21477.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa69_rc_csa69" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATP:PKA_R*:PRKAA*:PRKAG*</p> </body> </html> </notes> <label text="ATP:PKA_R*:PRKAA*:PRKAG*"/> <bbox w="176.0" h="112.0" x="25402.06" y="11368.5"/> <glyph class="simple chemical" id="s_id_rc_sa1032_rc_sa1032"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ATP"/> <bbox w="70.0" h="25.0" x="25499.06" y="11424.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1034_rc_sa1034"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, AMP-activated, gamma 1 non-catalytic subunit</p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 </p> <p>protein kinase, AMP-activated, gamma 2 non-catalytic subunit</p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 </p> <p>protein kinase, AMP-activated, gamma 3 non-catalytic subunit</p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PRKAG*"/> <bbox w="80.0" h="40.0" x="25492.06" y="11374.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1035_rc_sa1035"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, AMP-activated, beta 1 non-catalytic subunit</p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 </p> <p>protein kinase, AMP-activated, beta 2 non-catalytic subunit</p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PKA_R*"/> <bbox w="80.0" h="40.0" x="25409.06" y="11417.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1033_rc_sa1033"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, AMP-activated, alpha 1 catalytic subunit</p> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 </p> <p>protein kinase, AMP-activated, alpha 2 catalytic subunit</p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PRKAA*"/> <bbox w="80.0" h="40.0" x="25408.06" y="11374.5"/> <glyph class="state variable" id="_1258851c-06ef-4f02-a238-1c92680a40b8"> <state value="" variable="T172"/> <bbox w="30.0" h="10.0" x="25450.01" y="11369.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1240_ad_sa1240" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22285893</p> <p>NECL2</p> <p>http://www.jidonline.org/article/S0022-202X(17)30474-8/fulltext</p> <p>CRTAM (class I restricted T cell associated molecule), a CADM1 ligand, is expressed on activated CD8+ T cells</p> <p>Tumor cells suppress CRTAM expression on CD8+ T cells to evade host immunity in adult T cell leukemia/lymphoma</p> <p>PMID:15811952</p> <p>The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell responses through the cell-surface receptor CRTAM</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GPAT3"/> <bbox w="75.0" h="38.0" x="4662.5" y="6923.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2351_emtc_em_sa2351" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2351_emtc_em_sa2351"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HBEGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGF family*"/> <bbox w="76.0" h="21.0" x="2795.0" y="18959.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa104_ad_csa104" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:IL15, CASCADE:IL21, CASCADE:CSF2, CASCADE:IFNG</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> </body> </html> </notes> <label text="ad_s1115"/> <bbox w="100.0" h="120.0" x="28856.0" y="2935.0"/> <glyph class="macromolecule" id="s_id_ad_sa884_ad_sa884"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PDK1</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12670391</p> <p>PI3K in T cells</p> <p>PMID:19122654 ;PMID:15802604 </p> <p>TCR-CD28–mediated NF-κB activation requires PDK1</p> <p>PDK1 and PKC-θ also localized together at the immunological synapse following stimulation of primary CD4+ T cells</p> <p> recruitment of PDK1 and PKC-θ can occur independently; that is, treatment with anti-CD3 alone led to PKC-θ recruitment, whereas treatment with anti-CD28 alone led to PDK1 recruitment</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation as PDK1-deficient Jurkat and primary CD4 T cells show a defect in PKCθ phosphorylation and NF-κB activation.</p> </body> </html> </notes> <label text="PDPK1"/> <bbox w="80.0" h="40.0" x="28866.0" y="2945.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa885_ad_sa885"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:NK</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="28871.0" y="3002.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa50_akt1_akt1_csa50" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAPKAP1:MLST8:MTOR:PROTOR*:RAC1:RICTOR</p> <p>References:</p> <p>s_akt1_re86:(MAP:survival) PMID:19720745</p> <p>s_akt1_re21:(MAP:survival) PMID:10722653</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa50_akt1_akt1_csa50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19720745"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10722653"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC2)"/> <bbox w="180.0" h="153.0" x="12351.227" y="17889.375"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa283_akt1_akt1_sa283"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PROTOR</p> <p>HUGO:PRR5 HGNC:31682 ENTREZ:55615 UNIPROT:P85299 GENECARDS:PRR5 KEGG:55615 ATLASONC:GC_PRR5 WIKI:PRR5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PROTOR*"/> <bbox w="80.0" h="40.0" x="12358.477" y="17980.625"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa282_akt1_akt1_sa282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mitogen-activated protein kinase associated protein 1</p> <p>HUGO:MAPKAP1 HGNC:18752 ENTREZ:79109 UNIPROT:Q9BPZ7 GENECARDS:MAPKAP1 REACTOME:413323 KEGG:79109 ATLASONC:GC_MAPKAP1 WIKI:MAPKAP1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="12358.727" y="17939.375"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa285_akt1_akt1_sa285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12440.977" y="17898.125"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa281_akt1_akt1_sa281"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="12358.727" y="17898.125"/> <glyph class="state variable" id="_42fbc7d4-18ea-43e8-a139-6bf3828efab6"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="12338.727" y="17932.074"/> </glyph> <glyph class="state variable" id="_eeafd1ce-be29-48bf-b814-7de5fe157aa7"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12417.809" y="17893.125"/> </glyph> <glyph class="state variable" id="_75041490-db57-4c4d-9eeb-56a0a4517a02"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="12420.608" y="17933.125"/> </glyph> <glyph class="state variable" id="_97fdbd84-e506-4234-bca7-1fc02cbc64bd"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="12343.727" y="17913.125"/> </glyph> <glyph class="state variable" id="_8460db8b-86e1-474a-a5aa-bd8a7d87f5c1"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="12344.762" y="17893.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa530_akt1_akt1_sa530"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="12444.561" y="17983.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa284_akt1_akt1_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12441.977" y="17939.375"/> <glyph class="state variable" id="_8f255fa3-8dee-446f-ba1c-e28592662ef7"> <state value="P" variable="T1135"/> <bbox w="40.0" h="10.0" x="12441.537" y="17974.375"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4285_rc_sa4285" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:28846</p> </body> </html> </notes> <label text="dCDP"/> <bbox w="70.0" h="25.0" x="19804.06" y="11796.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5241_rc_sa5241" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>4-[4-[[4-chloro-3-(trifluoromethyl)phenyl]carbamoylamino]phenoxy]-N-methylpyridine-2-carboxamideSorafenib</p> <p>PUBCHEM:216239</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5241_rc_sa5241"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Sorafenib"/> <bbox w="80.0" h="30.0" x="26559.06" y="9109.0"/> <glyph class="unit of information" id="_890b33b8-89ae-4333-8903-a41ac6e0d649"> <label text="drug"/> <bbox w="25.0" h="10.0" x="26586.56" y="9104.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa52_mo_csa52" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="NHERF1*/PTEN"/> <bbox w="100.0" h="120.0" x="2612.0" y="11312.0"/> <glyph class="macromolecule" id="s_id_mo_sa499_mo_sa499"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTEN</p> </body> </html> </notes> <label text="PTEN"/> <bbox w="80.0" h="40.0" x="2622.0" y="11372.0"/> <glyph class="state variable" id="_aa31dc13-00d0-4508-ac85-19e74fc2f5b9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2694.5" y="11395.284"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa498_mo_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SLC9A3 regulator 1 </p> </body> </html> </notes> <label text="NHERF1*"/> <bbox w="80.0" h="40.0" x="2622.0" y="11322.0"/> <glyph class="state variable" id="_15cea847-efab-4131-bd97-304278ea7039"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2673.5686" y="11317.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa89_akt1_akt1_csa89" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATG13:FIP200*:ULK*</p> <p>References:</p> <p>s_akt1_re203:(MAP:survival) PMID:19225151</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa89_akt1_akt1_csa89"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19225151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG13:FIP200*:ULK*"/> <bbox w="120.0" h="161.0" x="13754.917" y="19810.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa551_akt1_akt1_sa551"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 1</p> <p>HUGO:ULK1 HGNC:12558 ENTREZ:8408 UNIPROT:O75385 GENECARDS:ULK1 KEGG:8408 ATLASONC:GC_ULK1 WIKI:ULK1 </p> <p>Unc-51-like kinase 2</p> <p>HUGO:ULK2 HGNC:13480 ENTREZ:9706 UNIPROT:Q8IYT8 GENECARDS:ULK2 KEGG:9706 ATLASONC:GC_ULK2 WIKI:ULK2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="ULK*"/> <bbox w="80.0" h="40.0" x="13775.274" y="19818.0"/> <glyph class="state variable" id="_39d54b48-03b5-441d-8c6d-86b438bd3d04"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13767.774" y="19813.0"/> </glyph> <glyph class="state variable" id="_02a8d831-15a1-4fa9-8259-6318d6c323d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13850.273" y="19813.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa553_akt1_akt1_sa553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RB1-inducible coiled-coil 1</p> <p>HUGO:RB1CC1 HGNC:15574 ENTREZ:9821 UNIPROT:Q8TDY2 GENECARDS:RB1CC1 KEGG:9821 ATLASONC:GC_RB1CC1 WIKI:RB1CC1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="FIP200*"/> <bbox w="80.0" h="40.0" x="13775.274" y="19905.0"/> <glyph class="state variable" id="_4efb3456-7046-41e3-b8db-96918dc7ce59"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13767.774" y="19900.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa552_akt1_akt1_sa552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATG13 autophagy related homologue 13</p> <p>HUGO:ATG13 HGNC:29091 ENTREZ:9776 UNIPROT:O75143 GENECARDS:ATG13 KEGG:9776 WIKI:ATG13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="ATG13"/> <bbox w="80.0" h="40.0" x="13775.274" y="19861.5"/> <glyph class="state variable" id="_8c4b7ca0-e3ff-4392-96ca-5a1c50293bb6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13767.774" y="19856.5"/> </glyph> <glyph class="state variable" id="_8c2b82dd-0aeb-4617-9dfc-71072d646892"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13850.273" y="19856.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1818_in_sa1818" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL2RA"/> <bbox w="80.0" h="50.0" x="23005.0" y="4575.0"/> <glyph class="unit of information" id="_c460fdd3-b613-4ced-b3c1-25cb47516764"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23022.5" y="4570.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa9_wnc1_wnc2_csa9" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BID_sub_TRUNC_endsub_*</p> <p>References:</p> <p>s_wnc2_re14:(MAP:survival) PMID:20008353, PMID:20709625, PMID:21738214</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa9_wnc1_wnc2_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008353"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20709625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21738214"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX:BIDTRUNC*"/> <bbox w="100.0" h="120.0" x="17784.06" y="18620.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa43_wnc1_wnc2_sa43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BH3 interacting domain death agonist</p> <p>HUGO:BID HGNC:1050 ENTREZ:637 UNIPROT:P55957 GENECARDS:BID REACTOME:50826 KEGG:637 ATLASONC:GC_BID WIKI:BID</p> <p>Map modules:</p> </body> </html> </notes> <label text="BIDTRUNC*"/> <bbox w="80.0" h="40.0" x="17794.56" y="18680.0"/> <glyph class="unit of information" id="_451c2d3d-2468-4978-8ce8-91fb07f71ec1"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="17809.56" y="18675.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa41_wnc1_wnc2_sa41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812 GENECARDS:BAX REACTOME:50715 KEGG:581 ATLASONC:BAXID128ch19q13 WIKI:BAX</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="17792.56" y="18630.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa234_emtc_em_csa234" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC42:GTP</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa234_emtc_em_csa234"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC42_GTP"/> <bbox w="75.0" h="68.0" x="6543.0" y="14587.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1522_emtc_em_sa1522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 42</p> <p>HUGO:CDC42, HGNC:1736, ENTREZ:998, UNIPROT:P60953, GENECARDS:GC01P022379</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 is a member of the RAS superfamily of small GTPases and plays an essential role in control of cell polarity, actin cytoskeleton rearrangements, protein traffickinf and directed cell movements.</p> <p>PMID:10934474</p> <p>PMID:11248548</p> <p>PMID:11340065</p> <p>PMID:15003621</p> <p>CDC42 and cell polarity:</p> <p>PMID:15020669</p> <p>CDC42 functions in vivo:</p> <p>PMID:18719708</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDC42"/> <bbox w="45.0" h="19.0" x="6558.0" y="14593.5"/> <glyph class="state variable" id="_2b438a59-81e6-4296-b249-5d911a980f4b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6598.0" y="14588.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1521_emtc_em_sa1521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6560.0" y="14617.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2729_rc_sa2729" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2729_rc_sa2729"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TW"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TW"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TW"/> <bbox w="90.0" h="25.0" x="20440.06" y="15036.5"/> <glyph class="unit of information" id="_93a8a097-f632-4325-bb1f-08bea277ed37"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20475.06" y="15031.5"/> </glyph> </glyph> <glyph class="source and sink" 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compartmentRef="s_id_mpk1_mpk1_ca5_mpk1_mpk1_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa214_mpk1_mpk1_sa214"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL17RD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SEF*"/> <bbox w="50.0" h="25.0" x="7915.06" y="19816.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2017_rc_sa2017" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2017_rc_sa2017"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPT2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPT2"/> <bbox w="80.0" h="40.0" x="18599.06" y="15099.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa658_rc_sa658" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa658_rc_sa658"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOS2"/> <bbox w="80.0" h="40.0" x="28269.06" y="10379.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2649_rc_sa2649" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2649_rc_sa2649"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPX1"/> <bbox w="80.0" h="40.0" x="26979.06" y="9429.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa9_ce_csa9" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK7:CyclinH*:MNAT1:RPA1:RPA2:RPA3:TFIIH1*:TFIIH2*:TFIIH3*:TFIIH4*:TFIIH5*:XAB2:XPA:XPB*:XPD*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="CDK7/CycH*/MNAT1/RPA1/RPA2/RPA3/TFB5*/TFIIH1*/TFIIH2*/TFIIH3*/TFIIH4*/TTDA*/XAB2/XPA/XPB*/XPD*"/> <bbox w="275.0" h="258.0" x="7933.472" y="15779.356"/> <glyph class="macromolecule" id="s_id_ce_sa1222_ce_sa1222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="8117.3896" y="15919.441"/> <glyph class="state variable" id="_c5a2cd2b-b642-4ed7-9627-e9bad8b77541"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8109.8896" y="15934.441"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1223_ce_sa1223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="8116.7285" y="15963.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1210_ce_sa1210"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pigmentosum group B complementing)</p> <p>HUGO:ERCC3, HGNC:3435, ENTREZ:2071, UNIPROT:P19447</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPB*"/> <bbox w="80.0" h="40.0" x="7951.7285" y="15787.146"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1209_ce_sa1209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 2</p> <p>HUGO:ERCC2, HGNC:3434, ENTREZ:2068, UNIPROT:P18074</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPD*"/> <bbox w="80.0" h="40.0" x="7951.7285" y="15828.396"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1218_ce_sa1218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CyclinH</p> <p>HUGO:CCNH, HGNC:1594, ENTREZ:902, UNIPROT:P51946</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery:</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="CyclinH*"/> <bbox w="80.0" h="40.0" x="8033.7285" y="15961.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1213_ce_sa1213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 3, 34kDa</p> <p>HUGO:GTF2H3, HGNC:4657, ENTREZ:2967, UNIPROT:Q13889</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH3*"/> <bbox w="80.0" h="40.0" x="8035.7285" y="15877.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1214_ce_sa1214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 4, 52kDa</p> <p>HUGO:GTF2H4, HGNC:4658, ENTREZ:2968, UNIPROT:Q92759</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH4*"/> <bbox w="80.0" h="40.0" x="8035.7285" y="15919.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1219_ce_sa1219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XPA binding protein 2</p> <p>HUGO:XAB2, HGNC:14089, ENTREZ:56949, UNIPROT:Q9HCS7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XAB2"/> <bbox w="80.0" h="40.0" x="8116.318" y="15790.361"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1220_ce_sa1220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>xeroderma pigmentosum, complementation group A</p> <p>HUGO:XPA, HGNC:12814, ENTREZ:7507, UNIPROT:P23025</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470 PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPA"/> <bbox w="80.0" h="40.0" x="8117.139" y="15832.933"/> <glyph class="state variable" id="_aac46475-533a-4443-a16b-8444e4887705"> <state value="P" variable="S196"/> <bbox w="35.0" h="10.0" x="8099.639" y="15839.439"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1208_ce_sa1208"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 5</p> <p>HUGO:GTF2H5, HGNC:21157, ENTREZ:404672, UNIPROT:Q6ZYL4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH5*"/> <bbox w="80.0" h="40.0" x="7951.7285" y="15874.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1212_ce_sa1212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 2, 44kDa</p> <p>HUGO:GTF2H2, HGNC:4656, ENTREZ:2966, UNIPROT:Q13888</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH2*"/> <bbox w="80.0" h="40.0" x="8033.7285" y="15835.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1221_ce_sa1221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="8118.7285" y="15876.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1211_ce_sa1211"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 1, 62kDa</p> <p>HUGO:GTF2H1, HGNC:4655, ENTREZ:HGNC:2965, UNIPROT:P32780</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH1*"/> <bbox w="80.0" h="40.0" x="8033.7285" y="15789.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1216_ce_sa1216"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis)</p> <p>HUGO:MNAT1 , HGNC:7181, ENTREZ:4331, UNIPROT:P51948</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G,PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="MNAT1"/> <bbox w="80.0" h="40.0" x="7951.3564" y="15918.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1217_ce_sa1217"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 7</p> <p>HUGO:CDK7, HGNC:1778, ENTREZ:1022, UNIPROT:P50613</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> <p>CDK7 participates in basal transcription by phosphorylating the carboxy-terminal domain of the largest subunit of RNA polymerase II</p> </body> </html> </notes> <label text="CDK7"/> <bbox w="80.0" h="40.0" x="7951.3564" y="15959.646"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa62_mo_csa62" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="TNF-R1*/TNFα*"/> <bbox w="100.0" h="120.0" x="1653.0" y="10352.0"/> <glyph class="macromolecule" id="s_id_mo_sa522_mo_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TNF</p> </body> </html> </notes> <label text="TNFα*"/> <bbox w="80.0" h="40.0" x="1660.0" y="10367.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa523_mo_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TNFRSF1A </p> </body> </html> </notes> <label text="TNF-R1*"/> <bbox w="80.0" h="50.0" x="1660.0" y="10417.0"/> <glyph class="unit of information" id="_3c5df0fd-3a5e-448c-9551-13e66d759c2d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1677.5" y="10412.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa355_rc_sa355" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa355_rc_sa355"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRDX3"/> <bbox w="80.0" h="40.0" x="19813.31" y="14694.0"/> <glyph class="state variable" id="_852897dc-fe84-439a-a241-c33e935da2e3"> <state value="-SO2H" variable=""/> <bbox w="35.0" h="10.0" x="19835.81" y="14689.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1341_rc_sa1341" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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<head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TIMP3"/> <bbox w="70.0" h="25.0" x="11565.0" y="6437.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa72_wnc1_wnc4_sa72" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa72_wnc1_wnc4_sa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GPX4:L-selenocysteine</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa535_rc_csa535"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-selenocysteine:GPX4"/> <bbox w="100.0" h="100.0" x="27089.06" y="9719.0"/> <glyph class="macromolecule" id="s_id_rc_sa5245_rc_sa5245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutathione peroxidase 4</p> <p>HUGO:GPX4 hgnc_id:HGNC:4556 HGNC:4556 ENTREZ:2879 UNIPROT:P36969</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>PMID:26653790</p> <p>Ferroptosis is a regulated form of cell death driven by loss of activity of the lipid repair enzyme glutathione peroxidase 4 (GPX4) and subsequent accumulation of lipid-based reactive oxygen species (ROS), particularly lipid hydroperoxides.</p> </body> </html> </notes> <label text="GPX4"/> <bbox w="80.0" h="40.0" x="27099.06" y="9729.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5296_rc_sa5296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>L-selenocysteine</p> <p>CHEBI:16633</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> </body> </html> </notes> <label text="L-selenocysteine"/> <bbox w="70.0" h="25.0" x="27104.06" y="9776.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa274_mo_sa274"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>transforming growth factor, alpha</p> <p>heparin-binding EGF-like growth factor</p> <p>epidermal growth factor</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa274_mo_sa274"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HBEGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGF family*"/> <bbox w="80.0" h="40.0" x="6876.0" y="11084.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa53_emtc_em_csa53" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD3:SMAD4:SNAI1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21041997</p> <p>Smad3 and Smad4 form a complex with Snail1(SNAI1) that binds to E-box and Smad-binding elements in the promoters of the genes encoding E-Cadherinm Occludinm and the tight junction-associated cell adhesion molecule CAR, consequently repressing their transcription.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa53_emtc_em_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21041997"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNAIL1/SMAD3/SMAD4"/> <bbox w="158.0" h="113.0" x="3445.5" y="15853.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa437_emtc_em_sa437"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>snail homolog 1 </p> <p>HUGO:SNAI1, HGNC:11128, ENTREZ:6615, UNIPROT:O95863, GENECARDS:GC20P048599</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Feedback loops</p> <p>PMID:22514743</p> <p>PMID:17018611</p> <p>Snai1, Snai2, E47 transcription factors induce common and specific genetic programs, supporting a differential role of the factors in tumor progression and invasion.</p> <p>PMID:17563753 </p> <p>Activation of NF-kappaB by Akt upregulates Snail expression and induces epithelium mesenchyme transition.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SNAI1"/> <bbox w="40.0" h="20.0" x="3467.5" y="15856.0"/> <glyph class="state variable" id="_8f18285e-a84f-4adb-ad49-ab4630c79351"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3462.5" y="15852.022"/> </glyph> <glyph class="state variable" id="_029ea175-2e39-4b33-b160-39dcde3aa354"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3502.5" y="15852.051"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa439_emtc_em_sa439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1464_emtc_em_sa1464"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_B*"/> <bbox w="60.0" h="20.0" x="5920.0" y="14837.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa161_wca1_wca3_sa161" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa161_wca1_wca3_sa161"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="21691.06" y="21691.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa269_ce_csa269" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARP2:PNK*:POLB:WRN:XRCC1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:19748837, PMID:12637553, PMID:10858306, PMID:11948190, PMID:16442856, PMID:18398454, PMID:16449207</p> <p>PARP1 and PARP2 in BER</p> <p>PMID:22713970, PMID:22469522</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa269_ce_csa269"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19748837"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12637553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10858306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11948190"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16442856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18398454"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16449207"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22713970"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22469522"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP2/POLB/PNK*/XRCC1/WRN"/> <bbox w="203.0" h="184.0" x="9344.473" y="16477.355"/> <glyph class="macromolecule" id="s_id_ce_sa1561_ce_sa1561"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 2</p> <p>HUGO:PARP2, HGNC:272, ENTREZ:10038, Q9UGN5</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 and PARP2 in HR and in inhibition of C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> <p>PARP2 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> </body> </html> </notes> <label text="PARP2"/> <bbox w="80.0" h="40.0" x="9355.108" y="16537.992"/> <glyph class="state variable" id="_cc618a34-9fad-4317-bec1-bbd59d355178"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="9385.018" y="16532.992"/> </glyph> <glyph class="state variable" id="_ea0e9da4-4249-4f69-bb3f-66ed33ba93e0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9427.608" y="16552.271"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1555_ce_sa1555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PolB, polymerase (DNA directed), beta</p> <p>HUGO:POLB, HGNC:9174, ENTREZ:5423, UNIPROT:P06746</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> <p>POLB is important for repair of ROS-induced DNA damage, inhibiting impoves sensitivity to ROS-like drugs</p> <p>PMID:20510258, PMID:21251944</p> </body> </html> </notes> <label text="POLB"/> <bbox w="80.0" h="40.0" x="9445.973" y="16538.855"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1558_ce_sa1558"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Werner syndrome, RecQ helicase-like</p> <p>HUGO:WRN, HGNC:12791, ENTREZ:7486, UNIPROT:Q14191</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:20691907</p> <p>For A_NHEJ pathway</p> <p> (alt_NHEJ or B_NHEJ or MMEJ)</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>, PMID:21376743, PMID:24050180, PMID:22743550</p> <p>For HR pathway</p> <p>PMID:19490890, PMID:22657828 </p> <p>For BER pathway</p> <p>PMID:17116323, PMID:18398454, PMID:16449207, PMID:15385537, PMID:18558713, PMID:23161013</p> <p>WRN in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>Inhibiting WNT kills alt_NHEJ pathway</p> <p>PMID:24036544</p> <p>PARP1 inhibits WRN</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> <p>Activation of WRN in cancers</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="WRN"/> <bbox w="80.0" h="40.0" x="9357.3955" y="16492.203"/> <glyph class="state variable" id="_66fb1c22-7474-4852-bb8e-4ab33a65d1ee"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="9386.144" y="16487.203"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1556_ce_sa1556"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XRCC1 , X-ray repair complementing defective repair in Chinese hamster cells 1</p> <p>HUGO:XRCC1, HGNC:12828, ENTREZ:7515, UNIPROT:P18887</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:8978692, PMID:8264637, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20227374</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XRCC1"/> <bbox w="80.0" h="40.0" x="9358.017" y="16588.303"/> <glyph class="state variable" id="_d35d3314-3943-4fcd-ae6a-4ab12423d8a1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9407.085" y="16583.303"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1559_ce_sa1559"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Polynucleotide kinase 3'-phosphatase</p> <p>HUGO:PNKP, HGNC:9154, ENTREZ:11284, UNIPROT:Q96T60</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ, MODULE:BER</p> <p>References:</p> <p>PMID:20691907</p> <p>For C_NHEJ</p> <p>PMID:17638872, PMID:15385968, PMID:12032095 </p> <p>For BER</p> <p>PMID:11163244, PMID:19546231</p> </body> </html> </notes> <label text="PNK*"/> <bbox w="80.0" h="40.0" x="9442.473" y="16491.785"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1547_emtc_em_sa1547" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1547_emtc_em_sa1547"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K11"/> <clone/> <bbox w="64.0" h="22.0" x="6194.334" y="14834.166"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1547_emtc_em_sa1045" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1547_emtc_em_sa1045"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K11"/> <clone/> <bbox w="64.0" h="22.0" x="6029.898" y="14834.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2443_in_sa2443" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="HMOX1"/> <bbox w="90.0" h="25.0" x="11837.25" y="3412.5"/> <glyph class="unit of information" id="_267c905f-08fb-436c-9c31-5abd265de28a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11872.25" y="3407.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa46_shh1_shh1_csa46" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SIL*:SUFU</p> <p>References:</p> <p>s_shh1_re97:(MAP:survival) PMID:18829525</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa46_shh1_shh1_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18829525"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIL_SUFU"/> <bbox w="100.0" h="120.0" x="27392.06" y="19691.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa291_shh1_shh1_sa291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="27401.436" y="19749.0"/> <glyph class="state variable" id="_1e7b59a8-78f4-48e4-9994-7408a26bc70a"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="27386.928" y="19744.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa290_shh1_shh1_sa290"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SIL</p> <p>HUGO:STIL HGNC:10879 ENTREZ:6491 UNIPROT:Q15468 GENECARDS:STIL KEGG:6491 ATLASONC:SILID524ch1p32 WIKI:STIL</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="SIL*"/> <bbox w="80.0" h="40.0" x="27398.56" y="19705.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa644_rc_sa644" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa644_rc_sa644"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BNIP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BNIP3"/> <bbox w="80.0" h="40.0" x="26484.06" y="12274.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa540_in_sa540" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SHC1"/> <bbox w="80.0" h="40.0" x="16485.0" y="2920.0"/> <glyph class="state variable" id="_ce1c5e3f-1807-4e79-bf3e-415d0924d5e1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16477.5" y="2935.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1100_in_sa1100" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ARG2"/> <bbox w="107.0" h="61.0" x="13920.094" y="5445.4375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2442_in_sa2442" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="HMOX1"/> <bbox w="70.0" h="25.0" x="11847.25" y="3332.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa32_akt1_akt1_csa32" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RAC1:RPTOR</p> <p>References:</p> <p>s_akt1_re58(MAP:survival):</p> <p>PMID:19446321</p> <p>ANNOTATION:complex formation with DEPTOR antagonize/inhibits MTOR kinase activity</p> <p>PMID:19706736</p> <p>s_akt1_re202:(MAP:survival) PMID:19225151</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa32_akt1_akt1_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19446321"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19706736"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19225151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="171.0" h="240.0" x="13556.88" y="19359.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa183_akt1_akt1_sa183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="140.0" h="46.0" x="13573.38" y="19460.0"/> <glyph class="state variable" id="_61f7a3a3-2588-40c4-ac6f-ca5fb0224320"> <state value="P" variable="S696"/> <bbox w="35.0" h="10.0" x="13555.88" y="19477.963"/> </glyph> <glyph class="state variable" id="_1cf52ded-297d-4311-aa41-a621cf2feb10"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="13655.541" y="19455.0"/> </glyph> <glyph class="state variable" id="_0e77f3ef-95d5-4a6e-86f1-c65c8f1b016e"> <state value="P" variable="S863"/> <bbox w="35.0" h="10.0" x="13655.278" y="19501.0"/> </glyph> <glyph class="state variable" id="_95a409c2-51fd-4abe-81f5-ada66217ab53"> <state value="P" variable="S877"/> <bbox w="35.0" h="10.0" x="13592.721" y="19501.0"/> </glyph> <glyph class="state variable" id="_0b249d3d-8fdf-44b2-874a-cd6e19e94913"> <state value="P" variable="S859"/> <bbox w="35.0" h="10.0" x="13695.88" y="19475.459"/> </glyph> <glyph class="state variable" id="_d3582563-1f87-4ce8-8740-6727a85dbc21"> <state value="P" variable="T706"/> <bbox w="35.0" h="10.0" x="13590.393" y="19455.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa526_akt1_akt1_sa526"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="13596.561" y="19371.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa184_akt1_akt1_sa184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="160.0" h="62.0" x="13562.38" y="19514.5"/> <glyph class="state variable" id="_ddf3a96b-a0ef-4c29-b293-ffcd9a49d9ba"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="13549.449" y="19509.5"/> </glyph> <glyph class="state variable" id="_dd08b6c8-bd0c-4841-ae8f-6bcfc692faea"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="13542.38" y="19569.87"/> </glyph> <glyph class="state variable" id="_2f21b972-5c34-44ab-b401-2982d2654852"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="13698.044" y="19509.5"/> </glyph> <glyph class="state variable" id="_266cb7e1-574c-4d41-9578-3f8c49c152b8"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="13547.38" y="19540.5"/> </glyph> <glyph class="state variable" id="_e694c879-5824-48fc-a757-f85f27a4202c"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="13703.644" y="19571.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa182_akt1_akt1_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="13594.38" y="19413.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa81_shh1_shh3_sa81" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <label text="PI3,4,5-P3"/> <clone/> <bbox w="70.0" h="25.0" x="28072.56" y="22424.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa81_shh1_shh3_sa67" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <label text="PI3,4,5-P3"/> <clone/> <bbox w="70.0" h="25.0" x="27710.06" y="22420.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3072_rc_sa3072" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<p>NAME:BCL2L11:DYNLL1</p> </body> </html> </notes> <label text="BCL2L11:dynein motor complex"/> <bbox w="100.0" h="120.0" x="22754.56" y="12152.75"/> <glyph class="macromolecule" id="s_id_rc_sa1298_rc_sa1298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dynein, light chain, LC8-type 1</p> <p>HUGO:DYNLL1 HGNC:15476 ENTREZ:8655 UNIPROT:P63167</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>part of cytoskeletal structures with heavy and intermediary chains</p> </body> </html> </notes> <label text="DYNLL1"/> <bbox w="80.0" h="40.0" x="22763.56" y="12210.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1299_rc_sa1299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 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<state value="P" variable="S196"/> <bbox w="35.0" h="10.0" x="8351.951" y="15728.6455"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2430_emtc_em_sa2430" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2430_emtc_em_sa2430"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF3"/> <bbox w="40.0" h="18.0" x="3459.0" y="18986.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa468_rc_sa468" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa468_rc_sa2518"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="20852.31" y="14348.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa468_rc_sa212" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa468_rc_sa212"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="19542.31" y="14787.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa468_rc_sa3087" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa468_rc_sa3087"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="21232.676" y="14378.468"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa468_rc_sa116" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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<p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa468_rc_sa2780"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="19217.06" y="14914.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa468_rc_sa2522" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa468_rc_sa2522"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP"/> <clone/> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa492_ca_sa492"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMP4"/> <bbox w="70.0" h="25.0" x="4165.0" y="4242.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa79_ca_csa79" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LAP:LTBP*:TGFB*</p> <p>References:</p> <p>PMID:26519775; PMID:18086923; PMID:24309651 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa79_ca_csa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18086923"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24309651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text=" Large_Latent_Complex "/> <bbox w="105.0" h="165.0" x="3737.0" y="4677.0"/> <glyph class="macromolecule" id="s_id_ca_sa659_ca_sa659"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 hgnc_id:HGNC:11766 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 </p> <p>transforming growth factor beta 2</p> <p>HUGO:TGFB2 hgnc_id:HGNC:11768 HGNC:11768 ENTREZ:7042 UNIPROT:P61812 </p> <p>transforming growth factor beta 3</p> <p>HUGO:TGFB3 hgnc_id:HGNC:11769 HGNC:11769 ENTREZ:7043 UNIPROT:P10600</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TNF</p> <p>PMID:21098712 </p> <p>Cancer TGFB exosomes trigger fibroblast to myofibroblast differentiation</p> <p>PMID:15653932 </p> <p>Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. Western blot analysis showed that TNF-α activated the extracellular signal–regulated kinase (ERK), and inhibitors of the ERK-specific mitogen-activated protein kinase pathway (PD98059 or U0126) blocked TNF-α induction of TGF-β1</p> <p>PMID:23784029, PMID:16572188, PMID:8515656</p> <p>TGF-β1 treatment successfully transformed primary resting fibroblasts into CAFs</p> <p>PMID:19038247 </p> <p>TGFbeta induces fibroblast collagen biosynthesis downstream of CCL7 and via SMAD3.</p> <p>Thus, ERK, a MAPK family member, phosphorylates serine residues in the linker regions of Smad1–3 and ERK inhibition reduces TGFβ-stimulated Smad phosphorylation as well as collagen biosynthesis, suggesting that ERK activation is necessary for an optimal response to TGFβ [9]. Similarly, p38 MAPK has been shown to be central to TGFβ mediated-collagen and fibronectin expression in SSc fibroblasts [10].</p> <p>PMID:19747910</p> <p>Through paracrine signaling molecules, TGF-beta and IL-1beta, cancer cells activate stromal fibroblasts and induce the expression of fibroblast activation protein (FAP). FAP, in turn, affects the proliferation, invasion and migration of the cancer cells. We report that TGF-beta and IL-1beta are important factors in inducing differentiation of myofibroblasts and expression of functional markers, notably alpha-SMA.</p> <p>PMID:18423981 </p> <p>Differential impact of TGF-beta and EGF on fibroblast differentiation and invasion reciprocally promotes colon cancer cell invasion.</p> <p>PMID:23034983 </p> <p>Inhibition of TGF-beta/Smad signaling by BAMBI blocks differentiation of human mesenchymal stem cells to carcinoma-associated fibroblasts and abolishes their protumor effects</p> <p>PMID:21041659 </p> <p>Autocrine TGF-beta and stromal cell-derived factor-1 (SDF-1) signaling drives the evolution of tumor-promoting mammary stromal myofibroblasts</p> <p>PMID:17768418</p> <p>TGFbeta is responsible for skin tumour infiltration by macrophages enabling the tumours to escape immune destruction.</p> <p>TGFbeta-mediated tumour progression was accompanied by an increase in tumour-associated macrophages (TAM) and a decrease in tumour-infiltrating dendritic cells (DCs). </p> <p>???</p> <p>both TGF-β1 and TGF-β2 are up-regulated in CAFs</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling</p> <p>PMID:15003992 </p> <p> TGF-β-mediated myofibroblast differentiation and proliferation of the NRK fibroblasts are mutually exclusive responses to TGF-β. Differentiation into myofibroblasts appears to be the default pathway whereas proliferation becomes the dominant and sole response when both TGF-β and EGF are present.</p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>PMID:17979848</p> <p>TGF-β promotes the generation and function of Treg cells</p> <p>TGF-β is able to convert CD4+CD25− non-Treg cells into CD4+CD25+ Treg cells, and this conversion was accompanied with increased Foxp3 expression</p> <p>PMID:26201938 </p> <p>The expression levels of cytokine genes, including those for IL6, CXCL8, TNF, TGFB1, and VEGFA, were higher in CAFs. T cell proliferation was suppressed more by CAFs or their supernatants than by NFs.</p> <p>PMID:22874531</p> <p>TGFB treatment induces the autophagy-mediated downregulation of Cav-1 in fibroblasts.</p> </body> </html> </notes> <label text="TGFB*"/> <bbox w="80.0" h="40.0" x="3752.0" y="4767.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa657_ca_sa657"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1 hgnc_id:HGNC:6714 HGNC:6714 ENTREZ:4052 UNIPROT:Q14766 </p> <p>latent transforming growth factor beta binding protein 2</p> <p>HUGO:LTBP2 hgnc_id:HGNC:6715 HGNC:6715 ENTREZ:4053 UNIPROT:Q14767 </p> <p>latent transforming growth factor beta binding protein 3</p> <p>HUGO:LTBP3 hgnc_id:HGNC:6716 HGNC:6716 ENTREZ:4054 UNIPROT:Q9NS15 </p> <p>latent transforming growth factor beta binding protein 4</p> <p>HUGO:LTBP4 hgnc_id:HGNC:6717 HGNC:6717 ENTREZ:8425 UNIPROT:Q8N2S1</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE TGFB</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <label text="LTBP*"/> <bbox w="80.0" h="40.0" x="3752.0" y="4687.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa658_ca_sa658"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGFB induced factor homeobox 1</p> <p>HUGO:TGIF1 hgnc_id:HGNC:11776 HGNC:11776 ENTREZ:7050 UNIPROT:Q15583</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC)</p> </body> </html> </notes> <label text="LAP"/> <bbox w="80.0" h="40.0" x="3752.0" y="4727.0"/> <glyph class="unit of information" id="_18d0832e-19ad-472c-8058-1ef899379d98"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="3767.0" y="4722.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1267_ad_sa1267" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:27192565; PMID:22842346</p> <p>Tim-3 ligands include soluble ligands (galectin-9 and HMGB1) and cell</p> <p>surface ligands (Ceacam-1 and Phosphatidyl serine [PtdSer]).</p> <p>(Data about HMGB frome innat immune module only)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1267_ad_sa1267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HMGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> 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of Cell-Mediated Cytotoxicity</p> <p>Vav-2 Becomes Tyrosine Phosphorylated after TCR Cross-Linking.</p> <p>Vav-2 Does Not Activate NFAT–AP-1–mediated Gene Transcription after TCR Cross-Linking.</p> <p>Vav-2 does not regulate the IL-2 promoter after TCR cross-linking.</p> <p>PMID:11262396</p> <p>Vav2 activates c-fos serum response element and CD69 expression but negatively regulates nuclear factor of activated T cells and interleukin-2 gene activation in T lymphocyte.</p> <p>either Vav1 or Vav2 further increased ERK2 activation following TCR stimulation (robably via RAS)</p> <p>Vav2 Functions Upstream of Cn to Inhibit TCR-induced NF-AT Activation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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</rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="2907.0" y="15800.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa224_mo_sa224" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>cyclin-dependent kinase 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa224_mo_sa224"> 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</glyph> <glyph class="simple chemical" id="s_id_rc_sa4797_rc_sa5540" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="33.0" h="33.0" x="26064.56" y="13812.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4797_rc_sa4974" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="33.0" h="33.0" x="27368.904" y="13082.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4797_rc_sa4819" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="33.0" h="33.0" x="26328.904" y="13062.75"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1472_emtc_em_sa1472" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="JNK pathway"/> <bbox w="100.0" h="20.0" x="6304.0" y="14846.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1854_rc_sa1854" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1854_rc_sa1854"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSPT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSPT1"/> <bbox w="80.0" h="40.0" x="25099.06" y="12159.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa82_mpk1_mpk1_csa82" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB*:TAK1*:TGFBR1:TGFBR2</p> </body> </html> </notes> <label text="TAB*:TAK1*:TGFBR1:TGFBR2"/> <bbox w="199.0" h="85.0" x="11070.057" y="19755.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa459_mpk1_mpk1_sa459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 </p> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>MAP3K7IP2 "mitogen-activated protein kinase kinase kinase 7 interacting protein 2"</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 </p> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 3</p> <p>MAP3K7IP3 "mitogen-activated protein kinase kinase kinase 7 interacting protein 3"</p> <p>HUGO:TAB3 HGNC:30681 ENTREZ:257397 UNIPROT:Q8N5C8</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TAK1 is the only MAP3K that requires the adapter proteins TAB123 for its activation.</p> </body> </html> </notes> <label text="TAB*"/> <bbox w="50.0" h="25.0" x="11111.224" y="19788.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa460_mpk1_mpk1_sa460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="73.0" h="26.0" x="11160.224" y="19787.0"/> <glyph class="state variable" id="_0c055971-2e0d-4bc5-8c82-e350febdd342"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11152.724" y="19795.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa576_mpk1_mpk1_sa576"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor II (70/80kDa)</p> <p>MFS2 "transforming growth factor beta receptor II (70-80kD)"</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-beta is known to cause a hetero-oligomerisation of the TGFBR1/TGFBR2 complex consisting of two TGFBR1 and two TGFBR2 molecules to activate it (not modelled).</p> <p>Besides cellular stresses the SAPK pathways are also activated by cytokines such as TGF-beta. Smad-dependent gene expression can provoke P38 activation in response to TGFbeta.</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="55.0" h="25.0" x="11167.242" y="19764.408"/> <glyph class="unit of information" id="_52487d34-9a57-4795-820c-022b836584bf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11172.242" y="19759.408"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa575_mpk1_mpk1_sa575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>"transforming growth factor beta receptor I (activin A receptor type II-like kinase 53kD)"</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-beta is known to cause a hetero-oligomerisation of the TGFBR1/TGFBR2 complex consisting of two TGFBR1 and two TGFBR2 molecules to activate it (not modelled).</p> <p>Besides cellular stresses the SAPK pathways are also activated by cytokines such as TGF-beta. Smad-dependent gene expression can provoke P38 activation in response to TGFbeta.</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="55.0" h="25.0" x="11111.242" y="19763.408"/> <glyph class="unit of information" id="_95015d23-75f7-42a0-8158-29a5db7ab9be"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11116.242" y="19758.408"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2868_rc_sa2868" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2868_rc_sa2868"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK6"/> <clone/> <bbox w="90.0" h="25.0" x="22180.06" y="15998.5"/> <glyph class="unit of information" id="_3404520f-7310-422f-b541-c296f5698416"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22215.06" y="15993.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2868_em_sa2119" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2868_em_sa2119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK6"/> <clone/> <bbox w="61.0" h="20.0" x="3773.0" y="14948.5"/> <glyph class="unit of information" id="_e5872a52-2f11-42da-91fb-6c8b3764e148"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3793.5" y="14943.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa337_in_csa337" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s4051"/> <bbox w="100.0" h="120.0" x="19806.25" y="5285.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa2584_in_sa2584"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IFNG"/> <bbox w="83.0" h="27.0" x="19815.0" y="5331.875"/> <glyph class="unit of information" id="_3a565f7c-5e14-4769-8651-28ad12d1b855"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19846.5" y="5326.875"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2583_in_sa2583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR15/16*"/> <bbox w="90.0" h="25.0" x="19811.25" y="5302.5"/> <glyph class="unit of information" id="_8a94e554-ce86-4a37-9343-a8f281767cd2"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="19841.25" y="5297.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa17_wca1_wca1_csa17" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN*:CK1_alpha_*:GSK3*:PPP1C*:PPP1R*</p> <p>References:</p> <p>s_wca1_re16:(MAP:survival) PMID:17318175 PMID:19581931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa17_wca1_wca1_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex_PP1)"/> <bbox w="257.0" h="168.0" x="20641.06" y="17977.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa92_wca1_wca1_sa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20648.06" y="17991.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa97_wca1_wca1_sa97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20648.06" y="18034.5"/> <glyph class="state variable" id="_09a9644b-4d15-4987-aafc-b49583d8686a"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20641.053" y="18029.5"/> </glyph> <glyph class="state variable" id="_c29a69d9-b045-4a96-9f59-b100e4c52208"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20720.56" y="18029.713"/> </glyph> <glyph class="state variable" id="_95d0d049-04e7-4e45-92f2-3b347548c25c"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20635.56" y="18069.22"/> </glyph> <glyph class="state variable" id="_a8633abe-704b-4d59-81bb-ccc751255d25"> <state value="P" variable="S222"/> <bbox w="35.0" h="10.0" x="20710.56" y="18029.713"/> </glyph> <glyph class="state variable" id="_ac37b28a-f8ae-4493-b242-17ca4c07342a"> <state value="P" variable="S473"/> <bbox w="35.0" h="10.0" x="20709.941" y="18069.5"/> </glyph> <glyph class="state variable" id="_15a0f490-e4d9-4572-ae36-e75dca44ec93"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="20675.465" y="18069.5"/> </glyph> <glyph class="state variable" id="_d94f68cc-8115-43c3-ac73-0094eec89c18"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="20672.965" y="18069.5"/> </glyph> <glyph class="state variable" id="_81f1b45c-792b-40ed-90d3-9a88b2fb596a"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="20633.06" y="18069.22"/> </glyph> <glyph class="state variable" id="_ba9dde3a-41de-447d-af69-60113db64f85"> <state value="P" variable="S82"/> <bbox w="30.0" h="10.0" x="20673.092" y="18029.5"/> </glyph> <glyph class="state variable" id="_e339a6f4-dee1-4a70-a805-d574759fab90"> <state value="P" variable="S80"/> <bbox w="30.0" h="10.0" x="20633.553" y="18029.5"/> </glyph> <glyph class="state variable" id="_4f663b51-cdc4-427e-8b0d-087fdcadfee0"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="20714.941" y="18069.5"/> </glyph> <glyph class="state variable" id="_14bc56dd-93fb-4089-8928-0965b0869f42"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20643.064" y="18029.5"/> </glyph> <glyph class="state variable" id="_8d7d029a-7621-4d38-a8b7-e6fe0163a243"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20723.06" y="18029.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa93_wca1_wca1_sa93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20732.56" y="17991.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa96_wca1_wca1_sa96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20648.06" y="18076.5"/> <glyph class="state variable" id="_313157ca-e3cf-4ae5-8c3d-32193e459af8"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20636.053" y="18071.5"/> </glyph> <glyph class="state variable" id="_3d294e74-6658-42ed-9b5b-0f0cab32c5fa"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20630.56" y="18111.22"/> </glyph> <glyph class="state variable" id="_0b8998a4-4288-4c3a-b9cd-e8f9354c49ec"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20709.941" y="18111.5"/> </glyph> <glyph class="state variable" id="_87eb0689-12cb-455b-b227-c877d41b4c83"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20631.053" y="18071.5"/> </glyph> <glyph class="state variable" id="_b0f9c3cc-3002-4052-b3d1-7c86c1d649b0"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20710.56" y="18071.713"/> </glyph> <glyph class="state variable" id="_6e1c2faa-7e47-4b78-aa5b-23cddc08353b"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20670.465" y="18111.5"/> </glyph> <glyph class="state variable" id="_4551b649-3b79-4c42-be2f-7e93cc2db769"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20710.56" y="18110.633"/> </glyph> <glyph class="state variable" id="_9c1a6c12-7d85-4f41-aaa5-22070cddd88b"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20670.592" y="18071.5"/> </glyph> <glyph class="state variable" id="_08d15667-64a2-4cb8-9f88-568db37555f5"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20630.56" y="18111.22"/> </glyph> <glyph class="state variable" id="_8bd14319-5da5-4eae-aa76-67f10bf2cb62"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20631.053" y="18071.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa89_wca1_wca1_sa89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1A</p> <p>HUGO:PPP1R1A HGNC:9286 ENTREZ:5502 UNIPROT:Q13522 GENECARDS:PPP1R1A KEGG:5502 ATLASONC:GC_PPP1R1A WIKI:PPP1R1A </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1B</p> <p>HUGO:PPP1R1B HGNC:9287 ENTREZ:84152 UNIPROT:Q9UD71 GENECARDS:PPP1R1B REACTOME:57451 KEGG:84152 ATLASONC:PPP1R1BID44096ch17q12 WIKI:PPP1R1B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1C</p> <p>HUGO:PPP1R1C HGNC:14940 ENTREZ:151242 UNIPROT:Q8WVI7 GENECARDS:PPP1R1C KEGG:151242 ATLASONC:GC_PPP1R1C WIKI:PPP1R1C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 2</p> <p>HUGO:PPP1R2 HGNC:9288 ENTREZ:5504 UNIPROT:P41236 GENECARDS:PPP1R2 KEGG:5504 ATLASONC:GC_PPP1R2 WIKI:PPP1R2 </p> <p>protein phosphatase 1 regulatory subunit 3A</p> <p>HUGO:PPP1R3A HGNC:9291 ENTREZ:5506 UNIPROT:Q16821 GENECARDS:PPP1R3A KEGG:5506 ATLASONC:GC_PPP1R3A WIKI:PPP1R3A </p> <p>protein phosphatase 1 regulatory subunit 3B</p> <p>HUGO:PPP1R3B HGNC:14942 ENTREZ:79660 UNIPROT:Q86XI6 GENECARDS:PPP1R3B KEGG:79660 ATLASONC:GC_PPP1R3B WIKI:PPP1R3B </p> <p>protein phosphatase 1 regulatory subunit 3C</p> <p>HUGO:PPP1R3C HGNC:9293 ENTREZ:5507 UNIPROT:Q9UQK1 GENECARDS:PPP1R3C KEGG:5507 ATLASONC:GC_PPP1R3C WIKI:PPP1R3C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 3D</p> <p>HUGO:PPP1R3D HGNC:9294 ENTREZ:5509 UNIPROT:O95685 GENECARDS:PPP1R3D KEGG:5509 ATLASONC:GC_PPP1R3D WIKI:PPP1R3D </p> <p>protein phosphatase 1 regulatory subunit 3E</p> <p>HUGO:PPP1R3E HGNC:14943 ENTREZ:90673 UNIPROT:Q9H7J1 GENECARDS:PPP1R3E ATLASONC:GC_PPP1R3E WIKI:PPP1R3E </p> <p>protein phosphatase 1 regulatory subunit 3F</p> <p>HUGO:PPP1R3F HGNC:14944 ENTREZ:89801 UNIPROT:Q6ZSY5 GENECARDS:PPP1R3F KEGG:89801 ATLASONC:GC_PPP1R3F WIKI:PPP1R3F </p> <p>protein phosphatase 1 regulatory subunit 3G</p> <p>HUGO:PPP1R3G HGNC:14945 ENTREZ:648791 UNIPROT:B7ZBB8 GENECARDS:PPP1R3G ATLASONC:GC_PPP1R3G WIKI:PPP1R3G </p> <p>protein phosphatase 1 regulatory subunit 7</p> <p>HUGO:PPP1R7 HGNC:9295 ENTREZ:5510 UNIPROT:Q15435 GENECARDS:PPP1R7 KEGG:5510 ATLASONC:GC_PPP1R7 WIKI:PPP1R7 </p> <p>protein phosphatase 1 regulatory subunit 8</p> <p>HUGO:PPP1R8 HGNC:9296 ENTREZ:5511 UNIPROT:Q12972 GENECARDS:PPP1R8 KEGG:5511 ATLASONC:PPP1R8ID41811ch1p35 WIKI:PPP1R8 </p> <p>protein phosphatase 1 regulatory subunit 9A</p> <p>HUGO:PPP1R9A HGNC:14946 ENTREZ:55607 UNIPROT:Q9ULJ8 GENECARDS:PPP1R9A KEGG:55607 ATLASONC:GC_PPP1R9A WIKI:PPP1R9A </p> <p>protein phosphatase 1 regulatory subunit 9B</p> <p>HUGO:PPP1R9B HGNC:9298 ENTREZ:84687 UNIPROT:Q96SB3 GENECARDS:PPP1R9B KEGG:84687 ATLASONC:PPP1R9BID51558ch17q21 WIKI:PPP1R9B </p> <p>protein phosphatase 1 regulatory subunit 10</p> <p>HUGO:PPP1R10 HGNC:9284 ENTREZ:5514 UNIPROT:Q96QC0 GENECARDS:PPP1R10 KEGG:5514 ATLASONC:GC_PPP1R10 WIKI:PPP1R10 </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 11</p> <p>HUGO:PPP1R11 HGNC:9285 ENTREZ:6992 UNIPROT:O60927 GENECARDS:PPP1R11 KEGG:6992 ATLASONC:GC_PPP1R11 WIKI:PPP1R11 </p> <p>protein phosphatase 1 regulatory subunit 12A</p> <p>HUGO:PPP1R12A HGNC:7618 ENTREZ:4659 UNIPROT:O14974 GENECARDS:PPP1R12A REACTOME:150515 KEGG:4659 ATLASONC:GC_PPP1R12A WIKI:PPP1R12A </p> <p>protein phosphatase 1 regulatory subunit 12B</p> <p>HUGO:PPP1R12B HGNC:7619 ENTREZ:4660 UNIPROT:O60237 GENECARDS:PPP1R12B REACTOME:150526 KEGG:4660 ATLASONC:GC_PPP1R12B WIKI:PPP1R12B </p> <p>protein phosphatase 1 regulatory subunit 12C</p> <p>HUGO:PPP1R12C HGNC:14947 ENTREZ:54776 UNIPROT:Q9BZL4 GENECARDS:PPP1R12C KEGG:54776 ATLASONC:GC_PPP1R12C WIKI:PPP1R12C </p> <p>protein phosphatase 1 regulatory subunit 13B</p> <p>HUGO:PPP1R13B HGNC:14950 ENTREZ:23368 UNIPROT:Q96KQ4 GENECARDS:PPP1R13B KEGG:23368 ATLASONC:GC_PPP1R13B WIKI:PPP1R13B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14A</p> <p>HUGO:PPP1R14A HGNC:14871 ENTREZ:94274 UNIPROT:Q96A00 GENECARDS:PPP1R14A KEGG:94274 ATLASONC:GC_PPP1R14A WIKI:PPP1R14A </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14B</p> <p>HUGO:PPP1R14B HGNC:9057 ENTREZ:26472 UNIPROT:Q96C90 GENECARDS:PPP1R14B KEGG:26472 ATLASONC:GC_PPP1R14B WIKI:PPP1R14B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14C</p> <p>HUGO:PPP1R14C HGNC:14952 ENTREZ:81706 UNIPROT:Q8TAE6 GENECARDS:PPP1R14C KEGG:81706 ATLASONC:GC_PPP1R14C WIKI:PPP1R14C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14D</p> <p>HUGO:PPP1R14D HGNC:14953 ENTREZ:54866 UNIPROT:Q9NXH3 GENECARDS:PPP1R14D KEGG:54866 ATLASONC:GC_PPP1R14D WIKI:PPP1R14D </p> <p>protein phosphatase 1 regulatory subunit 15A</p> <p>HUGO:PPP1R15A HGNC:14375 ENTREZ:23645 UNIPROT:O75807 GENECARDS:PPP1R15A REACTOME:243750 KEGG:23645 ATLASONC:GC_PPP1R15A WIKI:PPP1R15A </p> <p>protein phosphatase 1 regulatory subunit 15B</p> <p>HUGO:PPP1R15B HGNC:14951 ENTREZ:84919 UNIPROT:Q5SWA1 GENECARDS:PPP1R15B KEGG:84919 ATLASONC:GC_PPP1R15B WIKI:PPP1R15B HUGO:PPP1R15A HGNC:14375 ENTREZ:23645 UNIPROT:O75807 GENECARDS:PPP1R15A REACTOME:243750 KEGG:23645 ATLASONC:GC_PPP1R15A WIKI:PPP1R15A </p> <p>protein phosphatase 1 regulatory subunit 16A</p> <p>HUGO:PPP1R16A HGNC:14941 ENTREZ:84988 UNIPROT:Q96I34 GENECARDS:PPP1R16A KEGG:84988 ATLASONC:GC_PPP1R16A WIKI:PPP1R16A </p> <p>protein phosphatase 1 regulatory subunit 16B</p> <p>HUGO:PPP1R16B HGNC:15850 ENTREZ:26051 UNIPROT:Q96T49 GENECARDS:PPP1R16B KEGG:26051 ATLASONC:GC_PPP1R16B WIKI:PPP1R16B </p> <p>protein phosphatase 1 regulatory subunit 17</p> <p>HUGO:PPP1R17 HGNC:16973 ENTREZ:10842 UNIPROT:O96001 GENECARDS:PPP1R17 KEGG:10842 WIKI:PPP1R17 </p> <p>protein phosphatase 1 regulatory subunit 18</p> <p>HUGO:PPP1R18 HGNC:29413 ENTREZ:170954 UNIPROT:Q6NYC8 GENECARDS:PPP1R18 KEGG:170954 WIKI:PPP1R18 </p> <p>protein phosphatase 1 regulatory subunit 21</p> <p>HUGO:PPP1R21 HGNC:30595 ENTREZ:129285 UNIPROT:Q6ZMI0 GENECARDS:PPP1R21 KEGG:129285 WIKI:PPP1R21 </p> <p>protein phosphatase 1 regulatory subunit 26</p> <p>HUGO:PPP1R26 HGNC:29089 ENTREZ:9858 UNIPROT:Q5T8A7 GENECARDS:PPP1R26 KEGG:9858 ATLASONC:GC_PPP1R26 WIKI:PPP1R26 </p> <p>protein phosphatase 1 regulatory subunit 27</p> <p>HUGO:PPP1R27 HGNC:16813 ENTREZ:116729 UNIPROT:Q86WC6 GENECARDS:PPP1R27 KEGG:116729 WIKI:PPP1R27 </p> <p>protein phosphatase 1 regulatory subunit 32</p> <p>HUGO:PPP1R32 HGNC:28869 ENTREZ:220004 UNIPROT:Q7Z5V6 GENECARDS:PPP1R32 KEGG:220004 WIKI:PPP1R32 </p> <p>protein phosphatase 1 regulatory subunit 35</p> <p>HUGO:PPP1R35 HGNC:28320 ENTREZ:221908 UNIPROT:Q8TAP8 GENECARDS:PPP1R35 KEGG:221908 WIKI:PPP1R35 </p> <p>protein phosphatase 1 regulatory subunit 36</p> <p>HUGO:PPP1R36 HGNC:20097 ENTREZ:145376 UNIPROT:Q96LQ0 GENECARDS:PPP1R36 KEGG:145376 WIKI:PPP1R36 </p> <p>protein phosphatase 1 regulatory subunit 37</p> <p>HUGO:PPP1R37 HGNC:27607 ENTREZ:284352 UNIPROT:O75864 GENECARDS:PPP1R37 KEGG:284352 WIKI:PPP1R37 </p> <p>protein phosphatase 1 regulatory subunit 39</p> <p>HUGO:PPP1R39 GENECARDS:PPP1R39 KEGG:153769 WIKI:PPP1R39 </p> <p>protein phosphatase 1 regulatory subunit 42</p> <p>HUGO:PPP1R42 HGNC:33732 ENTREZ:286187 UNIPROT:Q7Z4L9 GENECARDS:PPP1R42 KEGG:286187 WIKI:PPP1R42</p> <p>Map modules:</p> <p>MAP:cellcycle / MODULE:RB, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PPP1R*"/> <bbox w="80.0" h="40.0" x="20732.56" y="18076.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_sa1305_wca1_sa1305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20843316</p> <p>s_wca1_re34(MAP:survival):</p> <p>PMID:21498506 </p> <p>Membrane-bound AMER1 acts as scaffold and brings APC to the membrane</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20815.06" y="18001.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa88_wca1_wca1_sa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Protein phosphatase 1 catalytic subunit alpha isozyme</p> <p>HUGO:PPP1CA HGNC:9281 ENTREZ:5499 UNIPROT:P62136 GENECARDS:PPP1CA REACTOME:61996 KEGG:5499 ATLASONC:GC_PPP1CA WIKI:PPP1CA </p> <p>Protein phosphatase 1 catalytic subunit beta isozyme</p> <p>HUGO:PPP1CB HGNC:9282 ENTREZ:5500 UNIPROT:P62140 GENECARDS:PPP1CB REACTOME:62004 KEGG:5500 ATLASONC:GC_PPP1CB WIKI:PPP1CB </p> <p>Protein phosphatase 1 catalytic subunit gamma isozyme</p> <p>HUGO:PPP1CC HGNC:9283 ENTREZ:5501 UNIPROT:P36873 GENECARDS:PPP1CC REACTOME:62014 KEGG:5501 ATLASONC:GC_PPP1CC WIKI:PPP1CC</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:cellcycle / MODULE:RB, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PPP1C*"/> <bbox w="80.0" h="40.0" x="20732.56" y="18034.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1095_ad_sa1095" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TH1, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR, CASCADE:IL2, CASCADE:IL12, CASCADE:IL18</p> <p>PMID:24104473</p> <p> Triggering of the T cell receptor (TCR) activates Src family kinases (SFK) and the zeta-chain-associated protein of 70 kDa (ZAP-70). These tyrosine kinases lead to the activation of the transcription factor NF-κB and the p38 mitogen-activated protein kinase. NF-κB induces transcription of the Gadd45b gene. The same applies to the cytokines IL-12 and IL-18 as well as stimulation of the Notch receptor and its cytoplasmic effector Deltex. The cytokine IL-2 activates transcription of the Gadd45g gene. Both Gadd45β and Gadd45γ proteins interact with the kinase MEKK4, which leads to sustained p38 activation and, subsequently, to interferon-γ (IFN-γ) production and Th1 differentiation.</p> <p>PMID:11371360</p> <p>GADD45G was highly expressed in TH1 versus TH2 cells</p> <p>p38 kinase activity was induced when TH1 cells were activated by α-CD3 antibody. However, it was not induced in GADD45γ−/− TH1 effector cells</p> <p>GADD45γ protein therefore mediates TCR-stimulated p38 MAP kinase activation in TH1 effector cells.</p> <p>JNK activity was induced in wild-type TH1 effector cells upon α-CD3 antibody treatment, it was not induced in GADD45γ−/− TH1 effector cells (Figure 4B). Therefore, GADD45γ is required for both p38 and JNK MAP kinase activation through TCR stimulation in TH1 effector cells.</p> <p>The reduction in IFN-γ secretion was the result of reduced expression of IFN-γ mRNA by GADD45γ−/− CD4+ T cells (probably via p38)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1095_ad_sa1095"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p70β*"/> <bbox w="80.0" h="40.0" x="26617.06" y="18141.0"/> <glyph class="state variable" id="_1f74d1d6-a9c7-441c-af7f-6859e2d68b63"> <state value="P" variable="T228"/> <bbox w="35.0" h="10.0" x="26600.053" y="18136.0"/> </glyph> <glyph class="state variable" id="_57b5f6ad-99a3-4bc6-9596-6fddfd255a77"> <state value="P" variable="T388"/> <bbox w="35.0" h="10.0" x="26678.941" y="18176.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa998_rc_sa998" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1151_emtc_em_sa1151"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin8*"/> <bbox w="58.0" h="18.0" x="1133.0" y="15616.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa60_mo_sa60" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>early growth response 1 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa60_mo_sa60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGR1"/> <bbox w="80.0" h="40.0" x="4356.125" y="10242.875"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa42_emtc_em_sa42" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa42_emtc_em_sa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD1"/> <bbox w="60.0" h="20.0" x="5393.75" y="16590.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa27_wnc1_wnc1_csa27" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha__sub_s_endsub_*:G_beta_*:G_gamma_*:LRP6</p> <p>References:</p> <p>s_wnc1_re45:(MAP:survival) PMID:21406690</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa27_wnc1_wnc1_csa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(LRP6_phosph_G-protein)"/> <bbox w="155.0" h="110.0" x="17030.56" y="17991.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa179_wnc1_wnc1_sa179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GNAS complex locus</p> <p>GNAS1, "guanine nucleotide binding protein (G protein), alpha stimulating activity polypeptide 1"</p> <p>HUGO:GNAS HGNC:4392 ENTREZ:2778 UNIPROT:O95467 GENECARDS:GNAS KEGG:2778 ATLASONC:GNASID40727ch20q13 WIKI:GNAS</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gαs*"/> <bbox w="40.0" h="20.0" x="17045.56" y="18061.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa169_wnc1_wnc1_sa169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="17125.56" y="18061.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa170_wnc1_wnc1_sa170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="17085.56" y="18061.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa178_wnc1_wnc1_sa178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="17065.56" y="18006.0"/> <glyph class="state variable" id="_5a69a8fc-aadb-4c6b-a5ce-5f0f1ea51c52"> <state value="P" variable="S1544"/> <bbox w="40.0" h="10.0" x="17125.56" y="18001.266"/> </glyph> <glyph class="state variable" id="_333d27f7-8c75-4a12-b08b-3706a3635b5a"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="17088.092" y="18001.0"/> </glyph> <glyph class="state variable" id="_55d05a22-f129-49f9-ac9c-136cd5976ffe"> <state value="" variable="T1572"/> <bbox w="35.0" h="10.0" x="17048.06" y="18025.96"/> </glyph> <glyph class="state variable" id="_a6cd685e-88dc-4dc9-9869-5a2f9a9e7424"> <state value="P" variable="T1548"/> <bbox w="40.0" h="10.0" x="17125.56" y="18039.438"/> </glyph> <glyph class="unit of information" id="_16e4cd6d-7693-4b1d-af29-0914c75acd86"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17083.06" y="18001.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa180_wnc1_wnc1_sa180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="17043.06" y="18038.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4918_rc_sa4918" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4918_rc_sa4918"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UBE4B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UFD2*"/> <bbox w="80.0" h="40.0" x="28869.06" y="14109.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1910_in_sa1910" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="FLT3"/> <bbox w="70.0" h="25.0" x="23180.0" y="5717.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa300_emtc_em_csa300" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:I-SMAD*:SMURF*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22921829</p> <p>SMAD7 binds to SMURF1 and SMURF2. The binding involves a PY motif in SMAD7.</p> <p>PMID:11163210</p> <p>SMAD7 binds to SMURF2 to form a complex that targets the TGFBR1 for degradation.</p> <p>PMID:12151385</p> <p>Smurf1 regulates the inhibitory activity of Smad7 by targeting Smad7 to the plasma membrane.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>PMID:21897371</p> <p>SMAD6 binds to SMURF1 and SMURF2</p> <p>PMID:15761153</p> <p>SMAD7, SMURF1, SMURF2, SMAD2, SMAD3 all bind to TGFBR1</p> <p>Inhibitory Smads (I-Smads) represented by Smad6 and Smad7, negatively regulates TGFB signaling by interacting with the activated TGFBR1</p> <p>PMID:9335507</p> <p>Smad7 associates stably with the TGFB receptor complex, but is not phosphorylated upon TGFB stimulation</p> <p>PMID:9335505</p> <p>Smad6 is quite different in structure from the other SMAD proteins, and forms stable associations with TGFBR1.</p> <p>Smad6 interferes with the phosphorylation of Smad2 and the subsequent heteromerization with Smad4, but does not inhibit the activity of Smad3. </p> <p>Smad6 also inhibits the phosphorylation of Smad1 that is induced by the BMP type IB receptor</p> <p>PMID:9215638</p> <p>Smad7 prevents TGFB-dependent formation of Smad2/Smad4 complexes and inhibits the nuclear accumulation of Smad2. </p> <p>Smad7 interacts stably with the activated TGFBR1, thereby blocking the association, phosphorylation, and activation of Smad2</p> <p>TGFB rapidly induces expression of Smad7 mRNA, suggesting that Smad7 may participate in a negative feedback loop to control TGFB responses.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa300_emtc_em_csa300"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22921829"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11163210"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12151385"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11278251"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21897371"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761153"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9335507"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9335505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9215638"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="I-SMAD*/SMURF*"/> <bbox w="127.0" h="43.0" x="5109.0" y="16872.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2032_emtc_em_sa2032"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 6</p> <p>"MAD, mothers against decapentaplegic homolog 6 (Drosophila)", MADH6, MADH7, "SMAD, mothers against DPP homolog 6 (Drosophila)"</p> <p>HUGO:SMAD6 HGNC:6772 ENTREZ:4091 UNIPROT:O43541</p> <p>SMAD family member 7</p> <p>"MAD, mothers against decapentaplegic homolog 7 (Drosophila)", MADH7, MADH8, "SMAD, mothers against DPP homolog 7 (Drosophila)"</p> <p>HUGO:SMAD7 HGNC:6773 ENTREZ:4092 UNIPROT:O15105</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22921829</p> <p>SMAD7 binds to SMURF1 and SMURF2. The binding involves a PY motif in SMAD7.</p> <p>PMID:11163210</p> <p>SMAD7 binds to SMURF2 to form a complex that targets the TGFBR1 for degradation.</p> <p>PMID:12151385</p> <p>Smurf1 regulates the inhibitory activity of Smad7 by targeting Smad7 to the plasma membrane.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>PMID:21897371</p> <p>SMAD6 binds to SMURF1 and SMURF2</p> <p>PMID:15761153</p> <p>SMAD7, SMURF1, SMURF2, SMAD2, SMAD3 all bind to TGFBR1</p> <p>Inhibitory Smads (I-Smads) represented by Smad6 and Smad7, negatively regulates TGFB signaling by interacting with the activated TGFBR1</p> <p>PMID:9335507</p> <p>Smad7 associates stably with the TGFB receptor complex, but is not phosphorylated upon TGFB stimulation</p> <p>PMID:9335505</p> <p>Smad6 is quite different in structure from the other SMAD proteins, and forms stable associations with TGFBR1.</p> <p>Smad6 interferes with the phosphorylation of Smad2 and the subsequent heteromerization with Smad4, but does not inhibit the activity of Smad3. </p> <p>Smad6 also inhibits the phosphorylation of Smad1 that is induced by the BMP type IB receptor</p> <p>PMID:9215638</p> <p>Smad7 prevents TGFB-dependent formation of Smad2/Smad4 complexes and inhibits the nuclear accumulation of Smad2. </p> <p>Smad7 interacts stably with the activated TGFBR1, thereby blocking the association, phosphorylation, and activation of Smad2</p> <p>TGFB rapidly induces expression of Smad7 mRNA, suggesting that Smad7 may participate in a negative feedback loop to control TGFB responses.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="I-SMAD*"/> <bbox w="62.0" h="16.0" x="5171.5" y="16875.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2031_emtc_em_sa2031"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD specific E3 ubiquitin protein ligase 1</p> <p>HUGO:SMURF1, HGNC:16807, ENTREZ:57154, GENECARDS:GC07M098627, UNIPROT:Q9HCE7</p> <p>SMAD specific E3 ubiquitin protein ligase 2</p> <p>HUGO:SMURF2, HGNC:16809, ENTREZ:64750, GENECARDS:GC17M062540, UNIPROT:Q9HAU4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:22921829</p> <p>SMAD7 binds to SMURF1 and SMURF2. The binding involves a PY motif in SMAD7.</p> <p>PMID:11163210</p> <p>SMAD7 binds to SMURF2 to form a complex that targets the TGFBR1 for degradation.</p> <p>PMID:12151385</p> <p>Smurf1 regulates the inhibitory activity of Smad7 by targeting Smad7 to the plasma membrane.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>PMID:21897371</p> <p>SMAD6 binds to SMURF1 and SMURF2</p> <p>PMID:15761153</p> <p>SMAD7, SMURF1, SMURF2, SMAD2, SMAD3 all bind to TGFBR1</p> <p>Inhibitory Smads (I-Smads) represented by Smad6 and Smad7, negatively regulates TGFB signaling by interacting with the activated TGFBR1</p> <p>PMID:9335507</p> <p>Smad7 associates stably with the TGFB receptor complex, but is not phosphorylated upon TGFB stimulation</p> <p>PMID:9335505</p> <p>Smad6 is quite different in structure from the other SMAD proteins, and forms stable associations with TGFBR1.</p> <p>Smad6 interferes with the phosphorylation of Smad2 and the subsequent heteromerization with Smad4, but does not inhibit the activity of Smad3. </p> <p>Smad6 also inhibits the phosphorylation of Smad1 that is induced by the BMP type IB receptor</p> <p>PMID:9215638</p> <p>Smad7 prevents TGFB-dependent formation of Smad2/Smad4 complexes and inhibits the nuclear accumulation of Smad2. </p> <p>Smad7 interacts stably with the activated TGFBR1, thereby blocking the association, phosphorylation, and activation of Smad2</p> <p>TGFB rapidly induces expression of Smad7 mRNA, suggesting that Smad7 may participate in a negative feedback loop to control TGFB responses.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMURF*"/> <bbox w="59.0" h="16.0" x="5112.0" y="16875.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa932_ca_sa932" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:HHPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:HHPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa932_ca_sa932"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI2"/> <bbox w="70.0" h="25.0" x="6136.0" y="1727.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5047_rc_sa5047" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1185_emtc_em_sa1185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL1A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COL1A1"/> <bbox w="49.0" h="19.0" x="5313.75" y="18226.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2563_rc_sa2563" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:26355 KEGGCOMPOUND:C00032 CAS:14875-96-8</p> </body> </html> </notes> <label text="heme b"/> <bbox w="70.0" h="25.0" x="19198.31" y="12883.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3487_rc_sa3487" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3487_rc_sa3487"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPM1D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPM1D"/> <bbox w="80.0" h="40.0" x="18151.56" y="16374.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4813_rc_sa4813" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:22955944</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4813_rc_sa4813"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22955944"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Reorganization of ER membranes"/> <bbox w="210.0" h="35.0" x="28474.06" y="13011.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1543_emtc_em_sa1543" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1543_emtc_em_sa1543"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WASL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASP_NWASP*"/> <clone/> <bbox w="96.0" h="16.0" x="6460.0" y="15014.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1543_emtc_em_sa1544" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1543_emtc_em_sa1544"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WASL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASP_NWASP*"/> <clone/> <bbox w="96.0" h="16.0" x="6610.5" y="15014.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa544_rc_csa544" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PYCARD:Pyrin*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa544_rc_csa544"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Pyrin*:PYCARD"/> <bbox w="100.0" h="140.0" x="29049.06" y="9389.0"/> <glyph class="macromolecule" id="s_id_rc_sa5418_rc_sa5418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="29059.06" y="9459.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5433_rc_sa5433"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MEFV</p> <p>synonyms:Mediterranean fever, pyrin</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:24919149</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="Pyrin*"/> <bbox w="80.0" h="50.0" x="29059.06" y="9404.0"/> <glyph class="unit of information" id="_03013eaf-e30b-4140-9e95-04a6fd176e93"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29076.56" y="9399.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa964_in_sa964" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MAF"/> <bbox w="70.0" h="25.0" x="12635.0" y="4344.375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa978_in_sa978" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="KLF4"/> <bbox w="70.0" h="25.0" x="12655.0" y="4617.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa4_shh1_shh2_csa4" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:GLI1</p> <p>References:</p> <p>s_shh2_re9:(MAP:survival) PMID:12138125</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa4_shh1_shh2_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1_CRM1*"/> <bbox w="100.0" h="120.0" x="25803.56" y="21117.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa25_shh1_shh2_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 1</p> <p>HUGO:GLI1 HGNC:4317 ENTREZ:2735 UNIPROT:P08151 GENECARDS:GLI1 KEGG:2735 ATLASONC:GLIID310ch12q13 WIKI:GLI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="25814.06" y="21125.0"/> <glyph class="state variable" id="_7f7ba2a2-1929-4d62-9a34-7643b21b141f"> <state value="" variable="K518"/> <bbox w="30.0" h="10.0" x="25822.035" y="21160.0"/> </glyph> <glyph class="state variable" id="_9d36ddb1-4738-4e18-8696-f5eea930b87b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25809.064" y="21160.0"/> </glyph> <glyph class="state variable" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa322_mo_sa322"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP10"/> <bbox w="80.0" h="40.0" x="4552.0" y="12289.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2703_in_sa2703" compartmentRef="s_id_in_ca12_in_ca12"> <label text="FLT1"/> <bbox w="70.0" h="25.0" x="9600.0" y="6192.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa43_shh1_shh1_csa43" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITCH:NUMB</p> <p>References:</p> <p>s_shh1_re89(MAP:survival):</p> <p>PMID:20818436</p> <p>PMID:17115028</p> <p>PMID:17312394</p> <p>s_shh1_re90(MAP:survival):</p> <p>References-begin:</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIZ1*:MYC</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11283613</p> <p>Miz-1 regulates expression of p15INK4b</p> <p>The Myc/Miz1 complex binds to the p15 promoter</p> <p>Myc inhibits binding of p300 to Miz-1</p> <p>Myc inhibits expression of p15INK4B by binding to Miz-1 (Myc represses p15INK4B by interacting with Miz1)</p> <p>PMID:11283614</p> <p>Disruption of the Myc-Miz1 interaction prevents repression of p15INK4B by Myc.</p> <p>TGFB relieves Myc-mediated repression of p15INK4B by downregulating Myc bound to the p15INK4B transcriptional initiator region.</p> <p>At the same time TGFB induces the formation of a Smad transcriptional complex that recognizes the p15INK4B promoter.</p> <p>Is is proposed that by relieving the Myc-mediated repression of p15INK4B, TGFB allows this gene to be activated by the Smad complex.</p> <p>TGFB signaling controls p15INK4B activation by 2 coupled events: transactivation and relief of repression.</p> <p>PMID:10454538</p> <p>Myc prevents inhibition of G1 CDKs by TGFB.</p> <p>Inhibition of the p15 promoter by c-Myc.</p> <p>Enforced expression of Myc abrogates p15INK4B induction and CDK inhibition by TGFB</p> <p>Myc downregulation by TGFB is required for Activation of the p15Ink4b G1 Arrest Pathway</p> <p>3 populations of endogenous CDK4: Latent pools (400 kDa, source of CDK4 for Cyclin D), Active CDK4-CyclinD complex, Inactive monomeric CDK4</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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GENECARDS:GC01M016268, UNIPROT:Q13105    </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIZ1*"/> <bbox w="40.0" h="20.0" x="4033.5" y="14631.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa498_emtc_em_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC, HGNC:7553, ENTREZ:4609, GENECARDS:GC08P128748, UNIPROT:P01106   </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1933_rc_sa3580"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <clone/> <bbox w="80.0" h="40.0" x="21074.06" y="16464.0"/> <glyph class="state variable" id="_f02c47ed-fa6c-4ea3-82cc-a92fea420e42"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21146.56" y="16470.715"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2496_emtc_em_sa2496" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MICA"/> <bbox w="90.0" h="25.0" x="21971.25" y="5312.5"/> <glyph class="unit of information" id="_85e1981d-0b9b-49c8-ad40-54b779bea8b9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22006.25" y="5307.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2168_in_sa2168" compartmentRef="s_id_in_ca48_in_ca48"> <label text="PECAM1"/> <bbox w="80.0" h="50.0" x="12670.0" y="945.0"/> <glyph class="unit of information" id="_800fe7b9-51e3-40bf-be8f-3181361d5526"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12687.5" y="940.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2224_in_sa2224" compartmentRef="s_id_in_ca13_in_ca13"> <label text="FCAR"/> <bbox w="80.0" h="50.0" x="18257.5" y="1475.0"/> <glyph class="unit of information" id="_dc11d1f3-0c7a-42e3-9e53-7908dd157836"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18275.0" y="1470.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5527_rc_sa5527" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5527_rc_sa5527"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL1A"/> 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id="s_id_rc_sa4556_rc_sa4556" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4556_rc_sa4556"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC42"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC42"/> <bbox w="70.0" h="25.0" x="19694.56" y="16239.5"/> 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rdf:resource="urn:miriam:pubmed:19225151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG13:FIP200*:ULK*"/> <bbox w="120.0" h="161.0" x="14117.917" y="19810.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa554_akt1_akt1_sa554"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 1</p> <p>HUGO:ULK1 HGNC:12558 ENTREZ:8408 UNIPROT:O75385 GENECARDS:ULK1 KEGG:8408 ATLASONC:GC_ULK1 WIKI:ULK1 </p> <p>Unc-51-like kinase 2</p> <p>HUGO:ULK2 HGNC:13480 ENTREZ:9706 UNIPROT:Q8IYT8 GENECARDS:ULK2 KEGG:9706 ATLASONC:GC_ULK2 WIKI:ULK2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="ULK*"/> <bbox w="80.0" h="40.0" x="14138.274" y="19818.0"/> <glyph class="state variable" id="_2c6e08eb-62ec-4605-bcb0-e5af8b3978e2"> <state value="P" variable=""/> 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id="_b35f26ac-e47b-4003-8d39-285df098078c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14133.275" y="19856.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa556_akt1_akt1_sa556"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RB1-inducible coiled-coil 1</p> <p>HUGO:RB1CC1 HGNC:15574 ENTREZ:9821 UNIPROT:Q8TDY2 GENECARDS:RB1CC1 KEGG:9821 ATLASONC:GC_RB1CC1 WIKI:RB1CC1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="FIP200*"/> <bbox w="80.0" h="40.0" x="14138.274" y="19905.0"/> <glyph class="state variable" id="_7bd22da4-161c-4ad2-a1f0-c1c1622b9c05"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14133.275" y="19900.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3755_rc_sa3755" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3755_rc_sa3755"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPID"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPID"/> <bbox w="80.0" h="40.0" x="23559.06" y="12809.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1084_emtc_em_sa1084" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1084_emtc_em_sa1084"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD19"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD19"/> <bbox w="32.0" h="25.0" x="6519.5" y="12620.0"/> <glyph class="unit of information" id="_e92d84cb-1455-4d66-90cf-d590dc573b0c"> <label text="receptor"/> <bbox w="32.0" h="10.0" x="6519.5" y="12615.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa160_an_sa160" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Angiogenesis"/> <bbox w="140.0" h="33.0" x="6062.0" y="7278.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2583_rc_sa2583" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2583_rc_sa2583"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~BCL2*"/> <bbox w="80.0" h="40.0" x="23109.06" y="13844.0"/> <glyph class="unit of information" id="_7aaffd39-5f9f-482e-af4c-b77832e0b6e3"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23124.06" y="13839.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa77_akt1_akt1_csa77" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E3*:TSC2</p> <p>References:</p> <p>s_akt1_re181:(MAP:survival) PMID:18298802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa77_akt1_akt1_csa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18298802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E3*:TSC2"/> <bbox w="100.0" h="120.0" x="13110.061" y="18845.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa483_akt1_akt1_sa483"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ubiquitin protein ligase E3A</p> <p>HUGO:UBE3A HGNC:12496 ENTREZ:7337 UNIPROT:Q05086 GENECARDS:UBE3A REACTOME:66940 KEGG:7337 ATLASONC:UBE3AID42756ch15q11 WIKI:UBE3A </p> <p>ubiquitin protein ligase E3B</p> <p>HUGO:UBE3B HGNC:13478 ENTREZ:89910 UNIPROT:Q7Z3V4 GENECARDS:UBE3B REACTOME:253549 ATLASONC:GC_UBE3B WIKI:UBE3B </p> <p>ubiquitin protein ligase E3C</p> <p>HUGO:UBE3C HGNC:16803 ENTREZ:9690 UNIPROT:Q15386 GENECARDS:UBE3C REACTOME:253553 KEGG:9690 ATLASONC:GC_UBE3C WIKI:UBE3C </p> <p>ubiquitin protein ligase E3D</p> <p>HUGO:UBE3D HGNC:21381 ENTREZ:90025 UNIPROT:Q7Z6J8 GENECARDS:UBE3D KEGG:90025 WIKI:UBE3D</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16925947</p> <p>Ubiquitin protein ligase</p> </body> </html> </notes> <label text="E3*"/> <bbox w="80.0" h="40.0" x="13117.061" y="18850.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa481_akt1_akt1_sa481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, 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</annotation> </extension> <label text="PKMYT1"/> <bbox w="80.0" h="40.0" x="12057.166" y="11196.43"/> <glyph class="state variable" id="_01cc9d68-aefc-4496-ae27-54f415145638"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12052.166" y="11211.43"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa83_emtc_em_csa83" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAE:ITGB7</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:17325197</p> <p>Integrin aEb7 binds to E-Cadherin</p> <p>This interaction promotes antitumor "killer T cell" activity by triggering lytic granule polarization and exocytosis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa83_emtc_em_csa83"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17325197"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aEb7*"/> <bbox w="40.0" h="60.0" x="4825.627" y="18485.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa575_emtc_em_sa575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha E (antigen CD103, human mucosal lymphocyte antigen 1; alpha polypeptide)</p> <p>HUGO:ITGAE HGNC:6147 ENTREZ:3682 UNIPROT:P38570</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAE"/> <bbox w="40.0" h="20.0" x="4825.627" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa576_emtc_em_sa576"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 7</p> <p>HUGO:ITGB7 HGNC:6162 ENTREZ:3695 UNIPROT:P26010</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB7"/> <bbox w="40.0" h="20.0" x="4825.627" y="18508.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5341_rc_sa5341" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Acyl-CoA synthetase family member 2</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> <p>PMID:28645028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5341_rc_sa5341"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACSF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28645028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACSF2"/> <bbox w="80.0" h="40.0" x="18839.06" y="11869.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa31_wnc1_wnc1_csa31" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha_*</p> <p>References:</p> <p>Ca2+/Wnt MODULE</p> <p>s_wnc1_re50:(MAP:survival) PMID:20628572</p> <p>s_wnc1_re64(MAP:survival):</p> <p>For the Fzl receptor, probably same mechanism as for the canonical MODULE.</p> <p>CK1 epsilon is activated upon Wnt-5 stimulation, however, the mechanism is unknown.</p> <p>PMID:17244647</p> <p>PMID:20215527</p> <p>s_wnc1_re51(MAP:survival):</p> <p>PMID:20628572</p> <p>RGS3 and RGS14 are GTP-ase activating proteins for Gi_alpha and Gq_alpha.</p> <p>PMID:10999941</p> <p>PMID:12534294</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa31_wnc1_wnc1_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17244647"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> 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WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 5Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="16745.06" y="18617.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa203_wnc1_wnc1_sa203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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CAFs. IL-1α Expression Levels in prostate cancer Tissue Correlated to Poor Clinical OutcomePMID:17916596 In vitro analysesrevealed a striking induction of IL-8 expression in CAFsand LFs by tumor necrosis factor-alpha (TNFA). The effectof TNFA on CAFs is inhibited by the nuclear factor-kBinhibitor parthenolide. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:IL1, CASCADE:TNFPMID:21847358IL-1α was established as the initiator of the enhanced production of inflammatory factors through the binding of IL-1α to IL-1 receptor 1 (IL-1R1) expressed predominantly by CAFs.IL1A upregulates expression of IL6, CCL20, CXCL8, COX2 in CAFs. IL-1α Expression Levels in prostate cancer Tissue Correlated to Poor Clinical OutcomePMID:17916596 In vitro analysesrevealed a striking induction of IL-8 expression in CAFsand LFs by tumor necrosis factor-alpha (TNFA). 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text="TBL1X"/> <bbox w="80.0" h="40.0" x="11777.5" y="4015.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2543_in_sa2543"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SUMO*"/> <bbox w="80.0" h="40.0" x="11862.5" y="4105.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa110_emtc_em_sa110" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:CBP*:DVL*:JUN:PYGO*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re12(MAP:survival):</p> <p>CBP-and P300-mediated transcription different cell fates</p> <p>PMID:20530697</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa72_wca1_wca3_csa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:CBP*:DVL*:JUN:PYGO*:β-Catenin*"/> <bbox w="118.0" h="316.0" x="22646.23" y="21500.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa475_wca1_wca3_sa475"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CREB binding protein</p> <p>HUGO:CREBBP HGNC:2348 ENTREZ:1387 UNIPROT:Q92793 GENECARDS:CREBBP REACTOME:51510 KEGG:1387 ATLASONC:CBPID42 WIKI:CREBBP </p> <p>cAMP responsive element binding protein 3</p> <p>HUGO:CREB3 HGNC:2347 ENTREZ:10488 UNIPROT:O43889 GENECARDS:CREB3 KEGG:10488 ATLASONC:GC_CREB3 WIKI:CREB3 </p> <p>cAMP responsive element binding protein 5</p> <p>HUGO:CREB5 HGNC:16844 ENTREZ:9586 UNIPROT:Q02930 GENECARDS:CREB5 KEGG:9586 WIKI:CREB5 </p> <p>CBP KAT3A RTS</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:E2F1, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17565603</p> <p>PMID:15337521</p> </body> </html> </notes> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="22656.89" y="21518.25"/> <glyph class="state variable" id="_95f33aac-8580-4d98-991f-820b4caa6204"> <state value="P" variable="S92"/> <bbox w="30.0" h="10.0" x="22642.383" y="21513.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa477_wca1_wca3_sa477"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22661.06" y="21729.5"/> <glyph class="state variable" id="_a88d5c17-f1f7-4bd0-aedf-d14609c63e78"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22736.06" y="21724.5"/> </glyph> <glyph class="state variable" id="_9a1aa8f9-dead-4e3d-bff6-a0f0cfda326f"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="22646.06" y="21764.22"/> </glyph> <glyph class="state variable" id="_177c9aee-3b92-41ca-936f-22b8228e3864"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22656.064" y="21724.5"/> </glyph> <glyph class="state variable" id="_535f7e68-5cbc-4748-b26d-3435056a265c"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="22725.441" y="21764.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa472_wca1_wca3_sa472"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="22659.23" y="21601.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa473_wca1_wca3_sa473"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="22659.23" y="21561.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa474_wca1_wca3_sa474"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="22659.23" y="21641.5"/> <glyph class="state variable" id="_58919d94-e72b-4bf9-900e-745a57a02fe9"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="22647.223" y="21636.5"/> </glyph> <glyph class="state variable" id="_e139fa01-de52-4b9d-be26-e7ef5c908c31"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="22646.73" y="21676.225"/> </glyph> <glyph class="state variable" id="_975321ba-28b0-4753-9d50-5131d470dfea"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="22724.23" y="21636.717"/> </glyph> <glyph class="state variable" id="_a3e8565f-2758-4a17-b6a0-b14e2065d8e2"> <state value="" variable="S45"/> <bbox w="25.0" h="10.0" x="22686.635" y="21676.5"/> </glyph> <glyph class="state variable" id="_a9170372-8c51-4e4d-aff3-de6e3d0143d6"> <state value="" variable="T41"/> <bbox w="25.0" h="10.0" x="22726.111" y="21676.5"/> </glyph> <glyph class="state variable" id="_ca1f2bb7-99b1-4e1b-bb3d-f7f07d9510be"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22673.447" y="21636.5"/> </glyph> <glyph class="state variable" id="_71f26ba5-ab10-4482-a0b6-fbe0ac6b5a50"> <state value="" variable="S37"/> <bbox w="25.0" h="10.0" x="22726.73" y="21636.717"/> </glyph> <glyph class="state variable" id="_ca6827e7-b575-4a2f-9845-a896f63b33d6"> <state value="" variable="S33"/> <bbox w="25.0" h="10.0" x="22686.762" y="21636.5"/> </glyph> <glyph class="state variable" id="_cb71f4b3-440b-4137-805f-e994938f01b8"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="22649.23" y="21654.46"/> </glyph> <glyph class="state variable" id="_30b152ef-7940-44f4-a167-a53967cea2fa"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="22649.23" y="21642.77"/> </glyph> <glyph class="state variable" id="_114a2801-986b-4036-87bf-4d3802e02142"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="22644.723" y="21636.5"/> </glyph> <glyph class="state variable" id="_1837f836-48cf-4a16-8e34-c29d6641470f"> <state value="" variable="K345"/> <bbox w="30.0" h="10.0" x="22724.23" y="21636.717"/> </glyph> <glyph class="state variable" id="_973b1f1f-ffad-40a5-a2e4-36fa94b26563"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22654.23" y="21648.006"/> </glyph> <glyph class="state variable" id="_8fd0102e-0060-4ad3-922b-1c611b8d6daf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22654.23" y="21656.469"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa476_wca1_wca3_sa476"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="22661.06" y="21684.5"/> <glyph class="state variable" id="_2d7713bd-05ca-4db8-8fd6-786b4832d0d8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22653.564" y="21679.5"/> </glyph> <glyph class="state variable" id="_b6d4113a-04ad-49c3-8f14-c6621b66da3b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22653.564" y="21719.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa422_in_sa422" compartmentRef="s_id_in_ca13_in_ca13"> <label text="DAP10"/> <bbox w="80.0" h="50.0" x="20995.0" y="1765.0"/> <glyph class="state variable" id="_fea4bce6-bc83-4e9f-a50d-59edc6317caf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20990.0" y="1785.0"/> </glyph> <glyph class="unit of information" id="_162e8781-bea5-4ed3-929a-680fa4cfb162"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21012.5" y="1760.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa49_rc_sa49" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s84"/> <bbox w="30.0" h="30.0" x="23164.06" y="11744.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1085_ad_sa1085" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1085_ad_sa1085"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <bbox w="80.0" h="40.0" x="26966.0" y="5880.0"/> <glyph class="state variable" id="_f9b684ea-73be-45e2-beaf-1940d45e34bd"> <state value="P" variable="Tyr323"/> <bbox w="45.0" h="10.0" x="26944.096" y="5875.0"/> </glyph> <glyph class="state variable" id="_d0e4745c-2853-449c-b6fa-a7e23cf35471"> <state value="P" variable="TYR182"/> <bbox w="45.0" h="10.0" x="27019.879" y="5915.0"/> </glyph> <glyph class="state variable" id="_9fc9b4c1-9e78-492b-8e99-cd92dacc0bbe"> <state value="P" variable="Tyr180"/> <bbox w="45.0" h="10.0" x="27020.871" y="5875.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa40_wca1_wca3_csa40" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:B56_alpha_*</p> <p>References:</p> <p>s_wca3_re83(MAP:survival):</p> <p>Import of APC does not require phosphorylation of APC</p> <p>PMID:12223464</p> <p>s_wca3_re94:(MAP:survival) Not known if this dissociation occurs (here or later)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa40_wca1_wca3_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223464"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:B56α*"/> <bbox w="100.0" h="120.0" x="20885.06" y="21067.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa256_wca1_wca3_sa256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B' alpha</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A</p> <p>Map modules:</p> </body> </html> </notes> <label text="B56α*"/> <bbox w="80.0" h="40.0" x="20896.06" y="21122.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa239_wca1_wca3_sa239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20896.81" y="21080.0"/> <glyph class="state variable" id="_261d98b0-e4d9-4436-ae0b-588684f942fc"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20884.803" y="21075.0"/> </glyph> <glyph class="state variable" id="_1dd2e8f1-f206-47f6-b6e2-ff78eb94f767"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20879.31" y="21114.72"/> 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x="20919.342" y="21075.0"/> </glyph> <glyph class="state variable" id="_e4a60136-bfce-4a7f-8006-1a60c3aa5ff9"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20879.31" y="21114.72"/> </glyph> <glyph class="state variable" id="_233b9b2f-5fe0-469e-b83f-29024063d01e"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20879.803" y="21075.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4530_rc_sa4530" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="AMP"/> <clone/> <bbox w="70.0" h="25.0" x="19295.56" y="16963.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4530_te_sa482" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="AMP"/> <clone/> <bbox w="70.0" h="25.0" x="4230.06" y="22738.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa126_akt1_akt2_sa126" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa126_akt1_akt2_sa126"> <bqbiol:isEncodedBy> 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</head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa290_te_sa290"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERT"/> <bbox w="80.0" h="40.0" x="5523.06" y="20352.0"/> <glyph 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modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="WRN"/> <bbox w="58.0" h="22.0" x="3865.0" y="14949.5"/> <glyph class="unit of information" id="_f8b6d1a4-0690-4bc9-86e1-dba8665eb2a8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3884.0" y="14944.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa57_shh1_shh1_csa57" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDO*:HH Ligand</p> <p>References:</p> <p>s_shh1_re111:(MAP:survival) PMID:16647304</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa57_shh1_shh1_csa57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16647304"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDO_ligand"/> <bbox w="88.0" h="116.0" x="27281.06" y="17584.0"/> <glyph class="simple chemical" id="s_id_shh1_shh1_sa330_shh1_shh1_sa330"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="27287.56" y="17594.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa329_shh1_shh1_sa329"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cdo</p> <p>HUGO:CDON HGNC:17104 ENTREZ:50937 UNIPROT:Q4KMG0 GENECARDS:CDON REACTOME:197924 KEGG:50937 ATLASONC:GC_CDON WIKI:CDON</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="CDO*"/> <bbox w="80.0" h="50.0" x="27282.06" y="17614.0"/> <glyph class="unit of information" id="_1a6a3df6-5f4b-4e8f-98c0-34fcd3e4e304"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27299.56" y="17609.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa329_rc_csa329" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLX:MLXIP</p> </body> </html> </notes> <label text="MLX:MLXIP"/> <bbox w="100.0" h="120.0" x="23399.06" y="14979.0"/> <glyph class="macromolecule" id="s_id_rc_sa2963_rc_sa2963"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MLX interacting protein</p> <p>HUGO:MLXIP HGNC:17055 ENTREZ:22877 UNIPROT:Q9HAP2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:MondoA</p> </body> </html> </notes> <label text="MLXIP"/> <bbox w="80.0" h="40.0" x="23409.06" y="15033.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2964_rc_sa2964"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MLX, MAX dimerization protein</p> <p>HUGO:MLX HGNC:11645 ENTREZ:6945 UNIPROT:Q9UH92</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLX"/> <bbox w="80.0" h="40.0" x="23407.06" y="14987.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1786_emtc_em_sa1786" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1786_emtc_em_sa1786"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Armadillo proteins*"/> <bbox w="122.0" h="19.0" x="2134.0" y="17085.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5524_rc_sa5524" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5524_rc_sa5524"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRPC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~TRPC1"/> <bbox w="80.0" h="40.0" x="28079.06" y="10199.0"/> <glyph class="unit of information" id="_369e595d-0647-4144-9481-9fe98048672b"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28094.06" y="10194.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1256_in_sa1256" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL2"/> <bbox w="90.0" h="25.0" x="13885.0" y="2532.5"/> <glyph class="unit of information" id="_715be821-bc3b-4850-88ba-12a7180fb2fa"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="13920.0" y="2527.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa31_ca_sa31" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa31_ca_sa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HGF"/> <bbox w="80.0" h="40.0" x="4060.0" y="4431.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa3_ce_csa3" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BLM:FAAP100*:FAAP20*:FAAP24*:FANCA:FANCB:FANCC:FANCE:FANCF:FANCG:FANCL:FANCM:HES1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>The complex has two functions, FANCM and BLM create reverse-fork structure creating four way junction and allowing initiation of repair for FA core complex and the following steps evolving NER and HR proteins.</p> <p>FANCL ubiquitinates FANCD2 that together with FANCI initiates the repair</p> <p>PMID:19622404</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa3_ce_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22266823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BLM/FAAP20*/FAAP24*/FAAP100*/FANCA/FANCB/FANCC/FANCE/FANCF/FANCG/FANCL/FANCM/HES1"/> <bbox w="360.0" h="198.0" x="15779.473" y="16682.355"/> <glyph class="macromolecule" id="s_id_ce_sa1513_ce_sa1513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 1 open reading frame 86 </p> <p>HUGO:C1orf86, HGNC:26428, ENTREZ:199990, UNIPROT:Q6NZ36</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR , MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP20*"/> <bbox w="80.0" h="40.0" x="15790.264" y="16689.105"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa375_ce_sa375"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group F</p> <p>HUGO:FANCF, HGNC:3587, ENTREZ:2188, UNIPROT:Q9NPI8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCF"/> <bbox w="80.0" h="40.0" x="16048.836" y="16816.98"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa378_ce_sa378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group L</p> <p>HUGO:FANCL, HGNC:20748, ENTREZ:55120, UNIPROT:Q9NW38</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>The enzyme possesses E3 ubiquitin ligase activity, the active part in the Fanconi core complex</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCL"/> <bbox w="80.0" h="40.0" x="15964.836" y="16817.205"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa376_ce_sa376"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group E</p> <p>HUGO:FANCE, HGNC:3586, ENTREZ:2178, UNIPROT:Q9HB96</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCE"/> <bbox w="80.0" h="40.0" x="15880.139" y="16813.416"/> <glyph class="state variable" id="_71706312-8b72-4e13-b00d-22f428fa5dd4"> <state value="P" variable="S376"/> <bbox w="35.0" h="10.0" x="15862.639" y="16819.924"/> </glyph> <glyph class="state variable" id="_d222366f-6476-468b-a260-48ed9d7f4244"> <state value="P" variable="T346"/> <bbox w="35.0" h="10.0" x="15862.639" y="16828.385"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa383_ce_sa383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group G</p> <p>HUGO:FANCG, HGNC:3588, UNIPROT:O15287</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCG"/> <bbox w="80.0" h="40.0" x="15876.35" y="16728.605"/> <glyph class="state variable" id="_54c94655-2243-4a15-a5c4-03558190a7cb"> <state value="P" variable="S7"/> <bbox w="25.0" h="10.0" x="15887.444" y="16723.605"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa372_ce_sa372"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bloom syndrome, RecQ helicase-like</p> <p>HUGO:BLM, HGNC:1058, ENTREZ:641, UNIPROT:P54132</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>For HR pathway, PMID:22657828 </p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> <p>BLM in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>BLM inhibits A_NHEJ (alt_NHEJ):</p> <p>PMID:24089143</p> <p>PMID:24095737</p> </body> </html> </notes> <label text="BLM"/> <bbox w="80.0" h="40.0" x="16051.973" y="16692.855"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa380_ce_sa380"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 19 open reading frame 40, "Fanconi anemia-associated protein, 24 kDa"</p> <p>HUGO:C19orf40, HGNC:28467, ENTREZ:91442, UNIPROT:Q9BTP7</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex</p> <p>PMID:19622404</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP24*"/> <bbox w="80.0" h="40.0" x="15964.3125" y="16688.684"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa374_ce_sa374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group C</p> <p>HUGO:FANCC, HGNC:3584, ENTREZ:2176, UNIPROT:Q00597</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCC"/> <bbox w="80.0" h="40.0" x="15882.836" y="16767.98"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa382_ce_sa382"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group A</p> <p>HUGO:FANCA, HGNC:3582, ENTREZ:2175, UNIPROT:Q9UEL9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCA"/> <bbox w="80.0" h="40.0" x="15875.912" y="16686.85"/> <glyph class="state variable" id="_5edc34dd-d9fe-4344-93fc-de6e4b1f61f5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15948.412" y="16701.85"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa377_ce_sa377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group B</p> <p>HUGO:FANCB, HGNC:3583, ENTREZ:2187, UNIPROT:Q8NB91</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4350_rc_sa4340"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG12"/> <clone/> <bbox w="80.0" h="40.0" x="28960.31" y="11540.083"/> </glyph> <glyph class="complex" id="s_id_in_csa193_in_csa193" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s2184"/> <bbox w="100.0" h="120.0" x="15352.5" y="1510.0"/> <glyph class="macromolecule" id="s_id_in_sa1460_in_sa1460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="LRP1"/> <bbox w="80.0" h="50.0" x="15362.5" y="1515.0"/> <glyph class="unit of information" id="_8efaa1d8-9974-456e-addc-4355ce4aa5e4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15380.0" y="1510.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1459_in_sa1459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CALR"/> <bbox w="80.0" h="40.0" x="15362.5" y="1570.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5009_rc_sa5009" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5009_rc_sa5009"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HERPUD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HERPUD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HERP*"/> <bbox w="90.0" h="25.0" x="28546.326" y="16041.5"/> <glyph class="unit of information" id="_dc67a926-2b0a-4a13-a45e-a029ab8a3118"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28581.326" y="16036.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa32_wca1_wca1_csa32" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:AXIN*:CK1_alpha_*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:GSK3*:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> <p>s_wca1_re33(MAP:survival):</p> <p>PMID:19561074 PMID:20460648 PMID:19581931 PMID:21304492 PMID:21498506</p> <p>AMER1 recruits axin</p> <p>s_wca1_re36(MAP:survival):</p> <p>PMID:20229235 PMID:18077588 PMID:20059949 PMID:20627573</p> <p>ANNOTATION:GSK3 phosphorylates first LRP @ S1490 followed by CK1 in the repeat PPSP A</p> <p>ANNOTATION:CYCLINY/PFTK complex is able to phosphorylate s1490 on LRP6 which primes the receptor for CK1 phosphorylisation. The complex is present during G2/M phase and stimulates wnt signalling it has synergetic effect together with the wnt ligand</p> <p>WNT/b-catenin signalling oscillates durring cell cycle and peaks at G2/M</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa32_wca1_wca1_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20059949"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20627573"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="493.0" h="309.0" x="21504.56" y="18114.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa410_wca1_wca1_sa409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21693.56" y="18164.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa410_wca1_wca1_sa410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21909.56" y="18168.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa187_wca1_wca1_sa195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21775.06" y="18181.5"/> <glyph class="state variable" id="_8dbc8d57-4e13-4e43-8ffc-e9ed4cce3d0a"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21755.06" y="18201.46"/> </glyph> <glyph class="state variable" id="_febcaf42-e29f-42d6-ac35-ecf93efa52d0"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="21837.56" y="18176.766"/> </glyph> <glyph class="state variable" id="_4c614de3-0b96-4477-921f-9d9a83f8474b"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="21836.941" y="18226.5"/> </glyph> <glyph class="state variable" id="_7ea35461-3842-4a46-96c2-ac2750bc25c0"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="21796.664" y="18226.5"/> </glyph> <glyph class="state variable" id="_e76ede28-27b4-41e6-9419-d55d7552fb9b"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="21757.8" y="18226.5"/> </glyph> <glyph class="state variable" id="_ec6b5ee8-3d5c-40da-a0de-7ed997481292"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="21797.592" y="18176.5"/> </glyph> <glyph class="unit of information" id="_e66ecaa4-f718-44ba-b924-3c43d97064b4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21792.56" y="18176.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa198_wca1_wca1_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21559.81" y="18271.5"/> <glyph class="state variable" id="_0bc2420d-be24-4fd2-b49c-26d98c2d6532"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21632.31" y="18266.5"/> </glyph> <glyph class="state variable" id="_5ba1b1b5-615c-4685-8bad-ed55d5902107"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21542.31" y="18306.22"/> </glyph> <glyph class="state variable" id="_4a26037a-aab9-48eb-8ba3-fe1e89a426d1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21554.814" y="18266.5"/> </glyph> <glyph class="state variable" id="_78f0581d-69ff-40ab-8ccd-d9973df20009"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21621.691" y="18306.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa584_wca1_wca1_sa586"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21910.06" y="18126.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa196_wca1_wca1_sa188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21559.06" y="18223.5"/> <glyph class="unit of information" id="_6b331318-a7c7-46f0-b39d-2087347b4339"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21576.56" y="18218.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa199_wca1_wca1_sa199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21645.56" y="18383.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa187_wca1_wca1_sa187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21559.06" y="18179.5"/> <glyph class="state variable" id="_191685d6-48ea-4a19-80ea-38ae94c9e0c7"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21539.06" y="18199.46"/> </glyph> <glyph class="state variable" id="_2afff783-a1c8-4267-8387-1bace3d97aa6"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="21621.56" y="18174.766"/> </glyph> <glyph class="state variable" id="_a7cabfa8-e5cc-4c9b-870d-bc223a8086d9"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="21620.941" y="18224.5"/> </glyph> <glyph class="state variable" id="_9f89aeb4-e5e0-492e-b4b9-5e267008f47d"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="21580.664" y="18224.5"/> </glyph> <glyph class="state variable" id="_bcdb0a47-3a98-4672-980c-1e3ba6853c15"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="21541.8" y="18224.5"/> </glyph> <glyph class="state variable" id="_33a220ac-534d-4c16-ad97-48ec2050c9da"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="21581.592" y="18174.5"/> </glyph> <glyph class="unit of information" id="_8798c03d-6d4c-4d28-82ec-3a4c0be306be"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21576.56" y="18174.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa557_wca1_wca1_sa558"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21810.56" y="18325.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa220_wca1_wca1_sa220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21647.06" y="18326.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa621_wca1_wca1_sa609"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21577.06" y="18163.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa557_wca1_wca1_sa557"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21728.56" y="18326.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa196_wca1_wca1_sa196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21775.06" y="18225.5"/> <glyph class="unit of information" id="_92bc7c72-f9c8-4dd2-98a1-e37e39838938"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21792.56" y="18220.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa186_wca1_wca1_sa186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21691.56" y="18248.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa519_wca1_wca1_sa519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21681.31" y="18294.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa186_wca1_wca1_sa194"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21907.56" y="18250.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa518_wca1_wca1_sa518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21640.31" y="18294.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa184_wca1_wca1_sa192"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21855.56" y="18129.5"/> <glyph class="state variable" id="_7e40be1c-0f9b-44cd-89b3-d792b715f03d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21903.56" y="18124.5"/> </glyph> <glyph class="state variable" id="_a1b6cf0a-f47c-4e03-9fb6-60cbe6575bf4"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21893.56" y="18125.152"/> </glyph> <glyph class="state variable" id="_42373d9e-7730-47c2-8e71-df65185bc258"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21891.629" y="18247.5"/> </glyph> <glyph class="state variable" id="_c1c877bc-a993-4249-8cf7-3e3be7d12518"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21841.404" y="18124.5"/> </glyph> <glyph class="state variable" id="_7c1ea712-4296-49bc-bab7-41ee8412e8e6"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21840.719" y="18247.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa184_wca1_wca1_sa184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21639.56" y="18127.5"/> <glyph class="state variable" id="_27805a09-a2a6-40f6-a778-138fce203d37"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21687.56" y="18122.5"/> </glyph> <glyph class="state variable" id="_de04d462-ebce-4f90-b385-c16c37c8c25a"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21677.56" y="18123.152"/> </glyph> <glyph class="state variable" id="_066fd7b4-8e3e-4f7b-aaf7-756def3b756f"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21675.629" y="18245.5"/> </glyph> <glyph class="state variable" id="_af4b0c99-e939-4924-8692-6bd847328650"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21625.404" y="18122.5"/> </glyph> <glyph class="state variable" id="_ff27abc9-dc41-4a4a-8e20-9ec441b5933c"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21624.719" y="18245.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa656_wca1_wca1_sa656"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21506.242" y="18235.273"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa518_wca1_wca1_sa520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21860.31" y="18298.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa185_wca1_wca1_sa185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21693.56" y="18208.5"/> <glyph class="state variable" id="_aa10979b-2379-41dd-aa2d-8168c9dd2a4e"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21679.053" y="18203.5"/> </glyph> <glyph class="state variable" id="_b7f40bec-437f-45aa-a4ce-2dbf8db5ae5a"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21718.592" y="18203.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa519_wca1_wca1_sa521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21901.31" y="18298.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa198_wca1_wca1_sa198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21775.81" y="18273.5"/> <glyph class="state variable" id="_8588287d-3e2f-44e8-9b86-2ee8de719889"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21848.31" y="18268.5"/> </glyph> <glyph class="state variable" id="_dc904f7f-4f74-466c-a540-4cc3e74d2f63"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21758.31" y="18308.22"/> </glyph> <glyph class="state variable" id="_b20aac9a-b5f1-4c69-a6cc-3f32fe6a40ca"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21770.814" y="18268.5"/> </glyph> <glyph class="state variable" id="_8b3de990-5718-48ff-882a-8efb616f0a29"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21837.691" y="18308.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa621_wca1_wca1_sa621"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21797.06" y="18163.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa218_wca1_wca1_sa218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21562.06" y="18326.0"/> <glyph class="state variable" id="_cc9cefc0-20a9-4999-a0d6-eabf749a27f9"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21555.053" y="18321.0"/> </glyph> <glyph class="state variable" id="_fe677a7e-d12e-4fbe-9170-ca426a3b6e44"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21634.56" y="18321.213"/> </glyph> <glyph class="state variable" id="_8e33e025-9a2e-422f-b4be-e0c671d076ee"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21549.56" y="18360.72"/> </glyph> <glyph class="state variable" id="_e813d160-ae6e-44ce-8d4e-5c93ccbd0fdf"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21627.06" y="18321.213"/> </glyph> <glyph class="state variable" id="_7ae3bab3-1431-4106-9859-182b8ba3fcae"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21626.441" y="18361.0"/> </glyph> <glyph class="state variable" id="_30ee30f0-401e-4b29-b196-c260cd0f250d"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21589.465" y="18361.0"/> </glyph> <glyph class="state variable" id="_2edceefb-3fa7-4889-9727-26d12d65217c"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21586.965" y="18361.0"/> </glyph> <glyph class="state variable" id="_4881b6a4-47fb-47f2-a7d9-e4283b2ab315"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21547.06" y="18360.72"/> </glyph> <glyph class="state variable" id="_051f3362-3eeb-4e2e-b843-10802c6ae900"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21589.592" y="18321.0"/> </glyph> <glyph class="state variable" id="_3bc5a5a5-1ebf-45f9-878d-a8bca14a931a"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21550.053" y="18321.0"/> </glyph> <glyph class="state variable" id="_1bf0d02f-a787-4cd4-9a35-b2e768cd29f2"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21628.941" y="18361.0"/> </glyph> <glyph class="state variable" id="_2fc483b3-b23a-4eba-9ed0-b3be30651ba7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21557.064" y="18321.0"/> </glyph> <glyph class="state variable" id="_01e7f579-f760-4d33-9aeb-c90bab710fb7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21637.06" y="18321.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa185_wca1_wca1_sa193"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21909.56" y="18210.5"/> <glyph class="state variable" id="_75101492-5778-43cb-bd10-426fbf531ae0"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21895.053" y="18205.5"/> </glyph> <glyph class="state variable" id="_264f8783-0eb0-418e-b685-86c1cd15f873"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21934.592" y="18205.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa223_wca1_wca1_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21561.56" y="18374.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa584_wca1_wca1_sa584"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21693.56" y="18123.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1613_ce_sa1613" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Intrastrand_crosslinks*"/> <bbox w="231.0" h="24.0" x="11899.77" y="15241.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa162_mo_sa162" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0matrix metallopeptidase 2 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0matrix metallopeptidase 2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa162_mo_sa162"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2"/> <clone/> <bbox w="90.0" h="25.0" x="4802.0" y="11179.5"/> <glyph class="unit of information" id="_88618738-3b0f-497a-9fa1-084314d7b800"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4837.0" y="11174.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa162_emtc_em_sa120" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0matrix metallopeptidase 2 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0matrix metallopeptidase 2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa162_emtc_em_sa120"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2"/> <clone/> <bbox w="60.0" h="20.0" x="2744.5" y="17290.125"/> <glyph class="unit of information" id="_74612f4a-0171-44af-9507-544dcfab55c8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2764.5" y="17285.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2396_rc_sa2396" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2396_rc_sa2396"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFAM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFAM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFAM"/> <bbox w="70.0" h="25.0" x="20103.56" y="16281.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa68_akt1_akt1_csa68" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:PRAS40*</p> </body> </html> </notes> <label text="14-3-3*:PRAS40*"/> <bbox w="188.0" h="93.0" x="13334.561" y="19828.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa396_akt1_akt1_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="13342.061" y="19849.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa397_akt1_akt1_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="13430.061" y="19847.5"/> <glyph class="state variable" id="_37633d6d-7e25-4955-9606-ec96447fc7e6"> <state value="P" variable="S183"/> <bbox w="35.0" h="10.0" x="13413.053" y="19842.5"/> </glyph> <glyph class="state variable" id="_c6b13d1a-dd18-443a-8ad5-efa20911b51a"> <state value="P" variable="S212"/> <bbox w="35.0" h="10.0" x="13492.561" y="19843.49"/> </glyph> <glyph class="state variable" id="_83acd0d1-c687-4e28-ae0d-17ca7a5f0d99"> <state value="P" variable="S221"/> <bbox w="35.0" h="10.0" x="13492.561" y="19881.633"/> </glyph> <glyph class="state variable" id="_c0b7e4d3-8bb0-429b-a5e6-e946f98ab431"> <state value="P" variable="T246"/> <bbox w="35.0" h="10.0" x="13412.561" y="19878.62"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1936_in_sa1936" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR132"/> <bbox w="90.0" h="25.0" x="20620.0" y="4531.25"/> <glyph class="unit of information" id="_0db4e331-7777-47d2-a2c2-876643d1cd61"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20650.0" y="4526.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa136_wca1_wca2_sa136" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa136_wca1_wca2_sa136"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="23348.06" y="18823.0"/> <glyph class="state variable" id="_0d5795a1-ecff-4361-b084-509f463e3ed9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23466.06" y="18818.0"/> </glyph> <glyph class="state 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2720_rc_sa2720"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ND3"/> <bbox w="90.0" h="25.0" x="20926.06" y="15076.5"/> <glyph class="unit of information" id="_18340aff-98cf-4667-a6aa-95336c2d4704"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20961.06" y="15071.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2526_emtc_em_sa2526" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2526_emtc_em_sa2526"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF family*"/> <bbox w="70.0" h="19.0" x="2391.0" y="18959.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa479_rc_csa479" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IRE1-alpha*:Unfolded protein*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>protein*</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa479_rc_csa479"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRE1:unfolded protein*"/> <bbox w="190.0" h="135.0" x="26787.967" y="13851.5"/> <glyph class="macromolecule" id="s_id_rc_sa5071_rc_sa5073"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="40.0" x="26847.967" y="13916.5"/> <glyph class="state variable" id="_766c2f60-4151-4500-8b7b-2fa122e04bd9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26899.535" y="13911.5"/> </glyph> <glyph class="unit of information" id="_304e473b-7ce0-4ea5-a6dc-0e9e8512c182"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26865.467" y="13911.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5071_rc_sa5071"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="40.0" x="26834.889" y="13903.808"/> <glyph class="state variable" id="_f9973ab9-40f5-4efc-9536-37a4042d861b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26886.457" y="13898.808"/> </glyph> <glyph class="unit of information" id="_a77f848b-b4c5-45e1-9fdf-8b52a9948c2f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26852.389" y="13898.808"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5072_rc_sa5072"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <label text="Unfolded protein*"/> <bbox w="160.0" h="30.0" x="26797.967" y="13866.5"/> <glyph class="state variable" id="_b20ab636-3850-4198-8556-16cc071f2883"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26792.967" y="13870.287"/> </glyph> <glyph class="state variable" id="_8e623952-1af1-4406-88e8-7b43b797a143"> <state value="" variable="disulphide bond"/> <bbox w="85.0" h="10.0" x="26907.229" y="13861.5"/> </glyph> <glyph class="state variable" id="_be86ed4a-a8e0-4de3-9e34-b46b597b4f2a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26849.756" y="13891.5"/> </glyph> <glyph class="unit of information" id="_6b4ff67b-5c39-4d82-8cf8-889d87a3064d"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="26852.967" y="13861.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4854_rc_sa4854" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4854_rc_sa4854"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BLOC1S1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GCN5*"/> <bbox w="80.0" h="40.0" x="26501.326" y="16394.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa271_shh1_shh1_sa271" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa271_shh1_shh1_sa271"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITCH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITCH"/> <bbox w="80.0" h="40.0" x="26629.06" y="19846.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1365_in_sa1365" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="INHBA"/> <bbox w="70.0" h="25.0" x="11855.0" y="5516.25"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa99_ca_sa99" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>CASCADE:TGFB, CASCADE:PDGF</p> <p> PMID:25732824</p> <p>CAFs have a higher capacity for glucose uptake than do fibroblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa99_ca_sa99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25732824"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="glucose"/> <bbox w="70.0" h="25.0" x="2965.0" y="4967.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa412_rc_sa412" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16480 KEGGCOMPOUND:C00533 CAS:10102-43-9</p> </body> </html> </notes> <label text="NO"/> <bbox w="70.0" h="25.0" x="19401.31" y="14028.75"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa73_akt1_akt1_csa73" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:MAPKAP1:MLST8:MTOR:PROTOR*:RICTOR</p> </body> </html> </notes> <label text="(mTORC2)"/> <bbox w="180.0" h="153.0" x="11884.561" y="17869.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa445_akt1_akt1_sa445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="11974.561" y="17961.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa442_akt1_akt1_sa442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PROTOR</p> <p>HUGO:PRR5 HGNC:31682 ENTREZ:55615 UNIPROT:P85299 GENECARDS:PRR5 KEGG:55615 ATLASONC:GC_PRR5 WIKI:PRR5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PROTOR*"/> <bbox w="80.0" h="40.0" x="11891.811" y="17960.25"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa444_akt1_akt1_sa444"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="11975.311" y="17919.0"/> <glyph class="state variable" id="_d576e08e-9d27-47c0-9684-a280c67267fa"> <state value="P" variable="T1135"/> <bbox w="40.0" h="10.0" x="11974.871" y="17954.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa440_akt1_akt1_sa440"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="11892.061" y="17877.75"/> <glyph class="state variable" id="_faf585b8-6bd0-4ee2-894a-31c430d49384"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="11878.096" y="17872.75"/> </glyph> <glyph class="state variable" id="_a358dfd6-ea0e-4237-93ad-95237f49fa4c"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="11953.942" y="17912.75"/> </glyph> <glyph class="state variable" id="_d53e4f5a-dfab-47f1-bfba-f0934377e559"> <state value="" variable="S2481"/> <bbox w="35.0" h="10.0" x="11874.561" y="17911.697"/> </glyph> <glyph class="state variable" id="_a97324d9-eadb-47ed-b544-6c7554138951"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="11877.061" y="17892.75"/> </glyph> <glyph class="state variable" id="_782dbd0e-0cb4-414e-8ec4-3d8a0e9da328"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="11951.143" y="17872.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa441_akt1_akt1_sa441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mitogen-activated protein kinase associated protein 1</p> <p>HUGO:MAPKAP1 HGNC:18752 ENTREZ:79109 UNIPROT:Q9BPZ7 GENECARDS:MAPKAP1 REACTOME:413323 KEGG:79109 ATLASONC:GC_MAPKAP1 WIKI:MAPKAP1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="11892.061" y="17919.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa443_akt1_akt1_sa443"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="11974.311" y="17877.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa55_shh1_shh1_csa55" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IFT122:IFT140:TULP3:WDR19</p> <p>References:</p> <p>s_shh1_re110:(MAP:survival) PMID:20889716</p> <p>s_shh1_re25(MAP:survival):</p> <p>PMID:17641202</p> <p>PMID:20889716</p> <p>Tulp3 inhibits MODULE:HEDGEHOG signaling but how exactly is unknown</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa55_shh1_shh1_csa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20889716"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17641202"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20889716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(IFT-A_TULP3)"/> <bbox w="184.0" h="126.0" x="27517.56" y="18064.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa322_shh1_shh1_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Tubby like protein 3</p> <p>HUGO:TULP3 HGNC:12425 ENTREZ:7289 UNIPROT:O75386 GENECARDS:TULP3 KEGG:7289 ATLASONC:GC_TULP3 WIKI:TULP3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20889716</p> <p>PMID:19286674</p> </body> </html> </notes> <label text="TULP3"/> <bbox w="80.0" h="40.0" x="27611.56" y="18122.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa325_shh1_shh1_sa325"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Intraflagellar transport 140 homologue (Chlamydomonas)</p> <p>HUGO:IFT140 HGNC:29077 ENTREZ:9742 UNIPROT:Q96RY7 GENECARDS:IFT140 KEGG:9742 WIKI:IFT140</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="IFT140"/> <bbox w="80.0" h="40.0" x="27528.06" y="18080.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa323_shh1_shh1_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat domain 19</p> <p>HUGO:WDR19 HGNC:18340 ENTREZ:57728 UNIPROT:Q8NEZ3 GENECARDS:WDR19 KEGG:57728 ATLASONC:GC_WDR19 WIKI:WDR19</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="WDR19"/> <bbox w="80.0" h="40.0" x="27611.06" y="18080.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa324_shh1_shh1_sa324"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Intraflagellar transport 122 homologue (Chlamydomonas)</p> <p>HUGO:IFT122 HGNC:13556 ENTREZ:55764 UNIPROT:Q9HBG6 GENECARDS:IFT122 KEGG:55764 WIKI:IFT122</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="IFT122"/> <bbox w="80.0" h="40.0" x="27528.06" y="18122.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2796_in_sa2796" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SP1"/> <clone/> <bbox w="80.0" h="40.0" x="19880.0" y="4515.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2796_in_sa2392" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SP1"/> <clone/> <bbox w="80.0" h="40.0" x="19875.0" y="4645.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4728_rc_sa4728" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4728_rc_sa4728"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38 MAPK*"/> <bbox w="80.0" h="40.0" x="26959.06" y="14409.0"/> <glyph class="state variable" id="_8c876537-60a1-4f36-96ab-650b88448111"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26954.06" y="14415.716"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa13_wnc1_wnc2_csa13" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD</p> <p>References:</p> <p>s_akt1_re127:(MAP:survival) PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa13_wnc1_wnc2_csa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:BAD"/> <clone/> <bbox w="96.0" h="124.0" x="17919.06" y="18796.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa62_wnc1_wnc2_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <clone/> <bbox w="80.0" h="40.0" x="17928.06" y="18804.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa60_wnc1_wnc2_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <clone/> <bbox w="80.0" h="40.0" x="17928.06" y="18845.0"/> <glyph class="state variable" id="_430ff4d2-dae9-4afc-8684-d973144441dc"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="17911.053" y="18840.0"/> </glyph> <glyph class="state variable" id="_b8f921ce-4566-4dd0-92a4-fe9a1999aeec"> <state value="P" variable="S155"/> <bbox w="35.0" h="10.0" x="17989.941" y="18880.0"/> </glyph> <glyph class="state variable" id="_cccaa968-032e-4522-b36b-2154a68ea43f"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="17990.56" y="18840.213"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa13_akt1_akt1_csa63" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD</p> <p>References:</p> <p>s_akt1_re127:(MAP:survival) PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa13_akt1_akt1_csa63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:BAD"/> <clone/> <bbox w="108.0" h="129.0" x="13880.061" y="18377.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa60_akt1_akt1_sa365"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <clone/> <bbox w="80.0" h="40.0" x="13893.311" y="18395.0"/> <glyph class="state variable" id="_a8379415-cd75-4cfd-8dcd-0e6a7a260419"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="13876.303" y="18390.0"/> </glyph> <glyph class="state variable" id="_95af3f00-76e1-4d30-8dfa-9b6e8e57ae6f"> <state value="P" variable="S155"/> <bbox w="35.0" h="10.0" x="13955.192" y="18430.0"/> </glyph> <glyph class="state variable" id="_a46f8f0f-5fa4-4d8c-93db-8811a754cabc"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="13955.811" y="18390.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa62_akt1_akt1_sa364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <clone/> <bbox w="80.0" h="40.0" x="13893.561" y="18443.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa292_an_sa292" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21378271</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa292_an_sa292"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SYK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21378271"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SYK"/> <bbox w="80.0" h="40.0" x="4992.0" y="6185.0"/> <glyph class="state variable" id="_649ab154-6ff2-4e2d-b742-bd9635e36262"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5041.0684" y="6220.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1699_in_sa1699"> <label text="IL18"/> <clone/> <bbox w="80.0" h="40.0" x="24830.0" y="2050.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1699_in_sa1216"> <label text="IL18"/> <clone/> <bbox w="80.0" h="40.0" x="14600.0" y="1105.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1971_emtc_em_sa1971" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1971_emtc_em_sa1971"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ID2"/> <bbox w="28.0" h="18.0" x="4454.0" y="16836.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa345_rc_csa345" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:DAB2IP:TRADD:TRAF2</p> <p>References:</p> <p>22743059</p> <p>Both internalization and AIP1 association are required for tumor necrosis factor receptor 2-mediated JNK signaling.</p> <p>18292600</p> <p>AIP1 recruits phosphatase PP2A to ASK1 in tumor necrosis factor-induced ASK1-JNK activation.</p> </body> </html> </notes> <label text="DAB2IP:TRADD:TRAF2"/> <bbox w="100.0" h="163.0" x="22443.56" y="10109.5"/> <glyph class="macromolecule" id="s_id_rc_sa3199_rc_sa3199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DAB2 interacting protein</p> <p>HUGO:DAB2IP HGNC:17294 ENTREZ:153090 UNIPROT:Q5VWQ8</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>synonym:AIP1</p> <p>PMID:15310755</p> <p>AIP1/DAB2IP, a novel member of the Ras-GAP family, transduces TRAF2-induced ASK1-JNK activation</p> </body> </html> </notes> <label text="DAB2IP"/> <bbox w="80.0" h="40.0" x="22453.06" y="10212.5"/> <glyph class="state variable" id="_1f14ba95-8132-4ff2-bbb7-f86f4e11ed12"> <state value="P" variable="S604"/> <bbox w="35.0" h="10.0" x="22492.51" y="10207.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3198_rc_sa3198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:15592525</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="22453.56" y="10166.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3197_rc_sa3197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 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text="truncated"/> <bbox w="50.0" h="10.0" x="18235.06" y="18733.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa199_mo_sa199" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="MAPK pathway"/> <bbox w="80.0" h="30.0" x="4527.0" y="11491.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa61_ce_sa61" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa61_ce_sa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <bbox w="80.0" h="40.0" x="10695.053" y="11297.982"/> <glyph class="state variable" id="_073057cf-10ce-46a5-ba1b-88bc3df51392"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10730.329" y="11292.982"/> </glyph> <glyph class="state variable" id="_b19af0f0-37f2-4eb7-92a9-ade01c891e54"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="10685.053" y="11312.982"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa351_emtc_em_csa351" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Galectin 3 partners*:Galectin 3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> 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<p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Laminin 1*</p> <p>laminin, alpha 1</p> <p>HUGO:LAMA1 HGNC:6481 ENTREZ:284217 UNIPROT:P25391</p> <p>laminin, beta 1</p> <p>CLM, "cutis laxa with marfanoid phenotype"</p> <p>HUGO:LAMB1 HGNC:6486 ENTREZ:3912 UNIPROT:P07942</p> <p>laminin, gamma 1</p> <p>HUGO:LAMC1 HGNC:6492 ENTREZ:3915 UNIPROT:P11047</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Galectin 3 partners*"/> <bbox w="124.0" h="21.0" x="3918.75" y="18976.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1357_emtc_em_sa1357" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1357_emtc_em_sa1357"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA1_4_GJC1*"/> <bbox w="100.0" h="20.0" x="891.0" y="17489.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa873_ad_sa873" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CELL:TREGMODULE:TCR_SIGNALING PMID:15032588CD25 is a marker of TREGPMID:16799562 Thymic generation of Treg cells requires TAK1Foxp3 and Cd25 mRNA was also much lower in TAK1-deficient CD4 SP thymocytes, indicating that the reduced Foxp3 and CD25 were a result of decreased expression of their mRNAPMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor. ----- content merged by Celldesigner to SBGN-ML translation ------ CELL:TREGMODULE:TCR_SIGNALING PMID:15032588CD25 is a marker of TREGPMID:16799562 Thymic generation of Treg cells requires TAK1Foxp3 and Cd25 mRNA was also much lower in TAK1-deficient CD4 SP thymocytes, indicating that the reduced Foxp3 and CD25 were a result of decreased expression of their mRNAPMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa873_ad_sa873"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2RA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15032588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799562"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10221648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2RA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15032588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799562"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10221648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL2RA"/> <bbox w="213.0" h="112.0" x="27809.75" y="8124.375"/> <glyph class="unit of information" id="_6f598c11-b0bb-40f7-94e3-5f75283fa9bc"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27906.25" y="8119.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2669_rc_sa2669" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2669_rc_sa2669"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BECN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BECN1"/> <bbox w="80.0" h="40.0" x="27521.56" y="11331.5"/> <glyph class="state variable" id="_cc814320-dbb2-439a-8568-dce3efdc96f2"> <state value="" variable="T119"/> <bbox w="30.0" h="10.0" x="27563.51" y="11326.5"/> </glyph> <glyph class="state variable" id="_660df1dc-313b-4230-9d5a-5f6c04c29fb4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27516.564" y="11326.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa99_ad_csa99" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NFKB1_p50*:RELA</p> <p>Map modules:</p> <p>MODULE:MACROPHAGE , MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION, MODULE:NK</p> <p>CASCADE:IL2, CASCADE:CSF2, CASCADE:TNF</p> <p>References:</p> <p>PMID:12133954</p> <p>IL2R signaling induces IkBa degradation and formation of heterodimeric p50/p65 NFkB complexes</p> <p>NF-κB binds to the upstream enhancer of the perforin gene and that this pathway is involved in the activation of perforin expression downstream of NFkB</p> <p>PMID:12759422, PMID:10679398 </p> <p>IL-18 induces NF-κB binding to the IFN-γ gene promoter and induction of gene expression. Probably via NIK pathway.</p> <p>PMID:21224476, PMID:12759422</p> <p>NFKBIZ binds to the IFNG promoter in response to IL-12 and IL-18 and encreases promoter activity.</p> <p>NFKBIZ regulates IFNG expression by bindingof NF-κB p65/p50 on IFNG promoter .</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa99_ad_csa99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12133954"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12759422"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10679398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21224476"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12759422"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELA:p50"/> <bbox w="140.0" h="175.0" x="28516.0" y="6437.75"/> <glyph class="macromolecule" id="s_id_ad_sa853_ad_sa853"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RELA </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> </body> </html> </notes> <label text="RELA"/> <bbox w="121.0" h="59.0" x="28526.0" y="6453.75"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa852_ad_sa852"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING, MODULE:MACROPHAGE</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>PMID:19171876, PMID:17145890</p> <p>NFkB p50/p50 homodimers (which lack the transactivation </p> <p>domain) compete with canonical p65/p50 heterodimers for </p> <p>the binding sites on the inflammatory</p> <p>gene promoters, thereby blocking p65/p50 promoter </p> <p>binding and gene transcription.</p> <p>p50 NF-kappaB overexpression accounts for the</p> <p>inability of tumor assasiated macrophages to mount </p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="119.0" h="67.0" x="28526.75" y="6519.0"/> <glyph class="unit of information" id="_21f11e36-6a61-4ff4-b54e-a856b5db8776"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28561.25" y="6514.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa76_wnc1_wnc1_csa76" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC2*:CK1_epsilon_*:CTHRC1:DAAM1:DVL*:FZD*:GSK3*:PAR6*:RACK1*:RHOA:ROR2:RSPO3:SYN4*:VANGL*:WGEF*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re140(MAP:survival):</p> <p>PMID:11779461</p> <p>PMID:18256687</p> <p>s_wnc1_re146:(MAP:survival) Not sure if Rho dissociates when active</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa76_wnc1_wnc1_csa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11779461"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18256687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="381.0" h="244.0" x="14874.811" y="19228.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa677_wnc1_wnc1_sa677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="14886.811" y="19352.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa672_wnc1_wnc1_sa672"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="14977.561" y="19249.0"/> <glyph class="unit of information" id="_384748f8-f356-493e-9eee-9a4ad3851823"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14995.061" y="19244.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa671_wnc1_wnc1_sa671"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15106.561" y="19234.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa674_wnc1_wnc1_sa674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="14892.561" y="19249.0"/> <glyph class="state variable" id="_5edf3cfa-ecb3-4c50-bb4f-39f57bbddbd0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14885.064" y="19244.0"/> </glyph> <glyph class="state variable" id="_66588a90-85c8-4b65-956c-66a11d79dac3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14965.061" y="19244.0"/> </glyph> <glyph class="state variable" id="_48b0ece9-b88d-40ed-9ce1-5c822f849440"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14965.061" y="19269.0"/> </glyph> <glyph class="state variable" id="_bcd71c38-dbe3-4c85-8c4d-8aef308ee35f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14885.061" y="19269.0"/> </glyph> <glyph class="unit of information" id="_85a47b56-6c58-4c78-ace4-44160716be89"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14910.061" y="19244.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa670_wnc1_wnc1_sa670"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="15162.811" y="19354.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa669_wnc1_wnc1_sa669"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6 GENECARDS:ANAPC2 REACTOME:84976 KEGG:29882 ATLASONC:GC_ANAPC2 WIKI:ANAPC2 </p> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="15162.811" y="19312.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa673_wnc1_wnc1_sa673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="14971.561" y="19355.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa665_wnc1_wnc1_sa665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15063.311" y="19233.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa678_wnc1_wnc1_sa678"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15175.811" y="19396.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa666_wnc1_wnc1_sa666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="14968.811" y="19307.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa684_wnc1_wnc1_sa684"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>ARH12, ARHA, "ras homolog gene family, member A"</p> <p>HUGO:RHOA HGNC:667 ENTREZ:387 UNIPROT:P61586 GENECARDS:RHOA REACTOME:63078 KEGG:387 ATLASONC:RHOAID42107ch3p21 WIKI:RHOA</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="80.0" h="40.0" x="14891.561" y="19403.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa682_wnc1_wnc1_sa682"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rho guanine nucleotide exchange factor (GEF) 19</p> <p>HUGO:ARHGEF19 HGNC:26604 ENTREZ:128272 UNIPROT:Q8IW93 GENECARDS:ARHGEF19 KEGG:128272 ATLASONC:GC_ARHGEF19 WIKI:ARHGEF19</p> <p>Map modules:</p> </body> </html> </notes> <label text="WGEF*"/> <bbox w="80.0" h="40.0" x="14979.561" y="19399.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa675_wnc1_wnc1_sa675"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="14882.561" y="19303.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa676_wnc1_wnc1_sa676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15159.311" y="19259.5"/> <glyph class="state variable" id="_1c96c672-a9a3-4a64-a885-1f00c1cb806f"> <state value="P" variable="S864"/> <bbox w="35.0" h="10.0" x="15221.811" y="19254.766"/> </glyph> <glyph class="state variable" id="_1b6e66cb-a64b-40d4-aa74-c53ce371ebc7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15191.811" y="19304.5"/> </glyph> <glyph class="state variable" id="_52632f06-304a-46d7-badb-58ce764fd272"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15154.314" y="19254.5"/> </glyph> <glyph class="state variable" id="_1c606282-6560-42e8-840e-ddfb3236788a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15231.811" y="19304.5"/> </glyph> <glyph class="unit of information" id="_8ac2a118-87ee-4bd9-9d0c-1bb27d29663d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15176.811" y="19254.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa667_wnc1_wnc1_sa668"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15064.061" y="19351.0"/> <glyph class="state variable" id="_ca1d0b40-3bb6-4ed2-8c7c-de50f30ca234"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15059.064" y="19386.0"/> </glyph> <glyph class="state variable" id="_85905bf1-3a9e-46f8-861f-a27e2fa8ef2d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15136.194" y="19346.0"/> </glyph> <glyph class="state variable" id="_f5a0b0c3-c0ae-484e-9738-d9fe244755ed"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15125.942" y="19386.0"/> </glyph> <glyph class="state variable" id="_f4a40e0d-110c-4658-8c44-64fa4d434dd3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15059.064" y="19346.0"/> </glyph> <glyph class="state variable" id="_ec6846b1-12c2-4155-9fb7-62792d1f37dd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15139.061" y="19346.0"/> </glyph> <glyph class="state variable" id="_267260f6-9939-4433-bcf6-d8491662a25c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15139.061" y="19386.0"/> </glyph> <glyph class="state variable" id="_3c7758eb-6a63-43c6-92b5-1eaa1d3179cc"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15046.561" y="19385.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa681_wnc1_wnc1_sa681"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled associated activator of morphogenesis 1</p> <p>HUGO:DAAM1 HGNC:18142 ENTREZ:23002 UNIPROT:Q9Y4D1 GENECARDS:DAAM1 ATLASONC:GC_DAAM1 WIKI:DAAM1</p> <p>Map modules:</p> </body> </html> </notes> <label text="DAAM1"/> <bbox w="80.0" h="40.0" x="15065.561" y="19400.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa664_wnc1_wnc1_sa664"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15075.311" y="19255.5"/> <glyph class="unit of information" id="_92765125-f419-45c7-a739-b0e05c25efe0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15092.811" y="19250.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa667_wnc1_wnc1_sa667"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map 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TCR stimulation</p> <p>he kinase GLK controls autoimmunity and NF-κB signaling by activating the kinase PKC-θ in T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa815_ad_sa815"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP4K3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21983831"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90B1"/> <clone/> <bbox w="90.0" h="25.0" x="20837.56" y="16002.5"/> <glyph class="unit of information" id="_33881ccc-ccac-429e-9821-9e5b3d578976"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20872.56" y="15997.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4580_rc_sa4757" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4580_rc_sa4757"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90B1"/> <clone/> <bbox w="90.0" h="25.0" x="26936.326" y="16042.5"/> <glyph class="unit of information" id="_3305ae2d-f4f0-4901-9109-e9b49e9ba983"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26971.326" y="16037.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa29_shh1_shh2_csa29" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BBC3:MIR29B*</p> <p>References:</p> <p>s_shh2_re133:(MAP:survival) PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa29_shh1_shh2_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-29b_PUMA"/> <bbox w="100.0" h="120.0" x="27454.06" y="21789.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa239_shh1_shh2_sa239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21359530</p> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR29B*"/> <bbox w="90.0" h="25.0" x="27459.56" y="21802.0"/> <glyph class="unit of information" id="_350311f9-f5ed-44c9-b48b-8286646ff14a"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27489.56" y="21797.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa241_shh1_shh2_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8 GENECARDS:BBC3 KEGG:27113 ATLASONC:BBC3ID759ch19q13 WIKI:BBC3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19652530</p> <p>PMID:20673124</p> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8 GENECARDS:BBC3 KEGG:27113 ATLASONC:BBC3ID759ch19q13 WIKI:BBC3</p> <p>Map modules:</p> <p>References:</p> <p>PMID:19652530</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="90.0" h="25.0" x="27463.56" y="21830.0"/> <glyph class="unit of information" id="_036a4e45-cd85-4a58-afbb-c439640bc5b2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27498.56" y="21825.0"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_in_sa281_in_sa281" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa115_degraded"/> <bbox w="30.0" h="30.0" x="15535.0" y="5935.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa62_ca_csa62" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA1:ITGB1</p> <p>References:</p> <p>PMID:26148229 </p> <p>Fibroblasts express the α1β1, α2β1 and α11β1 collagen-binding integrins</p> <p>PMID:19397781 </p> <p>alpha(1)beta(1) integrin is of importance not only for the differentiation of mesenchymal cells into myofibroblasts but also for the neovascularization and connective tissue organization and emphasize the importance of myofibroblasts in the pathophysiology of tissue repair, inflammation and tumour growth.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa62_ca_csa62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26148229"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19397781"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s76"/> <clone/> <bbox w="100.0" h="120.0" x="6780.0" y="2150.0"/> <glyph class="macromolecule" id="s_id_ca_sa581_ca_sa581"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="6790.0" y="2200.0"/> <glyph class="unit of information" id="_498ea6b9-ba1c-41c0-9e7b-c6c2eb3b8345"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6807.5" y="2195.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa580_ca_sa580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 1</p> <p>HUGO:ITGA1 hgnc_id:HGNC:6134 HGNC:6134 ENTREZ:3672 UNIPROT:P56199</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:26148229 </p> <p>Fibroblasts express the α1β1, α2β1 and α11β1 collagen-binding integrins</p> <p>PMID:19397781 </p> <p>alpha(1)beta(1) integrin is of importance not only for the differentiation of mesenchymal cells into myofibroblasts but also for the neovascularization and connective tissue organization and emphasize the importance of myofibroblasts in the pathophysiology of tissue repair, inflammation and tumour growth.</p> </body> </html> </notes> <label text="ITGA1"/> <clone/> <bbox w="80.0" h="40.0" x="6790.0" y="2160.0"/> <glyph class="unit of information" id="_14d31aff-a48c-4e4f-9a42-329bf816b495"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6807.5" y="2155.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa62_ca_csa2" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA1:ITGB1</p> <p>References:</p> <p>PMID:26148229 </p> <p>Fibroblasts express the α1β1, α2β1 and α11β1 collagen-binding integrins</p> <p>PMID:19397781 </p> <p>alpha(1)beta(1) integrin is of importance not only for the differentiation of mesenchymal cells into myofibroblasts but also for the neovascularization and connective tissue organization and emphasize the importance of myofibroblasts in the pathophysiology of tissue repair, inflammation and tumour growth.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa62_ca_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26148229"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19397781"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s76"/> <clone/> <bbox w="100.0" h="120.0" x="6770.0" y="1920.0"/> <glyph class="macromolecule" id="s_id_ca_sa581_ca_sa77"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3200_rc_sa3200"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~RIPK1*"/> <bbox w="80.0" h="40.0" x="22702.06" y="9904.25"/> <glyph class="unit of information" id="_0520b18e-4c8b-434d-a59c-e73a612eb3e9"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22717.06" y="9899.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa453_an_sa453" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:9655398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa453_an_sa453"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LMK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9655398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK2"/> <bbox w="80.0" h="40.0" x="4934.0" y="7157.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1184_emtc_em_sa1184" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2380_emtc_em_sa2380"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JNK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK1"/> <bbox w="39.0" h="20.0" x="5898.0" y="13634.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1155_rc_sa1155" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1155_rc_sa1155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <bbox w="80.0" h="40.0" x="24866.56" y="15198.25"/> <glyph class="state variable" id="_9257b417-4a6b-4ddf-90ec-7fe4e73c51e5"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24913.129" y="15193.25"/> </glyph> <glyph class="state variable" id="_bdfe1a6d-81c7-443f-be60-5498e7fd7d55"> <state value="" variable="N803"/> <bbox w="30.0" h="10.0" x="24874.062" y="15233.25"/> </glyph> <glyph class="state variable" id="_7665094e-c479-40b3-92bc-9d61bd372d74"> <state value="OH" variable="P564"/> <bbox w="40.0" h="10.0" x="24870.156" y="15193.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa1_shh1_shh3_csa1" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ligand:PTCH*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re2(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:18815277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa1_shh1_shh3_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ptc_HH_ligand"/> <bbox w="104.0" h="152.0" x="27091.06" y="22357.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa4_shh1_shh3_sa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa481_rc_sa481"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:USP9X"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="USP9X"/> <bbox w="80.0" h="40.0" x="22079.06" y="12539.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1377_in_sa1377" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="FGF2"/> <bbox w="90.0" h="25.0" x="12165.0" y="6667.5"/> <glyph class="unit of information" id="_0dace769-3bc9-4175-a876-37b74a530163"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12200.0" y="6662.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa373_an_sa373" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11532940</p> <p>PMID:11335727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa373_an_sa373"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11335727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREB*"/> <bbox w="80.0" h="40.0" x="5175.5" y="6782.0"/> <glyph class="state variable" id="_c47baf5c-a7e1-479c-844f-402cfabb211d"> <state value="P" variable="S133"/> <bbox w="35.0" h="10.0" x="5213.5513" y="6777.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa46_ce_sa46" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa46_ce_sa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERCC8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSA*"/> <bbox w="80.0" h="40.0" x="7643.2847" y="15567.057"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1098_ad_sa1098" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19592273 </p> <p>Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2475_emtc_em_sa2475"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LGALS3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Galectin 3*"/> <bbox w="74.0" h="19.0" x="3815.0" y="18863.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa115_emtc_em_csa115" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR106B_25*:SMAD7</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19726885</p> <p>PMID:22286770</p> <p>inhibitory Smad7 mRNA is a target for all 3 members of MIR106B/25 subfamily (MIR106B, MIR93, MIR25)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa115_emtc_em_csa115"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19726885"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22286770"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR106B_25*/SMAD7"/> <bbox 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xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4923_rc_sa4923"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SELENOS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VIMP"/> <bbox w="80.0" h="40.0" x="29334.06" y="13249.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa263_ce_csa263" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HUS1:MUTH*:RAD1:RAD9*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR , MODULE:BER</p> <p>References:</p> <p>9-1-1 complex stimulates MUTH and BER </p> <p>PMID:16879101</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa263_ce_csa263"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16879101"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HUS1/MUTH*/RAD1/RAD9*"/> <bbox w="176.0" h="108.0" x="9320.473" y="15989.356"/> <glyph class="macromolecule" id="s_id_ce_sa1386_ce_sa1386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutY homolog (E. coli) </p> <p>HUGO:MUTYH, HGNC:7527, ENTREZ:4595, UNIPROT:Q9UIF7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768, PMID:15703371, PMID:19847258, PMID:16697054, PMID:23507534</p> </body> </html> </notes> <label text="MUTH*"/> <bbox w="80.0" h="40.0" x="9411.864" y="15993.788"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1384_ce_sa1384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD1 homolog (S. pombe)</p> <p>HUGO:RAD1, HGNC:9806, ENTREZ:5810, UNIPROT:O60671</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="RAD1"/> <bbox w="80.0" h="40.0" x="9329.114" y="15994.288"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1383_ce_sa1383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD9 homolog A (S. pombe)</p> <p>HUGO:RAD9A, HGNC:9827, ENTREZ:5883, UNIPROT:Q99638</p> <p>RAD9 homolog B (S. pombe)</p> <p>HUGO:RAD9B, HGNC:21700, ENTREZ:144715, UNIPROT:Q6WBX8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:8943031, PMID:17493829</p> </body> </html> </notes> <label text="RAD9*"/> <bbox w="80.0" h="40.0" x="9410.72" y="16038.627"/> <glyph class="state variable" id="_8f921103-938a-4e38-8bf3-a41031f5d0a5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9443.22" y="16033.627"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1385_ce_sa1385"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUS1 checkpoint homolog (S. pombe)</p> <p>HUGO:HUS1, HGNC:5309, ENTREZ:3364, UNIPROT:O60921</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:9524127, PMID:17493829</p> </body> </html> </notes> <label text="HUS1"/> <bbox w="80.0" h="40.0" x="9328.114" y="16038.288"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1846_in_sa1846" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20406969, 11867689, 24091328, 14610620, 19833085 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation, probably downstream of JAK2. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1846_in_sa1846"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20406969"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11867689"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24091328"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19833085"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK2"/> <clone/> <bbox w="80.0" h="40.0" x="23565.0" y="4860.0"/> <glyph class="state variable" id="_1c769fc0-0535-4f33-b693-3d2184834389"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23560.0" y="4875.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1846_in_sa2342" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20406969, 11867689, 24091328, 14610620, 19833085 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation, probably downstream of JAK2. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1846_in_sa2342"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20406969"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11867689"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24091328"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19833085"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK2"/> <clone/> <bbox w="80.0" h="40.0" x="9760.0" y="4515.0"/> <glyph class="state variable" id="_9c95e04a-d00e-4343-95a5-4499c3f94326"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9755.0" y="4530.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2677_rc_sa2677" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2677_rc_sa2677"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BID"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BID"/> <clone/> <bbox w="80.0" h="40.0" x="24225.56" y="11554.0"/> <glyph class="state variable" id="_dd6a50e9-40f3-4438-9014-9883e8b9a2dd"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="24276.932" y="11549.0"/> </glyph> <glyph class="state variable" id="_6a57c113-143f-4d69-abf8-35d4d57aabfe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24254.139" y="11549.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2677_rc_sa4944" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2677_rc_sa4944"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BID"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BID"/> <clone/> <bbox w="80.0" h="40.0" x="27209.06" y="14769.0"/> <glyph class="state variable" id="_2adce506-b257-41bc-8936-807fadce1b04"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27260.432" y="14764.0"/> </glyph> <glyph class="state variable" id="_7a585fee-f64a-4dc4-a5c0-af66a11cbaf9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27237.639" y="14764.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa51_shh1_shh1_csa51" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KIF3A:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11208056</p> <p>s_shh1_re33:(MAP:survival) PMID:18497258</p> <p>s_wca1_re55:(MAP:survival) PMID:15852005</p> <p>s_wca1_re57(MAP:survival):</p> <p>PMID:19718039 PMID:21602792 </p> <p>In presence of WNT ligand</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa51_shh1_shh1_csa51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11208056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15852005"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19718039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21602792"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Kif3"/> <bbox w="100.0" h="120.0" x="26309.06" y="18093.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa152_shh1_shh1_sa152"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3A</p> <p>HUGO:KIF3A HGNC:6319 ENTREZ:11127 UNIPROT:Q9Y496 GENECARDS:KIF3A REACTOME:58019 KEGG:11127 WIKI:KIF3A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3A"/> <bbox w="80.0" h="40.0" x="26315.81" y="18104.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa310_shh1_shh1_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3B</p> <p>HUGO:KIF3B HGNC:6320 ENTREZ:9371 UNIPROT:O15066 GENECARDS:KIF3B REACTOME:58021 KEGG:9371 ATLASONC:GC_KIF3B WIKI:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3B"/> <bbox w="80.0" h="40.0" x="26315.81" y="18146.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1903_emtc_em_sa1903" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1903_emtc_em_sa1903"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK2*"/> <bbox w="44.0" h="17.0" x="3495.5" y="16295.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa60_emtc_em_csa60" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD1*:p21CIP1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK4/Cyclin D1*/p21CIP1*"/> <bbox w="172.0" h="59.0" x="4027.5" y="14103.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa487_emtc_em_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (p21, Cip1)</p> <p>HUGO:CDKN1A, HGNC:1784, ENTREZ:1026, GENECARDS:GC06P036649, UNIPROT:P38936 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:24954210</p> <p>p27, p16 and p15 inhibits CDK4_6. This induces a G1 cell cycle arrest.</p> <p>PMID:19440234</p> <p>p21 inhibits CDK2 to induce senescence</p> <p>PMID:10402472</p> <p>p21 induces metastasis</p> <p>p21 suppresses E2F1-dependent Wnt4 expression, thereby controlling cellular growth.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="p21CIP1*"/> <bbox w="63.0" h="16.0" x="4036.0" y="14124.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa489_emtc_em_sa489"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, GENECARDS:GC11P069455, UNIPROT:P24385</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:19238148</p> <p>CDK activity requires binding of regulatory subunits known as cyclins. </p> <p>Cyclins are synthesized and destroyed at specific times during the cell cycle, thus regulating kinase activity in a timely manner. </p> <p>Only several CDK–cyclin complexes are directly involved in driving the cell cycle: </p> <p>-3 interphase CDKs (CDK2, CDK4 and CDK6), 1 mitotic CDK (CDK1)</p> <p>-10 cyclins that belong to 4 different classes (the A-, B-, D- and E-type cyclins). </p> <p>PMID:9832503</p> <p>D-type cyclins are labile proteins guarantees</p> <p>Phosphorylation of cyclin D1 on T286 by GSK3B leads to the rapid ubiquitination and proteasomal degradation of cyclin D1</p> <p>cyclin D1 accumulates in the nucleus during G1 phase and exits into the cytoplasm during S phase</p> <p>GSK3B is predominantly cytoplasmic during G1 phase, but a significant fraction enters the nucleus during S phase.</p> <p>Phosphorylation and proteolytic turnover of cyclin D1 and its subcellular localization during the cell division cycle are linked through the action of GSK3B.</p> <p>PMID:10331086</p> <p>CDK inhibitors are classified into 2 families: Cip/Kip family and INK4 family</p> <p>INK4 family consists of p16INK4a, p15INK4B, p18INK4c, p19INK4d</p> <p>INK4 family spcially interacts with Cdk4 and Cdk6 but not other Cdks</p> <p>INK4 binding prevents the association of Cdk4 and Cdk6 with the D-type cyclins (D1, D2, D3)</p> <p>The vast majority of INK4 proteins are not found in complexes containing cyclins D. </p> <p>PMID:22943793</p> <p>TGFB induces expression of p15INK4B and represses expression of c-Myc</p> <p>p15INK4B is able to prevent cyclin D-CDK4/6 complex formation</p> <p>p15INK4B displaces p21CIP and p27KIP1 from cyclin D-CDK4/6 complexes. </p> <p>These CIP/KIP inhibitors are subsequently able to inactivate other complexes of G1 and S phase and therby inhibit cell cycle.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CyclinD1*"/> <bbox w="80.0" h="16.0" x="4098.5" y="14124.5"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2171_em_sa2171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDK4_6*</p> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, GENECARDS:GC12M058142, UNIPROT:P11802 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, GENECARDS:GC07M092234, UNIPROT:Q00534  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Artemis*:DNA-PK*:Ku70*:Ku80*:PARP3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>The complex presents in double amount to cover both ends of broken DNA double helix</p> <p>PMID:18558713</p> <p>PARP3 and PARP1 in C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa29_ce_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18558713"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22469522"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:196269035"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Artemis*/DNA-PK*/Ku70*/Ku80*/PARP1/PARP3"/> <bbox w="264.0" h="125.0" x="12871.473" y="16358.356"/> <glyph class="macromolecule" id="s_id_ce_sa499_ce_sa499"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 5 (double-strand-break rejoining)</p> <p>HUGO:XRCC5, HGNC:12833,ENTREZ:7520, UNIPROT:P13010</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, </p> <p>PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, </p> <p>PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku80*"/> <bbox w="80.0" h="40.0" x="12955.473" y="16411.855"/> <glyph class="state variable" id="_e9f5a433-b390-471c-a5a4-fc963bb4a328"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12973.904" y="16406.855"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ce_sa496_ce_sa496"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, DNA-activated, catalytic polypeptide</p> <p>HUGO:PRKDC, HGNC:9413, ENTREZ:5591, UNIPROT:Q9UME3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:21376743</p> <p>PMID:21300785, PMID:21175350, PMID:20691907</p> </body> </html> </notes> <label text="DNA-PK*"/> <bbox w="80.0" h="40.0" x="12877.223" y="16369.356"/> <glyph class="unit of information" id="_76996639-8edf-4809-811e-5cf3686e20eb"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="12907.223" y="16364.356"/> </glyph> <glyph class="state variable" id="_b6e7d7ad-33e0-4a67-862b-14dd23a32a03"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12872.223" y="16384.355"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa497_ce_sa497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA cross-link repair 1C (PSO2 homolog, S. cerevisiae)</p> <p>HUGO:DCLRE1C, HGNC:17642, ENTREZ:64421, UNIPROT:Q5JSS7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495</p> </body> </html> </notes> <label text="Artemis*"/> <bbox w="80.0" h="40.0" x="13040.806" y="16374.189"/> <glyph class="state variable" id="_71793552-fe0c-4166-91b7-21aad71d4a0d"> <state value="P" variable="S645"/> <bbox w="35.0" h="10.0" x="13023.798" y="16369.189"/> </glyph> <glyph class="state variable" id="_1211d8e0-1b67-455f-84ed-02b98a93a13d"> <state value="P" variable="S516"/> <bbox w="35.0" h="10.0" x="13063.338" y="16369.189"/> </glyph> <glyph class="state variable" id="_80df91e5-960b-4c59-ab13-9c03bb5e2e71"> <state value="P" variable="S518"/> <bbox w="35.0" h="10.0" x="13080.255" y="16369.189"/> </glyph> <glyph class="state variable" id="_7469e67d-b449-4efe-b0f2-5d38007f1f32"> <state value="P" variable="S385"/> <bbox w="35.0" h="10.0" x="13046.9" y="16369.189"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa498_ce_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 6</p> <p>HUGO:XRCC6, HGNC:4055, ENTREZ:2547, UNIPROT:P12956</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, </p> <p>PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku70*"/> <bbox w="80.0" h="40.0" x="12955.473" y="16366.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1580_ce_sa1580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 3</p> <p>HUGO:PARP3, HGNC:273, ENTREZ:10039, UNIPROT:Q9Y6F1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:22055391</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PARP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions (PARP3 in telomere maintenance)</p> <p>PMID:22713970, PMID:21270334</p> <p>PARP3 in HR and C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> <p>PARP3 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>APLF and PARP3 in C_NHEJ</p> <p>PMID:21211721‎</p> <p>PMID:23178593</p> <p>PMID:18077224‎</p> <p>PARP3 in C_NHEJ</p> <p>PMID:22743550</p> </body> </html> </notes> <label text="PARP3"/> <bbox w="80.0" h="40.0" x="12875.187" y="16418.69"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa126_rc_csa126" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP2:KLF8</p> </body> </html> </notes> <label text="CTBP2:KLF3"/> <bbox w="100.0" h="120.0" x="20711.56" y="16594.0"/> <glyph class="macromolecule" id="s_id_rc_sa1339_rc_sa1339"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545</p> <p>Map modules:</p> <p>MODULE:RCD_GENES</p> </body> </html> </notes> <label text="CTBP2"/> <bbox w="80.0" h="40.0" x="20721.56" y="16604.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1337_rc_sa1337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kruppel-like factor 8</p> <p>HUGO:KLF8 HGNC:6351 ENTREZ:11279 UNIPROT:O95600</p> <p>Map modules:</p> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1003_rc_sa1003"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3α*"/> <bbox w="80.0" h="40.0" x="25583.06" y="10881.0"/> <glyph class="state variable" id="_d064c7a4-6a28-4fdf-a66f-1748f7e8798f"> <state value="" variable="S21"/> <bbox w="25.0" h="10.0" x="25590.643" y="10876.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ce_sa937_ce_sa937" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_s2298"/> <bbox w="30.0" h="30.0" x="11681.0" y="10756.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2377_rc_sa2377" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2377_rc_sa2377"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IDH3G"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IDH3C"/> <bbox w="80.0" h="40.0" x="18889.06" y="15029.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1496_emtc_em_sa1496" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1496_emtc_em_sa1496"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTG1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="γ-Actin*"/> <bbox w="63.0" h="17.0" x="6028.0" y="15443.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa555_ca_sa555" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:TNF, CASCADE:IL1PMID:21339327 TSLP is produced by cancer-associated fibroblasts (CAFs) after activation by tumor-derived TNF and IL-1βTSLP-containing supernatants from activated CAFs induced in vitro myeloid DCs to up-regulate the TSLP receptor (TSLPR), secrete Th2-attracting chemokines, and acquire TSLP-dependent Th2-polarizing capability in vitro.PMID:22270071 Probably IL1 and TNF regulate TSLP expression via NFkB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:TNF, CASCADE:IL1PMID:21339327 TSLP is produced by cancer-associated fibroblasts (CAFs) after activation by tumor-derived TNF and IL-1βTSLP-containing supernatants from activated CAFs induced in vitro myeloid DCs to up-regulate the TSLP receptor (TSLPR), secrete Th2-attracting chemokines, and acquire TSLP-dependent Th2-polarizing capability in vitro.PMID:22270071 Probably IL1 and TNF regulate TSLP expression via NFkB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa555_ca_sa555"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TSLP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21339327"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22270071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TSLP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21339327"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22270071"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSLP"/> <bbox w="90.0" h="25.0" x="1295.0" y="3773.5"/> <glyph class="unit of information" id="_e473cebb-e25c-4524-a422-394f4a562888"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1330.0" y="3768.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa38_ce_csa38" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BRCA1:BRCA2:FANCD2:FANCI:FANCJ*:FANCN*:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19217432, PMID:18082604, PMID:19075014, PMID:18082605, PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa38_ce_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19075014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082605"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/BRCA2/FANCD2/FANCI/FANCJ*/FANCN*/RPA1/RPA2/RPA3"/> <bbox w="295.0" h="161.0" x="14339.473" y="16465.355"/> <glyph class="macromolecule" id="s_id_ce_sa548_ce_sa548"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1 interacting protein C-terminal helicase 1, BACH1, FANCJ</p> <p>HUGO:BRIP1, HGNC:20473, ENTREZ:83990, UNIPROT:Q9BX63</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:TLS, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>Phosphorylated FANCJ bound to BRCA1 activates HR. Dephosphorylated FANCJ bound to MLH1 activates TLS via POLH. This is a switch mechanism</p> <p>PMID:20173781</p> </body> </html> </notes> <label text="FANCJ*"/> <bbox w="80.0" h="40.0" x="14440.615" y="16472.928"/> <glyph class="state variable" id="_d7007f32-644e-4a48-bb88-1f9a463e04ea"> <state value="" variable="S990"/> <bbox w="30.0" h="10.0" x="14465.647" y="16467.928"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa546_ce_sa546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 2, early onset, FANCD1</p> <p>HUGO:BRCA2, HGNC:1101, ENTREZ:675, UNIPROT:P51587</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="BRCA2"/> <bbox w="80.0" h="40.0" x="14352.615" y="16515.928"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa549_ce_sa549"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>"Fanconi anemia, complementation group N"</p> <p>HUGO:PALB2, HGNC:26144, ENTREZ:79728, UNIPROT:Q86YC2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:22505525</p> <p>Parthner and localizer of BRCA2. For Fancony anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="FANCN*"/> <bbox w="80.0" h="40.0" x="14437.615" y="16519.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa554_ce_sa554"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="14525.642" y="16559.062"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa553_ce_sa553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="14525.642" y="16517.062"/> <glyph class="state variable" id="_4c3d9f67-9406-4dc3-9b93-c8d0c69c6728"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14520.642" y="16532.062"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa550_ce_sa550"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group D2</p> <p>HUGO:FANCD2, HGNC:3585, ENTREZ:2177, UNIPROT:Q9BXW9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22751496, PMID:23444773, PMID:20723763</p> </body> </html> </notes> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="14356.479" y="16561.5"/> <glyph class="state variable" id="_eaacb9a8-ec72-4cd6-bec6-b359dc5b14e3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14348.979" y="16568.215"/> </glyph> <glyph class="state variable" id="_82050ccf-fc90-4c42-a526-5f613566189c"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="14382.311" y="16556.5"/> </glyph> <glyph class="state variable" id="_37283856-f45a-4c9f-a044-cc58c1cc2020"> <state value="" variable="K561"/> <bbox w="30.0" h="10.0" x="14381.383" y="16596.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa547_ce_sa547"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14353.615" y="16472.928"/> <glyph class="state variable" id="_4ba3f9b7-a60c-49ce-a43c-3ea07064ca2d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14425.701" y="16507.928"/> </glyph> <glyph class="state variable" id="_2b99be12-d0b9-42c3-9746-2e0de156ea1b"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="14393.477" y="16467.928"/> </glyph> <glyph class="state variable" id="_84108aee-887e-40fd-9ce7-8dc6f2d6bca7"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="14355.242" y="16467.928"/> </glyph> <glyph class="state variable" id="_c2b66565-0bb7-4238-809b-be9a2fd764f1"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14373.367" y="16467.928"/> </glyph> <glyph class="state variable" id="_85e11262-83bd-470e-8b6d-6261d154de36"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14336.115" y="16487.896"/> </glyph> <glyph class="state variable" id="_f0925536-632c-4071-a50f-48883aa08b0f"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14338.615" y="16503.4"/> </glyph> <glyph class="state variable" id="_11949c40-e003-4c10-bdeb-bf2cf5447631"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14416.115" y="16473.168"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa551_ce_sa551"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group I</p> <p>HUGO:FANCI, HGNC:25568, ENTREZ:55215, UNIPROT:Q9NVI1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22101340</p> </body> </html> </notes> <label text="FANCI"/> <bbox w="80.0" h="40.0" x="14437.615" y="16562.07"/> <glyph class="state variable" id="_eb3079e5-ca15-48ac-9859-f4ba6ab3f2ce"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14510.112" y="16597.07"/> </glyph> <glyph class="state variable" id="_937dfaff-b498-48b4-9fe2-3f4f1f26290d"> <state value="" variable="K523"/> <bbox w="30.0" h="10.0" x="14461.319" y="16597.07"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa552_ce_sa552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="14526.642" y="16474.062"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2012_emtc_em_sa2012" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2012_emtc_em_sa2012"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SHC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHC1_p66_p52*"/> <bbox w="104.0" h="26.0" x="6450.0" y="16151.5"/> <glyph class="state variable" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa496_te_sa496"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PCNA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14624239"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1974050"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCNA"/> <clone/> <bbox w="92.0" h="52.0" x="2962.2825" y="22633.723"/> <glyph class="unit of information" id="_c01e5d68-1374-4674-89a1-42c4ff01f40b"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="2998.2825" y="22628.723"/> </glyph> </glyph> <glyph class="macromolecule 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id="_6aa8bc05-e285-4eb7-8500-ce7a7ceabca3"> <state value="" variable="S956"/> <bbox w="30.0" h="10.0" x="27153.186" y="19277.688"/> </glyph> <glyph class="state variable" id="_272935c3-dee6-41bc-8245-f14778957409"> <state value="" variable="S385"/> <bbox w="30.0" h="10.0" x="27153.186" y="19255.465"/> </glyph> <glyph class="state variable" id="_e9564672-886a-495d-9790-029b062180ad"> <state value="" variable="S1011"/> <bbox w="35.0" h="10.0" x="27150.686" y="19263.418"/> </glyph> <glyph class="state variable" id="_bbc9d141-2775-496d-9d58-50603906d0ae"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27235.805" y="19233.0"/> </glyph> <glyph class="state variable" id="_178b0d08-f84e-44e9-b643-d619fb107cd9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27218.418" y="19233.0"/> </glyph> <glyph class="state variable" id="_9ab6f5bc-cbea-497a-8137-d89f62e69447"> <state value="" variable="S813"/> <bbox w="30.0" h="10.0" x="27318.186" y="19255.572"/> </glyph> <glyph class="state variable" id="_b4fec49f-2bec-4a4f-90c0-a8490605ae4f"> <state value="" variable="S844"/> <bbox w="30.0" h="10.0" x="27230.531" y="19278.0"/> </glyph> <glyph class="state variable" id="_dd6c45ef-008c-463f-b8e7-2001898db2b0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27266.541" y="19278.0"/> </glyph> <glyph class="state variable" id="_3dbe1653-5ab3-4c71-b30b-d1c27f0e1ff3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27206.926" y="19233.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa548_ca_sa548" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017, PMID:17301840</p> <p>cIAP1 and cIAP2 modify RIP1, TRAF2 and themselves with K63-linked ubiquitin chains. This creates docking sites for the LUBAC complex, an E3 ligase capable of forming linear polyubiquitin chains.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa548_ca_sa548"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21232017"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17301840"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cIAP*"/> <bbox w="80.0" h="40.0" x="1330.0" y="1630.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1907_in_sa1907" compartmentRef="s_id_in_ca13_in_ca13"> <label text="FLT3"/> <bbox w="80.0" h="50.0" x="23805.0" y="5685.0"/> <glyph class="unit of information" id="_716e56e4-e731-43b5-9f89-cc81b6b17356"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23822.5" y="5680.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa56_shh1_shh2_sa56" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re35:(MAP:survival) PMID:20946121</p> <p>s_shh2_re54:(MAP:survival) PMID:19651775</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa56_shh1_shh2_sa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20946121"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19651775"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cancer progression ER-neg"/> <bbox w="80.0" h="30.0" x="26898.06" y="20804.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa15_ca_sa15"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa15_ca_sa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF2"/> <bbox w="80.0" h="40.0" x="4630.0" y="520.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa148_wnc1_wnc1_sa148" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="PTH"/> <bbox w="70.0" h="25.0" x="16500.06" y="17664.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa482_rc_sa482" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa482_rc_sa482"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMB"/> <bbox w="80.0" h="40.0" x="24309.06" y="11309.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa25_wnc1_wnc1_csa25" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_alpha__sub_s_endsub_*:G_beta_*:G_gamma_*:LRP6:PTH</p> <p>References:</p> <p>s_wnc1_re38:(MAP:survival) PMID:21406690</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa25_wnc1_wnc1_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(G-protein/LRP6)"/> <bbox w="160.0" h="122.0" x="16585.654" y="17717.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa154_wnc1_wnc1_sa154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="16646.28" y="17797.969"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa164_wnc1_wnc1_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GNAS complex locus</p> <p>GNAS1, "guanine nucleotide binding protein (G protein), alpha stimulating activity polypeptide 1"</p> <p>HUGO:GNAS HGNC:4392 ENTREZ:2778 UNIPROT:O95467 GENECARDS:GNAS KEGG:2778 ATLASONC:GNASID40727ch20q13 WIKI:GNAS</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gαs*"/> <bbox w="40.0" h="20.0" x="16605.06" y="17797.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa171_wnc1_wnc1_sa171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PTH"/> <bbox w="70.0" h="25.0" x="16630.06" y="17724.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa155_wnc1_wnc1_sa155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="16687.28" y="17797.969"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa152_wnc1_wnc1_sa152"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="16624.467" y="17740.156"/> <glyph class="state variable" id="_e92e4543-8230-49f8-9c71-8ebe4b237374"> <state value="" variable="S1544"/> <bbox w="35.0" h="10.0" x="16686.967" y="17735.422"/> </glyph> <glyph class="state variable" id="_dbd6e3f5-656d-4acb-908f-394d0470e5bc"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="16646.998" y="17735.156"/> </glyph> <glyph class="state variable" id="_de2cdbd4-9763-4e97-bb47-9ce60dfd5f04"> <state value="" variable="T1572"/> <bbox w="35.0" h="10.0" x="16606.967" y="17760.117"/> </glyph> <glyph class="state variable" id="_82c5e226-f446-47df-9560-43a3cfd0b6b7"> <state value="" variable="T1548"/> <bbox w="35.0" h="10.0" x="16686.967" y="17773.594"/> </glyph> <glyph class="unit of information" id="_b87e60cd-5eba-47c1-9da6-9cc08ed30891"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16641.967" y="17735.156"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa28_wca1_wca3_csa28" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:PYGO*:SMAD1:TCF4:_beta_-Catenin*:p300*</p> <p>References:</p> <p>NOTE: In the original article (PMID:15576399)is unknown if p300/PYGO/bcl9 and wich PTMs on b-catenin are present in this complex. Based on canonical transcription by b-catenin the afore mentioned proteins are required for activating gene transcription.</p> <p>s_wca3_re64(MAP:survival):</p> <p>Under pathological conditions this complex will be formed. This complex has synergistic positive effect on myc gene expression.</p> <p>PMID:15576399</p> <p>s_wca3_re65(MAP:survival):</p> <p>PMID:22761862</p> <p>Smad1 alone inhibits myc expression while b-catenin/TCF4 activates gene expression. Highest gene expression obtained when SMAD1/b-catenin/TCF4 complex is formed</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa28_wca1_wca3_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="(urn:miriam:pubmed:15576399)is"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15576399"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:PYGO*:SMAD1:TCF4:β-Catenin*:p300*"/> <bbox w="223.0" h="176.0" x="22364.81" y="21506.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa199_wca1_wca3_sa199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="22479.623" y="21520.0"/> <glyph class="state variable" id="_a76a533c-00b2-41c7-b1e1-f595a1024b1d"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="22467.615" y="21515.0"/> </glyph> <glyph class="state variable" id="_c80d1957-5d67-4024-ad69-aec39b0f2d54"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="22467.123" y="21554.72"/> </glyph> <glyph class="state variable" id="_1ef73d8d-6996-4dcd-ab79-6f84a3310a71"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="22544.623" y="21515.213"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="22385.186" y="21520.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa197_wca1_wca3_sa197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="22385.373" y="21602.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa198_wca1_wca3_sa198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="22385.373" y="21561.125"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa204_wca1_wca3_sa204"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 1</p> <p>"MAD mothers against decapentaplegic homolog 1 (Drosophila)" MADH1 "SMAD mothers against DPP homolog 1 (Drosophila)"</p> <p>HUGO:SMAD1 HGNC:6767 ENTREZ:4086 UNIPROT:Q15797 GENECARDS:SMAD1 REACTOME:64616 KEGG:4086 ATLASONC:GC_SMAD1 WIKI:SMAD1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> </body> </html> </notes> <label text="SMAD1"/> <bbox w="80.0" h="40.0" x="22480.06" y="21601.5"/> <glyph class="state variable" id="_d7e18720-ac3c-425c-85da-7a276cd309a0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22552.56" y="21596.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa203_wca1_wca3_sa203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="TCF4"/> <bbox w="80.0" h="40.0" x="22479.06" y="21561.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4737_rc_sa4737" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4737_rc_sa4737"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L11"/> <clone/> <bbox w="90.0" h="25.0" x="26366.326" y="16031.5"/> <glyph class="unit of information" id="_519ec61e-bc1a-4638-b525-0055f6139e42"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26401.326" y="16026.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4737_shh1_shh2_sa257" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4737_shh1_shh2_sa257"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L11"/> <clone/> <bbox w="90.0" h="25.0" x="12722.061" y="20564.5"/> <glyph class="unit of information" id="_bb030199-4249-4062-8850-58d86d05ec00"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12757.061" y="20559.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4737_shh1_shh2_sa228" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4737_shh1_shh2_sa228"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L11"/> <clone/> <bbox w="90.0" h="25.0" x="27320.06" y="21653.5"/> <glyph class="unit of information" id="_46b95284-8952-433a-ab24-6ab5cc5c73c1"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27355.06" y="21648.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4737_rc_sa595" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4737_rc_sa595"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L11"/> <clone/> <bbox w="90.0" h="25.0" x="22309.06" y="16046.5"/> <glyph class="unit of information" id="_d1461302-71e7-4b68-b59e-0bc67661cd1e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22344.06" y="16041.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5383_rc_sa5383" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> </body> </html> </notes> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="23184.06" y="12826.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5383_rc_sa3367" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> </body> </html> </notes> <label text="ATP"/> <clone/> <bbox w="70.0" h="25.0" x="23408.06" y="14878.25"/> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa338_akt1_akt1_sa338" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_akt1_re115(MAP:survival):</p> <p>PMID:12791379</p> <p>PMID:10582334</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa338_akt1_akt1_sa338"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12791379"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10582334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PI3,4-P2"/> <bbox w="70.0" h="25.0" x="13034.061" y="17615.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa367_rc_csa367" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK_beta_*</p> <p>References:</p> <p>casein kinase 2</p> </body> </html> </notes> <label text="CSNK2"/> <bbox w="176.0" h="110.0" x="18141.06" y="16874.0"/> <glyph class="macromolecule" id="s_id_rc_sa3466_rc_sa3466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2, alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="80.0" h="40.0" x="18232.06" y="16882.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3467_rc_sa3468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chemokine (C-C motif) ligand 19</p> <p>HUGO:CCL19 HGNC:10617 ENTREZ:6363 UNIPROT:Q99731</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CKβ*"/> <bbox w="80.0" h="40.0" x="18231.56" y="16924.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3467_rc_sa3467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chemokine (C-C motif) ligand 19</p> <p>HUGO:CCL19 HGNC:10617 ENTREZ:6363 UNIPROT:Q99731</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CKβ*"/> <bbox w="80.0" h="40.0" x="18150.06" y="16923.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3465_rc_sa3465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2, alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:GLUCOSE_METABOLISM, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="80.0" h="40.0" x="18150.06" y="16881.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa73_emtc_em_sa73" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa73_emtc_em_sa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRB3"/> <bbox w="44.0" h="17.0" x="6703.5" y="15317.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa361_mo_sa361" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa361_mo_sa361"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p14ARF*"/> <clone/> <bbox w="90.0" h="25.0" x="3889.5" y="10255.5"/> <glyph class="unit of information" id="_2b0c63c8-f34b-4d59-8a8f-f2b06533d59f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3924.5" y="10250.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa361_rc_sa3330" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa361_rc_sa3330"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p14ARF*"/> <clone/> <bbox w="90.0" h="25.0" x="24848.56" y="16034.5"/> <glyph class="unit of information" id="_79732a23-f7de-4831-98d0-97e359012200"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24883.56" y="16029.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa361_em_sa2144" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0cyclin-dependent kinase inhibitor 2ACDKN2 "cyclin-dependent kinase inhibitor 2A (melanoma p16 inhibits CDK4)" MLM </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa361_em_sa2144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p14ARF*"/> <clone/> <bbox w="76.0" h="18.0" x="4271.0" y="14483.5"/> <glyph class="unit of information" id="_cd6a00c5-d591-490b-b1d6-60c070c58410"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4299.0" y="14478.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa529_mo_sa529" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Adhesion"/> <bbox w="80.0" h="30.0" x="3722.0" y="9294.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2111_em_sa2111" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE </p> <p>References:</p> <p>PMID:18555778</p> <p>In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.</p> <p>PMID:18555777</p> <p>There is a positive feedback loop between IL6 and CEBP that help maintain the senescence state</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2111_em_sa2111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555777"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CEBP"/> <bbox w="45.0" h="21.0" x="5172.0" y="17203.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa986_in_sa986" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR17"/> <bbox w="90.0" h="25.0" x="10725.0" y="4414.375"/> <glyph class="unit of information" id="_be17a81e-dd3e-4f38-974f-9ca014adf2bf"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="10755.0" y="4409.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa681_ad_sa681" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:GRAP2, CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>GRAP2 (GADS, GRPL)</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:10209041 </p> <p>GrpL, a Grb2-related Adaptor Protein, Interacts with SLP-76 to Regulate Nuclear Factor of Activated T Cell Activation</p> <p>GrpL can be coimmunoprecipitated with SLP-76 but not with Sos1 or Sos2 from Jurkat cell lysates. In contrast, Grb2 can be coimmunoprecipitated with Sos1 and Sos2 but not with SLP-76.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa681_ad_sa681"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10811803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12640133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10209041"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRAP2"/> <bbox w="80.0" h="40.0" x="29046.0" y="3630.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa299_ce_sa299" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0GG-NER:DNA:st2Transcriptionally silent chemically or stracturally modyfied DNA, damage-recognitionNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:NER ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0GG-NER:DNA:st2Transcriptionally silent chemically or stracturally modyfied DNA, damage-recognitionNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:NER </body> </html> </notes> <label text="GG-NER_DNA_st2*"/> <bbox w="170.0" h="26.0" x="8515.773" y="15898.8"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa15_wnc1_wnc1_csa15" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAMK2*:Ca2+:Calmodulin*</p> </body> </html> </notes> <label text="CAMK2*:Ca2+:Calmodulin*"/> <clone/> <bbox w="109.0" h="157.0" x="15297.061" y="18193.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa105_wnc1_wnc1_sa105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calcium/calmodulin-dependent protein kinase II alpha</p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II alpha", CAMKA</p> <p>HUGO:CAMK2A HGNC:1460 ENTREZ:815 UNIPROT:Q9UQM7 GENECARDS:CAMK2A REACTOME:57903 KEGG:815 ATLASONC:GC_CAMK2A WIKI:CAMK2A </p> <p>calcium/calmodulin-dependent protein kinase II beta</p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II beta", CAMKB</p> <p>HUGO:CAMK2B HGNC:1461 ENTREZ:816 UNIPROT:Q13554 GENECARDS:CAMK2B REACTOME:57905 KEGG:816 ATLASONC:GC_CAMK2B WIKI:CAMK2B </p> <p>calcium/calmodulin-dependent protein kinase II delta</p> <p>HUGO:CAMK2D HGNC:1462 ENTREZ:817 UNIPROT:Q13557 GENECARDS:CAMK2D REACTOME:57907 KEGG:817 ATLASONC:GC_CAMK2D WIKI:CAMK2D </p> <p>calcium/calmodulin-dependent protein kinase II gamma</p> <p>HUGO:CAMK2G HGNC:1463 ENTREZ:818 UNIPROT:Q13555 GENECARDS:CAMK2G REACTOME:57909 KEGG:818 ATLASONC:GC_CAMK2G WIKI:CAMK2G </p> <p>calcium/calmodulin-dependent protein kinase II beta"calcium/calmodulin-dependent protein kinase (CaM kinase) II beta", CAMKB</p> <p>HUGO:CAMK2B HGNC:1461 ENTREZ:816 UNIPROT:Q13554 GENECARDS:CAMK2B REACTOME:57905 KEGG:816 ATLASONC:GC_CAMK2B WIKI:CAMK2B HUGO:CAMK2D HGNC:1462 ENTREZ:817 UNIPROT:Q13557 GENECARDS:CAMK2D REACTOME:57907 KEGG:817 ATLASONC:GC_CAMK2D WIKI:CAMK2D </p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II delta", CAMKD</p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II gamma", CAMKG</p> <p>Map modules:</p> </body> </html> </notes> <label text="CAMK2*"/> <clone/> <bbox w="80.0" h="40.0" x="15311.311" y="18256.25"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa106_wnc1_wnc1_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="15339.186" y="18298.75"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa726_wnc1_wnc1_sa726"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <clone/> <bbox w="80.0" h="40.0" x="15313.561" y="18206.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa15_wnc1_wnc2_csa30" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAMK2*:Ca2+:Calmodulin*</p> </body> </html> </notes> <label text="CAMK2*:Ca2+:Calmodulin*"/> <clone/> <bbox w="101.0" h="133.0" x="18158.06" y="18369.0"/> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa106_wnc1_wnc2_sa165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="18196.56" y="18458.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa105_wnc1_wnc2_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calcium/calmodulin-dependent protein kinase II alpha</p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II alpha", CAMKA</p> <p>HUGO:CAMK2A HGNC:1460 ENTREZ:815 UNIPROT:Q9UQM7 GENECARDS:CAMK2A REACTOME:57903 KEGG:815 ATLASONC:GC_CAMK2A WIKI:CAMK2A </p> <p>calcium/calmodulin-dependent protein kinase II beta</p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II beta", CAMKB</p> <p>HUGO:CAMK2B HGNC:1461 ENTREZ:816 UNIPROT:Q13554 GENECARDS:CAMK2B REACTOME:57905 KEGG:816 ATLASONC:GC_CAMK2B WIKI:CAMK2B </p> <p>calcium/calmodulin-dependent protein kinase II delta</p> <p>HUGO:CAMK2D HGNC:1462 ENTREZ:817 UNIPROT:Q13557 GENECARDS:CAMK2D REACTOME:57907 KEGG:817 ATLASONC:GC_CAMK2D WIKI:CAMK2D </p> <p>calcium/calmodulin-dependent protein kinase II gamma</p> <p>HUGO:CAMK2G HGNC:1463 ENTREZ:818 UNIPROT:Q13555 GENECARDS:CAMK2G REACTOME:57909 KEGG:818 ATLASONC:GC_CAMK2G WIKI:CAMK2G </p> <p>calcium/calmodulin-dependent protein kinase II beta"calcium/calmodulin-dependent protein kinase (CaM kinase) II beta", CAMKB</p> <p>HUGO:CAMK2B HGNC:1461 ENTREZ:816 UNIPROT:Q13554 GENECARDS:CAMK2B REACTOME:57905 KEGG:816 ATLASONC:GC_CAMK2B WIKI:CAMK2B HUGO:CAMK2D HGNC:1462 ENTREZ:817 UNIPROT:Q13557 GENECARDS:CAMK2D REACTOME:57907 KEGG:817 ATLASONC:GC_CAMK2D WIKI:CAMK2D </p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II delta", CAMKD</p> <p>"calcium/calmodulin-dependent protein kinase (CaM kinase) II gamma", CAMKG</p> <p>Map modules:</p> </body> </html> </notes> <label text="CAMK2*"/> <clone/> <bbox w="80.0" h="40.0" x="18169.06" y="18417.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa726_wnc1_wnc2_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <clone/> <bbox w="80.0" h="40.0" x="18169.06" y="18374.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa503_emtc_em_sa503" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Late G1 phase"/> <bbox w="100.0" h="20.0" x="3150.0" y="13615.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa53_ce_sa53" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0MMR:DNA:st3DNA with excised DNA fragmentNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:MMR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0MMR:DNA:st3DNA with excised DNA fragmentNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:MMR </body> </html> </notes> <label 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MRC1"/> <bbox w="90.0" h="25.0" x="10220.648" y="588.125"/> <glyph class="unit of information" id="_bec6e048-435c-4a5a-9fd3-a823fbe67074"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10255.648" y="583.125"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa1279_rc_sa1279" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s264"/> <bbox w="30.0" h="30.0" x="22794.06" y="11752.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa454_rc_csa454" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATG10:ATG12</p> <p>References:</p> <p>23725295</p> <p>PMID:24070470</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa454_rc_csa454"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG12:ATG10"/> <bbox w="110.0" h="124.0" x="29001.31" y="11729.083"/> <glyph class="macromolecule" id="s_id_rc_sa4386_rc_sa4386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 12</p> <p>HUGO:ATG12 HGNC:588 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4700_rc_sa4700"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VAMP3"/> <bbox w="80.0" h="40.0" x="28890.56" y="11061.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4931_rc_sa4931" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB5</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for aVb5: Latent TGFB, Osteopontin, vitronectin,</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa22_emtc_em_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb5*"/> <bbox w="40.0" h="60.0" x="5122.521" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa352_emtc_em_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5122.521" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa327_emtc_em_sa327"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 5</p> <p>HUGO:ITGB5 HGNC:6160 ENTREZ:3693 UNIPROT:P18084</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB5"/> <bbox w="40.0" h="20.0" x="5122.521" y="18035.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa372_te_sa372" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4498_rc_sa4494"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKACG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA_C*"/> <clone/> <bbox w="80.0" h="40.0" x="27360.088" y="12532.764"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa172_wca1_wca2_sa172" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa172_wca1_wca2_sa172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HECTD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HECTD1"/> <bbox w="80.0" h="40.0" x="23858.06" y="18643.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa342_emtc_em_csa342" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PI3KC1-catalytic*:PI3KC1-regulator*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(PI3KC1)"/> <clone/> <bbox w="118.0" h="66.0" x="5546.5" y="13516.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2332_emtc_em_sa2332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase catalytic alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336</p> <p>phosphoinositide-3-kinase catalytic beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338</p> <p>phosphoinositide-3-kinase catalytic delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329</p> <p>phosphoinositide-3-kinase catalytic gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:16847462</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PI3KC1-catalytic*"/> <clone/> <bbox w="114.0" h="21.0" x="5548.5" y="13518.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2333_emtc_em_sa2333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986</p> <p>phosphoinositide-3-kinase regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459</p> <p>phosphoinositide-3-kinase regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> <p>PMID:12040186</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PI3KC1-regulator*"/> <clone/> <bbox w="114.0" h="19.0" x="5549.5" y="13540.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa342_emtc_em_csa339" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PI3KC1-catalytic*:PI3KC1-regulator*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(PI3KC1)"/> <clone/> <bbox w="118.0" h="66.0" x="5546.0" y="13327.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2332_emtc_em_sa2322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase catalytic alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336</p> <p>phosphoinositide-3-kinase catalytic beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338</p> <p>phosphoinositide-3-kinase catalytic delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329</p> <p>phosphoinositide-3-kinase catalytic gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:16847462</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PI3KC1-catalytic*"/> <clone/> <bbox w="114.0" h="21.0" x="5548.0" y="13329.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2333_emtc_em_sa2323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986</p> <p>phosphoinositide-3-kinase regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459</p> <p>phosphoinositide-3-kinase regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> <p>PMID:12040186</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PI3KC1-regulator*"/> <clone/> <bbox w="114.0" h="19.0" x="5550.0" y="13352.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa110_mpk1_mpk1_csa110" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:DAG:PKC*</p> </body> </html> </notes> <label text="Ca2+:DAG:PKC*"/> <bbox w="117.0" h="91.0" x="8003.06" y="18902.0"/> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa688_mpk1_mpk1_sa688"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Diacylglycerol</p> <p>CAS:N/A PUBCHEM:3914 CHEBI:17815 KEGGCOMPOUND:C00165</p> <p>Map modules:</p> <p>MODULE:MAPK</p> <p>References:</p> <p>DAG activates the C1-domain of RasGRP1.</p> <p>PLCG acts on PIP2 in the PM to produce DAG and IP3.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+, in a manner analogous to members of the PKC family.</p> <p>PMID:17496910, PMID:16488589, PMID:17496910</p> <p>DAG remains in the inner layer of the plasma membrane. It recruits Protein Kinase C (PKC) ??? a calcium-dependent kinase that phosphorylates many other proteins that bring about the changes in the cell.</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="8043.06" y="18909.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa690_mpk1_mpk1_sa690"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase C alpha</p> <p>PKCA</p> <p>HUGO:PRKCA HGNC:9393 ENTREZ:5578 UNIPROT:P17252 </p> <p>protein kinase C beta</p> <p>PKCB PRKCB1 PRKCB2 "protein kinase C beta 1"</p> <p>HUGO:PRKCB HGNC:9395 ENTREZ:5579 UNIPROT:P05771 </p> <p>protein kinase C gamma</p> <p>PKCG SCA14</p> <p>HUGO:PRKCG HGNC:9402 ENTREZ:5582 UNIPROT:P05129</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Recruitment to the membrane and tyrosine phosphorylation enhance the enzymatic activity of PLC-g leading to the formation of two second messengers diacylglycerol (DAG) and inositol 145-trisphosphate (IP3). IP3 releases Ca2+ from internal stores which in turn acts in concert with DAG to translocate protein kinase C (PKC) to the cell membrane and stimulate its enzymatic activity.</p> </body> </html> </notes> <label text="PKC*"/> <bbox w="50.0" h="25.0" x="8053.06" y="18935.5"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa689_mpk1_mpk1_sa689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="61.0" h="38.0" x="8007.56" y="18923.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1244_ad_sa1244" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> <p>multiple Src family kinases, including not only Fyn but also Lyn, Src, and Lck, were able to trigger DNAM-1 tyrosine phosphorylation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1244_ad_sa1244"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26552706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SRC"/> <bbox w="80.0" h="40.0" x="30446.0" y="2760.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2340_in_sa2340" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 7521688, 7512720, 19833085 <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <p>Jak1 and Jak2 are activated by the G-CSFR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2340_in_sa2340"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7521688"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7512720"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19833085"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK1"/> <clone/> <bbox w="80.0" h="40.0" x="9750.0" y="4125.0"/> <glyph class="state variable" id="_95bf4622-bf40-49a4-8eec-e2f3bcbb353a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9745.0" y="4140.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2340_in_sa1845" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 7521688, 7512720, 19833085 <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <p>Jak1 and Jak2 are activated by the G-CSFR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2340_in_sa1845"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7521688"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7512720"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19833085"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK1"/> <clone/> <bbox w="80.0" 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYLK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MLCK*"/> <bbox w="80.0" h="40.0" x="7470.0" y="3670.0"/> <glyph class="state variable" id="_1fc02115-2045-4126-8f64-1f2c3a8cdf84"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7462.5" y="3685.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa26_mo_csa26" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Focal adhesion complex*"/> <bbox w="233.0" h="144.0" x="4094.5" y="11706.0"/> <glyph class="macromolecule" id="s_id_mo_sa426_mo_sa426"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine kinase 2 </p> </body> </html> </notes> <label text="FAK*"/> <bbox w="80.0" h="40.0" x="4123.885" y="11776.692"/> <glyph class="state variable" id="_9b10c8dc-5805-4e8a-bf9e-0897b8e6fbe7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4172.953" y="11771.692"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa428_mo_sa428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="others*"/> <bbox w="80.0" h="40.0" x="4217.0" y="11720.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa425_mo_sa425"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>paxillin</p> </body> </html> </notes> <label text="PXN"/> <bbox w="80.0" h="40.0" x="4121.885" y="11721.692"/> <glyph class="state variable" id="_8e43b9a4-973b-4b99-9cd5-df547f367f29"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4170.953" y="11716.692"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa427_mo_sa427"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Vinculin</p> </body> </html> </notes> <label text="Vinculin*"/> <bbox w="80.0" h="40.0" x="4217.0" y="11770.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2459_rc_sa2459" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2459_rc_sa2459"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VDAC3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VDAC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VDAC3"/> <bbox w="70.0" h="25.0" x="19459.06" y="16279.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa466_ad_sa466" compartmentRef="s_id_ad_ca15_ad_ca15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa466_ad_sa466"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMM"/> <bbox w="80.0" h="40.0" x="28566.0" y="8227.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa511_rc_csa511" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NDUFS2:NDUFV2:NPL4*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>12847084</p> </body> </html> </notes> <label text="p97*:UFD1*:NPL4*"/> <bbox w="98.0" h="158.0" x="29350.488" y="13550.25"/> <glyph class="macromolecule" id="s_id_rc_sa5175_rc_sa5175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin recognition factor in ER associated degradation 1</p> <p>HUGO:UFD1 hgnc_id:HGNC:12520 HGNC:12520 ENTREZ:7353 UNIPROT:Q92890</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="UFD1*"/> <bbox w="80.0" h="40.0" x="29360.488" y="13642.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5174_rc_sa5174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NPL4 homolog, ubiquitin recognition factor</p> <p>HUGO:NPLOC4 hgnc_id:HGNC:18261 HGNC:18261 ENTREZ:55666 UNIPROT:Q8TAT6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="NPL4*"/> <bbox w="80.0" h="40.0" x="29360.488" y="13602.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5173_rc_sa5173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>valosin containing protein</p> <p>HUGO:VCP hgnc_id:HGNC:12666 HGNC:12666 ENTREZ:7415 UNIPROT:P55072</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>PMID:16186509</p> </body> </html> </notes> <label text="p97*"/> <bbox w="80.0" h="40.0" x="29360.488" y="13562.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa178_emtc_em_csa178" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Occludin_Claudin1_2_4_5_7_8_16*:ZO1_2_3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Occludin_Claudin1_2_4_5_7_8_16*/ZO1_2_3*"/> <bbox w="278.0" h="43.0" x="1332.0" y="15247.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1347_emtc_em_sa1347"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ZO1_2_3*</p> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>tight junction protein 2</p> <p>HUGO:TJP2, HGNC:11828, ENTREZ:9414, GENECARDS:GC09P071766, UNIPROT:Q9UDY2 </p> <p>tight junction protein 3</p> <p>HUGO:TJP3, HGNC:11829, ENTREZ:27134, GENECARDS:GC19P003659, UNIPROT:O95049</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1_2_3*"/> <bbox w="60.0" h="20.0" x="1546.0" y="15250.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1349_emtc_em_sa1349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Occludin_Claudin1_2_4_5_7_8_16*</p> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>claudin 1</p> <p>HUGO:CLDN1, HGNC:2032, ENTREZ:9076, UNIPROT:O95832, GENECARDS:GC03M190023 </p> <p>claudin 2</p> <p>HUGO:CLDN2, HGNC:2041, ENTREZ:9075, UNIPROT:P57739, GENECARDS:GC0XP106163 </p> <p>Claudin 4</p> <p>HUGO:CLDN4, HGNC:2046, ENTREZ:1364, UNIPROT:O14493, GENECARDS:GC07P073213 </p> <p>claudin 5</p> <p>HUGO:CLDN5, HGNC:2047, ENTREZ:7122, UNIPROT:O00501, GENECARDS:GC22M019510 </p> <p>Claudin 7</p> <p>HUGO:CLDN7, HGNC:2049, ENTREZ:1366, UNIPROT:O95471, GENECARDS:GC17M007163 </p> <p>Claudin 8</p> <p>HUGO:CLDN8, HGNC:2050, ENTREZ:9073, UNIPROT:P56748, GENECARDS:GC21M031586 </p> <p>Claudin 16</p> <p>HUGO:CLDN16, HGNC:2037, ENTREZ:10686, UNIPROT:Q9Y5I7, GENECARDS:GC03P190040 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin_Claudin1_2_4_5_7_8_16*"/> <bbox w="207.0" h="18.0" x="1335.0" y="15249.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa497_in_sa497" 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<p>NAME:14-3-3*:GLI3-190*</p> <p>References:</p> <p>s_shh2_re66:(MAP:survival) PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa10_shh1_shh2_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI3-190_14-3-3"/> <bbox w="195.0" h="147.0" x="27789.81" y="21181.75"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa101_shh1_shh2_sa101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa671_mpk1_mpk1_sa671"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2"/> <bbox w="50.0" h="25.0" x="11468.061" y="20154.5"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2053_em_sa2053" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and 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</notes> <label text="active PK"/> <bbox w="118.0" h="98.0" x="18825.777" y="11097.898"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3398_rc_sa3398"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate kinase, liver and RBC</p> <p>HUGO:PKLR HGNC:9020 ENTREZ:5313 UNIPROT:P30613 </p> <p>pyruvate kinase, muscle</p> <p>HUGO:PKM HGNC:9021 ENTREZ:5315 UNIPROT:P14618</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PK*"/> <bbox w="86.0" h="46.0" x="18841.777" y="11117.898"/> <glyph class="unit of information" id="_c9f41096-daa9-4523-acd7-17a88fb0d118"> <label text="N:4"/> <bbox w="20.0" h="10.0" x="18874.777" y="11112.898"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa938_rc_sa938"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="K+"/> <bbox w="25.0" h="25.0" x="18832.027" y="11149.898"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa52_shh1_shh1_csa52" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KIF3A:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11208056</p> <p>s_shh1_re40(MAP:survival):</p> <p>PMID:20956384</p> <p>PMID:20643644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa52_shh1_shh1_csa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11208056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20643644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Kif3"/> <bbox w="100.0" h="120.0" x="27124.06" y="18030.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa313_shh1_shh1_sa313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3B</p> <p>HUGO:KIF3B HGNC:6320 ENTREZ:9371 UNIPROT:O15066 GENECARDS:KIF3B REACTOME:58021 KEGG:9371 ATLASONC:GC_KIF3B WIKI:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3B"/> <bbox w="80.0" h="40.0" x="27135.56" y="18081.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa158_shh1_shh1_sa158"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3A</p> <p>HUGO:KIF3A HGNC:6319 ENTREZ:11127 UNIPROT:Q9Y496 GENECARDS:KIF3A REACTOME:58019 KEGG:11127 WIKI:KIF3A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3A"/> <bbox w="80.0" h="40.0" x="27135.186" y="18037.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa79_ca_sa79" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa79_ca_sa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SPARC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SPARC"/> <bbox w="80.0" h="40.0" x="2140.0" y="3990.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1075_ca_sa1075" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>http://www.fasebj.org/content/23/1_Supplement/894.7.short</p> <p>FIZZ1 binds to B7-H3 on fibroblasts and activates myofibroblast differentiation</p> <p>This FIZZ1-B7-H3 interaction was confirmed by co-immunoprecipitation and FRET assays. B7-H3 expression by fibroblasts was confirmed by immunostaining and real time PCR. Further studies indicated that FIZZ1 induced the phosphorylation of B7-H3. In contrast to wild type fibroblasts, B7-H3 deficient cells from knockout mice failed to undergo myofibroblast differentiation in response to FIZZ1 treatment. </p> <p>PMID: 19544488 </p> <p>B7-H3 is a potent inhibitor of human T-cell activation: No evidence for B7-H3 and TREML2 interaction</p> <p>https://link.springer.com/chapter/10.1007%2F978-4-431-99644-6_60</p> <p>The cell line named H1C1 had abilities to differentiate into adipocytes, osteocytes, and chondrocytes; therefore, we termed H1C1 as the human mesenchymal stem cells. RT-PCR showed that H1C1 constantly expressed mRNA of costimulatory molecules B7-H1, B7-H2, and B7-H3, which are known as immunosuppressive molecules. When human PBMC were cocultured with H1C1, the population of Tregs was increased compared with monoculture of PBMC, and neutralization of B7-H3 suppressed this induction. 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <clone/> <bbox w="80.0" h="40.0" x="21254.06" y="16464.0"/> <glyph class="state variable" id="_8a9a4084-9dc3-416a-977c-a00ea8f17923"> <state value="" variable="S46"/> <bbox w="25.0" h="10.0" x="21321.56" y="16459.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa28_emtc_em_sa895" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa28_emtc_em_sa895"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <clone/> <bbox w="39.0" h="19.0" x="4500.5" y="14460.5"/> <glyph class="state variable" id="_12bac252-a160-4c7a-9380-63a26e54bde4"> <state value="" variable="S46"/> <bbox w="25.0" h="10.0" x="4527.0" y="14455.602"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa28_mo_sa106" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa28_mo_sa106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*"/> <clone/> <bbox w="80.0" h="40.0" x="3905.125" y="10484.875"/> <glyph class="state variable" id="_bf9c4b8b-42fc-4258-87a7-15de7f74cefd"> <state value="" variable="S46"/> <bbox w="25.0" h="10.0" x="3972.625" y="10480.088"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa89_mpk1_mpk1_csa89" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:MAP3K1:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:MAP3K1:RAS*:RTK*:SOS*"/> <bbox w="205.0" h="103.0" x="10811.211" y="19631.46"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa638_mpk1_mpk1_sa638"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="10954.186" y="19637.75"/> <glyph class="unit of information" id="_3c27801c-aa04-470b-aee3-66a27a5f0674"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10956.686" y="19632.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa641_mpk1_mpk1_sa641"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="10904.686" y="19684.75"/> <glyph class="state variable" id="_c474a421-bb20-4dae-886c-5155e9b7cd4b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10897.186" y="19692.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa487_mpk1_mpk1_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 1 E3 ubiquitin protein ligase</p> <p>MEKK1 "mitogen-activated protein kinase kinase kinase 1"</p> <p>HUGO:MAP3K1 HGNC:6848 ENTREZ:4214 UNIPROT:Q13233</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MEKK1 (MAP3K1) is a key MAP3K.</p> <p>MEKK1 is significantly activated by TNF. Oligomerisation of TRAFs is sufficient to trigger MEKK1 binding. MEKK1 associates selectively with oligomerised TRAF2 in vivo in a TNF-dependent manner. MEKK1 can interact with Ras in a GTP-dependent manner. The GTP-dependent coupling of MEKK1 to Ras indicates that MEKK1 may be an effector for those agonists that recruit JNK through Ras-dependent mechanisms. MEKK1 selectively activates the endogenous JNK pathway. MEKK1 can activate MEK4 and MEK7 in vivo.</p> </body> </html> </notes> <label text="MAP3K1"/> <bbox w="76.0" h="25.0" x="10825.211" y="19684.46"/> <glyph class="state variable" id="_2c3bf1bf-4eef-4e35-bf9a-ec6465d66cb1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10817.711" y="19691.96"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa639_mpk1_mpk1_sa639"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="10954.186" y="19660.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa640_mpk1_mpk1_sa640"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="10954.186" y="19685.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2469_emtc_em_sa2469" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2469_emtc_em_sa2469"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFR family*"/> <bbox w="114.0" h="20.0" x="2740.0" y="17021.0"/> <glyph class="unit of information" id="_65b17cb6-5c97-4a59-8eff-da839b655e55"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2787.0" y="17016.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3065_rc_sa3065" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3065_rc_sa3065"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DRAM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DRAM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DRAM1"/> <bbox w="70.0" h="25.0" x="21596.08" y="16293.366"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa343_mo_sa343" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>junctional adhesion molecule 2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa343_mo_sa343"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAM2"/> <clone/> <bbox w="80.0" h="40.0" x="3455.0" y="11957.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa343_emtc_em_sa1144" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>junctional adhesion molecule 2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa343_emtc_em_sa1144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAM2"/> <clone/> <bbox w="40.0" h="16.0" x="1132.25" y="14896.3"/> </glyph> 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="epsiurn:miriam:hgnc.symbol:CSNK1E"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1*"/> <clone/> <bbox w="80.0" h="40.0" x="12426.061" y="21544.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2716_in_sa2716" compartmentRef="s_id_in_ca12_in_ca12"> <label text="STAT3"/> <clone/> <bbox w="70.0" h="25.0" x="22960.0" y="5167.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2716_in_sa972" compartmentRef="s_id_in_ca12_in_ca12"> <label text="STAT3"/> <clone/> <bbox w="70.0" h="25.0" x="9925.0" y="4272.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa35_wnc1_wnc1_csa35" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RAC1</p> </body> </html> </notes> <label text="GTP:RAC1"/> <bbox w="100.0" h="100.0" x="14855.061" y="17887.0"/> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa221_wnc1_wnc1_sa221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="14892.561" y="17944.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa219_wnc1_wnc1_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="14865.061" y="17897.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa261_emtc_em_sa261" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa261_emtc_em_sa261"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB1"/> <clone/> <bbox w="40.0" h="20.0" x="4896.174" y="17647.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa261_mo_sa165" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa261_mo_sa165"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB1"/> <clone/> <bbox w="70.0" h="25.0" x="3819.0" y="10625.5"/> </glyph> <glyph class="phenotype" id="s_id_akt1_akt1_sa269_akt1_akt1_sa269" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_akt1_re80:(MAP:survival) PMID:18423201</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa269_akt1_akt1_sa269"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18423201"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="mRNA translation"/> <bbox w="80.0" h="30.0" x="12066.061" y="19800.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1512_in_sa1512" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 8683106, 18272812, 17689680, 12967644, 12223527, 25960930, 15814715, 14607900, 17016554, 12193701, 17513775, 11830590, 14764699, 21930765, 12811837, 19833085 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:MDSC</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IL15, CASCADE:IL21, CASCADE:SCF2, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>PMID:19833085</p> <p>STAT1 is activated downstream of IFNG by phosphorylation of tyrosine 701, translocates to the nucleus, binds to a regulatory DNA element termed gamma-activated sequence (GAS) and stimulates transcription of STAT1 target genes.</p> <p>PMID:17689680</p> <p>STAT1 acetilation inhibits its activity in macrophages.</p> <p>PMID:12811837</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:12193701, PMID:11830590</p> <p>CD40 expression is upregulated by STAT1 downstream of INFG</p> <p>and NF-kB downstream of TNF.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and PIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>PMID:21930765, PMID:8683106, PMID:12967644</p> <p>IFNA and IFNB act via STAT1 pathway in DC and NK cells</p> <p>PMID:25960930</p> <p>Reduced IFNa-induced STAT-1 phosphorylation in Ser727 and CXCL10 secretion in NK cells derived from PKC-t-/- mice</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1512_in_sa1512"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8683106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18272812"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17689680"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12967644"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25960930"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15814715"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14607900"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17016554"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12193701"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17513775"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11830590"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764699"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21930765"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12811837"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19833085"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT1"/> <bbox w="80.0" h="40.0" x="22915.0" y="3100.0"/> <glyph class="state variable" id="_fcc7297a-32a0-4e26-bd1f-acb6c780393b"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="22984.807" y="3135.0"/> </glyph> <glyph class="state variable" id="_c78ea7f1-518e-4b62-a387-9732bccf0feb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22910.0" y="3113.7124"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa46_ad_csa46" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>PMID:18287025</p> <p>JNK induces assosiation of Paxilin with MTOC resulted in polarization of the MTOC and cytolytic granules, and finally exocytosis of cytolytic proteins in NK.</p> <p>PMID:18802074</p> <p>TCR-induced MTOC reorientation is regulated by Fyn, Zap, Lat, SLP-76, and Erk1/2</p> <p>PMID:24655141; PMID:17006514 </p> <p>REW</p> <p>PMID:12616499</p> <p>Vav1 is required for TCR-induced polarization of the MTOC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa46_ad_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18287025"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18802074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24655141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17006514"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12616499"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MTOC"/> <bbox w="200.0" h="294.0" x="29566.0" y="7338.4375"/> <glyph class="macromolecule" id="s_id_ad_sa514_ad_sa514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PXN</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:22043013 </p> <p>Paxillin associates with the microtubule cytoskeleton and the immunological synapse of CTL through its leucine-aspartic acid domains and contributes to microtubule organizing center reorientation.</p> <p> LFA-1 or CD3 engagement alone was insufficient for paxillin recruitment because there was no paxillin accumulation at the site of CTL contact with anti-LFA-1- or anti-CD3-coated beads. In contrast, paxillin accumulation was detected when beads coated with both anti-CD3 and anti-LFA-1 were bound to CTL, suggesting that signals from both the TCR and LFA-1 are required for paxillin accumulation.</p> <p>Paxillin was shown to be phosphorylated downstream of ERK,</p> <p>paxillin was demonstrated to be a direct target of ERK phosphorylation</p> <p>PMID:29021139 </p> </body> </html> </notes> <label text="PXN"/> <bbox w="80.0" h="40.0" x="29598.5" y="7556.5625"/> <glyph class="state variable" id="_ea15f85f-2b6f-4722-8fcf-7fad2635f1a2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29593.5" y="7571.5625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa516_ad_sa516"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt:Q71U36</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt:P68363</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt:Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt:Q6PEY2</p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt:Q9NY65</p> <p>MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="29582.25" y="7511.5625"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa515_ad_sa515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBB</p> <p>HUGO:TUBB1</p> <p>HUGO:TUBB2A</p> <p>HUGO:TUBB2B</p> <p>HUGO:TUBB2C</p> <p>HUGO:TUBB3</p> <p>HUGO:TUBB4</p> <p>HUGO:TUBB4Q</p> <p>HUGO:TUBB6</p> <p>MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="Tubulin-β*"/> <bbox w="80.0" h="40.0" x="29666.0" y="7510.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa520_ad_sa520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP2"/> <bbox w="80.0" h="40.0" x="29586.0" y="7351.5625"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa519_ad_sa519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP3</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP3"/> <bbox w="80.0" h="40.0" x="29586.0" y="7391.5625"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa518_ad_sa518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP4</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP4"/> <bbox w="80.0" h="40.0" x="29586.0" y="7431.5625"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa517_ad_sa517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP6</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP6"/> <bbox w="80.0" h="40.0" x="29676.0" y="7431.5625"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa521_ad_sa521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBG1</p> <p>HUGO:TUBG2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="Tubulin-γ*"/> <bbox w="80.0" h="40.0" x="29676.0" y="7351.5625"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa522_ad_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP5</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP5"/> <bbox w="80.0" h="40.0" x="29676.0" y="7391.5625"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2692_rc_sa2692" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2692_rc_sa2692"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKAB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKAB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA_R*"/> <bbox w="70.0" h="25.0" x="20777.441" y="16291.367"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa738_in_sa738" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KLRC2"/> <bbox w="80.0" h="50.0" x="19975.0" y="1325.0"/> <glyph class="unit of information" id="_8fe6a525-3dcb-4722-bc16-b074209233fd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19992.5" y="1320.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1670_in_sa1670"> <label text="IFNA*"/> <bbox w="80.0" h="40.0" x="24830.0" y="2340.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2328_rc_sa2328" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:30413</p> </body> </html> </notes> <label text="heme"/> <bbox w="70.0" h="25.0" x="24976.56" y="16691.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa273_ce_csa273" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DNA-PK*:Ku70*:Ku80*:WRN</p> <p>References:</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa273_ce_csa273"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23082994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12202749"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNA-PK*/Ku70*/Ku80*/WRN"/> <bbox w="192.0" h="120.0" x="13203.473" y="15724.356"/> <glyph class="macromolecule" id="s_id_ce_sa1606_ce_sa1606"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, DNA-activated, catalytic polypeptide</p> <p>HUGO:PRKDC, HGNC:9413, ENTREZ:5591, UNIPROT:Q9UME3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:21376743</p> <p>PMID:21300785, PMID:21175350, PMID:20691907</p> </body> </html> </notes> <label text="DNA-PK*"/> <bbox w="80.0" h="40.0" x="13301.348" y="15732.106"/> <glyph class="state variable" id="_8b101d35-4285-4848-9373-506ff5aafce7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13296.348" y="15747.106"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1595_ce_sa1595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Werner syndrome, RecQ helicase-like</p> <p>HUGO:WRN, HGNC:12791, ENTREZ:7486, UNIPROT:Q14191</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:20691907</p> <p>For A_NHEJ pathway</p> <p> (alt_NHEJ or B_NHEJ or MMEJ)</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>, PMID:21376743, PMID:24050180, PMID:22743550</p> <p>For HR pathway</p> <p>PMID:19490890, PMID:22657828 </p> <p>For BER pathway</p> <p>PMID:17116323, PMID:18398454, PMID:16449207, PMID:15385537, PMID:18558713, PMID:23161013</p> <p>WRN in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>Inhibiting WNT kills alt_NHEJ pathway</p> <p>PMID:24036544</p> <p>PARP1 inhibits WRN</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> <p>Activation of WRN in cancers</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="WRN"/> <bbox w="80.0" h="40.0" x="13301.296" y="15776.298"/> <glyph class="state variable" id="_06613dbe-e89e-470f-87c3-ab385b9d6144"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13335.044" y="15771.298"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1603_ce_sa1603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 5 (double-strand-break rejoining)</p> <p>HUGO:XRCC5, HGNC:12833,ENTREZ:7520, UNIPROT:P13010</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, </p> <p>PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, </p> <p>PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku80*"/> <bbox w="80.0" h="40.0" x="13215.011" y="15778.279"/> <glyph class="state variable" id="_65929362-4ae1-47e1-b6dd-b89e73b70aaa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13233.442" y="15773.279"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1602_ce_sa1602"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 6</p> <p>HUGO:XRCC6, HGNC:4055, ENTREZ:2547, UNIPROT:P12956</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, </p> <p>PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku70*"/> <bbox w="80.0" h="40.0" x="13216.011" y="15733.279"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa830_ca_sa830" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa830_ca_sa830"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF3"/> <bbox w="80.0" h="40.0" x="3870.0" y="4630.0"/> </glyph> <glyph class="phenotype" id="s_id_ce_sa904_ce_sa904" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="DNA replicarion"/> <bbox w="139.0" h="32.0" x="13376.769" y="9266.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa382_wca1_wca1_sa382" compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa382_wca1_wca1_sa382"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22526.56" y="19898.0"/> <glyph class="state variable" id="_2ca41fbc-e30a-444c-aa6a-9ca85de1b942"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22572.06" y="19893.0"/> </glyph> <glyph class="state variable" id="_5fa8ca99-7ae6-461f-a2e0-16b7aa8654ed"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22564.56" y="19893.652"/> </glyph> <glyph class="state variable" id="_2a7bf2f8-c303-4f0c-8b97-e66ba27850bc"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22562.629" y="20016.0"/> </glyph> <glyph class="state variable" id="_ffb50934-749f-4a10-9ff0-1dbcc5073efb"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22512.404" y="19893.0"/> </glyph> <glyph class="state variable" id="_3ed76589-10b1-4ee9-bb56-becf21d4d071"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22511.719" y="20016.0"/> </glyph> </glyph> <glyph class="macromolecule" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa91_ce_sa91"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITCH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITCH"/> <bbox w="80.0" h="40.0" x="12666.27" y="13611.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa475_emtc_em_sa475" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa475_emtc_em_sa475"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK6"/> <bbox w="40.0" h="20.0" x="3670.0" y="14197.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa529_rc_csa529" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SLC3A2:SLC7A11</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa529_rc_csa529"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="System xc-"/> <bbox w="180.0" h="90.0" x="26129.06" y="9149.0"/> <glyph class="macromolecule" id="s_id_rc_sa5234_rc_sa5234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>solute carrier family 7 member 11</p> <p>HUGO:SLC7A11 hgnc_id:HGNC:11059 HGNC:11059 ENTREZ:23657 UNIPROT:Q9UPY5</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <label text="SLC7A11"/> <bbox w="80.0" h="50.0" x="26219.06" y="9164.0"/> <glyph class="unit of information" id="_a1b7257d-8353-41df-8ec8-192560efcd4a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26236.56" y="9159.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5233_rc_sa5233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>solute carrier family 3 member 2</p> <p>HUGO:SLC3A2 hgnc_id:HGNC:11026 HGNC:11026 ENTREZ:6520 UNIPROT:P08195</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <label text="SLC3A2"/> <bbox w="80.0" h="50.0" x="26139.06" y="9164.0"/> <glyph class="unit of information" 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<title/> </head> <body> <p>histone deacetylase 2</p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22796940</p> <p>The silencing of E-cadherin expression by hypermethylation is a common event in cancer.</p> <p>DNMTs target cytosine residues in CpG dinucleotides for methylation and have been identified in the repression of E-cadherin in normal and pathological contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that 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via a plethora of new drug, such as HDACs and DNMT inhibitors.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HDAC2"/> <bbox w="53.0" h="17.0" x="3153.5" y="14548.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2182_emtc_em_sa2182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>corepressor interacting with RBPJ, 1</p> <p>HUGO:CIR1, HGNC:24217, ENTREZ:9541, UNIPROT:Q86X95, GENECARDS:GC02M175212</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CIR1"/> <bbox w="36.0" h="19.0" x="3070.5" y="14549.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2184_emtc_em_sa2184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2007_rc_sa2007"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C9orf3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C9orf3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APO*"/> <bbox w="90.0" h="25.0" x="24744.06" y="15716.5"/> <glyph class="unit of information" id="_3a58e1f0-0854-4d85-9729-f5f7f06a8062"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24779.06" y="15711.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa241_ce_csa241" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRCA1:SMC3</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa241_ce_csa241"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11877377"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/SMC3"/> <bbox w="105.0" h="124.0" x="13937.473" y="9506.356"/> <glyph class="macromolecule" id="s_id_ce_sa1287_ce_sa1287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="13948.95" y="9520.349"/> <glyph class="state variable" id="_5dea2c6c-2afa-4805-8425-e883a23dea45"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14021.036" y="9555.349"/> </glyph> <glyph class="state variable" id="_c5acfbc9-b9d0-4b2d-814b-df9cbe6740c3"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="13988.8125" y="9515.349"/> </glyph> <glyph class="state variable" id="_cd1491da-ef07-4509-8b45-253f3f3f4cd1"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="13950.577" y="9515.349"/> </glyph> <glyph class="state variable" id="_f5def589-2f7e-464d-a55e-702edc08a8be"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="13968.702" y="9515.349"/> </glyph> <glyph class="state variable" id="_6732e049-7edd-46bb-8fd9-4c74f7a4b40a"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="13931.45" y="9535.316"/> </glyph> <glyph class="state variable" id="_4cb887bf-f87c-41a1-a4a8-89e58c5390a7"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="13933.95" y="9550.82"/> </glyph> <glyph class="state variable" id="_6d264103-dc68-470a-bea7-21c157303576"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14011.45" y="9520.588"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1288_ce_sa1288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Structural maintenance of chromosomes 3</p> <p>HUGO:SMC3, HGNC:2468, ENTREZ:9126, UNIPROT:Q9UQE7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:HR, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <label text="SMC3"/> <bbox w="80.0" h="40.0" x="13948.2" y="9569.349"/> <glyph class="state variable" id="_e08c0bbc-9cbf-44f6-a72a-150cd9c74127"> <state value="P" variable="S1083"/> <bbox w="40.0" h="10.0" x="13981.095" y="9564.349"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa245" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GTP"/> <clone/> <bbox w="25.0" h="25.0" x="16860.56" y="18947.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa125" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa125"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GTP"/> <clone/> <bbox w="25.0" h="25.0" x="14782.561" y="18134.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa197" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa197"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GTP"/> <clone/> <bbox w="25.0" h="25.0" x="16832.56" y="18454.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa29" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GTP"/> <clone/> <bbox w="25.0" h="25.0" x="15119.061" y="17859.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa158" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa158"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GTP"/> <clone/> <bbox w="25.0" h="25.0" x="16592.56" y="17814.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa159" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa245_wnc1_wnc1_sa159"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GTP"/> <clone/> <bbox w="25.0" h="25.0" x="16492.56" y="17824.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1011_rc_sa1011" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1011_rc_sa1011"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO*"/> <bbox w="80.0" h="40.0" x="26095.668" y="10742.863"/> <glyph class="state variable" id="_518b21c0-0122-4171-91a2-ea5e008859e7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26147.357" y="10737.863"/> </glyph> <glyph class="state variable" id="_20578d97-3776-44a1-88c1-3d94d9641c30"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26114.1" y="10737.863"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1190_ad_sa1190" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:22043013 </p> <p>Paxillin associates with the microtubule cytoskeleton and the immunological synapse of CTL through its leucine-aspartic acid domains and contributes to microtubule organizing center reorientation.</p> <p> LFA-1 or CD3 engagement alone was insufficient for paxillin recruitment because there was no paxillin accumulation at the site of CTL contact with anti-LFA-1- or anti-CD3-coated beads. In contrast, paxillin accumulation was detected when beads coated with both anti-CD3 and anti-LFA-1 were bound to CTL, suggesting that signals from both the TCR and LFA-1 are required for paxillin accumulation.</p> <p>Paxillin was shown to be phosphorylated downstream of ERK,</p> <p>paxillin was demonstrated to be a direct target of ERK phosphorylation</p> <p>PMID:29021139 </p> <p>Paxillin binding to the cytoplasmic domain of CD103 promotes cell adhesion and effector functions for CD8+ resident memory T cells in tumors</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1190_ad_sa1190"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PXN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22043013"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29021139"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PXN"/> <bbox w="80.0" h="40.0" x="29976.0" y="7155.0"/> <glyph class="state variable" id="_8ecde837-4de3-4d56-9bd7-96d89d2475de"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29971.0" y="7170.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca4_sa74_wca1_wca4_sa74" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="Cell cycle pathway"/> <clone/> <bbox w="80.0" h="30.0" x="23777.06" y="20971.0"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca4_sa74_wnc1_wnc4_sa39" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="Cell cycle pathway"/> <clone/> <bbox w="80.0" h="30.0" x="18303.06" y="21730.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4587_rc_sa4587" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:RCD_GENES</p> </body> </html> </notes> <label text="CyclinG1"/> <bbox w="80.0" h="40.0" x="19327.06" y="15855.87"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa49_mpk1_mpk1_csa49" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DUSP6:ERK*</p> </body> </html> </notes> <label text="DUSP6:ERK*"/> <bbox w="90.0" h="83.0" x="9536.061" y="19979.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa249_mpk1_mpk1_sa249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dual specificity phosphatase 6</p> <p>HUGO:DUSP6 HGNC:3072 ENTREZ:1848 UNIPROT:Q16828</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>DUSP6 may capture activated ERK2 dephosphorylate it and anchor the inactive kinase in the cytoplasm.</p> </body> </html> </notes> <label text="DUSP6"/> <bbox w="50.0" h="25.0" x="9550.561" y="19987.0"/> <glyph class="state variable" id="_b02a74f7-ae6c-4edc-8904-28debdcafdf0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9545.561" y="19994.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa250_mpk1_mpk1_sa250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="9558.561" y="20013.0"/> <glyph class="state variable" id="_3d2e4d06-07e6-4a98-91a2-25c0c9f62d20"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9553.561" y="20024.855"/> </glyph> <glyph class="state variable" id="_1db7b27d-e5cc-4b44-9247-4e1cee04e5b6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9553.561" y="20015.55"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa825_emtc_em_sa825" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa825_emtc_em_sa825"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAF1"/> <bbox w="99.0" h="42.0" x="6155.0" y="13264.5"/> <glyph class="state variable" id="_99f1a6ca-6d3e-486d-8327-b3b3b4b05990"> <state value="open" variable=""/> <bbox w="30.0" h="10.0" x="6189.5" y="13259.5"/> </glyph> <glyph class="state variable" id="_7d138579-6656-48e1-8015-12e8a203f579"> <state value="P" variable="S259"/> <bbox w="35.0" h="10.0" x="6137.5" y="13259.599"/> </glyph> <glyph class="state variable" id="_ad6aa8f7-7b0d-40cb-950b-c3918203fe71"> <state value="P" variable="Y340"/> <bbox w="35.0" h="10.0" x="6235.965" y="13259.5"/> </glyph> <glyph class="state variable" 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responsiveness by promoting ligand-induced TCR down-modulation.</p> <p>c-Cbl was highly expressed in thymocytes, whereas Cbl-b was preferentially expressed in mature T cells.</p> <p>In the TCR signaling pathway, c-Cbl inhibits ZAP-70 activation in thymocytes</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1126_ad_sa1126"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CBLC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12415267"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9671496"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CBLC"/> <bbox w="80.0" h="40.0" x="28506.0" y="3390.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa322_emtc_em_csa322" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN2:GSK3_beta_*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17072303</p> <p>AXIN2 acts as nucleocytoplasmic chaperon for GSK3B thus increase SNAIL1 stability.</p> <p>PMID:22745173</p> <p>Control of nuclear activity of GSK3B is AXIN2-dependent.</p> <p>Axin2 serves as a negative regulator of nuclear GSK3B activity that allows for the stabilization of nuclear Snail1 levels and activity</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa322_emtc_em_csa322"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17072303"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22745173"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN2/GSK3β*"/> <bbox w="92.0" h="97.0" x="3508.0" y="14579.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2240_emtc_em_sa2240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B, HGNC:4617, ENTREZ:2932, GENECARDS:GC03M119540, UNIPROT:P49841 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:15465828</p> <p>GSK-3b plays a critical role in cell survival by phosphorylating nuclear factor-κB (NF-κB) p65 subunit, leading to NF-κB transactivation in hepatocytes</p> <p>This phosphorylation negatively regulates basal p65 NF-kappaB activity.</p> <p>PMID:15020233</p> <p>MEK1/2 can phosphorylate tyrosine 216, which stimulates GSK3B kinase activity</p> <p>U0126, a MEK1/2 inhibitor, inhibited tyrosine phosphorylation of GSK3B, suggesting that MEK1/2 was involved in the phosphorylation of Tyr216 in GSK3B</p> <p>In vitro kinase interaction showed that GSK3B is phosphorylated by recombinant MEK1 at Y216</p> <p>PMID:16944320</p> <p>The enzymatic activity of GSK3 is enhanced by phosphorylation of tyrosine-216 in GSK3b</p> <p>GSK3 is considered to be largely a cytosolic enzyme, but it is also associated with, or internalized in, subcellular compartments such as the nucleus, mitochondria, and growth cones</p> <p>PMID:9832503</p> <p>GSK3 is predominatly cytoplasmic during G1 phase of the celle cycle, but a significant fraction enters the nucleus during S phase, promoting its ability to phosphorylate cyclin D1 in the nucleus</p> <p>Phosphorylation of cyclin D1 on a single threonine residue near the carboxyl terminus (Thr-286) positively regulates proteasomal degradation of D1</p> <p>GSK3 phosphorylates cyclin D1 specifically on Thr-286, thereby triggering rapid cyclin D1 turnover.</p> <p>PMID:14663202</p> <p>GSK3B is highly activated in nuclei and mitochondria.</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8524413</p> <p>Inactiviation of GSK-3 occurs through Akt phosphorylation of serine 9 of GSK-3b.</p> <p>This phosphorylation may be involved in later phases of neuronal apoptosis.</p> <p>Mutation of Ser9 to Ala did not affect GSK-3 -mediated phosphorylation of b-catenin, whereas mutation of Tyr216 to Phe markedly reduced the in vivo phosphorylation of b-catenin.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="GSK3β*"/> <bbox w="72.0" h="42.0" x="3517.5" y="14587.0"/> <glyph class="state variable" id="_01b58a21-8db5-4650-bb82-bdd49bc5bbeb"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="3510.0" y="14584.522"/> </glyph> <glyph class="state variable" id="_234dddb6-289e-4b98-8454-ea68867689f4"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="3581.6702" y="14582.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2239_emtc_em_sa2239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 2</p> <p>HUGO:AXIN2, HGNC:904, ENTREZ:8313, GENECARDS:GC17M063524</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="AXIN2"/> <bbox w="45.0" h="22.0" x="3528.5" y="14635.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa294_rc_csa294" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GABPA:PPARGC1A</p> </body> </html> </notes> <label text="GABPA:PGC1A"/> <bbox w="100.0" h="120.0" x="19511.56" y="16394.0"/> <glyph class="macromolecule" id="s_id_rc_sa2402_rc_sa2402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peroxisome proliferator-activated receptor gamma, coactivator 1 alpha</p> <p>HUGO:PPARGC1A HGNC:9237 ENTREZ:10891 UNIPROT:Q9UBK2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:PGC1alpha</p> </body> </html> </notes> <label text="PPARGC1A"/> <bbox w="80.0" h="40.0" x="19521.56" y="16448.0"/> <glyph class="state variable" id="_7071e4b3-d255-4b3b-9260-3582b69fc68f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19573.129" y="16443.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2403_rc_sa2403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GA binding protein transcription factor, alpha subunit 60kDa</p> <p>HUGO:GABPA HGNC:4071 ENTREZ:2551 UNIPROT:Q06546</p> 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ENTREZ:10018 UNIPROT:O43521 GENECARDS:BCL2L11 REACTOME:401534 KEGG:10018 ATLASONC:BCL2L11ID772ch2q13 WIKI:BCL2L11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19934277</p> <p>PMID:20673124</p> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521 GENECARDS:BCL2L11 REACTOME:401534 KEGG:10018 ATLASONC:BCL2L11ID772ch2q13 WIKI:BCL2L11</p> <p>Map modules:</p> <p>References:</p> <p>PMID:19934277</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="90.0" h="25.0" x="27457.06" y="21974.0"/> <glyph class="unit of information" id="_ee91d995-f0a3-4741-bc9c-5f17ca087e56"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27492.06" y="21969.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa259_shh1_shh2_sa259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR17-5P*"/> <bbox w="90.0" h="25.0" x="27457.06" y="21947.0"/> <glyph class="unit of information" id="_ea59f070-9c16-4b09-affc-1096e5e52976"> <label 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLCB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLCB4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLC*"/> <bbox w="80.0" h="40.0" x="5370.0" y="7465.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa76_ce_sa76" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa76_ce_sa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RPA2"/> <clone/> <bbox w="80.0" h="40.0" x="12641.639" y="15857.02"/> <glyph class="state variable" id="_cfb5acf9-5890-4fb1-a8fe-beaaa98dd22e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12636.639" y="15872.02"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa76_ce_sa1626" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa76_ce_sa1626"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RPA2"/> <clone/> <bbox w="80.0" h="40.0" x="12951.881" y="9710.722"/> <glyph class="state variable" id="_3f88b40f-c35a-4bfa-a296-1255989b47cf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12946.881" y="9725.722"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa13_akt1_akt2_csa13" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:p27KIP1*</p> <p>References:</p> <p>s_akt2_re43:(MAP:survival) PMID:18636226</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa13_akt1_akt2_csa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:p27KIP1*"/> <bbox w="100.0" h="120.0" x="13926.061" y="20743.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa93_akt1_akt2_sa93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="13934.561" y="20751.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa94_akt1_akt2_sa94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27 Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527 GENECARDS:CDKN1B REACTOME:198633 KEGG:1027 ATLASONC:CDKN1BID116 WIKI:CDKN1B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="13936.061" y="20793.0"/> <glyph class="state variable" id="_1abf9316-8407-43af-a5b9-119984d993ab"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13931.061" y="20820.773"/> </glyph> <glyph class="state variable" id="_48770261-fd21-43ba-b88a-49d9f1eb3edf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13970.965" y="20828.0"/> </glyph> <glyph class="state variable" id="_4adef65a-8d7e-472f-a2e9-a6d6f0dfd10f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13928.561" y="20798.3"/> </glyph> <glyph class="state variable" id="_7c97861e-589a-4c6a-a089-4374d306bd5b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13954.655" y="20788.0"/> </glyph> <glyph class="state variable" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa396_rc_sa1325"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIPK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIPK2"/> <clone/> <bbox w="80.0" h="40.0" x="21611.56" y="16614.0"/> </glyph> <glyph class="complex" id="s_id_in_csa265_in_csa265" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa265_in_csa265"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17485448"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10542212"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKK/TNIP3 complex"/> <bbox w="189.0" h="158.0" x="20680.5" y="2981.0"/> <glyph class="macromolecule" id="s_id_in_sa2020_in_sa2020"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17485448</p> <p>TNIP3 (ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <p>of downstream NFkB signaling downstream of IL10.</p> <p>PMID:22435554, PMID:15485931, PMID:21217011, PMID:15199157</p> <p>Agonist stimulation induces IKK2, a catalytic subunit of the IKK complex, to phosphorylate p105. These phosphorylations</p> <p> create a binding site for the ubiquitin E3 ligase complex SCF-bTrCP which catalyzes K48-linked polyubiquitination of p105, followed by its proteasomal</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="20695.0" y="3030.0"/> <glyph class="state variable" id="_3be3c41a-ca67-4e19-b656-31cb21cd5c72"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20690.0" y="3045.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2025_in_sa2025"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TNIP3"/> <bbox w="80.0" h="40.0" x="20782.5" y="2987.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2024_in_sa2024"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>(ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="20696.5" y="2987.0"/> <glyph class="state variable" id="_a1c3cbb0-799f-450d-9515-5f0322368044"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20771.5" y="3002.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2019_in_sa2019"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17485448</p> <p>TNIP3 (ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <p>of downstream NFkB signaling downstream of IL10.</p> <p>PMID:17237376, PMID:21807870</p> <p>Alternative pathways involeved IKKa activation by NIK. This signaling is important for DC maturation and T-cell activation (). NIK signaling is required in DCs to deliver co-stimulatory signals to CD4+ T cells</p> <p>PMID:23086447</p> <p>Alternative NFkB pathway induces via phosphorylation of IkB-specific kinase a (IKK-a) the cleavage of p100-RelB to p52-RelB, which then translocates as heterodimer into the nucleus.</p> <p>Both complete p100 degradation and p100 processing to p52 may occur in Dcs and expression of IKKa, the kinase determining the activity of noncanonical NF-kB pathway, gradually increased during DC differentiation with concomitant p100 processing to p52</p> <p>PMID:2649237</p> <p>In macrophages RELB /p52 pathway is associated with M1 polarization</p> <p>PMID:23422957</p> <p>IKKa could regulate IRF3 activity and IRF3-dependent IFNB and IL-12 production by DC. TAK1 (MAP3K7)-mediated IKKa/B activation is required for IRF3-dependent IFNB expression in DC. At the same time IKKa regulates IRF3-mediated transcription downstream of IKKe/TBK1mediated IRF3 phosphorylation. IKKa increases the association of IRF3 with the transcriptional co-activator CBP. The increased recruitment of CBP after overexpression of IKKa was also associated with increased transcription of endogenous IFNB mRNA.</p> <p>PMID:17254973</p> <p>NfkB heterodiners could be also bloked by p52 precursor, protein p100. 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rdf:about="#s_id_an_sa243_an_sa243"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF1/2*"/> <bbox w="80.0" h="40.0" x="7712.0" y="7335.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa784_ca_sa784" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa784_ca_sa784"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EMILIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EMILIN2"/> <bbox w="80.0" h="40.0" x="4930.0" y="4380.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa71_akt1_akt1_csa71" compartmentRef="s_id_akt1_akt1_ca3_akt1_akt1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:TSC2</p> <p>References:</p> <p>s_akt1_re169(MAP:survival):</p> <p>PMID:16636147</p> <p>Phosphorylation of S939 and S981 by Akt initiates binding of 14-3-3 protein to TSC2 leading to trans</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa71_akt1_akt1_csa71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16636147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:TSC2"/> <bbox w="103.0" h="127.0" x="14018.061" y="18799.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa432_akt1_akt1_sa432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="14026.942" y="18862.295"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa431_akt1_akt1_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="14026.942" y="18812.295"/> <glyph class="state variable" id="_d9e1a1df-5c3c-4a08-9652-e27fb74ade07"> <state value="P" variable="S1086"/> <bbox w="40.0" h="10.0" x="14086.942" y="18828.762"/> </glyph> <glyph class="state variable" id="_358ddd84-1bd3-4f18-b460-4b0250467ba7"> <state value="P" variable="S981"/> <bbox w="35.0" h="10.0" x="14086.024" y="18807.295"/> </glyph> <glyph class="state variable" id="_6415da34-4c5e-42c9-886a-e46ddc477242"> <state value="P" variable="T1462"/> <bbox w="40.0" h="10.0" x="14007.435" y="18807.295"/> </glyph> <glyph class="state 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa87_emtc_em_sa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZO3*"/> <bbox w="60.0" h="20.0" x="2715.5" y="15088.36"/> <glyph class="unit of information" id="_632e7f44-8e18-4c41-9826-fe0a44a100d4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2735.5" y="15083.36"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa890_rc_sa890" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:32816 KEGGCOMPOUND:C00022 CAS:127-17-3</p> </body> </html> </notes> <label text="pyruvate"/> <bbox w="70.0" h="25.0" x="18707.777" y="11226.898"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1851_in_sa1851" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10485906, 14610620, 12244147, 12223527, 24204259, 15634881, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:CSF2, CASCADE:IFNG</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Jak1 is required for Stat6 (TYR641) activation in monocytes stimulated with IL-4</p> <p>PMID:14610620</p> <p>When the type I</p> <p>or type II IL-4R is dimerized, JAKs associated with</p> <p>the receptor components phosphorylate the second,</p> <p>third, or fourth tyrosine residues of the IL-4Ra cytoplasmic domain [50]. This phosphorylation recruits</p> <p>Stat6, which is then also phosphorylated. PhosphoStat6 molecules dimerize and migrate to the nucleus to</p> <p>bind to certain promoters.</p> <p>PMID:10485906</p> <p>SOCS1 inhibits STAT6 activation downstream of IFNG and downregulates IL4 signaling pathway.</p> <p>PMID:15634881</p> <p>STAT6-deficient mice produce M1 macrophages.</p> <p>STAT6 deficiency prevents signaling through the type 2 IL-4Ralpha, thereby blocking the production of arginase and promoting the synthesis of NO in MDSC.</p> <p>PMID:12244147</p> <p>GM-CSF can activate STAT6 in murine BM-DC</p> <p>PMID:12244147, PMID:24204259</p> <p>Additionally IL4 via IL-4R type I JAK3 and STAT6 (but not IL13) upregulates production of IL12p70</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1851_in_sa1851"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10485906"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12244147"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24204259"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15634881"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT6"/> <clone/> <bbox w="80.0" h="40.0" x="23175.0" y="5310.0"/> <glyph class="state variable" id="_575d0f52-16cc-4f56-b4e6-8e615ec52682"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23170.0" y="5325.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1851_in_sa984" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10485906, 14610620, 12244147, 12223527, 24204259, 15634881, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:CSF2, CASCADE:IFNG</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Jak1 is required for Stat6 (TYR641) activation in monocytes stimulated with IL-4</p> <p>PMID:14610620</p> <p>When the type I</p> <p>or type II IL-4R is dimerized, JAKs associated with</p> <p>the receptor components phosphorylate the second,</p> <p>third, or fourth tyrosine residues of the IL-4Ra cytoplasmic domain [50]. This phosphorylation recruits</p> <p>Stat6, which is then also phosphorylated. PhosphoStat6 molecules dimerize and migrate to the nucleus to</p> <p>bind to certain promoters.</p> <p>PMID:10485906</p> <p>SOCS1 inhibits STAT6 activation downstream of IFNG and downregulates IL4 signaling pathway.</p> <p>PMID:15634881</p> <p>STAT6-deficient mice produce M1 macrophages.</p> <p>STAT6 deficiency prevents signaling through the type 2 IL-4Ralpha, thereby blocking the production of arginase and promoting the synthesis of NO in MDSC.</p> <p>PMID:12244147</p> <p>GM-CSF can activate STAT6 in murine BM-DC</p> <p>PMID:12244147, PMID:24204259</p> <p>Additionally IL4 via IL-4R type I JAK3 and STAT6 (but not IL13) upregulates production of IL12p70</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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</html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="23594.56" y="10595.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3278_rc_sa3278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 </p> <p>ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)</p> <p>HUGO:RAC2 HGNC:9802 ENTREZ:5880 UNIPROT:P15153</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27331412</p> <p>Methuosis is a caspase-independent cell death accompanied by vacuolization of macropinosomes resulting from dysregulation of macropinocytosis.</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="23588.56" y="10546.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa779_in_sa779" compartmentRef="s_id_in_ca12_in_ca12"> <label text="HVEM*"/> <bbox w="80.0" h="40.0" x="10020.0" y="6600.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1010_ad_sa1010" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:25137453; PMID:24584089 </p> <p>CD6, which is expressed on the surface of T cells, is also phosphorylated by Zap70 regardless of the presence of Lat. CD6 nucleates the assembly of a signalosome that also involves SLP-76 and probably accounts for the many TCR-induced tyrosine-phosphorylated species that remain in the absence of Lat</p> <p>CD6–SLP-76 association requires Zap70</p> <p>SLP-76 associates with CD6 in a Lat-independent manner.</p> <p>PMID:19960310 </p> <p>CD6 is presented in immunological synaps</p> <p>CD6 has been shown to co-localize with the TCR/CD3 complex in central-SMAC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2-XL*:BCL2L11</p> </body> </html> </notes> <label text="BCL2L1:BCL2L11"/> <bbox w="101.0" h="125.0" x="21708.31" y="13304.0"/> <glyph class="macromolecule" id="s_id_rc_sa1679_rc_sa1679"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>synonym:BIM</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="80.0" h="40.0" x="21717.31" y="13357.0"/> <glyph class="state variable" id="_d84ef7f6-85c3-4396-a4c7-ac08190b1606"> <state value="" variable="S58"/> <bbox w="25.0" h="10.0" x="21784.81" y="13352.216"/> </glyph> <glyph class="state variable" id="_2ac72b2e-3c9f-4cf4-a046-c0f9589920b8"> <state value="" variable="S44"/> <bbox w="25.0" h="10.0" x="21705.303" y="13352.0"/> </glyph> <glyph class="state variable" id="_c926b63e-68bb-4e22-8140-90441b98fc02"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21769.11" y="13392.0"/> </glyph> <glyph class="state variable" id="_02c89bf7-9f70-484d-bf5a-6dbfebc84a45"> <state value="" variable="T56"/> <bbox w="25.0" h="10.0" x="21744.842" y="13352.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1648_rc_sa1648"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="21718.31" y="13311.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa57_ce_csa57" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BLM:RMI1:TOP3A</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="BLM/RMI1/TOP3A"/> <bbox w="111.0" h="149.0" x="14503.473" y="17026.355"/> <glyph class="macromolecule" id="s_id_ce_sa623_ce_sa623"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>topoisomerase (DNA) III alpha</p> <p>HUGO:TOP3A, HGNC:11992, ENTREZ:7156, UNIPROT:Q13472</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="TOP3A"/> <bbox w="80.0" h="40.0" x="14512.624" y="17078.424"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa624_ce_sa624"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bloom syndrome, RecQ helicase-like</p> <p>HUGO:BLM, HGNC:1058, ENTREZ:641, UNIPROT:P54132</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>For HR pathway, PMID:22657828 </p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> <p>BLM in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>BLM inhibits A_NHEJ (alt_NHEJ):</p> <p>PMID:24089143</p> <p>PMID:24095737</p> </body> </html> </notes> <label text="BLM"/> <bbox w="80.0" h="40.0" x="14511.646" y="17037.424"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa625_ce_sa625"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RMI1, RecQ mediated genome instability 1, homolog (S. cerevisiae)</p> <p>HUGO:RMI1, HGNC:25764, ENTREZ:80010, UNIPROT:Q9H9A7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:16537486, PMID:19945966, PMID:20826342, PMID:16595695</p> </body> </html> </notes> <label text="RMI1"/> <bbox w="80.0" h="40.0" x="14513.329" y="17116.928"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa525_rc_sa525" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa789_emtc_em_sa789"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR200B"/> <bbox w="86.0" h="18.0" x="4019.0" y="16922.166"/> <glyph class="unit of information" id="_49e213a0-02f6-4971-abfa-c32292f74a84"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="4047.0" y="16917.166"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1087_ca_sa1087" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:METABOLIC References:PMID:15927447; PMID:19995913 Nox4, in contrast to other Nox proteins, produces large amounts of hydrogen peroxide constitutively. Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. Knockdown and gene transfection studies confirmed that Nox4 requires p22phox for ROS generationPMID:16179589 NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylationNox4 mediates TGFB1–induced SMalpha actin in human cardiac fibroblasts.PMID:21273445 ROS signaling by NOX4 drives fibroblast-to-myofibroblast transdifferentiation in the diseased prostatic stroma downstream of TGFB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:PMID:15927447; PMID:19995913 Nox4, in contrast to other Nox proteins, produces large amounts of hydrogen peroxide constitutively. Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. Knockdown and gene transfection studies confirmed that Nox4 requires p22phox for ROS generationPMID:16179589 NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylationNox4 mediates TGFB1–induced SMalpha actin in human cardiac fibroblasts.PMID:21273445 ROS signaling by NOX4 drives fibroblast-to-myofibroblast transdifferentiation in the diseased prostatic stroma downstream of TGFB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1087_ca_sa1087"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOX4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15927447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19995913"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16179589"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21273445"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOX4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15927447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19995913"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16179589"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21273445"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOX4"/> <bbox w="90.0" h="25.0" x="2817.9688" y="3865.0"/> <glyph class="unit of information" id="_05a18603-90b5-46d9-a04c-5b2cd9a896f8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2852.9688" y="3860.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa95_mpk1_mpk1_csa95" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GADD45*:MAP3K4</p> </body> </html> </notes> <label text="GADD45*:MAP3K4"/> <bbox w="127.0" h="84.0" x="11315.057" y="19750.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa512_mpk1_mpk1_sa512"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 4</p> <p>MEKK4</p> <p>HUGO:MAP3K4 HGNC:6856 ENTREZ:4216 UNIPROT:Q9Y6R4</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MEKK4 is a MAP3K and can activate both JNK and P38 pathways. It may be an effector for stress pathways activated by genotoxins.</p> </body> </html> </notes> <label text="MAP3K4"/> <bbox w="73.0" h="26.0" x="11344.557" y="19780.666"/> <glyph class="state variable" id="_dd3a9433-a2f9-4ea6-9e11-242ffa5b6ff4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11337.057" y="19788.666"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa511_mpk1_mpk1_sa511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth arrest and DNA-damage-inducible alpha</p> <p>DDIT1</p> <p>HUGO:GADD45A HGNC:4095 ENTREZ:1647 UNIPROT:P24522</p> <p>growth arrest and DNA-damage-inducible beta</p> <p>MYD118</p> <p>HUGO:GADD45B HGNC:4096 ENTREZ:4616 UNIPROT:O75293</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Expression of GADD45 is the culmination of a signalling pathway that requires prior expression of the tumour suppressor protein P53 which trans-activates the gadd45 gene. P53 expression is in turn driven by the activity of the ATM gene product. GADD45alpha/beta are direct MEKK4 interactors. 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It is secreted at the late stages of cellular demise and iactivates TLR4/MyD88 pathway in dendritic cells (DCs) to accelerate the processing of phagocytic cargo in the DC and to facilitate antigen presentation by DC to T cells.</p> <p>PMID:17704786</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MYD88"/> <bbox w="80.0" h="40.0" x="23795.0" y="1770.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1600_in_sa1600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IRAK2"/> <bbox w="80.0" h="40.0" x="23885.0" y="1810.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1595_in_sa1595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IRAK4"/> <bbox w="80.0" h="40.0" x="23795.0" y="1810.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1599_in_sa1599"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TIRAP"/> <bbox w="80.0" h="40.0" x="23885.0" y="1770.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1578_emtc_em_sa1578" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</extension> <label text="a5b1*_aVb3*"/> <bbox w="82.0" h="19.0" x="4651.0" y="18697.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa427_emtc_em_sa427" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa427_emtc_em_sa427"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD3"/> <bbox w="121.0" h="60.0" x="6131.0" y="16918.5"/> <glyph class="unit of information" id="_a8d85705-5fad-4fad-b9e2-2e90cb6f4514"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6181.5" y="16913.5"/> </glyph> <glyph class="state variable" id="_14323b17-c644-458a-b42f-0fc8b9551352"> <state value="" variable="S213"/> <bbox w="30.0" h="10.0" x="6116.0" y="16917.104"/> </glyph> <glyph class="state variable" id="_54c06f73-7eb2-4e05-85c4-79c4806c7743"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="6180.145" y="16973.5"/> </glyph> <glyph class="state variable" id="_3d442e4d-79e8-41fe-94d0-717f736ea8b3"> <state value="P" variable="S423"/> <bbox w="35.0" h="10.0" x="6234.5" y="16951.584"/> </glyph> <glyph class="state variable" id="_647b2af9-95fb-43d4-b2fc-7a6b471301f4"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="6237.0" y="16939.578"/> </glyph> <glyph class="state variable" id="_a9a8108f-0312-4850-b72b-8abb3f29c542"> <state value="" variable="T179"/> <bbox w="30.0" h="10.0" 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa50_wca1_wca1_csa50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19576224"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:AXIN*"/> <bbox w="110.0" h="131.0" x="21190.06" y="19062.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa467_wca1_wca1_sa467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21204.06" y="19127.0"/> <glyph class="state variable" id="_1ce48d2a-040c-4cfc-9a5f-c75f2b1bcfa1"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21197.053" y="19122.0"/> </glyph> <glyph class="state variable" id="_7d8caf25-1923-4ea4-bb60-207dd5c64a5c"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21276.56" y="19122.213"/> </glyph> <glyph class="state variable" id="_5852f8a2-1faa-4517-bf37-de27c412f381"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21191.56" y="19161.72"/> </glyph> <glyph class="state variable" id="_465b89a5-9362-4438-8517-8a3bb02e44d8"> <state value="P" variable="S222"/> <bbox w="35.0" h="10.0" x="21266.56" y="19122.213"/> </glyph> <glyph class="state variable" id="_f5b73827-d414-49de-b869-566239709ba8"> <state value="P" variable="S473"/> <bbox w="35.0" h="10.0" x="21265.941" y="19162.0"/> </glyph> <glyph class="state variable" id="_716d6535-2afb-4512-9d54-b9d50ddd5dc8"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21231.465" y="19162.0"/> </glyph> <glyph class="state variable" id="_d2c6b782-21d1-482f-878c-8580dc9961c2"> <state value="P" variable="S614"/> <bbox w="35.0" h="10.0" x="21226.465" y="19162.0"/> </glyph> <glyph class="state variable" id="_7fd1f8e4-7bfa-44d3-b993-92ee0875e1b8"> <state value="P" variable="S621"/> <bbox w="35.0" h="10.0" x="21186.56" y="19161.72"/> </glyph> <glyph class="state variable" id="_e32f8eac-6acd-4bcc-8825-5b2bb622470d"> <state value="P" variable="S82"/> <bbox w="30.0" h="10.0" x="21229.092" y="19122.0"/> </glyph> <glyph class="state variable" id="_c5277e7e-823a-4eb5-b666-ef599f292b11"> <state value="P" variable="S80"/> <bbox w="30.0" h="10.0" x="21189.553" y="19122.0"/> </glyph> <glyph class="state variable" id="_d5d745d8-da83-4553-9f24-699899a07b1f"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21270.941" y="19162.0"/> </glyph> <glyph class="state variable" id="_7a70f3fc-bdf4-4b0b-80eb-c291a86ee6f4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21199.064" y="19122.0"/> </glyph> <glyph class="state variable" id="_59aee93c-c1e8-4dca-83ee-08760336441d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21279.06" y="19122.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa468_wca1_wca1_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="21203.56" y="19079.0"/> <glyph class="state variable" id="_722e3c9b-ddc4-46de-84f8-94469c650347"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21191.553" y="19074.0"/> </glyph> <glyph class="state variable" id="_fc2de270-4efe-4318-91cc-ad2c4783d2d5"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="21186.06" y="19113.72"/> </glyph> <glyph class="state variable" id="_4c07b07c-7996-4d79-9d6f-60e9ee48d5f5"> <state value="P" variable="S1505"/> <bbox w="40.0" h="10.0" x="21262.941" y="19114.0"/> </glyph> <glyph class="state variable" id="_074785cb-f7f4-41ec-bf86-b4e7632e16b2"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="21186.553" y="19074.0"/> </glyph> <glyph class="state variable" id="_424c1f5a-1743-4efe-b96e-abd05c25b7f8"> <state value="P" variable="S1504"/> <bbox w="40.0" h="10.0" x="21263.56" y="19074.213"/> </glyph> <glyph class="state variable" id="_6aef480d-d2af-4634-b447-d3f234b4aca7"> <state value="P" variable="S1507"/> <bbox w="40.0" h="10.0" x="21223.465" y="19114.0"/> </glyph> <glyph class="state variable" id="_5878c358-9511-4098-a811-729b889a6f20"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="21266.06" y="19113.133"/> </glyph> <glyph class="state variable" id="_4e52f494-8a95-486a-b79a-6635ccb23e12"> <state value="P" variable="S1503"/> <bbox w="40.0" h="10.0" x="21223.592" y="19074.0"/> </glyph> <glyph class="state variable" id="_8f4cacbb-ebad-4e2a-85c0-af1c9fc14368"> <state value="Ub" variable="S1510"/> <bbox w="45.0" h="10.0" x="21181.06" y="19113.72"/> </glyph> <glyph class="state variable" id="_e18968c7-46cf-4a59-978a-91a272b53a0e"> <state value="Ub" variable="S1501"/> <bbox w="45.0" h="10.0" x="21181.553" y="19074.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa5_wnc1_wnc4_csa5" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN*:HIPK2:p53*</p> <p>References:</p> <p>s_wnc4_re8:(MAP:survival) PMID:15526030</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa5_wnc1_wnc4_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15526030"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN*:HIPK2:p53*"/> <bbox w="99.0" h="160.0" x="18473.06" y="21453.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa32_wnc1_wnc4_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>homeodomain interacting protein kinase 2</p> <p>"homeodomain-interacting protein kinase 2"</p> <p>HUGO:HIPK2 HGNC:14402 ENTREZ:28996 UNIPROT:Q9H2X6 GENECARDS:HIPK2 KEGG:28996 ATLASONC:HIPK2ID40824ch7q34 WIKI:HIPK2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>HIPK2 is pre-dominantly present in the nucleus</p> </body> </html> </notes> <label text="HIPK2"/> <bbox w="80.0" h="40.0" x="18484.06" y="21548.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa30_wnc1_wnc4_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>Axin acts here mainly as scaffold protein</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="18484.06" y="21462.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa31_wnc1_wnc4_sa31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein P53</p> <p>HUGO:TP53 HGNC:11998 ENTREZ:7157 UNIPROT:P04637 GENECARDS:TP53 REACTOME:69487 KEGG:7157 ATLASONC:P53ID88 WIKI:TP53</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:APOPTOSIS_ENTRY, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>P53 is a nuclear P38 target.</p> <p>PMID:20506250</p> <p>PMID:10721693</p> </body> </html> </notes> <label text="p53*"/> <bbox w="80.0" h="40.0" x="18484.06" y="21505.0"/> <glyph class="state variable" id="_5774fe45-1dbd-42d1-9002-0ee3c7c4319b"> <state value="" variable="S46"/> <bbox w="25.0" h="10.0" x="18551.56" y="21500.213"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1166_emtc_em_sa1166" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1166_emtc_em_sa1166"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA8"/> <bbox w="36.0" h="16.0" x="1143.0" y="17944.5"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa9_in_sa9" compartmentRef="s_id_in_ca49_in_ca49"> <label text="Lipid_antigen"/> <bbox w="115.0" h="43.0" x="19802.5" y="8858.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1220_ad_sa1220" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection.PMID:26013006 IL-27 stimulation of Tregs induced expression of Lag3qPCR analysis confirmed that IL-27 upregulated Tbx21, Lag3, Ccl3, Ccl4, and Il10 expressionPMID:20385810 Expression of LAG-3 and on CD8+ T cells was up-regulated by IL-10, IL-6 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection.PMID:26013006 IL-27 stimulation of Tregs induced expression of Lag3qPCR analysis confirmed that IL-27 upregulated Tbx21, Lag3, Ccl3, Ccl4, and Il10 expressionPMID:20385810 Expression of LAG-3 and on CD8+ T cells was up-regulated by IL-10, IL-6 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1220_ad_sa1220"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAG3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21623380"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26013006"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20385810"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAG3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21623380"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26013006"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20385810"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAG3"/> <bbox w="90.0" h="25.0" x="25501.0" y="2577.5"/> <glyph class="unit of information" id="_f4f2b65b-84eb-4565-b3f1-1fde2254a3ec"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25536.0" y="2572.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa210_emtc_em_csa210" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA3_8*:ZO1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:12808044</p> <p>Cx46 (GJA3) and Cx50 (GJA8) interact with ZO-1</p> <p>PMID:21965293</p> <p>Cx50 requires an intact PDZ-binding motif and ZO-1 for the formation of functional intercellular channels.</p> <p>PMID:19439604</p> <p>ZO-1 formed a clear margin around the large Cx50 plaques instead of being colocalized with the connexin staining. </p> <p>This finding suggests the involvement of ZO-1 in the composition of tight or adherens junctions around gap-junctional plaques instead of interacting with connexins directly</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa210_emtc_em_csa210"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12808044"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21965293"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19439604"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA3_8*/ZO1"/> <bbox w="105.0" h="39.0" x="1588.5" y="17713.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1374_emtc_em_sa1374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15558297</p> <p>The localization of ZO-1 at gap junctions serves in part to resolve reports of ZO-1 expression in non-epithelial cells such as fibroblasts that lack tight junctions</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1*"/> <bbox w="40.0" h="16.0" x="1651.5" y="17715.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1373_emtc_em_sa1373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GJA3_8*</p> <p>gap junction protein, alpha 3, 46kDa</p> <p>HUGO:GJA3, HGNC:4277, ENTREZ:2700 , UNIPROT:Q9Y6H8, GENECARDS:GC13M020712 </p> <p>gap junction protein, alpha 8, 50kDa</p> <p>HUGO:GJA8, HGNC:4281, ENTREZ:2703, UNIPROT:P48165, GENECARDS:GC01P147374</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:12808044</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA3_8*"/> <bbox w="60.0" h="20.0" x="1590.5" y="17715.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1828_in_sa1828" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL15"/> <bbox w="80.0" h="40.0" x="22203.75" y="5395.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa749_rc_sa749" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa749_rc_sa749"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOD1"/> <bbox w="70.0" h="25.0" x="24142.387" y="16265.82"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa10_wnc1_wnc1_csa10" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LGR5:RSPO1-4*</p> <p>References:</p> <p>s_wnc1_re18:(MAP:survival) PMID:21693646</p> <p>s_wnc1_re19(MAP:survival):</p> <p>PMID:21727895</p> <p>PMID:21909076</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa10_wnc1_wnc1_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21693646"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21727895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909076"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LGR5:RSPO1-4*"/> <bbox w="100.0" h="120.0" x="15729.061" y="17693.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa60_wnc1_wnc1_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>leucine-rich repeat containing G protein-coupled receptor 5</p> <p>"G protein-coupled receptor 49", GPR49, GPR67, "leucine-rich repeat-containing G protein-coupled receptor 5"</p> <p>HUGO:LGR5 HGNC:4504 ENTREZ:8549 UNIPROT:O75473 GENECARDS:LGR5 KEGG:8549 ATLASONC:GC_LGR5 WIKI:LGR5</p> <p>Map modules:</p> </body> </html> </notes> <label text="LGR5"/> <bbox w="80.0" h="50.0" x="15738.561" y="17733.5"/> <glyph class="unit of information" id="_70d4350e-f54f-4d5d-b187-449e8da62001"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15756.061" y="17728.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa59_wnc1_wnc1_sa59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 1</p> <p>HUGO:RSPO1 HGNC:21679 ENTREZ:284654 UNIPROT:Q2MKA7 GENECARDS:RSPO1 KEGG:284654 ATLASONC:RSPO1ID44137ch1p34 WIKI:RSPO1 </p> <p>R-spondin 2</p> <p>HUGO:RSPO2 HGNC:28583 ENTREZ:340419 UNIPROT:Q6UXX9 GENECARDS:RSPO2 KEGG:340419 ATLASONC:GC_RSPO2 WIKI:RSPO2 </p> <p>R-spondin 3</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3 </p> <p>R-spondin 4</p> <p>HUGO:RSPO4 HGNC:16175 ENTREZ:343637 UNIPROT:Q2I0M5 GENECARDS:RSPO4 KEGG:343637 WIKI:RSPO4</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO1-4*"/> <bbox w="40.0" h="30.0" x="15755.561" y="17706.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa483_rc_sa483" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa483_rc_sa483"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase3*"/> <clone/> <bbox w="80.0" h="40.0" x="24929.06" y="13259.0"/> <glyph class="unit of information" id="_25f57b18-b026-44fb-9787-1680a357e4b7"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="24944.06" y="13254.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa483_rc_sa4256" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa483_rc_sa4256"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase3*"/> <clone/> <bbox w="80.0" h="40.0" x="21394.06" y="9759.0"/> <glyph class="unit of information" id="_4af2b6c5-b146-4ddb-89a9-de9aba426ecf"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21409.06" y="9754.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa483_rc_sa5065" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa483_rc_sa5065"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase3*"/> <clone/> <bbox w="80.0" h="40.0" x="25729.06" y="12799.0"/> <glyph class="unit of information" id="_bdcefe82-bb33-4857-a926-82fd42db898b"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="25744.06" y="12794.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa483_rc_sa4117" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa483_rc_sa4117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase3*"/> <clone/> <bbox w="80.0" h="40.0" x="19437.111" y="9348.431"/> <glyph class="unit of information" id="_a18081f8-92e3-4be3-8df9-eb6535515bf4"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="19452.111" y="9343.431"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa11_akt1_akt1_csa11" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:p110*:p85*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>Class IA PI3K is a heterodimer that consists of a p85 regulatory subunit and a p110 catalytic subunit. Three genes PIK3R1 PIK3R2 and PIK3R3 encode the p85?? p85?? and p55?? isoforms of the p85 regulatory subunit respectively. The PIK3R1 gene also gives rise to two shorter isoforms p55?? and p50?? through alternative transcription-initiation sites. The class IA p85 regulatory isoforms have a common core structure consisting of a p110-binding domain (also called the inter-SH2 domain) flanked by two Src-homology 2 (SH2) domains. The two longer isoforms p85?? and p85?? also have an extended N-terminal region (dashed outline) containing an Src-homology 3 (SH3) domain and a BCR homology (BH) domain flanked by two proline-rich (P) regions.</p> <p>PMID:19568798</p> <p> PI3-Ks can be activated through several mechanisms. The SH2 domains in the p85 regulatory subunit of class Ia PI3- Ks have a high affinity for phosphorylated tyrosine residues found in activated growth factor RTKs and binding of the regulatory subunit to this motif activates PI3-KPhosphoinositide-3-kinase class I a</p> <p>s_akt1_re2(MAP:survival):</p> <p>PMID:12040186</p> <p>PMID:14585353</p> <p>s_akt1_re6(MAP:survival):</p> <p>PMID:15534002</p> <p>PMID:9779982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa11_akt1_akt1_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16847462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19568798"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PI3K)"/> <clone/> <bbox w="100.0" h="110.0" x="13816.561" y="17670.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa50_akt1_akt1_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="p110*"/> <clone/> <bbox w="80.0" h="40.0" x="13826.561" y="17720.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa49_akt1_akt1_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <clone/> <bbox w="80.0" h="40.0" x="13826.561" y="17680.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa11_akt1_akt1_csa2" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:p110*:p85*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>Class IA PI3K is a heterodimer that consists of a p85 regulatory subunit and a p110 catalytic subunit. Three genes PIK3R1 PIK3R2 and PIK3R3 encode the p85?? p85?? and p55?? isoforms of the p85 regulatory subunit respectively. The PIK3R1 gene also gives rise to two shorter isoforms p55?? and p50?? through alternative transcription-initiation sites. The class IA p85 regulatory isoforms have a common core structure consisting of a p110-binding domain (also called the inter-SH2 domain) flanked by two Src-homology 2 (SH2) domains. The two longer isoforms p85?? and p85?? also have an extended N-terminal region (dashed outline) containing an Src-homology 3 (SH3) domain and a BCR homology (BH) domain flanked by two proline-rich (P) regions.</p> <p>PMID:19568798</p> <p> PI3-Ks can be activated through several mechanisms. The SH2 domains in the p85 regulatory subunit of class Ia PI3- Ks have a high affinity for phosphorylated tyrosine residues found in activated growth factor RTKs and binding of the regulatory subunit to this motif activates PI3-KPhosphoinositide-3-kinase class I a</p> <p>s_akt1_re2(MAP:survival):</p> <p>PMID:12040186</p> <p>PMID:14585353</p> <p>s_akt1_re6(MAP:survival):</p> <p>PMID:15534002</p> <p>PMID:9779982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa11_akt1_akt1_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16847462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19568798"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PI3K)"/> <clone/> <bbox w="100.0" h="110.0" x="11881.061" y="17742.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa50_akt1_akt1_sa6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="p110*"/> <clone/> <bbox w="80.0" h="40.0" x="11891.061" y="17792.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa49_akt1_akt1_sa2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <clone/> <bbox w="80.0" h="40.0" x="11891.061" y="17752.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa242_rc_csa242" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:XAF1:XIAP</p> </body> </html> </notes> <label text="XAF1:XIAP"/> <bbox w="100.0" h="120.0" x="22571.56" y="16564.0"/> <glyph class="macromolecule" id="s_id_rc_sa1836_rc_sa1836"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="22581.258" y="16579.387"/> <glyph class="state variable" id="_a25ff786-4da5-46c1-b042-6aabe3040f90"> <state value="?" variable="S87"/> <bbox w="30.0" h="10.0" x="22623.207" y="16574.387"/> </glyph> <glyph class="state variable" id="_9cbe3e0f-43aa-4185-b22c-ee8c70cce611"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22599.69" y="16574.387"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1835_rc_sa1835"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XIAP associated factor 1</p> <p>HUGO:XAF1 HGNC:30932 ENTREZ:54739 UNIPROT:Q6GPH4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XAF1"/> <bbox w="80.0" h="40.0" x="22581.258" y="16619.387"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1382_ad_sa1382" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ICOS"/> <bbox w="90.0" h="25.0" x="30281.0" y="2687.5"/> <glyph class="unit of information" id="_56e8b960-c983-4332-a424-51b709e27d96"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="30316.0" y="2682.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2288_in_sa2288" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PDGFB"/> <bbox w="80.0" h="40.0" x="12610.0" y="7170.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1433_emtc_em_sa1433" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1433_emtc_em_sa1433"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR"/> <clone/> <bbox w="80.0" h="50.0" x="2618.75" y="18486.0"/> <glyph class="unit of information" id="_4d2fcb22-03df-42e9-88fd-113fef6ebb3d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2636.25" y="18481.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1433_ca_sa275" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1433_ca_sa275"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR"/> <clone/> <bbox w="80.0" h="50.0" x="5180.0" y="1095.0"/> <glyph class="unit of information" id="_70af95c6-9f17-4746-8ca2-298b3674626b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5197.5" y="1090.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa307_rc_csa307" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GSS</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> <p>References:</p> <p>PMID:10369661</p> <p>cristal structure of the human enzyme</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa307_rc_csa307"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10369661"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSS"/> <bbox w="102.0" h="92.0" x="26678.06" y="9538.0"/> <glyph class="macromolecule" id="s_id_rc_sa2616_rc_sa2617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutathione synthetase</p> <p>HUGO:GSS HGNC:4624 ENTREZ:2937 UNIPROT:P48637</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <label text="GSS"/> <bbox w="80.0" h="40.0" x="26693.06" y="9568.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2616_rc_sa2616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutathione synthetase</p> <p>HUGO:GSS HGNC:4624 ENTREZ:2937 UNIPROT:P48637</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <label text="GSS"/> <bbox w="80.0" h="40.0" x="26683.06" y="9558.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa279_akt1_akt1_sa279" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa279_akt1_akt1_sa279"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SGK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SGK1"/> <bbox w="80.0" h="40.0" x="12079.811" y="18369.0"/> <glyph class="state variable" id="_43e08fc4-5095-4004-9d8c-b03bc9f8fe67"> <state value="" variable="T256"/> <bbox w="30.0" h="10.0" x="12068.346" y="18364.0"/> </glyph> <glyph class="state variable" id="_4b27cf8d-dea0-4772-894c-4a340c1e2630"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12074.811" y="18403.72"/> </glyph> <glyph class="state variable" id="_07050eab-543c-42e7-bdea-aa43b70b8dee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12074.811" y="18374.3"/> </glyph> <glyph class="state variable" id="_d06ff4e8-5aae-4ef6-b77a-bb3b76292a49"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12074.811" y="18384.969"/> </glyph> <glyph class="state variable" id="_47a9db93-f764-4374-9809-8ae6fee21e98"> <state value="" variable="S442"/> <bbox w="30.0" h="10.0" x="12144.811" y="18400.28"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa30_wnc1_wnc3_sa30" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:It's not a gene but indicating a promoter binding sites_wnc3_re8:(MAP:survival) PMID:11796223 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:It's not a gene but indicating a promoter binding sites_wnc3_re8:(MAP:survival) PMID:11796223 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa30_wnc1_wnc3_sa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11796223"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11796223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="promoter binding site*"/> <bbox w="166.0" h="25.0" x="15178.061" y="21387.5"/> </glyph> <glyph class="complex" id="s_id_in_csa317_in_csa317" compartmentRef="s_id_in_ca13_in_ca13"> <label text="IL6R*:IL6:JAK1:JAK2:TYK2"/> <bbox w="185.0" h="183.0" x="9212.5" y="2988.5742"/> <glyph class="macromolecule" id="s_id_in_sa2423_in_sa2423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="9307.5" y="3098.5742"/> <glyph class="state variable" id="_3b2bfd4d-07b9-4ef9-adc3-84ad6eb04161"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9300.0" y="3113.5742"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2419_in_sa2419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL6R"/> <bbox w="80.0" h="50.0" x="9222.5" y="3042.129"/> <glyph class="unit of information" id="_fbfaacbf-83fc-4cac-9252-07ac817c2f48"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9240.0" y="3037.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2421_in_sa2421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="9307.5" y="2998.5742"/> <glyph class="state variable" id="_df54be28-4903-4aa0-be2a-b5adc62971d3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9300.0" y="3013.5742"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2420_in_sa2420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL6"/> <bbox w="80.0" h="40.0" x="9222.5" y="2997.129"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2422_in_sa2422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TYK2"/> <bbox w="80.0" h="40.0" x="9307.5" y="3048.5742"/> <glyph class="state variable" id="_7590fd10-abc1-4346-b03f-1c940ed829d9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9300.0" y="3063.5742"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2418_in_sa2418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="9222.5" y="3092.129"/> <glyph class="state variable" id="_55667632-23d0-4056-9311-afb8f371e011"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="9285.0" y="3089.67"/> </glyph> <glyph class="unit of information" id="_3143c07b-724e-44c8-b7fd-a36c07b74f16"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9240.0" y="3087.129"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa133_wnc1_wnc1_sa133" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa133_wnc1_wnc1_sa133"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERBB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HER2*"/> <bbox w="80.0" h="50.0" x="14725.061" y="18912.0"/> <glyph class="unit of information" id="_f61a72bd-6f93-4f81-93a1-d610dbe7319a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14742.561" y="18907.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3379_rc_sa3379" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3379_rc_sa3379"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TPI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TPI1"/> <bbox w="86.0" h="46.0" x="18868.56" y="10341.0"/> <glyph class="unit of information" id="_68848dee-fbbf-4775-b87e-ae436711f546"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18901.56" y="10336.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa13_an_sa13" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: CD202b, TIE-2, TIE2, VMCM1</p> <p>HGNC:11724</p> <p>PMID:11283723</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa13_an_sa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283723"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TEK"/> <bbox w="80.0" h="50.0" x="7062.0" y="5980.0"/> <glyph class="state variable" id="_2b23bab5-29bb-4127-8fa0-47f68d007f40"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7080.446" y="6025.0"/> </glyph> <glyph class="state variable" id="_7996da02-675a-4e63-9f2e-ff099bd5f571"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7137.0" y="6000.0"/> </glyph> <glyph class="state variable" id="_8c40b125-4b46-47e6-b87d-8e338e2d2dbc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7113.5684" y="6025.0"/> </glyph> <glyph class="unit of information" id="_e2422d2b-1a2c-4532-8b62-5e77eff2772e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7079.5" y="5975.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa84_emtc_em_csa84" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA8:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for a8b1: Latent TGFb, tenascin, fibronectin, osteoponitin, vitronectin, nephronectin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa84_emtc_em_csa84"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a8b1*"/> <bbox w="40.0" h="60.0" x="4571.232" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa577_emtc_em_sa577"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4571.232" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa579_emtc_em_sa579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 8</p> <p>HUGO:ITGA8 HGNC:6144 ENTREZ:8516 UNIPROT:P53708</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA8"/> <bbox w="40.0" h="20.0" x="4571.232" y="18015.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2013_emtc_em_sa2013" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2013_emtc_em_sa2013"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SHC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHC1_p66_p52*"/> <bbox w="96.0" h="28.0" x="6454.75" y="15977.5"/> <glyph class="state variable" id="_1c01f866-60c9-459c-927c-f12efd59ce1f"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="6445.341" y="15972.5"/> </glyph> <glyph class="state variable" id="_1435820d-2b75-43a5-8c4b-56e8b84be1dd"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="6540.31" y="15972.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1383_in_sa1383" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 22461508, 11875494, 18633355, 22425643, 21896641, 23390297 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:MAST_CELL, MAP:NEUTROPHIL</p> <p>MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS, MODULE:MATRIX_REMODELLING</p> <p>CASCADE:MIF, CASCADE:IL10, CASCADE:IL4, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:11875494</p> <p>MMPs plays important in the degradation and remodeling of the</p> <p>extracellular matrix at sites of inflammation. HMOX1 (HO1) mediates IL-10-induced suppression</p> <p>of MMP9 expression.</p> <p>PMID:18633355</p> <p>MMP7, MMP9 and MMP12 from macrophages drives angiogenesis</p> <p>MDSC isolated from murine tumours express higher levels of various MMPs (MMP2, MMP9, MMP13 and MMP14 than MDSC from healthy mice</p> <p>PMID:23390297, PMID:22461508</p> <p>MIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasion</p> <p>PMID:21896641</p> <p>mast cells and mast</p> <p>cell derived MMP-9 contribute to the development of</p> <p>well-differentiated prostate tumors</p> <p>PMID:22425643</p> <p>A key mediator secreted from neutrophils and involved in carcinogenesis</p> <p>is MMP-9. It was demonstrated to be involved in skin tumorigenesis,</p> <p>by regulation of oncogene-induced keratinocyte hyperproliferation</p> <p>and their progression to invasive cancer (71). In addition to its effects</p> <p>on matrix, it has been shown that MMP-9 secreted from neutrophils</p> <p>(among other bone marrow cells) prevents apoptosis of tumor cells in</p> <p>the lung (72).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1383_in_sa1383"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22461508"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11875494"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22425643"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21896641"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23390297"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP9"/> <bbox w="80.0" h="40.0" x="11280.0" y="6560.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa53_ca_csa53" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR21:SMAD7</p> <p>References:</p> <p>PMID:23784029</p> <p>mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa53_ca_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4210"/> <bbox w="100.0" h="120.0" x="3350.0" y="1170.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa480_ca_sa480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:SMAD7Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:23784029mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:23784029mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation. </body> </html> </notes> <label text="SMAD7"/> <bbox w="90.0" h="25.0" x="3355.0" y="1227.5"/> <glyph class="unit of information" id="_a0086083-3c3c-452d-96c1-413cc76a8927"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3390.0" y="1222.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa481_ca_sa481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR21Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CORE MODULE:CAF References:CASCADE:TGFBPMID:23784029mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CORE MODULE:CAF References:CASCADE:TGFBPMID:23784029mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation. </body> </html> </notes> <label text="MIR21"/> <bbox w="90.0" h="25.0" x="3355.0" y="1187.5"/> <glyph class="unit of information" id="_d4a872fe-6030-43b3-8fad-9e8567cb78e1"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3385.0" y="1182.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1308_ad_sa1308" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:27557510</p> <p>We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. 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PLC-γ2 is absolutely required to regulate degranulation of cytotoxic perforin granules.</p> <p>PMID:22683124</p> <p>PLCG2-deficient NK cells displayed a partial reduction of conjugate formationwith target tumor cells probably via regulation of Ca2+ fluxes,</p> <p>because a chelator of intracellular Ca2+ also provokes a partial reduction of conjugate formation.</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA4:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="a4b1*"/> <bbox w="40.0" h="60.0" x="4276.133" y="18485.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa594_emtc_em_sa594"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 4 (antigen CD49D, alpha 4 subunit of VLA-4 receptor)</p> <p>CD49D</p> <p>HUGO:ITGA4 HGNC:6140 ENTREZ:3676 UNIPROT:P13612</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA4"/> <bbox w="40.0" h="20.0" x="4276.133" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1469_rc_sa4581"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90B1"/> <clone/> <bbox w="80.0" h="40.0" x="20759.06" y="15859.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa281_rc_csa281" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FOXO1:PPARGC1A</p> </body> </html> </notes> <label text="FOXO1:PGC1α"/> <bbox w="100.0" h="120.0" x="22891.56" y="16634.0"/> <glyph class="macromolecule" id="s_id_rc_sa2244_rc_sa2244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="22903.56" y="16642.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2245_rc_sa2245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peroxisome proliferator-activated receptor gamma, coactivator 1 alpha</p> <p>HUGO:PPARGC1A HGNC:9237 ENTREZ:10891 UNIPROT:Q9UBK2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa37_shh1_shh1_csa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16611981"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gli2-185_SUFU_ULK3"/> <bbox w="193.0" h="148.0" x="26355.936" y="19400.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa241_shh1_shh1_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 2</p> <p>HUGO:GLI2 HGNC:4318 ENTREZ:2736 UNIPROT:P10070 GENECARDS:GLI2 KEGG:2736 ATLASONC:GC_GLI2 WIKI:GLI2</p> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Unc-51-like kinase</p> </body> </html> </notes> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="26456.686" y="19423.0"/> <glyph class="state variable" id="_6e5b3fcc-b580-46af-bcde-1dcfa0fc3b80"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26442.178" y="19418.0"/> </glyph> <glyph class="state variable" id="_ee83db59-28c7-4541-859e-baf91b7b84d5"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26521.066" y="19458.0"/> </glyph> <glyph class="state variable" id="_cac2e57a-2d02-4711-9fd1-f4c6c5461e06"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="26441.686" y="19457.72"/> </glyph> <glyph class="state variable" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4504_rc_sa4504"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C12orf44"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG101*"/> <bbox w="80.0" h="40.0" x="28299.06" y="10949.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2072_em_sa2072" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID:24335145β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID:24335145β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1775_emtc_em_sa1775"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="α-Catenin*"/> <bbox w="77.0" h="25.0" x="2065.0" y="15907.5"/> <glyph class="unit of information" id="_98296d20-ceaf-4f56-8b00-a6ce379d4791"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2093.5" y="15902.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa41_ca_csa41" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FADD:RIPK1:TNF:TNFR1*:TRADD:TRAF2</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TNF acts through two transmembrane receptors: TNF receptor 1 (TNFR1), also known as p55 or p60, and TNF receptor 2 (TNFR2), also known as p75 or p80. </p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TRADD is essential for TNFR1 signaling in MEFs</p> <p> TRADD was also required for TRIF-dependent Toll-like receptor signaling in mouse embryonic fibroblasts but not macrophages</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TNF acts through two transmembrane receptors: TNF receptor 1 (TNFR1), also known as p55 or p60, and TNF receptor 2 (TNFR2), also known as p75 or p80. </p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TRADD is essential for TNFR1 signaling in MEFs</p> <p> TRADD was also required for TRIF-dependent Toll-like receptor signaling in mouse embryonic fibroblasts but not macrophages</p> <p>PMID:8910423</p> <p>both TNFR1 and TNFR2 receptors play role in TNF signal transduction in mouse fibroblasts</p> </body> </html> </notes> <label text="TNFR1*"/> <bbox w="80.0" h="50.0" x="1495.0" y="1455.0"/> <glyph class="unit of information" id="_9e576fdc-83b0-4648-bce2-0585d39f9656"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1512.5" y="1450.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa397_ca_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A associated via death domain</p> <p>HUGO:TRADD hgnc_id:HGNC:12030 HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TRADD is an adaptor molecule important for transducing signals from TNFR1. After binding of TNF, TRADD is recruited to TNFR1 and interacts with the cytoplasmic death domain region of TNFR1 through homotypic interactions. The TNFR1-TRADD complex serves as scaffolding for the recruitment of other signaling molecules that mediate the downstream actions of TNF.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="1510.0" y="1510.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa396_ca_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor interacting serine/threonine kinase 1</p> <p>HUGO:RIPK1 hgnc_id:HGNC:10019 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TRADD is essential for TNFR1 signaling in MEFs</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="1390.0" y="1470.0"/> <glyph class="state variable" id="_542d079f-187a-47c7-8ec3-81790f0cc711"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1465.0" y="1485.4336"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa398_ca_sa398"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor associated factor 2</p> <p>HUGO:TRAF2 hgnc_id:HGNC:12032 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017, PMID:21133840, PMID:18641653</p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TNFR2 interacts with TRAF2 and TRAF1.</p> <p>PMID:24378531</p> <p>TNF via TNFR2  induces TRAF2 degradation.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="1400.0" y="1520.0"/> <glyph class="state variable" id="_ff17813f-3430-4902-95d6-e1862be22e81"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1475.0" y="1533.6672"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa399_ca_sa399"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor</p> <p>HUGO:TNF hgnc_id:HGNC:11892 HGNC:11892 ENTREZ:7124 UNIPROT:P01375</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CYTOKINES_CHEMOKINES_PRODUCTION</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:23769623 </p> <p>TNF is one of key CAF activating agents</p> <p>PMID:17916596 </p> <p>In vitro analyses</p> <p>revealed a striking induction of IL-8 expression in CAFs</p> <p>and LFs by tumor necrosis factor-alpha (TNFA). The effect</p> <p>of TNFA on CAFs is inhibited by the nuclear factor-kB</p> <p>inhibitor parthenolide.</p> <p>PMID:8910423</p> <p>both TNFR1 and TNFR2 receptors play role in TNF signal transduction in mouse fibroblasts</p> <p>Tnfr1 is essential in mediating proliferative signals</p> <p>Tnfr1 Exclusively Activates Transcription Factor NF-κB in Mouse Fibroblasts</p> <p>Ap-1 was independently activated through both Tnf receptors, probably via prolonged activation of the c-Jun kinase</p> <p>Tnfr1 and Tnfr2 Control Erk1 and Erk2 Kinase Activity</p> <p>Tnfr1 and Tnfr2 Control activation of RPS6KA1</p> <p>Raf-1, Mek-1, and Mekk responded with enhanced kinase activity to Tnf treatment in all wt, tnfr1o, and tnfr2o fibroblasts, supporting again that both Tnf receptors individually are signaling-competent. The activation factors were about 1.5-4 for Raf-1, Mekk, and Mek-1 in wt, tnfr1o, and tnfr2o fibroblasts (Table II). Interestingly, Raf-B, an isoform of c-Raf-1 reported to be mainly localized to the brain (64, 65, 66), also responded to Tnf treatment of the fibroblasts.</p> <p>PMID:11112697 </p> <p>TNF-(alpha) substantially promoted activation of pro-MMP-2 in dermal fibroblasts embedded in type-I collagen. In marked contrast, collagen or TNF-(alpha) individually had little influence on the fibroblast-mediated pro-MMP-2 activation. One well-characterized mechanism for pro-MMP-2 activation is through a membrane type matrix metalloproteinase, such as MT1-MMP. We report that TNF-(alpha) significantly induced MT1-MMP at the mRNA and protein levels when the dermal fibroblasts were grown in collagen. Although the intracellular signaling pathway regulating mt1-mmp gene expression is still obscure, both TNF-(alpha) and collagen activate the NF-(kappa)B pathway. In this report we provide three sets of evidence to support a hypothesis that activation of NF-(kappa)B is essential to induce MT1-MMP expression in fibroblasts after TNF-(alpha) exposure. First, SN50, a peptide inhibitor for NF-(kappa)B nuclear translocation, simultaneously blocked the TNF-(alpha) and collagen mediated MT1-MMP induction and pro-MMP-2 activation. </p> <p>PMID:26201938 </p> <p>The expression levels of cytokine genes, including those for IL6, CXCL8, TNF, TGFB1, and VEGFA, were higher in CAFs. T cell proliferation was suppressed more by CAFs or their supernatants than by NFs. </p> <p>PMID:20184663</p> <p>PMID:23567181</p> <p>Tumor necrosis factor (TNF) and IL6 were shown to be a potent mast cell chemoattractant. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4175_rc_sa4175"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NLRP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRP1"/> <clone/> <bbox w="80.0" h="40.0" x="20509.06" y="9329.0"/> <glyph class="unit of information" id="_ecbca409-6207-4f17-aae2-f4c1e743ce97"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20526.56" y="9324.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4175_rc_sa5395" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> </body> </html> </notes> <label text="ATP"/> <bbox w="70.0" h="25.0" x="27151.0" y="2952.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa167_shh1_shh2_sa167" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa167_shh1_shh2_sa167"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP11"/> <bbox w="70.0" h="25.0" x="26451.06" y="21892.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2884_in_sa2884" compartmentRef="s_id_in_ca13_in_ca13"> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24420.0" y="3190.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa9_wnc1_wnc4_sa9" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="MAPK pathway"/> <clone/> <bbox w="80.0" h="30.0" x="17698.06" y="20521.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa9_wnc1_wnc1_sa117" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="MAPK pathway"/> <clone/> <bbox w="80.0" h="30.0" x="15314.061" y="18395.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa9_wnc1_wnc2_sa204" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="MAPK pathway"/> <clone/> <bbox w="80.0" h="30.0" x="18247.06" y="18912.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa9_wnc1_wnc3_sa11" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="MAPK pathway"/> <clone/> <bbox w="80.0" h="30.0" x="15401.061" y="20491.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa200_emtc_em_csa200" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin11*:ITGB1:TSPAN3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Claudin 11*/ITGB1/TSPAN3"/> <bbox w="172.0" h="60.0" x="1680.0" y="15585.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1282_emtc_em_sa1282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tetraspanin 3</p> <p>HUGO:TSPAN3, HGNC:17752, ENTREZ:10099, UNIPROT:O60637, GENECARDS:GC15M077336  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:11309411</p> <p>PMID:14570575</p> <p>TSPAN3 is a tetraspanin expressed at high levels in brain.</p> <p>Claudin-11 forms a complex with TSPAN3 and ITGB1.</p> <p>This interaction potentially regulates proliferation and migration of oligodendrocytes.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TSPAN3"/> <bbox w="55.0" h="16.0" x="1778.0" y="15603.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1283_emtc_em_sa1283"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 11</p> <p>HUGO:CLDN11, HGNC:8514, ENTREZ:5010099, UNIPROT:O75508, GENECARDS:GC03P170136  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:11309411</p> <p>Claudin-11 forms a complex with TSPAN3 and ITGB1.</p> <p>This interaction potentially regulates proliferation and migration of oligodendrocytes.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin11*"/> <bbox w="70.0" h="17.0" x="1686.0" y="15609.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1284_emtc_em_sa1284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> 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<p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:27557510</p> <p>KLRG1 expression on T cells significantly increased in tumor microenvironment. KLRG1+ T cells exhibited poor proliferative capacity with decreased effector cytokine production.</p> <p>PMID:17307799</p> <p>KLRG1 contains one ITIM motif in its cytoplasmic domain, which mediates its effects through the recruitment of SHIP-1 and SHP-2 phosphatases and a tyrosine residue at position 7 in the ITIM</p> <p>KLRG1 recruits both SHIP-1 and SHP-2 but not SHP-1 in T cell hybridoma DO11</p> <p>KLRG1 ligation partially inhibits T cell activation.</p> <p> partial inhibition of IL-2 production and TGFB production</p> <p>PMID:19406987; PMID:19479342 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1</p> <p>senescence-associated receptor KLRG1</p> <p> PMID:27557510</p> <p>KLRG1 expression on T cells significantly increased in tumor microenvironment. KLRG1+ T cells exhibited poor proliferative capacity with decreased effector cytokine production. Meanwhile, KLRG1+ T cells expressed abundant pro-inflammatory cytokines and demonstrated high level of Foxp3 expression. KLRG1+ T cells showed decreased expression of miRNA-101 and higher expression of CtBP2.</p> <p>We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. 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Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal linker proteins (such as talin) . 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Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal linker proteins (such as talin) . Proteins with large extracellular domains, including protein-tyrosine phosphatase CD45 and glycoproteins CD44 and CD43, accumulate in the distal SMAC (d).</p> <p>PMID:2150484</p> <p>LFA-1 associates with talin, but not with PKC , in activated T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa614_ad_sa1250"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738502 "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2150484"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TLN1"/> <clone/> <bbox w="80.0" h="40.0" x="29386.0" y="2930.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa527_rc_csa527" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AIFM1:PAR Polymer</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>PMID:24684389</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa527_rc_csa527"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24684389"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIFM1:PAR Polymer"/> <bbox w="100.0" h="115.0" x="19849.06" y="16724.0"/> <glyph class="simple chemical" id="s_id_rc_sa5220_rc_sa5220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>poly(ADP-ribose) polymer</p> <p>PMID:24684389</p> </body> </html> </notes> <label text="PAR Polymer"/> <bbox w="95.0" h="33.0" x="19851.56" y="16777.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5221_rc_sa5221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptosis-inducing factor, mitochondrion-associated, 1</p> <p>HUGO:AIFM1 HGNC:8768 ENTREZ:9131 UNIPROT:O95831</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:RCD_GENES, MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:PCD_GENES</p> <p>References:</p> <p>synonym:AIF</p> <p>NOTE: * means carbonylated</p> <p>PMID:24684389</p> <p>There is a small pool of AIF on the outer mitochondrial membrane (cytosolic side)</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="AIFM1"/> <bbox w="80.0" h="40.0" x="19856.56" y="16740.25"/> <glyph class="state variable" id="_e9c712b8-6963-4e26-a4dc-0694d94a427c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19892.998" y="16735.25"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2527_emtc_em_sa2527" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa40_shh1_shh2_sa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXF1"/> <bbox w="70.0" h="25.0" x="26450.06" y="20591.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2629_rc_sa2629" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2629_rc_sa2629"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GCLM"/> <bbox w="80.0" h="40.0" x="26189.06" y="9534.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2232_rc_sa2232" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17627 KEGGCOMPOUND:C00032 CAS:14875-96-8</p> </body> </html> </notes> <label text="ferroheme b"/> <clone/> <bbox w="83.0" h="30.0" x="19191.885" y="13041.146"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2232_rc_sa2564" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17627 KEGGCOMPOUND:C00032 CAS:14875-96-8</p> </body> </html> </notes> <label text="ferroheme b"/> <clone/> <bbox w="70.0" h="25.0" x="20854.06" y="13206.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1338_ad_sa1338" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:AR2AMODULE:ACTIVATING_CHECKPOINTSPMID:17371980AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:AR2AMODULE:ACTIVATING_CHECKPOINTSPMID:17371980AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1338_ad_sa1338"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD40LG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17371980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD40LG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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rdf:about="#s_id_rc_sa2008_rc_sa2008"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLS2"/> <bbox w="80.0" h="40.0" x="18285.06" y="15053.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa7_ce_sa7" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>ShP:BER:M-glyc:st5:B-glyc:DNA:st5 Short patch BER:singe nucleotide replacement pathwayDNA with ssb containing replaced unligated residueNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER ----- content merged by Celldesigner to SBGN-ML translation ------ ShP:BER:M-glyc:st5:B-glyc:DNA:st5 Short patch BER:singe nucleotide replacement pathwayDNA with ssb containing replaced unligated residueNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER </body> </html> </notes> <label text="ShP_BER_M-glyc_st5_B-glyc_DNA_st5*"/> <bbox w="254.0" h="26.0" x="9030.643" y="16728.988"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1392_in_sa1392" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL1RN"/> <bbox w="70.0" h="25.0" x="11557.5" y="5345.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2381_emtc_em_sa2381" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2381_emtc_em_sa2381"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JNK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK2"/> <bbox w="38.0" h="20.0" x="5950.0" y="13634.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa103_ce_csa103" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK4_6*:CIP1_KIP1*:CyclinD*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>p53-dependentG1/S checkpoint</p> </body> </html> </notes> <label text="CDK4,6*/CIP/KIP*/CycD*"/> <bbox w="118.0" h="150.0" x="11705.473" y="9567.356"/> <glyph class="macromolecule" id="s_id_ce_sa752_ce_sa752"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, UNIPROT:P24385</p> <p>Cyclin D2</p> <p>HUGO:CCND2, HGNC:1583, ENTREZ:894, UNIPROT:P30279</p> <p>Cyclin D3</p> <p>HUGO:CCND3, HGNC:1585, ENTREZ:896, UNIPROT:P30281</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="11719.473" y="9572.856"/> <glyph class="state variable" id="_b53431ea-dab0-4ec2-8da6-565b9828322b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11714.473" y="9587.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa753_ce_sa753"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (p21, Cip1)</p> <p>HUGO:CDKN1A, HGNC:1784, ENTREZ:1026, UNIPROT:P38936</p> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B, HGNC:1785, ENTREZ:1027, UNIPROT:P46527</p> <p>cyclin-dependent kinase inhibitor 1C (p57, Kip2)</p> <p>HUGO:CDKN1C, HGNC:1786, ENTREZ:1028, UNIPROT:P49918</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CIP1_KIP1*"/> <bbox w="80.0" h="40.0" x="11720.473" y="9653.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa751_ce_sa751"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, UNIPROT:P11802</p> <p>Cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, UNIPROT:Q00534</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="11719.473" y="9613.856"/> <glyph class="state variable" id="_42db40e5-1ef6-4a73-bcc0-c681b1932a14"> <state value="" variable="T172"/> <bbox w="30.0" h="10.0" x="11704.473" y="9628.856"/> </glyph> <glyph class="state variable" id="_97de4431-edf1-4bc5-95a4-97262a302ce2"> <state value="" variable="Y14"/> <bbox w="25.0" h="10.0" x="11728.406" y="9608.856"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa19_mpk1_mpk1_csa19" compartmentRef="s_id_mpk1_mpk1_ca3_mpk1_mpk1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:GRB2:LAMTOR2:MEK*:MP1*:RAF1:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="ERK*:GRB2:LAMTOR2:MEK*:MP1*:RAF1:RAS*:RTK*:SOS*"/> <bbox w="346.0" h="153.0" x="8672.811" y="20049.5"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa109_mpk1_mpk1_sa109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf-1 murine leukemia viral oncogene homolog 1</p> <p>HUGO:RAF1 HGNC:9829 ENTREZ:5894 UNIPROT:P04049</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Active KRas (on late endosomes) recruits Raf1 (C-Raf) to elicit a MODULE:MAPK signalling pathway.</p> <p>Raf1 MEK1/2 and ERK1/2 may act in the outer side of the Golgi apparatus and attenuate proliferation.</p> </body> </html> </notes> <label text="RAF1"/> <bbox w="66.0" h="26.0" x="8748.811" y="20104.5"/> <glyph class="state variable" id="_c1c8cccc-ca67-47ad-9ddc-a77652cef6da"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8741.311" y="20112.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa104_mpk1_mpk1_sa104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="8879.311" y="20106.25"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa258_mpk1_mpk1_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="66.0" h="26.0" x="8750.227" y="20156.166"/> <glyph class="state variable" id="_0179178f-7307-41d0-b112-6d5dd0d6012b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8742.727" y="20168.697"/> </glyph> <glyph class="state variable" id="_619bb374-2ab2-46b6-bf79-a72b2c6e3ec3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8742.727" y="20159.018"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa107_mpk1_mpk1_sa107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 3</p> <p>MAP2K1IP1 "MODULE:MAPK scaffold protein 1" MAPKSP1 "mitogen-activated protein kinase kinase 1 interacting protein 1"</p> <p>HUGO:LAMTOR3 HGNC:15606 ENTREZ:8649 UNIPROT:Q9UHA4</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MP1 is localised in late endosomes by P14 forming a very stable heterodimeric complex that is required for ERK activation.</p> <p>It is required for efficient and sustained EGF-induced MEK and ERK activation (in late endosomes)</p> </body> </html> </notes> <label text="MP1*"/> <bbox w="66.0" h="26.0" x="8800.061" y="20074.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa268_mpk1_mpk1_sa268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="66.0" h="26.0" x="8749.561" y="20130.166"/> <glyph class="state variable" id="_300f77e9-0b26-4ed2-88e4-7941867f93c9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8742.061" y="20142.498"/> </glyph> <glyph class="state variable" id="_6a1d4a6a-ed80-4392-8a51-774572da6c43"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8742.061" y="20133.617"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa614_mpk1_mpk1_sa614"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="8830.936" y="20107.0"/> <glyph class="state variable" id="_ed93f4a1-9f12-42e4-ab38-dfe79fea080d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8823.436" y="20114.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa581_mpk1_mpk1_sa581"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="8880.878" y="20058.092"/> <glyph class="unit of information" id="_7179b322-2d58-4c12-b009-eaddbc4f10ca"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8883.378" y="20053.092"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa103_mpk1_mpk1_sa103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8879.311" y="20081.25"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa106_mpk1_mpk1_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 2</p> <p>"roadblock domain containing 3" ROBLD3</p> <p>HUGO:LAMTOR2 HGNC:29796 ENTREZ:28956 UNIPROT:Q9Y2Q5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>P14 is an adaptor protein responsible for the recruitment of MP1 to late endosomes.</p> <p>P14 is peripherally associated with the cytoplasmic face of late endosomes.</p> </body> </html> </notes> <label text="LAMTOR2"/> <bbox w="66.0" h="29.0" x="8831.561" y="20132.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1660_emtc_em_sa1660" 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<p>MODULE:TCR_SIGNALING</p> <p>CASCADE:AR2A, CASCADE:TCR</p> <p>PMID:1825141; PMID:2965306</p> <p>The stacks contact the plasma membrane (Stinchcombe et al., 2006), which would lead to very focused secretion of cytokines. Interleukin 2 (IL2), IL4, IL5, and interferon-g are all secreted in a polarized manner toward the target APC</p> <p>by T-helpers</p> <p>PMID:26755705</p> <p> the combinatory blockade of CD112R and TIGIT significantly promoted the secretion of cytokines, including IL-2, IL-5, IL-10, IL-13, and IFN-γ</p> <p>PMID:18758473</p> <p> A2A receptor activation inhibits IL2 secretion48 by naive CD4+ T cells thereby reducing their proliferation49 following T-cell receptor stimulation.</p> <p> PMID:12796776 </p> <p>BTLA is a lymphocyte inhibitory receptor with similarities to CTLA-4 and PD-1.</p> <p>BTLA is not expressed by naive T cells, but it is induced during activation and remains expressed on T helper type 1 (T(H)1) but not T(H)2 cells. Crosslinking BTLA with antigen receptors induces its tyrosine phosphorylation and association with the Src homology domain 2 (SH2)-containing protein tyrosine phosphatases SHP-1 and SHP-2, and attenuates production of interleukin 2 (IL-2). 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FECH"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FECH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FECH"/> <bbox w="90.0" h="25.0" x="22663.06" y="16046.5"/> <glyph class="unit of information" id="_1d3b8fbe-abfe-42f3-993e-e608ffff27ca"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22698.06" y="16041.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa20_akt1_akt1_csa20" compartmentRef="s_id_akt1_akt1_ca3_akt1_akt1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TSC1:TSC2</p> <p>References:</p> <p>s_akt1_re45(MAP:survival):</p> <p>PMID:14551205</p> <p>PMID:17693255</p> <p>s_akt1_re37(MAP:survival):</p> <p>PMID:16636147</p> <p>ANNOTATION:THE PHOSPHORYLATION STATE OF TSC2 IS NOT OFF INFLUENCE ON THE GTPase ACTIVITY OF THE PROTEIN</p> <p>s_akt1_re61:(MAP:survival) PMID:17604271</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa20_akt1_akt1_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14551205"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17693255"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16636147"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17604271"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(TSC)"/> <bbox w="101.0" h="123.0" x="13751.282" y="18630.535"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa113_akt1_akt1_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC2"/> <bbox 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variable="S1088"/> <bbox w="35.0" h="10.0" x="13823.164" y="18722.535"/> </glyph> <glyph class="state variable" id="_205ed7b8-91ff-474a-9c25-30fa7a41dc4a"> <state value="" variable="S1130"/> <bbox w="35.0" h="10.0" x="13781.685" y="18722.535"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa114_akt1_akt1_sa114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 1</p> <p>HUGO:TSC1 HGNC:12362 ENTREZ:7248 UNIPROT:Q92574 GENECARDS:TSC1 REACTOME:66499 KEGG:7248 ATLASONC:TSC1ID183 WIKI:TSC1 </p> <p>Q92574</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="13762.282" y="18638.07"/> <glyph class="state variable" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RCAN*:TAB1:TAB2:TAK1*</p> <p>References:</p> <p>s_wnc2_re52:(MAP:survival) PMID:19136967</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa33_wnc1_wnc2_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RCAN*:TAB1:TAB2:TAK1*"/> <bbox w="187.0" h="125.0" x="19040.56" y="18497.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa177_wnc1_wnc2_sa177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 GENECARDS:TAB1 REACTOME:65612 KEGG:10454 ATLASONC:GC_TAB1 WIKI:TAB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB1"/> <bbox w="80.0" h="40.0" x="19050.56" y="18548.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa178_wnc1_wnc2_sa178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>MAP3K7IP2 "mitogen-activated protein kinase kinase kinase 7 interacting protein 2"</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 GENECARDS:TAB2 REACTOME:168084 KEGG:23118 ATLASONC:GC_TAB2 WIKI:TAB2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB2"/> <bbox w="80.0" h="40.0" x="19134.56" y="18507.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa176_wnc1_wnc2_sa176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="19050.56" y="18507.5"/> <glyph class="state variable" id="_17097252-add0-45c9-9811-981d9bf67ab3"> <state value="P" variable="T187"/> <bbox w="35.0" h="10.0" x="19033.553" y="18502.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa179_wnc1_wnc2_sa179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulator of calcineurin 1</p> <p>"Down syndrome critical region gene 1", DSCR1</p> <p>HUGO:RCAN1 HGNC:3040 ENTREZ:1827 UNIPROT:P53805 GENECARDS:RCAN1 KEGG:1827 ATLASONC:GC_RCAN1 WIKI:RCAN1 </p> <p>regulator of calcineurin 2 </p> <p>HUGO:RCAN2 HGNC:3041 ENTREZ:10231 UNIPROT:Q14206 GENECARDS:RCAN2 KEGG:10231 ATLASONC:GC_RCAN2 WIKI:RCAN2 </p> <p>RCAN family member 3</p> <p>"Down syndrome critical region gene 1-like 2", DSCR1L2</p> 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa814_ca_sa814"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12181198"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12181198"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2705_rc_sa2705"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="coenzyme A"/> <clone/> <bbox w="70.0" h="25.0" x="18457.803" y="11949.125"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2705_rc_sa910" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15346 KEGGCOMPOUND:C00010</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2705_rc_sa910"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="coenzyme A"/> <clone/> <bbox w="90.0" h="24.0" x="18458.77" y="11674.023"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2705_rc_sa4279" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15346 KEGGCOMPOUND:C00010</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2705_rc_sa4279"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> 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y="15194.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa621_ca_sa621" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:INTEGRINPMID:19913614 The human alpha11 integrin promoter drives fibroblast-restricted expression in vivo and is regulated by TGF-beta1 in a Smad- and Sp1-dependent manner. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:INTEGRINPMID:19913614 The human alpha11 integrin promoter drives fibroblast-restricted expression in vivo and is regulated by TGF-beta1 in a Smad- and Sp1-dependent manner. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa621_ca_sa621"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19913614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19913614"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA11"/> <bbox w="90.0" h="25.0" x="7205.0" y="2027.5"/> <glyph class="unit of information" id="_3d153c80-7933-4d37-95ed-0338fb250a1c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="7240.0" y="2022.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1593_ce_sa1593" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1593_ce_sa1593"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:USP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="USP1"/> <bbox w="80.0" h="40.0" x="16723.436" y="16208.0"/> <glyph class="state variable" id="_8b7d287c-a2a3-4f04-9188-8c1d195c1120"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16764.518" y="16203.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2513_emtc_em_sa2513" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2513_emtc_em_sa2513"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP12*"/> <bbox w="66.0" h="18.0" x="1814.0" y="18829.0"/> <glyph class="unit of information" id="_3a4dc7d0-a678-4a15-b5e2-982e502a501c"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1822.0" y="18824.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2190_emtc_em_sa2190" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2190_emtc_em_sa2190"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HEY2"/> <bbox w="36.0" h="20.0" x="2992.0" y="14659.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa251_emtc_em_csa251" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Laminin8*:a6b1*_a6b4*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>Laminin-8 interacts with integrins.</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa251_emtc_em_csa251"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a6b1*_a6b4*/Laminin 8*"/> <bbox w="153.0" h="38.0" x="5189.0" y="18929.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1598_emtc_em_sa1598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Laminin 8*</p> <p>laminin, alpha 4</p> <p>HUGO:LAMA4 HGNC:6484 ENTREZ:3910 UNIPROT:Q16363</p> <p>laminin, beta 1</p> <p>CLM, "cutis laxa with marfanoid phenotype"</p> <p>HUGO:LAMB1 HGNC:6486 ENTREZ:3912 UNIPROT:P07942</p> <p>laminin, gamma 1</p> <p>HUGO:LAMC1 HGNC:6492 ENTREZ:3915 UNIPROT:P11047</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:10809728</p> <p>Laminin-8 contains LAMA4, LAMB1, LAMC1</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Laminin8*"/> <bbox w="72.0" h="20.0" x="5268.666" y="18930.666"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1597_emtc_em_sa1597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>a6b1*_a6b4*</p> <p>NAME:a6b1*</p> <p>ITGA6/ITGB1</p> <p>integrin, alpha 6</p> <p>HUGO:ITGA6 HGNC:6142 ENTREZ:3655 UNIPROT:P23229</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>NAME:a6b4*</p> <p>ITGA6/ITGB4</p> <p>integrin, beta 4</p> <p>HUGO:ITGB4 HGNC:6158 ENTREZ:3691 UNIPROT:P16144</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrins a3b1, a6b1, a6b4 and a7b1 engage with laminins</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="a6b1*_a6b4*"/> <bbox w="79.0" h="20.0" x="5190.0" y="18930.666"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2571_rc_sa2571" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2571_rc_sa2571"> <bqbiol:isEncodedBy> <rdf:Bag> 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XLF*"/> <bbox w="80.0" h="40.0" x="13451.307" y="16665.408"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa140_emtc_em_sa140" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa140_emtc_em_sa140"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MPP5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MPP5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PALS1*"/> <bbox w="60.0" h="20.0" x="2938.0" y="14763.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa268_emtc_em_sa268" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa268_emtc_em_sa268"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB8"/> <bbox w="40.0" h="20.0" x="5226.99" y="17647.5"/> </glyph> <glyph class="phenotype" id="s_id_ad_sa1105_ad_sa1105" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cblb, Itch, Dgka, Rnf128, Egr2, Egr3, and Gadd45b are anergy-associated molecules</p> </body> </html> </notes> <label text="T-cell_anergy"/> <bbox w="240.0" h="75.0" x="27686.0" y="7722.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa676_ca_sa676" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa676_ca_sa676"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH*"/> <bbox w="80.0" h="40.0" x="7070.0" y="3200.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2447_in_sa2447" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24418198, 12907458, 12754507, 14764699, 16713974 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSCASCADE:IL10, CASCADE:TLR2_4, CASCADE:TNF, CASCADE:CSF2References:PMID:12754507, PMID:24418198SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759)Of gp130 to suppress IL-6 signaling.PMID:12907458, PMID:16713974IL10 induces SOCS3 expression in STAT3 dependent manner.SOCS3 binds to gp130 and inhibits inflammatory IL6 signaling in macrophages. Probabaly downstream of IL10PMID:14764699SOCS1 and SOCS3 are upregulated in mature DC. SOCS2 in immature DC.SOCS1 and SOCS2 expression is induced by IL4 signaling, and SOCS3 expression is upregulated more by GM-CSF (CSF2). ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 24418198, 12907458, 12754507, 14764699, 16713974 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSCASCADE:IL10, CASCADE:TLR2_4, CASCADE:TNF, CASCADE:CSF2References:PMID:12754507, PMID:24418198SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759)Of gp130 to suppress IL-6 signaling.PMID:12907458, PMID:16713974IL10 induces SOCS3 expression in STAT3 dependent manner.SOCS3 binds to gp130 and inhibits inflammatory IL6 signaling in macrophages. Probabaly downstream of IL10PMID:14764699SOCS1 and SOCS3 are upregulated in mature DC. 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa881_rc_sa881"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKLR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKLR"/> <bbox w="80.0" h="40.0" x="19025.777" y="11082.898"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1487_in_sa1487"> <label text="trILB1"/> <bbox w="80.0" h="40.0" x="14480.0" y="1105.0"/> <glyph class="unit of information" id="_abee8d4b-a20e-4967-91d2-dfefc3ecd43a"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="14495.0" y="1100.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa111_emtc_em_csa111" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Occludin*:PARD6A:TGFB1:TGFBR1:TGFBR2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa111_emtc_em_csa111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761153"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Occludin*/PAR6*/TGFB/TGFBR1/TGFBR2"/> <bbox w="263.0" h="156.0" x="1080.5" y="14468.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa670_emtc_em_sa670"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:</p> <p>PMID:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="60.0" h="20.0" x="1119.5" y="14585.5"/> <glyph class="state variable" id="_11020376-6baa-40c3-8295-cae393c7e5bc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1174.5" y="14590.532"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa671_emtc_em_sa671"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor II (70/80kDa)</p> <p>HUGO:TGFBR2, HGNC:11773, ENTREZ:7048, UNIPROT:P37173, GENECARDS:GC03P030623</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="58.0" h="47.0" x="1119.5" y="14480.25"/> <glyph class="unit of information" id="_5252772e-76cd-4ae0-815e-2dc691b181ae"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1138.5" y="14475.25"/> </glyph> <glyph class="state variable" id="_64b3b575-9a30-4a65-837d-872aeaac6c11"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="1107.0" y="14478.072"/> </glyph> <glyph class="unit of information" id="_a86e85b2-dcf3-41ef-bb34-e72ca4444f13"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1126.0" y="14475.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa668_emtc_em_sa668"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>HUGO:PARD6A, HGNC:15943, ENTREZ:50855, GENECARDS:GC16P067696, UNIPROT:Q9NPB6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15761148</p> <p>PARD6A is a regulator of epithelial cell polarity and tight-junction assembly</p> <p>TGFBRI is localized to tight junctions where PARD6A is also found. TGFBR1 binds to PARD6A and localizes to tight junctions irrespective of TGF-beta stimulation. </p> <p>The N-terminus of PARD6A, containing a PB1 domain necessary for binding to TGFBR1</p> <p>TGFB stimulation induces redistribution of TGFBRII into tight junctions.</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation controls the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PARD6A"/> <bbox w="58.0" h="38.0" x="1189.5" y="14486.5"/> <glyph class="state variable" id="_d4824e1b-da17-4e0c-b0e7-08eec34555b3"> <state value="" variable="S345"/> <bbox w="30.0" h="10.0" x="1197.343" y="14481.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa672_emtc_em_sa672"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="50.0" h="26.0" x="1187.5" y="14555.5"/> <glyph class="unit of information" id="_3f963453-a826-43cc-962e-3b71380d064e"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1202.5" y="14550.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa673_emtc_em_sa673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="56.0" h="48.0" x="1120.5" y="14535.5"/> <glyph class="unit of information" id="_32909d66-ebd8-4c58-9ece-a399dd9772f9"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1138.5" y="14530.5"/> </glyph> <glyph class="state variable" id="_e0ba21f3-a0d2-4c82-b6a8-0e06b0861fd5"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="1108.0" y="14531.616"/> </glyph> <glyph class="state variable" id="_2748a9a6-1470-40cb-9871-b340c25367a3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1171.5" y="14530.758"/> </glyph> <glyph class="unit of information" id="_c0ff61ec-dc62-4d08-8900-1d9469d3775f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1126.0" y="14530.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1368_ad_sa1368" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:23620508</p> <p>LAT (linker for activation of T cells) is a scaffold protein that assembles key effectors of T cell activation, such as SLP-76, PLCγ1, Grb2 and others. After its phosphorylation by ZAP70 and Lck, LAT recruits many other signaling proteins to form protein microclusters that are distinct from TCR microclusters</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:25137453; PMID:16102570</p> <p>LAT as a signaling hub in TCR signaling</p> <p>Subsequent biochemical studies helped define the binding partners of phosphorylated LAT molecules and showed that in T cells most of the signalling activity of LAT is funnelled through the four COOH‐terminal tyrosine residues found at positions 136, 175, 195, and 235 of the mouse LAT sequence (Figure 1 ; Figure 2) (Lin 2001; Paz 2001; Zhang 2000 ; Zhu 2003). After TCR‐induced phosphorylation, these four tyrosines manifest some specialization in the SH2‐domain‐containing proteins they recruit. For instance, mutation of tyrosine (Y) 136 primarily eliminates binding of phospholipase C‐γ1 (PLC‐γ1), whereas the simultaneous mutation of Y175 and Y195, or of Y175, Y195, and Y235 results in loss of binding of the Gads and Grb2/Grap adaptors, respectively</p> <p>Gads interacts constitutively with the adaptor SLP‐76, thereby recruiting it to LAT, together with its constellation of associated molecules (Vav, Nck, Itk, adhesion and degranulation promoting adaptor protein (ADAP)). SLP‐76 contributes to PLC‐γ1 activation by stabilizing the LAT‐PLC‐γ1 association and by bringing the Tec family PTK Itk in the vicinity of its PLC‐γ1‐substrate</p> <p>In addition to PLC‐γ1, another major effector molecule functioning downstream of LAT is the Ras GTPase, whose activation is defective in both Lat‐ and Slp‐76‐deficient T cells. In T cells, the functional coupling between LAT and Ras occurs mainly through an SLP‐76‐PLC‐γ1‐RasGRP1 pathway, and secondarily via a Grb2‐Sos axis</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:14764585 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>pathway. In Vav1-deficient cells there is a failure to form a LAT-Grb2-Sos complex following TCR stimulation, probably because of reduced phosphorylation of key tyrosine residues on LAT. This in turn may contribute to the profound defect in TCR-induced Ras and ERK activation.</p> <p>PMID:19494291</p> <p> when either CD2 or CD48 were lacking from the T cell, there was reduced linker for activation of T cells (LAT) recruitment to the TCR, LAT phosphorylation, calcium flux, and IL-2 production. CD2 was required for CD48 to associate with the TCR and CD3, and CD48 was required for LAT association with the TCR.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1368_ad_sa1368"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAT"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23620508"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10811803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25137453"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16102570"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12640133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19494291"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAT"/> <clone/> <bbox w="80.0" h="40.0" x="28726.0" y="3440.0"/> <glyph class="state variable" id="_80ce5720-e64c-422e-a665-7d5607083c19"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28721.0" y="3455.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1368_ad_sa679" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:23620508</p> <p>LAT (linker for activation of T cells) is a scaffold protein that assembles key effectors of T cell activation, such as SLP-76, PLCγ1, Grb2 and others. After its phosphorylation by ZAP70 and Lck, LAT recruits many other signaling proteins to form protein microclusters that are distinct from TCR microclusters</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:25137453; PMID:16102570</p> <p>LAT as a signaling hub in TCR signaling</p> <p>Subsequent biochemical studies helped define the binding partners of phosphorylated LAT molecules and showed that in T cells most of the signalling activity of LAT is funnelled through the four COOH‐terminal tyrosine residues found at positions 136, 175, 195, and 235 of the mouse LAT sequence (Figure 1 ; Figure 2) (Lin 2001; Paz 2001; Zhang 2000 ; Zhu 2003). After TCR‐induced phosphorylation, these four tyrosines manifest some specialization in the SH2‐domain‐containing proteins they recruit. For instance, mutation of tyrosine (Y) 136 primarily eliminates binding of phospholipase C‐γ1 (PLC‐γ1), whereas the simultaneous mutation of Y175 and Y195, or of Y175, Y195, and Y235 results in loss of binding of the Gads and Grb2/Grap adaptors, respectively</p> <p>Gads interacts constitutively with the adaptor SLP‐76, thereby recruiting it to LAT, together with its constellation of associated molecules (Vav, Nck, Itk, adhesion and degranulation promoting adaptor protein (ADAP)). SLP‐76 contributes to PLC‐γ1 activation by stabilizing the LAT‐PLC‐γ1 association and by bringing the Tec family PTK Itk in the vicinity of its PLC‐γ1‐substrate</p> <p>In addition to PLC‐γ1, another major effector molecule functioning downstream of LAT is the Ras GTPase, whose activation is defective in both Lat‐ and Slp‐76‐deficient T cells. In T cells, the functional coupling between LAT and Ras occurs mainly through an SLP‐76‐PLC‐γ1‐RasGRP1 pathway, and secondarily via a Grb2‐Sos axis</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:14764585 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>pathway. In Vav1-deficient cells there is a failure to form a LAT-Grb2-Sos complex following TCR stimulation, probably because of reduced phosphorylation of key tyrosine residues on LAT. This in turn may contribute to the profound defect in TCR-induced Ras and ERK activation.</p> <p>PMID:19494291</p> <p> when either CD2 or CD48 were lacking from the T cell, there was reduced linker for activation of T cells (LAT) recruitment to the TCR, LAT phosphorylation, calcium flux, and IL-2 production. 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id="s_id_em_csa331_em_csa331" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin14*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2508"/> <bbox w="98.0" h="48.0" x="1056.0" y="15697.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1218_emtc_em_sa1218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claudin 14</p> <p>HUGO:CLDN14, HGNC:2035, ENTREZ:23562, UNIPROT:O95500, GENECARDS:GC21M037832 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> 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rdf:resource="urn:miriam:hgnc.symbol:ATP5A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP5A1"/> <bbox w="70.0" h="25.0" x="20602.56" y="16306.25"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa276_rc_sa276" compartmentRef="s_id_rc_ca4_rc_ca2"> <label text="rc_s1765"/> <bbox w="30.0" h="30.0" x="18148.31" y="13769.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa279_emtc_em_sa279" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa279_emtc_em_sa279"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA10"/> <bbox w="60.0" h="20.0" x="4507.48" y="17722.5"/> <glyph class="unit of information" id="_409139ae-16b7-4abb-804c-7d7e73945209"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4527.48" y="17717.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa105_mpk1_mpk1_csa105" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATF2:JUN</p> </body> </html> </notes> <label text="(AP-1*)"/> <bbox w="101.0" h="84.0" x="9151.057" y="20585.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa541_mpk1_mpk1_sa541"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="50.0" h="25.0" x="9178.488" y="20595.0"/> <glyph class="state variable" id="_4c0a970a-3f73-426c-8fe4-e8cf3284a5b8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9170.988" y="20602.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa542_mpk1_mpk1_sa542"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>activating transcription factor 2</p> <p>"cAMP responsive element binding protein 2" CREB2</p> <p>HUGO:ATF2 HGNC:784 ENTREZ:1386 UNIPROT:P15336</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>ATF2 is a nuclear P38 target.</p> <p>ATF2 is a nuclear JNK target.</p> </body> </html> </notes> <label text="ATF2"/> <bbox w="50.0" h="25.0" x="9178.488" y="20619.0"/> <glyph class="state variable" id="_837adcf7-172e-4746-81eb-2a6cc6e61167"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9170.988" y="20626.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1143_ad_sa1143" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:20828560</p> <p>In T cells, a dimer of the TCR interacting molecule (TRIM) is also part of the receptor complex (Fig. 1a). However, it is not known what percentage of TCRs contain TRIM. TRIM-deficient mice produce a functional, surface-expressed TCR, demonstrating that TRIM is dispensable for a functional TCR in vivo</p> <p> PMID:9687533 </p> <p>TRAT1 (TRIM)after T cell activation, TRIM becomes rapidly phosphorylated on tyrosine residues and then associates with the 85-kD regulatory subunit of PI3-kinase via an YxxM motif. Thus, TRIM represents a TCR-associated transmembrane adaptor protein which is likely involved in targeting of intracellular signaling proteins to the plasma membrane after triggering of the TCR.</p> <p>TRIM becomes tyrosine phosphorylated by lck and fyn but not by ZAP70. In addition, concomitant expression of lck and ZAP70 does not induce higher levels of TRIM tyrosine phosphorylation than expression of lck alone. Also, coexpression of TRIM and Syk in COS cells did not result in tyrosine phosphorylation of TRIM (not shown). These data indicate that TRIM could represent a protein that is preferentially phosphorylated by tyrosine kinases of the src family. To further substantiate this assumption, TCR-mediated tyrosine phosphorylation of TRIM was analyzed in wild-type Jurkat cells and in a Jurkat variant lacking expression of both ZAP70 and Syk tyrosine kinases (P116 cells [12]). As shown in Fig. ​Fig.1010 C, TRIM becomes strongly tyrosine phosphorylated in P116 cells after engagement of the TCR or upon Pervanadate stimulation. In addition, preincubation of P116 cells with the recently described inhibitor for src-kinases, PP1 (15), completely abrogates TCR-mediated tyrosine phosphorylation of TRIM. Thus, tyrosine phosphorylation of TRIM can occur independently of expression of members of the Syk family PTKs and can be prevented by an inhibitor with a proposed specificity for src-kinases.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1143_ad_sa1143"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20828560"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9687533"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAT1"/> <bbox w="80.0" h="40.0" x="28636.0" y="2855.0"/> <glyph class="state variable" id="_6d6d95d1-1401-45ba-ba95-7fcc67659d85"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28631.0" y="2870.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1128_ca_sa1128" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:27833036</p> <p>CAFs secrete large amounts of ketone bodies which are then re-utilized by tumor cells for anabolic metabolism or OXPHOS like lactat</p> <p>PMID:23082722</p> <p>Coculture with fibroblasts overexpressing BDH1 or HMGCS2 increases the cancer cell </p> <p>population. Probably via keton bodies production.</p> <p>PMID:21109197 </p> <p>SIRT3 Deacetylates Mitochondrial 3-Hydroxy-3-Methylglutaryl CoA Synthase 2 and Regulates Ketone Body Production (in vitro data)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1128_ca_sa1128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HMGCS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27833036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23082722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21109197"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HMGCS2"/> <bbox w="80.0" h="40.0" x="3210.0" y="4690.0"/> <glyph class="state variable" id="_15d546a1-fc0a-441f-aade-d3cbad4d4566"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="3200.0" y="4705.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa115_ca_sa115" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS MODULE:MOTILITY References:PMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS MODULE:MOTILITY References:PMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa115_ca_sa115"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21674557"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21674557"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACTG2"/> <bbox w="90.0" h="25.0" x="6095.0" y="3827.5"/> <glyph class="unit of information" id="_97f36661-bcdd-4145-b2ea-f1d50d02211a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6130.0" y="3822.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa19_ad_sa19" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:27557510</p> <p>We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts </p> <p>KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa19_ad_sa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL6"/> <bbox w="80.0" h="40.0" x="26946.0" y="7795.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa230_ad_sa230" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22285893</p> <p>PMID:12913096 </p> <p>Identification of PVR (CD155) and Nectin-2 (CD112) as cell surface ligands for the human DNAM-1 (CD226) activating molecule(NK model).</p> <p>PMID:19098271</p> <p>The ligands which are able to trigger CD226-mediated cytotoxicity are two necl and nectin ligands which are CD155 (necl-5) and CD112 (PVRL2, nectin-2), respectively . These ligands have frequently been found to be upregulated on tumour cells. Interestingly, expression of CD155 and CD112 is reportedly regulated through the DNA damage response pathway in response to chemotherapy (NK model).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa230_ad_sa230"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PVR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22285893"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12913096"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19098271"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PVR"/> <bbox w="80.0" h="40.0" x="25196.0" y="2180.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa11_wca1_wca4_csa11" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD4:MIR493</p> <p>References:</p> <p>s_wca4_re27:(MAP:survival) PMID:22833265</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa11_wca1_wca4_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22833265"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD4:MIR493"/> <bbox w="96.0" h="82.0" x="23825.06" y="21461.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa54_wca1_wca4_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 4</p> <p>EVR1 "exudative vitreoretinopathy 1" "frizzled (Drosophila) homolog 4" "frizzled 4 seven transmembrane spanning receptor" "frizzled homolog 4 (Drosophila)"</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>frizzled family receptor 4</p> <p>EVR1 "exudative vitreoretinopathy 1" "frizzled (Drosophila) homolog 4" "frizzled 4 seven transmembrane spanning receptor" "frizzled homolog 4 (Drosophila)"</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4</p> <p>Map modules:</p> </body> </html> </notes> <label text="FZD4"/> <bbox w="90.0" h="25.0" x="23827.06" y="21473.5"/> <glyph class="unit of information" id="_86c6eb86-5a4d-4539-bb1d-4146ec2ea4f3"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23862.06" y="21468.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa55_wca1_wca4_sa55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 493</p> <p>MIRN493</p> <p>HUGO:MIR493 HGNC:32082 ENTREZ:574450 GENECARDS:MIR493 KEGG:574450 ATLASONC:GC_MIR493 WIKI:MIR493</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>microRNA 493</p> <p>MIRN493</p> <p>HUGO:MIR493 HGNC:32082 ENTREZ:574450 GENECARDS:MIR493 KEGG:574450 ATLASONC:GC_MIR493 WIKI:MIR493</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR493"/> <bbox w="90.0" h="25.0" x="23827.06" y="21500.5"/> <glyph class="unit of information" id="_19a01192-f35b-4f2f-8a87-5710243ad10c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23857.06" y="21495.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3997_rc_sa3997" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3997_rc_sa3997"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FASLG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25609.06" y="9089.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2445_in_sa2445" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24418198, 12754507 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:TLR2_4, CASCADE:IL6, CASCADE:TNF, CASCADE:CSF2</p> <p>References:</p> <p>PMID:12754507, PMID:24418198</p> <p>SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759)</p> <p>Of gp130 to suppress IL-6 signaling.</p> <p>PMID:12754507</p> <p>IL-6 induces an anti-inflammatory response in the absence of SOCS3 in macrophages.</p> <p>Whereas interleukin-6 (IL-6) is a proinflammatory cytokine, IL-10 is an anti-inflammatory cytokine. Although signal transducer and activator of transcription 3 (STAT3) is essential for the function of both IL-6 and IL-10, it is unclear how these two cytokines have such opposing functions. Here we show that suppressor of cytokine signaling 3 (SOCS3) is a key regulator of the divergent action of these two cytokines. In macrophages lacking the Socs3 gene or carrying a mutation of the SOCS3-binding site in gp130, the lipopolysaccharide-induced production of tumor necrosis factor (TNF) and IL-12 is suppressed by both IL-10 and IL-6. SOCS3 specifically prevents activation of STAT3 by IL-6 but not IL-10. Taken together, these data indicate that SOCS3 selectively blocks signaling by IL-6, thereby preventing its ability to inhibit LPS signaling.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2445_in_sa2445"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24418198"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12754507"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOCS3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOCS3"/> <bbox w="80.0" h="40.0" x="22855.0" y="2420.0"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa352_mo_sa352" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Proliferation"/> <clone/> <bbox w="80.0" h="30.0" x="2899.0" y="9417.0"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa352_mo_sa19" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Proliferation"/> <clone/> <bbox w="93.0" h="39.0" x="3355.0" y="9539.0"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa352_emtc_em_sa47" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Proliferation"/> <clone/> <bbox w="100.0" h="20.0" x="2729.0" y="13615.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa482_ad_sa482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa482_ad_sa482"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMH"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMH"/> <clone/> <bbox w="80.0" h="40.0" x="28536.0" y="8615.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa482_in_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa482_in_sa314"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMH"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMH"/> <clone/> <bbox w="80.0" h="40.0" x="16700.0" y="8210.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1043_ca_sa1043" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>PMID:26302407</p> <p>CSL (RBPJ) as a common repressor of fibroblast senescence and CAF activation</p> <p>CSL may affect p53 activity through physical interaction. </p> <p> Levels of CSL, p53 and CDKN1A expression were all significantly decreased in lesion-adjacent stroma versus distant unaffected skin</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1043_ca_sa1043"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RBPJ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26302407"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RBPJ"/> <bbox w="80.0" h="40.0" x="2520.0" y="2620.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1815_in_sa1815" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL2RA"/> <bbox w="90.0" h="25.0" x="23000.0" y="4657.5"/> <glyph class="unit of information" id="_0aa9456d-fb0e-494f-8622-a9d337186c11"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23035.0" y="4652.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2632_in_sa2632" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LTB"/> <bbox w="90.0" h="25.0" x="15730.0" y="7412.5"/> <glyph class="unit of information" id="_afa841b9-c797-4b61-aaf6-df5047bf36f6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15765.0" y="7407.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2007_in_sa2007" compartmentRef="s_id_in_ca12_in_ca12"> <label text="FOS"/> <bbox w="80.0" h="40.0" x="10990.0" y="4640.625"/> <glyph class="state variable" id="_b312fb68-0c10-4018-8410-b68b19b1bd66"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10982.5" y="4655.625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2857_in_sa2857" compartmentRef="s_id_in_ca47_in_ca47"> <label text="NKp46*"/> <bbox w="80.0" h="50.0" x="9353.75" y="267.5"/> <glyph class="unit of information" id="_a42807e7-2520-4ecb-972a-5946552b9dce"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9371.25" y="262.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa1_te_csa1" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:shelterin_complex</p> <p>ALT_NAME:POT1/RAP1A/Telomeric_DNA/TERF1/TERF2/TINF2/TPP1</p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN</p> <p>Modules_end</p> <p>References:</p> <p>PMID:18680434, PMID;16166375, PMID:19965504, PMID:18828880</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa1_te_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18680434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19965504"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18828880"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="shelterin_complex"/> <bbox w="330.0" h="200.0" x="2790.06" y="21315.0"/> <glyph class="macromolecule" id="s_id_te_sa15_te_sa15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TERF1 (TRF1-)interacting nuclear factor 2</p> <p>HUGO:TINF2, HGNC:11824, ENTREZ:26277, UNIPROT:Q9BSI4, GENECARDS:TINF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of TINF2</p> <p>PMID:10581025</p> </body> </html> </notes> <label text="TINF2"/> <bbox w="80.0" h="40.0" x="2920.06" y="21335.0"/> <glyph class="state variable" id="_8bfba654-adbc-46a3-a0c9-9598496b5790"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2915.06" y="21349.969"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa17_te_sa17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protection of telomere 1</p> <p>HUGO:POT1, HGNC:17284, ENTREZ:25913, UNIPROT:Q9NUX5, GENECARDS:POT1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of POT1</p> <p>PMID:11349150</p> </body> </html> </notes> <label text="POT1"/> <bbox w="80.0" h="40.0" x="2800.06" y="21425.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa16_te_sa16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tripeptidyl peptidase I</p> <p>HUGO:TPP1, HGNC:2073, ENTREZ:1200, UNIPROT:O14773, GENECARDS:TPP1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504</p> <p>Identification of TPP1</p> <p>PMID:15231715</p> </body> </html> </notes> <label text="TPP1"/> <bbox w="80.0" h="40.0" x="2800.06" y="21375.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa14_te_sa14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAP1A, member of RAS oncogene family</p> <p>HUGO:RAP1A, HGNC:9855, ENTREZ:5906, UNIPROT:P62834, GENECARDS:RAP1A </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of RAP1A</p> <p>PMID:10850490</p> </body> </html> </notes> <label text="RAP1A"/> <bbox w="80.0" h="40.0" x="3010.06" y="21465.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa13_te_sa13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor 2</p> <p>HUGO:TERF2, HGNC:11728, ENTREZ:7014, UNIPROT:Q15554, GENECARDS:TERF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF2</p> <p>PMID:9326951</p> </body> </html> </notes> <label text="TERF2"/> <bbox w="86.0" h="46.0" x="3007.06" y="21412.0"/> <glyph class="unit of information" id="_9066db5c-300f-436c-8cbe-1f9e378f8f50"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3040.06" y="21407.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa29_te_sa29"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor (NIMA-interacting) 1</p> <p>HUGO:TERF1, HGNC:11728, ENTREZ:7013, UNIPROT:P54274, GENECARDS:TERF1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF1</p> <p>PMID:7502076</p> </body> </html> </notes> <label text="TERF1*"/> <bbox w="86.0" h="46.0" x="2897.06" y="21382.0"/> <glyph class="unit of information" id="_9b0e433a-bfeb-4805-879c-fe62a2702e22"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2930.06" y="21377.0"/> </glyph> <glyph class="state variable" id="_04398110-5466-40ee-a204-fc4e3a800834"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2892.06" y="21400.0"/> </glyph> <glyph class="state variable" id="_a2ecd15c-aecd-4e27-8fec-492e1da00029"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2978.06" y="21400.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa18_te_sa18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 ----- content merged by Celldesigner to SBGN-ML translation ------ Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 </body> </html> </notes> <label text="Telomeric_DNA*"/> <bbox w="115.0" h="23.0" x="2887.56" y="21434.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa106_wnc1_wnc4_sa106" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa106_wnc1_wnc4_sa106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IQGAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IQGAP1"/> <bbox w="80.0" h="40.0" x="18581.06" y="20772.0"/> </glyph> <glyph class="complex" id="s_id_in_csa113_in_csa113" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa113_in_csa113"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7650486"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10089876"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9973469"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1823"/> <bbox w="180.0" h="140.0" x="14310.0" y="4320.0"/> <glyph class="simple chemical" id="s_id_in_sa718_in_sa718"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="14437.5" y="4397.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa719_in_sa719"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="14410.0" y="4340.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa721_in_sa721"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="14320.0" y="4390.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa720_in_sa720"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="14320.0" y="4340.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2089_em_sa2089" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:16556862</p> <p>ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groups</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2089_em_sa2089"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP7"/> <clone/> <bbox w="50.0" h="23.0" x="2600.0" y="17362.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2089_ca_sa957" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:16556862</p> <p>ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groups</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2089_ca_sa957"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP7"/> <clone/> <bbox w="80.0" h="40.0" x="5180.0" y="4780.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2089_mo_sa198" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:16556862</p> <p>ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groups</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2089_mo_sa198"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP7"/> <clone/> <bbox w="80.0" h="40.0" x="4764.0" y="11398.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa352_wnc1_wnc1_sa352" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa352_wnc1_wnc1_sa352"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRICKLE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16568.31" y="18950.0"/> <glyph class="state variable" id="_2907bd0a-aa11-478c-baae-ac9e0dfd005c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16640.81" y="18945.0"/> </glyph> <glyph class="state variable" id="_d18567a5-b507-4752-aa34-ad0ab4bcea10"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16563.314" y="18945.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2262_emtc_em_sa2262" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1,2-Diacyl-sn-glycerol;</p> <p>CAS:N/A, PUBCHEM:3914, CHEBI:17815, KEGGCOMPOUND:C00641</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="DAG"/> <clone/> <bbox w="31.0" h="23.0" x="5201.0" y="13395.0"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2262_ca_sa1018" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1,2-Diacyl-sn-glycerol;</p> <p>CAS:N/A, PUBCHEM:3914, CHEBI:17815, KEGGCOMPOUND:C00641</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="DAG"/> <clone/> <bbox w="70.0" h="25.0" x="5175.0" y="2027.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa353_rc_csa353" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CYBA:FAD:NOX*:NOXA*:NOXO*:RAC1_2*:heme</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="NADPH oxidase"/> <bbox w="345.0" h="105.0" x="23946.06" y="10539.0"/> <glyph class="simple chemical" id="s_id_rc_sa3285_rc_sa3285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="heme"/> <bbox w="70.0" h="25.0" x="24121.06" y="10551.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3289_rc_sa3289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="24041.06" y="10551.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3286_rc_sa3286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 </p> <p>ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)</p> <p>HUGO:RAC2 HGNC:9802 ENTREZ:5880 UNIPROT:P15153</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27331412</p> <p>Methuosis is a caspase-independent cell death accompanied by vacuolization of macropinosomes resulting from dysregulation of macropinocytosis.</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="24078.56" y="10581.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3283_rc_sa3283"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADPH oxidase 1</p> <p>HUGO:NOX1 HGNC:7889 ENTREZ:27035 UNIPROT:Q9Y5S8 </p> <p>cytochrome b-245, beta polypeptide</p> <p>HUGO:CYBB HGNC:2578 ENTREZ:1536 UNIPROT:P04839 </p> <p>NADPH oxidase 3</p> <p>HUGO:NOX3 HGNC:7890 ENTREZ:50508 UNIPROT:Q9HBY0 </p> <p>NADPH oxidase 4</p> <p>HUGO:NOX4 HGNC:7891 ENTREZ:50507 UNIPROT:Q9NPH5 </p> <p>NADPH oxidase, EF-hand calcium binding domain 5</p> <p>HUGO:NOX5 HGNC:14874 ENTREZ:79400 UNIPROT:Q96PH1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="NOX*"/> <bbox w="80.0" h="40.0" x="24196.06" y="10544.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3284_rc_sa3284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome b-245, alpha polypeptide</p> <p>HUGO:CYBA HGNC:2577 ENTREZ:1535 UNIPROT:P13498</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>synonym:p22phox</p> </body> </html> </notes> <label text="CYBA"/> <bbox w="80.0" h="40.0" x="24196.06" y="10594.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3288_rc_sa3288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neutrophil cytosolic factor 2</p> <p>HUGO:NCF2 HGNC:7661 ENTREZ:4688 UNIPROT:P19878 </p> <p>NADPH oxidase activator 1</p> <p>HUGO:NOXA1 HGNC:10668 ENTREZ:10811 UNIPROT:Q86UR1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="NOXA*"/> <bbox w="80.0" h="40.0" x="23956.06" y="10594.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3287_rc_sa3287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neutrophil cytosolic factor 1</p> <p>HUGO:NCF1 HGNC:7660 ENTREZ:653361 UNIPROT:P14598 </p> <p>NADPH oxidase organizer 1</p> <p>HUGO:NOXO1 HGNC:19404 ENTREZ:124056 UNIPROT:Q8NFA2</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="NOXO*"/> <bbox w="80.0" h="40.0" x="23956.06" y="10544.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_in_sa295_in_sa295" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa111_degraded"/> <bbox w="30.0" h="30.0" x="15695.0" y="5945.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa328_mpk1_mpk1_sa328" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa328_mpk1_mpk1_sa328"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSK*"/> <bbox w="50.0" h="25.0" x="7940.227" y="20481.666"/> <glyph class="state variable" id="_b5a48ab9-8aff-43dd-8d37-da07f69b4c92"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7932.727" y="20489.166"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2842_in_sa2842" compartmentRef="s_id_in_ca47_in_ca47"> <label text="KIT"/> <bbox w="80.0" h="50.0" x="9874.75" y="537.5"/> <glyph class="unit of information" id="_90f149f2-d887-4d45-b09f-7caa6fa9601b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9892.25" y="532.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1359_rc_sa1359" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1359_rc_sa1359"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIRT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIRT1"/> <bbox w="80.0" h="40.0" x="18579.06" y="16279.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1132_emtc_em_sa1132" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1132_emtc_em_sa1132"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="α-Catenin*"/> <bbox w="68.0" h="19.0" x="1812.0" y="15910.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa550_rc_csa550" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Flagellin*:NAIP</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa550_rc_csa550"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NAIP:Flagellin*"/> <bbox w="100.0" h="120.0" x="27889.06" y="9279.0"/> <glyph class="simple chemical" id="s_id_rc_sa5478_rc_sa5478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <label text="Flagellin*"/> <bbox w="70.0" h="25.0" x="27904.06" y="9346.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5479_rc_sa5479"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NLR family, apoptosis inhibitory protein</p> <p>HUGO:NAIP HGNC:7634 ENTREZ:4671 UNIPROT:Q13075</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23940371</p> <p>humans express different isoforms from a single NAIP</p> <p>gene that detect flagellin and T3SS components, respectively</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NAIP"/> <bbox w="80.0" h="40.0" x="27899.06" y="9289.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa42_ca_csa42" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FADD:RIPK1:TNF:TNFR1*:TRADD:TRAF2</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21133840, PMID:24378531</p> <p>TNF acts through two transmembrane receptors: TNF receptor 1 (TNFR1), also known as p55 or p60, and TNF receptor 2 (TNFR2), also known as p75 or p80. </p> <p>PMID:21232017, PMID:21133840, PMID:17301840</p> <p>cIAP1 and cIAP2 modify RIP1, TRAF2 and</p> <p>themselves with K63-linked ubiquitin chains. This creates docking sites for the LUBAC complex, an E3 ligase capable of forming linear polyubiquitin chains. The LUBAC complex ubiquitinates NEMO, a subunit of the IKK complex, which by help of its IKK2 subunit also interacts</p> <p>with TRADD-bound TRAF2. In parallel, the TAK1-TAB 2 complex interacts with K63-ubiquitin modified RIP1 by use of the K63-ubiquitin binding TAB 2 subunit. TAK1 become activated and then phosphorylates and activates IKK2 which in turn now phosphorylates IjBa, marking it</p> <p>for K48-ubiquitination and proteasomal degradation.</p> <p>PMID:11438547, PMID:24378531</p> <p>Both TNFR1 and TNFR2 signaling pathways induce classical NFkB activation via IKBa degradation.</p> <p>Both TNFR1 and TNFR2 signaling pathways induce JNK activation and downstrean c-jun phosphorylation.</p> <p>Both TNFR1 and TNFR2 signaling pathways are needed for activation of p38 MAPK.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa42_ca_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21232017"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17301840"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11438547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFR1"/> <bbox w="210.0" h="180.0" x="1395.0" y="1720.0"/> <glyph class="macromolecule" id="s_id_ca_sa402_ca_sa402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor interacting serine/threonine kinase 1</p> <p>HUGO:RIPK1 hgnc_id:HGNC:10019 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TRADD is essential for TNFR1 signaling in MEFs</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="1400.0" y="1780.0"/> <glyph class="state variable" id="_7f14907e-b23e-4293-896a-354f6d1aafc4"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="1470.0" y="1795.4336"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa405_ca_sa405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor</p> <p>HUGO:TNF hgnc_id:HGNC:11892 HGNC:11892 ENTREZ:7124 UNIPROT:P01375</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CYTOKINES_CHEMOKINES_PRODUCTION</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:23769623 </p> <p>TNF is one of key CAF activating agents</p> <p>PMID:17916596 </p> <p>In vitro analyses</p> <p>revealed a striking induction of IL-8 expression in CAFs</p> <p>and LFs by tumor necrosis factor-alpha (TNFA). The effect</p> <p>of TNFA on CAFs is inhibited by the nuclear factor-kB</p> <p>inhibitor parthenolide.</p> <p>PMID:8910423</p> <p>both TNFR1 and TNFR2 receptors play role in TNF signal transduction in mouse fibroblasts</p> <p>Tnfr1 is essential in mediating proliferative signals</p> <p>Tnfr1 Exclusively Activates Transcription Factor NF-κB in Mouse Fibroblasts</p> <p>Ap-1 was independently activated through both Tnf receptors, probably via prolonged activation of the c-Jun kinase</p> <p>Tnfr1 and Tnfr2 Control Erk1 and Erk2 Kinase Activity</p> <p>Tnfr1 and Tnfr2 Control activation of RPS6KA1</p> <p>Raf-1, Mek-1, and Mekk responded with enhanced kinase activity to Tnf treatment in all wt, tnfr1o, and tnfr2o fibroblasts, supporting again that both Tnf receptors individually are signaling-competent. The activation factors were about 1.5-4 for Raf-1, Mekk, and Mek-1 in wt, tnfr1o, and tnfr2o fibroblasts (Table II). Interestingly, Raf-B, an isoform of c-Raf-1 reported to be mainly localized to the brain (64, 65, 66), also responded to Tnf treatment of the fibroblasts.</p> <p>PMID:11112697 </p> <p>TNF-(alpha) substantially promoted activation of pro-MMP-2 in dermal fibroblasts embedded in type-I collagen. In marked contrast, collagen or TNF-(alpha) individually had little influence on the fibroblast-mediated pro-MMP-2 activation. One well-characterized mechanism for pro-MMP-2 activation is through a membrane type matrix metalloproteinase, such as MT1-MMP. We report that TNF-(alpha) significantly induced MT1-MMP at the mRNA and protein levels when the dermal fibroblasts were grown in collagen. Although the intracellular signaling pathway regulating mt1-mmp gene expression is still obscure, both TNF-(alpha) and collagen activate the NF-(kappa)B pathway. In this report we provide three sets of evidence to support a hypothesis that activation of NF-(kappa)B is essential to induce MT1-MMP expression in fibroblasts after TNF-(alpha) exposure. First, SN50, a peptide inhibitor for NF-(kappa)B nuclear translocation, simultaneously blocked the TNF-(alpha) and collagen mediated MT1-MMP induction and pro-MMP-2 activation. </p> <p>PMID:26201938 </p> <p>The expression levels of cytokine genes, including those for IL6, CXCL8, TNF, TGFB1, and VEGFA, were higher in CAFs. T cell proliferation was suppressed more by CAFs or their supernatants than by NFs. </p> <p>PMID:20184663</p> <p>PMID:23567181</p> <p>Tumor necrosis factor (TNF) and IL6 were shown to be a potent mast cell chemoattractant. TNF induced a strong, dose-dependent migratory response of peritoneal mast cells</p> </body> </html> </notes> <label text="TNF"/> <bbox w="80.0" h="40.0" x="1510.0" y="1730.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa404_ca_sa404"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor associated factor 2</p> <p>HUGO:TRAF2 hgnc_id:HGNC:12032 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017, PMID:21133840, PMID:18641653</p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TNFR2 interacts with TRAF2 and TRAF1.</p> <p>PMID:24378531</p> <p>TNF via TNFR2  induces TRAF2 degradation.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="1400.0" y="1830.0"/> <glyph class="state variable" id="_3d4f6ec6-52b6-42e9-9035-cf6e21820610"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="1470.0" y="1843.6672"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa403_ca_sa403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A associated via death domain</p> <p>HUGO:TRADD hgnc_id:HGNC:12030 HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TRADD is an adaptor molecule important for transducing signals from TNFR1. After binding of TNF, TRADD is recruited to TNFR1 and interacts with the cytoplasmic death domain region of TNFR1 through homotypic interactions. The TNFR1-TRADD complex serves as scaffolding for the recruitment of other signaling molecules that mediate the downstream actions of TNF.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="1510.0" y="1830.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa406_ca_sa406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor superfamily member 1A</p> <p>HUGO:TNFRSF1A hgnc_id:HGNC:11916 HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TNF acts through two transmembrane receptors: TNF receptor 1 (TNFR1), also known as p55 or p60, and TNF receptor 2 (TNFR2), also known as p75 or p80. </p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TRADD is essential for TNFR1 signaling in MEFs</p> <p> TRADD was also required for TRIF-dependent Toll-like receptor signaling in mouse embryonic fibroblasts but not macrophages</p> <p>PMID:8910423</p> <p>both TNFR1 and TNFR2 receptors play role in TNF signal transduction in mouse fibroblasts</p> </body> </html> </notes> <label text="TNFR1*"/> <bbox w="80.0" h="50.0" x="1510.0" y="1775.0"/> <glyph class="unit of information" id="_5d617002-4ec7-45d0-a398-2e86d195fb06"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1527.5" y="1770.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa407_ca_sa407"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas associated via death domain</p> <p>HUGO:FADD hgnc_id:HGNC:3573 HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="1410.0" y="1730.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa42_shh1_shh2_csa42" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR378:SUFU</p> <p>References:</p> <p>s_shh2_re160:(MAP:survival) PMID:18077375</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa42_shh1_shh2_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> 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<label text="RNA"/> <bbox w="20.0" h="10.0" x="27920.56" y="21967.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa284_shh1_shh2_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 378</p> <p>HUGO:MIR378 GENECARDS:MIR378 KEGG:494327 WIKI:MIR378</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19446450</p> <p>PMID:18077375</p> <p>microRNA 378</p> <p>HUGO:MIR378 GENECARDS:MIR378 KEGG:494327 WIKI:MIR378</p> <p>Map modules:</p> <p>References:</p> <p>PMID:19446450</p> </body> </html> </notes> <label text="MIR378"/> <clone/> <bbox w="90.0" h="25.0" x="27885.56" y="21941.0"/> <glyph class="unit of information" id="_5c216efc-04e7-4782-97c6-125a23db979a"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27915.56" y="21936.0"/> </glyph> </glyph> </glyph> <glyph class="complex" 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x="27645.31" y="21548.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa284_shh1_shh2_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 378</p> <p>HUGO:MIR378 GENECARDS:MIR378 KEGG:494327 WIKI:MIR378</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19446450</p> <p>PMID:18077375</p> <p>microRNA 378</p> <p>HUGO:MIR378 GENECARDS:MIR378 KEGG:494327 WIKI:MIR378</p> <p>Map modules:</p> <p>References:</p> <p>PMID:19446450</p> </body> </html> </notes> <label text="MIR378"/> <clone/> <bbox w="90.0" h="25.0" x="27610.31" y="21520.0"/> <glyph class="unit of information" id="_919c7d7f-3e55-4393-b797-1b5a2ccd4b72"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27640.31" y="21515.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa270_shh1_shh1_sa270" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa141_emtc_em_csa141"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370643"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR200C/SNAI2"/> <bbox w="80.0" h="60.0" x="2580.5" y="17819.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa775_emtc_em_sa775"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 200a</p> <p>HUGO:MIR200A, HGNC:31578, ENTREZ:406983, GENECARDS:GC01P001101 </p> <p>microRNA 200b</p> <p>HUGO:MIR200B, HGNC:31579, 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>snail homolog 2 </p> <p>HUGO:SNAI2, HGNC:11094, ENTREZ:6591, GENECARDS:GC08M049830</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22370643</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="SNAI2"/> <bbox w="60.0" h="20.0" x="2593.334" y="17840.834"/> <glyph class="unit of information" id="_40e05c6a-3255-492e-bc29-2bff83b0b6be"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2613.334" y="17835.834"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3426_rc_sa3426" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3426_rc_sa3426"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDHB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDHB"/> <bbox w="80.0" h="40.0" x="20028.06" y="15004.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4800_rc_sa4800" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15422 </p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" 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text="TSC1/2"/> <bbox w="100.0" h="120.0" x="4016.125" y="9257.5"/> <glyph class="macromolecule" id="s_id_mo_sa459_mo_sa459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TSC2</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="4026.125" y="9317.5"/> <glyph class="state variable" id="_4ba99aff-d7f1-401c-99eb-812e598f8086"> <state value="" variable="S939"/> <bbox w="30.0" h="10.0" x="4069.0261" y="9312.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa460_mo_sa460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TSC1</p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="4026.125" y="9267.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa437_rc_csa437" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APH1A:APH1B</p> <p>References:</p> <p>16630834</p> <p>Ligand-dependent cleavage of the P75 neurotrophin receptor is necessary for NRIF nuclear translocation and apoptosis in sympathetic neurons</p> </body> </html> </notes> <label text="Gamma-secretase complex"/> <bbox w="100.0" h="120.0" x="21549.06" y="9309.0"/> <glyph class="macromolecule" id="s_id_rc_sa4241_rc_sa4241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>APH1A gamma secretase subunit</p> <p>HUGO:APH1A HGNC:29509 ENTREZ:51107 UNIPROT:Q96BI3</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:16630834</p> </body> </html> </notes> <label text="APH1A"/> <bbox w="80.0" h="40.0" x="21559.06" y="9319.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4242_rc_sa4242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>APH1B gamma secretase subunit</p> <p>HUGO:APH1B HGNC:24080 ENTREZ:83464 UNIPROT:Q8WW43</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:16630834</p> </body> </html> </notes> <label text="APH1B"/> <bbox w="80.0" h="40.0" x="21559.06" y="9359.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1095_ce_sa1095" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa556_ca_sa556"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TSLP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSLP"/> <bbox w="80.0" h="40.0" x="1300.0" y="3851.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa142_mo_sa142" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0mitogen-activated protein kinase 1mitogen-activated protein kinase 3 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0mitogen-activated protein 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1_2*"/> <bbox w="90.0" h="25.0" x="4294.0" y="10809.5"/> <glyph class="unit of information" id="_6e48f289-2c13-47fe-96ae-c8d1244c15c8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4329.0" y="10804.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa861_ca_sa861" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa861_emtc_em_sa2538"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRS1"/> <clone/> <bbox w="69.0" h="21.0" x="2617.25" y="18277.5"/> <glyph class="state variable" id="_6de70ec2-11b8-43cd-81f2-0cb38905c665"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2609.75" y="18283.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa599_rc_sa599" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa599_rc_sa599"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDCD4"/> <bbox w="80.0" h="40.0" x="26999.93" y="12421.688"/> <glyph class="state variable" id="_6ed287f2-4096-4875-b694-d281d29b9342"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27051.498" y="12416.688"/> </glyph> <glyph class="state variable" id="_31dc2493-74f1-4e0e-ae87-0c9174de3c2e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27018.361" y="12416.688"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa11_wnc1_wnc4_csa11" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_alpha__sub_12_endsub_*:p120*</p> <p>References:</p> <p>s_wnc4_re29:(MAP:survival) PMID:15240885</p> <p>s_wnc4_re24(MAP:survival):</p> <p>Complex of G-alpha12 and p120 stabilises binding of E-cadherin in Adhesion-complex. G-alpha12 is found back in complex with p120 and E-cadherin</p> <p>PMID:15240885</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa11_wnc1_wnc4_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240885"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240885"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gα12*:p120*"/> <bbox w="100.0" h="106.0" x="17942.06" y="20570.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa97_wnc1_wnc4_sa97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="17953.06" y="20582.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa98_wnc1_wnc4_sa98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα12*"/> <bbox w="35.0" h="25.0" x="17974.06" y="20624.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa275_emtc_em_sa275" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:HHPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:HHPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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pharmacological inhibition of Rho-kinase (ROCK) activity resulted in blockade of both TGF-β1 and LIF-dependent proinvasive hDF activity (Figures S2B and S2C). Long-term stimulation of both TGF-β and LIF cytokines also upregulated RhoA small GTPase and myosin light chain 2 (MLC2) proteins, leading to an increase in MLC2 phosphorylation at ser19, which attests for an increased activity</p> <p>PMID:18423981 </p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>EGF down-regulated Rho-GTP levels in fibroblasts, giving permissive signals for Rac1 activation, fibroblast polarization, and invasion.</p> <p>PMID:21178402</p> <p> RhoA was thought to be activated mainly at the retracting tail (red) to promote tail contraction, while Rac1 was thought to be activated at the front of the cell to promote lamellipodial protrusion.</p> <p>PMID:17517963 </p> <p>caveolin-deficient MEFs showed a notable decrease in basal Rho activity and a significant increase in Rac and Cdc42 activity</p> <p>PMID:20535745 </p> <p>CXCR4 receptor and CXCL12 both are expressed in fibroblasts and probably provides positive loop in 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integrin 1 and 3 subunits and is involved in the signal transduction from integrin receptors </p> <p>The activity is stimulated in a phosphatidylinositol (PI) 3-kinase–dependent manner and likely involves binding of the phosphoinositide phospholipid product of PI 3-kinase, PI 3,4,5-triphosphate, to the PH-like domain of ILK</p> <p>ILK has been shown recently to directly phosphorylate proteins such as PKB (PKB/Akt) on ser 473.</p> <p>PMID:27111285 </p> <p>ILK–PI3K/AKT pathway participates in cutaneous wound contraction by regulating fibroblast migration and differentiation to myofibroblast</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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In contrast, the phosphorylation of ERK and JNK in anergic CD4+ T cells was severely reduced, consistent with the previous report of T cells that were anergized in vitro</p> <p>T-cell proliferation is inhibited by p38 MAPK activity in anergic CD4+ T cells. </p> <p>The production of IL-2 is inhibited by p38 activity in anergic CD4+ T cells, while IL-10 production is p38 dependent</p> <p>PMID:26755705</p> <p> the combinatory blockade of CD112R and TIGIT significantly promoted the secretion of cytokines, including IL-2, IL-5, IL-10, IL-13, and IFN-γ</p> <p>PMID:12818165</p> <p>By arresting cell cycle, B7-H4 ligation of T cells has a profound inhibitory effect on the growth, cytokine secretion, and development of cytotoxicity.</p> <p>It inhibits IL-2, IL-4, IL-10, and IFN-γ secretion from B7-1 costimulated T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1117_ad_sa1117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16200688"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15282297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26755705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL10"/> <bbox w="80.0" h="40.0" x="27086.0" y="7795.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1291_ad_sa1291" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:19406987 Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cellsKLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expressionKLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:19406987 Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cellsKLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expressionKLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1291_ad_sa1291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19406987"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19406987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCND2"/> <bbox w="90.0" h="25.0" x="26951.0" y="8302.5"/> <glyph class="unit of information" id="_d1fd6125-3ef4-450f-8e2a-e6566c3ff6ae"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26986.0" y="8297.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa204_akt1_akt2_sa204" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa204_akt1_akt2_sa204"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="12294.311" y="21478.0"/> <glyph class="state variable" id="_8bf35e4a-1839-4daf-98e8-e1ec53213316"> <state value="P" variable="T24"/> <bbox w="30.0" h="10.0" x="12279.803" y="21473.0"/> </glyph> <glyph class="state variable" id="_8909631c-af3f-4231-9917-4b080d280ba1"> <state value="P" variable="S319"/> <bbox w="35.0" h="10.0" x="12356.811" y="21473.0"/> </glyph> <glyph class="state variable" id="_51ec30f2-edc0-4186-8b71-a48141f81d60"> <state value="" variable="S322"/> <bbox w="30.0" h="10.0" x="12358.692" y="21513.0"/> </glyph> <glyph class="state variable" id="_18f710f2-8175-47f9-bc1d-037df47418f1"> <state value="" variable="S325"/> <bbox w="30.0" h="10.0" x="12319.215" y="21513.0"/> </glyph> <glyph class="state variable" id="_9d39b0db-3e91-49b5-b83d-759ea1195231"> <state value="" variable="S329"/> <bbox w="30.0" h="10.0" x="12279.311" y="21512.72"/> </glyph> <glyph class="state variable" id="_581a3ba5-9790-48eb-afe3-0cd244bf01b2"> <state value="P" variable="S256"/> <bbox w="35.0" h="10.0" x="12316.843" y="21473.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa63_mo_csa63" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="JAM2/PTP4A3"/> <bbox w="100.0" h="120.0" x="3521.0" y="12047.0"/> <glyph class="macromolecule" id="s_id_mo_sa525_mo_sa525"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTP4A3</p> </body> </html> </notes> <label text="PTP4A3"/> <bbox w="80.0" h="40.0" x="3538.5" y="12104.0"/> <glyph class="state variable" id="_ddcea192-96ba-4324-83ec-bd0d90e3c2fa"> <state value="" variable="Y53"/> <bbox w="25.0" h="10.0" x="3582.5686" y="12099.0"/> </glyph> <glyph class="state variable" id="_8725aa19-6fc3-479f-b2f2-25e7bfaa9eb3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3533.5" y="12110.716"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa524_mo_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:JAM2</p> </body> </html> </notes> <label text="JAM2"/> <bbox w="80.0" h="40.0" x="3538.0" y="12056.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa34_ce_csa34" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATM:H2AFX:MDC1:MRE11*:NBS1*:RAD50</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:17303408, PMID:16531125</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa34_ce_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16531125"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12607003"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM/H2AX*/MDC1/MRE11*/NBS*/RAD50"/> <bbox w="281.0" h="115.0" x="13183.473" y="13374.356"/> <glyph class="macromolecule" id="s_id_ce_sa1404_ce_sa1404"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia mutated</p> <p>HUGO:ATM, HGNC:795, ENTREZ:472, UNIPROT:Q13315</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>DDR by ATM</p> <p>PMID:23847781</p> <p>PMID:17303408, PMID:16163361, PMID:15964794</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003, PMID:11877377</p> </body> </html> </notes> <label text="ATM"/> <bbox w="80.0" h="40.0" x="13288.712" y="13382.796"/> <glyph class="state variable" id="_19e7d3e6-905b-46cc-b01b-ca1ab990c894"> <state value="P" variable="S1981"/> <bbox w="40.0" h="10.0" x="13268.712" y="13397.764"/> </glyph> <glyph class="state variable" id="_28a057ec-b342-408b-974e-225353ca52fc"> <state value="P" variable="S1893"/> <bbox w="40.0" h="10.0" x="13268.712" y="13413.327"/> </glyph> <glyph class="state variable" id="_aeb7ce99-fdcb-436c-81cb-74536c927618"> <state value="P" variable="S367"/> <bbox w="35.0" h="10.0" x="13285.36" y="13377.796"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1402_ce_sa1402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>H2A histone family, member X</p> <p>HUGO:H2AFX , HGNC:4739, ENTREZ:3014, UNIPROT:P16104</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:9488723, PMID:19772495, PMID:17303408</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003</p> </body> </html> </notes> <label text="H2AFX"/> <bbox w="80.0" h="40.0" x="13197.776" y="13382.667"/> <glyph class="state variable" id="_cab0d699-13e2-42b2-b413-8ebbfce978f3"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="13180.276" y="13397.667"/> </glyph> <glyph class="state variable" id="_85b3e806-b3c5-4d5f-8647-559c13caf50e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="13187.776" y="13380.601"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa529_ce_sa529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="13377.723" y="13426.448"/> <glyph class="state variable" id="_6c066d45-d25d-4023-af7f-9487d554a75f"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="13360.223" y="13449.632"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa526_ce_sa526"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mediator of DNA-damage checkpoint 1</p> <p>HUGO:MDC1, HGNC:21163, ENTREZ:9656, UNIPROT:Q2TAZ4</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:C_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:18006705, PMID:17303408, PMID:18583988, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003, PMID:18583988, PMID:9407949, PMID:18678890</p> </body> </html> </notes> <label text="MDC1"/> <bbox w="80.0" h="40.0" x="13199.132" y="13426.723"/> <glyph class="state variable" id="_d4d35a6e-eda0-40ed-a02f-3ab6a8209235"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13191.632" y="13441.69"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa524_ce_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRE11 meiotic recombination 11 homolog A (S. cerevisiae)</p> <p>HUGO:MRE11A, HGNC:7230, ENTREZ:4361, UNIPROT:P49959</p> <p>MRE11 meiotic recombination 11 homolog B (S. cerevisiae)</p> <p>HUGO:RE11B, HGNC:7231, ENTREZ:4362</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="13376.223" y="13383.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa527_ce_sa527"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD50 homolog (S. cerevisiae)</p> <p>HUGO:RAD50, HGNC:9816, ENTREZ:10111, UNIPROT:Q92878</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="RAD50"/> <bbox w="80.0" h="40.0" x="13289.223" y="13428.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1791_emtc_em_sa1791" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1791_emtc_em_sa1791"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSG3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmoglein3*"/> <bbox w="91.0" h="18.0" x="2458.0" y="16780.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa499_ca_sa499" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa499_ca_sa499"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6ST"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6ST"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="gp130*"/> <bbox w="70.0" h="25.0" x="445.0" y="2847.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1358_ce_sa1358" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1358_ce_sa1358"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLSPN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CLSPN"/> <bbox w="80.0" h="40.0" x="13273.439" y="12220.501"/> <glyph class="state variable" id="_df0a611a-fe2b-4237-83a3-ddd3cc45a58e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13348.439" y="12227.217"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4529_rc_sa4529" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>ChEBI:16960</p> </body> </html> </notes> <label text="ADP-ribose"/> <bbox w="70.0" h="25.0" x="19455.56" y="16959.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa64_akt1_akt1_csa64" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD</p> </body> </html> </notes> <label text="14-3-3*:BAD"/> <clone/> <bbox w="108.0" h="129.0" x="13742.561" y="18330.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa368_akt1_akt1_sa368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <clone/> <bbox w="80.0" h="40.0" x="13756.061" y="18396.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa369_akt1_akt1_sa369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <clone/> <bbox w="80.0" h="40.0" x="13755.811" y="18348.5"/> <glyph class="state variable" id="_d0261965-22f0-42b5-b8c8-1f1e1e8e9c72"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="13738.803" y="18343.5"/> </glyph> <glyph class="state variable" id="_2439034b-b4eb-42fd-b9a7-8337100619aa"> <state value="P" variable="S155"/> <bbox w="35.0" h="10.0" x="13817.692" y="18383.5"/> </glyph> <glyph class="state variable" id="_481ae6b9-838f-471b-881e-048c87ca57a1"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="13818.311" y="18343.713"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa64_wnc1_wnc2_csa15" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD</p> </body> </html> </notes> <label text="14-3-3*:BAD"/> <clone/> <bbox w="96.0" h="124.0" x="17919.56" y="19023.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa369_wnc1_wnc2_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <clone/> <bbox w="80.0" h="40.0" x="17928.56" y="19072.0"/> <glyph class="state variable" id="_dcd824e6-e354-4237-a559-f4fcf29fdad5"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="17911.553" y="19067.0"/> </glyph> <glyph class="state variable" id="_e5dc339d-efa2-4c4a-a4a7-e06165c722e5"> <state value="P" variable="S155"/> <bbox w="35.0" h="10.0" x="17990.441" y="19107.0"/> </glyph> <glyph class="state variable" id="_d670c13d-765a-4c7d-bbad-08547f4338e2"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="17991.06" y="19067.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa368_wnc1_wnc2_sa68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <clone/> <bbox w="80.0" h="40.0" x="17928.56" y="19031.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1346_ce_sa1346" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1346_ce_sa1346"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GINS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GINS1"/> <bbox w="80.0" h="40.0" x="13736.5" y="9699.384"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa284_emtc_em_csa284" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD7:TGFBR1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22286770 </p> <p>The inhibitory Smad7 mRNA is repressed by MIR106B, MIR93, MIR25.</p> <p>Smad7 antagonizes TGF-b signaling through multiple mechanisms, including binding to TGFBR1 and interfering with recruitment and downstream phosphorylation and activation of Smad2 and Smad3.</p> <p>Smad7 also functions to recruit E3 ubiquitin ligases to TGRFBR1, resulting in its degradation.</p> <p>Repression of Smad7 therefore activates TGF-beta signaling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa284_emtc_em_csa284"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22286770"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD7/TGFBR1"/> <bbox w="130.0" h="69.0" x="5634.0" y="16755.5"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1872_emtc_em_sa1872"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="52.0" h="45.0" x="5709.922" y="16761.238"/> <glyph class="unit of information" id="_f9c8e1b5-b0fe-4fdb-bb50-1067e7b3798f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="5725.922" y="16756.238"/> </glyph> <glyph class="state variable" id="_8adbe51d-1e86-4755-b4d4-60ce352f4ea0"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="5697.422" y="16757.285"/> </glyph> <glyph class="state variable" id="_0ae85496-d750-4996-9b14-b54c79105862"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5756.922" y="16756.48"/> </glyph> <glyph class="unit of information" id="_c918173b-ca9a-4a7e-8bd3-8f24ebe92c93"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5713.422" y="16756.238"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1871_emtc_em_sa1871"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 7</p> <p>"MAD, mothers against decapentaplegic homolog 7 (Drosophila)", MADH7, MADH8, "SMAD, mothers against DPP homolog 7 (Drosophila)"</p> <p>HUGO:SMAD7 HGNC:6773 ENTREZ:4092 UNIPROT:O15105</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="SMAD7"/> <bbox w="60.0" h="20.0" x="5640.5" y="16777.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4891_rc_sa4891" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4891_rc_sa4891"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PMAIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PMAIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOXA*"/> <bbox w="70.0" h="25.0" x="28106.326" y="16111.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa231_wnc1_wnc2_sa231" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa231_wnc1_wnc2_sa231"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT3"/> <bbox w="40.0" h="25.0" x="17294.06" y="19363.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3684_rc_sa3684" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 18368</p> </body> </html> </notes> <label text="Glucosylceramide"/> <bbox w="115.0" h="23.0" x="19911.56" y="10667.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa66_shh1_shh2_sa66" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa66_shh1_shh2_sa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TBX2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TBX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TBX2"/> <bbox w="70.0" h="25.0" x="26451.06" y="21053.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa305_emtc_em_csa305" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK2/CyclinE1*"/> <bbox w="107.0" h="40.0" x="3558.0" y="13861.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2069_emtc_em_sa2069"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, GENECARDS:GC12P056360, UNIPROT:P24941 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="40.0" h="20.0" x="3559.5" y="13863.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2068_emtc_em_sa2068"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1, HGNC:1589, ENTREZ:898, GENECARDS:GC19P030302, UNIPROT:P24864 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="CyclinE1*"/> <bbox w="60.0" h="19.0" x="3602.0" y="13863.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3108_rc_sa3108" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation 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class="unit of information" id="_b27c8e9a-22f1-4fb5-90b1-55ea67c47d25"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="5557.0" y="19041.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2239_in_sa2239" compartmentRef="s_id_in_ca13_in_ca13"> <label text="FCER1G"/> <clone/> <bbox w="80.0" h="50.0" x="18367.5" y="1385.0"/> <glyph class="state variable" id="_ab28e4a7-8fcf-4db4-9eea-f62f899bcdb3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18362.5" y="1405.0"/> </glyph> <glyph class="unit of information" id="_1cc42fc6-61b9-406c-8ab2-3a50bb7cf6ef"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18385.0" y="1380.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2239_in_sa2883" compartmentRef="s_id_in_ca13_in_ca13"> <label text="FCER1G"/> <clone/> <bbox w="80.0" h="50.0" x="11990.0" y="1375.0"/> <glyph class="state variable" id="_546c380f-2377-43b7-b1ac-bb586beb54a3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11985.0" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4358_rc_sa4358"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GABARAPL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GATE-16*"/> <bbox w="80.0" h="40.0" x="27774.31" y="11967.083"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa219_emtc_em_csa219" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RHOA</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>RhoA is an important modulator of cell junction formation and stability:</p> <p>PMID:7479854</p> <p>Rho protein regulates tight junctions and perjunctional actin organization in polarized epithelia</p> <p>PMID:9362522</p> <p>Rho subfamily is necessary for the formation of both the cadherin-based cell–cell adhesion and the tight junction</p> <p>PMID:9660866</p> <p>RhoA and Rac1 regulate gate and fence functions of the TJ, and play a role in the spatial organization of TJ proteins at the apex of the lateral membrane</p> <p>PMID:12361600</p> <p>PMID:11992112</p> <p>RhoA functions to maintain apical-basal polarity and cell junctions. </p> <p>PMID:11739775</p> <p>PMID:11729192</p> <p>RhoA can stabilize tight junctions and increase transepithelial resistance</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa219_emtc_em_csa219"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761148"/> </rdf:Bag> 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rdf:resource="urn:miriam:pubmed:11739775"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11729192"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_GTP"/> <bbox w="66.0" h="57.0" x="5368.5" y="14604.0"/> <glyph class="simple chemical" id="s_id_emtc_em_sa1412_emtc_em_sa1412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="5381.5" y="14627.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1413_emtc_em_sa1413"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>HUGO:RHOA, HGNC:667, ENTREZ:387, GENECARDS:GC03M049371, UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>RhoA is an important modulator of cell junction formation and stability:</p> <p>PMID:7479854</p> <p>Rho protein regulates tight junctions and perjunctional actin organization in polarized epithelia</p> <p>PMID:9362522</p> <p>Rho subfamily is necessary for the formation of both the cadherin-based cell–cell adhesion and the tight junction</p> <p>PMID:9660866</p> <p>RhoA and Rac1 regulate gate and fence functions of the TJ, and play a role in the spatial organization of TJ proteins at the apex of the lateral membrane</p> <p>PMID:12361600</p> <p>PMID:11992112</p> <p>RhoA functions to maintain apical-basal polarity and cell junctions. </p> <p>PMID:11739775</p> <p>PMID:11729192</p> <p>RhoA can stabilize tight junctions and increase transepithelial resistance</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="52.0" h="20.0" x="5377.5" y="14609.857"/> <glyph class="state variable" id="_4a830c8b-cc0c-48c0-b6b2-9ff0c327a89a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5372.5" y="14614.842"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa89_ce_csa89" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FANCD2:FANCI:POLN</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group D2</p> <p>HUGO:FANCD2, HGNC:3585, ENTREZ:2177, UNIPROT:Q9BXW9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22751496, PMID:23444773, PMID:20723763</p> </body> </html> </notes> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="15995.336" y="16501.908"/> <glyph class="state variable" id="_a3fb743b-932a-416b-9703-ead974a1a433"> <state value="Ub" variable="K561"/> <bbox w="40.0" h="10.0" x="16015.24" y="16536.908"/> </glyph> <glyph class="state variable" id="_35812589-6d85-4c18-ab40-678faa816c38"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="16021.168" y="16496.908"/> </glyph> <glyph class="state variable" id="_acaa481d-3db4-4fdb-8552-f2cb12bd6218"> <state value="P" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group I</p> <p>HUGO:FANCI, HGNC:25568, ENTREZ:55215, UNIPROT:Q9NVI1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22101340</p> </body> </html> </notes> <label text="FANCI"/> <bbox w="80.0" h="40.0" x="15994.615" y="16546.07"/> <glyph class="state variable" id="_78f28668-101a-48a5-a9e9-554b1685994f"> <state value="Ub" variable="K523"/> <bbox w="40.0" h="10.0" x="16013.319" y="16581.07"/> </glyph> <glyph class="state variable" id="_efd9fa50-a784-41d9-8591-e5046bea7d29"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16067.112" y="16581.07"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3542_rc_sa3542" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1977_emtc_em_sa1977"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <clone/> <bbox w="49.0" h="16.0" x="4446.0" y="14214.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1977_ca_sa94" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1977_ca_sa94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <clone/> <bbox w="80.0" h="40.0" x="3290.0" y="3840.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa524_rc_csa524" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BiP*:SIGMAR1</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa524_rc_csa524"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BiP*:SIGMAR1"/> <bbox w="100.0" h="130.0" x="26139.06" y="13844.0"/> <glyph class="macromolecule" id="s_id_rc_sa5209_rc_sa5209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family A (Hsp70) member 5</p> <p>HUGO:HSPA5 hgnc_id:HGNC:5238 HGNC:5238 ENTREZ:3309 UNIPROT:P11021</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>GRP78</p> </body> </html> </notes> <label text="BiP*"/> <bbox w="80.0" h="40.0" x="26149.06" y="13849.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5208_rc_sa5208"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sigma non-opioid intracellular receptor 1</p> <p>HUGO:SIGMAR1 hgnc_id:HGNC:8157 HGNC:8157 ENTREZ:10280 UNIPROT:Q99720</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>SIGMAR1</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="SIGMAR1"/> <bbox w="80.0" h="50.0" x="26149.06" y="13899.0"/> <glyph class="unit of information" id="_355fd248-b068-42b3-aa88-d7ec80da0a4b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26166.56" y="13894.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa47_te_csa47" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ABL1/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10837221</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa47_te_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10837221"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ABL1/TERT"/> <bbox w="100.0" h="120.0" x="5415.06" y="19972.0"/> <glyph class="macromolecule" id="s_id_te_sa315_te_sa315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="5428.06" y="19983.0"/> <glyph class="state variable" id="_1bcdc913-b587-4fee-8286-ecb9f71f1f32"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="5450.689" y="19978.0"/> </glyph> <glyph class="state variable" id="_fafffbfb-d6ee-4498-b1d4-3b73db67d13d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5423.06" y="19997.969"/> </glyph> <glyph class="state variable" id="_070cd224-5abb-4399-9b64-7328ec9e40b0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5460.561" y="20018.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa314_te_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ABL proto-oncongene 1, non receptor tyrosine-kinase</p> <p>HUGO:ABL1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10837221</p> </body> </html> </notes> <label text="ABL1"/> <bbox w="80.0" h="40.0" x="5429.06" y="20033.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa4954_rc_sa4954" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s536"/> <bbox w="30.0" h="30.0" x="27334.06" y="14254.0"/> </glyph> <glyph class="complex" id="s_id_te_csa23_te_csa23" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/NAF1/NHP2/NOP10</p> <p>Modules_begins:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa23_te_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/NAF1/NHP2/NOP10"/> <bbox w="200.0" h="130.0" x="6115.06" y="22265.0"/> <glyph class="macromolecule" id="s_id_te_sa201_te_sa201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="6125.06" y="22325.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa204_te_sa204"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear assembly factor 1 ribonucleoprotein</p> <p>HUGO:NAF1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NAF1"/> <bbox w="80.0" h="40.0" x="6215.06" y="22325.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa203_te_sa203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="6215.06" y="22275.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa202_te_sa202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="6125.06" y="22275.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1026_ca_sa1026" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF </p> <p>References:</p> <p>PMID:23454766</p> <p>IQ motif containing GTPase activating protein 1 (IQGAP1) binds to TGF-β receptor II (TβRII) and suppresses TβRII-mediated signaling in pericytes to prevent myofibroblastic differentiation in the tumor microenvironment.</p> <p>TGF-β1 stimulation increases IQGAP1/TβRII binding.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<rdf:Description rdf:about="#s_id_rc_sa5472_rc_sa5492"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="T6SS*"/> <clone/> <bbox w="70.0" h="25.0" x="29154.06" y="9106.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa148_te_sa148" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Modules_begin:MODULE:REPLICATIONModules_end ----- content merged by Celldesigner to SBGN-ML translation ------ Modules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="Processed_replicated_telomeric_DNA*"/> <bbox w="242.0" h="25.0" x="2555.56" y="21748.75"/> </glyph> <glyph class="complex" id="s_id_ad_csa146_ad_csa146" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5667"/> <bbox w="100.0" h="120.0" x="30076.0" y="2810.0"/> <glyph class="macromolecule" id="s_id_ad_sa1236_ad_sa1236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CRTAM</p> <p>CELL:TCD8</p> <p>CELL:NKT</p> <p>CELL:TCD4</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22285893 </p> <p>Immunoglobulin receptors that bind nectin and nectin-like proteins include CD226, TIGIT, CRTAM and CD96</p> <p>All of these receptors are expressed on both NK cells and CD8 T cells</p> <p> CD226 and CRTAM promote NK and CD8 T cell function, where as TIGIT has an inhibitory function. </p> <p>PMID:26694968</p> <p>CRTAM determines the CD4+ cytotoxic T lymphocyte lineage</p> <p>CRTAM+ CD4+ T cells secrete IFN-γ, express CTL-related genes, such as eomesodermin (Eomes), Granzyme B, and perforin, after cultivation, and exhibit cytotoxic function, suggesting that CRTAM+ T cells are the precursor of CD4+CTL. </p> <p>http://www.jidonline.org/article/S0022-202X(17)30474-8/fulltext</p> <p>CRTAM (class I restricted T cell associated molecule), a CADM1 ligand, is expressed on activated CD8+ T cells</p> <p>Tumor cells suppress CRTAM expression on CD8+ T cells to evade host immunity in adult T cell leukemia/lymphoma</p> <p>PMID:15811952</p> <p>The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell responses through the cell-surface receptor CRTAM</p> <p>Stimulation of a human polyclonal T-cell line with PMA/ionomycin induced expression of CRTAM on CD8+ T cells after 4 hours of stimulation</p> <p>CRTAM expression on NK cells and CD8+ T cells is tightly regulated by NK cell–activating receptors and T-cell receptor (TCR) triggering, respectively.</p> <p>Necl-2–CRTAM interaction leads to strong IFN-γ secretion by CD8+ T cells.</p> <p>NK cells play a crucial role in clearing Necl-2–expressing tumors in vivo.</p> <p>Crtam Assembles a Scrib-Containing Complex that</p> <p>Controls T Cell Polarity 12 hr after TCR Activation</p> <p>Crtam interacts with</p> <p>Scrib to provide a scaffolding to colocalize Cdc42 and PKCz</p> <p>Knockdown of Scrib protein resulted in loss of Talin and Crtam polarization 8 hr following</p> <p>anti-CD3/28 mAb crosslinking (Figure 6B) as well as inhibition of</p> </body> </html> </notes> <label text="CRTAM"/> <bbox w="80.0" h="50.0" x="30086.0" y="2815.0"/> <glyph class="unit of information" id="_cde9f627-6480-47a2-b7f8-c24c1ba88bd4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30103.5" y="2810.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1248_ad_sa1248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD4</p> <p>HUGO:SCRIB</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:15811952</p> <p>Crtam Assembles a Scrib-Containing Complex that</p> <p>Controls T Cell Polarity 12 hr after TCR Activation</p> <p>. Knockdown of Scrib protein resulted in loss of Talin and Crtam polarization 8 hr following</p> <p>anti-CD3/28 mAb crosslinking (Figure 6B) as well as inhibition of</p> </body> </html> </notes> <label text="SCRIB"/> <bbox w="80.0" h="40.0" x="30086.0" y="2870.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa156_emtc_em_csa156" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:8636223</p> <p>Integrin aVb3 is distinct in its capacity to recognize the sequence Arg-Gly-Asp (RGD) in many extra-cellular matrix (ECM) components. </p> <p>aVb3 can also interact with the neural cell adhesion molecule L1CAM; a member of the immunoglobulin superfamily (IgSF). In other words, aVb3 undergoes heterophilic binding with L1CAM</p> <p>M21 cells display some aVb3-dependent adhesion and spreading on immunopurified human L1. Ligation between this ligand and aVb3 was also observed to promote significant haptotactic cell migration. </p> <p>Significant aVb3-dependent adhesion and spreading was evident on a L1 fragment containing Ig-like domains 4, 5, and 6. </p> <p>Importantly, mutation of an RGD sequence present in the sixth Ig-like domain of L1 abrogated M21 cell adhesion. </p> <p>Despite high levels of L1 expression the M21 melanoma cells did not display significant adhesion via a homophilic L1-L1 interaction. </p> <p>These data suggest that M21 melanoma cells recognize and adhere to L1 through a mechanism that is primarily heterophilic and integrin dependent. </p> <p>Finally, we present evidence that melanoma cells can shed and deposit L1 in occluding ECM. </p> <p>aVb3 may recognize L1 in a cell-cell or cell-substrate interaction.</p> <p>PMID:11553709</p> <p>Tumor metastasis involves many stage-specific adhesive interactions. The expression of several cell adhesion molecules, notably the integrin aVb3 has been associated with the metastatic potential of tumor cells. </p> <p>In the context of in vitro monolayer of human lung microvascular, L1CAM was shown to serve as a potential ligand for aVb3 during melanoma transendothelial migration.</p> <p>Also, polyclonal antibodies against L1 partially inhibited the transendothelial migration of melanoma cells. </p> <p>However, addition of both L1 and aVb3 antibodies did not show additive effects, suggesting that they are components of the same adhesion system.</p> <p>Together, the data suggest that interactions between the integrin aVb3 on melanoma cells and L1 on endothelial cells play an important role in the transendothelial migration of melanoma cells.</p> <p>PMID:10022831</p> <p>Interaction between integrin avb3 and extracellular matrix,as the most important survival system for nascent vessels, is crucial for endothelial cells sprouting from capillaries and for angiogenesis.</p> <p>Tyrosine-phosphorylated VEGFR2 co-immunoprecipitated with b3 integrin subunit, but not with b1 or b5, from cells stimulated with VEGFA (165 amino acid isoform)</p> <p>VEGFR2 phosphorylation and mitogenicity induced by VEGFA were enhanced in cells plated on the avb3 ligand, vitronectin, compared with cells plated on the a5b1 ligand, fibronectin or the a2b1 ligand, collagen.</p> <p>A new role for avb3 integrin in the activation of an in vitro angiogenic program in endothelial cells. </p> <p>Besides being the most important survival system for nascent vessels by regulating cell adhesion to matrix, avb3 integrin participates in the full activation of VEGFR2 triggered by VEGFA.</p> <p>PMID:7512751</p> <p>PMID:8755653</p> <p>Integrin avb3 is expressed in high quantities on angiogenic endothelial cells where it suppresses the activity of p53 and the p53-inducible cell-cycle inhibitor p21WAF1/CIP1 and increases the BCL2/Bax ratio, with a consequent antiapoptotic effect</p> 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<p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5072.842" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa890_emtc_em_sa890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)</p> <p>GP3A</p> <p>HUGO:ITGB3 HGNC:6156 ENTREZ:3690 UNIPROT:P05106 GENECARDS:GC17P045331</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB3"/> <bbox w="40.0" h="20.0" x="5072.842" y="18508.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1275_ad_sa1275" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:12818166the expression of JunB, a component of the AP-1 family induced after T cell activation, was reduced by 49% after B7S1 costimulation. On the other hand, there was little change in c-Jun expression (11% reduction) with B7S1-Ig treatment. JunB has been previously shown to bind to the IL-2 promoter (Boise et al., 1993 and JunB overexpression resulted in greater IL-2 production (our unpublished data). Since JunB is induced after T cell activation (Jain et al., 1995, the mechanism of which is unknown, B7S1 costimulation may result in inefficient JunB induction. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:12818166the expression of JunB, a component of the AP-1 family induced after T cell activation, was reduced by 49% after B7S1 costimulation. On the other hand, there was little change in c-Jun expression (11% reduction) with B7S1-Ig treatment. JunB has been previously shown to bind to the IL-2 promoter (Boise et al., 1993 and JunB overexpression resulted in greater IL-2 production (our unpublished data). 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<head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE</p> </body> </html> </notes> <label text="S phase"/> <clone/> <bbox w="80.0" h="30.0" x="13242.061" y="20419.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2365_emtc_em_sa2365" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2365_emtc_em_sa2365"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRB"/> </rdf:Bag> 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa56_shh1_shh1_csa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17848687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAS1_ligand"/> <bbox w="87.0" h="121.0" x="27376.06" y="17582.0"/> <glyph class="simple chemical" id="s_id_shh1_shh1_sa331_shh1_shh1_sa331"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="27380.56" y="17593.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa328_shh1_shh1_sa328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Growth arrest-specific 1</p> <p>HUGO:GAS1 HGNC:4165 ENTREZ:2619 UNIPROT:P54826 GENECARDS:GAS1 ATLASONC:GC_GAS1 WIKI:GAS1 </p> <p>Growth arrest-specific 2</p> <p>HUGO:GAS2 HGNC:4167 ENTREZ:2620 UNIPROT:O43903 GENECARDS:GAS2 REACTOME:55326 ATLASONC:GC_GAS2 WIKI:GAS2 </p> <p>Growth arrest-specific 5</p> <p>HUGO:GAS5 HGNC:16355 ENTREZ:60674 GENECARDS:GAS5 KEGG:60674 ATLASONC:GAS5ID50217ch1q25 WIKI:GAS5 </p> <p>Growth arrest-specific 6</p> <p>HUGO:GAS6 HGNC:4168 ENTREZ:2621 UNIPROT:Q14393 GENECARDS:GAS6 REACTOME:147759 KEGG:2621 ATLASONC:GC_GAS6 WIKI:GAS6 </p> <p>Growth arrest-specific 7</p> <p>HUGO:GAS7 HGNC:4169 ENTREZ:8522 UNIPROT:O60861 GENECARDS:GAS7 KEGG:8522 ATLASONC:GAS7ID257 WIKI:GAS7 </p> <p>Growth arrest-specific 8</p> <p>HUGO:GAS8 HGNC:4166 ENTREZ:2622 UNIPROT:O95995 GENECARDS:GAS8 KEGG:2622 ATLASONC:GC_GAS8 WIKI:GAS8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GAS1"/> <bbox w="80.0" h="50.0" x="27378.06" y="17612.0"/> <glyph class="unit of information" id="_62452934-67e8-42a2-80ce-48905062b55e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27395.56" y="17607.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5262_rc_sa5262" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="Fe2+"/> <bbox w="25.0" h="25.0" x="27246.56" y="9331.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa126_emtc_em_sa126" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa126_emtc_em_sa126"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14"/> <clone/> <bbox w="40.0" h="20.0" x="2602.0" y="17506.902"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa126_ca_sa563" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa126_ca_sa563"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14"/> <clone/> <bbox w="80.0" h="40.0" x="5100.0" y="4590.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa126_mo_sa317" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa126_mo_sa317"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14"/> <clone/> <bbox w="80.0" h="40.0" x="4367.0" y="11394.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa126_mo_sa318" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa126_mo_sa318"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14"/> <clone/> <bbox w="80.0" h="40.0" x="4405.0" y="12195.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3737_rc_sa3737" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3737_rc_sa3737"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLA2G4C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLA2G4C"/> <bbox w="80.0" h="40.0" x="21079.06" y="10669.0"/> </glyph> <glyph class="phenotype" id="s_id_an_sa234_an_sa234" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Quiescence of vasculature"/> <bbox w="180.0" h="35.0" x="6052.0" y="7427.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa13_rc_csa13" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:DLD:DLST:FAD:OGDH</p> <p>References:</p> <p>stoichiometry:FALSE</p> </body> </html> </notes> <label text="2-oxoglutarate dehydrogenase"/> <bbox w="272.0" h="94.0" x="18139.81" y="14853.0"/> <glyph class="macromolecule" id="s_id_rc_sa188_rc_sa189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)</p> <p>HUGO:DLST HGNC:2911 ENTREZ:1743 UNIPROT:P36957</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="DLST"/> <bbox w="80.0" h="40.0" x="18154.81" y="14866.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa180_rc_sa184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="18328.06" y="14902.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa185_rc_sa186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)</p> <p>HUGO:OGDH HGNC:8124 ENTREZ:4967 UNIPROT:Q02218</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="OGDH"/> <bbox w="80.0" h="40.0" x="18232.81" y="14866.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa180_rc_sa180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="18308.06" y="14882.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa188_rc_sa188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)</p> <p>HUGO:DLST HGNC:2911 ENTREZ:1743 UNIPROT:P36957</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="DLST"/> <bbox w="80.0" h="40.0" x="18144.81" y="14856.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa180_rc_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="18318.06" y="14892.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa179_rc_sa181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="18312.06" y="14867.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa185_rc_sa187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)</p> <p>HUGO:OGDH HGNC:8124 ENTREZ:4967 UNIPROT:Q02218</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="OGDH"/> <bbox w="80.0" h="40.0" x="18242.81" y="14876.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa179_rc_sa179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="18302.06" y="14857.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa185_rc_sa185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)</p> <p>HUGO:OGDH HGNC:8124 ENTREZ:4967 UNIPROT:Q02218</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="OGDH"/> <bbox w="80.0" h="40.0" x="18222.81" y="14856.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa188_rc_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)</p> <p>HUGO:DLST HGNC:2911 ENTREZ:1743 UNIPROT:P36957</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="DLST"/> <bbox w="80.0" h="40.0" x="18164.81" y="14876.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa179_rc_sa183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="18322.06" y="14877.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1161_in_sa1161" compartmentRef="s_id_in_ca13_in_ca13"> <label text="PTGER2"/> <bbox w="80.0" h="50.0" x="13110.0" 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ATL313 also increased negative costimulatory molecules programmed death-1 and CTLA-4 expressed on T cells. In lymphocytes activated with anti-CD3e mAb, ATL313 inhibited the phosphorylation of Zap70, an effect that was reversed by the protein kinase A inhibitor H-89. ----- content merged by Celldesigner to SBGN-ML translation ------ CELL:CD4CELL:TREGMODULE:INHIBITING_CHECKPOINTSCASCADE:AR2APMID:17371980AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines IFN-gamma, RANTES, IL-12P(70), and IL-2. ATL313 also increased negative costimulatory molecules programmed death-1 and CTLA-4 expressed on T cells. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:24403530</p> <p>DUSP14 directly interacted with TGF-β-activated kinase 1 (TAK1)-binding protein 1 (TAB1) and dephosphorylated TAB1 at Ser(438), leading to TAB1-TAK1 complex inactivation in T cells. The phosphorylation levels of the TAB1-TAK1 complex and its downstream molecules, including JNK and IκB kinase, were enhanced in DUSP14-deficient T cells upon stimulation. The enhanced JNK and IκB kinase activation in DUSP14-deficient T cells was attenuated by TAB1 short hairpin RNA knockdown. Consistent with that, DUSP14-deficient mice exhibited enhanced immune responses and were more susceptible to experimental autoimmune encephalomyelitis induction. Thus, DUSP14 negatively regulates TCR signaling and immune responses by inhibiting TAB1 activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1112_ad_sa1112"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DUSP14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403530"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DUSP14"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RPTOR</p> <p>References:</p> <p>s_akt1_re65:(MAP:survival) PMID:16286006</p> <p>s_akt1_re193:(MAP:survival) PMID:20932932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa40_akt1_akt1_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="60.0" x="12243.061" y="18660.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa221_akt1_akt1_sa221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="60.0" x="12243.061" y="18660.0"/> <glyph class="state variable" id="_be1e057f-0f95-4028-8caa-4fc2b8151642"> <state value="P" variable="S696"/> <bbox w="35.0" h="10.0" x="12225.561" y="18684.953"/> </glyph> <glyph class="state variable" id="_1a175aaa-d62e-4b3b-a160-0fe6c3be5ec4"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="12282.51" y="18655.0"/> </glyph> <glyph class="state variable" id="_2032e968-0049-458f-9387-0fbc2fbe209f"> <state value="P" variable="S863"/> <bbox w="35.0" h="10.0" x="12282.359" y="18715.0"/> </glyph> <glyph class="state variable" id="_d196cbfd-fbe5-419e-a5f3-33e4a4bf25d4"> <state value="P" variable="S877"/> <bbox w="35.0" h="10.0" x="12246.612" y="18715.0"/> </glyph> <glyph class="state variable" id="_527cddae-a98d-494e-9c8e-160a01562012"> <state value="P" variable="S859"/> <bbox w="35.0" h="10.0" x="12305.561" y="18681.686"/> </glyph> <glyph class="state variable" id="_cb1ef08a-5d30-4df7-b3ea-19b534f01721"> <state value="P" variable="T706"/> <bbox w="35.0" h="10.0" x="12245.282" y="18655.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1437_emtc_em_sa1437" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1437_emtc_em_sa1437"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <clone/> <bbox w="43.0" h="17.0" x="4557.25" y="13386.84"/> <glyph class="state variable" id="_c71a1f46-6d48-4f71-b381-f258268fc15c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4595.25" y="13381.84"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1437_mo_sa9" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1437_mo_sa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <clone/> <bbox w="80.0" h="40.0" x="3167.5" y="9394.0"/> <glyph class="state variable" id="_71c5cbe2-016f-4ce4-8895-b8f21c915f95"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3242.4998" y="9389.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa5_wnc1_wnc1_csa5" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*</p> </body> </html> </notes> <label text="Gβ*:Gγ*"/> <clone/> <bbox w="90.0" h="50.0" x="15421.061" y="17803.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa20_wnc1_wnc1_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <clone/> <bbox w="40.0" h="20.0" x="15425.061" y="17814.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa21_wnc1_wnc1_sa21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <clone/> <bbox w="40.0" h="20.0" x="15466.061" y="17814.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa5_wca1_wca1_csa30" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*</p> </body> </html> </notes> <label text="Gβ*:Gγ*"/> <clone/> <bbox w="104.0" h="44.0" x="21346.06" y="18023.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa20_wca1_wca1_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <clone/> <bbox w="40.0" h="20.0" x="21358.31" y="18026.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa21_wca1_wca1_sa165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <clone/> <bbox w="40.0" h="20.0" x="21397.06" y="18026.0"/> </glyph> </glyph> <glyph 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP4A3"/> <clone/> <bbox w="53.0" h="20.0" x="2987.0" y="17051.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2561_mo_sa101" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2561_mo_sa101"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP4A3"/> <clone/> <bbox w="70.0" h="25.0" x="5546.0" y="10370.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa47_ce_csa47" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MRE11*:NBS1*:RAD50</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292</p> <p>Double strand breaks sensor. MRN complex association is a first event after the DNA damage</p> <p>PMID:16531125, PMID:17303408, PMID:16163361</p> <p>For S-phase checkpoint</p> <p>PMID:19793801, PMID:11850621</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa47_ce_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18809224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18584027"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19772495"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18087292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16531125"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16163361"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11850621"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MRE11*/NBS*/RAD50"/> <bbox w="95.0" h="146.0" x="14678.473" y="14488.356"/> <glyph class="macromolecule" id="s_id_ce_sa584_ce_sa584"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD50 homolog (S. cerevisiae)</p> <p>HUGO:RAD50, HGNC:9816, ENTREZ:10111, UNIPROT:Q92878</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="RAD50"/> <bbox w="80.0" h="40.0" x="14685.223" y="14534.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa583_ce_sa583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRE11 meiotic recombination 11 homolog A (S. cerevisiae)</p> <p>HUGO:MRE11A, HGNC:7230, ENTREZ:4361, UNIPROT:P49959</p> <p>MRE11 meiotic recombination 11 homolog B (S. cerevisiae)</p> <p>HUGO:RE11B, HGNC:7231, ENTREZ:4362</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="14685.223" y="14494.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa585_ce_sa585"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="14684.723" y="14575.448"/> <glyph class="state variable" id="_874a19d3-3ccd-48d2-8444-a16c107190ed"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="14667.223" y="14598.632"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa198_emtc_em_csa198" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caveolin1*:Occludin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Caveolin 1*/Occludin*"/> <bbox w="131.0" h="40.0" x="1967.0" y="15369.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1277_emtc_em_sa1277"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caveolin 1, caveolae protein, 22kDa</p> <p>HUGO:CAV1, HGNC:1527, ENTREZ:857, UNIPROT:Q03135, GENECARDS:GC07P116164  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:22671595</p> <p>Caveolin-1 is an endocytic scaffolding protein</p> <p>It binds independently to claudin-2 and occludin (co-immunoprecipitation assays).</p> <p>The finding that caveolin-1 interacts with claudin-2 and occludin, but notwith claudin-4 or ZO-1, suggests a potential mechanism for selective retrieval of tight junction components.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Caveolin1*"/> <bbox w="68.0" h="19.0" x="1968.5" y="15371.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1278_emtc_em_sa1278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="59.0" h="16.0" x="2037.5" y="15372.5"/> <glyph class="state variable" id="_862fc4d3-310b-4f8b-a27d-2bbc9831b8c0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2091.5" y="15375.525"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3180_rc_sa3180" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3180_rc_sa3180"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <bbox w="80.0" h="40.0" x="21899.06" y="11046.0"/> <glyph class="state variable" id="_be46330c-f35b-4025-a76a-8844c82e8e7e"> <state value="" variable="Y185"/> <bbox w="30.0" h="10.0" x="21941.01" y="11041.0"/> </glyph> <glyph class="state variable" id="_0cc1321d-1b8f-4ffa-83bf-e34c260e2ba6"> <state value="" variable="T183"/> <bbox w="30.0" h="10.0" x="21907.656" y="11041.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1999_rc_sa1999" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1999_rc_sa1999"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLS"/> <bbox w="80.0" h="40.0" x="18165.06" y="15053.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa221_rc_csa221" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2L2:BMF</p> </body> </html> </notes> <label text="BCL2L2:BMF"/> <bbox w="102.0" h="118.0" x="22467.31" y="13431.0"/> <glyph class="macromolecule" id="s_id_rc_sa1685_rc_sa1685"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bcl2 modifying factor</p> <p>HUGO:BMF HGNC:24132 ENTREZ:90427 UNIPROT:Q96LC9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="BMF"/> <bbox w="80.0" h="40.0" x="22479.06" y="13489.0"/> <glyph class="state variable" id="_d823cd28-defa-40ac-8c80-56020d7be1d1"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22528.129" y="13484.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1686_rc_sa1686"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 2</p> <p>HUGO:BCL2L2 HGNC:995 ENTREZ:599 UNIPROT:Q92843</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL-W</p> </body> </html> </notes> <label text="BCL2L2"/> <bbox w="80.0" h="40.0" x="22476.56" y="13437.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa764_ad_sa764" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa764_ad_sa764"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1/2*"/> <bbox w="80.0" h="40.0" x="27186.0" y="5535.0"/> <glyph class="state variable" id="_f43650d4-eb1f-4c93-a441-d85038090c5f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27181.0" y="5550.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1354_in_sa1354" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL13"/> <bbox w="70.0" h="25.0" x="12165.0" y="5507.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa5_emtc_em_csa5" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRB3:PALS1*</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8365569</p> <p>PMID:18005931</p> <p>PMID:11740559</p> <p>PMID:11740560</p> <p>CRB3 and PALS1* in the same pathway</p> <p>PALS1* binds to CRB3 via its PDZ domain</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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</head> <body> <p>crumbs homolog 3 (Drosophila)</p> <p>HUGO:CRB3, HGNC:20237, ENTREZ:92359, UNIPROT:Q9BUF7, GENECARDS:GC19P006414 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:22881460</p> <p>CRB3 is the only transmembrane protein among apical polarity regulators</p> <p>PMID:2344615</p> <p>Link between Drosophila apical membrane Crb and epithelia organization</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CRB3"/> <bbox w="43.0" h="17.0" x="6705.0" y="15531.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa154_emtc_em_sa154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>membrane protein, palmitoylated 5 (MAGUK p55 subfamily member 5)</p> <p>HUGO:MPP5, HGNC:18669, ENTREZ:64398, UNIPROT:Q8NI35, GENECARDS:GC14P067708  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2013_rc_sa2013"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRPS1L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRPS1L1"/> <bbox w="80.0" h="40.0" x="18099.06" y="11295.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2170_emtc_em_sa2170" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2170_emtc_em_sa2170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RBPJ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CBF1*"/> <bbox w="39.0" h="18.0" x="2748.0" y="14472.5"/> </glyph> <glyph class="phenotype" id="s_id_in_sa1117_in_sa1117"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1117_in_sa1117"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18501881"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7890616"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS_production"/> <bbox w="97.0" h="33.0" x="14261.5" y="8153.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa20_rc_csa20" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FAD:SDHA:SDHB:SDHC:SDHD:cardiolipin:heme b:phosphatidylethanolamine</p> <p>References:</p> <p>synonym:complex II</p> <p>synonym:1.3.5.1</p> <p>synonym:fumarate reductase</p> </body> </html> </notes> <label text="succinate dehydrogenase"/> <bbox w="230.0" h="214.0" x="18528.31" y="13917.0"/> <glyph class="macromolecule" id="s_id_rc_sa264_rc_sa264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>succinate dehydrogenase complex, subunit B, iron sulfur (Ip)</p> <p>HUGO:SDHB HGNC:10681 ENTREZ:6390 UNIPROT:P21912</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>iron-sulfur protein</p> </body> </html> </notes> <label text="SDHB"/> <bbox w="80.0" h="40.0" x="18554.31" y="14027.0"/> <glyph class="state variable" id="_84b0cc41-0900-4486-ad6a-47f394a071a6"> <state value="[2Fe-2S],[4Fe-4S],[3Fe-4S]" variable=""/> <bbox w="80.0" h="10.0" x="18554.31" y="14022.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa265_rc_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>succinate dehydrogenase complex, subunit C, integral membrane protein, 15kDa</p> <p>HUGO:SDHC HGNC:10682 ENTREZ:6391 UNIPROT:Q99643</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>mono-heme cytochrome b</p> </body> </html> </notes> <label text="SDHC"/> <bbox w="80.0" h="40.0" x="18664.31" y="13944.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa270_rc_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>succinate dehydrogenase complex, subunit A, flavoprotein (Fp)</p> <p>HUGO:SDHA HGNC:10680 ENTREZ:6389 UNIPROT:P31040</p> <p>Map modules:</p> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16038</p> </body> </html> </notes> <label text="phosphatidylethanolamine"/> <bbox w="198.0" h="31.0" x="18554.31" y="14078.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa266_rc_sa266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>succinate dehydrogenase complex, subunit D, integral membrane protein</p> <p>HUGO:SDHD HGNC:10683 ENTREZ:6392 UNIPROT:O14521</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>cytochrome b560</p> </body> </html> </notes> <label text="SDHD"/> <bbox w="80.0" h="40.0" x="18664.31" y="14013.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa267_rc_sa267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:26355</p> <p>KEGGCOMPOUND:C00032</p> </body> </html> </notes> <label text="heme b"/> <bbox w="70.0" h="25.0" x="18671.31" y="13977.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa268_rc_sa268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:28494</p> </body> </html> </notes> <label text="cardiolipin"/> <bbox w="70.0" h="25.0" x="18651.31" y="14050.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1813_rc_sa1813" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:10581193</p> <p>Induction of tight junctions in human connexin 32-transfected mouse hepatocytes: connexin 32 interacts with occludin.</p> <p>PMID:17568974</p> <p>Connexins induce and maintain tight junctions in epithelial cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa211_emtc_em_csa211"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11978007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581193"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17568974"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJB1/Occludin*"/> <bbox w="85.0" h="50.0" x="1398.5" y="18067.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1375_emtc_em_sa1375"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, beta 1, 32kDa</p> <p>HUGO:GJB1, HGNC:4283, ENTREZ:2705, UNIPROT:P08034, GENECARDS:GC0XP070435  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>PMID:11978007</p> <p>Cx32 Formation and / or Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:19284610</p> <p>Cx32, colocalizes with tight junction proteins ZO-1 and ZO-2 in rat hepatocytes, and small gap junction plaques were found within tight junction strands.</p> <p>It was suggested that Cx32 can participate in the formation of functional tight junctions and in actin organization.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJB1"/> <bbox w="35.0" h="16.0" x="1421.0" y="18067.5"/> <glyph class="state variable" 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compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2191_emtc_em_sa2191"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HEY1_2*"/> <bbox w="56.0" h="21.0" x="3115.0" y="14621.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa214_an_sa214" compartmentRef="s_id_an_ca1_an_ca1"> <label text="GPAT3"/> <bbox w="80.0" h="40.0" x="4779.0" y="6910.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2366_rc_sa2366" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2366_rc_sa2366"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5G1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5G1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP5G1"/> <bbox w="70.0" h="25.0" x="20263.56" y="16316.25"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4755_rc_sa4755" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4755_rc_sa4755"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHOP*"/> <bbox w="90.0" h="25.0" x="26836.326" y="16021.5"/> <glyph class="unit of information" id="_3abd9413-e21a-48c5-81c7-3610ecec46a0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26871.326" y="16016.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa411_rc_csa411" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase8,10*:DAXX:FADD:FAF1:FAS:FASLG:FLASH*:RIPK1</p> <p>References:</p> <p>10*:FLASH*:RIPK1:FAF1:FADD:DAXX:FASLG:FAS</p> <p>Apoptosis complex led by FAS ligation</p> <p>12702723</p> <p>9184224</p> <p>23069999</p> <p>16498403</p> <p> the subcellular localization and internalization pathways of CD95 play important roles in controlling activation of distinct signaling cascades to determine divergent cellular fates</p> </body> </html> </notes> <label text="FAS DISC"/> <bbox w="407.0" h="190.0" x="25186.06" y="9834.25"/> <glyph class="macromolecule" id="s_id_rc_sa4073_rc_sa4077"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25502.31" y="9874.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4004_rc_sa4004"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25392.31" y="9904.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4021_rc_sa4093"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25267.31" y="9844.25"/> <glyph class="state variable" id="_6bb80061-9e46-4ed5-ac51-3720f0a79de2"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25257.31" y="9850.966"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4074_rc_sa4076"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25492.31" y="9909.25"/> <glyph class="state variable" id="_00e6aae7-e9b5-4908-b556-8a1e48e3152c"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25562.31" y="9918.894"/> </glyph> <glyph class="unit of information" id="_98a3db88-3c36-4cdf-82e3-32fef4477e15"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25509.81" y="9904.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4019_rc_sa4019"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6) associated factor 1</p> <p>HUGO:FAF1 HGNC:3578 ENTREZ:11124 UNIPROT:Q9UNN5</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12702723</p> <p>FAF1 is a member of Fas-DISC acting upstream of caspase-8</p> <p>PMID:19597341</p> <p>FAF1 downregulation may contribute to multiple aspects of tumorigenesis</p> </body> </html> </notes> <label text="FAF1"/> <bbox w="80.0" h="40.0" x="25396.06" y="9851.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4073_rc_sa4073"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25482.31" y="9854.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4073_rc_sa4075"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25492.31" y="9864.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4074_rc_sa4074"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25482.31" y="9899.25"/> <glyph class="state variable" id="_f7388ac9-b99f-4105-a2e0-fceba9a069bd"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25552.31" y="9908.894"/> </glyph> <glyph class="unit of information" id="_6215c198-278d-4c3c-b233-58bf5d9ddc42"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25499.81" y="9894.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4021_rc_sa4021"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25267.31" y="9884.25"/> <glyph class="state variable" id="_386e4774-d533-4e32-90c6-8f23f84a6e3c"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25257.31" y="9890.966"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4005_rc_sa4005"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-domain associated protein</p> <p>HUGO:DAXX HGNC:2681 ENTREZ:1616 UNIPROT:Q9UER7</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:11003656</p> </body> </html> </notes> <label text="DAXX"/> <bbox w="80.0" h="40.0" x="25392.31" y="9954.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4020_rc_sa4020"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8 associated protein 2</p> <p>HUGO:CASP8AP2 HGNC:1510 ENTREZ:9994 UNIPROT:Q9UKL3</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE</p> <p>References:</p> <p>PMID:22427918</p> <p>FLASH (FLICE-associated huge protein or CASP8AP2) is a large multifunctional protein that is involved in many cellular processes associated with cell death and survival</p> <p>PMID:12702723</p> <p>PMID:15592525</p> <p>PMID:1134007</p> </body> </html> </notes> <label text="FLASH*"/> <bbox w="80.0" h="40.0" x="25282.31" y="9924.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4094_rc_sa4094"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="25272.31" y="9974.25"/> <glyph class="state variable" id="_dcc932b2-0a8d-45c5-a7ed-5167beef6e62"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="25337.31" y="9980.499"/> </glyph> <glyph class="state variable" id="_38913fb3-a20f-4d76-b586-9dc8d5d3576c"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="25313.64" y="10009.25"/> </glyph> <glyph class="state variable" id="_0e780a80-d44e-472f-8c44-298b22bf4e66"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25310.146" y="9969.25"/> </glyph> <glyph class="state variable" id="_bb22743d-6519-467c-b1c5-502b46d92d7d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25267.31" y="9980.422"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4074_rc_sa4078"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25502.31" y="9919.25"/> <glyph class="state variable" id="_49fda5e8-ce00-4b1d-886c-7289914b1424"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25572.31" y="9928.894"/> </glyph> <glyph class="unit of information" id="_bc381d2e-9f74-4b33-915b-52b09ad2e5b0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25519.81" y="9914.25"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_an_sa110_an_sa110" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="an_s128"/> <bbox w="30.0" h="30.0" x="6566.0" y="7685.5"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa26_mpk1_mpk1_csa26" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KSR1-CTER*:MEK*</p> </body> </html> </notes> <label text="KSR1-CTER*:MEK*"/> <bbox w="134.0" h="85.0" x="9459.061" y="19388.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa131_mpk1_mpk1_sa131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is cleaved by CASPASE3 in two regions: the C-ter region which mediates MEK binding and the N-ter region which contains the ERK binding site and the C1 domain required for plasma membrane localisation</p> </body> </html> </notes> <label text="KSR1-CTER*"/> <bbox w="119.0" h="26.0" x="9466.061" y="19397.0"/> <glyph class="unit of information" id="_1cab5ab5-9dd9-48d7-8533-da8897057376"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="9500.561" y="19392.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa132_mpk1_mpk1_sa132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="66.0" h="26.0" x="9498.561" y="19423.5"/> <glyph class="state variable" id="_4b7ebdb6-0677-484c-b2e9-be7388493ba3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9493.561" y="19435.832"/> </glyph> <glyph class="state variable" id="_5f860b74-fa05-4688-9e50-f581ea49ac35"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9493.561" y="19426.951"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2309_rc_sa2309" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2309_rc_sa2309"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HMOX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HMOX1"/> <bbox w="80.0" h="40.0" x="27769.06" y="10409.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa84_ce_csa84" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FANCJ*:MLH1:PMS2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS, MODULE:FANCONI</p> <p>References:</p> <p>17581638 </p> <p>Phosphorylated FANCJ bound to BRCA1 activates HR. Dephosphorylated FANCJ bound to MLH1 activates TLS via POLH. This is a switch mechanism</p> <p>20173781</p> </body> </html> </notes> <label text="FANCJ*/MLH1/PMS2"/> <bbox w="122.0" h="155.0" x="15966.473" y="16136.356"/> <glyph class="macromolecule" id="s_id_ce_sa705_ce_sa705"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)</p> <p>HUGO:MLH1, HGNC:7127, ENTREZ:4292, UNIPROT:P40692</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MLH1"/> <bbox w="80.0" h="40.0" x="15988.473" y="16141.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa706_ce_sa706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMS1 postmeiotic segregation increased 2 (S. cerevisiae)</p> <p>HUGO:PMS2, HGNC:9122, ENTREZ:5395, UNIPROT:P54278</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="PMS2"/> <bbox w="80.0" h="40.0" x="15989.473" y="16187.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa704_ce_sa704"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1 interacting protein C-terminal helicase 1, BACH1, FANCJ</p> <p>HUGO:BRIP1, HGNC:20473, ENTREZ:83990, UNIPROT:Q9BX63</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:TLS, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>Phosphorylated FANCJ bound to BRCA1 activates HR. 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class="complex" id="s_id_rc_csa287_rc_csa287" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BACH1:heme</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="BACH1:heme"/> <bbox w="98.0" h="105.0" x="25031.56" y="16524.0"/> <glyph class="simple chemical" id="s_id_rc_sa2332_rc_sa2332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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sownstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="28436.0" y="6005.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa855_ad_sa855"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="28446.0" y="6045.0"/> <glyph class="unit of information" id="_dfd194d5-71ba-411b-a346-1ca8c214b41a"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28461.0" y="6040.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa856_ad_sa856"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKBIA </p> <p>HUGO:NFKBIB</p> <p>HUGO:NFKBIE </p> <p>CASCADE:TCR</p> 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galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:21097505</p> <p>IL-13 upregulates expression of SOCS1</p> <p>PMID:9535722</p> <p>IL13 induces phosporylation of IRS2 and PLCG1 which is probably a PLC responsible for downstream IL13 dependent Ca2+ mobilization signaling and assosiation of IRS2 and PLCG1</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13"/> <bbox w="80.0" h="40.0" x="9118.647" y="4344.1177"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa163_akt1_akt2_sa163" 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upregulated LOX mRNA and protein expression in cardiac fibroblasts, as well as activity in the cell-conditioned media.The increase of LOX protein in response to TGF-β1 was prevented by inhibitors of PI3K, Smad3, p38-MAPK, JNK and ERK1/2. Blockade of PI3K also decreased TGF-β1 induced phosphorylation of Smad3, suggesting that the PI3K/Akt and Smad pathways may be integrated in TGF-β1 signaling. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:CASCADE:TGFBPMID:21498085 TGF-β1 treatment significantly upregulated LOX mRNA and protein expression in cardiac fibroblasts, as well as activity in the cell-conditioned media.The increase of LOX protein in response to TGF-β1 was prevented by inhibitors of PI3K, Smad3, p38-MAPK, JNK and ERK1/2. 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:28862</p> </body> </html> </notes> <label text="dGTP"/> <bbox w="70.0" h="25.0" x="19774.06" y="11746.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa18_wca1_wca3_csa18" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB1:TAK1*</p> <p>References:</p> <p>s_wca3_re24(MAP:survival):</p> <p>WNT1 induces autophosphorylation of TAK1</p> <p>PMID:14960582</p> <p>s_wca3_re30:(MAP:survival) PMID:20538596</p> <p>s_wca3_re31(MAP:survival):</p> <p>Autophosphorylation sequential order: S192 T178 T187 T184</p> <p>PMID:20538596</p> </body> </html> </notes> <extension> <annotation xmlns="" 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x="21065.06" y="20884.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa137_wca1_wca3_sa137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. 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compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="FGF2"/> <bbox w="70.0" h="25.0" x="12175.0" y="6597.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa251_rc_csa251" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:LMNA</p> </body> </html> </notes> <label text="LAMIN-A/C"/> <bbox w="117.0" h="81.0" x="23092.56" y="16853.0"/> <glyph class="macromolecule" id="s_id_rc_sa1898_rc_sa1898"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lamin A/C</p> <p>HUGO:LMNA HGNC:6636 ENTREZ:4000 UNIPROT:P02545</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> <p>References:</p> <p>synonym:LAMIN-A/C</p> </body> </html> </notes> <label text="LMNA"/> <bbox w="80.0" h="40.0" x="23102.56" y="16857.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1898_rc_sa1899"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lamin A/C</p> <p>HUGO:LMNA HGNC:6636 ENTREZ:4000 UNIPROT:P02545</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> <p>References:</p> <p>synonym:LAMIN-A/C</p> </body> </html> </notes> <label text="LMNA"/> <bbox w="80.0" h="40.0" x="23122.56" y="16867.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1187_emtc_em_sa1187" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1187_emtc_em_sa1187"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL6A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COL6A3"/> <bbox w="47.0" h="18.0" x="5866.75" y="18535.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa64_wca1_wca3_csa64" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:HIPK1</p> <p>References:</p> <p>s_wca3_re139:(MAP:survival) PMID:19183803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa64_wca1_wca3_csa64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19183803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:HIPK1"/> <bbox w="100.0" h="120.0" x="22511.06" y="21705.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa394_wca1_wca3_sa394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>homeodomain interacting protein kinase 1</p> <p>HUGO:HIPK1 HGNC:19006 ENTREZ:204851 UNIPROT:Q86Z02 GENECARDS:HIPK1 KEGG:204851 ATLASONC:GC_HIPK1 WIKI:HIPK1</p> <p>Map modules:</p> </body> </html> </notes> <label text="HIPK1"/> <bbox w="80.0" h="40.0" x="22522.06" y="21712.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa395_wca1_wca3_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22522.06" y="21756.0"/> <glyph class="state variable" id="_ed7ddc65-6df5-412f-95a1-5122b9d9ab6a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22597.06" y="21751.0"/> </glyph> <glyph class="state variable" id="_2548202b-0044-4b8d-a5b7-2124cf355384"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="22507.06" y="21790.72"/> </glyph> <glyph class="state variable" id="_a67c7ffc-3870-4b84-b728-d2a1c8bc1cb9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22517.064" y="21751.0"/> </glyph> <glyph class="state variable" id="_dd4b86e6-c875-41a7-9b82-cbd3f323d7f1"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="22586.441" y="21791.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4588_rc_sa4588" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4588_rc_sa4588"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR155"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR155"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR155"/> <clone/> <bbox w="90.0" h="25.0" x="23456.06" y="15624.5"/> <glyph class="unit of information" id="_97fc2fd7-68a9-49d0-b431-73956927eec2"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23486.06" y="15619.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4588_ca_sa887" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4588_ca_sa887"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR155"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR155"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR155"/> <clone/> <bbox w="90.0" h="25.0" x="4535.0" y="3687.5"/> <glyph class="unit of information" id="_accf906b-6928-4a70-b9b1-7492af1ce62e"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="4565.0" y="3682.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa178_ce_sa178" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa178_ce_sa178"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BARD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BARD1"/> <bbox w="80.0" h="40.0" x="15159.522" y="16081.213"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa388_mpk1_mpk1_sa388" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Reactive oxygen species</p> </body> </html> </notes> <label text="ROS"/> <bbox w="70.0" h="25.0" x="10507.057" y="19427.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa74_ca_csa74" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA5:ITGB1</p> </body> </html> </notes> <label text="ca_s4356"/> <clone/> <bbox w="100.0" h="120.0" x="7170.0" y="2500.0"/> <glyph class="macromolecule" id="s_id_ca_sa641_ca_sa641"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="7180.0" y="2510.0"/> <glyph class="unit of information" id="_3fb11f3a-8386-4728-9174-a29bca85a4cb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7197.5" y="2505.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa642_ca_sa642"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 5</p> <p>HUGO:ITGA5 hgnc_id:HGNC:6141 HGNC:6141 ENTREZ:3678 UNIPROT:P08648</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18037882</p> <p>Integrin a3 and a5 are important in leading fibroblasts in SCC.</p> <p>siRNA against integrin 3 or integrin 5 in stromal fibroblasts would prevent the invasion of SCC cells and Figure 4C shows that siRNA-mediated depletion of either integrin 3 or integrin 5 in stromal fibroblasts, but not in SCC cells, reduced the collective invasion of SCC cells.</p> <p>Several groups have shown that integrin a5 can activate Rho signalling16, 17, 18, and this result was confirmed in carcinoma-associated fibroblasts (data not shown). Integrin a3 was also important for force-mediated matrix remodelling, but we found no evidence that it regulated Rho activity (data not shown).</p> </body> </html> </notes> <label text="ITGA5"/> <clone/> <bbox w="80.0" h="50.0" x="7180.0" y="2545.0"/> <glyph class="unit of information" id="_f3ece6c8-c28e-4bb2-9fed-1abbb1c16bff"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7197.5" y="2540.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa74_ca_csa70" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA5:ITGB1</p> </body> </html> </notes> <label text="ca_s4356"/> <clone/> <bbox w="100.0" h="120.0" x="7360.0" y="2230.0"/> <glyph class="macromolecule" id="s_id_ca_sa642_ca_sa631"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 5</p> <p>HUGO:ITGA5 hgnc_id:HGNC:6141 HGNC:6141 ENTREZ:3678 UNIPROT:P08648</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18037882</p> <p>Integrin a3 and a5 are important in leading fibroblasts in SCC.</p> <p>siRNA against integrin 3 or integrin 5 in stromal fibroblasts would prevent the invasion of SCC cells and Figure 4C shows that siRNA-mediated depletion of either integrin 3 or integrin 5 in stromal fibroblasts, but not in SCC cells, reduced the collective invasion of SCC cells.</p> <p>Several groups have shown that integrin a5 can activate Rho signalling16, 17, 18, and this result was confirmed in carcinoma-associated fibroblasts (data not shown). Integrin a3 was also important for force-mediated matrix remodelling, but we found no evidence that it regulated Rho activity (data not shown).</p> </body> </html> </notes> <label text="ITGA5"/> <clone/> <bbox w="80.0" h="50.0" x="7370.0" y="2275.0"/> <glyph class="unit of information" id="_56a02a80-784c-4fd6-9230-53b45bbacf8c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7387.5" y="2270.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa641_ca_sa629"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="7370.0" y="2240.0"/> <glyph class="unit of information" id="_c913625d-1193-4bb0-ae3a-af49dd338523"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7387.5" y="2235.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1838_in_sa1838" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11870632, 11489965, 18272812, 15778339, 9864217, 11964313, 16424049, 15814715, 11777960, 14607900, 17016554, 10485906, 9834059, 21149606, 12413632, 11579131, 6425450, 19833085, 16713974 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_ACTIVATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSION</p> <p>CASCADE:TGFB, CASCADE:IL4, CASCADE:KLRB1, CASCADE:IL12, CASCADE:IL15, CASCADE:KLRG1, CASCADE:KIR2DL2, CASCADE:KIR2DL4, CASCADE:NKP80, CASCADE:NKG2D, CASCADE:KIR2DS2, CASCADE:KIR3DS1, CASCADE:Fc_gamma_RIII, CASCADE:IL18, CASCADE:IL2</p> <p>References:</p> <p>PMID:12413632</p> <p>IFNG is a major factor of M1 activation of macrophages.</p> <p>PMID:6425450</p> <p>Monoclonal antibody to IFNG inhibits macrophage tumoricidal activities.</p> <p>PMID:11964313</p> <p>INFG potentiates TLR signaling and NFkB activation downstream of TLR.</p> <p>PMID:9864217</p> <p>IFNG cooperates with TNF and TLR signaling in NF-kB activation.</p> <p>PMID:19833085</p> <p>IFNG achieves strong activation effects is by enhancing macrophage</p> <p>responsiveness to other inflammatory stimuli, such as TLR ligands and TNF.</p> <p>PMID:14607900, PMID:16713974</p> <p>IFNG impairs IL-10 anti-inflammatory activity.</p> <p>PMID:10485906</p> <p>IFNG downregulates IL4 signaling pathway via SOCS1.</p> <p>PMID:16713974</p> <p>INFG signaling inhibits p38 activation</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>activation of MSCs is initiated in response to IFN-gamma, presumably produced in situ by antitumor T cells in the tumor microenvironment.</p> <p>PMID:16424049</p> <p>The secretion of interleukin (IL)-10 and transforming growth factor-beta by Gr-1(+)CD115(+) MSCs and iNOS expression was induced and enhanced, respectively, on IFN-gamma stimulation.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 expression.</p> <p>NK cells stimuletad by IL4 have NK2 subtype</p> <p>PMID:21149606</p> <p> Nkp80 signaling induces marked IFNG production</p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway</p> <p>PMID:11489965, PMID:15778339</p> <p>KIR2DL4 transduces signals into human NK cells through association with the Fc receptor gamma protein. It induces IFNG production but not cytotoxicity in resting NK cells</p> <p>PMID:16713974, PMID:11579131</p> <p>INFG pathway inhibits activation (phosphorylation) of ERK, JNK, p38 kinases and PI3K pathway induced by TLR. Inhibition of AKT pathway by IFNG resulted in activation of GSK3. 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="24138.81" y="18586.0"/> <glyph class="state variable" id="_438cd5a4-3c3e-4dd8-aa9e-48aafc80202a"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="24121.31" y="18620.72"/> </glyph> <glyph class="state variable" id="_0a434e8c-5f8e-4a84-87e2-dc3b050a7a4d"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="24121.31" y="18620.72"/> </glyph> <glyph class="state variable" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa574_wca1_wca1_sa574"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAM123B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22567.06" y="18246.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa710_rc_sa710" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa710_rc_sa3794"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTSB"/> <clone/> <bbox w="80.0" h="40.0" x="20592.06" y="11308.0"/> <glyph class="state variable" id="_7e01760d-cc60-4d54-8361-23dbd650e34a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20587.06" y="11323.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa374_emtc_em_sa374" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa374_emtc_em_sa374"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD5"/> <bbox w="59.0" h="21.0" x="5094.0" y="16536.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa448_rc_csa448" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NSMAF:SMPD1</p> <p>References:</p> <p>8663014</p> </body> </html> </notes> <label text="NSMAF:SMPD1"/> <bbox w="100.0" h="140.0" x="22494.06" y="9104.0"/> <glyph class="macromolecule" id="s_id_rc_sa3711_rc_sa3711"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sphingomyelin phosphodiesterase 1, acid lysosomal</p> <p>HUGO:SMPD1 HGNC:11120 ENTREZ:6609 UNIPROT:P17405</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:16716889</p> <p>Upon ligation of TNF-α, TNF-R1 recruits FAN through its N-SMase activation domain (NSD) and activates N-SMase </p> <p>PMID:12531547</p> <p>PMID:8663014</p> </body> </html> </notes> <label text="SMPD1"/> <bbox w="80.0" h="40.0" x="22504.06" y="9174.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4301_rc_sa4301"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neutral sphingomyelinase (N-SMase) activation associated factor</p> <p>HUGO:NSMAF HGNC:8017 ENTREZ:8439 UNIPROT:Q92636</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:12404124</p> <p>PMID:11435466 </p> <p>PMID:16716889</p> <p>PMID:28765050</p> </body> </html> </notes> <label text="NSMAF"/> <bbox w="80.0" h="40.0" x="22504.06" y="9124.0"/> <glyph class="state variable" id="_5fec346d-10b0-4a81-b90b-ab400b42bff2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22522.492" y="9119.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa29_ca_csa29" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IkB*:NFKB1_p50*:RELA</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control mice</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa29_ca_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELA:p50/NFKBIA"/> <bbox w="115.0" h="175.0" x="2362.0" y="2952.0"/> <glyph class="macromolecule" id="s_id_ca_sa336_ca_sa336"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RELA proto-oncogene, NF-kB subunit</p> <p>HUGO:RELA hgnc_id:HGNC:9955 HGNC:9955 ENTREZ:5970 UNIPROT:Q04206</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>CASCADE:IL1, CASCADE:TNF</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control mice </p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="2374.5" y="3011.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa337_ca_sa337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>MODULE:CAF, MODULE:CORE, MODULE:CAF</p> <p>Map modules:</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control miceReferences_end</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="2377.0" y="3059.0"/> <glyph class="unit of information" id="_35d10cdc-e4ec-4e23-a808-4f06f9b012f1"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="2392.0" y="3054.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa338_ca_sa338"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NFKB inhibitor alpha</p> <p>HUGO:NFKBIA hgnc_id:HGNC:7797 HGNC:7797 ENTREZ:4792 UNIPROT:P25963 </p> <p>NFKB inhibitor beta</p> <p>HUGO:NFKBIB hgnc_id:HGNC:7798 HGNC:7798 ENTREZ:4793 UNIPROT:Q15653 </p> <p>NFKB inhibitor epsilon</p> <p>HUGO:NFKBIE hgnc_id:HGNC:7799 HGNC:7799 ENTREZ:4794 UNIPROT:O00221</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:23086447, PMID:25305492, PMID:23422957 </p> <p> In canonical NFkB pathway RelB/p50, RelA/p50 and c-Rel/p50 heterodimers are sequestered by IκB-α, IκB-β, and IκB-ε</p> </body> </html> </notes> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="2376.0" y="2969.0"/> <glyph class="state variable" id="_451662e2-76e2-4084-836f-7f4ac98162e7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2368.5" y="2984.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2125_in_sa2125" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CEBPB"/> <bbox w="70.0" h="25.0" x="12835.0" y="4524.375"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa55_akt1_akt1_csa55" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO3</p> <p>References:</p> <p>s_akt2_re9:(MAP:survival) PMID:11864996</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa55_akt1_akt1_csa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11864996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:FOXO3"/> <bbox w="100.0" h="120.0" x="12905.561" y="18294.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa323_akt1_akt1_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 ATLASONC:AF6q21ID125 WIKI:FOXO3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16288288</p> </body> </html> </notes> <label text="FOXO3"/> <bbox w="80.0" h="40.0" x="12917.561" y="18305.0"/> <glyph class="state variable" id="_4b62d5e8-cc87-40cd-a32c-1402c1518041"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12912.561" y="18317.557"/> </glyph> <glyph class="state variable" id="_6c2e01dc-fc5a-4f48-b5d8-d9dfd0e7fa86"> <state value="" variable="S644"/> <bbox w="30.0" h="10.0" 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w="35.0" h="10.0" x="12980.061" y="18339.133"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa324_akt1_akt1_sa324"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> 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id="_0b460367-c0ee-4876-b302-9f72b6a806d2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9471.25" y="262.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa256_rc_csa256" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN1:Ca2+</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="CAPN1"/> <bbox w="102.0" h="86.0" x="18273.31" y="12904.0"/> <glyph class="simple chemical" id="s_id_rc_sa1950_rc_sa1950"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+"/> <bbox 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa7_ca_sa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAP"/> <clone/> <bbox w="80.0" h="40.0" x="2170.0" y="4360.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa7_ca_sa724" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa7_ca_sa724"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAP"/> <clone/> <bbox w="80.0" h="40.0" x="830.0" y="1940.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3868_rc_sa3868" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3868_rc_sa3868"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:A2MRAP~withdrawn"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8,10*"/> <clone/> <bbox w="110.0" h="40.0" x="24444.06" y="9279.0"/> <glyph class="state variable" id="_4d1b7262-18de-48d9-bbd7-09942c103a20"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24439.06" y="9285.716"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3868_rc_sa4010" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3868_rc_sa4010"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:A2MRAP~withdrawn"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8,10*"/> <clone/> <bbox w="110.0" h="40.0" x="25354.06" y="9709.0"/> <glyph class="state variable" id="_281cb9a3-c49f-434a-af18-67d73a93d9ff"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25349.06" y="9715.716"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa74_wca1_wca2_sa74" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Xenopus homologue</p> <p>References:</p> <p>s_wca2_re31(MAP:survival):</p> <p>XFZ7 is normally a monomer howerver upon forced dimerisation the receptor gets activated. This phenomenom is described once in:</p> <p>PMID:12734397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa74_wca1_wca2_sa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XFZ7"/> <clone/> <bbox w="80.0" h="50.0" x="25221.06" y="18222.0"/> <glyph class="unit of information" id="_641a93b0-d9db-426a-87e9-56f6509a3a9c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25238.56" y="18217.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa74_wca1_wca2_sa77" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Xenopus homologue</p> <p>References:</p> <p>s_wca2_re31(MAP:survival):</p> <p>XFZ7 is normally a monomer howerver upon forced dimerisation the receptor gets activated. This phenomenom is described once in:</p> <p>PMID:12734397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa74_wca1_wca2_sa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XFZ7"/> <clone/> <bbox w="80.0" h="50.0" x="25311.06" y="18222.0"/> <glyph class="unit of information" id="_9e0f39a6-79e6-4ace-8d42-e4c00f6aae33"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25328.56" y="18217.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa103_mpk1_mpk1_csa103" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JUN</p> </body> </html> </notes> <label text="(AP-1*)"/> <bbox w="103.0" h="58.0" x="9109.057" y="20414.0"/> <glyph class="macromolecule multimer" id="s_id_mpk1_mpk1_sa534_mpk1_mpk1_sa534"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="50.0" h="25.0" x="9144.224" y="20421.334"/> <glyph class="unit of information" id="_098f3061-d46a-4913-bef4-7c83b7611e30"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="9159.224" y="20416.334"/> </glyph> <glyph class="state variable" id="_337a93d3-34df-4787-a506-564c5b864fda"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9136.724" y="20428.834"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa307_emtc_em_csa307" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:JAG1:NOTCH1</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="JAG1/NOTCH"/> <bbox w="125.0" h="51.0" x="1045.0" y="14133.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2081_emtc_em_sa2081"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Notch homolog 1</p> <p>NOTCH intracellular domains NICD</p> <p>HUGO:NOTCH1, HGNC:7881, ENTREZ:4851, GENECARDS:GC09M139388</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:20351093</p> <p>PMID:22363487</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NOTCH1"/> <bbox w="62.0" h="30.0" x="1102.615" y="14138.808"/> <glyph class="unit of information" id="_d6dfc675-04fa-499c-a7ee-5a9fbf182591"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1111.115" y="14133.808"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2102_emtc_em_sa2102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>jagged 1</p> <p>HUGO:JAG1, HGNC:6188, ENTREZ:182, UNIPROT:P78504, GENECARDS:GC20M010618</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="JAG1"/> <bbox w="46.0" h="19.0" x="1049.0" y="14136.5"/> <glyph class="state variable" id="_8eae7cae-4741-4a70-b77c-a2a879fb460f"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="1085.0" y="14150.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa276_in_csa276" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s2447"/> <bbox w="100.0" h="120.0" x="20925.0" y="4350.0"/> <glyph class="macromolecule" id="s_id_in_sa2056_in_sa2056"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="82.0" h="46.0" x="20935.0" y="4404.0"/> <glyph class="unit of information" id="_2062c82f-aeb2-48e8-965f-3b3fe43cc8e0"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20951.0" y="4399.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2055_in_sa2055"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cREL*"/> <bbox w="80.0" h="40.0" x="20935.0" y="4360.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa96_ce_csa96" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:SLX1*:SLX4*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa96_ce_csa96"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19473888"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12947387"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19595721"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596236"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLX1*/SLX4*"/> <bbox w="100.0" h="116.0" x="12203.473" y="16292.356"/> <glyph class="macromolecule" id="s_id_ce_sa734_ce_sa734"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB (POZ) domain containing 12</p> <p>Structure-specific endonuclease subunit SLX4</p> <p>HUGO:BTBD12, HGNC:23845, ENTREZ:84464, UNIPROT:Q8IY92</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236, PMID:22101340</p> </body> </html> </notes> <label text="SLX4*"/> <bbox w="80.0" h="40.0" x="12218.473" y="16344.214"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa733_ce_sa733"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GIY-YIG domain containing 1</p> <p>HUGO:SLX1A, HGNC:20922, ENTREZ:548593, UNIPROT:Q9BQ83</p> <p>GIY-YIG domain containing 2</p> <p>GIYD2, HGNC:28748, ENTREZ:79008, UNIPROT:Q9BQ83</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="SLX1*"/> <bbox w="80.0" h="40.0" x="12214.473" y="16302.214"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa3789_rc_sa3789" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Advanced Glycation End products</p> <p>PMID:23769884</p> <p>PMID:20823910</p> <p>PMID:11792832</p> <p> Methylglyoxal covalently binds to proteins and forms advanced glycation end products (AGEs), which alter protein function and constitute new centres of sustained ROS generation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3789_rc_sa3789"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23769884"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AGEs"/> <bbox w="80.0" h="30.0" x="19191.56" y="10179.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5326_rc_sa5326" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29309</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5326_rc_sa5326"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CH3"/> <bbox w="70.0" h="25.0" x="26591.56" y="9927.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5428_rc_sa5428" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5428_rc_sa5428"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DUPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="pro-IL18*"/> <bbox w="80.0" h="40.0" x="28399.06" y="10219.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa16_shh1_shh3_csa16" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PI3,4,5-P3:PREX*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re19(MAP:survival):</p> <p>PMID:12829230</p> <p>PMID:11955434</p> <p>PMID:15967165</p> <p>PMID:15611338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa16_shh1_shh3_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829230"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15967165"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="P-Rex_PIP"/> <bbox w="100.0" h="120.0" x="27943.06" y="22406.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa84_shh1_shh3_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Phosphatidylinositol-3,4,5-triphosphate-dependent Rac exchange factor 1</p> <p>HUGO:PREX1 HGNC:32594 ENTREZ:57580 UNIPROT:Q8TCU6 GENECARDS:PREX1 KEGG:57580 ATLASONC:GC_PREX1 WIKI:PREX1 </p> <p>Phosphatidylinositol-3,4,5-triphosphate-dependent Rac exchange factor 2</p> <p>HUGO:PREX2 HGNC:22950 ENTREZ:80243 UNIPROT:Q70Z35 GENECARDS:PREX2 KEGG:80243 ATLASONC:GC_PREX2 WIKI:PREX2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11955434</p> </body> </html> </notes> <label text="PREX*"/> <bbox w="80.0" h="40.0" x="27951.56" y="22447.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa83_shh1_shh3_sa83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="27956.81" y="22419.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4009_rc_sa4009" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4009_rc_sa4009"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8AP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FLASH*"/> <bbox w="80.0" h="40.0" x="25259.06" y="9709.0"/> </glyph> <glyph class="phenotype" id="s_id_in_sa2289_in_sa2289"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2289_in_sa2289"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ANGIOGENESIS"/> <bbox w="270.0" h="75.0" x="12455.0" y="8332.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa81_emtc_em_sa81" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa81_emtc_em_sa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin7*"/> <bbox w="80.0" h="20.0" x="2720.0" y="15564.582"/> <glyph class="unit of information" id="_9ab001af-e2c2-4b8a-af92-e9f849c559e6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2750.0" y="15559.582"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa44_mpk1_mpk1_csa44" compartmentRef="s_id_mpk1_mpk1_ca9_mpk1_mpk1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:GPCR*:GRK*:MEK*:RAF1:_beta_-Arrestin2*</p> </body> </html> </notes> <label text="ERK*:GPCR*:GRK*:MEK*:RAF1:β-Arrestin2*"/> <bbox w="234.0" h="160.0" x="9911.061" y="19597.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa228_mpk1_mpk1_sa228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin beta 2</p> <p>ARR2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="49.0" h="77.0" x="10043.061" y="19654.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa231_mpk1_mpk1_sa231"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9992.061" y="19681.408"/> <glyph class="state variable" id="_d8f593c6-3f34-4f5b-8feb-b75be7c53a3c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9984.561" y="19693.074"/> </glyph> <glyph class="state variable" id="_29243180-f45c-407a-a3c0-323391d78c4b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9984.561" y="19684.535"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa229_mpk1_mpk1_sa229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf-1 murine leukemia viral oncogene homolog 1</p> <p>HUGO:RAF1 HGNC:9829 ENTREZ:5894 UNIPROT:P04049</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Active KRas (on late endosomes) recruits Raf1 (C-Raf) to elicit a MODULE:MAPK signalling pathway.</p> <p>Raf1 MEK1/2 and ERK1/2 may act in the outer side of the Golgi apparatus and attenuate proliferation.</p> </body> </html> </notes> <label text="RAF1"/> <bbox w="50.0" h="25.0" x="9980.061" y="19656.0"/> <glyph class="state variable" id="_8498c6de-dc60-4ab2-9b5c-9a82e547e015"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9972.561" y="19663.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa230_mpk1_mpk1_sa230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="9993.787" y="19705.592"/> <glyph class="state variable" id="_f9801ae2-e6b9-47b0-9c32-99061a6a4f17"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9986.287" y="19717.447"/> </glyph> <glyph class="state variable" id="_2af71f9d-dfdb-496b-a3ae-27b13727f307"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9986.287" y="19708.143"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa314_mpk1_mpk1_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adrenergic beta receptor kinase 1</p> <p>HUGO:ADRBK1 HGNC:289 ENTREZ:156 UNIPROT:P25098</p> <p>adrenergic beta receptor kinase 2</p> <p>HUGO:ADRBK2 HGNC:290 ENTREZ:157 UNIPROT:P35626</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> </body> </html> </notes> <label text="GRK*"/> <bbox w="50.0" h="25.0" x="10042.561" y="19628.334"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa578_mpk1_mpk1_sa578"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein-coupled receptor 1</p> <p>HUGO:GPR1 HGNC:4463 ENTREZ:2825 UNIPROT:P46091 </p> <p>G protein-coupled receptor 3</p> <p>HUGO:GPR3 HGNC:4484 ENTREZ:2827 UNIPROT:P46089 </p> <p>G protein-coupled receptor 4</p> <p>HUGO:GPR4 HGNC:4497 ENTREZ:2828 UNIPROT:P46093 </p> <p>G protein-coupled receptor 6</p> <p>HUGO:GPR6 HGNC:4515 ENTREZ:2830 UNIPROT:P46095 </p> <p>G protein-coupled receptor 12</p> <p>HUGO:GPR12 HGNC:4466 ENTREZ:2835 UNIPROT:P47775 </p> <p>G protein-coupled receptor 15</p> <p>HUGO:GPR15 HGNC:4469 ENTREZ:2838 UNIPROT:P49685 </p> <p>G protein-coupled receptor 17</p> <p>HUGO:GPR17 HGNC:4471 ENTREZ:2840 UNIPROT:Q13304 </p> <p>G protein-coupled receptor 18</p> <p>HUGO:GPR18 HGNC:4472 ENTREZ:2841 UNIPROT:Q14330 </p> <p>G protein-coupled receptor 19</p> <p>HUGO:GPR19 HGNC:4473 ENTREZ:2842 UNIPROT:Q15760 </p> <p>G protein-coupled receptor 20</p> <p>HUGO:GPR20 HGNC:4475 ENTREZ:2843 UNIPROT:Q99678</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylation of GPCR (by GRK) induces the activation of ERK cascade on eary endosomes.</p> </body> </html> </notes> <label text="GPCR*"/> <bbox w="50.0" h="25.0" x="10044.605" y="19605.908"/> <glyph class="state variable" id="_95e69ec7-eb2f-47e5-b15e-67850fd5baf2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10039.605" y="19613.408"/> </glyph> <glyph class="unit of information" id="_fb398d24-97e1-4326-8aa9-190853cb04fb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10047.105" y="19600.908"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa729_ca_sa729" 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LMK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LMK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK*"/> <bbox w="80.0" h="40.0" x="5014.0" y="7401.0"/> <glyph class="state variable" id="_7f9204bb-2c12-4884-9f81-3ec34ae3de7d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5063.0684" y="7396.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa868_ce_sa868" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa868_ce_sa868"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCM6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MCM6"/> <bbox w="80.0" h="40.0" x="12490.27" y="9875.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa114_rc_sa114" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15351 KEGGCOMPOUND:C00024 CAS:72-89-9</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> <p>PMID:28645028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa114_rc_sa114"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11532940</p> <p>PMID:11335727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa376_an_sa376"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11335727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKC activation"/> <clone/> <bbox w="114.0" h="23.0" x="5055.0" y="6503.5"/> </glyph> <glyph class="phenotype" id="s_id_an_sa376_an_sa496" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11532940</p> <p>PMID:11335727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa376_an_sa496"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11335727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKC activation"/> <clone/> <bbox w="98.0" h="29.0" x="5667.0" y="7730.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa13_ce_sa13" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa13_ce_sa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLE2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLE3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLE4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POLE*"/> <bbox w="80.0" h="40.0" x="8646.086" y="16717.88"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa44_akt1_akt1_csa44" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EIF4A*:PDCD4</p> <p>References:</p> <p>s_akt1_re73:(MAP:survival) PMID:17053147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa44_akt1_akt1_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17053147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF4A*:PDCD4"/> <bbox w="100.0" h="120.0" x="12578.061" y="19469.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa247_akt1_akt1_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4A1</p> <p>HUGO:EIF4A1 HGNC:3282 ENTREZ:1973 UNIPROT:P60842 GENECARDS:EIF4A1 REACTOME:72572 KEGG:1973 ATLASONC:GC_EIF4A1 WIKI:EIF4A1 </p> <p>eukaryotic translation initiation factor 4A2</p> <p>HUGO:EIF4A2 HGNC:3284 ENTREZ:1974 UNIPROT:Q14240 GENECARDS:EIF4A2 REACTOME:72574 KEGG:1974 ATLASONC:EIF4A2ID262 WIKI:EIF4A2 </p> <p>eukaryotic translation initiation factor 4A3</p> <p>HUGO:EIF4A3 HGNC:18683 ENTREZ:9775 UNIPROT:P38919 GENECARDS:EIF4A3 REACTOME:57148 KEGG:9775 ATLASONC:GC_EIF4A3 WIKI:EIF4A3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12867079</p> </body> </html> </notes> <label text="EIF4A*"/> <bbox w="80.0" h="40.0" x="12589.061" y="19523.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa245_akt1_akt1_sa245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>programmed cell death 4 (neoplastic transformation inhibitor)</p> <p>HUGO:PDCD4 HGNC:8763 ENTREZ:27250 UNIPROT:Q53EL6 GENECARDS:PDCD4 KEGG:27250 ATLASONC:PDCD4ID41675ch10q24 WIKI:PDCD4</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17053147</p> </body> </html> </notes> <label text="PDCD4"/> <bbox w="80.0" h="40.0" x="12588.061" y="19483.5"/> <glyph class="state variable" id="_fb1e3fd6-e038-47ba-b005-deab4af6f80b"> <state value="" variable="S67"/> <bbox w="25.0" h="10.0" x="12614.792" y="19478.5"/> </glyph> <glyph class="state variable" id="_c46392c9-9375-40f3-9f5a-c5e674ee415a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12583.061" y="19498.469"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa17_wca1_wca2_csa17" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGA3:TGFB1:TGFBR*:_beta_-Catenin*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re38:(MAP:survival) PMID:19171760</p> <p>s_wca2_re39(MAP:survival):</p> <p>Integrin alphaIII beta1 can activate Src</p> <p>PMID:22203675</p> <p>Other integrin family member activates as well Src</p> <p>PMID:19734908</p> <p>s_wca2_re45(MAP:survival):</p> <p>Src phosphorylates Y654 residue on b-catenin</p> <p>PMID:16099633</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa17_wca1_wca2_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19734908"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16099633"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:ITGA3:TGFB1:TGFBR*:β-Catenin*:p120*"/> <bbox w="202.0" h="249.0" x="23646.06" y="18834.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa97_wca1_wca2_sa97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="23668.06" y="18892.0"/> <glyph class="state variable" id="_453f7837-0c18-4d55-ae77-b22b8447f718"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23786.06" y="18887.0"/> </glyph> <glyph class="state variable" id="_5441f458-9619-4c43-bc8a-1f10c7d26c02"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="23776.06" y="18887.219"/> </glyph> <glyph class="state variable" id="_a26ea550-ecde-4146-928c-8c96cda06258"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="23771.58" y="18928.0"/> </glyph> <glyph class="state variable" id="_4f04a04f-bd37-465c-a2da-100d6b50ad4c"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="23655.021" y="18887.0"/> </glyph> <glyph class="state variable" id="_0ef5e7a1-aff6-4812-ae93-d938baab1481"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="23653.43" y="18928.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa96_wca1_wca2_sa96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin alpha 3 (antigen CD49C alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143" MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006 GENECARDS:ITGA3 REACTOME:57565 KEGG:3675 ATLASONC:GC_ITGA3 WIKI:ITGA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_MATRIX_ADHESIONS</p> </body> </html> </notes> <label text="ITGA3"/> <bbox w="80.0" h="40.0" x="23728.06" y="18846.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa98_wca1_wca2_sa98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="23664.06" y="18940.0"/> <glyph class="state variable" id="_7eb36559-b2b3-49c0-ab2d-7573a0d935ec"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="23649.553" y="18935.0"/> </glyph> <glyph class="state variable" id="_e8eed979-2306-4ba8-8694-9c791149a7b4"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="23689.092" y="18935.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa100_wca1_wca2_sa100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 GENECARDS:TGFB1 REACTOME:65937 KEGG:7040 ATLASONC:GC_TGFB1 WIKI:TGFB1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:emtcellmotility / MODULE:ECM</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="52.0" h="29.0" x="23721.06" y="18972.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa99_wca1_wca2_sa99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23742.06" y="18938.0"/> <glyph class="state variable" id="_448a8106-9a13-4aac-a494-445849eee6ee"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="23729.56" y="18972.72"/> </glyph> <glyph class="state variable" id="_5d694fce-f90b-47e5-b5cd-ce5c4798c2b8"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23807.06" y="18933.213"/> </glyph> <glyph class="state variable" id="_e15310e1-6315-461e-b4d8-57cbd920ca36"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23727.553" y="18933.0"/> </glyph> <glyph class="state variable" 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variable" id="_cbc0200c-7d59-46a9-96ba-0ee1fecbe5e3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23753.777" y="18933.0"/> </glyph> <glyph class="state variable" id="_fef62c1f-961e-454b-a485-b46214e402db"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23737.06" y="18939.271"/> </glyph> <glyph class="state variable" id="_35449be6-c8b3-4898-8a88-1c48d79c4a7b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23737.06" y="18950.96"/> </glyph> <glyph class="state variable" id="_5af1b69d-c79c-4494-8216-0ad1f2656440"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23737.06" y="18944.508"/> </glyph> <glyph class="state variable" id="_d713fcef-2e4b-46f5-81f4-12ba907f9b50"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23737.06" y="18952.969"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa101_wca1_wca2_sa101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897 GENECARDS:TGFBR1 REACTOME:65969 KEGG:7046 ATLASONC:GC_TGFBR1 WIKI:TGFBR1 </p> <p>transforming growth factor beta receptor 2</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173 GENECARDS:TGFBR2 REACTOME:65971 KEGG:7048 ATLASONC:GC_TGFBR2 WIKI:TGFBR2 </p> <p>transforming growth factor beta receptor 3</p> <p>HUGO:TGFBR3 HGNC:11774 ENTREZ:7049 UNIPROT:Q03167 GENECARDS:TGFBR3 KEGG:7049 ATLASONC:TGFBR3ID42541ch1p33 WIKI:TGFBR3</p> <p>Map modules:</p> </body> </html> </notes> <label text="TGFBR*"/> <bbox w="80.0" h="50.0" x="23708.06" y="18996.0"/> <glyph class="unit of information" id="_e5006d47-db20-4d38-a2b8-3a031c10f00e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23725.56" y="18991.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa6_rc_sa6" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa6_rc_sa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~AIFM1*"/> <bbox w="80.0" h="40.0" x="21422.008" y="12945.569"/> <glyph class="state variable" id="_6440b745-77b7-439a-8a15-0bb075672015"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21473.576" y="12940.569"/> </glyph> <glyph class="unit of information" id="_bf032c24-f6aa-48e6-b4b3-72b7f76cb8c5"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21437.008" y="12940.569"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa361_rc_csa361" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2-XL*:p53*</p> </body> </html> </notes> <label text="BCL2L1:TP53"/> <bbox w="100.0" h="120.0" x="22699.06" y="13299.0"/> <glyph class="macromolecule" id="s_id_rc_sa3364_rc_sa3364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="22708.818" y="13308.014"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3363_rc_sa3363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53</p> <p>HUGO:TP53 HGNC:11998 ENTREZ:7157 UNIPROT:P04637</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="p53*"/> <bbox w="80.0" h="40.0" x="22708.818" y="13352.014"/> <glyph class="state variable" id="_0476935f-5015-4f0f-937a-b1e08e436881"> <state value="" variable="S15"/> <bbox w="25.0" h="10.0" x="22753.268" y="13347.014"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa407_rc_sa407" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa407_rc_sa407"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SHC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHC1_p66*"/> <bbox w="80.0" h="40.0" x="19329.31" y="13191.75"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa81_akt1_akt1_csa81" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PP2B_B*:PP2B_C*</p> <p>References:</p> <p>s_akt1_re24:(MAP:survival) PMID:18042541 PMID:18077353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa81_akt1_akt1_csa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18042541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PP2B)"/> <bbox w="100.0" h="120.0" x="13532.061" y="17604.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa497_akt1_akt1_sa497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3 regulatory subunit B alpha</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3 regulatory subunit B beta</p> <p>HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PP2B_B*"/> <bbox w="80.0" h="40.0" x="13540.061" y="17614.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa498_akt1_akt1_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3 catalytic subunit alpha isozyme</p> <p>HUGO:PPP3CA HGNC:9314 ENTREZ:5530 UNIPROT:Q08209 GENECARDS:PPP3CA REACTOME:61110 KEGG:5530 ATLASONC:GC_PPP3CA WIKI:PPP3CA </p> <p>protein phosphatase 3 catalytic subunit beta isozyme</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB </p> <p>protein phosphatase 3 catalytic subunit gamma isozyme</p> <p>HUGO:PPP3CC HGNC:9316 ENTREZ:5533 UNIPROT:P48454 GENECARDS:PPP3CC REACTOME:61114 KEGG:5533 ATLASONC:GC_PPP3CC WIKI:PPP3CC</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18249169</p> </body> </html> </notes> <label text="PP2B_C*"/> <bbox w="80.0" h="40.0" x="13540.061" y="17657.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa68_shh1_shh2_sa68" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa68_shh1_shh2_sa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTCH1"/> <bbox w="70.0" h="25.0" x="26451.06" y="21101.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2432_emtc_em_sa2432" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2432_emtc_em_sa2432"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF6"/> <bbox w="41.0" h="19.0" x="3459.0" y="19038.0"/> </glyph> <glyph class="complex" id="s_id_an_csa26_an_csa26" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23896411</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa26_an_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23896411"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s304"/> <bbox w="270.0" h="110.0" x="4027.0" y="6310.0"/> <glyph class="macromolecule" id="s_id_an_sa303_an_sa303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTPN6 HGNC:9658</p> </body> </html> </notes> <label text="SHP1*"/> <bbox w="80.0" h="40.0" x="4197.0" y="6370.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa259_an_sa259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:THBS1</p> </body> </html> </notes> <label text="TSP*"/> <bbox w="80.0" h="40.0" x="4037.0" y="6330.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa255_an_sa255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: "CD36 antigen (collagen type I receptor, thrombospondin receptor)"</p> <p>HUGO:CD36 HGNC:1663</p> <p>PMID:?2015-MOJCSR-02-00015</p> </body> </html> </notes> <label text="CD36"/> <bbox w="80.0" h="50.0" x="4117.0" y="6325.0"/> <glyph class="unit of information" id="_70c6307f-458e-45db-9a9a-29c948b0e2c5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4134.5" y="6320.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa289_an_sa289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:SYK</p> </body> </html> </notes> <label text="SYK"/> <bbox w="80.0" h="40.0" x="4207.0" y="6320.0"/> <glyph class="state variable" id="_d37ee8c4-fb52-4941-82ec-ddd7ec1796ad"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4258.5684" y="6355.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1440_ce_sa1440" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0MMR:DNA:st5Repaired ligated DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:MMR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0MMR:DNA:st5Repaired ligated DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:MMR </body> </html> </notes> <label text="MMR_DNA_st5*"/> <bbox w="120.0" h="26.0" x="10994.961" y="16449.334"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa5_wca1_wca3_csa5" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin*:BAF53A*:BRD8:DMAP1:EAF6*:EPC1:GAS41*:H2AFX:H2AFZ:H2B*:ING3:MRG15*:MRGBP:Pontin*:Reptin*:TRRAP:YL1*:p400*</p> <p>References:</p> <p>PMID:17320397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa5_wca1_wca3_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17320397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Tip60)"/> <bbox w="264.0" h="276.0" x="22490.06" y="22067.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa40_wca1_wca3_sa40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>YEATS domain containing 4</p> <p>HUGO:YEATS4 HGNC:24859 ENTREZ:8089 UNIPROT:O95619 GENECARDS:YEATS4 KEGG:8089 ATLASONC:GC_YEATS4 WIKI:YEATS4</p> <p>Map modules:</p> </body> </html> </notes> <label text="GAS41*"/> <bbox w="80.0" h="40.0" x="22500.06" y="22198.8"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa34_wca1_wca3_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRG/MORF4L binding protein</p> <p>C20orf20 "chromosome 20 open reading frame 20"</p> <p>HUGO:MRGBP HGNC:15866 ENTREZ:55257 UNIPROT:Q9NV56 GENECARDS:MRGBP KEGG:55257 ATLASONC:GC_MRGBP WIKI:MRGBP</p> <p>Map modules:</p> </body> </html> </notes> <label text="MRGBP"/> <bbox w="80.0" h="40.0" x="22667.06" y="22156.2"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa33_wca1_wca3_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>bromodomain containing 8</p> <p>HUGO:BRD8 HGNC:19874 ENTREZ:10902 UNIPROT:Q9H0E9 GENECARDS:BRD8 KEGG:10902 ATLASONC:GC_BRD8 WIKI:BRD8</p> <p>Map modules:</p> </body> </html> </notes> <label text="BRD8"/> <bbox w="80.0" h="40.0" x="22581.06" y="22114.6"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa37_wca1_wca3_sa37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vacuolar protein sorting 72 homolog (S. cerevisiae)</p> <p>TCFL1 "transcription factor-like 1" "vacuolar protein sorting 72 (yeast)"</p> <p>HUGO:VPS72 HGNC:11644 ENTREZ:6944 UNIPROT:Q15906 GENECARDS:VPS72 KEGG:6944 ATLASONC:GC_VPS72 WIKI:VPS72</p> <p>Map modules:</p> </body> </html> </notes> <label text="YL1*"/> <bbox w="80.0" h="40.0" x="22500.06" y="22072.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa30_wca1_wca3_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MYST/Esa1-associated factor 6</p> <p>C1orf149 "chromosome 1 open reading frame 149"</p> <p>HUGO:MEAF6 HGNC:25674 ENTREZ:64769 UNIPROT:Q9HAF1 GENECARDS:MEAF6 KEGG:64769 ATLASONC:GC_MEAF6 WIKI:MEAF6</p> <p>Map modules:</p> </body> </html> </notes> <label text="EAF6*"/> <bbox w="80.0" h="40.0" x="22584.06" y="22198.8"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa42_wca1_wca3_sa42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone cluster 2 H2be</p> <p>H2B "H2B histone family member Q" H2BFQ "histone 2 H2be"</p> <p>HUGO:HIST2H2BE HGNC:4760 ENTREZ:8349 UNIPROT:Q16778 GENECARDS:HIST2H2BE REACTOME:56186 KEGG:8349 ATLASONC:GC_HIST2H2BE WIKI:HIST2H2BE</p> <p>Map modules:</p> </body> </html> </notes> <label text="H2B*"/> <bbox w="80.0" h="40.0" x="22584.06" y="22284.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa28_wca1_wca3_sa28"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>enhancer of polycomb homolog 1 (Drosophila)</p> <p>HUGO:EPC1 HGNC:19876 ENTREZ:80314 UNIPROT:Q9H2F5 GENECARDS:EPC1 KEGG:80314 ATLASONC:GC_EPC1 WIKI:EPC1</p> <p>Map modules:</p> <p>MAP:cellcycle / MODULE:E2F6</p> </body> </html> </notes> <label text="EPC1"/> <bbox w="80.0" h="40.0" x="22581.06" y="22072.6"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa29_wca1_wca3_sa29"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mortality factor 4 like 1</p> <p>HUGO:MORF4L1 HGNC:16989 ENTREZ:10933 UNIPROT:Q9UBU8 GENECARDS:MORF4L1 KEGG:10933 ATLASONC:GC_MORF4L1 WIKI:MORF4L1</p> <p>Map modules:</p> </body> </html> </notes> <label text="MRG15*"/> <bbox w="80.0" h="40.0" x="22584.06" y="22156.2"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa38_wca1_wca3_sa38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>H2A histone family member Z</p> <p>H2AZ</p> <p>HUGO:H2AFZ HGNC:4741 ENTREZ:3015 UNIPROT:P0C0S5 GENECARDS:H2AFZ REACTOME:231437 KEGG:3015 ATLASONC:GC_H2AFZ WIKI:H2AFZ</p> <p>Map modules:</p> </body> </html> </notes> <label text="H2AFZ"/> <bbox w="80.0" h="40.0" x="22500.06" y="22113.6"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa43_wca1_wca3_sa43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RuvB-like 1 (E. coli)</p> <p>"RuvB (E coli homolog)-like 1"</p> <p>HUGO:RUVBL1 HGNC:10474 ENTREZ:8607 UNIPROT:Q9Y265 GENECARDS:RUVBL1 REACTOME:63862 KEGG:8607 ATLASONC:RUVBL1ID44415ch3q21 WIKI:RUVBL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="Pontin*"/> <bbox w="80.0" h="40.0" x="22500.06" y="22284.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa39_wca1_wca3_sa39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA methyltransferase 1 associated protein 1</p> <p>HUGO:DMAP1 HGNC:18291 ENTREZ:55929 UNIPROT:Q9NPF5 GENECARDS:DMAP1 KEGG:55929 ATLASONC:GC_DMAP1 WIKI:DMAP1</p> <p>Map modules:</p> </body> </html> </notes> <label text="DMAP1"/> <bbox w="80.0" h="40.0" x="22500.06" y="22156.2"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa44_wca1_wca3_sa44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RuvB-like 2 (E. coli)</p> <p>"RuvB (E coli homolog)-like 2"</p> <p>HUGO:RUVBL2 HGNC:10475 ENTREZ:10856 UNIPROT:Q9Y230 GENECARDS:RUVBL2 REACTOME:63864 KEGG:10856 ATLASONC:RUVBL2ID42185ch19q13 WIKI:RUVBL2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Reptin*"/> <bbox w="80.0" h="40.0" x="22666.06" y="22284.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa36_wca1_wca3_sa36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>H2A histone family member X</p> <p>HUGO:H2AFX HGNC:4739 ENTREZ:3014 UNIPROT:P16104 GENECARDS:H2AFX REACTOME:56152 KEGG:3014 ATLASONC:H2AFXID40783ch11q23 WIKI:H2AFX</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="H2AFX"/> <bbox w="80.0" h="40.0" x="22667.06" y="22241.4"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa32_wca1_wca3_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p400</p> <p>TNRC12 "trinucleotide repeat containing 12"</p> <p>HUGO:EP400 HGNC:11958 ENTREZ:57634 UNIPROT:Q96L91 GENECARDS:EP400 KEGG:57634 ATLASONC:EP400ID40457ch12q24 WIKI:EP400</p> <p>Map modules:</p> </body> </html> </notes> <label text="p400*"/> <bbox w="80.0" h="40.0" x="22665.06" y="22113.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa41_wca1_wca3_sa41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>actin-like 6A</p> <p>HUGO:ACTL6A HGNC:24124 ENTREZ:86 UNIPROT:O96019 GENECARDS:ACTL6A KEGG:86 ATLASONC:GC_ACTL6A WIKI:ACTL6A</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF53A*"/> <bbox w="80.0" h="40.0" x="22500.06" y="22241.4"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa35_wca1_wca3_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>actin alpha 1 skeletal muscle</p> <p>NEM3 "nemaline myopathy type 3"</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133 GENECARDS:ACTA1 REACTOME:49626 KEGG:58 ATLASONC:GC_ACTA1 WIKI:ACTA1 </p> <p>actin beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709 GENECARDS:ACTB REACTOME:49576 KEGG:60 ATLASONC:ACTBID42959ch7p22 WIKI:ACTB </p> <p>actin gamma 1</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261 GENECARDS:ACTG1 REACTOME:49603 KEGG:71 ATLASONC:GC_ACTG1 WIKI:ACTG1</p> <p>Map modules:</p> </body> </html> </notes> <label text="Actin*"/> <bbox w="80.0" h="40.0" x="22667.06" y="22198.8"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa31_wca1_wca3_sa31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of growth family member 3</p> <p>HUGO:ING3 HGNC:14587 ENTREZ:54556 UNIPROT:Q9NXR8 GENECARDS:ING3 KEGG:54556 ATLASONC:GC_ING3 WIKI:ING3</p> <p>Map modules:</p> </body> </html> </notes> <label text="ING3"/> <bbox w="80.0" h="40.0" x="22584.06" y="22241.4"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa27_wca1_wca3_sa27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transformation/transcription domain-associated protein</p> <p>HUGO:TRRAP HGNC:12347 ENTREZ:8295 UNIPROT:Q9Y4A5 GENECARDS:TRRAP KEGG:8295 ATLASONC:GC_TRRAP WIKI:TRRAP</p> <p>Map modules:</p> </body> </html> </notes> <label text="TRRAP"/> <bbox w="80.0" h="40.0" x="22662.06" y="22072.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa991_in_sa991" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24030977, 12907458, 12193690 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYSCASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2References:PMID:12907458, PMID:12193690IL10 upregulates expressionof IL4RA in STAT3 dependent manner.PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 24030977, 12907458, 12193690 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYSCASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2References:PMID:12907458, PMID:12193690IL10 upregulates expressionof IL4RA in STAT3 dependent manner.PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa991_in_sa991"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030977"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12907458"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12193690"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4R"/> <bbox w="70.0" h="25.0" x="9580.0" y="4827.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4458_rc_sa4458" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4458_rc_sa4458"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FADD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FADD"/> <clone/> <bbox w="80.0" h="40.0" x="29049.988" y="11213.214"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4458_rc_sa3834" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ARF6:DNM2_GTP:NME2</p> <p>Map modules:</p> <p>References:</p> <p>PMID:12447393</p> <p>Activation of (activated) ARF6 is required for dynamin-dependent endocytosis of E-cadherin.</p> <p>Nm23-H1 binds ARF6-GTP and mediates dynamin-dependent vesicle fission. 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id="s_id_em_sa2003_em_sa2003"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NME2"/> <bbox w="80.0" h="40.0" x="1984.0" y="13365.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2244_in_sa2244" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ELC_MYOSIN_II*"/> <bbox w="80.0" h="40.0" x="18940.0" y="5890.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1205_rc_sa1205" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</glyph> <glyph class="complex" id="s_id_emtc_em_csa116_emtc_em_csa116" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR200*:ZEB1_ZEB2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21336307</p> <p>PMID:21224848</p> <p>PMID:22286765</p> <p>Six1 induces ZEB1 and EMT through transcriptional repression of miR200.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<bbox w="80.0" h="40.0" x="22592.06" y="9674.25"/> <glyph class="state variable" id="_5382bd86-3f3a-4241-9094-ec08c84f7e9b"> <state value="P" variable="S604"/> <bbox w="35.0" h="10.0" x="22631.51" y="9669.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4957_rc_sa4957" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4957_rc_sa4957"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <clone/> <bbox w="80.0" h="40.0" x="25789.06" y="15779.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4957_ca_sa1007" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4957_ca_sa1007"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <clone/> <bbox w="80.0" h="40.0" x="980.0" y="3320.0"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1109_ca_sa1109" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="Alpha_ketoglutarate"/> <bbox w="70.0" h="25.0" x="3045.0" y="3727.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa47_mo_sa47" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>c-src tyrosine kinase </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa47_mo_sa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Csk"/> <bbox w="80.0" h="40.0" x="4619.0" y="10243.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa58_rc_sa58" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa58_rc_sa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCZ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCZ"/> <clone/> <bbox w="80.0" h="40.0" x="23359.06" y="11849.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa58_emtc_em_sa1481" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa58_emtc_em_sa1481"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCZ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCZ"/> <clone/> <bbox w="53.0" h="19.0" x="6334.5" y="14937.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa58_emtc_em_sa1048" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa58_emtc_em_sa1048"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCZ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCZ"/> <clone/> <bbox w="53.0" h="19.0" x="6333.5" y="15002.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4887_rc_sa4887" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>Eeyarestatin I, EerI</p> <p>PMID:19164757</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4887_rc_sa4887"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19164757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Eeyarestatin I"/> <bbox w="80.0" h="30.0" x="28191.326" y="16349.0"/> <glyph class="unit of information" id="_a26ab132-56d9-4734-8dd3-86eacb579ed9"> <label text="drug"/> <bbox w="25.0" h="10.0" x="28218.826" y="16344.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa43_wnc1_wnc1_csa43" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC2*:GSK3*</p> <p>References:</p> <p>s_wnc1_re109(MAP:survival):</p> <p>Polymerised Dvl act as scaffold for recruiting axin.</p> <p>PMID:21078818</p> <p>GSK3 phosphorylates ROR2</p> <p>PMID:17986005</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa43_wnc1_wnc1_csa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21078818"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17986005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC2*:GSK3*"/> <bbox w="100.0" h="120.0" x="15645.061" y="20077.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa266_wnc1_wnc1_sa266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6 GENECARDS:ANAPC2 REACTOME:84976 KEGG:29882 ATLASONC:GC_ANAPC2 WIKI:ANAPC2 </p> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="15654.061" y="20086.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa267_wnc1_wnc1_sa267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="15654.061" y="20128.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1574_emtc_em_sa1574" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1574_emtc_em_sa1574"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fibronectin*"/> <bbox w="72.0" h="20.0" x="5753.5" y="18692.469"/> </glyph> <glyph class="complex" id="s_id_ca_csa89_ca_csa89" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Alpha_tubulin*:Beta-tubulin*</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>CASCADE:PDGF</p> </body> </html> </notes> <label text="ca_s4474"/> <bbox w="100.0" h="140.0" x="6080.0" y="4060.0"/> <glyph class="macromolecule" id="s_id_ca_sa756_ca_sa756"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin beta class I</p> <p>HUGO:TUBB hgnc_id:HGNC:20778 HGNC:20778 ENTREZ:203068 UNIPROT:P07437 </p> <p>tubulin beta 1 class VI</p> <p>HUGO:TUBB1 hgnc_id:HGNC:16257 HGNC:16257 ENTREZ:81027 UNIPROT:Q9H4B7 </p> <p>tubulin beta 2A class IIa</p> <p>HUGO:TUBB2A hgnc_id:HGNC:12412 HGNC:12412 ENTREZ:7280 UNIPROT:Q13885 </p> <p>tubulin beta 2B class IIb</p> <p>HUGO:TUBB2B hgnc_id:HGNC:30829 HGNC:30829 ENTREZ:347733 UNIPROT:Q9BVA1 </p> <p>tubulin beta 4B class IVb</p> <p>HUGO:TUBB4B hgnc_id:HGNC:20771 HGNC:20771 ENTREZ:10383 UNIPROT:P68371 </p> <p>tubulin beta 3 class III</p> <p>HUGO:TUBB3 hgnc_id:HGNC:20772 HGNC:20772 ENTREZ:10381 UNIPROT:Q13509 </p> <p>tubulin beta 4A class IVa</p> <p>HUGO:TUBB4A hgnc_id:HGNC:20774 HGNC:20774 ENTREZ:10382 UNIPROT:P04350 </p> <p>tubulin beta 7 pseudogene</p> <p>HUGO:TUBB7P hgnc_id:HGNC:12413 HGNC:12413 ENTREZ:56604 </p> <p>tubulin beta 6 class V</p> <p>HUGO:TUBB6 hgnc_id:HGNC:20776 HGNC:20776 ENTREZ:84617 UNIPROT:Q9BUF5</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:PDGF</p> <p>PMID:17397400 </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> </body> </html> </notes> <label text="Beta-tubulin*"/> <bbox w="80.0" h="40.0" x="6090.0" y="4070.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa755_ca_sa755"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin alpha 1a</p> <p>HUGO:TUBA1A hgnc_id:HGNC:20766 HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 </p> <p>tubulin alpha 1b</p> <p>HUGO:TUBA1B hgnc_id:HGNC:18809 HGNC:18809 ENTREZ:10376 UNIPROT:P68363 </p> <p>tubulin alpha 1c</p> <p>HUGO:TUBA1C hgnc_id:HGNC:20768 HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 </p> <p>tubulin alpha 3c</p> <p>HUGO:TUBA3C hgnc_id:HGNC:12408 HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 </p> <p>tubulin alpha 3d</p> <p>HUGO:TUBA3D hgnc_id:HGNC:24071 HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 </p> <p>tubulin alpha 3e</p> <p>HUGO:TUBA3E hgnc_id:HGNC:20765 HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 </p> <p>tubulin alpha 4a</p> <p>HUGO:TUBA4A hgnc_id:HGNC:12407 HGNC:12407 ENTREZ:7277 UNIPROT:P68366 </p> <p>tubulin alpha 8</p> <p>HUGO:TUBA8 hgnc_id:HGNC:12410 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>CASCADE:PDGF</p> <p>PMID:17397400 </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> </body> </html> </notes> <label text="Alpha_tubulin*"/> <bbox w="80.0" h="40.0" x="6090.0" y="4130.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa390_ce_sa390" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa390_ce_sa390"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MSH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSH2"/> <bbox w="80.0" h="40.0" x="9587.573" y="15814.753"/> <glyph class="state variable" id="_c56f4519-eefb-4254-b3c3-596cf40256a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9582.573" y="15829.753"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa88_ca_csa88" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PLAUR:gp130*</p> <p>References:</p> <p>PMID:22470492 </p> <p>Degradation of internalized αvβ5 integrin is controlled by uPAR bound uPA: effect on β1 integrin activity and α-SMA stress fiber assembly.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa88_ca_csa88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4171"/> <bbox w="100.0" h="148.0" x="870.0" y="1716.0"/> <glyph class="macromolecule" id="s_id_ca_sa718_ca_sa718"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 6 signal transducer</p> <p>HUGO:IL6ST hgnc_id:HGNC:6021 HGNC:6021 ENTREZ:3572 UNIPROT:P40189</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:LIF, CASCADE:TGFB, CASCADE:IL6, CASCADE:PLAU</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <p>and blocks gp130 and CSF1R (CD115)surface expression.</p> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="880.0" y="1778.5"/> <glyph class="state variable" id="_b286f31f-5379-4eb7-9ea0-47b50cc42b71"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="942.5" y="1776.041"/> </glyph> <glyph class="unit of information" id="_ad7013d4-f244-4c3b-88b0-34175d2e9bca"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="897.5" y="1773.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa716_ca_sa716"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>plasminogen activator, urokinase receptor</p> <p>HUGO:PLAUR hgnc_id:HGNC:9053 HGNC:9053 ENTREZ:5329 UNIPROT:Q03405</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:PLAU</p> <p>PMID:27216177</p> <p>FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.</p> </body> </html> </notes> <label text="PLAUR"/> <bbox w="80.0" h="50.0" x="880.0" y="1733.5"/> <glyph class="unit of information" id="_15ec9383-57bd-41a7-92f1-109cb29dbf2d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="897.5" y="1728.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa743_ca_sa743" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:CASCADE:PDGF, CASCADE:TGFB, CASCADE:LIFPMID:19118022Fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblastsprobably via PDGFR-α.PMID:24857661 we noted an increased expression of PDGFRα after LIF stimulation in hPDF ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:CASCADE:PDGF, CASCADE:TGFB, CASCADE:LIFPMID:19118022Fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblastsprobably via PDGFR-α.PMID:24857661 we noted an increased expression of PDGFRα after LIF stimulation in hPDF </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa743_ca_sa743"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="s_id_ad_sa1203_ad_sa1203" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11698448</p> <p>A Role for a RhoA/ROCK/LIM-Kinase Pathway in the Regulation of Cytotoxic Lymphocytes</p> <p>ROCK inhibition in a a human CD8+ cytotoxic T cell line showed a similar dose-dependent inhibition of cell-mediated killing of anti-CD3-coated P815 (data not shown)</p> <p>Probably via LiMK.</p> <p> PMID:11784854 </p> <p>Stromal cell-derived factor 1alpha activates LIM kinase 1 and induces cofilin phosphorylation for T-cell chemotaxis.</p> <p>PMID:10652353</p> <p>Rho-associated kinase ROCK activates LIM-kinase 1 by phosphorylation at threonine 508 within the activation loop</p> <p>(in vitro assay)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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id="_88ea1693-a4a4-443e-834f-52dca015e61a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12755.061" y="21134.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa358_emtc_em_csa358" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MMP13*:TIMP family*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(MMP12/TIMP)"/> <bbox w="100.0" h="76.0" x="2178.0" y="19104.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2522_emtc_em_sa2522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TIMP metallopeptidase inhibitor 1</p> <p>"tissue inhibitor of metalloproteinase 1"</p> <p>HUGO:TIMP1 HGNC:11820 ENTREZ:7076 UNIPROT:P01033 TIMP metallopeptidase inhibitor 2</p> <p>"tissue inhibitor of metalloproteinase 2"</p> <p>HUGO:TIMP2 HGNC:11821 ENTREZ:7077 UNIPROT:P16035</p> <p>TIMP metallopeptidase inhibitor 3</p> <p>SFD, "tissue inhibitor of metalloproteinase 3 (Sorsby fundus dystrophy, pseudoinflammatory)"</p> <p>HUGO:TIMP3 HGNC:11822 ENTREZ:7078 UNIPROT:P35625</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TIMP family*"/> <bbox w="87.0" h="20.0" x="2184.5" y="19107.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2521_emtc_em_sa2521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>matrix metallopeptidase 13 (membrane-inserted)</p> <p>HUGO:MMP13, HGNC:7159, ENTREZ:4322, GENECARDS:GC11M102847, UNIPROT:P45452</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TK"/> <bbox w="90.0" h="25.0" x="20640.06" y="15036.5"/> <glyph class="unit of information" id="_68c32e85-1274-4f9d-9e2a-510337c5ebfa"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20675.06" y="15031.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1854_emtc_em_sa1854" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1854_emtc_em_sa1854"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2_TGFB2*"/> <bbox w="152.0" h="20.0" x="4206.0" y="17003.723"/> <glyph class="unit of information" id="_140fdab5-df3d-4786-a3d0-ce7559fff778"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4272.0" y="16998.723"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5384_rc_sa5384" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16856 KEGGCOMPOUND:C00051 CAS:70-18-8</p> <p>synonyms:gluthatione</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5384_rc_sa5384"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22421439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28645028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSH"/> <clone/> <bbox w="70.0" h="25.0" x="20244.06" y="10556.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5384_rc_sa2599" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16856 KEGGCOMPOUND:C00051 CAS:70-18-8</p> <p>synonyms:gluthatione</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa82_emtc_em_sa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin7*"/> <bbox w="60.0" h="17.0" x="1133.0" y="15596.582"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2852_rc_sa2852" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2852_rc_sa2852"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNG2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinG2*"/> <bbox w="90.0" h="25.0" x="21989.82" y="16041.598"/> <glyph class="unit of information" id="_e506973e-9ef3-49cb-b6ee-0944d2b375b1"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22024.82" y="16036.598"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa55_emtc_em_csa55" compartmentRef="s_id_emtc_em_ca33_emtc_em_ca33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SARA*:TGFB1:TGFBR1:TGFBR2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SARA*/TGFB1/TGFBR1/TGFBR2"/> <bbox w="59.0" h="165.0" x="6509.5" y="16331.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa463_emtc_em_sa463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="50.0" h="44.0" x="6515.5" y="16412.0"/> <glyph class="unit of information" id="_76ba8dd3-a3d2-4109-865c-63e3822a1ef2"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6530.5" y="16407.0"/> </glyph> <glyph class="state variable" id="_23ada8f2-521c-4036-8848-9aaff1a5d14e"> <state value="P" variable="Ser"/> <bbox w="30.0" h="10.0" x="6500.5" y="16408.023"/> </glyph> <glyph class="state variable" id="_f3c0ca84-f371-4add-9bb6-fc3e1301c1d9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6560.5" y="16407.236"/> </glyph> <glyph class="unit of information" id="_77eb47fe-71c3-44dd-9bcc-eebaebb11e20"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6518.0" y="16407.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa462_emtc_em_sa462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="50.0" h="26.0" x="6514.0" y="16380.5"/> <glyph class="unit of information" id="_cde31d6c-529c-4a16-9c4b-22c5f40a8344"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6529.0" y="16375.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa464_emtc_em_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger, FYVE domain containing 9</p> <p>HUGO:ZFYVE9, HGNC:6775, ENTREZ:9372, UNIPROT:O95405, GENECARDS:GC01P052608</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9865696</p> <p>SARA interacts directly with Smad2 and Smad3</p> <p>SARA presents Smad2 to the TGFb receptor</p> <p>Phosphorylation of Smad2 induces dissociation from SARA with concomitant formation of Smad2-Smad4 complexes and nuclear translocation.</p> <p>PMID:11792802</p> <p>-SARA contains a FYVE motif which is known to bind phosphatidylinositol 3-phosphate. </p> <p>It might anchor Smad2 to the inner leaflet of the plasma membrane or endosomal vesicles.</p> <p>SARA thus provides a first example of how TGFB signaling centres may be organised at the plasma membrane or endosomal vesicles.</p> <p>-Several other proteins with possible roles in Smad anchoring:</p> <p>PMID:10678166</p> <p>Microtubules can anchor inactive Smads in the cytoplasm</p> <p>Activation by a ligand results in dissociation of the Smads from the microtubule network</p> <p>It is possible that microtubules serve as tracks for intracellular Smad movement</p> <p>PMID:11278410</p> <p>Filamin, an actin crosslinking factor and scaffolding protein also associates with Smads and positively regulates transduction of Smad signals.</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:9865696</p> <p>SARA interacts directly with Smad2 and Smad3</p> <p>SARA presents Smad2 to the TGFb receptor</p> <p>Phosphorylation of Smad2 induces dissociation from SARA with concomitant formation of Smad2-Smad4 complexes and nuclear translocation.</p> </body> </html> </notes> <label text="SARA*"/> <bbox w="55.0" h="20.0" x="6512.5" y="16458.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa461_emtc_em_sa461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor II (70/80kDa)</p> <p>HUGO:TGFBR2, HGNC:11773, ENTREZ:7048, UNIPROT:P37173, GENECARDS:GC03P030623</p> <p>Map modules:</p> 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<title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16947 KEGGCOMPOUND:C00158 CAS:126-44-3</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>charge:3-</p> </body> </html> </notes> <label text="citrate"/> <bbox w="70.0" h="25.0" x="18383.303" y="11604.625"/> </glyph> <glyph class="complex" id="s_id_rc_csa351_rc_csa351" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:GTP:RAC1_2*</p> </body> </html> </notes> <label text="RAC:GTP"/> <bbox w="98.0" h="104.0" x="23759.56" y="10539.5"/> <glyph class="macromolecule" id="s_id_rc_sa3280_rc_sa3280"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 </p> <p>ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)</p> <p>HUGO:RAC2 HGNC:9802 ENTREZ:5880 UNIPROT:P15153</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27331412</p> <p>Methuosis is a caspase-independent cell death accompanied by vacuolization of macropinosomes resulting from dysregulation of macropinocytosis.</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="23768.56" y="10546.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3279_rc_sa3279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <clone/> <bbox w="60.0" h="20.0" x="4363.0" y="14413.5"/> <glyph class="unit of information" id="_e44bdcc7-e291-4bdf-be0f-effef3333a2c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4383.0" y="14408.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa854_rc_sa738" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa854_rc_sa738"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <clone/> <bbox w="90.0" h="25.0" x="24082.56" y="16016.5"/> <glyph class="unit of information" id="_546184ab-27f9-433b-ae82-0029cff20dcf"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24117.56" y="16011.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1103_in_sa1103" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11875494, 22067385, 20644162, 11399519, 16127449, 17689680, 24777831, 17476345, 12646658, 16424049, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:IFNGReferences:PMID:17476345NOS2, a heme-containing enzymethat catalyzes the synthesis of NO and citrulline from l-Arg, isexpressed by various cells of the immune system, and its activa-tion is considered a hallmark of classically activated macrophages(also known as M1 macrophages), a macrophage subset that pro-duces proinflammatory cytokines and acts as the effector cell inthe killing of invading pathogens and tumor cells.PMID:17689680, PMID:12646658STAT1 binds to INOS promoter and induces INOS expression and NO production downstream of IFNG in murine macrophages. Acetylation inhibits STAT1 binding to promotor.().PMID:11399519STAT1, IRF1 and NF-kB interact with NOS2 promoter and cooperatively activate NOS2 expression in mouse macrophages (PMID:16127449PPARG sumoilated by PIAS1/UbC9 prevents dissociation of the NCoR-HDAC3 complex fro promotersand transrepresses NF-kB dependent expression NOS2, Ccl3, Ccl7, Cxcl10PMID:17689680STAT1, IRF1 and NF-kB interact with NOS2 promoter and cooperatively activate NOS2 expression in macrophages downstteam of IFNG.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.PMID:16424049iNOS expression was induced by IFN-gamma stimulation in MDSC, probably via STAT1.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23PMID:11875494IL10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expressionPPARG sumoilated by PIAS1/UbC9 prevents dissociation of the NCoR-HDAC3 complex fro promoters and transrepresses expression NOS2, Ccl3, Ccl7, Cxcl10IFNG induces INOS and IL10 expression and TGFB secretion in MDSCPMID:24777831IFN-g induces the cytotoxic function of IL-4 DCs but not IL-15 DCs.iNOS expression was induced by IFN-gamma stimulation in IL4-DC but not in IL15DC via STAT1 ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 11875494, 22067385, 20644162, 11399519, 16127449, 17689680, 24777831, 17476345, 12646658, 16424049, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:IFNGReferences:PMID:17476345NOS2, a heme-containing enzymethat catalyzes the synthesis of NO and citrulline from l-Arg, isexpressed by various cells of the immune system, and its activa-tion is considered a hallmark of classically activated macrophages(also known as M1 macrophages), a macrophage subset that pro-duces proinflammatory cytokines and acts as the effector cell inthe killing of invading pathogens and tumor cells.PMID:17689680, PMID:12646658STAT1 binds to INOS promoter and induces INOS expression and NO production downstream of IFNG in murine macrophages. Acetylation inhibits STAT1 binding to promotor.().PMID:11399519STAT1, IRF1 and NF-kB interact with NOS2 promoter and cooperatively activate NOS2 expression in mouse macrophages (PMID:16127449PPARG sumoilated by PIAS1/UbC9 prevents dissociation of the NCoR-HDAC3 complex fro promotersand transrepresses NF-kB dependent expression NOS2, Ccl3, Ccl7, Cxcl10PMID:17689680STAT1, IRF1 and NF-kB interact with NOS2 promoter and cooperatively activate NOS2 expression in macrophages downstteam of IFNG.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.PMID:16424049iNOS expression was induced by IFN-gamma stimulation in MDSC, probably via STAT1.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23PMID:11875494IL10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expressionPPARG sumoilated by PIAS1/UbC9 prevents dissociation of the NCoR-HDAC3 complex fro promoters and transrepresses expression NOS2, Ccl3, Ccl7, Cxcl10IFNG induces INOS and IL10 expression and TGFB secretion in MDSCPMID:24777831IFN-g induces the cytotoxic function of IL-4 DCs but not IL-15 DCs.iNOS expression was induced by IFN-gamma stimulation in IL4-DC but not in IL15DC via STAT1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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<p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5500_rc_sa5500"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VopS*"/> <bbox w="70.0" h="25.0" x="29284.06" y="9136.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa4_wca1_wca4_csa4" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Kindlin2*:TCF4:WRE*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca4_re3:(MAP:survival) PMID:22699938</p> <p>s_wca4_re4(MAP:survival):</p> <p>PMID:22699938</p> <p>E2F1</p> <p>PMID:15766563</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa4_wca1_wca4_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15766563"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Kindlin2*:TCF4:WRE*:β-Catenin*"/> <bbox w="183.0" h="127.0" x="23545.06" y="20926.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa12_wca1_wca4_sa12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="23647.06" y="20985.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca4_sa10_wca1_wca4_sa10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fermitin family member 2</p> <p>KIND2 "kindlin-2" mig-2 UNC112B</p> <p>HUGO:FERMT2 HGNC:15767 ENTREZ:10979 UNIPROT:Q96AC1 GENECARDS:FERMT2 REACTOME:98372 KEGG:10979 ATLASONC:GC_FERMT2 WIKI:FERMT2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Kindlin2*"/> <bbox w="80.0" h="40.0" x="23559.06" y="20979.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca4_sa11_wca1_wca4_sa11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="TCF4"/> <bbox w="80.0" h="40.0" x="23641.06" y="20942.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca4_sa9_wca1_wca4_sa9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23559.06" y="20937.0"/> <glyph class="state variable" id="_eb6dea28-2ad6-43e9-ace8-707e18fac70b"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23624.06" y="20932.213"/> </glyph> <glyph class="state variable" id="_5108bda3-98d6-4974-bf01-2c4e544feb51"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23573.277" y="20932.0"/> </glyph> <glyph class="state variable" id="_2b80f148-752d-4e78-9b83-ae2a0533c952"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23544.553" y="20932.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4905_rc_sa4905"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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text="ACTN4"/> <bbox w="47.0" h="17.0" x="6048.0" y="15534.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_in_sa1000_in_sa1000" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 15356132, 19380816, 23454751, 18776941, 15573129, 12223527, 20237412, 10347215, 15218058, 14607900, 20581311, 20093776, 20406969, 7543512, 16418395, 14670306, 23124025 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:NEUTROPHIL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IFNAB</p> <p>References:</p> <p>21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates JAK1</p> <p>Two tyrosines (Tyr 446 and Tyr 496) of IL-10RA</p> <p>are phosphorylated by the JAK1, to which</p> <p> the transcription factor STAT3 binds via its SH2 domain</p> <p> and in turn becomes itself phosphorylated.</p> <p>PMID:10347215</p> <p>Only JAK1/STAT3 pathway (but not TYK) plays role in</p> <p>anti-inflammatory action of IL10 in macrophages.</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Stat3 activation (tyr 705) by IL-4 requires Jak1 kinase in monocytes</p> <p>PMID:15218058</p> <p>Stat3 binds ILR1N promoter and upregulates expression of IL1RN downstream of IL10</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:23454751</p> <p>MDSC showed high phosphorylated STAT3 levels that correlated with arginase-I expression levels and activity.</p> <p>phosphorylated STAT3 binds to multiple sites in the arginase-I promoter. Rescue of arginase-I activity after STAT3 blockade restored MDSC's suppressive function.</p> <p>Taken together, these results demonstrate that the suppressive function of arginase-I in both infiltrating and circulating MDSC is a downstream target of activated STAT3.</p> <p>PMID:20581311</p> <p>STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.</p> <p>STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.</p> <p>PMID:19380816</p> <p>MDSC-induced immune suppression is mediated by reactive oxygen species (ROS).</p> <p>STAT3 mediates the function of MDSCs by regulating NADPH oxidase (NOX2) expression</p> <p> In the absence of NOX2 activity, MDSC lost the ability to suppress T cell responses</p> <p>PMID:20093776</p> <p>IL6 signaling ilduces STAT3 phosphorylation in MDSC cells.</p> <p>PMID:20406969</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> <p>PMID:18776941</p> <p>Expression of VEGF and bFGF, but also IL-1B, MMP9, CCL2, and CXCL2 is STAT3-dependent in myeloid cells.</p> <p>PMID:15573129</p> <p>Constitutively active STAT3 inhibited the functional maturation of DCs in vitro.</p> <p>PMID:15356132</p> <p>The activation of STAT3 by IL-6 was required for the suppression of LPS-induced DC maturation. In addition, STAT3 was required for the IL-6-mediated suppression of bone-marrow-derived DC activation and/or maturation.</p> <p>16286017</p> <p>IL-6-STAT3 Controls Intracellular MHC Class II aB Dimer Level through Cathepsin S Activity in Dendritic Cells. IL-6 Stimulation via STAT3 Decreased Cystatin C Expression, Increased the Cathepsin S Activity, and Reduced the MHCII aB Dimer Level in DCs In Vivo</p> <p>G-CSF signaling by STAT3 controls c-myc transcription by regulating the ratio of C/EBPa to C/EBPB at the c-myc promoter</p> <p>Stat3 activity is required for tumor factor-induced migration of ECs.</p> <p>PMID:14670306, PMID:16418395</p> <p>FLT3 sidnaling in Dcs acts via STAT3</p> <p>PMID:20237412</p> <p>IFN-B regulates expression of homing and angiogenic factors in neutrophils.</p> <p>IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophils</p> <p>additionally Stat3 and c-myc are downregulated by IFN-B.</p> <p>(STAT3 is known to be required for full activation of the Cxcr4 gene )</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa367_emtc_em_sa367"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2"/> <bbox w="58.0" h="22.0" x="5094.0" y="16461.375"/> </glyph> <glyph class="complex" id="s_id_ce_csa124_ce_csa124" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK4,6*/CycD*"/> <bbox w="100.0" h="111.0" x="11128.473" y="9735.356"/> <glyph class="macromolecule" id="s_id_ce_sa802_ce_sa802"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, UNIPROT:P24385</p> <p>Cyclin D2</p> <p>HUGO:CCND2, HGNC:1583, ENTREZ:894, UNIPROT:P30279</p> <p>Cyclin D3</p> <p>HUGO:CCND3, HGNC:1585, ENTREZ:896, UNIPROT:P30281</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinD*"/> 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id="s_id_akt1_akt1_sa473_akt1_akt1_sa473" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa473_akt1_akt1_sa473"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <clone/> <bbox w="80.0" h="40.0" x="14101.061" y="18538.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa473_emtc_em_sa934" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa473_emtc_em_sa934"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <clone/> <bbox w="28.0" h="19.0" x="4648.0" y="13782.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa691_rc_sa691" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa691_rc_sa691"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKBIA"/> <bbox w="90.0" h="25.0" x="23642.56" y="16049.5"/> <glyph class="unit of information" id="_79a4ea72-3104-4c50-ad79-3588c81c5e22"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23677.56" y="16044.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4702_rc_sa4702" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4702_rc_sa4702"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22841746"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Nucleotide Synthesis"/> <bbox w="80.0" h="30.0" x="18219.06" y="10554.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa502_rc_csa502" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EIF2B1:EIF2B3:EIF2B4:EIF2B5:NDUFS1</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:16246152</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa502_rc_csa502"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16246152"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF2B*"/> <clone/> <bbox w="100.0" h="235.0" x="27809.06" y="15081.5"/> <glyph class="macromolecule" id="s_id_rc_sa5143_rc_sa5143"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit delta</p> <p>HUGO:EIF2B4 hgnc_id:HGNC:3260 HGNC:3260 ENTREZ:8890 UNIPROT:Q9UI10</p> </body> </html> </notes> <label text="EIF2B4"/> <clone/> <bbox w="80.0" h="40.0" x="27819.06" y="15211.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5142_rc_sa5142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit gamma</p> <p>HUGO:EIF2B3 hgnc_id:HGNC:3259 HGNC:3259 ENTREZ:8891 UNIPROT:Q9NR50</p> </body> </html> </notes> <label text="EIF2B3"/> <clone/> <bbox w="80.0" h="40.0" x="27819.06" y="15171.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5141_rc_sa5141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit beta</p> <p>HUGO:EIF2B2 hgnc_id:HGNC:3258 HGNC:3258 ENTREZ:8892 UNIPROT:P49770</p> </body> </html> </notes> <label text="EIF2B2"/> <clone/> <bbox w="80.0" h="40.0" x="27819.06" y="15131.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5144_rc_sa5144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit epsilon</p> <p>HUGO:EIF2B5 hgnc_id:HGNC:3261 HGNC:3261 ENTREZ:8893 UNIPROT:Q13144</p> </body> </html> </notes> <label text="EIF2B5"/> <clone/> <bbox w="80.0" h="40.0" x="27819.06" y="15251.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5140_rc_sa5140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit alpha</p> <p>HUGO:EIF2B1 hgnc_id:HGNC:3257 HGNC:3257 ENTREZ:1967 UNIPROT:Q14232</p> </body> </html> </notes> <label text="EIF2B1"/> <clone/> <bbox w="80.0" h="40.0" x="27819.06" y="15091.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa502_rc_csa483" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EIF2B1:EIF2B3:EIF2B4:EIF2B5:NDUFS1</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:16246152</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa502_rc_csa483"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16246152"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF2B*"/> <clone/> <bbox w="100.0" h="235.0" x="26939.06" y="15194.0"/> <glyph class="macromolecule" id="s_id_rc_sa5142_rc_sa5095"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit gamma</p> <p>HUGO:EIF2B3 hgnc_id:HGNC:3259 HGNC:3259 ENTREZ:8891 UNIPROT:Q9NR50</p> </body> </html> </notes> <label text="EIF2B3"/> <clone/> <bbox w="80.0" h="40.0" x="26949.06" y="15284.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5140_rc_sa5093"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit alpha</p> <p>HUGO:EIF2B1 hgnc_id:HGNC:3257 HGNC:3257 ENTREZ:1967 UNIPROT:Q14232</p> </body> </html> </notes> <label text="EIF2B1"/> <clone/> <bbox w="80.0" h="40.0" x="26949.06" y="15204.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5144_rc_sa5097"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit epsilon</p> <p>HUGO:EIF2B5 hgnc_id:HGNC:3261 HGNC:3261 ENTREZ:8893 UNIPROT:Q13144</p> </body> </html> </notes> <label text="EIF2B5"/> <clone/> <bbox w="80.0" h="40.0" x="26949.06" y="15364.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5143_rc_sa5096"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit delta</p> <p>HUGO:EIF2B4 hgnc_id:HGNC:3260 HGNC:3260 ENTREZ:8890 UNIPROT:Q9UI10</p> </body> </html> </notes> <label text="EIF2B4"/> <clone/> <bbox w="80.0" h="40.0" x="26949.06" y="15324.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5141_rc_sa5094"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2B subunit beta</p> <p>HUGO:EIF2B2 hgnc_id:HGNC:3258 HGNC:3258 ENTREZ:8892 UNIPROT:P49770</p> </body> </html> </notes> <label text="EIF2B2"/> <clone/> <bbox w="80.0" h="40.0" x="26949.06" y="15244.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa158_mo_sa158" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>mitogen-activated protein kinase 1</p> <p>mitogen-activated protein kinase 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa158_mo_sa158"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1_2*"/> <bbox w="80.0" h="40.0" x="4469.0" y="10912.0"/> <glyph class="state variable" id="_a3b497cb-5e79-43c5-bf6a-c9275a7554c4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4518.0684" y="10907.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2096_in_sa2096" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="PTGS2"/> <bbox w="70.0" h="25.0" x="12375.0" y="5747.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa3_an_sa3" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12682</p> <p>PMID:22064427</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa3_an_sa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22064427"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFC"/> <bbox w="80.0" h="40.0" x="4932.0" y="5665.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1794_emtc_em_sa1794" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1794_emtc_em_sa1794"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSG3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmoglein*"/> <bbox w="77.0" h="17.0" x="2309.0" y="16757.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc3_sa36_wnc1_wnc3_sa36" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CAS:77538-56-8 CHEBI:50114</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PUBCHEM:47206027 KEGGDRUG:D04071</p> </body> </html> </notes> <label text="estrogen"/> <bbox w="70.0" h="25.0" x="15833.061" y="20302.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1748_emtc_em_sa1748" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1748_emtc_em_sa1748"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <bbox w="78.0" h="28.0" x="1287.5" y="16345.5"/> <glyph class="state variable" id="_4964653c-1587-4c04-a88e-0d7d8c186528"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="1358.0" y="16366.858"/> </glyph> <glyph class="state variable" id="_42411152-c17d-4395-9d06-3e1a71220d0b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1337.1132" y="16340.5"/> </glyph> <glyph class="state variable" id="_891ed0fd-bd09-4b3d-a2ef-b3368b959159"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1282.5" y="16342.182"/> </glyph> <glyph class="state variable" id="_6d070700-b524-446e-9549-9aa33a5d6a5c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1321.531" y="16340.5"/> </glyph> <glyph class="state variable" id="_689f7633-9249-4a56-8377-6a980daaaeb1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1305.0476" y="16340.5"/> </glyph> <glyph class="state variable" id="_654f68ea-e242-4051-972e-007fdc9b70ac"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1360.5" y="16340.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa934_in_sa934" compartmentRef="s_id_in_ca12_in_ca12"> <label text="RUNX1"/> <bbox w="80.0" h="40.0" x="11670.0" y="4500.625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa913_rc_sa913" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa913_rc_sa913"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACLY"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACLY"/> <bbox w="80.0" h="40.0" x="18158.303" y="11657.125"/> <glyph class="state variable" id="_2345a96d-e061-48ae-9f3f-356644c0e285"> <state value="" variable="S454"/> <bbox w="30.0" h="10.0" x="18200.252" y="11652.125"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa226_ce_csa226" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:CDC25B</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CDC25B/14-3-3*"/> <bbox w="101.0" h="126.0" x="12402.473" y="10388.356"/> <glyph class="macromolecule" id="s_id_ce_sa1143_ce_sa1143"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB, HGNC:12849, ENTREZ:7529, UNIPROT:P31946</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG, HGNC:12852, ENTREZ:7532, UNIPROT:P61981</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH, HGNC:12853, ENTREZ:7533, UNIPROT:Q04917</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE, HGNC:12851, ENTREZ:7531, UNIPROT:P62258</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ, HGNC:12854, ENTREZ:10971, UNIPROT:P27348</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ, HGNC:12855, ENTREZ:7534, UNIPROT:Q6NUR9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:21708191, PMID:21621563, PMID:21533173, PMID:16678438, PMID:16556040</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="12415.751" y="10447.247"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1149_ce_sa1149"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 25 homolog B (S. pombe)</p> <p>HUGO:CDC25B, HGNC:1726, ENTREZ:994, UNIPROT:P30305</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE</p> <p>References:</p> <p>PMID:1075565, PMID:18073536, PMID:18786381, PMID:17568790, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC25B"/> <bbox w="80.0" h="40.0" x="12418.547" y="10405.364"/> <glyph class="state variable" id="_627fe75c-94f7-4913-b26f-dbfdc3a64fc4"> <state value="P" variable="S230"/> <bbox w="35.0" h="10.0" x="12401.047" y="10420.332"/> </glyph> <glyph class="state variable" id="_75ac22bb-5e59-4a86-91f7-1024359188e8"> <state value="P" variable="S323"/> <bbox w="35.0" h="10.0" x="12401.047" y="10431.249"/> </glyph> <glyph class="state variable" id="_ed175e56-017b-4c04-90b7-641a4de38015"> <state value="" variable="S353"/> <bbox w="30.0" h="10.0" x="12460.026" y="10400.364"/> </glyph> <glyph class="state variable" id="_1fdc806a-3e0c-42f1-ba44-2e75758479b9"> <state value="P" variable="S151"/> <bbox w="35.0" h="10.0" x="12401.047" y="10409.621"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa118_rc_sa118" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa118_rc_sa118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACO2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACO2"/> <bbox w="80.0" h="40.0" x="19045.56" y="14962.5"/> <glyph class="state variable" id="_a890d911-24cd-4555-9bc3-0a60b1ba4137"> <state value="oxidized" variable=""/> <bbox w="50.0" h="10.0" x="19060.56" y="14957.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa29_ce_sa29" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa29_ce_sa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIG3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIG3"/> <bbox w="80.0" h="40.0" x="9591.77" y="16975.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa3_wca1_wca4_csa3" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TCF4:WRE*</p> <p>References:</p> <p>s_wca4_re3:(MAP:survival) PMID:22699938</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa3_wca1_wca4_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TCF4:WRE*"/> <bbox w="100.0" h="120.0" x="23344.06" y="21074.0"/> <glyph class="macromolecule" id="s_id_wca1_wca4_sa7_wca1_wca4_sa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="TCF4"/> <bbox w="80.0" h="40.0" x="23357.06" y="21090.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa8_wca1_wca4_sa8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="23363.06" y="21133.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3775_rc_sa3775" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3775_rc_sa3775"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGM1"/> <bbox w="80.0" h="40.0" x="17899.06" y="9849.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa515_ca_sa515" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa515_ca_sa515"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREBBP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREBBP"/> <clone/> <bbox w="80.0" h="40.0" x="5390.0" y="3520.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa515_an_sa389" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa515_an_sa389"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREBBP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREBBP"/> <clone/> <bbox w="80.0" h="40.0" x="5279.5" y="6720.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1131_emtc_em_sa1131" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1131_emtc_em_sa1131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGAP26"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP26"/> <bbox w="69.0" h="17.0" x="6151.5" y="14236.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa71_mpk1_mpk1_csa71" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:GSK3_beta_*:RSK*</p> </body> </html> </notes> <label text="ERK*:GSK3β*:RSK*"/> <bbox w="111.0" h="106.0" x="9102.061" y="20148.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa352_mpk1_mpk1_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="9134.061" y="20154.46"/> <glyph class="state variable" id="_ea3d18a1-6017-4294-9a1a-0e0acdca0001"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9126.561" y="20166.316"/> </glyph> <glyph class="state variable" id="_c9439182-af8e-4af4-beeb-a5fc2dc3828e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9126.561" y="20157.012"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa354_mpk1_mpk1_sa354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ribosomal protein S6 kinase 90kDa polypeptide 1</p> <p>"ribosomal protein S6 kinase 90kD polypeptide 1"</p> <p>HUGO:RPS6KA1 HGNC:10430 ENTREZ:6195 UNIPROT:Q15418 </p> <p>ribosomal protein S6 kinase 90kDa polypeptide 2</p> <p>"ribosomal protein S6 kinase 90kD polypeptide 2"</p> <p>HUGO:RPS6KA2 HGNC:10431 ENTREZ:6196 UNIPROT:Q15349 </p> <p>ribosomal protein S6 kinase 90kDa polypeptide 3</p> <p>CLS "Coffin-Lowry syndrome" "mental retardation X-linked 19" MRX19 "ribosomal protein S6 kinase 90kD polypeptide 3"</p> <p>HUGO:RPS6KA3 HGNC:10432 ENTREZ:6197 UNIPROT:P51812 </p> <p>ribosomal protein S6 kinase 90kDa polypeptide 6</p> <p>"ribosomal protein S6 kinase 90kD polypeptide 6"</p> <p>HUGO:RPS6KA6 HGNC:10435 ENTREZ:27330 UNIPROT:Q9UK32</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RSK2 is a well known ERK substrate in the cytoplasm.</p> <p>RSKs are exclusively activated by ERK. Activated RSK can be found in both nuclear and cytoplasmic compartments.</p> <p>PMID:15239952 PMID:15187187</p> </body> </html> </notes> <label text="RSK*"/> <bbox w="50.0" h="25.0" x="9132.061" y="20206.46"/> <glyph class="state variable" id="_45ced51a-86f5-43f9-bcd4-fa855aade94f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9124.561" y="20213.96"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa353_mpk1_mpk1_sa353"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. 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Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>GRAP2 (GADS, GRPL)</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:10209041 </p> <p>GrpL, a Grb2-related Adaptor Protein, Interacts with SLP-76 to Regulate Nuclear Factor of Activated T Cell Activation</p> </body> </html> </notes> <label text="GRAP2"/> <bbox w="80.0" h="40.0" x="28523.5" y="3917.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1014_ad_sa1014"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PLCG1</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:CD226, CASCADE:TCR</p> <p>PMID:1712101; PMID:25456276 </p> <p>Functional activation of the T-cell antigen receptor induces tyrosine phosphorylation of phospholipase C-gamma 1.</p> <p>The exception is T-cell receptor activation, which is linked to PLCG1, not PLCG2.</p> <p>PLCγ enzymes are mainly activated through tyrosine </p> <p>phosphorylation by receptor and non-receptor kinases. As in all other PLC families, </p> <p>the main signaling output is generation of the second messengers inositol 1,4,5-</p> <p>trisphosphate (IP3, or InsP3) and diacylglycerol (DAG), from phosphatidylinositol 4,5-</p> <p>bisphosphate (PIP2, or PtdIns(4,5)P2). The released IP3 binds to IP3 receptors on the </p> <p>endoplasmic reticulum resulting in Ca2+ release into the cytoplasm. D</p> <p>PMID:10811803; PMID:9846483</p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>LAT Is Required for TCR-Mediated Activation of PLCγ1 and the Ras Pathways.</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>Tec family kinases directly activate PLCγ1 and regulate Ca2+ responses in immune cells</p> <p>AP-1 activation by Tec is largely dependent on PLCγ1 function. Moreover, ionomycin did not enhance Tec-induced AP-1 activation (Fig. 4C), also suggesting that Tec contributes to AP-1 activation upstream of Ca2+ release.</p> <p>PMID:14764585; PMID:11994416 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of Phospholipase C-γ1 via Phosphoinositide 3-Kinase-dependent and -independent Pathways</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> </body> </html> </notes> <label text="PLCG1"/> <bbox w="80.0" h="40.0" x="28423.5" y="3917.5"/> <glyph class="state variable" id="_146f95d7-8d1f-45c3-ac8a-e7e1f4201b8c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28416.0" y="3932.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1021_ad_sa1021"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>HUGO:LAT</p> <p>PMID:23620508</p> <p>LAT (linker for activation of T cells) is a scaffold protein that assembles key effectors of T cell activation, such as SLP-76, PLCγ1, Grb2 and others. After its phosphorylation by ZAP70 and Lck, LAT recruits many other signaling proteins to form protein microclusters that are distinct from TCR microclusters</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:25137453; PMID:16102570</p> <p>LAT as a signaling hub in TCR signaling</p> <p>Subsequent biochemical studies helped define the binding partners of phosphorylated LAT molecules and showed that in T cells most of the signalling activity of LAT is funnelled through the four COOH‐terminal tyrosine residues found at positions 136, 175, 195, and 235 of the mouse LAT sequence (Figure 1 ; Figure 2) (Lin 2001; Paz 2001; Zhang 2000 ; Zhu 2003). After TCR‐induced phosphorylation, these four tyrosines manifest some specialization in the SH2‐domain‐containing proteins they recruit. For instance, mutation of tyrosine (Y) 136 primarily eliminates binding of phospholipase C‐γ1 (PLC‐γ1), whereas the simultaneous mutation of Y175 and Y195, or of Y175, Y195, and Y235 results in loss of binding of the Gads and Grb2/Grap adaptors, respectively</p> <p>Gads interacts constitutively with the adaptor SLP‐76, thereby recruiting it to LAT, together with its constellation of associated molecules (Vav, Nck, Itk, adhesion and degranulation promoting adaptor protein (ADAP)). SLP‐76 contributes to PLC‐γ1 activation by stabilizing the LAT‐PLC‐γ1 association and by bringing the Tec family PTK Itk in the vicinity of its PLC‐γ1‐substrate</p> <p>In addition to PLC‐γ1, another major effector molecule functioning downstream of LAT is the Ras GTPase, whose activation is defective in both Lat‐ and Slp‐76‐deficient T cells. In T cells, the functional coupling between LAT and Ras occurs mainly through an SLP‐76‐PLC‐γ1‐RasGRP1 pathway, and secondarily via a Grb2‐Sos axis</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:14764585 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>pathway. In Vav1-deficient cells there is a failure to form a LAT-Grb2-Sos complex following TCR stimulation, probably because of reduced phosphorylation of key tyrosine residues on LAT. 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Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="28523.5" y="3967.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1032_ad_sa1032"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:GRAP</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:8995379; PMID:9489702</p> <p>The Grb2‐like adaptor Grap is specifically expressed in lymphocytes. 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa189_wnc1_wnc4_sa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="70.0" h="25.0" x="19041.06" y="21468.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa189_emtc_em_sa2067" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa189_emtc_em_sa2067"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="81.0" h="20.0" x="2922.0" y="16348.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2606_in_sa2606" compartmentRef="s_id_in_ca12_in_ca12"> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="13320.0" y="4846.875"/> <glyph class="state variable" id="_e8b40086-c895-4e3c-9505-684fafa42d88"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13312.5" y="4861.875"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1513_in_sa1513" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="22645.0" y="3150.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4866_rc_sa4866" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:26618107</p> <p>PMID:28747251</p> <p>PMID:27157108 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4866_rc_sa4866"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26618107"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27157108"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="high Ca2+ cytosol level"/> <bbox w="145.0" h="33.0" x="26576.56" y="12812.75"/> </glyph> <glyph class="complex" id="s_id_rc_csa509_rc_csa509" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATF3:ATF4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:19164757</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa509_rc_csa509"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19164757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF3:ATF4"/> <bbox w="100.0" h="130.0" x="28311.326" y="16389.0"/> <glyph class="macromolecule" id="s_id_rc_sa5168_rc_sa5168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>activating transcription factor 4</p> <p>HUGO:ATF4 hgnc_id:HGNC:786 HGNC:786 ENTREZ:468 UNIPROT:P18848</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="ATF4"/> <bbox w="80.0" h="40.0" x="28321.326" y="16449.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5167_rc_sa5167"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>activating transcription factor 3</p> <p>HUGO:ATF3 hgnc_id:HGNC:785 HGNC:785 ENTREZ:467 UNIPROT:P18847</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="ATF3"/> <bbox w="80.0" h="40.0" x="28321.326" y="16399.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa457_rc_csa457" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATG3:LC3-I*:Phosphatidyl ethanolamine</p> <p>References:</p> <p>23725295</p> <p>PMID:24070470</p> <p>PMID:22166994</p> <p>PMID:23030059</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa457_rc_csa457"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG8*:ATG10"/> <bbox w="284.0" h="125.0" x="28666.81" y="12076.583"/> <glyph class="macromolecule" id="s_id_rc_sa4392_rc_sa4392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microtubule-associated protein 1 light chain 3 alpha</p> <p>HUGO:MAP1LC3A HGNC:6838 ENTREZ:84557 UNIPROT:Q9H492</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:23301705</p> <p>PMID:23377657</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="LC3-I*"/> <bbox w="80.0" h="40.0" x="28682.156" y="12090.314"/> <glyph class="unit of information" id="_6404fd32-bcb7-4021-b1f4-72be191cb7af"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28697.156" y="12085.314"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4456_rc_sa4456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 3</p> <p>HUGO:ATG3 HGNC:20962 ENTREZ:64422 UNIPROT:Q9NT62</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:23301705</p> <p>PMID:23377657</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="ATG3"/> <bbox w="80.0" h="40.0" x="28677.703" y="12139.643"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4393_rc_sa4393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Phosphatidyl ethanolamine"/> <bbox w="160.0" h="33.0" x="28773.156" y="12112.314"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1244_emtc_em_sa1244" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1244_emtc_em_sa1244"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH1"/> <bbox w="38.0" h="18.0" x="5357.0" y="16119.791"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa375_te_sa375" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription factor AP-2 alpha (activating enhancer binding protein 2 alpha)</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa375_te_sa375"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFAP2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFAP2A"/> <bbox w="80.0" h="40.0" x="6426.06" y="21284.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh1_sa296_shh1_shh1_sa296" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="PI3K AKT MTOR pathway"/> <clone/> <bbox w="80.0" h="30.0" x="26479.06" y="18146.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh1_sa296_shh1_shh3_sa56" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="PI3K AKT MTOR pathway"/> <clone/> <bbox w="80.0" h="30.0" x="26618.06" y="23069.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa101_ca_csa101" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR31:SATB2</p> </body> </html> </notes> <label text="ca_s4586"/> <bbox w="100.0" h="100.0" x="2310.0" y="3960.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa901_ca_sa901"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR31Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:23171795Downregulation of miR-31 and miR-214 and upregulation of miR-155 was confirmed in all CAF and induced CAF samples;CCL5 is a Target of miR-214 . The CCL5 secreted by CAFs is a key tumor-promoting factor.PMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:23171795Downregulation of miR-31 and miR-214 and upregulation of miR-155 was confirmed in all CAF and induced CAF samples;CCL5 is a Target of miR-214 . The CCL5 secreted by CAFs is a key tumor-promoting factor.PMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. </body> </html> </notes> <label text="MIR31"/> <bbox w="90.0" h="25.0" x="2315.0" y="3966.5"/> <glyph class="unit of information" id="_0b001920-9f80-4a05-9694-bae53af8a31d"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2345.0" y="3961.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa900_ca_sa900"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:HUGO:SATB2MODULE:FIBROBLAST_ACTIVATION_MARKERSPMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. ----- content merged by Celldesigner to SBGN-ML translation ------ References:MODULE:FIBROBLAST_ACTIVATION_MARKERSPMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. </body> </html> </notes> <label text="SATB2"/> <bbox w="90.0" h="25.0" x="2315.0" y="3997.5"/> <glyph class="unit of information" id="_cd517727-7f52-4577-89f3-223f9a3d428f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2350.0" y="3992.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa5_wca1_wca4_csa5" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD8:MIR375</p> <p>References:</p> <p>s_wca4_re7:(MAP:survival) PMD:23396279</p> </body> </html> </notes> <label text="FZD8:MIR375"/> <bbox w="100.0" h="84.0" x="23851.06" y="22552.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa19_wca1_wca4_sa19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 375</p> <p>MIRN375</p> <p>HUGO:MIR375 HGNC:31868 ENTREZ:494324 GENECARDS:MIR375 KEGG:494324 ATLASONC:GC_MIR375 WIKI:MIR375</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>microRNA 375</p> <p>MIRN375</p> <p>HUGO:MIR375 HGNC:31868 ENTREZ:494324 GENECARDS:MIR375 KEGG:494324 ATLASONC:GC_MIR375 WIKI:MIR375</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR375"/> <bbox w="90.0" h="25.0" x="23857.06" y="22561.0"/> <glyph class="unit of information" id="_24b796eb-080f-4de3-927b-478290f8d7da"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23887.06" y="22556.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa20_wca1_wca4_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8</p> <p>Map modules:</p> </body> </html> </notes> <label text="FZD8"/> <bbox w="90.0" h="25.0" x="23857.06" y="22589.0"/> <glyph class="unit of information" id="_c8a16357-e721-4e68-a9f1-e5445e466b77"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23892.06" y="22584.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2722_rc_sa2722" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2722_rc_sa2722"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-CO3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-CO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-CO3"/> <bbox w="90.0" h="25.0" x="20818.06" y="15076.5"/> <glyph class="unit of information" id="_84b7c022-c595-4ccf-bfd5-ae17d2704a02"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20853.06" y="15071.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1622_emtc_em_sa1622" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1622_emtc_em_sa1622"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Talin*"/> <bbox w="39.0" h="16.0" x="5484.0" y="17995.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2087_rc_sa2087" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2087_rc_sa2087"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RRM2*"/> <bbox w="80.0" h="40.0" x="18882.81" y="11695.25"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa25_akt1_akt1_csa25" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> <p>References:</p> <p>s_akt1_re55(MAP:survival):</p> <p>PMID:19864431</p> <p>PMID:12150925</p> <p>PMID:15755954</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa25_akt1_akt1_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19864431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12150925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15755954"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="171.0" h="240.0" x="14093.561" y="19063.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa150_akt1_akt1_sa150"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="14098.061" y="19118.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa523_akt1_akt1_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="14181.561" y="19118.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa152_akt1_akt1_sa152"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="162.0" h="66.0" x="14097.061" y="19218.0"/> <glyph class="state variable" id="_e6ef611e-08eb-4522-9ea2-831d6bbe39de"> <state value="P" variable="S1261"/> <bbox w="40.0" 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10485906, 12193701, 12811837 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IFNG, CASCADE:IL4</p> <p>References:</p> <p>SOCS-1 decreases IFNG signaling via inhiviting the catalytic activity of JAKs.</p> <p>PMID:12811837</p> <p>SOCS-1 overexpression resulted in a nearly complete loss of IFNG responsiveness in macrophages.</p> <p>PMID:10485906</p> <p>SOCS1 inhibits STAT6 activation downstream of IFNG and downregulates IL4 signaling pathway.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and RIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1517_in_sa1517"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10485906"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12193701"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOCS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12811837"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOCS1"/> <bbox w="100.0" h="70.0" x="23235.0" y="2385.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa17_wca1_wca4_sa17" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa17_wca1_wca4_sa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD8"/> <bbox w="70.0" h="25.0" x="23609.06" y="22695.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4722_rc_sa4722" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4722_rc_sa4722"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ERN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRE1-alpha*"/> <bbox w="80.0" h="70.0" x="26219.06" y="15754.0"/> <glyph class="state variable" id="_76eac72f-a3fb-4c3e-88c6-373db933d86c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26270.629" y="15749.0"/> </glyph> <glyph class="unit of information" id="_979a093c-af6b-4055-ae12-d0f31c0bb179"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26236.56" y="15749.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa472_ad_sa472" compartmentRef="s_id_ad_ca15_ad_ca15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> <p>PMID:8432729 </p> <p>Granzymes A and B are targeted to the lytic granules of lymphocytes by the mannose-6-phosphate receptor.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa472_ad_sa472"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8432729"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMA"/> <bbox w="80.0" h="40.0" x="28676.0" y="8230.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1375_ce_sa1375" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1375_ce_sa1375"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UNG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UNG"/> <bbox w="80.0" h="40.0" x="10510.27" y="15472.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2473_in_sa2473" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 10432118</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2473_in_sa2473"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10432118"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALOX15"/> <bbox w="80.0" h="40.0" x="10597.25" y="3781.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa217_shh1_shh2_sa217" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa217_shh1_shh2_sa217"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR378"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR378"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR378"/> <clone/> <bbox w="90.0" h="25.0" x="26605.06" y="22112.5"/> <glyph class="unit of information" id="_f39114b5-3662-4374-9408-55e15a346711"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="26635.06" y="22107.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa217_shh1_shh2_sa177" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa217_shh1_shh2_sa177"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR378"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR378"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR378"/> <clone/> <bbox w="90.0" h="25.0" x="27678.06" y="21399.5"/> <glyph class="unit of information" id="_284ddedf-b312-4b38-bad6-fc88cc012d13"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27708.06" y="21394.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1349_ce_sa1349" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1349_ce_sa1349"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GINS4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GINS4"/> <bbox w="80.0" h="40.0" x="13823.5" y="9742.384"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5307_rc_sa5307" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16811</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5307_rc_sa5307"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Methionine"/> <bbox w="70.0" h="25.0" x="26314.06" y="9856.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa2_wnc1_wnc3_csa2" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NF-_kappa_B:NFAT*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Dimer formation with homomers of NFAT.</p> <p>PMID:11402342</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa2_wnc1_wnc3_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11402342"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(NFAT/NF-kB)"/> <bbox w="179.0" h="94.0" x="15381.061" y="21088.0"/> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa18_wnc1_wnc3_sa18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for NF-kB transcription factorReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for NF-kB transcription factorReferences:This is not a gene but used to indicate binding DNA sequence for NF-kB transcription factor </body> </html> </notes> <label text="NF-κB"/> <bbox w="164.0" h="22.0" x="15387.061" y="21137.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa17_wnc1_wnc3_sa17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="15470.561" y="21095.0"/> <glyph class="state variable" id="_70f85020-eaaa-4f27-87ea-e642053692c3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15545.561" y="21110.0"/> </glyph> <glyph class="state variable" id="_de1e638d-f4bf-4ff7-9773-ff46ed37f28e"> <state value="" 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variable="S289"/> <bbox w="30.0" h="10.0" x="15469.217" y="21130.0"/> </glyph> <glyph class="state variable" id="_8b060f8c-d2f2-455f-8291-1722820145e2"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="15489.417" y="21130.0"/> </glyph> <glyph class="state variable" id="_4c30926a-244c-40b7-8896-e717cb35a10d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15505.561" y="21130.0"/> </glyph> <glyph class="state variable" id="_bab154f2-e36a-48ad-88ba-a1a50a45da3f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15488.992" y="21130.0"/> </glyph> <glyph class="state variable" id="_77f1a9f9-6347-41e3-8070-e80a4c90eb9d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15465.564" y="21130.0"/> </glyph> <glyph class="state variable" id="_34d544bc-48c2-4284-9068-fce0d2ce085f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15465.561" y="21110.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa17_wnc1_wnc3_sa16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="15387.061" y="21095.0"/> <glyph class="state variable" id="_ea0a230d-0ce9-49a5-a7e6-0e6c0a8f290d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15462.061" y="21110.0"/> </glyph> <glyph class="state variable" id="_0c50bacc-028b-45ee-8747-13563178ad05"> <state value="" 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variable=""/> <bbox w="10.0" h="10.0" x="15462.061" y="21101.715"/> </glyph> <glyph class="state variable" id="_b5f06e56-3da6-4c33-9eae-daeb2bc0a03e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15405.492" y="21090.0"/> </glyph> <glyph class="state variable" id="_9e680fee-f844-4f6f-b0ce-def38e32489b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15382.064" y="21090.0"/> </glyph> <glyph class="state variable" id="_fc75b63f-60f5-47d3-8e83-54abfa9ed057"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15382.064" y="21090.0"/> </glyph> <glyph class="state variable" id="_4def5197-f7e4-4a04-afe1-2f7774d9ebac"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15382.061" y="21101.717"/> </glyph> <glyph class="state variable" id="_5280d7c1-72c6-4099-a1f8-f4bd323fa057"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15382.061" y="21118.283"/> </glyph> <glyph class="state variable" id="_ce056dc3-5bcb-44ac-ab33-dc9b22b573a4"> <state value="" variable="S289"/> <bbox w="30.0" h="10.0" x="15385.717" y="21130.0"/> </glyph> <glyph class="state variable" id="_8c04aa4f-2f85-40c2-aed4-6704aa2c8f67"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="15405.917" y="21130.0"/> </glyph> <glyph class="state variable" id="_b5bd7671-31aa-491e-bae4-8ec4cc320e81"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15422.061" y="21130.0"/> </glyph> <glyph class="state variable" id="_abda6336-0530-4f21-a651-edb0fa5f03d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15405.492" y="21130.0"/> </glyph> <glyph class="state variable" id="_e5922448-b29f-4a13-8731-578f43401231"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15382.064" y="21130.0"/> </glyph> <glyph class="state variable" id="_08ebf79e-f388-4416-9018-6cbc1f2b7832"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15382.061" y="21110.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa8_wca1_wca2_csa8" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKK1:KRM*:LRP5_6*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re22:(MAP:survival) PMID:20543981</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa8_wca1_wca2_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20543981"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK1:KRM*:LRP5_6*"/> <bbox w="150.0" h="100.0" x="23891.06" y="18430.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa55_wca1_wca2_sa55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dickkopf 1 homolog (Xenopus laevis)</p> <p>"dickkopf (Xenopus laevis) homolog 1"</p> <p>HUGO:DKK1 HGNC:2891 ENTREZ:22943 UNIPROT:O94907 GENECARDS:DKK1 KEGG:22943 ATLASONC:DKK1ID44007ch10q11 WIKI:DKK1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DKK1"/> <bbox w="40.0" h="20.0" x="23921.06" y="18440.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa57_wca1_wca2_sa57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kringle containing transmembrane protein 1</p> <p>HUGO:KREMEN1 HGNC:17550 ENTREZ:83999 UNIPROT:Q96MU8 GENECARDS:KREMEN1 KEGG:83999 WIKI:KREMEN1 </p> <p>kringle containing transmembrane protein 2</p> <p>HUGO:KREMEN2 HGNC:18797 ENTREZ:79412 UNIPROT:Q8NCW0 GENECARDS:KREMEN2 KEGG:79412 WIKI:KREMEN2</p> <p>Map modules:</p> </body> </html> </notes> <label text="KRM*"/> <bbox w="35.0" h="60.0" x="23983.56" y="18450.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa56_wca1_wca2_sa56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="23901.06" y="18455.0"/> <glyph class="state variable" id="_2b0f1424-77e8-4cf1-b5b5-d865de6a209d"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="23883.56" y="18474.96"/> </glyph> <glyph class="state variable" id="_e67cf7a2-24cf-478a-86ae-be918b27cf68"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="23963.56" y="18450.266"/> </glyph> <glyph class="state variable" id="_4becd317-ebeb-4824-8fba-146a0a35cd40"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="23962.941" y="18500.0"/> </glyph> <glyph class="state variable" id="_58441b22-f3e2-4d74-986f-402171b35f5a"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="23922.664" y="18500.0"/> </glyph> <glyph class="state variable" id="_5083b1c3-fae7-4de3-a075-f2f2f4ab38e4"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="23883.8" y="18500.0"/> </glyph> <glyph class="state variable" id="_91ac171f-a8ee-42c9-ad4a-eb13e783826f"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="23923.592" y="18450.0"/> </glyph> <glyph class="unit of information" id="_61631771-6c38-4c57-b624-bab737f5f402"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23918.56" y="18450.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa22_wnc1_wnc2_csa22" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*:NFAT*:PPP3CB:PPP3R*</p> <p>References:</p> <p>s_wnc2_re42:(MAP:survival) PMID:21115349</p> <p>s_wnc2_re44(MAP:survival):</p> <p>Tubulin-alpha binds both NFAT and KPNB1 after dephosphorylation of NFAT.</p> <p>PMID:21278340</p> <p>TNPO1 is a transport protein that helps in the import of proteins into the nucleus. Although it has been described with associated with NRON, it is most likely that it binds first to NFAT complex, making this complex ready for import, then NRON can bind to this complex to hinder the import of the complex</p> <p>PMID:21709260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa22_wnc1_wnc2_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21115349"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21278340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin/_BR_Calmodulin/_BR_Ca2+)"/> <bbox w="102.0" h="258.0" x="18664.56" y="18385.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa98_wnc1_wnc2_sa98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18674.06" y="18434.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa82_wnc1_wnc2_sa82"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18674.06" y="18545.0"/> <glyph class="state variable" id="_dbbc6d18-9f1b-4154-9a5c-b2bd8bbb3afb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18749.06" y="18560.0"/> </glyph> <glyph class="state variable" id="_0d221e4a-d96d-481b-8560-73a1d3f99fe7"> <state value="" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18701.81" y="18518.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa99_wnc1_wnc2_sa99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="18674.06" y="18477.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa97_wnc1_wnc2_sa97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="18674.06" y="18391.5"/> <glyph class="state variable" id="_e582df86-b36f-4284-9e26-7e0324b15449"> <state value="" variable="S197"/> <bbox w="30.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4815_rc_sa4815"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TMBIM6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TMBIM6"/> <clone/> <bbox w="80.0" h="50.0" x="25939.06" y="13754.0"/> <glyph class="unit of information" id="_9f4dde63-82ee-40d9-b00b-4fb99552b125"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25956.56" y="13749.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4815_rc_sa4972" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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h="30.0" x="20708.06" y="21604.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1634_emtc_em_sa1634" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1634_emtc_em_sa1634"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH7B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH7B"/> <bbox w="51.0" h="17.0" x="5638.912" y="16119.791"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa647_ad_sa647" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:CD8</p> <p>MODULE:TH1, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR, CASCADE:CD226, CASCADE:PD1</p> <p>PMID:12670391</p> <p>PI3K in T cells</p> <p>PMID:11135576 </p> <p>Akt provides the CD28 costimulatory signal for up-regulation of IL-2 and IFN-gamma but not TH2 cytokines.</p> <p>Phosphorylation of Akt induced by CD28 ligation via PI3K</p> <p>PMID:23087689</p> <p>PMID:23732914 </p> <p>Inhibition of CK2 during stimulation via TCR/CD3 and CD28 recapitulated the effects of PD-1 and resulted in diminished PTEN expression and phosphorylation in the C-terminal regulatory region. These events were associated with diminished activation of the PI3K/Akt pathway, as determined by impaired phosphorylation of Akt and its downstream target, GSK3β</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> <p>PMID:19406987 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1</p> <p>PMID:16962653; PMID:18566586 </p> <p>TORC2 is the elusive PDK2 for Akt/PKB Ser473 phosphorylation in the hydrophobic motif. (not immune model)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa647_ad_sa647"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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x="29816.0" y="4365.0"/> <glyph class="state variable" id="_9c9e1f9c-8e9b-4bb1-bfd1-4a747ab88946"> <state value="P" variable="Thr308"/> <bbox w="45.0" h="10.0" x="29794.527" y="4400.0"/> </glyph> <glyph class="state variable" id="_2686dde3-09b3-4c4e-9624-f261c7ea0204"> <state value="" variable="ser473"/> <bbox w="40.0" h="10.0" x="29876.0" y="4361.7705"/> </glyph> <glyph class="state variable" id="_eb8b65ff-ea8f-4023-9ce9-40537090e27d"> <state value="P" variable="Thr450"/> <bbox w="45.0" h="10.0" x="29873.5" y="4396.279"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa222_an_sa222" compartmentRef="s_id_an_ca1_an_ca1"> <label text="AGPAT3"/> <bbox w="80.0" h="40.0" x="4749.0" y="6720.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1410_rc_sa1410" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1410_rc_sa1410"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APIP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APIP"/> <bbox w="80.0" h="40.0" x="24069.06" y="15069.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1944_rc_sa1944" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1944_rc_sa1944"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <clone/> <bbox w="80.0" h="40.0" x="26434.06" y="10942.674"/> <glyph class="state variable" id="_622f2550-594c-44b2-bf4c-35729921b4ca"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="26478.62" y="10937.674"/> </glyph> <glyph class="state variable" id="_7d863354-81d1-416f-814f-cbf488163787"> <state value="" variable="T308"/> <bbox w="30.0" h="10.0" x="26439.502" y="10937.674"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1944_rc_sa4192" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1944_rc_sa4192"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <clone/> <bbox w="80.0" h="40.0" x="21159.06" y="9439.0"/> <glyph class="state variable" id="_8f3763d2-ea20-4886-b9ba-885199d3003c"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21203.62" y="9434.0"/> </glyph> <glyph class="state variable" id="_86cdb02c-a28a-4914-a41b-0c6592f45d84"> <state value="" variable="T308"/> <bbox w="30.0" h="10.0" x="21164.502" y="9434.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa858_rc_sa858" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17634 KEGGCOMPOUND:C00031 CAS:50-99-7</p> <p>References:</p> <p>PMID:12546687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa858_rc_sa858"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="glucose"/> <bbox w="70.0" h="25.0" x="17644.06" y="9606.5"/> </glyph> <glyph class="simple chemical" id="s_id_te_sa431_te_sa431" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Nucleotide</p> <p>CHEBI:36976</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="Nucleotides"/> <clone/> <bbox w="70.0" h="25.0" x="3684.06" y="22200.5"/> </glyph> <glyph class="simple chemical" id="s_id_te_sa431_te_sa443" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Nucleotide</p> <p>CHEBI:36976</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="Nucleotides"/> <clone/> <bbox w="70.0" h="25.0" x="3766.06" y="22398.5"/> </glyph> <glyph class="simple chemical" id="s_id_te_sa431_te_sa497" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Nucleotide</p> <p>CHEBI:36976</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="Nucleotides"/> <clone/> <bbox w="70.0" h="25.0" x="4022.2825" y="22371.889"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa608_ca_sa608" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa608_ca_sa608"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA3"/> <clone/> <bbox w="80.0" h="50.0" x="7420.0" y="1995.0"/> <glyph class="unit of information" id="_465da652-51de-459d-9352-1dcc0d8b39a5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7437.5" y="1990.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa608_emtc_em_sa298" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa608_emtc_em_sa298"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA3"/> <clone/> <bbox w="40.0" h="20.0" x="4177.129" y="17842.5"/> <glyph class="unit of information" id="_f23a387f-9aa5-4f39-a5d3-56088bd9c801"> <label text="receptor"/> <bbox w="40.0" h="10.0" x="4177.129" y="17837.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa492_in_sa492" compartmentRef="s_id_in_ca12_in_ca12"> <label text="VAV1"/> <bbox w="80.0" h="40.0" x="15550.0" y="2805.0"/> <glyph class="state variable" id="_72e31de1-ea5d-4c68-befd-8b5ca54a1b43"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="15540.0" y="2820.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa31_ca_csa31" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IL1R1:IL1RAP:IRAK4:MYD88</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:IL1</p> <p>PMID:19161412 </p> <p>IL-1 signaling is initiated by the recruitment of MyD88 to the IL-1RI/IL-1RAcP complex.</p> <p>The recruitment of MyD88 leads to the recruitment of IRAK1 and IRAK4, probably via their death domains. IRAK4 then activates IRAK1, allowing IRAK1 to autophosphorylate.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa31_ca_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161412"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s1099"/> <bbox w="187.0" h="145.0" x="2003.0" y="1165.0"/> <glyph class="macromolecule" id="s_id_ca_sa345_ca_sa345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor accessory protein</p> <p>HUGO:IL1RAP hgnc_id:HGNC:5995 HGNC:5995 ENTREZ:3556 UNIPROT:Q9NPH3</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:IL1</p> <p>PMID:18977329</p> <p>IL-1β activates MDSC in vitro and in vivo through an IL-1RI/NF-κB pathway.</p> </body> </html> </notes> <label text="IL1RAP"/> <bbox w="80.0" h="50.0" x="2013.0" y="1180.0"/> <glyph class="unit of information" id="_da6e8fc1-1e87-4fc3-8892-481ca3cab9f7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2030.5" y="1175.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa344_ca_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor type 1</p> <p>HUGO:IL1R1 hgnc_id:HGNC:5993 HGNC:5993 ENTREZ:3554 UNIPROT:P14778</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:IL1</p> <p>PMID:18977329</p> <p>IL-1β activates MDSC in vitro and in vivo through an IL-1RI/NF-κB pathway.</p> </body> </html> </notes> <label text="IL1R1"/> <bbox w="80.0" h="50.0" x="2009.25" y="1235.0"/> <glyph class="unit of information" id="_fb30bb2a-9417-4de0-af55-7c349d8ff808"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2026.75" y="1230.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa352_ca_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid differentiation primary response 88</p> <p>HUGO:MYD88 hgnc_id:HGNC:7562 HGNC:7562 ENTREZ:4615 UNIPROT:Q99836</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:14660645, PMID:16878026, PMID:23681101</p> <p>The adaptor proteins MyD88 and TIRAP associate with TLR 2 and TLR 4 after receptor engagement. </p> <p>PMID:23811849</p> <p>HMGB1 is a nuclear nonhistone chromatin-binding protein. It is secreted at the late stages of cellular demise and iactivates TLR4/MyD88 pathway in dendritic cells (DCs) to accelerate the processing of phagocytic cargo in the DC and to facilitate antigen presentation by DC to T cells.</p> <p>PMID:17704786</p> <p>DCs require signaling through TLR4 and its adaptor MyD88 for efficient processing and cross-presentation of antigen from dying tumor cells.</p> </body> </html> </notes> <label text="MYD88"/> <bbox w="80.0" h="40.0" x="2099.25" y="1190.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa351_ca_sa351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor associated kinase 4</p> <p>HUGO:IRAK4 hgnc_id:HGNC:17967 HGNC:17967 ENTREZ:51135 UNIPROT:Q9NWZ3</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:12620219</p> <p>MyD88 mediates a close interaction of the two related IRAK molecules, </p> <p>which is essential to allow IRAK-4 to phosphorylate IRAK-1. Phosphorylation of IRAK-1 </p> <p>reduces its affinity for MyD88, while increasing its affinity for TRAF6</p> <p>PMID:12682231</p> <p>IL18 signaling induces IRAK4 activation (phosphorylation) and activate JNK/AP1 pathway via IRAK4</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="IRAK4"/> <bbox w="80.0" h="40.0" x="2099.25" y="1240.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa826_in_sa826" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KIR2DL2"/> <bbox w="80.0" h="50.0" x="11035.0" y="1345.0"/> <glyph class="unit of information" id="_280a5af0-044f-4cbe-85e3-14f559d20d42"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11052.5" y="1340.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1972_in_sa1972" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TNIP3"/> <bbox w="90.0" h="25.0" x="20680.0" y="3207.5"/> <glyph class="unit of information" id="_607795d5-64a2-4d41-853a-6a2b5e25010d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20715.0" y="3202.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa547_akt1_akt1_sa547" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa547_akt1_akt1_sa547"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RB1CC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FIP200*"/> <bbox w="80.0" h="40.0" x="14042.061" y="19742.0"/> <glyph class="state variable" id="_60a05e4c-f155-4072-9aeb-44df78309b45"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14037.064" y="19737.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3918_rc_sa3918" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>References:</p> <p>PMID:22427918</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3918_rc_sa3918"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20531300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22427918"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved Caspase 10*"/> <clone/> <bbox w="80.0" h="40.0" x="24519.06" y="10009.0"/> <glyph class="unit of information" id="_8ee08bd1-cd5d-45fb-a8fa-6d5b51f6316e"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="24534.06" y="10004.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3918_rc_sa3920" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>References:</p> <p>PMID:22427918</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3918_rc_sa3920"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20531300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22427918"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved Caspase 10*"/> <clone/> <bbox w="80.0" h="40.0" x="24969.06" y="13359.0"/> <glyph class="unit of information" id="_61fd683c-470d-45fd-bd05-5660dacf7421"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="24984.06" y="13354.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1019_ca_sa1019" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:18287025</p> <p>PLCG is upstream of JNK in the pathway of NKG2D-mediated cytotoxicity</p> <p>PMID:20189481</p> <p>PLCG inhibitor completely abrogated synergistic Erk phosphorylation downstream of NKG2D and 2B4.</p> <p>These data suggest that PLCG, rather than PI3K, is a critical upstream regulator of Erk activation in this pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1019_ca_sa1019"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18287025"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20189481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IP3"/> <bbox w="70.0" h="25.0" x="5255.0" y="2147.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5263_rc_sa5263" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:DMT1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5263_rc_sa5263"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC11A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC11A2"/> <clone/> <bbox w="80.0" h="50.0" x="27299.06" y="9269.0"/> <glyph class="unit of information" id="_fb627769-f3b3-44cb-bd5a-320543ab3da9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27316.56" y="9264.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5263_rc_sa5299" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:DMT1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5263_rc_sa5299"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC11A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC11A2"/> <clone/> <bbox w="80.0" h="50.0" x="27069.06" y="9329.0"/> <glyph class="unit of information" id="_3b9d64da-4f66-4a4e-8982-7b12401b993d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27086.56" y="9324.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa344_ce_sa344" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa344_ce_sa344"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MNAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MNAT1"/> <bbox w="80.0" h="40.0" x="12124.702" y="9433.964"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2318_emtc_em_sa2318" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1-Phosphatidyl-1D-myo-inositol 3,4-bisphosphate</p> <p>CAS:N/A PUBCHEM:13721 CHEBI:16152 KEGGCOMPOUND:C11554</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="PI(3,4)P2"/> <bbox w="70.0" h="25.0" x="5587.0" y="13279.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2110_in_sa2110" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2110_in_sa2110"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <bbox w="80.0" h="40.0" x="18681.0" y="3620.0"/> <glyph class="state variable" id="_c6e0fedd-fdc7-4223-a469-92d056248689"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18676.0" y="3634.9683"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa542_rc_csa542" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase1*:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa542_rc_csa542"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ASC:Caspase1*:ASC:Caspase1*"/> <bbox w="123.0" h="133.0" x="28341.56" y="9785.25"/> <glyph class="macromolecule" id="s_id_rc_sa5417_rc_sa5416"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 1</p> <p>HUGO:CASP1 hgnc_id:HGNC:1499 HGNC:1499 ENTREZ:834 UNIPROT:P29466</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase1*"/> <bbox w="80.0" h="40.0" x="28366.56" y="9847.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5417_rc_sa5417"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 1</p> <p>HUGO:CASP1 hgnc_id:HGNC:1499 HGNC:1499 ENTREZ:834 UNIPROT:P29466</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase1*"/> <bbox w="80.0" h="40.0" x="28356.56" y="9837.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5439_rc_sa5439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="28356.56" y="9797.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5439_rc_sa5440"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="28366.56" y="9807.75"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa5473_rc_sa5473" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5473_rc_sa5473"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gram-negative bacteria"/> <bbox w="140.0" h="25.0" x="28099.06" y="9046.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa211_rc_csa211" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2L11:BCL2L2</p> </body> </html> </notes> <label text="BCL2L11:BCL2L2"/> <bbox w="96.0" h="122.0" x="21713.31" y="13437.0"/> <glyph class="macromolecule" id="s_id_rc_sa1666_rc_sa1666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 2</p> <p>HUGO:BCL2L2 HGNC:995 ENTREZ:599 UNIPROT:Q92843</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL-W</p> </body> </html> </notes> <label text="BCL2L2"/> <bbox w="80.0" h="40.0" x="21719.06" y="13489.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1667_rc_sa1667"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>synonym:BIM</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="80.0" h="40.0" x="21722.31" y="13448.0"/> <glyph class="state variable" id="_18efc397-dc1d-4225-9677-0ef2c2da62fd"> <state value="" variable="S58"/> <bbox w="25.0" h="10.0" x="21789.81" y="13443.216"/> </glyph> <glyph class="state variable" id="_0d90a300-80ed-4780-bb9c-98cc69f9a79e"> <state value="" variable="S44"/> <bbox w="25.0" h="10.0" x="21710.303" y="13443.0"/> </glyph> <glyph class="state variable" 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<rdf:li rdf:resource="urn:miriam:pubmed:24418198"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12754507"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL6R*:SOCS3"/> <bbox w="182.0" h="138.0" x="9569.0" y="2946.25"/> <glyph class="macromolecule" id="s_id_in_sa2449_in_sa2449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL6R"/> <bbox w="80.0" h="50.0" x="9581.0" y="3008.75"/> <glyph class="unit of information" id="_33dbbb66-9668-438c-a17e-e41ef7c7991d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9598.5" y="3003.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2448_in_sa2448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="9581.0" y="2958.75"/> <glyph class="state variable" id="_a340c791-7219-4533-a5af-e8829c03ee7c"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="9643.5" y="2956.291"/> </glyph> <glyph class="unit of information" id="_53d6be75-887d-4ec4-abf5-3ae44ae570bd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9598.5" y="2953.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2450_in_sa2450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:TLR2_4, CASCADE:IL6, CASCADE:TNF, CASCADE:CSF2</p> <p>References:</p> <p>PMID:12754507, PMID:24418198</p> <p>SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759)</p> <p>Of gp130 to suppress IL-6 signaling.</p> <p>PMID:12754507</p> <p>IL-6 induces an anti-inflammatory response in the absence of SOCS3 in macrophages.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SOCS3"/> <bbox w="80.0" h="40.0" x="9660.0" y="2985.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa926_ad_sa926" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:15079071 In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 downstream CD28CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promotersPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:15079071 In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 downstream CD28CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promotersPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa926_ad_sa926"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15079071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15079071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL8"/> <bbox w="90.0" h="25.0" x="26771.0" y="7712.5"/> <glyph class="unit of information" id="_9c3dbe23-6bc9-496e-b248-b9eff982a87b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26806.0" y="7707.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa25_akt1_akt2_csa25" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO4:promoter_region</p> <p>References:</p> <p>s_akt2_re1:(MAP:survival) PMID:10783894 PMID:20673124 PMID:11094066 PMID:11994454</p> <p>s_akt2_re61(MAP:survival):</p> <p>PMID15509806</p> <p>PMID20673124</p> <p>s_akt2_re79(MAP:survival):</p> <p>PMID:17646672</p> <p>s_akt2_re86:(MAP:survival) PMID:15509806 PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa25_akt1_akt2_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10783894"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11094066"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11994454"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17646672"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15509806"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO4:promoter_region"/> <bbox w="105.0" h="101.0" x="12407.061" y="20961.0"/> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa153_akt1_akt2_sa153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="12418.561" y="21020.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa2_akt1_akt2_sa2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O4</p> <p>HUGO:FOXO4 HGNC:7139 ENTREZ:4303 UNIPROT:P98177 GENECARDS:FOXO4 REACTOME:404982 KEGG:4303 ATLASONC:AFX1ID57 WIKI:FOXO4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="12416.394" y="20971.0"/> <glyph class="state variable" id="_e8c1fe0a-98ee-479b-ad2d-5def112173bd"> <state value="" variable="T28"/> <bbox w="25.0" h="10.0" x="12404.386" y="20966.0"/> </glyph> <glyph class="state variable" id="_6921e810-047a-447b-9e79-7572eb9168dd"> <state value="" variable="S258"/> <bbox w="30.0" h="10.0" x="12480.775" y="21006.0"/> </glyph> <glyph class="state variable" id="_79c1d00a-ccb6-4baf-8b0b-3a0dff75be35"> <state value="" variable="S193"/> <bbox w="30.0" h="10.0" x="12481.394" y="20966.217"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4980_rc_sa4980" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4980_rc_sa4980"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RYR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RYR1"/> <bbox w="80.0" h="40.0" x="26625.154" y="13079.0"/> <glyph class="unit of information" id="_aa8808dc-29de-41cb-8ae4-9712fccd7474"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26642.654" y="13074.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa12_wnc1_wnc1_csa12" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:E-Cadherin*:FZD*:GTP:G_alpha_*:G_beta_*:G_gamma_*:LGR5:LRP5_6*:RSPO1-4*:WNT*:p120*</p> <p>References:</p> <p>s_wnc1_re19(MAP:survival):</p> <p>PMID:21727895</p> <p>PMID:21909076</p> <p>s_wnc1_re20(MAP:survival):</p> <p>Association of LGR5 w/ Wnt-receptors leads to synergistic TOPFLASH reporter activity</p> <p>LGR5 antagonises Wnt signalling</p> <p>PMID:21829496</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa12_wnc1_wnc1_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21727895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909076"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21829496"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:E-Cadherin*:FZD*:GTP:Gα*:Gβ*:Gγ*:LGR5:LRP5_6*:RSPO1-4*:WNT*:p120*"/> <bbox w="324.0" h="191.0" x="16143.061" y="17661.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa92_wnc1_wnc1_sa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>leucine-rich repeat containing G protein-coupled receptor 5</p> <p>"G protein-coupled receptor 49", GPR49, GPR67, "leucine-rich repeat-containing G protein-coupled receptor 5"</p> <p>HUGO:LGR5 HGNC:4504 ENTREZ:8549 UNIPROT:O75473 GENECARDS:LGR5 KEGG:8549 ATLASONC:GC_LGR5 WIKI:LGR5</p> <p>Map modules:</p> </body> </html> </notes> <label text="LGR5"/> <bbox w="80.0" h="50.0" x="16162.061" y="17735.0"/> <glyph class="unit of information" id="_1ab4cde5-c21e-4739-9dad-c2fb9fffb11d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16179.561" y="17730.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa78_wnc1_wnc1_sa78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="16277.311" y="17789.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa73_wnc1_wnc1_sa73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="16244.061" y="17737.5"/> <glyph class="unit of information" id="_9dfdadd7-13c1-4853-92fa-75f828aa4d3b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16261.561" y="17732.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa79_wnc1_wnc1_sa79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="16318.311" y="17789.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa72_wnc1_wnc1_sa72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="16244.061" y="17693.5"/> <glyph class="unit of information" id="_ad6c0a9d-a144-4109-ad3a-b2bca3ef2fdd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16261.561" y="17688.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa75_wnc1_wnc1_sa75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="16381.061" y="17744.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa77_wnc1_wnc1_sa77"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 11 (Gq class) </p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12 </p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 5Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="16236.061" y="17789.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa93_wnc1_wnc1_sa93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 1</p> <p>HUGO:RSPO1 HGNC:21679 ENTREZ:284654 UNIPROT:Q2MKA7 GENECARDS:RSPO1 KEGG:284654 ATLASONC:RSPO1ID44137ch1p34 WIKI:RSPO1 </p> <p>R-spondin 2</p> <p>HUGO:RSPO2 HGNC:28583 ENTREZ:340419 UNIPROT:Q6UXX9 GENECARDS:RSPO2 KEGG:340419 ATLASONC:GC_RSPO2 WIKI:RSPO2 </p> <p>R-spondin 3</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3 </p> <p>R-spondin 4</p> <p>HUGO:RSPO4 HGNC:16175 ENTREZ:343637 UNIPROT:Q2I0M5 GENECARDS:RSPO4 KEGG:343637 WIKI:RSPO4</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO1-4*"/> <bbox w="40.0" h="30.0" x="16179.061" y="17709.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa74_wnc1_wnc1_sa74"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="55.0" h="105.0" x="16326.061" y="17674.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa81_wnc1_wnc1_sa81"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="16265.061" y="17679.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa76_wnc1_wnc1_sa76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16381.061" y="17785.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa80_wnc1_wnc1_sa80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="16249.561" y="17807.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa273_te_sa273" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa273_te_sa273"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21945180"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="5540.06" y="20179.0"/> <glyph class="unit of information" id="_b3f335d7-a947-4bf3-9256-ee9043e6ea44"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="5573.06" y="20174.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa28_an_csa28" compartmentRef="s_id_an_ca1_an_ca1"> <label text="an_s312"/> <bbox w="180.0" h="120.0" x="4562.0" y="6375.0"/> <glyph class="macromolecule" id="s_id_an_sa266_an_sa266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:thrombospondin 1</p> <p>HGNC:11785</p> </body> </html> </notes> <label text="THBS1"/> <bbox w="80.0" h="40.0" x="4572.0" y="6435.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa265_an_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TNFRSF10A, HUGO:TNFRSF10A</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="4652.0" y="6430.0"/> <glyph class="unit of information" id="_03bf329f-ecf1-4df0-b4e7-5577b5924617"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4669.5" y="6425.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa264_an_sa264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="4652.0" y="6385.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5372_rc_sa5372" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:peripheral benzodiazepine receptor,PBR</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:15033708</p> <p>PMID:18309324</p> <p>PMID:25486353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5372_rc_sa5372"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TPSO"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15033708"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18309324"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25486353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSPO"/> <bbox w="80.0" h="50.0" x="23659.06" y="12814.0"/> <glyph class="unit of information" id="_9752e17d-3df8-41f3-95eb-b269f8c5426d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23676.56" y="12809.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa206_wnc1_wnc2_sa206" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa206_wnc1_wnc2_sa206"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEF2*"/> <bbox w="80.0" h="40.0" x="18107.56" y="19415.0"/> <glyph class="state variable" id="_20fd54d9-5d4d-4a46-b949-007d43f17953"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18102.564" y="19410.0"/> </glyph> <glyph class="state 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5525_rc_sa5525"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL1A"/> <bbox w="80.0" h="40.0" x="29359.06" y="10069.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1510_in_sa1510" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 8683106, 18272812, 17689680, 12967644, 12223527, 25960930, 15814715, 14607900, 17016554, 12193701, 17513775, 11830590, 14764699, 21930765, 12811837, 19833085 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:MDSC</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IL15, CASCADE:IL21, CASCADE:SCF2, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>PMID:19833085</p> <p>STAT1 is activated downstream of IFNG by phosphorylation of tyrosine 701, translocates to the nucleus, binds to a regulatory DNA element termed gamma-activated sequence (GAS) and stimulates transcription of STAT1 target genes.</p> <p>PMID:17689680</p> <p>STAT1 acetilation inhibits its activity in macrophages.</p> <p>PMID:12811837</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:12193701, PMID:11830590</p> <p>CD40 expression is upregulated by STAT1 downstream of INFG</p> <p>and NF-kB downstream of TNF.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and PIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>PMID:21930765, PMID:8683106, PMID:12967644</p> <p>IFNA and IFNB act via STAT1 pathway in DC and NK cells</p> <p>PMID:25960930</p> <p>Reduced IFNa-induced STAT-1 phosphorylation in Ser727 and CXCL10 secretion in NK cells derived from PKC-t-/- mice</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. 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MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IL15, CASCADE:IL21, CASCADE:SCF2, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>PMID:19833085</p> <p>STAT1 is activated downstream of IFNG by phosphorylation of tyrosine 701, translocates to the nucleus, binds to a regulatory DNA element termed gamma-activated sequence (GAS) and stimulates transcription of STAT1 target genes.</p> <p>PMID:17689680</p> <p>STAT1 acetilation inhibits its activity in macrophages.</p> <p>PMID:12811837</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:12193701, PMID:11830590</p> <p>CD40 expression is upregulated by STAT1 downstream of INFG</p> <p>and NF-kB downstream of TNF.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and PIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>PMID:21930765, PMID:8683106, PMID:12967644</p> <p>IFNA and IFNB act via STAT1 pathway in DC and NK cells</p> <p>PMID:25960930</p> <p>Reduced IFNa-induced STAT-1 phosphorylation in Ser727 and CXCL10 secretion in NK cells derived from PKC-t-/- mice</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1365_rc_sa1365"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XRCC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ku70*"/> <bbox w="80.0" h="40.0" x="18411.56" y="16234.0"/> <glyph class="state variable" id="_25ae250a-6f24-4d13-a997-debcbe5fc753"> <state value="" variable="K539"/> <bbox w="30.0" h="10.0" x="18397.053" y="16229.0"/> </glyph> <glyph class="state variable" id="_2f6f6163-01f0-4c31-86fb-5e17175d4e9b"> <state value="" variable="K542"/> <bbox w="30.0" h="10.0" x="18476.56" y="16229.216"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa272_emtc_em_csa272" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:_alpha_-Catenin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:16325583</p> <p>Monomeric CTNNA1 binds more strongly to E-cadherin/CTNNB1, whereas the dimer preferentially binds actin filaments</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa272_emtc_em_csa272"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16325583"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Actin cytoskeletal*/α-Catenin*)"/> <bbox w="183.0" h="51.0" x="2162.0" y="15692.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1776_emtc_em_sa1776"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="2164.5" y="15698.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1777_emtc_em_sa1777"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), alpha 1, 102kDa</p> <p>HUGO:CTNNA1 HGNC:2509 ENTREZ:1495 UNIPROT:P35221</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:16325583</p> <p>Monomeric CTNNA1 binds more strongly to E-cadherin/CTNNB1, whereas the dimer preferentially binds actin filaments</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="73.0" h="23.0" x="2273.5" y="15696.5"/> <glyph class="unit of information" id="_046b26d3-5517-43a7-844f-e56365a78ea7"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2300.0" y="15691.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa15_mpk1_mpk1_csa15" compartmentRef="s_id_mpk1_mpk1_ca3_mpk1_mpk1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LAMTOR2:MEK*:MP1*</p> </body> </html> </notes> <label text="LAMTOR2:MEK*:MP1*"/> <bbox w="158.0" h="99.0" x="8650.061" y="19888.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa616_mpk1_mpk1_sa616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 2</p> <p>"roadblock domain containing 3" ROBLD3</p> <p>HUGO:LAMTOR2 HGNC:29796 ENTREZ:28956 UNIPROT:Q9Y2Q5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>P14 is an adaptor protein responsible for the recruitment of MP1 to late endosomes.</p> <p>P14 is peripherally associated with the cytoplasmic face of late endosomes.</p> </body> </html> </notes> <label text="LAMTOR2"/> <bbox w="57.0" h="28.0" x="8746.936" y="19916.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa265_mpk1_mpk1_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="8666.894" y="19918.166"/> <glyph class="state variable" id="_6f8e0543-9e97-4e11-9c63-172a06c93005"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8661.894" y="19929.832"/> </glyph> <glyph class="state variable" id="_b12b3dc7-24a4-4fa8-bb8b-18f62046d54b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8661.894" y="19921.291"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa615_mpk1_mpk1_sa615"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 3</p> <p>MAP2K1IP1 "MODULE:MAPK scaffold protein 1" MAPKSP1 "mitogen-activated protein kinase kinase 1 interacting protein 1"</p> <p>HUGO:LAMTOR3 HGNC:15606 ENTREZ:8649 UNIPROT:Q9UHA4</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MP1 is localised in late endosomes by P14 forming a very stable heterodimeric complex that is required for ERK activation.</p> <p>It is required for efficient and sustained EGF-induced MEK and ERK activation (in late endosomes)</p> </body> </html> </notes> <label text="MP1*"/> <bbox w="33.0" h="66.0" x="8713.936" y="19897.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3820_rc_sa3820" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3820_rc_sa3820"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF10D"/> <bbox w="80.0" h="50.0" x="23739.06" y="9159.0"/> <glyph class="unit of information" id="_5f2daeb9-d493-467f-8da0-8ace444f8e62"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23756.56" y="9154.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa270_ce_csa270" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARP1:PARP2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:22055391</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 and PARP2 in HR and C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> <p>PARP1 and PARP2 in telomere maintenance</p> <p>PMID:18835851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa270_ce_csa270"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22055391"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22713970"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22469522"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:196269035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18835851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP1/PARP2"/> <bbox w="100.0" h="120.0" x="9979.473" y="16729.355"/> <glyph class="macromolecule" id="s_id_ce_sa1570_ce_sa1570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="79.0" h="40.0" x="9990.306" y="16741.023"/> <glyph class="state variable" id="_a5fd4598-9460-444f-b02f-74f4a257e9a5"> <state value="?" variable="PolyADPribose"/> <bbox w="79.0" h="10.0" x="9985.975" y="16736.023"/> </glyph> <glyph class="state variable" id="_491b28c9-ff2f-49aa-9592-ffb6f695b528"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="9970.306" y="16760.254"/> </glyph> <glyph class="state variable" id="_3e940fcc-5b22-4ecc-b816-6efb1c16a151"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="9978.998" y="16776.023"/> </glyph> <glyph class="state variable" id="_037e9e89-5b13-417b-8306-79dec2e5419a"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="9970.306" y="16769.955"/> </glyph> <glyph class="state variable" id="_7ec3c8cc-d4c4-43fc-814f-448c0c64f5e6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10061.806" y="16756.023"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1573_ce_sa1573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 2</p> <p>HUGO:PARP2, HGNC:272, ENTREZ:10038, Q9UGN5</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 and PARP2 in HR and in inhibition of C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> <p>PARP2 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> </body> </html> </notes> <label text="PARP2"/> <bbox w="80.0" h="40.0" x="9988.9" y="16783.928"/> <glyph class="state variable" id="_e6b9465b-6a18-43d8-aac1-c01b7a1a3f17"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="10018.81" y="16778.928"/> </glyph> <glyph class="state variable" id="_772fc084-df4a-4af2-bbf4-23c36a23f33f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10061.4" y="16798.207"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa239_ce_csa239" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SCC1*:SMC1*:SMC3:STAG*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_M_CHECKPOINT, MODULE:M_CC_PHASE</p> <p>References:</p> <p>Phosphorylated by ATM</p> <p>PMID:11076961, PMID:12200439</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa239_ce_csa239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11076961"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12200439"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SCC1*/SMC1*/SMC3/STAG*"/> <bbox w="176.0" h="118.0" x="12898.473" y="13411.356"/> <glyph class="macromolecule" id="s_id_ce_sa1273_ce_sa1273"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>stromal antigen 1</p> <p>HUGO:STAG1, HGNC:11354, ENTREZ:10274, UNIPROT:Q8WVM7</p> <p>stromal antigen 2</p> <p>HUGO:STAG2, HGNC:11355, ENTREZ:10735, UNIPROT:Q8N3U4</p> <p>stromal antigen 3</p> <p>HUGO:STAG3, HGNC:11356, ENTREZ:10734, UNIPROT:Q9UJ98</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:CELL_CYCLE, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:11076961</p> </body> </html> </notes> <label text="STAG*"/> <bbox w="80.0" h="40.0" x="12986.473" y="13464.356"/> <glyph class="state variable" id="_7b60a35e-ca75-4beb-ae0f-3593ff76d353"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13061.473" y="13479.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1271_ce_sa1271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>structural maintenance of chromosomes 1A</p> <p>HUGO:SMC1A , HGNC:11111, ENTREZ:8243, UNIPROT:Q14683</p> <p>structural maintenance of chromosomes 1B</p> <p>HUGO:SMC1B , HGNC:11112, ENTREZ:27127 UNIPROT:Q8NDV3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:HR, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <label text="SMC1*"/> <bbox w="80.0" h="40.0" x="12904.933" y="13423.643"/> <glyph class="state variable" id="_b216edcf-fdad-430e-b48b-ccb8ddad6a38"> <state value="" variable="S957"/> <bbox w="30.0" h="10.0" x="12941.447" y="13418.643"/> </glyph> <glyph class="state variable" id="_12bc128c-fabf-4df7-8144-f926d53cd519"> <state value="" variable="S966"/> <bbox w="30.0" h="10.0" x="12912.179" y="13418.643"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1275_ce_sa1275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD21 homolog (S. pombe), hHR21, SCC1</p> <p>HUGO:RAD21, HGNC:9811, ENTREZ:5885, UNIPROT:O60216</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:1159013</p> </body> </html> </notes> <label text="SCC1*"/> <bbox w="80.0" h="40.0" x="12989.473" y="13422.356"/> <glyph class="state variable" id="_694da167-b171-4c8b-9e66-7108dc1372ee"> <state value="" variable="PLK1-dep."/> <bbox w="55.0" h="10.0" x="13041.973" y="13437.356"/> </glyph> <glyph class="state variable" id="_5c6d2f78-339c-4029-a737-7e3af66880a9"> <state value="" variable="ATM-dep."/> <bbox w="50.0" h="10.0" x="12964.473" y="13437.324"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1272_ce_sa1272"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Structural maintenance of chromosomes 3</p> <p>HUGO:SMC3, HGNC:2468, ENTREZ:9126, UNIPROT:Q9UQE7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:HR, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <label text="SMC3"/> <bbox w="80.0" h="40.0" x="12904.933" y="13465.643"/> <glyph class="state variable" id="_a37b8a75-322d-4f1f-97b4-dad4e3b9c230"> <state value="" variable="S1083"/> <bbox w="35.0" h="10.0" x="12940.327" y="13460.643"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa242_shh1_shh1_sa242" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa166_mo_sa166"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA1"/> <clone/> <bbox w="90.0" h="25.0" x="3710.0" y="10708.5"/> <glyph class="unit of information" id="_eb9e8832-5627-4f4b-86ca-fba8163cc2ef"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3745.0" y="10703.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" 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rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA1"/> <clone/> <bbox w="60.0" h="20.0" x="4034.5" y="17722.5"/> <glyph class="unit of information" id="_a039d218-1997-400e-9fde-fc31496318d2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4054.5" y="17717.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1298_ad_sa1298" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:CD8</p> <p>MODULE:TH1, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR, CASCADE:CD226, CASCADE:PD1</p> <p>PMID:12670391</p> <p>PI3K in T cells</p> <p>PMID:11135576 </p> <p>Akt provides the CD28 costimulatory signal for up-regulation of IL-2 and IFN-gamma but not TH2 cytokines.</p> <p>Phosphorylation of Akt induced by CD28 ligation via PI3K</p> <p>PMID:23087689</p> <p>PMID:23732914 </p> <p>Inhibition of CK2 during stimulation via TCR/CD3 and CD28 recapitulated the effects of PD-1 and resulted in diminished PTEN expression and phosphorylation in the C-terminal regulatory region. These events were associated with diminished activation of the PI3K/Akt pathway, as determined by impaired phosphorylation of Akt and its downstream target, GSK3β</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> <p>PMID:19406987 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1</p> <p>PMID:16962653; PMID:18566586 </p> <p>TORC2 is the elusive PDK2 for Akt/PKB Ser473 phosphorylation in the hydrophobic motif. 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</extension> <label text="SMAD7"/> <clone/> <bbox w="80.0" h="40.0" x="3130.0" y="2560.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa28_shh1_shh2_csa28" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HRK:MIR29B*</p> <p>References:</p> <p>s_shh2_re132:(MAP:survival) PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa28_shh1_shh2_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-29b_HRK"/> <bbox w="100.0" h="120.0" x="27747.06" y="21646.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa238_shh1_shh2_sa238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Harakiri Bcl2-interacting protein</p> <p>HUGO:HRK HGNC:5185 ENTREZ:8739 UNIPROT:O00198 GENECARDS:HRK KEGG:8739 ATLASONC:HRKID40865ch12q24 WIKI:HRK</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19641496</p> <p>Harakiri Bcl2-interacting protein</p> <p>HUGO:HRK HGNC:5185 ENTREZ:8739 UNIPROT:O00198 GENECARDS:HRK KEGG:8739 ATLASONC:HRKID40865ch12q24 WIKI:HRK</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HRK"/> <bbox w="90.0" h="25.0" x="27754.06" y="21690.0"/> <glyph class="unit of information" id="_e260777b-2d3f-4f2d-8440-54142aa0cd66"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27789.06" y="21685.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa234_shh1_shh2_sa234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 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alone inhibits myc expression while b-catenin/TCF4 activates gene expression. Highest gene expression obtained when SMAD1/b-catenin/TCF4 complex is formed</p> <p>PMID:15576399</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> <p>s_wca3_re116(MAP:survival):</p> <p>Swi/SNF complex </p> <p>NuRD complex:</p> <p>b-catenin/CTBP/Hipk2/LEF1 complex</p> <p>PMID:17666529</p> <p>s_wca3_re122(MAP:survival):</p> <p>Not sure if this mechanism is exact the same as for CYCLIND Myc and AXIN1 transcription. However it has been shown that KLF8 and b-catenin induces transcription of MMP9 gene.</p> <p>PMID:21151179 PMID:17306568</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa58_wca1_wca3_csa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15576399"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17666529"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21151179"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17306568"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:KLF8:LEF_TCF*:PYGO*:WRE*:β-Catenin*:p300*"/> <bbox w="195.0" h="203.0" x="21217.873" y="21898.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa355_wca1_wca3_sa355"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> <p>PMID:21285352</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="21320.81" y="21989.5"/> <glyph class="state variable" id="_35e4d3b6-cb1f-44f8-95c3-1d15b60684df"> <state value="" variable="S166"/> <bbox w="30.0" h="10.0" x="21306.303" y="21984.5"/> </glyph> <glyph class="state variable" id="_f4874d41-e94e-4b8d-a41f-6ef94896f076"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21395.81" y="21985.377"/> </glyph> <glyph class="state variable" id="_29ff2cf3-35b7-4dbb-9bb9-9e2b1d28ce8f"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="21388.31" y="22021.115"/> </glyph> <glyph class="state variable" id="_d8585f2c-8a12-4aa0-8a2a-58f3aea2f986"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21395.81" y="22004.5"/> </glyph> <glyph class="state variable" id="_52249c0a-c77a-4437-a05c-4e3ea0b5a275"> <state value="" variable="T155"/> <bbox w="30.0" h="10.0" x="21305.81" y="22024.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa354_wca1_wca3_sa354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kruppel-like factor 8</p> <p>HUGO:KLF8 HGNC:6351 ENTREZ:11279 UNIPROT:O95600 GENECARDS:KLF8 KEGG:11279 ATLASONC:GC_KLF8 WIKI:KLF8</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES</p> </body> </html> </notes> <label text="KLF8"/> <bbox w="80.0" h="40.0" x="21233.623" y="21909.0"/> <glyph class="state variable" id="_8d87d70d-9854-4ed0-88e7-dcd87020e8b0"> <state value="Ac" variable="K67"/> <bbox w="35.0" h="10.0" x="21216.123" y="21904.932"/> </glyph> <glyph class="state variable" id="_ac5de9e9-3bca-4de1-b182-b924c5207bbe"> <state value="Ac" variable="K95"/> <bbox w="35.0" h="10.0" x="21296.123" y="21942.38"/> </glyph> <glyph class="state variable" id="_ab1778b7-8a74-42e8-a777-c8065f91d39f"> <state value="Ac" variable="K93"/> <bbox w="35.0" h="10.0" x="21294.97" y="21904.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa350_wca1_wca3_sa350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21313.936" y="21907.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa351_wca1_wca3_sa351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21232.936" y="21994.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa352_wca1_wca3_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21313.436" y="21947.5"/> <glyph class="state variable" id="_1f2058f4-4ccb-45a0-8d76-6671bbf88197"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21301.428" y="21942.5"/> </glyph> <glyph class="state variable" id="_8b00c378-e4b9-41da-94c3-4a55adae0e2a"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21300.936" y="21982.22"/> </glyph> <glyph class="state variable" id="_d6c8a31b-2334-4215-bb5a-fe0bad337002"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21378.436" y="21942.713"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="21232.498" y="21953.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa356_wca1_wca3_sa356"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / 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rdf:resource="urn:miriam:hgnc.symbol:PRKG1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKG1"/> <clone/> <bbox w="80.0" h="40.0" x="19776.56" y="10354.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa503_rc_sa503" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa503_rc_sa503"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR16-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR16-1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR16-1"/> <bbox w="90.0" h="25.0" x="20120.41" y="15592.234"/> <glyph class="unit of information" id="_cb05a78d-2372-413f-bbd2-7e239ff3a4fd"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20150.41" y="15587.234"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa254_rc_csa254" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAX:MYC</p> </body> </html> </notes> <label text="MAX:MYC"/> <bbox w="100.0" h="120.0" x="24491.56" y="16564.0"/> <glyph class="macromolecule" id="s_id_rc_sa1927_rc_sa1927"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MYC associated factor X</p> <p>HUGO:MAX HGNC:6913 ENTREZ:4149 UNIPROT:P61244</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MAX"/> <bbox w="80.0" h="40.0" x="24501.56" y="16574.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1928_rc_sa1928"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC HGNC:7553 ENTREZ:4609 UNIPROT:P01106</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="24501.56" y="16614.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1188_ad_sa1188" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:17306570 </p> <p>Diaphanous-1 (DIA1) and Formin-like-1 (FMNL1), did not affect TCR-stimulated F-actin-rich structures, but instead displayed unique patterns of centrosome colocalization and controlled TCR-mediated centrosome polarization. Depletion of FMNL1 or DIA1 in cytotoxic lymphocytes abrogated cell-mediated killing.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1188_ad_sa1188"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FMNL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17306570"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FMNL1 "/> <bbox w="80.0" h="40.0" x="29776.0" y="7880.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2905_in_sa2905" compartmentRef="s_id_in_ca15_in_ca15"> <label text="CLIP*"/> <bbox w="80.0" h="40.0" x="20430.0" y="6780.0"/> <glyph class="unit of information" id="_56811ff4-dd92-405a-8eaa-82f7a6213ef7"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20445.0" y="6775.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa222_in_sa222" compartmentRef="s_id_in_ca37_in_ca37"> <label text="GNLY"/> <bbox w="80.0" h="40.0" x="17030.0" y="7510.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1974_emtc_em_sa1974" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1974_emtc_em_sa1974"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ID*"/> <bbox w="25.0" h="22.0" x="4940.0" y="16810.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa361_emtc_em_csa361" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IGF family*:IGF1R</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa361_emtc_em_csa361"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>insulin-like growth factor 1 receptor</p> <p>HUGO:IGF1R HGNC:5465 ENTREZ:3480 UNIPROT:P08069</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="IGF1R"/> <bbox w="86.0" h="56.0" x="2360.0" y="18478.5"/> <glyph class="unit of information" id="_d3ddfec1-9d4a-47a6-b8fd-c9c94fdbbc5a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2393.0" y="18473.5"/> </glyph> <glyph class="state variable" id="_dd3af481-0018-40f6-90cd-5449cc168951"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="2396.3943" y="18473.5"/> </glyph> <glyph class="unit of information" id="_ab56411d-4dd6-4b74-ae50-bbca845e8fd1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2380.5" y="18473.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2532_emtc_em_sa2532"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>IGF family*</p> <p>insulin-like growth factor 1 (somatomedin C)</p> <p>HUGO:IGF1 HGNC:5464 ENTREZ:3479 UNIPROT:P05019</p> <p>insulin-like growth factor 2 (somatomedin A)</p> <p>HUGO:IGF2 HGNC:5466 ENTREZ:3481 UNIPROT:P01344</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. 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Phosphorylation of residue Y505 in Lck by COOH-terminal Src kinase (Csk), which negatively regulates Lck, is essential for the inhibitory effect of cAMP on zeta chain phosphorylation. PKA phosphorylates Csk at S364 in vitro and in vivo leading to a two- to fourfold increase in Csk activity that is necessary for cAMP-mediated inhibition of TCR-induced interleukin 2 secretion</p> <p>PMID:17371980</p> <p>AR2A agonist ATL313 inhibited the phosphorylation of Zap70, an effect that was reversed by the protein kinase A inhibitor H-89. .</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1332_ad_sa1332"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ACACA:BRCA1</p> </body> </html> </notes> <label text="ACACA:BRCA1"/> <bbox w="100.0" h="120.0" x="17902.303" y="11843.125"/> <glyph class="macromolecule" id="s_id_rc_sa2771_rc_sa2771"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>acetyl-CoA carboxylase alpha</p> <p>HUGO:ACACA HGNC:84 ENTREZ:31 UNIPROT:Q13085</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:25979092 </p> </body> </html> </notes> <label text="ACACA"/> <bbox w="80.0" h="40.0" x="17913.303" y="11855.125"/> <glyph class="state variable" id="_c37aee0d-18d7-450e-8444-4525c574edf7"> <state value="P" variable="S79"/> <bbox w="30.0" h="10.0" x="17955.252" y="11850.125"/> </glyph> <glyph class="state variable" 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<p>NAME:CDK4_6*:CyclinD*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK4,6*/CycD*"/> <bbox w="99.0" h="107.0" x="11405.473" y="9567.356"/> <glyph class="macromolecule" id="s_id_ce_sa809_ce_sa809"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, UNIPROT:P11802</p> <p>Cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, UNIPROT:Q00534</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="11415.473" y="9610.856"/> <glyph class="state variable" id="_2fcc600c-22a6-41dc-8823-5c539f209fd3"> 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BNIP3:RHEB</p> </body> </html> </notes> <label text="BNIP3:RHEB"/> <bbox w="100.0" h="120.0" x="26604.06" y="12174.0"/> <glyph class="macromolecule" id="s_id_rc_sa1479_rc_sa1479"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras homolog enriched in brain</p> <p>HUGO:RHEB HGNC:10011 ENTREZ:6009 UNIPROT:Q15382</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="26615.06" y="12229.0"/> <glyph class="state variable" id="_aa6c23da-3c46-4326-98e3-a3adfdceea8f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26633.492" y="12224.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1480_rc_sa1480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2/adenovirus E1B 19kDa interacting protein 3</p> <p>HUGO:BNIP3 HGNC:1084 ENTREZ:664 UNIPROT:Q12983</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="BNIP3"/> <bbox w="80.0" h="40.0" x="26615.06" y="12183.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa20_ce_csa20" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MSH2:MSH6</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> </body> </html> </notes> <label text="MSH2/MSH6"/> <bbox w="109.0" h="113.0" x="11266.473" y="15592.356"/> <glyph class="macromolecule" id="s_id_ce_sa472_ce_sa472"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) </p> <p>HUGO:MSH2, HGNC:7325, ENTREZ:4436, UNIPROT:P43246</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR , MODULE:BER, MODULE:SSA</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:19847258, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH2"/> <bbox w="80.0" h="40.0" x="11282.336" y="15603.8125"/> <glyph class="state variable" id="_aac2563e-59b5-4405-85a4-8bc0677505f4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11274.836" y="15618.8125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa473_ce_sa473"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 6 (E. coli)</p> <p>HUGO:MSH6, HGNC:7329, ENTREZ:2956, UNIPROT:P52701</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MSH6"/> <bbox w="80.0" h="40.0" x="11283.336" y="15645.8125"/> <glyph class="state variable" id="_3047b39f-5342-4e52-b18a-5113ac87ba9d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11275.836" y="15660.8125"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa6_mpk1_mpk1_csa6" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:RTK*:SOS*"/> <bbox w="109.0" h="104.0" x="8234.061" y="18904.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa32_mpk1_mpk1_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="8264.561" y="18909.5"/> <glyph class="unit of information" id="_66020393-d13f-4d0c-8fd2-105fe5b8f02c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8267.061" y="18904.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa27_mpk1_mpk1_sa27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8263.561" y="18932.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa26_mpk1_mpk1_sa26"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="8262.561" y="18957.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa329_in_csa329" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa329_in_csa329"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16127449"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s489"/> <bbox w="100.0" h="120.0" x="11600.0" y="3870.0"/> <glyph class="macromolecule" id="s_id_in_sa2538_in_sa2538"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HDAC3"/> <bbox w="80.0" h="40.0" x="11605.0" y="3876.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2537_in_sa2537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NCOR1"/> <bbox w="80.0" h="40.0" x="11610.0" y="3930.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1088_in_sa1088" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="ARG2"/> <bbox w="113.0" h="61.0" x="13917.344" y="5275.4375"/> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa11_shh1_shh3_csa11" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:p110*:p85*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re15(MAP:survival):</p> <p>PMID:11801735</p> <p>PMID:19082481</p> <p>s_akt1_re11(MAP:survival):</p> <p>PMID:15584861</p> <p>PMID:10648629</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa11_shh1_shh3_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11801735"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19082481"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15584861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648629"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Clas_IA_PI3K)"/> <bbox w="100.0" h="120.0" x="27388.06" y="22877.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa63_shh1_shh3_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <bbox w="80.0" h="40.0" x="27397.56" y="22891.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa64_shh1_shh3_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="p110*"/> <bbox w="80.0" h="40.0" x="27397.56" y="22933.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2626_rc_sa2626" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2626_rc_sa2626"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GCLC"/> <bbox w="70.0" h="25.0" x="25003.037" y="16262.798"/> </glyph> <glyph class="complex" id="s_id_ad_csa82_ad_csa82" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5042"/> <bbox w="100.0" h="120.0" x="28946.0" y="3780.0"/> <glyph class="macromolecule" id="s_id_ad_sa719_ad_sa719"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TREG</p> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>HUGO:PRKCQ</p> <p>CASCADE:TCR</p> <p>PMID:23433459</p> <p>PKCtheta in tregs.</p> <p>PMID:23886063; PMID:9738502 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> <p>PMID:17544292 ; PMID:23433459</p> <p>Protein kinase C theta (PKCtheta): a key player in T cell life and death.</p> <p>Mutation of the PKCθ gene leads to impaired receptor-induced stimulation of the transcription factors AP-1, NF-κB and NFAT, which results in defective T cell activation, and to aberrant expression of apoptosis-related proteins, resulting in poor T cell survival. Furthermore, PKCθ-deficient mice display defects in the differentiation of T helper subsets, particularly in Th2 and Th17-mediated inflammatory responses. </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT). </p> <p>PMID:23474202</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation </p> <p>GCK-like kinase (GLK), a SLP76-regulated kinase, was recently reported to phosphorylate directly PKCθ both in vitro and in primary T cells and T cell lines in response to TCR stimulation</p> <p> PMID:10746729 </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT).</p> <p>PMID:15536066</p> <p>Role for protein kinase Ctheta (PKCtheta) in TCR/CD28-mediated signaling through the canonical but not the non-canonical pathway for NF-kappaB activation.</p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>PMID:10652356</p> <p>The C2-like domain contains a tyrosine residue (Tyr-90), which is phosphorylated by the T cell tyrosine kinase Lck</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> <p>We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. 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class="macromolecule" id="s_id_emtc_em_sa535_emtc_em_sa535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 6</p> <p>HUGO:ITGA6 HGNC:6142 ENTREZ:3655 UNIPROT:P23229</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA6"/> <bbox w="40.0" h="20.0" x="4423.412" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa533_emtc_em_sa533"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label 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pathway.</p> <p> The involvement of the PLC pathway in promoting gastrin’s effects has been defined in</p> <p>NIH3T3 fibroblasts expressing the CCKB/gastrin receptor [130], Rat1 fibroblasts transfected with the CCKB/gastrin receptor (Rat1CCKBR1) [108],</p> <p>Receptor activation of PLC induces the breakdown of membrane phosphatidylinositol4,5-bisphosphate (PIP2), leading to the formation of two second messengers, IP3 and 1,2-diacylglycerol (DG) [6] and [88]. 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<p>NAME:MIR34A:NOTCH1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20351093</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa130_emtc_em_csa130"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20351093"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34A/NOTCH1"/> <bbox w="80.0" h="60.0" x="3797.5" y="18105.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa753_emtc_em_sa753"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Notch homolog 1</p> <p>NOTCH intracellular domains NICD</p> <p>HUGO:NOTCH1, HGNC:7881, ENTREZ:4851, GENECARDS:GC09M139388</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20351093</p> <p>PMID:22363487</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NOTCH1"/> <bbox w="78.0" h="20.0" x="3798.5" y="18126.0"/> <glyph class="unit of information" id="_e32efa36-d681-4e66-bce4-263a40438419"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3827.5" y="18121.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa754_emtc_em_sa754"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34a</p> <p>HUGO:MIR34A, HGNC:31635, ENTREZ:407040, GENECARDS:GC01M009211</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20351093</p> <p>PMID:22363487</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR34A"/> <bbox w="75.0" h="20.0" x="3801.5" y="18106.0"/> <glyph class="unit of information" id="_760fe5ea-e230-4279-90b9-cf4b1acdca06"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3824.0" y="18101.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa15_wnc1_wnc4_csa15" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER2:APC:EB1*:PtdIns-</p> <p>References:</p> <p>PMID:22898821</p> <p>s_wnc4_re36:(MAP:survival) PMID:22898821,</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa15_wnc1_wnc4_csa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22898821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22898821"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMER2:APC:EB1*:PtdIns-"/> <bbox w="110.0" h="204.0" x="18439.06" y="20426.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa120_wnc1_wnc4_sa120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="18458.06" y="20554.0"/> <glyph class="state variable" id="_50506a64-2530-4606-bf53-5768b017ffba"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18533.06" y="20549.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa117_wnc1_wnc4_sa117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>APC membrane recruitment protein 2</p> <p>FAM123A, "family with sequence similarity 123A"</p> <p>HUGO:AMER2 HGNC:26360 ENTREZ:219287 UNIPROT:Q8N7J2 GENECARDS:AMER2 KEGG:219287 WIKI:AMER2</p> <p>Map modules:</p> </body> </html> </notes> <label text="AMER2"/> <bbox w="80.0" h="40.0" x="18458.06" y="20469.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc4_sa118_wnc1_wnc4_sa118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns-(4,5)-P2"/> <bbox w="70.0" h="25.0" x="18456.06" y="20437.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa119_wnc1_wnc4_sa119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microtubule-associated protein, RP/EB family, member 1</p> <p>"adenomatous polyposis coli-binding protein EB1", EB1</p> <p>HUGO:MAPRE1 HGNC:6890 ENTREZ:22919 UNIPROT:Q15691 GENECARDS:MAPRE1 REACTOME:58935 KEGG:22919 ATLASONC:MAPRE1ID455ch20q11 WIKI:MAPRE1 </p> <p>microtubule-associated protein, RP/EB family, member 2</p> <p>HUGO:MAPRE2 HGNC:6891 ENTREZ:10982 UNIPROT:Q15555 GENECARDS:MAPRE2 KEGG:10982 ATLASONC:GC_MAPRE2 WIKI:MAPRE2 </p> <p>microtubule-associated protein, RP/EB family, member 3</p> <p>HUGO:MAPRE3 HGNC:6892 ENTREZ:22924 UNIPROT:Q9UPY8 GENECARDS:MAPRE3 KEGG:22924 ATLASONC:GC_MAPRE3 WIKI:MAPRE3</p> <p>Map modules:</p> </body> </html> </notes> <label text="EB1*"/> <bbox w="80.0" h="40.0" x="18458.06" y="20512.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4959_rc_sa4959" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4959_rc_sa4959"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAK1"/> <clone/> <bbox w="80.0" h="40.0" x="26982.967" y="13769.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4959_rc_sa4825" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa775_ad_sa775"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOS*"/> <clone/> <bbox w="80.0" h="40.0" x="27826.0" y="4186.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa775_ad_sa776" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa775_ad_sa776"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOS*"/> <clone/> <bbox w="90.0" h="50.0" x="27821.0" y="4045.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1885_rc_sa1885" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1885_rc_sa1885"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RB1"/> <bbox w="80.0" h="40.0" x="22305.56" y="16947.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1390_in_sa1390" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL24"/> <bbox w="90.0" h="25.0" x="14635.0" y="2522.5"/> <glyph class="unit of information" id="_15e82223-f3e7-474f-aa81-e7810a69cf80"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="14670.0" y="2517.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2433_emtc_em_sa2433" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2433_emtc_em_sa2433"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF7"/> <bbox w="42.0" h="18.0" x="3459.0" y="19063.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa547_rc_csa547" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NLRC4:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa547_rc_csa547"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRC4:PYCARD"/> <bbox w="100.0" h="141.0" x="28259.06" y="9339.0"/> <glyph class="macromolecule" id="s_id_rc_sa5461_rc_sa5461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NLRC4</p> <p>synonyms:NLR family, CARD domain containing 4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23940371</p> </body> </html> </notes> <label text="NLRC4"/> <bbox w="80.0" h="50.0" x="28269.06" y="9354.0"/> <glyph class="state variable" id="_e0c6ee0b-696c-44ef-a8d8-f3b1f318027e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28344.06" y="9349.0"/> </glyph> <glyph class="unit of information" id="_0985a3f0-ed86-4879-8099-e335019d163d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28286.56" y="9349.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5451_rc_sa5451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label 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text="receptor"/> <bbox w="45.0" h="10.0" x="9377.5" y="5565.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1476_in_sa1476"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="THBS1"/> <bbox w="80.0" h="40.0" x="9360.0" y="5525.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa112_ce_sa112" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa112_ce_sa112"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHEK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHEK2"/> <bbox w="80.0" h="40.0" x="13135.763" y="11681.0"/> <glyph class="state variable" id="_8fe2e712-5586-4c3c-ad19-f06277de2c19"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13130.763" y="11696.46"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2312_in_sa2312" compartmentRef="s_id_in_ca13_in_ca13"> <label text="TIMP2"/> <bbox w="80.0" h="40.0" x="11490.0" y="8065.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1797_rc_sa1797" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16947 KEGGCOMPOUND:C00158 CAS:126-44-3</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1797_rc_sa1797"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="citrate"/> <bbox w="70.0" h="25.0" x="18934.06" y="14726.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2390_rc_sa2390" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2390_rc_sa2390"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRF1"/> <bbox w="80.0" h="40.0" x="19531.56" y="16724.0"/> <glyph class="state variable" id="_144d126a-fdff-42fd-8dc0-ad6809dcd031"> <state value="P" variable="S47"/> <bbox w="30.0" h="10.0" x="19573.129" y="16719.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa315_em_csa315" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:IQGAP1:RAC1</p> <p>Map modules:</p> <p>References:</p> <p>PMID:15263019</p> <p>Endocytosis of E-cadherin regulated by Rac and Cdc42 small G proteins through IQGAP1 and actin filaments.</p> <p>Rac1 seems to modulate the amout of Adherens junction according to the biological context.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_csa315_em_csa315"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15263019"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IQGAP1/Rac_GTP"/> <bbox w="113.0" h="131.0" x="2233.0" y="14168.0"/> <glyph class="macromolecule" id="s_id_em_sa2036_em_sa2036"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="42.0" h="18.0" x="2274.0" y="14203.0"/> </glyph> <glyph class="simple chemical" id="s_id_em_sa2037_em_sa2037"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="2271.0" y="14176.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2035_em_sa2035"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS , MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:15263019</p> <p>Endocytosis of E-cadherin regulated by Rac and Cdc42 small G proteins through IQGAP1 and actin filaments.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="IQGAP1"/> <bbox w="80.0" h="40.0" x="2253.0" y="14229.0"/> </glyph> </glyph> 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<label text="Drp1*"/> <clone/> <bbox w="80.0" h="40.0" x="27654.06" y="12424.0"/> <glyph class="state variable" id="_3e02ef04-0c96-4313-8e47-d3b9420ecfdb"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27669.992" y="12419.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa136_emtc_em_csa136" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR200A:_beta_-Catenin*_ZEB1_ZEB2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19931509</p> <p>miR-200a downregulates ZEB2 and CTNNB1 </p> <p>This downregulation inhibits carcinoma cell growth, migration and invasion.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa136_emtc_em_csa136"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19931509"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MIR200A/β-Catenin*_ZEB1_ZEB2*)"/> <bbox w="216.0" h="58.0" x="2828.5" y="17822.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1840_emtc_em_sa1840"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>_beta_-Catenin*_ZEB1_ZEB2*</p> <p>beta catenin</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, GENECARDS:GC03P041236</p> <p>zinc finger E-box binding homeobox 1</p> <p>HUGO:ZEB1, HGNC:11642, ENTREZ:6935, GENECARDS:GC10P031648</p> <p>zinc finger E-box binding homeobox 2</p> <p>HUGO:ZEB2, HGNC:14881, ENTREZ:9839, GENECARDS:GC02M145145</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="β-Catenin*_ZEB1_ZEB2*"/> <bbox w="214.0" h="19.0" x="2829.5" y="17840.5"/> <glyph class="unit of information" id="_252d6aaf-e899-4d8c-8e84-12b3081de4a7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2926.5" y="17835.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1830_emtc_em_sa1830"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 200a</p> <p>HUGO:MIR200A, HGNC:31578, ENTREZ:406983, GENECARDS:GC01P001101 </p> <p>microRNA 200b</p> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD74"/> <bbox w="80.0" h="40.0" x="21991.074" y="6729.778"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa21_mo_sa21" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT serine/threonine kinase 1</p> <p>AKT serine/threonine kinase 2</p> <p>AKT serine/threonine kinase 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa21_mo_sa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="3175.0" y="9647.0"/> <glyph class="state variable" id="_84204339-b2e8-42eb-8f57-be3f190c53bc"> <state value="P" variable="ser473"/> <bbox w="45.0" h="10.0" x="3232.5" y="9662.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1987_emtc_em_sa1987" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1987_emtc_em_sa1987"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ID3"/> <bbox w="24.0" h="21.0" x="4816.0" y="16878.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1130_emtc_em_sa1130" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1130_emtc_em_sa1130"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYO9B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYO9B"/> <bbox w="47.0" h="17.0" x="6011.0" y="16062.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1271_in_sa1271" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL12p35*"/> <bbox w="80.0" h="40.0" x="20656.25" y="5375.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa94_mpk1_mpk1_csa94" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K2_3*:TNFRSF1B:TRAF2</p> </body> </html> </notes> <label text="MAP3K2_3*:TNFRSF1B:TRAF2"/> <bbox w="192.0" h="83.0" x="10278.057" y="19637.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa637_mpk1_mpk1_sa637"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 2</p> <p>MEKK2</p> <p>HUGO:MAP3K2 HGNC:6854 ENTREZ:10746 UNIPROT:Q9Y2U5 </p> <p>mitogen-activated protein kinase kinase kinase 3</p> <p>MEKK3</p> <p>HUGO:MAP3K3 HGNC:6855 ENTREZ:4215 UNIPROT:Q99759</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways</p> </body> </html> </notes> <label text="MAP3K2_3*"/> <bbox w="102.0" h="26.0" x="10362.686" y="19669.0"/> <glyph class="state variable" id="_f7622e95-8044-441d-91f3-4d73408818ee"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10355.186" y="19677.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa510_mpk1_mpk1_sa510"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="10309.557" y="19669.666"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa569_mpk1_mpk1_sa569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1B</p> <p>TNFR2</p> <p>HUGO:TNFRSF1B HGNC:11917 ENTREZ:7133 UNIPROT:P20333</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins (TRAF2).</p> </body> </html> </notes> <label text="TNFRSF1B"/> <bbox w="70.0" h="25.0" x="10305.151" y="19645.908"/> <glyph class="unit of information" id="_9843e695-5d8b-4e74-8256-0a16c7d0eece"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10317.651" y="19640.908"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa247_emtc_em_sa247" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa247_emtc_em_sa247"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA4"/> <bbox w="40.0" h="20.0" x="4226.54" y="17647.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa277_wca1_wca3_sa277" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa277_wca1_wca3_sa277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1δ*"/> <bbox w="80.0" h="40.0" x="21780.06" y="21542.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa182_ce_sa182" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0HR:DNA:st4Synaptic stable pairing/D-loop structure formation between recombining DNA molecules(strand invasion, branches migration) followed by pairing between invading strand and complementary heteroduplex strandNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0HR:DNA:st4Synaptic stable pairing/D-loop structure formation between recombining DNA molecules(strand invasion, branches migration) followed by pairing between invading strand and complementary heteroduplex strandNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR </body> </html> </notes> <label text="HR_DNA_st4*"/> <bbox w="120.0" h="26.0" x="14074.832" y="16730.46"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2317_rc_sa2317" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16990 KEGGCOMPOUND:C00486 CAS:635-65-4</p> </body> </html> </notes> <label text="bilirubin"/> <bbox w="70.0" h="25.0" x="27860.06" y="10668.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa38_akt1_akt2_csa38" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:FOXO1</p> <p>References:</p> <p>s_akt2_re123:(MAP:survival) PMID:11980723 PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa38_akt1_akt2_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11980723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:FOXO1"/> <bbox w="100.0" h="120.0" x="12172.061" y="21913.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa237_akt1_akt2_sa237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="12180.311" y="21923.0"/> <glyph class="state variable" id="_00bce538-a5a6-46df-a5c4-d9a7e8ccf53b"> <state value="P" variable="T24"/> <bbox w="30.0" h="10.0" x="12165.803" y="21918.0"/> </glyph> <glyph class="state variable" id="_47ea0f37-9c52-4739-ad5e-5c707ebbdcdd"> <state value="P" variable="S256"/> <bbox w="35.0" h="10.0" x="12202.843" y="21918.0"/> </glyph> <glyph class="state variable" id="_c0fd64ef-4c19-475e-920f-a8003433094e"> <state value="P" variable="S319"/> <bbox w="35.0" h="10.0" x="12242.811" y="21918.0"/> </glyph> <glyph class="state variable" id="_abf31e0c-b68e-4a81-b89e-4176ee7affd6"> <state value="P" variable="S325"/> <bbox w="35.0" h="10.0" x="12202.715" y="21958.0"/> </glyph> <glyph class="state variable" id="_3ba27c30-2f2f-461b-876b-6806555791f4"> <state value="P" variable="S329"/> <bbox w="35.0" h="10.0" x="12162.811" y="21957.72"/> </glyph> <glyph class="state variable" id="_6580a337-40d0-4a50-80cd-fc2403cbc5c4"> <state value="P" variable="S322"/> <bbox w="35.0" h="10.0" x="12242.192" y="21958.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa238_akt1_akt2_sa238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="12180.311" y="21971.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1444_in_sa1444" compartmentRef="s_id_in_ca47_in_ca47"> <label text="LGALS1"/> <bbox w="80.0" h="40.0" x="9010.0" y="820.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2475_in_sa2475" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="PPARG"/> <bbox w="90.0" h="25.0" x="10797.25" y="3737.5"/> <glyph class="unit of information" id="_0d70a472-10f0-470d-8520-9357381c2b0b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10832.25" y="3732.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ce_sa329_ce_sa329" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_csa10_degraded"/> <bbox w="30.0" h="30.0" x="12626.75" y="11199.875"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa183_emtc_em_csa183" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cingulin*:JAM1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Cingulin*/JAM1*"/> <bbox w="109.0" h="41.0" x="1524.5" y="14704.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1243_emtc_em_sa1243"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>F11 receptor</p> <p>HUGO:F11R, HGNC:14685, ENTREZ:50848, UNIPROT:Q9Y624, GENECARDS:GC01M160965 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="JAM1*"/> <bbox w="40.0" h="17.0" x="1590.5" y="14708.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1242_emtc_em_sa1242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cingulin</p> <p>HUGO:CGN, HGNC:17429, ENTREZ:57530, UNIPROT:Q9P2M7, GENECARDS:GC01P151483  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Cingulin*"/> <bbox w="63.0" h="18.0" x="1526.5" y="14707.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa108_wca1_wca3_sa108" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa108_wca1_wca3_sa108"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RNF146"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RNF146"/> <bbox w="80.0" h="40.0" x="22149.06" y="22165.0"/> <glyph class="state variable" id="_d5798233-8b38-494b-9343-cb0efcb04d5f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22144.064" y="22160.0"/> </glyph> <glyph class="state variable" id="_ae44a2bc-ce7a-4f39-a193-b7efbffe9a67"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22144.064" y="22200.0"/> </glyph> <glyph class="state variable" id="_b438cfba-9ca0-4174-b2a7-5c2c369ab62f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22224.06" y="22200.0"/> </glyph> <glyph class="state variable" id="_d53475f6-5cf4-4622-b2a9-d5a2410b6f02"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22224.06" y="22160.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa21_wca1_wca3_csa21" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HES1:TLE*</p> <p>References:</p> <p>s_wca3_re37:(MAP:survival) PMID:15367661</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa21_wca1_wca3_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15367661"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HES1:TLE*"/> <bbox w="100.0" h="120.0" x="22137.06" y="21420.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa157_wca1_wca3_sa157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transducin-like enhancer of split 1 (E(sp1) homolog Drosophila)</p> <p>"transducin-like enhancer of split 1 homolog of Drosophila E(sp1)"</p> <p>HUGO:TLE1 HGNC:11837 ENTREZ:7088 UNIPROT:Q04724 GENECARDS:TLE1 REACTOME:66083 KEGG:7088 ATLASONC:GC_TLE1 WIKI:TLE1 </p> <p>transducin-like enhancer of split 2 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE2 HGNC:11838 ENTREZ:7089 UNIPROT:Q04725 GENECARDS:TLE2 REACTOME:66085 KEGG:7089 WIKI:TLE2 </p> <p>transducin-like enhancer of split 3 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE3 HGNC:11839 ENTREZ:7090 UNIPROT:Q04726 GENECARDS:TLE3 REACTOME:405165 KEGG:7090 ATLASONC:GC_TLE3 WIKI:TLE3 </p> <p>transducin-like enhancer of split 4 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE4 HGNC:11840 ENTREZ:7091 UNIPROT:Q04727 GENECARDS:TLE4 REACTOME:66089 KEGG:7091 WIKI:TLE4 </p> <p>amino-terminal enhancer of split</p> <p>GRG5 TLE5</p> <p>HUGO:AES HGNC:307 ENTREZ:166 UNIPROT:Q08117 GENECARDS:AES KEGG:166 ATLASONC:GC_AES WIKI:AES </p> <p>transducin-like enhancer of split 6 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE6 HGNC:30788 ENTREZ:79816 UNIPROT:Q9H808 GENECARDS:TLE6 KEGG:79816 ATLASONC:GC_TLE6 WIKI:TLE6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>References:</p> <p>non-DNA binding transcription factor</p> <p>PMID:20925119</p> </body> </html> </notes> <label text="TLE*"/> <bbox w="80.0" h="40.0" x="22146.977" y="21476.223"/> <glyph class="state variable" id="_4744f5e5-39f0-41c2-9a78-42469c2f404c"> <state value="P" variable="S239"/> <bbox w="35.0" h="10.0" x="22129.969" y="21471.223"/> </glyph> <glyph class="state variable" id="_f0496cbd-5106-4534-a0b8-e941488ac65b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22221.977" y="21471.223"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa156_wca1_wca3_sa156"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hairy and enhancer of split 1 (Drosophila)</p> <p>"hairy homolog (Drosophila)" HRY</p> <p>HUGO:HES1 HGNC:5192 ENTREZ:3280 UNIPROT:Q14469 GENECARDS:HES1 REACTOME:56466 KEGG:3280 ATLASONC:GC_HES1 WIKI:HES1</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:FANCONI, MAP:dnarepair / MODULE:TLS</p> </body> </html> </notes> <label text="HES1"/> <bbox w="80.0" h="40.0" x="22146.977" y="21431.223"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1009_emtc_em_sa1009" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1009_emtc_em_sa1009"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFA"/> <bbox w="42.0" h="17.0" x="2849.0" y="19072.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa36_akt1_akt2_csa36" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO1</p> <p>References:</p> <p>s_akt2_re118:(MAP:survival) PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa36_akt1_akt2_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:FOXO1"/> <bbox w="100.0" h="120.0" x="12161.061" y="21645.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa230_akt1_akt2_sa230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="12171.186" y="21701.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa229_akt1_akt2_sa229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> 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id="_fe613607-8d73-4c17-a3ed-0fed13f42dbe"> <state value="P" variable="S256"/> <bbox w="35.0" h="10.0" x="12193.468" y="21651.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa709_rc_sa709" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa709_rc_sa709"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTSB"/> <bbox w="70.0" h="25.0" x="23752.06" y="16297.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa83_te_sa83" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa83_te_sa83"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TINF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TINF2"/> <bbox w="80.0" h="40.0" x="3650.06" y="21725.0"/> <glyph class="state variable" id="_a09d409d-e1ce-4397-8d1a-a5c1961462d9"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="3640.06" y="21739.969"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa249_emtc_em_csa249" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Vitronectin*:aVb3*_aVb5*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa249_emtc_em_csa249"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aEb3*_aVb5*/VTN"/> <bbox w="149.0" h="40.0" x="5035.0" y="18927.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1583_emtc_em_sa1583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vitronectin</p> <p>"vitronectin (serum spreading factor, somatomedin B, complement S-protein)"</p> <p>HUGO:VTN HGNC:12724 ENTREZ:7448 UNIPROT:P04004</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Vitronectin*"/> <bbox w="62.0" h="18.0" x="5120.5" y="18930.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1582_emtc_em_sa1582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aVb3*_aVb5*</p> <p>NAME:aVb3*</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*:p27KIP1*</p> <p>References:</p> <p>s_akt2_re51(MAP:survival):</p> <p>PMID:18414028</p> <p>PMID:9106657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa18_akt1_akt2_csa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18414028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4 HGNC:1773 ENTREZ:1019 UNIPROT:P11802 GENECARDS:CDK4 REACTOME:68329 KEGG:1019 ATLASONC:CDK4ID238ch12q14 WIKI:CDK4 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6 HGNC:1777 ENTREZ:1021 UNIPROT:Q00534 GENECARDS:CDK6 REACTOME:68335 KEGG:1021 ATLASONC:GC_CDK6 WIKI:CDK6</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="13144.061" y="20127.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa111_akt1_akt2_sa111"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="13146.061" y="20169.5"/> <glyph class="state variable" id="_1ab309d6-66be-46c3-b5d4-c66c5e3ca3d2"> <state value="" variable="T286"/> <bbox w="30.0" h="10.0" x="13211.061" y="20164.713"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa383_mpk1_mpk1_sa383" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa383_mpk1_mpk1_sa383"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K2_3*"/> <bbox w="77.0" h="25.0" x="10781.057" y="19367.0"/> <glyph class="state variable" id="_f0676df5-6804-4a9f-93d8-eef28fc305dd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10776.057" y="19374.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_em_sa2146_em_sa2146" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="DNA damage"/> <clone/> <bbox w="98.0" h="31.0" x="5105.0" y="14413.0"/> </glyph> <glyph class="phenotype" id="s_id_em_sa2146_mo_sa105" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="DNA damage"/> <clone/> <bbox w="80.0" h="30.0" x="3764.125" y="10492.875"/> </glyph> <glyph class="complex" id="s_id_in_csa28_in_csa28" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD80:CD86"/> <bbox w="100.0" h="120.0" x="22150.0" y="7955.0"/> <glyph class="macromolecule" id="s_id_in_sa178_in_sa178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE</p> <p>MODULE:MARKERS_DC, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:MIF, CASCADE:IL3, CASCADE:IL10, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNG</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:25582338</p> <p>The expression levels of CD80 and CD83, the molecules involved in T-cell activation, was similar between the two DC subsets (IL4 and IL15)</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:25215878</p> <p>FLT3 ligand upregulates surface expression of CD80 in DCs.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> 15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:7512027</p> <p>IL-10 inhibits surface expression CD80 (B7) on monocytes, even following induction of these molecules by IL4 or IFNG and diminishes the antigen-presenting capacity of monocytes.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>Expression of CD83, a and CD80 and was significantly enhanced by the FLT3L</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II )</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD80"/> <bbox w="80.0" h="40.0" x="22160.0" y="8005.0"/> <glyph class="unit of information" id="_71eb6adb-307e-4d43-a0d6-2bcbfcef147d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22177.5" y="8000.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa179_in_sa179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NEUTROPHIL</p> <p>MODULE:MARKERS_DC, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:MIF, CASCADE:IL3, CASCADE:IL10, CASCADE:TLR2_4, CASCADE:TNF, CASCADE:FLT3LG, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:20805416</p> <p>Expression of CD86, a critical costimulatory molecule for efficient T cell priming, is enhanced in activated MDSC during mTOR inhibition</p> <p>This phenotype was not observed in moDCs, in which surface expression of CD80 and CD86 was inhibited by rapamycin.</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p>FLT3L induces Ag-presenting ability of Dcs. Probably via induction of surface expression of class II MHC and CD86.</p> <p>PMID:22076556, PMID:21220452 , PMID:24218453</p> <p>CD83 increases MHC II and CD86 on dendritic cells by opposing IL-10-driven MARCH1-mediated ubiquitination and degradation.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> PMID:15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:9359474</p> <p>DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p> PMID:11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II )</p> <p>PMID:25384214</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD86"/> <bbox w="80.0" h="40.0" x="22160.0" y="7965.0"/> <glyph class="state variable" id="_685e49a5-73fb-48b2-84e2-a8391b9c8c5d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22155.0" y="7980.0"/> </glyph> <glyph class="unit of information" id="_a97fac53-6df8-43c7-a8e1-e01126fe9127"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22177.5" y="7960.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4987_rc_sa4987" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4987_rc_sa4987"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDEM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDEM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EDEM1"/> <bbox w="90.0" h="25.0" x="27146.326" y="16042.5"/> <glyph class="unit of information" id="_5ee57843-d40f-4ad8-b4e3-a8468db70a33"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27181.326" y="16037.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4914_rc_sa4914" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>Eeyarestatin I, EerI</p> <p>PMID:19164757</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4914_rc_sa4914"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19164757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Eeyarestatin I"/> <bbox w="80.0" h="30.0" x="28798.06" y="13306.0"/> <glyph class="unit of information" id="_d5977343-06d7-4ced-a4da-6cfbc7fdb32a"> <label text="drug"/> <bbox w="25.0" h="10.0" x="28825.56" y="13301.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1046_emtc_em_sa1046" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1046_emtc_em_sa1046"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAK4"/> <clone/> <bbox w="35.0" h="21.0" x="6217.5" y="14768.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1046_emtc_em_sa1520" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1046_emtc_em_sa1520"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAK4"/> <clone/> <bbox w="35.0" h="21.0" x="6074.5" y="14768.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1277_rc_sa1277" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1277_rc_sa1277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOTCH1"/> <bbox w="80.0" h="40.0" x="22829.06" y="17129.0"/> </glyph> <glyph class="complex" id="s_id_te_csa28_te_csa28" compartmentRef="s_id_te_ca2_te_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Idenitifiers_begin:</p> <p>NAME:DKC1/GAR1/NHP2/NOP10/TERC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa28_te_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/GAR1/NHP2/NOP10/TERC"/> <bbox w="320.0" h="140.0" x="5747.06" y="21656.0"/> <glyph class="macromolecule" id="s_id_te_sa232_te_sa232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <bbox w="80.0" h="40.0" x="5867.06" y="21726.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa229_te_sa229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="5777.06" y="21676.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa230_te_sa230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="5867.06" y="21676.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa231_te_sa231"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <bbox w="90.0" h="25.0" x="5962.06" y="21703.5"/> <glyph class="state variable" id="_01c7681b-61e0-478d-a5c7-51b94f4fdcc2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5997.56" y="21698.5"/> </glyph> <glyph class="unit of information" id="_9770ac87-e1f1-4fd9-b231-ae3cb29d7019"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5997.06" y="21698.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa228_te_sa228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="5777.06" y="21726.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa344_in_sa344" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR34C"/> <bbox w="70.0" h="25.0" x="21085.0" y="517.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa776_in_sa776" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PDL1*"/> <bbox w="80.0" h="40.0" x="9540.0" y="6660.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa29_wnc1_wnc1_csa29" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD*:GTP:G_alpha_*:G_beta_*:G_gamma_*:WNT*</p> <p>References:</p> <p>Ca2+/Wnt MODULE</p> <p>Wnt/PCP MODULE</p> <p>s_wnc1_re49(MAP:survival):</p> <p>PMID:20628572</p> <p>PMID:12839624</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa29_wnc1_wnc1_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD*:GTP:Gα*:Gβ*:Gγ*:WNT*"/> <bbox w="150.0" h="110.0" x="17044.06" y="18543.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa194_wnc1_wnc1_sa194"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="17103.06" y="18603.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa195_wnc1_wnc1_sa195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="17144.06" y="18603.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa198_wnc1_wnc1_sa198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="17056.56" y="18615.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa199_wnc1_wnc1_sa199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 11 (Gq class) </p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12 </p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 5Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="17062.06" y="18603.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa185_wnc1_wnc1_sa185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> <p>PMID:21518267</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17084.06" y="18558.0"/> <glyph class="unit of information" id="_f1affda5-fb7e-49ed-b3cd-422489ab7105"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17101.56" y="18553.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa186_wnc1_wnc1_sa186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> <p>PMID:17127310</p> <p>Wnt5 activates Ca2+ pathway</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="17104.06" y="18543.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa353_mo_sa353" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Interleukin 6</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa353_mo_sa353"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL-6*"/> <bbox w="80.0" h="40.0" x="5430.0" y="10245.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa138_ad_csa138" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5583"/> <bbox w="100.0" h="120.0" x="29166.0" y="7705.0"/> <glyph class="macromolecule" id="s_id_ad_sa1175_ad_sa1175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:STXBP2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:20634814</p> </body> </html> </notes> <label text="STXBP2"/> <bbox w="80.0" h="40.0" x="29176.0" y="7715.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1176_ad_sa1176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:STX11</p> <p>PMID:20634814</p> </body> </html> </notes> <label text="STX11"/> <bbox w="80.0" h="40.0" x="29176.0" y="7755.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4435_rc_sa4435" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23846383</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4435_rc_sa4435"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Nutrient starvation"/> <bbox w="135.0" h="29.0" x="27781.56" y="11738.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa801_emtc_em_sa801" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa801_emtc_em_sa801"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFA"/> <clone/> <bbox w="40.0" h="20.0" x="6760.0" y="17486.625"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa801_rc_sa675" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa801_rc_sa675"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFA"/> <clone/> <bbox w="80.0" h="40.0" x="23349.06" y="17129.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4363_rc_sa4363" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16038</p> <p>References:</p> <p>PMID:23301705</p> <p>PMID:24070470</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4363_rc_sa4363"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23301705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Phosphatidyl ethanolamine"/> <bbox w="160.0" h="33.0" x="28570.31" y="12026.583"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa303_emtc_em_csa303" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KIT:KITLG</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:15337769</p> <p>http://www.uniprot.org/uniprot/P21583</p> <p>KITLG/KIT binding can activate several signaling pathways. </p> <p>-Promotes phosphorylation of PIK3R1, the regulatory subunit of PI3K, and subsequent activation of the kinase AKT1. </p> <p>-Transmits signals via GRB2 and activation of RAS, RAF1 and the MAP kinases MAPK1/ERK2 and/or MAPK3/ERK1. </p> <p>-Promotes activation of STAT family members STAT1, STAT3 and STAT5. </p> <p>-Promotes activation of PLCG1, leading to the production of the cellular signaling molecules diacylglycerol and inositol 1,4,5-trisphosphate. </p> <p>-Acts synergistically with other cytokines, probably interleukins.</p> <p>PMID:17550342</p> <p>Activation of KIT by binding to KITLG induces SNAI2 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa303_emtc_em_csa303"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15337769"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17550342"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KIT/KITLG"/> <bbox w="98.0" h="117.0" x="1348.5" y="12570.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2047_emtc_em_sa2047"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>KIT ligand</p> <p>HUGO:KITLG HGNC:6343 ENTREZ:4254 UNIPROT:P21583</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="KITLG"/> <bbox w="42.0" h="18.0" x="1376.25" y="12573.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2369_emtc_em_sa2369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog</p> <p>HUGO:KIT HGNC:6342 ENTREZ:3815 UNIPROT:P10721</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:15337769</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="KIT"/> <bbox w="86.0" h="56.0" x="1356.5" y="12601.5"/> <glyph class="unit of information" id="_e7691255-a88a-4327-95f9-6c32f1caef30"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1389.5" y="12596.5"/> </glyph> <glyph class="unit of information" id="_7e2c49b2-d3af-48b8-85f5-25c8a0bfc2d6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1377.0" y="12596.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa43_an_csa43" compartmentRef="s_id_an_ca1_an_ca1"> <label text="an_s449"/> <bbox w="100.0" h="120.0" x="5379.5" y="6750.0"/> <glyph class="macromolecule" id="s_id_an_sa387_an_sa387"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CREBBP</p> </body> </html> </notes> <label text="CREBBP"/> <bbox w="80.0" h="40.0" x="5389.5" y="6810.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa388_an_sa388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CREB1</p> <p>PMID:11532940</p> </body> </html> </notes> <label text="CREB*"/> <bbox w="80.0" h="40.0" x="5389.5" y="6770.0"/> <glyph class="state variable" id="_6b39d5d1-2b79-464e-a695-58f65eeaef1a"> <state value="P" variable="S133"/> <bbox w="35.0" h="10.0" x="5427.5513" y="6765.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1112_emtc_em_sa1112" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1112_emtc_em_sa1112"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLCE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLCE1"/> <bbox w="44.0" h="17.0" x="5783.0" y="15107.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1582_in_sa1582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 1431106, 23170255, 14607933, 18633355, 15699106, 21826665, 22955274, 15099563, 19732719, 12646658, 24092389, 21133840, 23510023 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, 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However, cells of the monocytic lineage-such as macrophages, astroglia, microglia, Langerhans cells, Kupffer cells, and alveolar macrophages-are the primary synthesizers of TNF</p> <p>PMID:1431106</p> <p>TNF induced tumoricidal activity of macrophages.</p> <p>PMID:14607933, 14625680</p> <p>TNF and IFNG cooperate in the activation of macrophages.</p> <p>PMID:18633355</p> <p>TNF is pro-angiogenic facror.</p> <p>PMID:23510023, PMID:23170255</p> <p>TRAIL, FASL and TNF provides Dendritic cell tumor killing activity.()</p> <p>L10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expression</p> <p>PMID:22955274</p> <p>SHIP inhibit MAPKp38 activation and prevent MNK1 phosphorylation by inhibiting the p38 MAPK pathway downstream of IL10. MNK1 regulates TNFa mRNA polysome assembly and upregulates TNFa translation.IL-10 Inhibits TNF Translation through SHIP1-mediated Inhibition of Mnk1</p> <p>PMID:15699106, PMID:12646658</p> <p>Phosphorylated STAT1 binds to TNF promoter end induces TNF expression downstream of IFNG.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:24092389</p> <p>TANs from early tumors are more cytotoxic toward tumor cells and produce higher levels of TNF-a, NO, and H2O2 and, in established tumors, these functions are downregulated and TAN acquire a more protumorigenic phenotype</p> <p>PMID:21826665</p> <p>TANs produce TNF and IL1B, probably downstream of TLR4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1582_in_sa1582"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1431106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23170255"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14607933"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15699106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21826665"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22955274"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15099563"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19732719"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12646658"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24092389"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23510023"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <clone/> <bbox w="80.0" h="40.0" x="24830.0" y="3450.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1582_ca_sa390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 1431106, 23170255, 14607933, 18633355, 15699106, 21826665, 22955274, 15099563, 19732719, 12646658, 24092389, 21133840, 23510023 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:EXOCYTOSIS_AND_PHAGOCYTOSIS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSION</p> <p>CASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:KLRG1, CASCADE:FCAR, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:IL15, CASCADE:CSF2, CASCADE:CSF1, CASCADE:TNF, CASCADE:IFNG</p> <p>PMID:19732719</p> <p>Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)</p> <p>References:</p> <p>PMID:21133840</p> <p>TNF is a pleiotropic cytokine produced by many different types of cells in the body. 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MNK1 regulates TNFa mRNA polysome assembly and upregulates TNFa translation.IL-10 Inhibits TNF Translation through SHIP1-mediated Inhibition of Mnk1</p> <p>PMID:15699106, PMID:12646658</p> <p>Phosphorylated STAT1 binds to TNF promoter end induces TNF expression downstream of IFNG.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:24092389</p> <p>TANs from early tumors are more cytotoxic toward tumor cells and produce higher levels of TNF-a, NO, and H2O2 and, in established tumors, these functions are downregulated and TAN acquire a more protumorigenic phenotype</p> <p>PMID:21826665</p> <p>TANs produce TNF and IL1B, probably downstream of TLR4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa686_emtc_em_sa2555"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO3"/> <clone/> <bbox w="45.0" h="19.0" x="3604.5" y="14474.5"/> <glyph class="state variable" id="_69901e30-41ec-45d6-a23c-9dde09fd4860"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3597.0" y="14479.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa17_an_sa17" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17145802</p> <p>HGNC:5466</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa17_an_sa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF2"/> <bbox w="80.0" h="40.0" x="7812.0" y="7255.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4824_rc_sa4824" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4824_rc_sa4824"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <clone/> <bbox w="80.0" h="40.0" x="27822.967" y="13479.0"/> <glyph class="state variable" id="_2575b250-9938-45e8-b76a-1f693950e739"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="27869.05" y="13474.0"/> </glyph> <glyph class="state variable" id="_2dcbf2e5-e4c5-4241-82fb-b16f5cf308e3"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="27869.287" y="13514.0"/> </glyph> <glyph class="state variable" id="_77b2225e-38d2-4861-b735-088a85ec6216"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="27824.045" y="13474.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4824_rc_sa4958" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4824_rc_sa4958"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <clone/> <bbox w="80.0" h="40.0" x="27072.967" y="13729.0"/> <glyph class="state variable" id="_7ad46753-f68b-441f-8f51-20b17646785b"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="27119.05" y="13724.0"/> </glyph> <glyph class="state variable" id="_8e96121d-b0e3-443d-9d7b-c308c42e516e"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="27119.287" y="13764.0"/> </glyph> <glyph class="state variable" id="_eb68a9c8-8c85-4ce3-b46f-92cea8da8c71"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="27074.045" y="13724.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa99_emtc_em_csa99" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAD:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="aDb2*"/> <bbox w="40.0" h="60.0" x="4774.324" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa627_emtc_em_sa627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4774.324" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa626_emtc_em_sa626"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha D</p> <p>HUGO:ITGAD HGNC:6146 ENTREZ:3681 UNIPROT:Q13349</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAD"/> <bbox w="40.0" h="20.0" x="4774.324" y="18015.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa415_mpk1_mpk1_sa415" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa415_mpk1_mpk1_sa415"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSPB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSPB1"/> <bbox w="62.0" h="25.0" x="11305.224" y="20549.0"/> <glyph class="state variable" id="_3035fadc-6e14-45ff-953d-40a5fdc2d874"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11297.724" y="20556.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_te_sa435_te_sa435" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>2'-deoxyadenosine 5'-triphosphate</p> <p>CHEBI:16284</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="dATP"/> <bbox w="70.0" h="25.0" x="3901.06" y="22247.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa469_rc_csa469" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase8,10*:LC3-I*:SQSTM1</p> <p>References:</p> <p>23725295</p> <p>PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa469_rc_csa469"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8*:SQSTM1:LC3-I*"/> <bbox w="150.0" h="163.0" x="29040.56" y="11355.5"/> <glyph class="macromolecule" id="s_id_rc_sa4452_rc_sa4452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microtubule-associated protein 1 light chain 3 alpha</p> <p>HUGO:MAP1LC3A HGNC:6838 ENTREZ:84557 UNIPROT:Q9H492</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:23301705</p> <p>PMID:23377657</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="LC3-I*"/> <bbox w="80.0" h="40.0" x="29051.686" y="11456.5"/> <glyph class="unit of information" id="_00d7bb59-62f1-4be5-9c0b-8206fa7ba716"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="29066.686" y="11451.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4451_rc_sa4451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sequestosome 1</p> <p>HUGO:SQSTM1 HGNC:11280 ENTREZ:8878 UNIPROT:Q13501</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:26587781</p> <p>Sequestosme 1, p62</p> <p>PMID:20531300</p> <p>PMID:16252010</p> <p>PMID:15340068</p> <p>Sequestosome 1/p62 is a polyubiquitin chain binding protein involved in ubiquitin proteasome degradation.PMID:19450509</p> <p>polyubiquitination of caspase-8, rather than targeting it for proteasomal degradation, is critical for sustaining caspase-8 activity after dissociation from the DISC</p> <p>PMID:28574505</p> </body> </html> </notes> <label text="SQSTM1"/> <bbox w="80.0" h="40.0" x="29088.686" y="11414.5"/> <glyph class="state variable" id="_5cdec0cb-00b0-4373-bcbe-8cc682db8891"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29140.254" y="11409.5"/> </glyph> <glyph class="state variable" id="_77f57d7c-a3e8-4ce5-821e-7280540d5ece"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29123.686" y="11449.5"/> </glyph> <glyph class="state variable" id="_f825ffa0-3ff0-438d-b527-b98b039487c1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29107.117" y="11409.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4453_rc_sa4453"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="29065.936" y="11369.5"/> <glyph class="state variable" id="_0c52bb22-ee74-4962-b619-22875adc12ae"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="29055.936" y="11376.216"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4946_rc_sa4946" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4946_rc_sa4946"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:REL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB*"/> <bbox w="80.0" h="40.0" x="27559.06" y="14369.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa25_ce_csa25" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APE*:Mg2+:PCNA:WRN</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:19748837, PMID:12637553, PMID:10858306, PMID:11948190, PMID:16442856, PMID:15385537, PMID:17116323</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa25_ce_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19748837"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12637553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10858306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11948190"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16442856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15385537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17116323"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APE*/PCNA/WRN/Mg2+"/> <bbox w="140.0" h="210.0" x="9356.473" y="16210.356"/> <glyph class="macromolecule" id="s_id_ce_sa487_ce_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>APEX nuclease (multifunctional DNA repair enzyme) 1 </p> <p>HUGO:APEX1, ENTREZ:328, UNIPROT:P27695</p> <p>APEX nuclease (apurinic/apyrimidinic endonuclease) 2</p> <p>HUGO:APEX2, ENTREZ:27301, UNIPROT:Q9UBZ4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>Apyrimidinic endonucleases, APE</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20056333, PMID:11585362</p> <p>For Phosphorylation by CK2</p> <p>PMID:20955519, PMID:9407949</p> <p>Inhibitors for APE in combination with oxidative stress to block BER and cause cancer cell death </p> <p>PMID:23110144, PMID:22455312</p> <p>CDK5 and MDM2 activate APE for shift to BER activity</p> <p>PMID:21727086, PMID:21922195</p> </body> </html> </notes> <label text="APE*"/> <bbox w="80.0" h="40.0" x="9384.973" y="16307.856"/> <glyph class="state variable" id="_b6788ae6-a9f0-4101-92a0-edc9fa8e4b2a"> <state value="P" variable="Thr233"/> <bbox w="45.0" h="10.0" x="9411.766" y="16302.856"/> </glyph> <glyph class="state variable" id="_66754a88-ba57-4f82-9a65-a5434676366d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9379.973" y="16316.775"/> </glyph> <glyph class="state variable" id="_d38a6f43-d8d9-427a-bfda-4fc9ebe67642"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="9454.973" y="16317.124"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ce_sa486_ce_sa486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="35.0" h="31.0" x="9403.973" y="16266.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa488_ce_sa488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="9385.973" y="16355.785"/> <glyph class="state variable" id="_13d443bd-24b6-42bd-8f13-464f54fdec5c"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="9370.973" y="16370.785"/> </glyph> <glyph class="state variable" id="_9493807c-a6b3-48af-a739-cb7af63ce92c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9380.974" y="16390.785"/> </glyph> <glyph class="state variable" id="_d205fbdf-7af9-40dd-9fac-9f79fa62f1ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9404.404" y="16390.785"/> </glyph> <glyph class="state variable" id="_be8e1112-d864-409d-93f7-d074c1c5df93"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9420.973" y="16390.785"/> </glyph> <glyph class="state variable" id="_a69683bb-2e6a-40d5-92b8-2d3078797061"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="9374.956" y="16350.785"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1459_ce_sa1459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Werner syndrome, RecQ helicase-like</p> <p>HUGO:WRN, HGNC:12791, ENTREZ:7486, UNIPROT:Q14191</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:20691907</p> <p>For A_NHEJ pathway</p> <p> (alt_NHEJ or B_NHEJ or MMEJ)</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>, PMID:21376743, PMID:24050180, PMID:22743550</p> <p>For HR pathway</p> <p>PMID:19490890, PMID:22657828 </p> <p>For BER pathway</p> <p>PMID:17116323, PMID:18398454, PMID:16449207, PMID:15385537, PMID:18558713, PMID:23161013</p> <p>WRN in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>Inhibiting WNT kills alt_NHEJ pathway</p> <p>PMID:24036544</p> <p>PARP1 inhibits WRN</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> <p>Activation of WRN in cancers</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="WRN"/> <bbox w="80.0" 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR1"/> <clone/> <bbox w="80.0" h="50.0" x="2069.5" y="12609.5"/> <glyph class="unit of information" id="_d732081b-6bdf-4b73-86bc-721fac193015"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2087.0" y="12604.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2357_ca_sa274" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2357_ca_sa274"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR1"/> <clone/> <bbox w="80.0" h="50.0" x="4750.0" y="1025.0"/> <glyph class="unit of information" id="_e1518479-1855-475d-b14e-dd6435018c4d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4767.5" y="1020.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2357_ca_sa277" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2357_ca_sa277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR1"/> <clone/> <bbox w="80.0" h="50.0" x="4750.0" y="1155.0"/> <glyph class="unit of information" id="_b3c5b7bb-16aa-4141-8be1-7f1a85135ea1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4767.5" y="1150.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_in_sa1981_in_sa1981" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17485448, 23086447, 21807870, 17237376, 23422957, 17254973, 2649237 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17485448</p> <p>TNIP3 (ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <p>of downstream NFkB signaling downstream of IL10.</p> <p>PMID:17237376, PMID:21807870</p> <p>Alternative pathways involeved IKKa activation by NIK. This signaling is important for DC maturation and T-cell activation (). NIK signaling is required in DCs to deliver co-stimulatory signals to CD4+ T cells</p> <p>PMID:23086447</p> <p>Alternative NFkB pathway induces via phosphorylation of IkB-specific kinase a (IKK-a) the cleavage of p100-RelB to p52-RelB, which then translocates as heterodimer into the nucleus.</p> <p>Both complete p100 degradation and p100 processing to p52 may occur in Dcs and expression of IKKa, the kinase determining the activity of noncanonical NF-kB pathway, gradually increased during DC differentiation with concomitant p100 processing to p52</p> <p>PMID:2649237</p> <p>In macrophages RELB /p52 pathway is associated with M1 polarization</p> <p>PMID:23422957</p> <p>IKKa could regulate IRF3 activity and IRF3-dependent IFNB and IL-12 production by DC. TAK1 (MAP3K7)-mediated IKKa/B activation is required for IRF3-dependent IFNB expression in DC. At the same time IKKa regulates IRF3-mediated transcription downstream of IKKe/TBK1mediated IRF3 phosphorylation. IKKa increases the association of IRF3 with the transcriptional co-activator CBP. The increased recruitment of CBP after overexpression of IKKa was also associated with increased transcription of endogenous IFNB mRNA.</p> <p>PMID:17254973</p> <p>NfkB heterodiners could be also bloked by p52 precursor, protein p100. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR149Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:CASCADE:PGEPMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsmiR-149 mimics significantly suppressed the stimulatory effect of CAFs on GC cell proliferation, colony forming ability, migration and invasion; conversely, miR-149 inhibitors conferred NFs the enhancing effects.PGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:CASCADE:PGEPMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsmiR-149 mimics significantly suppressed the stimulatory effect of CAFs on GC cell proliferation, colony forming ability, migration and invasion; conversely, miR-149 inhibitors conferred NFs the enhancing effects.PGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression. </body> </html> </notes> <label text="MIR149"/> <bbox w="90.0" h="25.0" x="185.0" y="3167.5"/> <glyph class="unit of information" id="_ebba311d-7c09-47f5-bc99-80c00ef37995"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="215.0" y="3162.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa969_ca_sa969"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:IL6Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFB, CASCADE:IL1, CASCADE:PGEPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFB, CASCADE:IL1, CASCADE:PGEPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkB </body> </html> </notes> <label text="IL6"/> <bbox w="90.0" h="25.0" x="185.0" y="3197.5"/> <glyph class="unit of information" id="_22c1a245-0f37-41dd-9578-eadda12db48f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="220.0" y="3192.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1441_in_sa1441"> <label text="LGALS1"/> <bbox w="80.0" h="40.0" x="9010.0" y="1160.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa109_ca_csa109" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CXCL12:CXCR4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> </body> </html> </notes> <label text="ca_s4861"/> <bbox w="100.0" h="120.0" x="1100.0" y="1620.0"/> <glyph class="macromolecule" id="s_id_ca_sa1004_ca_sa1004"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-X-C motif chemokine ligand 12</p> <p>HUGO:CXCL12 hgnc_id:HGNC:10672 HGNC:10672 ENTREZ:6387 UNIPROT:P48061</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:TREG_MODULATORS </p> <p>References:</p> <p>CASCADE:CXCL12, CASCADE:TGFB, CASCADE:HGF</p> <p>PMID:23034983</p> <p>TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5</p> <p>PMID:15882617 </p> <p> CAFs promote angiogenesis by recruiting endothelial progenitor cells (EPCs) into carcinomas, an effect mediated in part by SDF-1. CAF-secreted SDF-1 also stimulates tumor growth directly, acting through the cognate receptor, CXCR4, which is expressed by carcinoma cells. Our findings indicate that fibroblasts within invasive breast carcinomas contribute to tumor promotion in large part through the secretion of SDF-1.</p> <p>PMID:23402812 </p> <p>Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.</p> <p>HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMA</p> <p>PMID:15261139</p> <p>The CXCL14 and CXCL12 chemokines overexpressed in tumor myoepithelial cells and myofibroblasts, respectively, bind to receptors on epithelial cells and enhance their proliferation, migration, and invasion.</p> <p>PMID:24277834 </p> <p> Three findings suggested that chemokine (C-X-C motif) ligand 12 (CXCL12) explained the overriding immunosuppression by the FAP(+) cell: T cells were absent from regions of the tumor containing cancer cells, cancer cells were coated with the chemokine, CXCL12, and the FAP(+) CAF was the principal source of CXCL12 in the tumor. Administering AMD3100, a CXCL12 receptor chemokine (C-X-C motif) receptor 4 inhibitor, induced rapid T-cell accumulation among cancer cells and acted synergistically with α-PD-L1 to greatly diminish cancer cells, which were identified by their loss of heterozygosity of Trp53 gene.</p> <p>Stromal fibroblasts present in invasive human breast carcinomas promote tumor growth and angiogenesis through elevated SDF-1/CXCL12 secretion.</p> <p>PMID:20535745 </p> <p>CXCR4 receptor and CXCL12 both are expressed in fibroblasts and probably provides positive loop in fibroblast activation</p> <p>PMID:23567181</p> <p>CAF-mediated recruitment of T lymphocytes is facilitated by secretion of chemokines and cytokines that promote the recruitment of tumor-promoting T cells, including CXCL9, CXCL10, and CXCL12 (SDF-1α)</p> <p>PMID:21521526</p> <p>Recruitment of regulatory T cells is correlated with hypoxia-induced CXCR4 expression, and is associated with poor prognosis in basal-like breast cancers</p> <p>Our data show that in the setting of hypoxia and CXCR4 up-regulation in Treg, CXCL12 expression may have the negative consequence of enhancing Treg recruitment and suppressing the anti-tumour immune response.</p> </body> </html> </notes> <label text="CXCL12"/> <bbox w="80.0" h="40.0" x="1110.0" y="1630.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1003_ca_sa1003"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CXCR4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:CXCL12</p> <p>PMID:20535745 </p> <p>CXCR4 receptor and CXCL12 both are expressed in fibroblasts and probably provides positive loop in fibroblast activation</p> <p>and promotes RhoA-activation aand actin polymerisation.</p> </body> </html> </notes> <label text="CXCR4"/> <bbox w="80.0" h="50.0" x="1110.0" y="1675.0"/> <glyph class="unit of 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ENTREZ:9451 UNIPROT:Q9NZJ5</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> </body> </html> </notes> <label text="PERK*"/> <bbox w="80.0" h="40.0" x="28267.967" y="13909.0"/> <glyph class="state variable" id="_27096ade-907d-43a5-85f3-cbbe6f4a6215"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28340.467" y="13915.715"/> </glyph> <glyph class="state variable" id="_0c309fe8-cd1f-4cad-b845-bdff13f219f5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28340.467" y="13932.285"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2319_emtc_em_sa2319" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1-Phosphatidyl-1D-myo-inositol 3-phosphate</p> <p>CAS:N/A PUBCHEM:7155 CHEBI:17283 KEGGCOMPOUND:C04549</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="PI(3)P"/> <bbox w="70.0" h="25.0" x="5746.0" y="13278.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2446_in_sa2446" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24418198, 12907458, 12754507, 10606755 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSCASCADE:IL10, CASCADE:TLR2_4, CASCADE:TNF, CASCADE:CSF2References:PMID:12754507, PMID:24418198SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759)Of gp130 to suppress IL-6 signaling.PMID:12907458IL10 induces SOCS3 expression in STAT3 dependent manner.PMID:10606755LPS and TNFalpha were found to induce the expression of SOCS3 mRNA in each of the investigated type of macrophages but not in HepG2 cells. Using a specific inhibitor, evidence is presented that the p38 MAP kinase might be involved, especially for the inhibitory effect of TNF-alpha. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 24418198, 12907458, 12754507, 10606755 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSCASCADE:IL10, CASCADE:TLR2_4, CASCADE:TNF, CASCADE:CSF2References:PMID:12754507, PMID:24418198SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759)Of gp130 to suppress IL-6 signaling.PMID:12907458IL10 induces SOCS3 expression in STAT3 dependent manner.PMID:10606755LPS and TNFalpha were found to induce the expression of SOCS3 mRNA in each of the investigated type of macrophages but not in HepG2 cells. Using a specific inhibitor, evidence is presented that the p38 MAP kinase might be involved, especially for the inhibitory effect of TNF-alpha. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2446_in_sa2446"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24418198"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12907458"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> 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Following CD28 engagement by B7, in the absence of TCR, FLNa-associated NIK is activated and induces IKKα kinase activity. Both proline (P(208)YAP(211)P(212)) and tyrosine residues (Y(206)QPY(209)APP) within the C-terminal proline-rich motif of CD28 are involved in the recruitment of FLNa/NIK complexes to the membrane as well as in the activation of NIK and IKKα.</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> </body> </html> </notes> <label text="MAP3K14"/> <bbox w="80.0" h="40.0" x="28236.0" y="5275.0"/> <glyph class="state variable" id="_faa01a5c-5b62-4d65-b0df-526f97ce662c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28228.5" y="5290.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa914_ad_sa914"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:FLNA</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:27242793 </p> <p> PIP5Kβ mediates the recruitment of filamin-A (FLN-A) and lipid rafts to the T:APC contact zone downstream of CD28.</p> <p>where filamin-A cooperates with Vav1 to integrate signaling pathways resulting in actin polymerization and lipid raft mobilizatio</p> <p>PMID:21277899 </p> <p>In searching for specific upstream activators linking CD28 to the IKKα/NF-κB cascade, we identify a novel constitutive association between filamin A (FLNa) and the NF-κB inducing kinase (NIK), in both Jurkat and human primary T cells. Following CD28 engagement by B7, in the absence of TCR, FLNa-associated NIK is activated and induces IKKα kinase activity. 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Moreover, ionomycin did not enhance Tec-induced AP-1 activation (Fig. 4C), also suggesting that Tec contributes to AP-1 activation upstream of Ca2+ release.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa693_wnc1_wnc1_sa107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10811803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10089876"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7650486"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9973469"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15214048"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+"/> <clone/> <bbox w="33.0" h="31.0" x="15135.561" y="18445.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa693_in_sa565" compartmentRef="s_id_ad_ca16_ad_ca16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:CD226, CASCADE:TCR</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. 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Moreover, ionomycin did not enhance Tec-induced AP-1 activation (Fig. 4C), also suggesting that Tec contributes to AP-1 activation upstream of Ca2+ release.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa693_in_sa565"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10811803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10089876"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7650486"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9973469"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15214048"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="14282.5" y="3932.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa26_wca1_wca2_csa26" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL2:LRP6:RIPK4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re60(MAP:survival):</p> <p>Without RIPK4 upon wnt3 stimulation 25% of HeLa cells show DVL2 in puncta. Co-transfection of RIPK4 increases this number to more than 75%</p> <p>PMID:23371553</p> <p>s_wca2_re61:(MAP:survival) continue with dvl puncta formation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa26_wca1_wca2_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23371553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL2:LRP6:RIPK4"/> <bbox w="99.0" h="173.0" x="25276.06" 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF24"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF25"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="21529.06" y="21608.5"/> <glyph class="state variable" id="_8fd84251-8760-4ffb-86c4-9f3d3692f56c"> <state value="P" variable="S166"/> <bbox w="35.0" h="10.0" x="21512.053" y="21603.5"/> </glyph> <glyph class="state variable" id="_c8f144ee-d3c6-4dcc-8d72-eebf413b4bf0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21604.06" y="21604.377"/> </glyph> <glyph class="state variable" id="_42d0f4b6-dd81-4b7e-a845-420bc69ac002"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="21596.56" y="21640.115"/> </glyph> <glyph class="state variable" id="_2823bdc6-bb58-4e2b-b09c-448bc2ee8894"> <state value="" 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MAP:MDSCMODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION, MODULE:IMMUNE_SUPPRESSIONCASCADE:TLR2_4, CASCADE:IL4, CASCADE:IL13, CASCADE:TNFReferences:PMID:23390297, PMID:22461508, PMID:8195715MIF is expresed by macrophages </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2405_in_sa2405"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22461508"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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<annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa35_shh1_shh2_csa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21383238"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-17-5p_STAT3"/> <bbox w="100.0" h="120.0" x="27747.06" y="21931.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa265_shh1_shh2_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR17-5P*"/> <bbox w="90.0" h="25.0" x="27753.56" y="21946.0"/> <glyph class="unit of information" id="_8cd63b69-bd4e-4204-b10c-aa162173f485"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27783.56" y="21941.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa268_shh1_shh2_sa268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>signal transducer and activator of transcription 3</p> <p>HUGO:STAT3 HGNC:11364 ENTREZ:6774 UNIPROT:P40763 GENECARDS:STAT3 REACTOME:403956 KEGG:6774 ATLASONC:STAT3ID444 WIKI:STAT3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19424782</p> <p>signal transducer and activator of transcription 3</p> <p>HUGO:STAT3 HGNC:11364 ENTREZ:6774 UNIPROT:P40763 GENECARDS:STAT3 REACTOME:403956 KEGG:6774 ATLASONC:STAT3ID444 WIKI:STAT3</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="STAT3"/> <bbox w="90.0" h="25.0" x="27753.56" y="21973.0"/> <glyph class="unit of information" id="_b347315f-220c-4521-90d9-ed1913286375"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27788.56" y="21968.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa804_ca_sa804" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:CASCADE:TGFBPMID:11013125 ; PMID:11376132 CTGF expression is induced by TGF- beta in fibroblasts via SMAD3 and SMAD4 pathway ----- content merged by Celldesigner to SBGN-ML translation ------ References:CASCADE:TGFBPMID:11013125 ; PMID:11376132 CTGF expression is induced by TGF- beta in fibroblasts via SMAD3 and SMAD4 pathway </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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y="4668.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa559_rc_sa559" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa559_rc_sa559"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD"/> <bbox w="90.0" h="25.0" x="21453.06" y="16010.5"/> <glyph class="unit of information" id="_7ae06087-5be6-4628-aa07-a2e77fb772a6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21488.06" y="16005.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1380_ad_sa1380" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p> PMID:22017440 </p> <p>TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulation</p> <p>of Bcl-xL and Bfl-1 and down modulation of BIM protein</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1380_ad_sa1380"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017440"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2A1"/> <bbox w="80.0" h="40.0" x="28416.0" y="7575.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa543_rc_csa543" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase1*:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa543_rc_csa543"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ASC:Caspase1*"/> <bbox w="100.0" h="120.0" x="29129.06" y="9799.0"/> <glyph class="macromolecule" id="s_id_rc_sa5429_rc_sa5429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="29139.06" y="9809.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5438_rc_sa5438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 1</p> <p>HUGO:CASP1 hgnc_id:HGNC:1499 HGNC:1499 ENTREZ:834 UNIPROT:P29466</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase1*"/> <bbox w="80.0" h="40.0" x="29139.06" y="9849.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4805_rc_sa4805" compartmentRef="s_id_rc_ca39_rc_ca39"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4805_rc_sa4805"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CALR"/> <bbox w="80.0" h="40.0" x="26029.06" y="14309.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2097_in_sa2097" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="PTGS2"/> <bbox w="90.0" h="25.0" x="12365.0" y="5837.5"/> <glyph class="unit of information" id="_3b0bf0e9-215e-4f03-b72e-2ecf5b3ed080"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12400.0" y="5832.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa74_an_sa74" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7525077</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa74_an_sa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7525077"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Angiostatin*"/> <bbox w="80.0" h="40.0" x="5892.0" y="7565.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2989_rc_sa2989" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2989_rc_sa2989"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXNIP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXNIP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TXNIP"/> <bbox w="70.0" h="25.0" x="24377.912" y="16302.409"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2074_em_sa2074" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:17784835</p> <p>IL8 expression is dependent of NF-_kappa_B_ activity</p> <p>PMID : 26548401</p> <p>miR-302c was found to inhibit IL-8 expression and restrain tumor invasion and metastasis.</p> <p>PMID:18555778</p> <p>In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2074_em_sa2074"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17784835"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555778"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL8"/> <bbox w="45.0" h="20.0" x="3812.5" y="12556.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1638_rc_sa1638" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1638_rc_sa1638"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2A1"/> <bbox w="80.0" h="40.0" x="22969.06" y="13579.0"/> </glyph> <glyph class="complex" id="s_id_te_csa31_te_csa31" compartmentRef="s_id_te_ca3_te_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:telomerase</p> <p>ALT_NAME:DKC1/GAR1/NHP2/NOP10/TERC/WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa31_te_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="telomerase"/> <bbox w="425.0" h="200.0" x="4892.06" y="21291.0"/> <glyph class="macromolecule multimer" id="s_id_te_sa288_te_sa288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="4909.06" y="21388.0"/> <glyph class="unit of information" id="_5a3b0143-8180-4bfe-9a40-8ded8f5cb867"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="4942.06" y="21383.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa250_te_sa250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="5017.06" y="21431.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa249_te_sa249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="5117.06" y="21371.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa248_te_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="5017.06" y="21381.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa287_te_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <bbox w="80.0" h="40.0" x="5012.06" y="21321.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa251_te_sa251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <bbox w="80.0" h="40.0" x="5107.06" y="21431.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa247_te_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="5117.06" y="21321.0"/> <glyph class="state variable" id="_2743b22b-712d-4690-be39-1c39e012d711"> <state value="P" variable="S227"/> <bbox w="35.0" h="10.0" x="5137.189" y="21316.0"/> </glyph> <glyph class="state variable" id="_ad43138f-e340-4a45-8087-762d82757490"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5112.06" y="21335.969"/> </glyph> <glyph class="state variable" id="_eb313642-2181-4190-ba72-306d1e11dab4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5149.561" y="21356.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa253_te_sa253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <bbox w="90.0" h="25.0" x="5202.06" y="21338.5"/> <glyph class="state variable" id="_bf1dea14-b906-496f-b6c3-0fa33b75cec5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5237.56" y="21333.5"/> </glyph> <glyph class="unit of information" id="_941eac52-b61a-4a38-b647-0f3fc9eba0db"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5237.06" y="21333.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa252_te_sa252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat containing, antisens to TP53</p> <p>HUGO:WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="WRAP53"/> <bbox w="80.0" h="40.0" x="5197.06" y="21431.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa417_mpk1_mpk1_sa417" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa417_mpk1_mpk1_sa417"> <bqbiol:isEncodedBy> <rdf:Bag> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa759_ca_sa759"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTG1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Actin cytoskeletal*"/> <bbox w="136.0" h="56.0" x="6302.0" y="4172.0"/> <glyph class="unit of information" id="_074762f0-3010-412c-97f9-37020a7214da"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6360.0" y="4167.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa180_emtc_em_csa180" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JAM2:JAM3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="JAM2*/JAM3*"/> <bbox w="82.0" h="37.0" x="1023.0" y="14927.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1235_emtc_em_sa1235"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>junctional adhesion molecule 2</p> <p>HUGO:JAM2, HGNC:14686, ENTREZ:58494, UNIPROT:P57087, GENECARDS:GC21P027011 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="JAM2"/> <bbox w="40.0" h="16.0" x="1024.0" y="14928.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1236_emtc_em_sa1236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>junctional adhesion molecule 3</p> <p>HUGO:JAM3, HGNC:15532, ENTREZ:83700, UNIPROT:Q9BX67, GENECARDS:GC11P133972 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="JAM3"/> <bbox w="41.0" h="16.0" x="1064.0" y="14928.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa272_ce_csa272" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK5:EME1:STAT3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="CDK5/EME1/STAT3"/> <bbox w="111.0" h="160.0" x="14290.473" y="17190.355"/> <glyph class="macromolecule" id="s_id_ce_sa1588_ce_sa1588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>signal transducer and activator of transcription 3 (acute-phase response factor)</p> <p>HUGO:STAT3 HGNC:11364 ENTREZ:6774 UNIPROT:P40763</p> </body> </html> </notes> <label text="STAT3"/> <bbox w="80.0" h="40.0" x="14308.473" y="17243.355"/> <glyph class="state variable" id="_b9b59705-fb59-465c-9201-b6d2e0f7b867"> <state value="P" variable="Ser727"/> <bbox w="45.0" h="10.0" x="14339.8955" y="17238.355"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1589_ce_sa1589"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 5</p> <p>HUGO:CDK5 HGNC:1774 ENTREZ:1020 UNIPROT:Q00535</p> <p>Map modules:</p> <p>MODULE:BER, MODULE:DNA_REPAIR</p> <p>References:</p> <p>Triple phosphorylation by CDK5 inhibits PARP1</p> <p>PMID:21922195 </p> <p>Stabilisation of USP1 by phosphorylaton by CDK5</p> <p>PMID:23589330</p> </body> </html> </notes> <label text="CDK5"/> <bbox w="80.0" h="40.0" x="14307.806" y="17287.355"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1587_ce_sa1587"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>essential meiotic endonuclease 1 homolog 1 (S. pombe)</p> <p>HUGO:EME1, HGNC:24965, ENTREZ:146956, UNIPROT:Q96AY2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="EME1"/> <bbox w="80.0" h="40.0" x="14310.473" y="17197.023"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa383_in_sa383" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="B7H6*"/> <bbox w="90.0" h="25.0" x="18895.0" y="532.5"/> <glyph class="unit of information" id="_2dbe5d63-b925-46e2-94fd-32d822e553a5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="18930.0" y="527.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1081_ad_sa1081" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:IL18, CASCADE:IL12, CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:24104473; PMID:16799472</p> <p> Triggering of the T cell receptor (TCR) activates Src family kinases (SFK) and the zeta-chain-associated protein of 70 kDa (ZAP-70). These tyrosine kinases lead to the activation of the transcription factor NF-κB and the p38 mitogen-activated protein kinase. NF-κB induces transcription of the Gadd45b gene. The same applies to the cytokines IL-12 and IL-18 as well as stimulation of the Notch receptor and its cytoplasmic effector Deltex. The cytokine IL-2 activates transcription of the Gadd45g gene. Both Gadd45β and Gadd45γ proteins interact with the kinase MEKK4, which leads to sustained p38 activation and, subsequently, to interferon-γ (IFN-γ) production and Th1 differentiation.</p> <p>PMID:11175814</p> <p> IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.</p> <p>GADD45B significantly increased phosphorylated p38 MAPK compared to the control</p> <p>MEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18</p> <p>IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNG</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1081_ad_sa1081"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24104473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11175814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K4"/> <clone/> <bbox w="80.0" h="40.0" x="26786.0" y="5125.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1081_ad_sa1082" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:IL18, CASCADE:IL12, CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:24104473; PMID:16799472</p> <p> Triggering of the T cell receptor (TCR) activates Src family kinases (SFK) and the zeta-chain-associated protein of 70 kDa (ZAP-70). These tyrosine kinases lead to the activation of the transcription factor NF-κB and the p38 mitogen-activated protein kinase. NF-κB induces transcription of the Gadd45b gene. The same applies to the cytokines IL-12 and IL-18 as well as stimulation of the Notch receptor and its cytoplasmic effector Deltex. The cytokine IL-2 activates transcription of the Gadd45g gene. Both Gadd45β and Gadd45γ proteins interact with the kinase MEKK4, which leads to sustained p38 activation and, subsequently, to interferon-γ (IFN-γ) production and Th1 differentiation.</p> <p>PMID:11175814</p> <p> IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.</p> <p>GADD45B significantly increased phosphorylated p38 MAPK compared to the control</p> <p>MEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18</p> <p>IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNG</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1081_ad_sa1082"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24104473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11175814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K4"/> <clone/> <bbox w="80.0" h="40.0" x="26786.0" y="5025.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa315_ce_sa315" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa315_ce_sa315"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E2F4_5*"/> <bbox w="80.0" h="40.0" x="12125.77" y="9643.875"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa980_in_sa980" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 22067385 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYSCASCADE:IL4, CASCADE:IL13References:PMID:22067385MYC upregulates expression of STAT6 ans enhances downstreamIL4 signaling. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 22067385 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYSCASCADE:IL4, CASCADE:IL13References:PMID:22067385MYC upregulates expression of STAT6 ans enhances downstreamIL4 signaling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1122_emtc_em_sa1122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EPHA2"/> <bbox w="80.0" h="50.0" x="2699.5" y="12606.5"/> <glyph class="state variable" id="_c18852e4-2f16-4290-adb0-2291bc3d0e5e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2694.5" y="12621.65"/> </glyph> <glyph class="unit of information" id="_04e7195c-dce8-455c-a2f5-8a5dea2865c6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2717.0" y="12601.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2245_in_sa2245" compartmentRef="s_id_in_ca12_in_ca12"> <label text="RLC_MYOSIN_II*"/> <bbox w="80.0" h="40.0" x="18950.0" y="5980.0"/> <glyph class="state variable" id="_d4d613ad-7853-4713-b41e-1273bd95e338"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18945.0" y="5995.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4524_rc_sa4524" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>poly(ADP-ribose) polymer</p> <p>PMID:17116881</p> <p>PMID:24684389</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4524_rc_sa4524"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17116881"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24684389"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR"/> <bbox w="70.0" h="25.0" x="19454.06" y="16886.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa260_mo_sa260" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa260_mo_sa260"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="2315.0" y="8951.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa489_rc_csa489" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAX:BCL2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa489_rc_csa489"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2:BAX"/> <bbox w="100.0" h="120.0" x="27702.967" y="13619.0"/> <glyph class="macromolecule" id="s_id_rc_sa5108_rc_sa5108"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="27712.967" y="13629.0"/> <glyph class="state variable" id="_4a888425-a8b3-436d-9f49-fa5b34021fde"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27764.535" y="13624.0"/> </glyph> <glyph class="state variable" id="_b61ed03b-182d-40df-a2b2-788c66aaf1ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27707.967" y="13644.0"/> </glyph> <glyph class="state variable" id="_ac8eea80-a803-4653-8d43-6362fab2289a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27731.398" y="13624.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5109_rc_sa5109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="27712.967" y="13679.0"/> <glyph class="state variable" id="_b1fbbc3d-5cd0-495c-852e-319381e8717b"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="27759.05" y="13674.0"/> </glyph> <glyph class="state variable" id="_aa56b1c6-febe-441e-96b6-3be29564a156"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="27759.287" y="13714.0"/> </glyph> <glyph class="state variable" id="_05cb05eb-9da5-4c1c-9fbd-3914d6c2c5e4"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="27714.045" y="13674.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa546_ca_sa546" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa546_ca_sa546"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF1"/> <bbox w="80.0" h="40.0" x="1650.0" y="1360.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa200_rc_csa200" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BBC3:BCL2A1</p> </body> </html> </notes> <label text="BBC3:BCL2A1"/> <bbox w="98.0" h="126.0" x="22201.31" y="13543.0"/> <glyph class="macromolecule" id="s_id_rc_sa1645_rc_sa1645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>synonym:PUMA</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="80.0" h="40.0" x="22213.31" y="13554.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1644_rc_sa1644"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-related protein A1</p> <p>HUGO:BCL2A1 HGNC:991 ENTREZ:597 UNIPROT:Q16548</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="BCL2A1"/> <bbox w="80.0" h="40.0" x="22209.06" y="13599.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa4_te_csa4" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Modules_begin:</p> <p>MODULE:SHELTERIN</p> <p>Modules_end</p> </body> </html> </notes> <label text="TERF1/TINF2/TNKS"/> <bbox w="220.0" h="140.0" x="2771.06" y="20700.0"/> <glyph class="macromolecule" id="s_id_te_sa55_te_sa55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TERF1 (TRF1-)interacting nuclear factor 2</p> <p>HUGO:TINF2, HGNC:11824, ENTREZ:26277, UNIPROT:Q9BSI4, GENECARDS:TINF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of TINF2</p> <p>PMID:10581025</p> </body> </html> </notes> <label text="TINF2"/> <bbox w="80.0" h="40.0" x="2781.06" y="20720.0"/> <glyph class="state variable" id="_95fe19f4-1d2f-435a-a6e3-187e3de60b67"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2776.06" y="20734.969"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa92_te_sa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase</p> <p>HUGO:TNKS, HGNC:11941, ENTREZ:8658, UNIPROT:O95271, GENECARDS:TNKS</p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN</p> <p>Modules_end</p> <p>References:</p> <p>PMID:9822378, PMID:21181822, PMID:17825467</p> </body> </html> </notes> <label text="TNKS"/> <bbox w="80.0" h="40.0" x="2791.06" y="20770.0"/> <glyph class="state variable" id="_8c852279-e571-478d-876d-dceef4a85ed2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2786.06" y="20771.852"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa53_te_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor (NIMA-interacting) 1</p> <p>HUGO:TERF1, HGNC:11728, ENTREZ:7013, UNIPROT:P54274, GENECARDS:TERF1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF1</p> <p>PMID:7502076</p> </body> </html> </notes> <label text="TERF1*"/> <bbox w="86.0" h="46.0" x="2888.06" y="20717.0"/> <glyph class="unit of information" id="_34ecfa79-020a-49a5-a91a-790cca540fe1"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2921.06" y="20712.0"/> </glyph> <glyph class="state variable" id="_b80e33b4-468d-482a-baed-e893bec18f8a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2883.06" y="20735.0"/> </glyph> <glyph class="state variable" id="_9b21ac51-1d5b-442a-ba1a-31465a533ab5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2969.06" y="20735.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa549_in_sa549" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa549_in_sa549"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23077238"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18784374"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DAG"/> <bbox w="70.0" h="25.0" x="13935.0" y="3347.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa327_rc_csa327" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAX:MXI1</p> </body> </html> </notes> <label text="MAX:MXI1"/> <bbox w="100.0" h="120.0" x="24121.56" y="16574.0"/> <glyph class="macromolecule" id="s_id_rc_sa2959_rc_sa2959"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MAX interactor 1, dimerization protein</p> <p>HUGO:MXI1 HGNC:7534 ENTREZ:4601 UNIPROT:P50539</p> <p>Map modules:</p> <p>MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MXI1"/> <bbox w="80.0" h="40.0" x="24131.56" y="16624.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2960_rc_sa2960"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MYC associated factor X</p> <p>HUGO:MAX HGNC:6913 ENTREZ:4149 UNIPROT:P61244</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MAX"/> <bbox w="80.0" h="40.0" x="24131.56" y="16584.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa480_rc_csa480" compartmentRef="s_id_rc_ca42_rc_ca42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATG5:CASP8:FADD:LC3*:SQSTM1 </p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>CASP8:FADD:LC3*:SQSTM1:ATG5</p> <p>PMID:26587781</p> <p>intracellular death-inducing signaling complex (iDISC)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa480_rc_csa480"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26587781"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CASP8:FADD:LC3*:SQSTM1:ATG5"/> <bbox w="215.0" h="150.0" x="28831.56" y="14854.0"/> <glyph class="macromolecule" id="s_id_rc_sa5077_rc_sa5078"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="28859.06" y="14889.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5079_rc_sa5079"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28849.06" y="14929.0"/> <glyph class="state variable" id="_58707625-d095-4c0a-bca8-13f830e6afd9"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28911.56" y="14935.778"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5076_rc_sa5076"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 5</p> <p>HUGO:ATG5 HGNC:589 ENTREZ:9474 UNIPROT:Q9H1Y0</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <label text="ATG5"/> <bbox w="80.0" h="40.0" x="28956.56" y="14954.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5074_rc_sa5074"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microtubule-associated protein 1 light chain 3 alpha</p> <p>HUGO:MAP1LC3A HGNC:6838 ENTREZ:84557 UNIPROT:Q9H492</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:15325588</p> <p>PMID:23725295</p> <p>LC3-I is transformed into LC3-II/Atg8 thanks to Phosphatidyl ethanolamine</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="LC3*"/> <bbox w="80.0" h="40.0" x="28956.56" y="14864.0"/> <glyph class="state variable" id="_c4834280-e66f-4435-b0ba-75625cccf319"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29031.56" y="14870.715"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5079_rc_sa5080"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28859.06" y="14939.0"/> <glyph class="state variable" id="_96459c0e-d7be-42a6-bc02-94a1d7c1618a"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28921.56" y="14945.778"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5077_rc_sa5077"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="28849.06" y="14879.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5075_rc_sa5075"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sequestosome 1</p> <p>HUGO:SQSTM1 hgnc_id:HGNC:11280 HGNC:11280 ENTREZ:8878 UNIPROT:Q13501</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:26587781</p> <p>Sequestosme 1, p62</p> </body> </html> </notes> <label text="SQSTM1 "/> <bbox w="80.0" h="40.0" x="28959.06" y="14909.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa556_rc_sa556" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa556_rc_sa556"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC5"/> <clone/> <bbox w="90.0" h="25.0" x="21360.06" y="16042.5"/> <glyph class="unit of information" id="_e9ff941f-cd2d-4fa4-a416-097f6a94db64"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21395.06" y="16037.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa556_emtc_em_sa781" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa556_emtc_em_sa781"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC5"/> <clone/> <bbox w="60.0" h="20.0" x="4740.5" y="17003.723"/> <glyph class="unit of information" id="_20cb01f7-30d3-4868-8ce1-86d38a7748bc"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4760.5" y="16998.723"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa40_emtc_em_csa40" compartmentRef="s_id_emtc_em_ca33_emtc_em_ca33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SARA*:SMAD2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SARA*/SMAD2"/> <bbox w="109.0" h="96.0" x="6509.5" y="16705.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa390_emtc_em_sa390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9670020</p> <p>Smad2 and Smad3 form homo-oligomers upon phosphorylation by the constitutively active TGFBR1</p> <p>This oligomerization does not require Smad4.</p> <p>PMID:11074002</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="107.0" h="51.0" x="6510.5" y="16725.5"/> <glyph class="state variable" id="_1b419519-c5f7-434f-aa32-ac1463e69217"> <state value="P" variable="S467"/> <bbox w="35.0" h="10.0" x="6600.0" y="16766.756"/> </glyph> <glyph class="state variable" id="_1203b88f-0ad3-41d9-a68c-4bd295f521ed"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="6602.5" y="16743.955"/> </glyph> <glyph class="state variable" id="_37729916-db36-4e42-873e-d4f7008fbf0c"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="6554.9424" y="16771.5"/> </glyph> <glyph class="state variable" id="_ef3b8cb7-05ee-46d2-a955-1062fbf1120f"> <state value="P" variable="S465"/> <bbox w="35.0" h="10.0" x="6600.0" y="16753.977"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa389_emtc_em_sa389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger, FYVE domain containing 9</p> <p>HUGO:ZFYVE9, HGNC:6775, ENTREZ:9372, UNIPROT:O95405, GENECARDS:GC01P052608</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9865696</p> <p>SARA interacts directly with Smad2 and Smad3</p> <p>SARA presents Smad2 to the TGFb receptor</p> <p>Phosphorylation of Smad2 induces dissociation from SARA with concomitant formation of Smad2-Smad4 complexes and nuclear translocation.</p> <p>PMID:11792802</p> <p>-SARA contains a FYVE motif which is known to bind phosphatidylinositol 3-phosphate. </p> <p>It might anchor Smad2 to the inner leaflet of the plasma membrane or endosomal vesicles.</p> <p>SARA thus provides a first example of how TGFB signaling centres may be organised at the plasma membrane or endosomal vesicles.</p> <p>-Several other proteins with possible roles in Smad anchoring:</p> <p>PMID:10678166</p> <p>Microtubules can anchor inactive Smads in the cytoplasm</p> <p>Activation by a ligand results in dissociation of the Smads from the microtubule network</p> <p>It is possible that microtubules serve as tracks for intracellular Smad movement</p> <p>PMID:11278410</p> <p>Filamin, an actin crosslinking factor and scaffolding protein also associates with Smads and positively regulates transduction of Smad signals.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SARA*"/> <bbox w="60.0" h="20.0" x="6526.0" y="16705.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2718_rc_sa2718" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa853_ce_sa853"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ORC4L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ORC4*"/> <bbox w="80.0" h="40.0" x="12490.27" y="9534.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3035_rc_sa3035" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3035_rc_sa3035"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IKBKG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="23602.06" y="9534.25"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1378_ad_sa1378" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALING PMID:22017440 TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulationof Bcl-xL and Bfl-1 and down modulation of BIM protein ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALING PMID:22017440 TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulationof Bcl-xL and Bfl-1 and down modulation of BIM protein </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1378_ad_sa1378"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017440"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017440"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2A1"/> <bbox w="70.0" h="25.0" x="28421.0" y="7442.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1395_ce_sa1395" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1395_ce_sa1395"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CUL4A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CUL4B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL4*"/> <bbox w="80.0" h="40.0" x="7644.2954" y="15330.536"/> <glyph class="state variable" id="_d2d03657-4822-4bee-9a3e-3e770f103f6c"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="7634.2954" y="15345.536"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa37_mpk1_mpk1_csa37" compartmentRef="s_id_mpk1_mpk1_ca5_mpk1_mpk1_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:DAG:RAS*:RASGRP1</p> </body> </html> </notes> <label text="Ca2+:DAG:RAS*:RASGRP1"/> <bbox w="181.0" h="110.0" x="7630.56" y="19798.5"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa195_mpk1_mpk1_sa195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS guanyl releasing protein 1 (calcium and DAG-regulated)</p> <p>HUGO:RASGRP1 HGNC:9878 ENTREZ:10125 UNIPROT:O95267</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGRP1 specifically activates H-Ras in the Golgi. It is localised in the cytosol in quiescent cells. After PMA stimulus at first it moves to the PM and then shifts towards other subcellular compartments like the Golgi apparatus.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+ in a manner analogous to members of the PKC family.</p> <p>PMID:12782630 PMID:17496910</p> </body> </html> </notes> <label text="RASGRP1"/> <bbox w="64.0" h="25.0" x="7694.06" y="19833.5"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa602_mpk1_mpk1_sa602"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DAG</p> <p>References:</p> <p>DAG activates the C1-domain of RasGRP1.</p> <p>PLCG acts on PIP2 in the PM to produce DAG and IP3.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+, in a manner analogous to members of the PKC family.</p> <p>PMID:17496910, PMID:16488589, PMID:17496910</p> <p>DAG remains in the inner layer of the plasma membrane. It recruits Protein Kinase C (PKC) ??? a calcium-dependent kinase that phosphorylates many other proteins that bring about the changes in the cell.</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="7692.185" y="19809.0"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa276_mpk1_mpk1_sa276"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="61.0" h="38.0" x="7646.5044" y="19816.223"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa197_mpk1_mpk1_sa197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. 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<rdf:Description rdf:about="#s_id_ca_sa424_ca_sa424"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLAU"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLAU"/> <bbox w="80.0" h="40.0" x="600.0" y="1630.0"/> <glyph class="unit of information" id="_2f2ebec7-f5a5-4b88-bad8-0d7117c1b84c"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="615.0" y="1625.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5475_rc_sa5475" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>bacterial type III secretion systems (T3SS)</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:23940371</p> <p>plays an important role in host defense against</p> <p>Salmonella entericaserovar Typhimurium (S.Typhimurium), </p> <p>Legionella pneumophila, Pseudomonas aeruginosa,</p> <p>Shigella flexneri, and Burkholderia thailandensis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5475_rc_sa5475"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa400_akt1_akt1_sa400"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <bbox w="80.0" h="40.0" x="12788.561" y="18368.0"/> <glyph class="state variable" id="_4d4028d4-71dc-48b5-be19-d95777807a66"> <state value="" variable="K13"/> <bbox w="25.0" h="10.0" x="12776.301" y="18403.0"/> </glyph> <glyph class="state variable" id="_534b1281-1b79-47d6-b475-27a33b859bd0"> <state value="" variable="T366"/> <bbox w="30.0" h="10.0" x="12853.561" y="18383.0"/> </glyph> <glyph class="state variable" id="_61693470-a65f-4f61-97b6-b3c23d09f12a"> <state value="P" variable="S370"/> <bbox w="35.0" h="10.0" x="12850.694" y="18363.0"/> </glyph> <glyph class="state variable" id="_59cffdfb-d429-47ee-afd0-3debb1f1d2cf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12783.561" y="18373.3"/> </glyph> <glyph class="state variable" id="_2de837e0-461d-4cd8-981a-9dad4d1eeb4c"> <state value="P" variable="T382"/> <bbox w="35.0" h="10.0" x="12799.593" y="18363.0"/> </glyph> <glyph class="state variable" id="_9cdec33a-3c55-47ea-989a-015a89d64b8e"> <state value="P" variable="T383"/> <bbox w="35.0" h="10.0" x="12771.061" y="18365.404"/> </glyph> <glyph class="state variable" id="_6f370550-2b2d-4fb8-b7e8-f6f388566199"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12783.561" y="18383.969"/> </glyph> <glyph class="state variable" id="_5b12ca8d-323b-47ef-ba06-05a2e9c8920c"> <state value="P" variable="S385"/> <bbox w="35.0" h="10.0" x="12771.061" y="18382.969"/> </glyph> <glyph class="state variable" id="_8c02be09-5f2d-4b2b-9960-9887e2ab0f0d"> <state value="" variable="K289"/> <bbox w="30.0" h="10.0" x="12814.265" y="18403.0"/> </glyph> <glyph class="state variable" id="_d54540f6-4e89-4b2d-bf55-577a7c1419b6"> <state value="P" variable="S380"/> <bbox w="35.0" h="10.0" x="12821.309" y="18363.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa10_wnc1_wnc4_csa10" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN1:GSK3*:MYC:PIN1</p> <p>References:</p> <p>s_wnc4_re15:(MAP:survival) PMID:19131971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa10_wnc1_wnc4_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(c-Myc destruction complex)"/> <bbox w="266.0" h="119.0" x="18281.06" y="21869.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa65_wnc1_wnc4_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="18376.06" y="21925.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa66_wnc1_wnc4_sa66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peptidylprolyl cis/trans isomerase, NIMA-interacting 1</p> <p>"protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting 1"</p> <p>HUGO:PIN1 HGNC:8988 ENTREZ:5300 UNIPROT:Q13526 GENECARDS:PIN1 REACTOME:69717 KEGG:5300 ATLASONC:GC_PIN1 WIKI:PIN1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE</p> </body> </html> </notes> <label text="PIN1"/> <bbox w="80.0" h="40.0" x="18454.06" y="21925.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa64_wnc1_wnc4_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>"v-myc avian myelocytomatosis viral oncogene homolog"</p> <p>HUGO:MYC HGNC:7553 ENTREZ:4609 UNIPROT:P01106 GENECARDS:MYC REACTOME:59773 KEGG:4609 ATLASONC:MYCID27 WIKI:MYC</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>C-MYC is a key regulator of cell proliferation differentiaton and apoptosis. The biological functions of C-MYC are thought to depend in part on the polypeptide binding partners with which it interacts.</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="18291.31" y="21925.0"/> <glyph class="state variable" id="_e218c299-dc22-4f1a-be3a-5ba24bf10da2"> <state value="" variable="S62"/> <bbox w="25.0" h="10.0" x="18279.303" y="21920.0"/> </glyph> <glyph class="state variable" id="_284a5335-2b93-4372-adda-993312d6a524"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="18358.81" y="21920.213"/> </glyph> <glyph class="state variable" id="_ac4b0ba2-0823-4b2a-97f6-3be7abf22044"> <state value="P" variable="T58"/> <bbox w="30.0" h="10.0" x="18276.31" y="21959.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa67_wnc1_wnc4_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="80.0" h="40.0" x="18290.06" y="21881.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2498_in_sa2498" compartmentRef="s_id_in_ca12_in_ca12"> <label text="KDM6B"/> <bbox w="80.0" h="40.0" x="10760.0" y="4710.0"/> </glyph> <glyph class="source and sink" id="s_id_ad_sa945_ad_sa945" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_csa111_degraded"/> <bbox w="30.0" h="30.0" x="29211.0" y="5550.0"/> </glyph> <glyph class="complex" id="s_id_em_csa325_em_csa325" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:R-Cadherin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2502"/> <bbox w="104.0" h="54.0" x="1076.0" y="16521.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa945_emtc_em_sa945"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 4, type 1, R-cadherin (retinal)</p> <p>HUGO:CDH4, HGNC:1763, ENTREZ:1002, UNIPROT:P55283, GENECARDS:GC20P059827   </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="R-Cadherin*"/> <bbox w="86.0" h="26.0" x="1087.0" y="16528.5"/> <glyph class="unit of information" id="_02ea11ba-0a61-4821-8589-912beee9e58a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1120.0" y="16523.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca1_sa722_wca1_wca1_sa722" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re76(MAP:survival):</p> <p>PMID:21498506</p> <p>Cell contacts has positive influence on the function of membrane bound AMER1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa722_wca1_wca1_sa722"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell-cell adhesions"/> <bbox w="80.0" h="30.0" x="22845.06" y="18271.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa122_ad_sa122" compartmentRef="s_id_ad_ca3_ad_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa122_ad_sa122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD86"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD86"/> <bbox w="80.0" h="40.0" x="27916.0" y="2190.0"/> <glyph class="state variable" id="_cde8ad92-2d27-4646-ba38-e606d29087d6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27911.0" y="2205.0"/> </glyph> <glyph class="unit of information" id="_3aa67938-0a91-4e1b-bb51-629a177b6024"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27933.5" y="2185.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa209_wnc1_wnc1_sa209" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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</rdf:RDF> </annotation> </extension> <label text="JNK*"/> <bbox w="50.0" h="25.0" x="10600.057" y="20104.0"/> <glyph class="state variable" id="_15783fda-17b4-461d-948d-a6652db3cb7b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10595.057" y="20116.252"/> </glyph> <glyph class="state variable" id="_52eab1d3-e4ce-4feb-8c5b-e887ce6848ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10595.057" y="20106.748"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa24_wca1_wca2_csa24" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL2:RIPK4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re58(MAP:survival):</p> <p>DVL and RIPK4 form constitutively a complex</p> <p>PMID:23371553</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa24_wca1_wca2_csa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23371553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL2:RIPK4"/> <bbox w="100.0" h="120.0" x="24984.06" y="18910.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa157_wca1_wca2_sa157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>"dishevelled 2 (homologous to Drosophila dsh)"</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL2"/> <bbox w="80.0" h="40.0" x="24993.06" y="18921.0"/> <glyph class="state variable" id="_e8274f4f-47bc-492f-bd70-dafd828c10f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25068.06" y="18916.0"/> </glyph> <glyph class="state variable" id="_56e0a0ef-3ffc-4dee-8282-7ef8c181f8fc"> <state value="" variable="S298"/> <bbox w="30.0" h="10.0" x="24978.06" y="18955.72"/> </glyph> <glyph class="state variable" id="_00bfa4e8-5843-420b-adb1-dfd2f3404aec"> <state value="" variable="S480"/> <bbox w="30.0" h="10.0" x="24978.553" y="18916.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa156_wca1_wca2_sa156"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor-interacting serine-threonine kinase 4</p> <p>ANKRD3 "ankyrin repeat domain 3"</p> <p>HUGO:RIPK4 HGNC:496 ENTREZ:54101 UNIPROT:P57078 GENECARDS:RIPK4 KEGG:54101 ATLASONC:GC_RIPK4 WIKI:RIPK4</p> <p>Map modules:</p> </body> </html> </notes> <label text="RIPK4"/> <bbox w="80.0" h="40.0" x="24993.06" y="18966.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_an_sa493_an_sa493" compartmentRef="s_id_an_ca1_an_ca1"> <label text="diacylglycerol (DAG)"/> <bbox w="165.0" h="33.0" x="5634.5" y="7608.75"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1048_ca_sa1048" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:25002027 </p> <p>We found significantly reduced levels of c-Myc in p62 KO fibroblasts as well as in WT fibroblasts in which p62 has been knocked down by shRNA</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1048_ca_sa1048"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25002027"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <clone/> <bbox w="80.0" h="40.0" x="3360.0" y="3470.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1048_rc_sa4569" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:25002027 </p> <p>We found significantly reduced levels of c-Myc in p62 KO fibroblasts as well as in WT fibroblasts in which p62 has been knocked down by shRNA</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1048_rc_sa4569"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25002027"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <clone/> <bbox w="80.0" h="40.0" x="22387.06" y="15855.87"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3059_rc_sa3059" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3059_rc_sa3059"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC2A4"/> <bbox w="70.0" h="25.0" x="22326.06" y="16305.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa29_rc_csa29" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CYC1:MT-CYB:UCRC*:UQCRB:UQCRC1:UQCRC11:UQCRC2:UQCRFS1:UQCRH:UQCRQ:cleaved~UQCRFS1*</p> <p>References:</p> <p>composition of complex III from uniprot</p> </body> </html> </notes> <label text="ubiquinol-cytochrome c reductase"/> <bbox w="342.0" h="154.0" x="18860.81" y="13893.33"/> <glyph class="macromolecule" id="s_id_rc_sa403_rc_sa403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase, complex III subunit X</p> <p>HUGO:UQCR10 HGNC:30863 ENTREZ:29796 UNIPROT:Q9UDW1</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UCRC*"/> <bbox w="80.0" h="40.0" x="19028.81" y="13981.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa395_rc_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1</p> <p>HUGO:UQCRFS1 HGNC:12587 ENTREZ:7386 UNIPROT:P47985</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UQCRFS1"/> <bbox w="80.0" h="40.0" x="18946.81" y="13939.33"/> <glyph class="state variable" id="_13e71036-be76-4573-808b-3f05feadc369"> <state value="2Fe-2S" variable=""/> <bbox w="40.0" h="10.0" x="18966.81" y="13934.33"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa480_rc_sa480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1</p> <p>HUGO:UQCRFS1 HGNC:12587 ENTREZ:7386 UNIPROT:P47985</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="cleaved~UQCRFS1*"/> <bbox w="80.0" h="40.0" x="19111.81" y="13940.0"/> <glyph class="unit of information" id="_c5211e78-a067-42ad-a046-a1c209ac6caa"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="19126.81" y="13935.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa401_rc_sa401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase, complex III subunit XI</p> <p>HUGO:UQCR11 HGNC:30862 ENTREZ:10975 UNIPROT:O14957</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UQCRC11"/> <bbox w="80.0" h="40.0" x="19112.81" y="13897.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa398_rc_sa398"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase hinge protein</p> <p>HUGO:UQCRH HGNC:12590 ENTREZ:7388 UNIPROT:P07919</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UQCRH"/> <bbox w="80.0" h="40.0" x="18948.81" y="13981.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa399_rc_sa399"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase binding protein</p> <p>HUGO:UQCRB HGNC:12582 ENTREZ:7381 UNIPROT:P14927</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UQCRB"/> <bbox w="80.0" h="40.0" x="19028.81" y="13897.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa397_rc_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase core protein II</p> <p>HUGO:UQCRC2 HGNC:12586 ENTREZ:7385 UNIPROT:P22695</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UQCRC2"/> <bbox w="80.0" h="40.0" x="18864.81" y="13939.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa400_rc_sa400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase, complex III subunit VII, 9.5kDa</p> <p>HUGO:UQCRQ HGNC:29594 ENTREZ:27089 UNIPROT:O14949</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UQCRQ"/> <bbox w="80.0" h="40.0" x="19028.81" y="13939.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa396_rc_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquinol-cytochrome c reductase core protein I</p> <p>HUGO:UQCRC1 HGNC:12585 ENTREZ:7384 UNIPROT:P31930</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="UQCRC1"/> <bbox w="80.0" h="40.0" x="18864.81" y="13897.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa394_rc_sa394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c-1</p> <p>HUGO:CYC1 HGNC:2579 ENTREZ:1537 UNIPROT:P08574</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="CYC1"/> <bbox w="80.0" h="40.0" x="18946.81" y="13897.33"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa393_rc_sa393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome b</p> <p>HUGO:MT-CYB HGNC:7427 ENTREZ:4519 UNIPROT:P00156</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CYB"/> <bbox w="80.0" h="40.0" x="18866.81" y="13981.33"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa466_wnc1_wnc1_sa466" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa466_wnc1_wnc1_sa466"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="YWHAB"/> <bbox w="80.0" h="40.0" x="16175.061" y="18668.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa361_in_sa361" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 22006996, 18676862</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa361_in_sa361"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22006996"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18676862"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ADAM10"/> <bbox w="80.0" h="40.0" x="20000.0" y="320.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_wca1_wca3_sa131_wca1_wca3_sa131" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa131_wca1_wca3_sa131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NLK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLK"/> <bbox w="86.0" h="46.0" x="21538.06" y="20833.232"/> <glyph class="unit of information" id="_73b65005-98c0-455c-b303-d1be5fd7a4e6"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="21571.06" y="20828.232"/> </glyph> <glyph class="state variable" id="_f6b247c2-c674-48a9-9ddb-22b18df4d0b7"> <state value="" variable="T286"/> <bbox w="30.0" h="10.0" x="21609.06" y="20828.477"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa114_ad_csa114" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa114_ad_csa114"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15079071"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s5179"/> <bbox w="100.0" h="120.0" x="29236.0" y="6365.0"/> <glyph class="macromolecule" id="s_id_ad_sa923_ad_sa923"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RELA </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="29246.0" y="6425.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa921_ad_sa921"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB2</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> </body> </html> </notes> <label text="NFKB2_p52*"/> <bbox w="80.0" h="40.0" x="29246.0" y="6375.0"/> <glyph class="unit of information" id="_468fb0b9-01f7-43bb-b0c3-ae8e3fa9f904"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="29261.0" y="6370.0"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa1177_rc_sa1177" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="rc_s2189"/> <bbox w="30.0" h="30.0" x="23544.56" y="16444.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5290_rc_sa5290" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5290_rc_sa5290"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NQO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NQO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NQO1"/> <bbox w="90.0" h="25.0" x="25484.06" y="16026.5"/> <glyph class="unit of information" id="_415fb7a7-5037-4cc2-ba87-b907ca9492b7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25519.06" y="16021.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5042_rc_sa5042" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5042_rc_sa5042"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAR1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAR1"/> <bbox w="90.0" h="25.0" x="28856.326" y="16271.5"/> <glyph class="unit of information" id="_1fbadac9-e9c3-491c-9d06-d08f37f57c6d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28891.326" y="16266.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa36_an_csa36" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>Ang2 functions as an agonist when Ang1 is absent but as a dose-dependent antagonist when Ang1 is present</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa36_an_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19223473"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s387"/> <bbox w="100.0" h="130.0" x="6952.0" y="5920.0"/> <glyph class="macromolecule" id="s_id_an_sa330_an_sa330"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. Although Ang2 is a weaker agonist than Ang1, endogenous Ang2 maintains a level of Tie2 activation that is critical to a spectrum of EC functions</p> <p>Ang-2 levels are upregulated by hypoxia</p> <p> Davis S, Aldrich TH, Jones PF et al (1996) Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap</p> </body> </html> </notes> <label text="ANGPT2"/> <bbox w="80.0" h="40.0" x="6962.0" y="5930.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa329_an_sa329"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: CD202b, TIE-2, TIE2, VMCM1</p> <p>HGNC:11724</p> </body> </html> </notes> <label text="TEK"/> <bbox w="80.0" h="50.0" x="6962.0" y="5975.0"/> <glyph class="state variable" id="_3581a595-2a66-44be-8e13-a05ff62bf58f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6980.446" y="6020.0"/> </glyph> <glyph class="state variable" id="_b1964297-96c2-4d0e-a2f2-1d08bb4f9e29"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7037.0" y="5995.0"/> </glyph> <glyph class="state variable" id="_59a8d38e-ecd5-4a25-a63a-a7d8af4922c5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7013.5684" y="6020.0"/> </glyph> <glyph class="unit of information" id="_e643bddf-f404-493c-86c1-e1732c649528"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6979.5" y="5970.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa258_an_sa258" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa258_an_sa258"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:THBS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSP*"/> <bbox w="80.0" h="40.0" x="4462.0" y="6355.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4333_rc_sa4333" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4333_rc_sa4333"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG13"/> <bbox w="80.0" h="40.0" x="28305.31" y="11136.083"/> <glyph class="state variable" id="_1f50fab3-dacb-4178-a407-111d87cebbbc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28300.31" y="11142.799"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1979_rc_sa1979" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18050 KEGGCOMPOUND:C00064 CAS:56-85-9</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="L-glutamine"/> <bbox w="95.0" h="29.0" x="18515.31" y="12292.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa903_ca_sa903" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MODULE:FIBROBLAST_ACTIVATION_MARKERS</p> <p>PMID:20980827 </p> <p>SATB2 is a nuclear matrixattachment protein, involved in chromatin remodeling.</p> <p> In addition, through interaction with other transcription factors, it stimulates a cooperative increase of the transcription activation of their target genes. </p> <p>miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa903_ca_sa903"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SATB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20980827"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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<body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="DAP12*"/> <bbox w="80.0" h="50.0" x="20155.0" y="1525.0"/> <glyph class="state variable" id="_b2211558-8616-4701-8e65-b0c9e033a02f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="20147.5" y="1545.0"/> </glyph> <glyph class="unit of information" id="_bbea782c-c885-4590-947c-9fa81df1db85"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20172.5" y="1520.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa756_in_sa756"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="KLRC2"/> <bbox w="80.0" h="50.0" x="20060.0" y="1475.0"/> <glyph class="unit of information" id="_1cb76c44-eeae-4d32-86d8-4320caf09dc0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20077.5" y="1470.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa755_in_sa755"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HLA-E"/> <bbox w="80.0" h="40.0" x="20060.0" y="1430.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa754_in_sa754"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="KLRD1"/> <bbox w="80.0" h="50.0" x="20060.0" y="1525.0"/> <glyph class="unit of information" id="_7df58559-4c6b-48ba-a323-026b0c95b10c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20077.5" y="1520.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa109_mpk1_mpk1_csa109" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD3:SMAD4</p> </body> </html> </notes> <label text="SMAD3:SMAD4"/> <bbox w="100.0" h="80.0" x="11173.061" y="20467.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa676_mpk1_mpk1_sa676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>"MAD mothers against decapentaplegic homolog 4 (Drosophila)" MADH4 "SMAD mothers against DPP homolog 4 (Drosophila)"</p> <p>HUGO:SMAD4 HGNC:6770 ENTREZ:4089 UNIPROT:Q13485</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-?? exerts its biological effects by binding to a cell surface receptor complex composed of type I (TbRI) and type II (TbRII) receptor serine/threonine kinases. Upon ligand binding TbRII phosphorylates and activates TbRI which subsequently phosphorylates the cytoplasmic Smad2 and Smad3 proteins. Phosphorylated Smad proteins form stable complexes with a common partner Smad4. The activated Smad2/4 and Smad3/4 complexes translocate into the nucleus where the Smad oligomers induce transcriptional activation (or inhibition) of specific target genes.</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="50.0" h="25.0" x="11198.061" y="20498.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa673_mpk1_mpk1_sa673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>"MAD mothers against decapentaplegic homolog 3 (Drosophila)" MADH3 "SMAD mothers against DPP homolog 3 (Drosophila)"</p> <p>HUGO:SMAD3 HGNC:6769 ENTREZ:4088 UNIPROT:P84022</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-?? exerts its biological effects by binding to a cell surface receptor complex composed of type I (TbRI) and type II (TbRII) receptor serine/threonine kinases. Upon ligand binding TbRII phosphorylates and activates TbRI which subsequently phosphorylates the cytoplasmic Smad2 and Smad3 proteins. Phosphorylated Smad proteins form stable complexes with a common partner Smad4. The activated Smad2/4 and Smad3/4 complexes translocate into the nucleus where the Smad oligomers induce transcriptional activation (or inhibition) of specific target genes.</p> </body> </html> </notes> <label text="SMAD3"/> <bbox w="50.0" h="25.0" x="11198.061" y="20474.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4659_rc_sa4659" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4659_rc_sa4659"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR128-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR128-2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR128-2"/> <bbox w="90.0" h="25.0" x="21311.06" y="15592.5"/> <glyph class="unit of information" id="_9b86af7c-fe83-48ea-b157-c1a4de0ed828"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21341.06" y="15587.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1318_in_sa1318" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL18"/> <bbox w="90.0" h="25.0" x="21621.25" y="5312.5"/> <glyph class="unit of information" id="_80caccde-f499-47ec-be52-747b465faf76"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21656.25" y="5307.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa719_rc_sa719" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="E2F3A*"/> <bbox w="90.0" h="25.0" x="23942.56" y="16016.5"/> <glyph class="unit of information" id="_9cd71aa3-b81b-47f3-96fb-ddbcc94892d4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23977.56" y="16011.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4589_rc_sa4589" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4589_rc_sa4589"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR92A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR92A2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR92A2"/> <bbox w="90.0" h="25.0" x="20563.06" y="15637.5"/> <glyph class="unit of information" id="_661a6e1a-09c8-465d-8d7a-709a0c8b56e4"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20593.06" y="15632.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa99_ce_csa99" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:GADD45A:PCNA</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:NER</p> <p>References:</p> <p>GADD45 interacts with PCNA and activates NER-only Global(GG-NER)</p> <p>19652693, 10779360</p> </body> </html> </notes> <label text="GADD45A/PCNA"/> <bbox w="100.0" h="120.0" x="8479.473" y="15693.356"/> <glyph class="macromolecule" id="s_id_ce_sa742_ce_sa742"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Growth arrest and DNA-damage-inducible, alpha</p> <p>HUGO:GADD45A, HGNC:4095, ENTREZ:1647, UNIPROT:P24522</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:19004803</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in responce to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> <p>Role in BER</p> <p>PMID:23485469</p> </body> </html> </notes> <label text="GADD45A"/> <bbox w="80.0" h="40.0" x="8488.758" y="15746.214"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa741_ce_sa741"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="8488.258" y="15705.214"/> <glyph class="state variable" id="_f27ddd2a-7558-4062-9b0e-40c5602e1f9c"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="8473.258" y="15720.214"/> </glyph> <glyph class="state variable" id="_1a6aae2a-5907-4aa2-a0a3-43da034f4c53"> <state 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa699_emtc_em_sa699"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIX1"/> <bbox w="40.0" h="20.0" x="3569.5" y="16731.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa929_ad_sa929" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> <p>CD28 delivers a unique signal 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PDIA3"/> <bbox w="80.0" h="40.0" x="20290.0" y="5830.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa180_wca1_wca1_sa180" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa180_wca1_wca1_sa180"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP5KIβ*"/> <bbox w="80.0" h="40.0" x="22575.06" y="18169.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa54_in_sa54" compartmentRef="s_id_in_ca15_in_ca15"> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="20980.0" y="6200.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4843_rc_sa4843" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4843_rc_sa4843"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFE2L2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRF2*"/> <bbox w="80.0" h="40.0" x="27959.06" y="14089.0"/> <glyph class="state variable" id="_2f18b1a0-86a6-4079-9f1b-5b248ffeb7d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28034.06" y="14104.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc1_sa718_wnc1_wnc1_sa718" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re155:(MAP:survival) PMID:21619876</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa718_wnc1_wnc1_sa718"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21619876"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT3 pathway"/> <bbox w="80.0" h="30.0" x="15731.061" y="18902.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa103_emtc_em_csa103" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAM:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="aMb2*"/> <bbox w="40.0" h="60.0" x="4872.871" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa635_emtc_em_sa635"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4872.871" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa636_emtc_em_sa636"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha M (complement component 3 receptor 3 subunit)</p> <p>CD11B, CR3A, "integrin, alpha M (complement component receptor 3, alpha; also known as CD11b (p170), macrophage antigen alpha polypeptide)"</p> <p>HUGO:ITGAM HGNC:6149 ENTREZ:3684 UNIPROT:P11215</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, 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rdf:resource="urn:miriam:pubmed:24586048"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1352"/> <bbox w="100.0" h="90.0" x="20065.0" y="2015.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa758_in_sa758"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR183"/> <bbox w="90.0" h="25.0" x="20070.0" y="2022.5"/> <glyph class="unit of information" id="_a9b14515-ec93-449d-b227-05e6337f0ffd"> <label text="asRNA"/> <bbox w="30.0" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: DFNB97, "hepatocyte growth factor receptor", HGFR, RCCP2</p> <p>HGNC:7029</p> <p>PMID:17145802</p> <p> PMID:26366398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa20_an_sa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26366398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MET"/> <bbox w="80.0" h="50.0" x="7632.0" y="6770.0"/> <glyph class="unit of information" id="_4a38695e-1f5b-4b78-b913-70d8632d9ccd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7649.5" y="6765.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa75_akt1_akt1_csa75" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APAF1:Caspase9*</p> <p>References:</p> <p>s_akt1_re178(MAP:survival):</p> <p>PMID:19788417</p> <p>PMID:16977332</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa75_akt1_akt1_csa75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788417"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16977332"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APAF1:Caspase9*"/> <bbox w="102.0" h="118.0" x="13382.061" y="18372.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa476_akt1_akt1_sa476"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727 GENECARDS:APAF1 REACTOME:50100 KEGG:317 ATLASONC:APAF1ID422 WIKI:APAF1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19788417</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="13390.561" y="18381.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa475_akt1_akt1_sa475"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211 GENECARDS:CASP9 REACTOME:57034 KEGG:842 ATLASONC:CASP9ID423ch1p36 WIKI:CASP9 </p> <p>"caspase 9 apoptosis-related cysteine protease"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:CASPASES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19788417</p> <p>PMID:16977332</p> <p>Caspase9 is phosphorylated on Thr125 in a MEK1/2-dependent manner in vivo. Furthermore caspase9 is efficiently phosphorylated on Thr125 by ERK in vitro suggesting that it is targeted directly by ERK in vivo.</p> <p>This is one of the ways ERK plays its anti-apoptotic role.</p> </body> </html> </notes> <label text="Caspase9*"/> <bbox w="80.0" h="40.0" x="13391.561" y="18425.0"/> <glyph class="state variable" id="_eacfc523-bb59-4ff9-86c6-bffb9c2d8e42"> <state value="" variable="S196"/> <bbox w="30.0" h="10.0" x="13456.561" y="18420.99"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa5_mo_csa5" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Formin*/Profilin"/> <bbox w="115.0" h="143.0" x="6288.0" y="9325.0"/> <glyph class="macromolecule" id="s_id_mo_sa379_mo_sa379"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>formin 1</p> </body> </html> </notes> <label text="Formin*"/> <bbox w="80.0" h="40.0" x="6304.4116" y="9336.471"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa380_mo_sa380"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Profilin 1</p> </body> </html> </notes> <label text="Profilin*"/> <bbox w="80.0" h="40.0" x="6304.4116" y="9389.471"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1252_in_sa1252" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20093776, 17942936, 17485448, 9743347, 15749903, 16413922, 16243976, 18977329 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION, MODULE:IMMUNE_SUPPRESSIONCASCADE:STING, CASCADE:TLR2_4References:PMID:17485448Inhibition of NFkB signaling downstream of ABIN3inhibits expression of IL8, IL6, TNF, IL12PMID:15749903, PMID:16413922NFKBID (IkBNS) interacts with NFkB p50 inhibit recrutement NFkB p50/p65 to IL-6 promoterand inhibit IL6 expression.PMID:9743347IL-13 blocks NF-kB-dependent production of IL6PMID:16243976IRF4 downregulates expression of TNFa, IL12p40, IL6 probably via inhibition of NF-kB and JNK signaling pathways.PMID:20093776Membrane-associated Hsp72 from tumor-derived exosomes mediates STAT3-dependent immunosuppressive function of mouse and human myeloid-derived suppressor cells via TLR2/MyD88 dependent IL6 expression.PMID:18977329IL-1B activates MDSC in vitro and in vivo through an IL-1RI/NF-kB pathway. mRNA expression of several NF-kB target genes such is IL6, IL1B,TNF are IL1B/NFkB dependent in MSDCPMID:17942936IL-6 is a downstream mediator of the IL-1beta-induced expansion of MDSC ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 20093776, 17942936, 17485448, 9743347, 15749903, 16413922, 16243976, 18977329 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION, MODULE:IMMUNE_SUPPRESSIONCASCADE:STING, CASCADE:TLR2_4References:PMID:17485448Inhibition of NFkB signaling downstream of ABIN3inhibits expression of IL8, IL6, TNF, IL12PMID:15749903, PMID:16413922NFKBID (IkBNS) interacts with NFkB p50 inhibit recrutement NFkB p50/p65 to IL-6 promoterand inhibit IL6 expression.PMID:9743347IL-13 blocks NF-kB-dependent production of IL6PMID:16243976IRF4 downregulates expression of TNFa, IL12p40, IL6 probably via inhibition of NF-kB and JNK signaling pathways.PMID:20093776Membrane-associated Hsp72 from tumor-derived exosomes mediates STAT3-dependent immunosuppressive function of mouse and human myeloid-derived suppressor cells via TLR2/MyD88 dependent IL6 expression.PMID:18977329IL-1B activates MDSC in vitro and in vivo through an IL-1RI/NF-kB pathway. mRNA expression of several NF-kB target genes such is IL6, IL1B,TNF are IL1B/NFkB dependent in MSDCPMID:17942936IL-6 is a 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rdf:resource="urn:miriam:hgnc.symbol:PDPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDPK1"/> <clone/> <bbox w="80.0" h="40.0" x="3865.0" y="2675.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa999_rc_sa4194" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa999_rc_sa4194"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDPK1"/> <clone/> <bbox w="80.0" h="40.0" x="20899.06" y="9399.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa218_emtc_em_csa218" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJC1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJC1is so-called Connexin 45</p> <p>PMID:18815262</p> <p>Cx36 and Cx45 coexpressed in HeLacells.</p> <p>However, Cx36 and Cx45 expressed separately did not form immunofluorescent puncta containing both connexins, supporting lack of heterotypic coupling competence.</p> <p>Cx45 is almost always accompanied by Cx36, forming bihomotypic gap junctions, with Cx45 structurally coupling to Cx45 and Cx36 coupling to Cx36.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa218_emtc_em_csa218"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815262"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJC1/GJC1"/> <bbox w="120.0" h="40.0" x="1041.0" y="18332.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1396_emtc_em_sa1396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, gamma 1, 45kDa</p> <p>HUGO:GJC1, HGNC:4280, ENTREZ:10052 , UNIPROT:P36383, GENECARDS:GC17M042875  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:11557048</p> <p>GJC1 interacts with the PDZ domains of ZO-1 and ZO-3 but not ZO-2</p> <p>PMID:11313345</p> <p>Connexin45 (GJC1) interacts with ZO-1 and connexin43 (GJA1) in osteoblastic cells.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJC1"/> <bbox w="35.0" h="16.0" x="1103.5" y="18335.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1396_emtc_em_sa1397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, gamma 1, 45kDa</p> <p>HUGO:GJC1, HGNC:4280, ENTREZ:10052 , UNIPROT:P36383, GENECARDS:GC17M042875  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:11557048</p> <p>GJC1 interacts with the PDZ domains of ZO-1 and ZO-3 but not ZO-2</p> <p>PMID:11313345</p> <p>Connexin45 (GJC1) interacts with ZO-1 and connexin43 (GJA1) in osteoblastic cells.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJC1"/> <bbox w="35.0" h="16.0" x="1063.5" y="18335.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1113_emtc_em_sa1113" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1113_emtc_em_sa1113"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DIAPH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DIAPH1"/> <bbox w="60.0" h="20.0" x="5591.0" y="14862.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa855_rc_sa855" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa855_rc_sa855"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC2A2"/> <bbox w="80.0" h="40.0" x="18201.56" y="9154.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4904_rc_sa4904" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>H2AFY2</p> <p>PMID:19164757</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4904_rc_sa4904"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19164757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="H2AFY2 "/> <bbox w="80.0" h="40.0" x="28011.326" y="16344.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3213_rc_sa3213" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3213_rc_sa3213"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RNF11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RNF11"/> <bbox w="80.0" h="40.0" x="21999.06" y="9699.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4623_rc_sa4623" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4623_rc_sa4623"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG12"/> <clone/> <bbox w="70.0" h="25.0" x="25034.56" y="16219.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4623_rc_sa4413" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4623_rc_sa4413"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG12"/> <clone/> <bbox w="70.0" h="25.0" x="23558.56" y="16193.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa607_rc_sa607" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa607_rc_sa607"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HK2"/> <bbox w="70.0" h="25.0" x="22647.84" y="16304.821"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa537_wca1_wca1_sa537" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa537_wca1_wca1_sa537"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AHI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JBN*"/> <bbox w="80.0" h="40.0" x="20655.06" y="18551.0"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa136_gf1_sa136" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:16951216 </p> <p>Vascular Endothelial Growth Factor Signaling Pathways</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa136_gf1_sa136"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16951216"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGF*"/> <bbox w="80.0" h="40.0" x="10935.561" y="17629.5"/> </glyph> <glyph class="source and sink" id="s_id_in_sa341_in_sa341" compartmentRef="s_id_in_ca47_in_ca47"> <label text="..."/> <bbox w="30.0" h="30.0" x="20145.0" y="655.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa81_ce_csa81" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BRCA2:FANCC:FANCG:XRCC3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="BRCA2/FANCC/FANCG/XRCC3"/> <bbox w="200.0" h="109.0" x="14322.473" y="14829.356"/> <glyph class="macromolecule" id="s_id_ce_sa701_ce_sa701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group C</p> <p>HUGO:FANCC, HGNC:3584, ENTREZ:2176, UNIPROT:Q00597</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCC"/> <bbox w="80.0" h="40.0" x="14425.329" y="14833.928"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa700_ce_sa700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 3</p> <p>HUGO:XRCC3, HGNC:12830, ENTREZ:7517, UNIPROT:O43542</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="XRCC3"/> <bbox w="80.0" h="40.0" x="14429.044" y="14873.928"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa698_ce_sa698"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 2, early onset, FANCD1</p> <p>HUGO:BRCA2, HGNC:1101, ENTREZ:675, UNIPROT:P51587</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="BRCA2"/> <bbox w="80.0" h="40.0" x="14343.615" y="14834.928"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa699_ce_sa699"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group G</p> <p>HUGO:FANCG, HGNC:3588, UNIPROT:O15287</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCG"/> <bbox w="80.0" h="40.0" x="14346.687" y="14878.499"/> <glyph class="state variable" id="_da6a75df-6e2d-40b1-a695-f446edb33bcc"> <state value="P" variable="S7"/> <bbox w="25.0" h="10.0" x="14357.781" y="14873.499"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2711_rc_sa2711" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" 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x="6276.0" y="15023.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1134_ad_sa1134" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p> PMID:16970925 </p> <p>The alternative NF-kappaB pathway induces p100 processing and p52 generation through the activation of at least two kinases, which are NIK and IKKalpha.</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> <p>We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manne</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1134_ad_sa1134"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16970925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15079071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536066"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB2_p100*"/> <bbox w="80.0" h="40.0" x="29106.0" y="5975.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa77_in_sa77" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11964292, 15197224, 9359474, 7512027, 20231889, 23390297, 7523569, 25215878, 17513775, 25582338, 14764699, 22437870 <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE</p> <p>MODULE:MARKERS_DC, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:MIF, CASCADE:IL3, CASCADE:IL10, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNG</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:25582338</p> <p>The expression levels of CD80 and CD83, the molecules involved in T-cell activation, was similar between the two DC subsets (IL4 and IL15)</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:25215878</p> <p>FLT3 ligand upregulates surface expression of CD80 in DCs.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> 15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:7512027</p> <p>IL-10 inhibits surface expression CD80 (B7) on monocytes, even following induction of these molecules by IL4 or IFNG and diminishes the antigen-presenting capacity of monocytes.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>Expression of CD83, a and CD80 and was significantly enhanced by the FLT3L</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II )</p> <p>INFG up-regulates ICAM1 and CD80 (B7) surface expression in monocytes. 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GNAI1"/> <bbox w="80.0" h="40.0" x="4526.0" y="7526.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1089_in_sa1089" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 12193690 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MDSCMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:LACTIC, CASCADE:TGFB, CASCADE:MIFReferences:PMID:12193690A hallmark of 'alternative activation' (M2) of macrophages is high arginase activity, which competes with inducible NO synthase for L-arginine, the common substrateof both enzymes.IL-10 induces arginase-2 expressionUp-regulation of IL4RA by IL10 correlates with increased IL4-dependent expression of arginase-1 (ARG1). ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 12193690 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MDSCMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:LACTIC, CASCADE:TGFB, CASCADE:MIFReferences:PMID:12193690A hallmark of 'alternative activation' (M2) of macrophages is high arginase activity, which competes with inducible NO synthase for L-arginine, the common substrateof both enzymes.IL-10 induces arginase-2 expressionUp-regulation of IL4RA by IL10 correlates with increased IL4-dependent expression of arginase-1 (ARG1). </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1089_in_sa1089"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12193690"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARG1"/> <bbox w="127.0" h="44.0" x="13750.344" y="5365.9375"/> <glyph class="unit of information" id="_dcbc6958-bb89-441b-8057-e11646ca6fec"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="13803.844" y="5360.9375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3989_rc_sa3989" 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<head> <title/> </head> <body> <p>NAME:BCL2:BECN1:UVRAG</p> <p>References:</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa106_rc_csa106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17446862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2:BECN1"/> <bbox w="190.0" h="119.0" x="27376.56" y="10992.0"/> <glyph class="macromolecule" id="s_id_rc_sa4420_rc_sa4420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>UV radiation resistance associated</p> <p>HUGO:UVRAG HGNC:12640 ENTREZ:7405 UNIPROT:Q9P2Y5</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:17106237</p> <p>PMID:22885520</p> <p>PMID:18612260</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="UVRAG"/> <bbox w="80.0" h="40.0" x="27386.56" y="11003.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1221_rc_sa1221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="27474.56" y="11005.0"/> <glyph class="state variable" id="_f1cc23f4-85f0-478d-98fd-31ddbd0d3cb5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27526.129" y="11000.0"/> </glyph> <glyph class="state variable" id="_39bbaa9d-4499-4a82-8768-f1dcbb89ac7f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27469.56" y="11020.0"/> </glyph> <glyph class="state variable" id="_e76c8a90-bd6a-4e31-944e-d9d20ec06486"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27492.992" y="11000.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1222_rc_sa1222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>beclin 1, autophagy related</p> <p>HUGO:BECN1 HGNC:1034 ENTREZ:8678 UNIPROT:Q14457</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23377657</p> <p>PMID:17446862</p> <p>PMID:27754749</p> </body> </html> </notes> <label text="BECN1"/> <bbox w="80.0" h="40.0" x="27476.008" y="11051.9"/> <glyph class="state variable" id="_96cedea2-b0eb-4fb7-9204-c4354ee84295"> <state value="" variable="T119"/> <bbox w="30.0" h="10.0" x="27517.957" y="11046.9"/> </glyph> <glyph class="state variable" id="_e4728d69-d6b7-402c-a89b-92e3919723fb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27471.01" y="11046.9"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa10_wca1_wca2_csa10" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKK3:KRM*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re26:(MAP:survival) PMID:20370576</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa10_wca1_wca2_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20370576"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK3:KRM*"/> <bbox w="60.0" h="120.0" x="23661.06" y="18167.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa66_wca1_wca2_sa66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kringle containing transmembrane protein 1</p> <p>HUGO:KREMEN1 HGNC:17550 ENTREZ:83999 UNIPROT:Q96MU8 GENECARDS:KREMEN1 KEGG:83999 WIKI:KREMEN1 </p> <p>kringle containing transmembrane protein 2</p> <p>HUGO:KREMEN2 HGNC:18797 ENTREZ:79412 UNIPROT:Q8NCW0 GENECARDS:KREMEN2 KEGG:79412 WIKI:KREMEN2</p> <p>Map modules:</p> </body> </html> </notes> <label text="KRM*"/> <bbox w="35.0" h="60.0" x="23673.56" y="18207.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa65_wca1_wca2_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dickkopf 3 homolog (Xenopus laevis)</p> <p>HUGO:DKK3 HGNC:2893 ENTREZ:27122 UNIPROT:Q9UBP4 GENECARDS:DKK3 KEGG:27122 ATLASONC:GC_DKK3 WIKI:DKK3 </p> <p>"dickkopf (Xenopus laevis) homolog 3"</p> <p>Map modules:</p> </body> </html> </notes> <label text="DKK3"/> <bbox w="40.0" h="20.0" x="23671.06" y="18187.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3265_rc_sa3265" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3265_rc_sa3265"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="23591.06" y="10666.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1525_emtc_em_sa1525" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1525_emtc_em_sa1525"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIMK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK2"/> <bbox w="42.0" h="19.0" x="5354.0" y="15117.5"/> <glyph class="state variable" id="_e002df50-ec5f-435e-ab68-bb947bdfa2aa"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5346.5" y="15112.941"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa126_rc_sa126" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa126_rc_sa126"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACO2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACO2"/> <bbox w="80.0" h="40.0" x="18884.06" y="14962.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa117_ca_csa117" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:DEPTOR:MLST8:MTOR:PRAS40*:RPTOR</p> <p>Map modules:</p> <p>MODULE:DC MODULE:NK MODULE:CORE_SIGNALING MODULE:CORE_ACTIVATION </p> <p>References:</p> <p>CASCADE:IL15, CASCADE:CSF2</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:21981924</p> <p>p62 is a key regulator of nutrient sensing in the mTORC1 pathway (data is not from fibroblasts).</p> <p>PMID:25002027 </p> <p>SQSTM1 (p62) p62 is a suppressor of inflammation and the CAF phenotype in the tumor microenvironment</p> <p>p62 KO cells displayed reduced mTORC1 activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa117_ca_csa117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16469695"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26159692"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21981924"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25002027"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="mTORC1*"/> <bbox w="210.0" h="210.0" x="3560.0" y="2990.0"/> <glyph class="macromolecule" id="s_id_ca_sa1143_ca_sa1143"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MLST8</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="3665.0" y="3065.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1144_ca_sa1144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:DEPTOR</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> </body> </html> </notes> <label text="DEPTOR"/> <bbox w="80.0" h="40.0" x="3665.0" y="3115.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1141_ca_sa1141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MTOR</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:21981924</p> <p>p62 is a key regulator of nutrient sensing in the mTORC1 pathway (data is not from fibroblasts).</p> <p>PMID:25002027 </p> <p>SQSTM1 (p62) p62 is a suppressor of inflammation and the CAF phenotype in the tumor microenvironment</p> <p>p62 KO cells displayed reduced mTORC1 activity.</p> <p>p62 regulates Myc expression via mTOR activation.</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="3575.0" y="3125.0"/> <glyph class="state variable" id="_46f619ec-c07f-4898-9d78-28c2e39b712a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3567.5" y="3140.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1142_ca_sa1142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RPTOR</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="3575.0" y="3065.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1145_ca_sa1145"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:AKT1S1</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="3665.0" y="3005.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa107_an_sa107" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:8756616</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa586_ca_sa586"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SPP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SP1"/> <bbox w="80.0" h="40.0" x="4130.0" y="3770.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa35_shh1_shh1_csa35" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re70:(MAP:survival) PMID:18455992</p> <p>s_shh1_re71(MAP:survival):</p> <p>PMID:18455992</p> <p>PMID:16611981</p> </body> </html> </notes> <extension> <annotation xmlns="" 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x="26655.56" y="19181.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa233_shh1_shh1_sa233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 2</p> <p>HUGO:GLI2 HGNC:4318 ENTREZ:2736 UNIPROT:P10070 GENECARDS:GLI2 KEGG:2736 ATLASONC:GC_GLI2 WIKI:GLI2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Glioma-associated oncogene family zinc finger</p> </body> </html> </notes> <label text="GLI2-185*"/> <bbox w="165.0" h="45.0" x="26669.31" y="19258.0"/> <glyph class="state variable" id="_14925963-000c-4280-ac34-6fbc908fea3d"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="26655.326" y="19253.0"/> </glyph> <glyph class="state variable" id="_c735998b-16a7-4bd3-9df1-14f763147205"> <state value="" variable="S808"/> <bbox w="30.0" h="10.0" x="26818.555" y="19253.0"/> </glyph> <glyph class="state variable" 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<glyph class="state variable" id="_c2d4b376-4f40-4318-a9cc-360c3f8b186b"> <state value="" variable="S956"/> <bbox w="30.0" h="10.0" x="26654.31" y="19297.688"/> </glyph> <glyph class="state variable" id="_0dad5055-7d8e-4369-978a-e2f78d1af527"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26708.05" y="19253.0"/> </glyph> <glyph class="state variable" id="_f76ee2c2-20a6-4228-8a92-0528c6b2900f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26746.81" y="19253.0"/> </glyph> <glyph class="state variable" id="_47181c80-0e32-47b2-ac96-8470ffe7e69a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26736.93" y="19253.0"/> </glyph> <glyph class="state variable" id="_916fcb51-5d1a-444a-b415-5b54c550744b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26719.543" y="19253.0"/> </glyph> <glyph class="state variable" id="_cb93d72c-7e94-4acc-91df-45cf4ee9db7f"> <state value="" variable="S801"/> <bbox w="30.0" h="10.0" x="26722.717" y="19253.0"/> </glyph> <glyph class="state variable" id="_21a111f8-4a0a-472c-abf8-f7c4e14719b2"> <state value="" variable="S813"/> <bbox w="30.0" h="10.0" x="26819.31" y="19275.572"/> </glyph> <glyph class="state variable" id="_69d0e508-bcfe-477d-b608-552dc77423e4"> <state value="" variable="S844"/> <bbox w="30.0" h="10.0" x="26731.656" y="19298.0"/> </glyph> <glyph class="state variable" id="_ad61d9e8-4a67-4bd3-97f9-ea094de87a11"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26767.666" y="19298.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa235_shh1_shh1_sa235"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="26670.81" y="19207.0"/> <glyph class="state variable" id="_c9d59a11-8494-4015-ad5a-dbec60d2d9f7"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="26656.303" y="19202.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa234_shh1_shh1_sa234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Unc-51-like kinase</p> </body> </html> </notes> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="26756.31" y="19207.0"/> <glyph class="state variable" id="_453b6d67-a725-453e-8f37-59fe60f10f0b"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26741.803" y="19202.0"/> </glyph> <glyph class="state variable" id="_6afec1db-c970-481b-b6ad-3d690e32adef"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26820.691" y="19242.0"/> </glyph> <glyph class="state variable" id="_962da51b-9a90-4b65-8f56-f99999908e5d"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="26741.31" y="19241.72"/> </glyph> <glyph class="state variable" id="_f2b5875a-c53d-4f2d-b66e-e4393b027966"> <state value="" variable="S350"/> <bbox w="30.0" h="10.0" x="26821.31" y="19202.213"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa141_rc_csa141" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN1:Ca2+</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="CAPN1"/> <clone/> <bbox w="102.0" h="86.0" x="24457.31" y="11199.5"/> <glyph class="macromolecule" id="s_id_rc_sa1452_rc_sa1452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 1, (mu/I) large subunit</p> <p>HUGO:CAPN1 HGNC:1476 ENTREZ:823 UNIPROT:P07384</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>synonym:Calpain 1</p> <p>synonym:mu-calpain</p> </body> </html> </notes> <label text="CAPN1"/> <clone/> <bbox w="80.0" h="40.0" x="24467.31" y="11228.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1453_rc_sa1453"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="24517.81" y="11203.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa141_rc_csa407" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN1:Ca2+</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="CAPN1"/> <clone/> <bbox w="102.0" h="86.0" x="22328.06" y="12386.0"/> <glyph class="simple chemical" id="s_id_rc_sa1453_rc_sa3981"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="22388.56" y="12389.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1452_rc_sa3980"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 1, (mu/I) large subunit</p> <p>HUGO:CAPN1 HGNC:1476 ENTREZ:823 UNIPROT:P07384</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>synonym:Calpain 1</p> <p>synonym:mu-calpain</p> </body> </html> </notes> <label text="CAPN1"/> <clone/> <bbox w="80.0" h="40.0" x="22338.06" y="12415.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa141_rc_csa405" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN1:Ca2+</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="CAPN1"/> <clone/> <bbox w="102.0" h="86.0" x="24348.06" y="12116.0"/> <glyph class="simple chemical" id="s_id_rc_sa1453_rc_sa3975"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+"/> <clone/> <bbox w="25.0" h="25.0" x="24408.56" y="12119.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1452_rc_sa3974"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 1, (mu/I) large subunit</p> <p>HUGO:CAPN1 HGNC:1476 ENTREZ:823 UNIPROT:P07384</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>synonym:Calpain 1</p> <p>synonym:mu-calpain</p> </body> </html> </notes> <label text="CAPN1"/> <clone/> <bbox w="80.0" h="40.0" x="24358.06" y="12145.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa598_ca_sa598" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa598_ca_sa598"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SRC"/> <bbox w="80.0" h="40.0" x="6620.0" y="2460.0"/> <glyph class="state variable" id="_6d43d34a-f99b-4746-a994-10239a7acd00"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6615.0" y="2475.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa865_ca_sa865" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa865_ca_sa865"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WAS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASP*"/> <bbox w="80.0" h="40.0" x="6360.0" y="3260.0"/> <glyph class="state variable" id="_015fb82a-7f66-4cfc-a3c5-830bd13a72d9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6355.0" y="3275.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa14_wnc1_wnc2_csa14" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD</p> <p>References:</p> <p>s_wnc2_re26:(MAP:survival) PMID:15036616, PMID:14741051</p> <p>s_wnc2_re30:(MAP:survival) PMID:22088220</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa14_wnc1_wnc2_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15036616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14741051"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22088220"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:BAD"/> <bbox w="96.0" h="126.0" x="17740.56" y="19022.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa63_wnc1_wnc2_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="17749.56" y="19071.0"/> <glyph class="state variable" id="_5ab89703-7a5b-4032-a7b1-6f2c150374cd"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="17732.553" y="19066.0"/> </glyph> <glyph class="state variable" id="_a7b1663f-4d9a-4124-a16f-af3439666c7d"> <state value="" variable="S155"/> <bbox w="30.0" h="10.0" x="17813.941" y="19106.0"/> </glyph> <glyph class="state variable" id="_07c64abb-6832-4831-9d0d-0abbabc46378"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="17812.06" y="19066.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa65_wnc1_wnc2_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="17749.56" y="19030.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2115_em_sa2115" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="CDK2"/> <bbox w="61.0" h="20.0" x="3626.0" y="14947.5"/> <glyph class="unit of information" id="_410b86e7-42dd-4fc9-9ac0-08a38f73bbd2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3646.5" y="14942.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2367_rc_sa2367" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2367_rc_sa2367"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5G1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5G1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP5G1"/> <bbox w="90.0" h="25.0" x="20161.06" y="16003.75"/> <glyph class="unit of information" id="_4e35446a-cc3c-477b-b490-d2b30202d738"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20196.06" y="15998.75"/> </glyph> </glyph> <glyph class="nucleic acid feature" 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x="20823.06" y="22437.785"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2839_in_sa2839" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11964292, 15197224, 9359474, 7512027, 20231889, 23390297, 7523569, 25215878, 17513775, 25582338, 14764699, 22437870 <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE</p> <p>MODULE:MARKERS_DC, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:MIF, CASCADE:IL3, CASCADE:IL10, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNG</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:25582338</p> <p>The expression levels of CD80 and CD83, the molecules involved in T-cell activation, was similar between the two DC subsets (IL4 and IL15)</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:25215878</p> <p>FLT3 ligand upregulates surface expression of CD80 in DCs.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> 15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:7512027</p> <p>IL-10 inhibits surface expression CD80 (B7) on monocytes, even following induction of these molecules by IL4 or IFNG and diminishes the antigen-presenting capacity of monocytes.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>Expression of CD83, a and CD80 and was significantly enhanced by the FLT3L</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II )</p> <p>INFG up-regulates ICAM1 and CD80 (B7) surface expression in monocytes. And IL10 inhibit it.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2839_in_sa2839"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11964292"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15197224"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9359474"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> 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rdf:resource="urn:miriam:pubmed:14764699"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD80"/> <bbox w="80.0" h="50.0" x="10143.75" y="147.5"/> <glyph class="unit of information" id="_3515bd56-bf6e-4fd7-9597-25a57e06ace6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10161.25" y="142.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa155_ad_csa155" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5766"/> <bbox w="100.0" h="120.0" x="27316.0" y="2690.0"/> <glyph class="macromolecule" id="s_id_ad_sa1328_ad_sa1328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>HUGO:GNAS</p> <p>PMID:18758473</p> </body> </html> </notes> <label text="GNAS"/> <bbox w="80.0" h="40.0" x="27326.0" y="2700.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa1322_ad_sa1322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>MODULE:DC, MODULE:CROSS_ACTIVATION_OF_IMMUNE_CELLS, MODULE:ANTIGEN_PRESENTATION_AND_ACTIVATING_CHEKPOINTS</p> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="27331.0" y="2747.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa88_akt1_akt1_csa88" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATG13:FIP200*:ULK*</p> <p>References:</p> <p>s_akt1_re201:(MAP:survival) PMID:19225151</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa88_akt1_akt1_csa88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19225151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG13:FIP200*:ULK*"/> <bbox w="120.0" h="161.0" x="13936.417" y="19810.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa550_akt1_akt1_sa550"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RB1-inducible coiled-coil 1</p> <p>HUGO:RB1CC1 HGNC:15574 ENTREZ:9821 UNIPROT:Q8TDY2 GENECARDS:RB1CC1 KEGG:9821 ATLASONC:GC_RB1CC1 WIKI:RB1CC1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="FIP200*"/> <bbox w="80.0" h="40.0" x="13956.774" y="19905.0"/> <glyph class="state variable" id="_2446b42b-3d7f-45ea-8128-e69014af2bf0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13951.775" y="19900.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa549_akt1_akt1_sa549"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATG13 autophagy related homologue 13</p> <p>HUGO:ATG13 HGNC:29091 ENTREZ:9776 UNIPROT:O75143 GENECARDS:ATG13 KEGG:9776 WIKI:ATG13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="ATG13"/> <bbox w="80.0" h="40.0" x="13956.774" y="19861.5"/> <glyph class="state variable" id="_22201f68-8b42-4dd0-9a22-9e4321804b42"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14031.772" y="19856.5"/> </glyph> <glyph class="state variable" id="_186c5fef-27ed-4ae2-8a4f-76c41f5fe8e4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13951.775" y="19856.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa548_akt1_akt1_sa548"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 1</p> <p>HUGO:ULK1 HGNC:12558 ENTREZ:8408 UNIPROT:O75385 GENECARDS:ULK1 KEGG:8408 ATLASONC:GC_ULK1 WIKI:ULK1 </p> <p>Unc-51-like kinase 2</p> <p>HUGO:ULK2 HGNC:13480 ENTREZ:9706 UNIPROT:Q8IYT8 GENECARDS:ULK2 KEGG:9706 ATLASONC:GC_ULK2 WIKI:ULK2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="ULK*"/> <bbox w="80.0" h="40.0" x="13956.774" y="19818.0"/> <glyph class="state variable" id="_d9a4de6a-fc90-428c-b568-e5c5b099b276"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14031.772" y="19813.0"/> </glyph> <glyph class="state variable" id="_9f0a6bd3-5154-44b7-bb53-b289cbc0354f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13951.775" y="19813.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa10_wca1_wca3_csa10" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:CBP*:PYGO*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re11(MAP:survival):</p> <p>CBP acetylates beta-catenin</p> <p>PMID:11973335</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa10_wca1_wca3_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11973335"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:CBP*:PYGO*:β-Catenin*"/> <bbox w="113.0" h="245.0" x="22641.4" y="21191.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa80_wca1_wca3_sa80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CREB binding protein</p> <p>HUGO:CREBBP HGNC:2348 ENTREZ:1387 UNIPROT:Q92793 GENECARDS:CREBBP REACTOME:51510 KEGG:1387 ATLASONC:CBPID42 WIKI:CREBBP </p> <p>cAMP responsive element binding protein 3</p> <p>HUGO:CREB3 HGNC:2347 ENTREZ:10488 UNIPROT:O43889 GENECARDS:CREB3 KEGG:10488 ATLASONC:GC_CREB3 WIKI:CREB3 </p> <p>cAMP responsive element binding protein 5</p> <p>HUGO:CREB5 HGNC:16844 ENTREZ:9586 UNIPROT:Q02930 GENECARDS:CREB5 KEGG:9586 WIKI:CREB5 </p> <p>CBP KAT3A RTS</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:E2F1, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17565603</p> <p>PMID:15337521</p> </body> </html> </notes> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="22652.06" y="21208.75"/> <glyph class="state variable" id="_f161e322-12c8-489e-8840-080f6e658f63"> <state value="P" variable="S92"/> <bbox w="30.0" h="10.0" x="22637.553" y="21203.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa78_wca1_wca3_sa78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="22654.4" y="21252.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa79_wca1_wca3_sa79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="22654.4" y="21332.0"/> <glyph class="state variable" id="_647f42b9-ea14-4814-87fd-5b10cbf87649"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="22642.393" y="21327.0"/> </glyph> <glyph class="state variable" id="_28515a04-9d22-4151-8066-5bf02d347e35"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="22641.9" y="21366.723"/> </glyph> <glyph class="state variable" id="_eefa9c7f-898a-4995-954a-3ddc1e0c217b"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="22719.4" y="21327.215"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="22654.4" y="21292.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4575_rc_sa4575" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4575_rc_sa4575"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAS"/> <bbox w="90.0" h="25.0" x="20911.56" y="16073.5"/> <glyph class="unit of information" id="_c41bd591-1695-435e-8ae4-e0679e22e773"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20946.56" y="16068.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa461_wnc1_wnc1_sa461" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa461_wnc1_wnc1_sa461"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD6A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16583.06" y="18678.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1042_ad_sa1042" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:PD1</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:11572860</p> <p>Gab2 is phosphorylated by ZAP-70, is associated with the TCR signaling complex, and acts as an inhibitory adaptor molecule via recruitment of SHP-2 upon TCR engagement</p> <p> CD247 chain has been reported to be a substrate of SHP-2 in T cells (12), we examined the phosphorylation levels of CD267 in these lines after TCR engagement by immunoprecipitation with anti-CD247 mAb,followed by blotting with anti-PY mAb. As shown in Fig. 3 D, the phosphorylation levels of theCD247 chain were attenuated by Gab2(WT) expression but not by Gab2(Y614F). Therefore, the inhibitory function of Gab2 is mediated, at least in part, through SHP-2-dependent dephosphorylation of the CD247 chain.</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> <p> the ability of PD-1 to block T cell activation correlated with recruitment of Src homology region 2 domain-containing phosphatase-1 (SHP-1) and SHP-2, and not the adaptor Src homology 2 domain-containing molecule 1A, to the ITSM domain. In TCR-stimulated T cells, SHP-2 associated with PD-1, even in the absence of PD-1 engagement. Despite this interaction, the ability of PD-1 to block T cell activation required receptor ligation, suggesting that colocalization of PD-1 with CD3 and/or CD28 may be necessary for inhibition of T cell activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1042_ad_sa1042"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPN11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11572860"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240681"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTPN11"/> <bbox w="80.0" h="40.0" x="26256.0" y="3080.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2376_in_sa2376" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LGALS3"/> <bbox w="90.0" h="25.0" x="12055.0" y="5637.5"/> <glyph class="unit of information" id="_33d125e8-96f7-4ebb-91c3-db95f291f0ed"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12090.0" y="5632.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa124_te_sa124" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA cross-link repair 1B</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>PMID:</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa124_te_sa124"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DCLRE1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNM1B*"/> <clone/> <bbox w="80.0" h="40.0" x="2544.06" y="22195.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa124_ce_sa259" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA cross-link repair 1B</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>PMID:</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa124_ce_sa259"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DCLRE1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNM1B*"/> <clone/> <bbox w="80.0" h="40.0" x="14768.411" y="17302.283"/> </glyph> <glyph class="source and sink" id="s_id_ce_sa319_ce_sa319" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_sa10_degraded"/> <bbox w="30.0" h="30.0" x="10992.0" y="10137.375"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa98_mpk1_mpk1_csa98" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K5:TNFRSF1B:TRAF2</p> </body> </html> </notes> <label text="MAP3K5:TNFRSF1B:TRAF2"/> <bbox w="180.0" h="83.0" x="10841.057" y="19759.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa520_mpk1_mpk1_sa520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="10863.224" y="19791.334"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa573_mpk1_mpk1_sa573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1B</p> <p>TNFR2</p> <p>HUGO:TNFRSF1B HGNC:11917 ENTREZ:7133 UNIPROT:P20333</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins (TRAF2).</p> </body> </html> </notes> <label text="TNFRSF1B"/> <bbox w="70.0" h="25.0" x="10860.424" y="19769.908"/> <glyph class="unit of information" id="_9aa015eb-0fb7-4a43-baff-c74705fa4baf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10872.924" y="19764.908"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa633_mpk1_mpk1_sa633"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 5</p> <p>MEKK5</p> <p>HUGO:MAP3K5 HGNC:6857 ENTREZ:4217 UNIPROT:Q99683</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1 and the consequently liberalised ASK1 binds to TRAF2. Finally TRAF2 appears to activate ASK1 (by phosphorylation) by enhancing and stabilising the oligomerisation of ASK1.</p> </body> </html> </notes> <label text="MAP3K5"/> <bbox w="73.0" h="26.0" x="10921.436" y="19791.5"/> <glyph class="state variable" id="_15a102f1-f73f-47a4-b166-140c1c307b7f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10913.936" y="19799.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa105_ad_csa105" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24560716</p> <p>Following TCR stimulation, CARMA1 is phosphorylated by PKCθ, and this phosphorylation results in a conformational change that enable CARMA1 to associate with BCL10 [15], [16] and [17] and MALT1, a protein with paracaspase proteolitic activity required for NF-κB activation also involved in MALT lymphomas [18]. Correct assembly of the CBM complex is believed to be anessential step for triggering the subsequent events that lead to activation of NF-κB following antigen receptor stimulation. </p> <p>The exact mechanism by which the CBM complex activates NF-κB is still unknown. The CBM complex most likely serves as a molecular platform to recruit signaling components responsible for K63-linked polyubiquitination of NEMO, a regulatory subunit of the IKK complex that is responsible for activation of NF-κB [19] and [20]. Evidence for scaffolding filamentous assembly structures involving BCL10 and CARMA1 first came from cell microscopy observations, subsequently confirmed by structural studies [21] and [22]. Indeed, activation of the IKK complex is not only dependent on IKK phosphorylation but also on CARMA1-dependent recruitment and non-degradative ubiquitination of NEMO [19], [20] and [23]. The importance of the ubiquitination events for the CBM-dependent activation of NF-κB is furthermore underlined by the fact that enzymatic deubiquitinases such as A20 significantly inhibits activation of NF-κB mediated by the CBM complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa105_ad_csa105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24560716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s5148"/> <bbox w="130.0" h="190.0" x="29181.0" y="4850.0"/> <glyph class="macromolecule" id="s_id_ad_sa887_ad_sa887"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CARD11</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12356734</p> <p>CARD11(CARMA1) mediates NF-kappaB activation by alphaCD3/alphaCD28 cross-linking.</p> <p>CARD11 functions upstream of the IKK complex. </p> <p> wild‐type CARD11 co‐precipitating with endogenous Bcl10</p> <p>CARMA1 only expresses in lymphocytes</p> <p>PMID:20685844 </p> <p>CARMA1, a critical target of PKCθ phosphorylation, resides in lymphocytes in an inactive state. Extensive CARMA1 mutagenesis data suggest that this inactive state is maintained by intramolecular interactions that prevent the CARMA1 CARD from interacting with the CARD of BCL10 12 and 13. PKCθ phosphorylates human CARMA1 at three serine residues, S552, S645 and S637 (S564, S657, S649 in mice)</p> <p>PMID:11356195; PMID:17052756; PMID:21199863 </p> <p>CARMA1 induces BCL10 phosphorylation via CaMKII </p> <p>PMID:16809782;PMID:17052756 </p> <p>In the immune synapse, CaMKII phosphorylates Carma1 on Ser109 and the phosphorylation increases the interaction between Carma1 and Bcl10.</p> <p>Carma1/Bcl10/Malt1 complex induces NF-κB activation (Sun et al., 2004). Accordingly based on the findings in the present study, CaMKII phosphorylates Bcl10 on Ser138 while IKKβ phosphorylates residues Ser134, 136, 138, 141 and 144 (Wegener et al., 2006). Phosphorylation of Bcl10 disrupts Bcl10/Malt1 association (Wegener et al., 2006), and attenuates NF-κB activation.</p> <p>PMID:17363905 </p> <p>PKC-θ regulates TGF-β–activated kinase 1 (TAK1), a member of the MAPKK kinase family, leading to activation of IKK and NF-κB in a CARMA1-independent manner in the TCR pathway</p> <p>TAK1 activation was significantly inhibited with the pretreatment of the PKC inhibitor in both Jurkat and JPM50.6 cells (Figure 6A, lower panels). Together, these results suggest that PKC functions upstream of TAK1 and TAK1 regulates IKKα/β phosphorylation in the TCR signaling pathway.</p> <p>PKCθ, TAK1, and IKK assemble into a complex in a signal‐dependent but CARMA1‐independent manner, whereas BCL10 and MALT1 require CARMA1 to associate with the PKCθ–TAK1–IKK complex. Together, our results suggest a model in which TAK1 functions downstream of PKC and phosphorylates IKKα/β in a CARMA1‐independent manner, and, together with CARMA1‐dependent ubiquitination of NEMO, leads to activation of the IKK complex and NF‐κB in antigen receptor signaling pathways</p> <p>CARMA1 is essential for the ubiquitination of NEMO</p> </body> </html> </notes> <label text="CARD11"/> <bbox w="80.0" h="40.0" x="29201.0" y="4970.0"/> <glyph class="state variable" id="_ea2096f8-a8ea-4e6d-9255-731d9e9fcfdd"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="29193.5" y="4985.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa889_ad_sa889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>HUGO:MALT1</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21873235 </p> <p>Malt1 cleaved the NF-κB family member RelB after Arg-85. RelB cleavage induced its proteasomal degradation and specifically controlled DNA binding of RelA- or c-Rel–containing NF-κB complexes.</p> <p>PMID:18264101 </p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>PMID:17948050</p> <p>TRAF6 associates with Malt1 in response to T-cell activation and can function as an E3 ligase for Malt1 in vitro and in vivo, mediating lysine 63-linked ubiquitination of Malt1.</p> </body> </html> </notes> <label text="MALT1"/> <bbox w="80.0" h="40.0" x="29201.0" y="4860.0"/> <glyph class="state variable" id="_01028618-82ca-45a0-9f25-8d3a18e2192b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29196.0" y="4875.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa888_ad_sa888"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>HUGO:BCL10</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18264101 </p> <p>Lymphocyte activation induces a smaller Bcl-10 isoform downstream of CD3 and CD28</p> <p>Formation of the faster migrating Bcl-10 isoform depends on its recruitment by CARMA1 and on the formation of CARMA1 oligomers.</p> <p>activation of the NF-B pathway by antigen-presenting cells or by drugs that mimic the antigen receptor signal does not require MALT1-dependent cleavage of Bcl-10 but most likely depends on other MALT1 substrates.</p> <p>After activation with either anti-CD3 and anti-CD28 or PMA, cells expressing the R228G mutant had less adhesion to fibronectin than did cells expressing wild-type Bcl-10</p> <p>(. In Jurkat T cells, adhesion to the 1 ligand fibronectin is mediated mainly by the integrin a4b1, with a minor contribution from a5b1)</p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>In the CARMA1–Bcl-10–MALT1 signaling complex, Bcl-10 acts as an adaptor protein that binds, through its caspase-recruitment domain (CARD), to the CARD motif of CARMA1 (refs. 6,7,8,9,10,11,12); this interaction leads to the recruitment of MALT1 and/or the stabilization of the MALT1-CARMA1 interaction13, 14, 15. The formation of the CARMA1–Bcl-10–MALT1 complex is central to antigen receptor–mediated activation of the NF-B pathway and thereby controls the antigen receptor–induced expression and secretion of cytokines that are essential for lymphocyte proliferation</p> <p>PMID:11356195; PMID:17052756 </p> <p>CARMA1 induces BCL10 phosphorylation (data from non immune cells)</p> <p>Phosphorylation of Bcl10 at S138 Negatively Regulates T-Cell Receptor-Mediated NF-κB Activation.</p> <p>CaMKII phosphorylates Bcl10 on Ser138. Furthermore, a CaMKII inhibitor, KN93, and CaMKII siRNA substantially reduce Bcl10 phosphorylation induced by phorbol myristate acetate/ionomycin. S138A mutation prolongs Bcl10-induced NF-κB activation, suggesting that Bcl10 phosphorylation is involved in attenuation of NF-κB activation.</p> <p>Phosphorylation of Bcl10, especially at Ser138, has been linked to a signal-induced degradation of Bcl10. </p> <p>PMID:16818229 </p> <p>IKK2 (IKBKB) phoshorylates BCL10 downstream of TCR.</p> <p>Mutation of the IKKbeta phosphorylation sites on Bcl10 enhances expression of NF-kappaB target genes IL-2 and TNFalpha after activation of primary T cells.</p> <p>PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> <p>Mechanistically, the positive effect of calcineurin on the CBM complex formation seems to be linked to a dephosphorylation of Bcl10. </p> <p>PMID:17462996</p> </body> </html> </notes> <label text="BCL10"/> <bbox w="80.0" h="40.0" x="29201.0" y="4910.0"/> <glyph class="state variable" id="_7c230b63-0e7f-45cb-936d-dfc266131a19"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29196.0" y="4925.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa31_shh1_shh2_csa31" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MYCN:promoter_region</p> <p>References:</p> <p>s_shh2_re135:(MAP:survival) PMID:20851997 PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="26813.81" y="22179.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa251_shh1_shh2_sa251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>N-myc</p> <p>HUGO:MYCN HGNC:7559 ENTREZ:4613 UNIPROT:P04198 GENECARDS:MYCN KEGG:4613 ATLASONC:NMYC112 WIKI:MYCN</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="MYCN"/> <bbox w="80.0" h="40.0" x="26808.686" y="22137.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa441_te_sa441" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CCKBR:GAST</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> </body> </html> </notes> <label text="ca_s4874"/> <bbox w="100.0" h="120.0" x="5940.0" y="1210.0"/> <glyph class="macromolecule" id="s_id_ca_sa1012_ca_sa1012"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:GAST</p> <p>References:</p> <p>CASCADE:GAST</p> <p>PMID:23523669 </p> <p>Progastrin-induced secretion of insulin-like growth factor 2 from colonic myofibroblasts stimulates colonic epithelial proliferation in mice.</p> <p> Incubation of CCD18Co myofibroblasts with 0.1 nmol/L rhPG(1-80) increased their proliferation, which required activation of protein kinase C and phosphatidylinositol-3 kinase.</p> <p>http://cancerres.aacrjournals.org/content/75/1_Supplement/B16.short</p> 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compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection.PMID:26013006 IL-27 stimulation of Tregs induced expression of Lag3qPCR analysis confirmed that IL-27 upregulated Tbx21, Lag3, Ccl3, Ccl4, and Il10 expressionPMID:20385810 Expression of LAG-3 and on CD8+ T cells was up-regulated by IL-10, IL-6 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection.PMID:26013006 IL-27 stimulation of Tregs induced expression of Lag3qPCR analysis confirmed that IL-27 upregulated Tbx21, Lag3, Ccl3, Ccl4, and Il10 expressionPMID:20385810 Expression of LAG-3 and on CD8+ T cells was up-regulated by IL-10, IL-6 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1304_ad_sa1304"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6"/> </rdf:Bag> 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<title/> </head> <body> <p>NAME:BIRC7:cleaved~Caspase9*</p> </body> </html> </notes> <label text="BIRC7:CASP9"/> <bbox w="106.0" h="120.0" x="24726.498" y="14419.0"/> <glyph class="macromolecule" id="s_id_rc_sa1968_rc_sa1968"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>baculoviral IAP repeat containing 7</p> <p>HUGO:BIRC7 HGNC:13702 ENTREZ:79444 UNIPROT:Q96CA5</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> <p>References:</p> <p>synonym:ML-IAP</p> </body> </html> </notes> <label text="BIRC7"/> <bbox w="80.0" h="40.0" x="24736.498" y="14431.125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1969_rc_sa1969"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211</p> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa792_rc_sa792"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PFKP"/> <bbox w="80.0" h="40.0" x="19133.06" y="9992.189"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2742_in_sa2742" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CREB1"/> <bbox w="80.0" h="40.0" x="19415.0" y="4575.0"/> <glyph class="state variable" id="_2c470205-224b-48d5-8d35-682e29b86931"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19407.5" y="4590.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1068_in_sa1068"> <label text="IL6"/> <bbox w="80.0" h="40.0" x="8468.5" y="3135.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa33_akt1_akt2_csa33" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO4:IMPORTIN*</p> <p>References:</p> <p>s_akt2_re111:(MAP:survival) PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa33_akt1_akt2_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO4:IMPORTIN*"/> <bbox w="100.0" h="120.0" x="12146.561" y="20881.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa217_akt1_akt2_sa217"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>importin 4</p> <p>HUGO:IPO4 HGNC:19426 ENTREZ:79711 UNIPROT:Q8TEX9 GENECARDS:IPO4 KEGG:79711 ATLASONC:GC_IPO4 WIKI:IPO4 </p> <p>importin 5</p> <p>HUGO:IPO5 HGNC:6402 ENTREZ:3843 UNIPROT:O00410 GENECARDS:IPO5 REACTOME:57347 KEGG:3843 ATLASONC:GC_IPO5 WIKI:IPO5 </p> <p>importin 7</p> <p>HUGO:IPO7 HGNC:9852 ENTREZ:10527 UNIPROT:O95373 GENECARDS:IPO7 KEGG:10527 ATLASONC:GC_IPO7 WIKI:IPO7 </p> <p>importin 8</p> <p>HUGO:IPO8 HGNC:9853 ENTREZ:10526 UNIPROT:O15397 GENECARDS:IPO8 KEGG:10526 ATLASONC:GC_IPO8 WIKI:IPO8 </p> <p>importin 9</p> <p>HUGO:IPO9 HGNC:19425 ENTREZ:55705 UNIPROT:Q96P70 GENECARDS:IPO9 KEGG:55705 WIKI:IPO9 </p> <p>importin 11</p> <p>HUGO:IPO11 HGNC:20628 ENTREZ:51194 UNIPROT:Q9UI26 GENECARDS:IPO11 KEGG:51194 ATLASONC:GC_IPO11 WIKI:IPO11 </p> <p>importin 13</p> <p>HUGO:IPO13 HGNC:16853 ENTREZ:9670 UNIPROT:O94829 GENECARDS:IPO13 KEGG:9670 ATLASONC:GC_IPO13 WIKI:IPO13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="IMPORTIN*"/> <bbox w="80.0" h="40.0" x="12153.061" y="20939.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa216_akt1_akt2_sa216"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O4</p> <p>HUGO:FOXO4 HGNC:7139 ENTREZ:4303 UNIPROT:P98177 GENECARDS:FOXO4 REACTOME:404982 KEGG:4303 ATLASONC:AFX1ID57 WIKI:FOXO4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="12155.061" y="20891.0"/> <glyph class="state variable" id="_695e3e05-794c-4ae8-a68a-39f4370fedf2"> <state value="" variable="T28"/> <bbox w="25.0" h="10.0" x="12143.053" y="20886.0"/> </glyph> <glyph class="state variable" id="_08901cf6-66c3-4e14-8196-c5b1d3b8bb09"> <state value="" variable="S258"/> <bbox w="30.0" h="10.0" x="12219.442" y="20926.0"/> </glyph> <glyph class="state variable" id="_7361f7ce-9597-4494-a055-92f3581d216f"> <state value="" variable="S193"/> <bbox w="30.0" h="10.0" x="12220.061" y="20886.213"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa236_in_sa236" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="PRF1"/> <bbox w="70.0" h="25.0" x="16745.0" y="6487.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3185_rc_sa3185" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3185_rc_sa3185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <bbox w="80.0" h="40.0" x="22919.06" y="11069.0"/> <glyph class="state variable" id="_38760874-32b0-46e4-863b-6fe91169157f"> <state value="" variable="T180"/> <bbox w="30.0" h="10.0" x="22927.656" y="11064.0"/> </glyph> <glyph class="state variable" id="_7f5740a7-a9f5-4d5f-b5ef-30c0471152a4"> <state value="" variable="Y182"/> <bbox w="30.0" h="10.0" x="22961.01" y="11064.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa24_akt1_akt1_csa24" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> </body> </html> </notes> <label text="(mTORC1)"/> <bbox w="180.0" h="252.0" x="13508.72" y="19066.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa145_akt1_akt1_sa145"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="169.0" h="51.0" x="13516.22" y="19180.5"/> <glyph class="state variable" id="_602fe6dd-2064-4fa7-b78b-4e2b62344e7d"> <state value="" variable="S696"/> <bbox w="30.0" h="10.0" x="13501.22" y="19200.959"/> </glyph> <glyph class="state variable" id="_6b4bb5bb-377e-49f5-a24b-2dfbcb5f6532"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="13621.525" y="19175.5"/> </glyph> <glyph class="state variable" id="_093ea2cc-5157-40bd-9fcf-949559a7d72e"> <state value="" variable="S863"/> <bbox w="30.0" h="10.0" x="13621.208" y="19226.5"/> </glyph> <glyph class="state variable" id="_d334513e-566a-4854-aa53-88fb5cda9fd0"> <state value="" variable="S877"/> <bbox w="30.0" h="10.0" x="13545.691" y="19226.5"/> </glyph> <glyph class="state variable" id="_24dc012a-2306-4acb-84e5-e14ce1d685bf"> <state value="" variable="S859"/> <bbox w="30.0" h="10.0" x="13670.22" y="19198.184"/> </glyph> <glyph class="state variable" id="_a7591dd6-feaa-4443-a681-f19128afc890"> <state value="" variable="T706"/> <bbox w="30.0" h="10.0" x="13542.881" y="19175.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa144_akt1_akt1_sa144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="13517.22" y="19135.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa520_akt1_akt1_sa520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="13599.561" y="19135.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa141_akt1_akt1_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="160.0" h="57.0" x="13518.72" y="19077.0"/> <glyph class="state variable" id="_30ab4545-6ab6-4c3b-8aad-ef91fa80784d"> <state value="" variable="S183"/> <bbox w="30.0" h="10.0" x="13504.705" y="19072.0"/> </glyph> <glyph class="state variable" id="_26c34210-a9de-4087-9427-330bcbe922de"> <state value="" variable="S212"/> <bbox w="30.0" h="10.0" x="13663.72" y="19073.412"/> </glyph> <glyph class="state variable" id="_024d2439-6533-4966-91fe-c097dc5f2c88"> <state value="" variable="S221"/> <bbox w="30.0" h="10.0" x="13663.72" y="19127.762"/> </glyph> <glyph class="state variable" id="_262b3d63-00dc-4ea2-a9f9-c296eef6db5e"> <state value="" variable="T246"/> <bbox w="30.0" h="10.0" x="13503.72" y="19123.473"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa146_akt1_akt1_sa146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="171.0" h="59.0" x="13515.22" y="19242.0"/> <glyph class="state variable" id="_7879ab34-513a-4b31-a68a-5e829a53b555"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="13667.398" y="19296.0"/> </glyph> <glyph class="state variable" id="_c88fc1a8-97db-43af-a167-67f7ff8d1e60"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="13661.414" y="19237.0"/> </glyph> <glyph class="state variable" id="_f4dd8d5e-086f-4b37-b584-585562d66504"> <state value="" variable="S2481"/> <bbox w="35.0" h="10.0" x="13497.72" y="19294.45"/> </glyph> <glyph class="state variable" id="_2bff87ec-c48e-4327-8ce9-f9b5e20eedaf"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="13500.22" y="19266.5"/> </glyph> <glyph class="state variable" id="_29f297ae-3aa7-4fa0-878c-45431cf9f796"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="13505.275" y="19237.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5386_rc_sa5386" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5386_rc_sa5386"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase4*"/> <clone/> <bbox w="80.0" h="40.0" x="27779.06" y="10079.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5386_rc_sa5062" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5386_rc_sa5062"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase4*"/> <clone/> <bbox w="80.0" h="40.0" x="26059.06" y="12819.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa74_wnc1_wnc4_sa74" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa74_wnc1_wnc4_sa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNAI1"/> <bbox w="80.0" h="40.0" x="18627.06" y="22084.0"/> <glyph class="state variable" id="_99985b5f-c027-4ec3-b3e4-82585f0bb0ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18702.06" y="22079.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1688_emtc_em_sa1688" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Membrane spreading"/> <bbox w="145.0" h="22.0" x="2492.5" y="13836.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2070_emtc_em_sa2070" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2070_emtc_em_sa2070"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK2"/> 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After activation of peripheral blood alpha/beta T cells, PAG becomes rapidly dephosphorylated and dissociates from Csk.</p> <p>PMID:12218089</p> <p>Fyn is essential for tyrosine phosphorylation of Csk-binding protein/phosphoprotein associated with glycolipid-enriched microdomains in lipid rafts in resting T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa799_ad_sa799"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAG1"/> </rdf:Bag> 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text="RNA"/> <bbox w="20.0" h="10.0" x="20745.0" y="2502.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2100_em_sa2100" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:17533374HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expressionPMID:23869868Chemokine receptor CXCR2 is transactivated by p53 and induces p38-mediated cellular senescenceConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:17533374HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expressionPMID:23869868Chemokine receptor CXCR2 is transactivated by p53 and induces p38-mediated cellular 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa151_in_csa151"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7543512"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21115385"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL10R*:IL10:JAK1:TYK2"/> <bbox w="179.0" h="177.0" x="9250.5" y="4086.5"/> <glyph class="macromolecule" id="s_id_in_sa1026_in_sa1026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL10RB"/> <bbox w="80.0" h="50.0" x="9340.5" y="4138.5"/> <glyph class="unit of information" id="_c7cda07f-5025-449b-9436-f1d2bd1eb70d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9358.0" y="4133.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1024_in_sa1024"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="9260.0" y="4205.0"/> <glyph class="state variable" id="_fb34477f-e171-41e3-9914-382d0823b32f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9252.5" y="4220.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1025_in_sa1025"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL10, CASCADE:TGFB, CASCADE:MIF, CASCADE:CSF1, CASCADE:IL12, CASCADE:STING, CASCADE:TLR2_4, CASCADE:IFNAB, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IL4</p> <p>References:</p> <p>PMID:21115385</p> <p>IL10 is immunosuppressive cytokine.</p> <p>PMID:10623821, PMID:10623821</p> <p>IL10 expression in macrophages is assosiated</p> <p>with TAM (M2) phenotype.</p> <p>PMID:10542212</p> <p>IL10 promotes M2 phenotype of macrophages</p> <p> trough suppression of NFkB signaling</p> <p>and inhibition of synthesis of pro-inflammatory cytokines.</p> <p>PMID:11875494</p> <p>IL10 stimulates HO1 expression via MAPK p38 stimulation.</p> <p>PMID:16713974, PMID:14607900</p> <p>IL10 and Stat3 mediate feedback inhibition of TLR signaling. TLR2/TLR4 induces</p> <p>IL10 expression. IL10 inhibits exppression of TNF downstream of TLR.</p> <p>PMID:16713974</p> <p>Production of IL10 is partially ERK dependent.</p> <p>PMID:21191065</p> <p> regulatory effect of galectin-1 is mediated, in part, through its ability to induce, in an Id3 (inhibitor of DNA binding 3)-dependent manner, the expression of IL-10 in monocytes and MdDCs.</p> <p>At the same tyme IL10 siglaning also participates in ID3 upregulation via PI3K/AKT pathway</p> <p>PMID:17404308</p> <p>CSF1 induces IL10 and CCL2 mRNA expression in macrophages</p> <p>PMID:9834059</p> <p>NK cells stimulated by IL12 induces IL10 production.</p> <p>PMID:11207245</p> <p>IFNA induces IL10 production in Dcs (negative loop)</p> <p>PMID:21220452</p> <p>that IL-10 increased March1 mRNA by approximately six fold</p> <p>PMID:15579430</p> <p>Metastatic Melanoma Secreted IL-10 Down-Regulates CD1(CD1a, CD1b, CD1c, and CD1d) protein Molecules on Dendritic Cells in Metastatic Tumor Lesions (</p> <p>PMID:16424049</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL10"/> <bbox w="80.0" h="40.0" x="9263.5" y="4091.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1028_in_sa1028"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TYK2"/> <bbox w="80.0" h="40.0" x="9340.0" y="4205.0"/> <glyph class="state variable" id="_84b3c256-fac0-4737-8053-94b602d4d14e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9332.5" y="4220.0"/> </glyph> </glyph> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:PMID:27548915 One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. Therefore, reduction in IGF2R following treatment with miR-211 or melanosomes may increase IGF2 levels, promoting its binding to IGF1R, and thus leading to hyperactivation of this pathway and increased proliferation. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:PMID:27548915 One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. Therefore, reduction in IGF2R following treatment with miR-211 or melanosomes may increase IGF2 levels, promoting its binding to IGF1R, and thus leading to hyperactivation of this pathway and increased proliferation. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa911_ca_sa911"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27548915"/> 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class="state variable" id="_1dd638c8-6968-479f-a1bd-5431429454e2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11887.811" y="20428.338"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4966_rc_sa4966" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Protein phosphatase 2 (PP2)"/> <bbox w="190.0" h="25.0" x="26854.06" y="14716.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa960_ca_sa960" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF References:PMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsPGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression.PMID:21209948 PGE2 can induce IL-6 expression in fibroblasts through EP2 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF References:PMID:25916550 miR-149 targets IL-6 mRNA and is downregulated in GC CAFsPGE2 receptor, PTGER2 and IL6, are potential targets of miR-149PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression.PMID:21209948 PGE2 can induce IL-6 expression in fibroblasts through EP2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa960_ca_sa960"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGER2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25916550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGER2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25916550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209948"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTGER2"/> <bbox w="90.0" h="25.0" x="995.0" y="1857.5"/> <glyph class="unit of information" id="_ef7033a2-6ec7-495f-8070-a56a02614ff9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1030.0" y="1852.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1848_in_sa1848" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24030977, 14610620, 12223527, 20856220, 23124025 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <p>ARG1, TGFB, COX2 expression is downregulated in IL4R-/- MDSC (probably via STAT3 and MYC).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1848_in_sa1848"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030977"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4R"/> <clone/> <bbox w="80.0" h="50.0" x="24435.0" y="5195.0"/> <glyph class="state variable" id="_2256cffc-c456-4691-9794-23655f833822"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24510.0" y="5229.389"/> </glyph> <glyph class="unit of information" id="_eef5484a-6f42-461c-8721-4acd04430a68"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24452.5" y="5190.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1848_in_sa988" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24030977, 14610620, 12223527, 20856220, 23124025 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <p>ARG1, TGFB, COX2 expression is downregulated in IL4R-/- MDSC (probably via STAT3 and MYC).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1848_in_sa988"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030977"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4R"/> <clone/> <bbox w="80.0" h="50.0" x="8900.0" y="4960.0"/> <glyph class="state variable" id="_c3511ea3-efc1-4072-ab43-3afae2d2510a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8975.0" y="4994.389"/> </glyph> <glyph class="unit of information" id="_0b7bf855-14e7-4aa7-9fd2-afa8fd60a610"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8917.5" y="4955.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa73_wnc1_wnc1_csa73" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRR*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> </body> </html> </notes> <label text="Fzl/ROR/Wnt/CK1ε/Dvl"/> <bbox w="358.0" h="203.0" x="15334.561" y="19083.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa643_wnc1_wnc1_sa643"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="15348.561" y="19196.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa637_wnc1_wnc1_sa637"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="15434.561" y="19163.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa631_wnc1_wnc1_sa631"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15583.061" y="19112.0"/> <glyph class="state variable" id="_7b2eed00-9536-406f-a26d-261a9bb72d76"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="15648.061" y="19107.266"/> </glyph> <glyph class="state variable" id="_b1bc6643-bdbb-4ab4-adaf-36258f873832"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15618.061" y="19157.0"/> </glyph> <glyph class="state variable" id="_46c3b6de-0d54-448f-a632-cb2811ce2d15"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15578.064" y="19107.0"/> </glyph> <glyph class="state variable" id="_b55f6cc2-4de4-409d-9b09-c47414f01d98"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15658.061" y="19157.0"/> </glyph> <glyph class="unit of information" id="_254a6a5d-7f4f-4cfa-bc22-d55658972970"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15600.561" y="19107.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa632_wnc1_wnc1_sa632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15564.061" y="19088.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa640_wnc1_wnc1_sa640"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="15523.561" y="19209.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa642_wnc1_wnc1_sa642"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15607.311" y="19211.5"/> <glyph class="state variable" id="_b9516afd-4747-4bdf-9058-42f4c05e6b13"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15602.314" y="19246.5"/> </glyph> <glyph class="state variable" id="_8d4ba831-c70e-42d1-91a4-37e366ea6a16"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15679.444" y="19206.5"/> </glyph> <glyph class="state variable" id="_eac288d3-0fd9-48ee-9bc0-96a937e3078f"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="15671.692" y="19246.5"/> </glyph> <glyph class="state variable" id="_d95740ad-cc56-44b9-bddb-759d9169bfbe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15602.314" y="19206.5"/> </glyph> <glyph class="state variable" id="_67781b16-f80f-4b0a-b5bf-35f78e39010c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15682.311" y="19206.5"/> </glyph> <glyph class="state variable" id="_87f57c6a-9856-412c-94da-0ebbce0c1812"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15682.311" y="19246.5"/> </glyph> <glyph class="state variable" id="_ed4dfbcc-6ef7-44f8-962d-dcbf2936dbbd"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="15592.311" y="19246.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa639_wnc1_wnc1_sa639"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="15522.561" y="19166.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa634_wnc1_wnc1_sa634"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="15419.561" y="19105.5"/> <glyph class="unit of information" id="_c4e6ff99-f2d2-4e4f-ad0d-fccf97d4ace2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15437.061" y="19100.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa636_wnc1_wnc1_sa636"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="15345.561" y="19153.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa630_wnc1_wnc1_sa630"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15502.061" y="19112.0"/> <glyph class="unit of information" id="_2acd9b2a-20a3-470c-bd11-9257f39dba95"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15519.561" y="19107.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa642_wnc1_wnc1_sa641"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15605.311" y="19167.5"/> <glyph class="state variable" id="_704c2ff8-66d6-43e0-887e-d8c29a290792"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15600.314" y="19202.5"/> </glyph> <glyph class="state variable" id="_23673927-dfef-49ab-91cc-97a43cd8b4ea"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15677.444" y="19162.5"/> </glyph> <glyph class="state variable" id="_301a4b55-0acb-405d-a930-c38af18e0ca1"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="15669.692" y="19202.5"/> </glyph> <glyph class="state variable" id="_374a9a98-244d-47ac-b09f-707c8805cdb4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15600.314" y="19162.5"/> </glyph> <glyph class="state variable" id="_6071ab91-9072-4aac-8052-584527e3a0fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15680.311" y="19162.5"/> </glyph> <glyph class="state variable" id="_dcd8f5b8-40a3-4e33-822f-8a3c6f4230ca"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15680.311" y="19202.5"/> </glyph> <glyph class="state variable" id="_fbeb275a-9af7-4ff2-a5ca-5970f483c400"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="15590.311" y="19202.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa633_wnc1_wnc1_sa633"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15606.561" y="19087.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa635_wnc1_wnc1_sa635"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="15338.561" y="19100.5"/> <glyph class="state variable" id="_28130895-1604-42ff-bd2b-70be29210031"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15333.564" y="19095.5"/> </glyph> <glyph class="state variable" id="_b038be8a-1a63-4466-a508-29aeb18b0945"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15413.561" y="19095.5"/> </glyph> <glyph class="state variable" id="_7a69db91-961f-47b6-bcb6-27651ba1f957"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15413.561" y="19120.5"/> </glyph> <glyph class="state variable" id="_a2ffedc1-50f4-4e89-9ef5-80d71352ac87"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15333.561" y="19120.5"/> </glyph> <glyph class="unit of information" id="_e26d83f3-057e-45c6-a328-62cf2a0eae54"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15356.061" y="19095.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa644_wnc1_wnc1_sa644"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15356.561" y="19240.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa3_shh1_shh1_sa3" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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<bbox w="10.0" h="10.0" x="27631.06" y="17612.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2432_rc_sa2432" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2432_rc_sa2432"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX7A2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX7A2"/> <bbox w="80.0" h="40.0" x="19485.81" y="13854.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2438_emtc_em_sa2438" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2438_emtc_em_sa2438"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF19"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF19"/> <bbox w="43.0" h="19.0" x="3460.0" y="19191.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa45_shh1_shh1_csa45" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PP2A_A*:PP2A_B55_alpha_*:PP2A_C*</p> <p>References:</p> <p>s_shh1_re48(MAP:survival):</p> <p>PMID:20360384</p> <p>PMID:19996169</p> <p>PMID:18559511</p> <p>s_akt1_re24:(MAP:survival) PMID:18042541 PMID:18077353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa45_shh1_shh1_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20360384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996169"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18559511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18042541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PP2A)"/> <bbox w="106.0" h="152.0" x="27683.06" y="18847.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa288_shh1_shh1_sa288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha isozyme</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A </p> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>P63151</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:19556239</p> <p>PMID:10995457</p> </body> </html> </notes> <label text="PP2A_B55α*"/> <bbox w="80.0" h="40.0" x="27695.56" y="18935.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa287_shh1_shh1_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label text="PP2A_C*"/> <bbox w="80.0" h="40.0" x="27695.56" y="18895.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa286_shh1_shh1_sa286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A </p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R1B HGNC:9303 ENTREZ:5519 UNIPROT:P30154 GENECARDS:PPP2R1B REACTOME:49127 KEGG:5519 ATLASONC:GC_PPP2R1B WIKI:PPP2R1B </p> <p>PP2A-Aalpha, PR65A, "protein phosphatase 2, 65kDa regulatory subunit A", "protein phosphatase 2A, regulatory subunit A, alpha isoform"</p> <p>protein phosphatase 2, regulatory subunit A, beta</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18559511</p> <p>PMID:10026142</p> </body> </html> </notes> <label text="PP2A_A*"/> <bbox w="80.0" h="40.0" x="27695.56" y="18857.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa151_gf1_sa151" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:25772309 </p> <p>The Fgf15/19 subfamily members encode endocrine FGFs, which bind to and activate FGFRs with the Klotho family protein as a cofactor.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa151_gf1_sa151"> <bqbiol:isEncodedBy> 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3335_rc_sa3335"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DUSP16"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DUSP16"/> <bbox w="80.0" h="40.0" x="22705.06" y="11177.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1050_ce_sa1050" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1050_ce_sa1050"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDCA8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Borealin*"/> <bbox w="80.0" h="40.0" x="10844.08" y="13803.071"/> <glyph class="state variable" id="_2e087329-d970-4969-a1dc-d31096290d4d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10836.58" y="13818.071"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1263_in_sa1263" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17404308, 17485448, 16394015, 10542212, 19667062, 15067049, 16243976, 24204259, 12417340, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_ACTIVATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:IL13, CASCADE:IL4, CASCADE:MIF, CASCADE:TLR2_4, CASCADE:CSF2, CASCADE:CSF1PMID:24204259IL4RA signaling upregulates IL18 expression and downregulates IL10 expression and also mRNA expression of IL-23p19 and INHBA (activin A), cytokines previously implicated in promoting Th2 responses (References:PMID:16243976IRF4 downregulates expression of TNFa, IL12p40, IL6 probably via inhibition of NF-kB and JNK signaling pathways.PMID:12417340IRF-8/ICSBP and IRF-1 cooperatively stimulate mouse IL-12 p40 promoter activity in macrophages.IRF-1 can be acetylated by p300. p300 is recruited to the IL-12p40 promoter depending on both ICSBP and IRF-1and acts as coactivator.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23PMID:17485448, PMID:10542212Inhibition of NfkB signaling downstream of ABIN3 inhibits expression of IL8, IL6, TNFa, IL12p40PMID:16394015 , PMID:19667062, PMID:15067049Fos inhibits the expression of IL-12 p40 and IFNB and upregulates IL10 production downstream of FOS in macrophages andPMID:17404308CSF1 downregulates TNF, IL-23p19, IL-12p40 expression probably via induction of acomulation of p50 homodimer and inhibition of p65/p50 NF-kB signaling. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 17404308, 17485448, 16394015, 10542212, 19667062, 15067049, 16243976, 24204259, 12417340, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_ACTIVATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:IL13, CASCADE:IL4, CASCADE:MIF, CASCADE:TLR2_4, CASCADE:CSF2, CASCADE:CSF1PMID:24204259IL4RA signaling upregulates IL18 expression and downregulates IL10 expression and also mRNA expression of IL-23p19 and INHBA (activin A), cytokines previously implicated in promoting Th2 responses (References:PMID:16243976IRF4 downregulates expression of TNFa, IL12p40, IL6 probably via inhibition of NF-kB and JNK signaling pathways.PMID:12417340IRF-8/ICSBP and IRF-1 cooperatively stimulate mouse IL-12 p40 promoter activity in macrophages.IRF-1 can be acetylated by p300. p300 is recruited to the IL-12p40 promoter depending on both ICSBP and IRF-1and acts as coactivator.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23PMID:17485448, PMID:10542212Inhibition of NfkB signaling downstream of ABIN3 inhibits expression of IL8, IL6, TNFa, IL12p40PMID:16394015 , PMID:19667062, PMID:15067049Fos inhibits the expression of IL-12 p40 and IFNB and upregulates IL10 production downstream of FOS in macrophages andPMID:17404308CSF1 downregulates TNF, IL-23p19, IL-12p40 expression probably via induction of acomulation of p50 homodimer and inhibition of p65/p50 NF-kB signaling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16243976"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24204259"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12417340"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23390297"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL12p40*"/> <bbox w="70.0" h="25.0" x="20567.5" y="5227.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa244_rc_csa244" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MYC:p14ARF*</p> </body> </html> </notes> <label text="ARF:MYC"/> <bbox w="100.0" h="120.0" x="24634.06" y="16904.0"/> <glyph class="macromolecule" id="s_id_rc_sa1850_rc_sa1850"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 2A</p> <p>HUGO:CDKN2A HGNC:1787 ENTREZ:1029 UNIPROT:P42771</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>uniprot:Q8N726</p> </body> </html> </notes> <label text="p14ARF*"/> <bbox w="80.0" h="40.0" x="24647.06" y="16914.0"/> <glyph class="state variable" id="_fac58e97-38d8-4e48-b206-fc804323b199"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24698.629" y="16909.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1851_rc_sa1851"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC HGNC:7553 ENTREZ:4609 UNIPROT:P01106</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="24645.06" y="16963.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa35_mpk1_mpk1_csa35" compartmentRef="s_id_mpk1_mpk1_ca5_mpk1_mpk1_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:DAG:RASGRP1</p> </body> </html> </notes> <label text="Ca2+:DAG:RASGRP1"/> <bbox w="144.0" h="84.0" x="7837.06" y="19652.0"/> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa274_mpk1_mpk1_sa274"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ca2+</p> <p>CAS:N/A PUBCHEM:N/A CHEBI:39124 KEGGCOMPOUND:N/A</p> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="61.0" h="38.0" x="7845.5044" y="19668.445"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa185_mpk1_mpk1_sa185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS guanyl releasing protein 1 (calcium and DAG-regulated)</p> <p>HUGO:RASGRP1 HGNC:9878 ENTREZ:10125 UNIPROT:O95267</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGRP1 specifically activates H-Ras in the Golgi. It is localised in the cytosol in quiescent cells. After PMA stimulus at first it moves to the PM and then shifts towards other subcellular compartments like the Golgi apparatus.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+ in a manner analogous to members of the PKC family.</p> <p>PMID:12782630 PMID:17496910</p> </body> </html> </notes> <label text="RASGRP1"/> <bbox w="64.0" h="25.0" x="7893.06" y="19685.0"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa600_mpk1_mpk1_sa600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Generic_begin:</p> <p>DAG</p> <p>Generic_end</p> <p>References:</p> <p>DAG activates the C1-domain of RasGRP1.</p> <p>PLCG acts on PIP2 in the PM to produce DAG and IP3.</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+, in a manner analogous to members of the PKC family.</p> <p>PMID:17496910, PMID:16488589, PMID:17496910</p> <p>DAG remains in the inner layer of the plasma membrane. It recruits Protein Kinase C (PKC) ??? a calcium-dependent kinase that phosphorylates many other proteins that bring about the changes in the cell.</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="7889.185" y="19660.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa144_emtc_em_csa144" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BMI1_BIRC5_KLF4_SOX2_SNAI1_ZEB2*:MIR203A</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>PMID:20706219</p> <p>BMI1, KLF4 and SOX2 are targets of MIR203</p> <p>PMID:22514743</p> <p>SNAI1, ZEB2 are direct targets of MIR203</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa144_emtc_em_csa144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21224848"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22514743"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MIR203/BMI1_BIRC5_KLF4_SOX2_SNAI1_ZEB2*)"/> <bbox w="288.0" h="66.0" x="2688.5" y="18174.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1842_emtc_em_sa1842"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BMI1_BIRC5_KLF4_SOX2_SNAI1_ZEB2*</p> <p>BMI1 polycomb ring finger oncogene</p> <p>HUGO:BMI1, HGNC:1066, ENTREZ:648, GENECARDS:GC10P022605</p> <p>baculoviral IAP repeat containing 5</p> <p>HUGO:BIRC5, HGNC:593, ENTREZ:332, GENECARDS:GC17P076210</p> <p>Kruppel-like factor 4 (gut)</p> <p>HUGO:KLF4, HGNC:6348, ENTREZ:9314, GENECARDS:GC09M110247</p> <p>SRY (sex determining region Y)-box 2</p> <p>HUGO:SOX2, HGNC:11195, ENTREZ:6657, GENECARDS:GC03P181429</p> <p>snail homolog 1 </p> <p>HUGO:SNAI1, HGNC:11128, ENTREZ:6615, GENECARDS:GC20P048599</p> <p>zinc finger E-box binding homeobox 2</p> <p>HUGO:ZEB2, HGNC:14881, ENTREZ:9839, GENECARDS:GC02M145145</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>Confidence_begin:</p> 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rdf:resource="urn:miriam:hgnc.symbol:HIST1H3F"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST1H3G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST1H3H"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST1H3I"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST1H3J "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST1H3PS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Histone H3*"/> <bbox w="122.0" h="52.0" x="2994.053" y="11006.772"/> <glyph class="state variable" id="_f6caae19-d048-4e2c-88f5-60b914bf5303"> <state value="Me" variable="K9"/> <bbox w="30.0" h="10.0" x="3015.0354" y="11001.772"/> </glyph> 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rdf:about="#s_id_rc_sa1238_rc_sa1238"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAFK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAFG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="small~MAF*"/> <bbox w="80.0" h="40.0" x="24881.56" y="16864.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1620_emtc_em_sa1620" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1620_emtc_em_sa1620"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TLN1"/> <bbox w="39.0" h="16.0" x="5439.0" y="17885.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1551_in_sa1551" compartmentRef="s_id_in_ca13_in_ca13"> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="24175.0" y="3130.0"/> <glyph class="state variable" id="_2fd42234-8199-4f28-93c3-22c4cccebbb2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24250.0" y="3145.4336"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa970_rc_sa970" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa970_rc_sa970"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRXN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SRXN1"/> <bbox w="80.0" h="40.0" x="29179.06" y="10319.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa66_ce_csa66" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FAAP24*:FANCM</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex, function is damage recognition</p> <p>PMID:19622404</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa66_ce_csa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAAP24*/FANCM"/> <bbox w="100.0" h="120.0" x="15925.473" y="15397.356"/> <glyph class="macromolecule" id="s_id_ce_sa659_ce_sa659"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group M</p> <p>HUGO:FANCM, HGNC:23168, ENTREZ:57697, UNIPROT:Q8IYD8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:FANCONI, MODULE:NER, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:23444773</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex</p> <p>PMID:19622404</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>Link between Fanconi and NER</p> <p>PMID:22615860</p> <p>Fanconi and cross-linking agents</p> <p>PMID:21948210</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCM"/> <bbox w="80.0" h="40.0" x="15936.881" y="15453.032"/> <glyph class="state variable" id="_d7a05f8a-5e22-4041-988d-a45497fdcca5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15971.881" y="15448.032"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa658_ce_sa658"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 19 open reading frame 40, "Fanconi anemia-associated protein, 24 kDa"</p> <p>HUGO:C19orf40, HGNC:28467, ENTREZ:91442, UNIPROT:Q9BTP7</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex</p> <p>PMID:19622404</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP24*"/> <bbox w="80.0" h="40.0" x="15936.881" y="15410.032"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1990_in_sa1990" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="NFKBID"/> <bbox w="70.0" h="25.0" x="20283.0" y="3216.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1195_in_sa1195"> <label text="CCL19"/> <bbox w="80.0" h="40.0" x="14330.0" y="1105.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa129_rc_sa129" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15595 KEGGCOMPOUND:C00711 CAS:149-61-1</p> <p>References:</p> <p>charge:2-</p> </body> </html> </notes> <label text="malate"/> <bbox w="70.0" h="25.0" x="18711.81" y="14516.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa7_wca1_wca2_csa7" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:FZD*:GTP:G_alpha_o*:G_beta_*:G_gamma_*:WNT*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re21(MAP:survival):</p> <p>DKK1 can disrupt binding of Fz/LRP6/WNT complex</p> <p>PMID:11448771</p> <p>s_wca2_re72(MAP:survival):</p> <p>Upon WNT3a CRIPTO-1 binds to LRP5/6 this binding is competing with DKK binding</p> <p>PMID:23022962</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa7_wca1_wca2_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11448771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23022962"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:FZD*:GTP:Gαo*:Gβ*:Gγ*:WNT*"/> <bbox w="200.0" h="170.0" x="24440.06" y="18155.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa44_wca1_wca2_sa44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="30.0" h="20.0" x="24505.06" y="18175.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa47_wca1_wca2_sa47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="30.0" h="20.0" x="24500.06" y="18285.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa48_wca1_wca2_sa48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="30.0" h="20.0" x="24540.06" y="18285.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa45_wca1_wca2_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="24563.56" y="18163.5"/> <glyph class="state variable" id="_5d6f82c9-cc05-4bcc-b003-c7a50746181b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24611.56" y="18158.5"/> </glyph> <glyph class="state variable" id="_3d46f39a-03ee-4c6c-9bbf-60d22a9578c8"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="24601.56" y="18159.152"/> </glyph> <glyph class="state variable" id="_259c8315-ac5d-412b-b4af-82930635bcd2"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="24599.629" y="18281.5"/> </glyph> <glyph class="state variable" id="_35b3eb28-9f76-479a-ab01-1b7f2f842716"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="24549.404" y="18158.5"/> </glyph> <glyph class="state variable" id="_aa16b60b-be23-4a47-a46f-e16fa83a58af"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="24548.719" y="18281.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca2_sa49_wca1_wca2_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="24457.56" y="18262.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa50_wca1_wca2_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="24480.06" y="18185.0"/> <glyph class="unit of information" id="_72db828d-03a6-4243-8c5c-5ca0763383e3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24497.56" y="18180.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa46_wca1_wca2_sa46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="30.0" h="20.0" x="24460.06" y="18285.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1107_ca_sa1107" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFBPMID:25732824NDUFA4L2 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex, 4-like 2), a negative regulator of mitochondrial complex 1, was upregulated in CAFs The accumulation of HIF-1α, in turn, promotes glycolysis by increasing the uptake of glucose, upregulating expression of glycolytic enzymes under normoxic conditions, and inhibiting oxidative phosphorylation by upregulating NDUFA4L2 downstream of TGFB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFBPMID:25732824NDUFA4L2 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex, 4-like 2), a negative regulator of mitochondrial complex 1, was upregulated in CAFs The accumulation of HIF-1α, in turn, promotes glycolysis by increasing the uptake of glucose, upregulating expression of glycolytic enzymes under normoxic conditions, and inhibiting oxidative phosphorylation by upregulating NDUFA4L2 downstream of TGFB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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information" id="_0d08c326-83e5-47af-8585-119f3779012b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3220.0" y="4012.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa56_mo_csa56" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="NHERF1*/PTEN"/> <bbox w="100.0" h="120.0" x="2524.0" y="11046.0"/> <glyph class="macromolecule" id="s_id_mo_sa508_mo_sa508"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SLC9A3 regulator 1 </p> </body> </html> </notes> <label text="NHERF1*"/> <bbox w="80.0" h="40.0" x="2534.0" y="11056.0"/> <glyph class="state variable" id="_bcb11ff5-0fcd-4a89-bfe2-6ae0bbb6f73a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2585.5686" y="11051.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa509_mo_sa509"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTEN</p> </body> </html> </notes> <label text="PTEN"/> <bbox w="80.0" h="40.0" x="2534.0" y="11106.0"/> <glyph class="state variable" id="_7f324aa8-49cb-409a-bfd4-0d3547af2736"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2606.5" y="11129.284"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4793_rc_sa4793" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4793_rc_sa4793"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <clone/> <bbox w="80.0" h="40.0" x="27399.06" y="14739.0"/> <glyph class="state variable" id="_b3906f31-a451-47ed-b2aa-89e89b721e39"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="27445.145" y="14734.0"/> </glyph> <glyph class="state variable" id="_7f1936ec-8dc6-4044-862a-c5c1534093df"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="27445.38" y="14774.0"/> </glyph> <glyph class="state variable" id="_63c30862-e981-4b8d-8952-4531d7230e0d"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="27400.139" y="14734.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4793_rc_sa52" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4793_rc_sa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <clone/> <bbox w="80.0" h="40.0" x="23459.06" y="11739.0"/> <glyph class="state variable" id="_baf47fa3-f7d9-459b-9c21-9e0943c3e696"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="23505.145" y="11734.0"/> </glyph> <glyph class="state variable" id="_1b42f051-c2d9-4591-8b6e-d34cb4ad81e0"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="23505.38" y="11774.0"/> </glyph> <glyph class="state variable" id="_ba260460-0dfb-439e-93ff-12afb169e641"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="23460.139" y="11734.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4793_rc_sa4661" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4793_rc_sa4661"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <clone/> <bbox w="80.0" h="40.0" x="21389.06" y="15856.047"/> <glyph class="state variable" id="_c014191c-16bc-421d-a96f-85627d50912e"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="21435.145" y="15851.047"/> </glyph> <glyph class="state variable" id="_f6e99ff5-c0c1-4d13-88ed-415638ef8b8e"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="21435.38" y="15891.047"/> </glyph> <glyph class="state variable" id="_25f5f54e-547f-451b-855f-b98f34cda99f"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="21390.139" y="15851.047"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa522_rc_csa522" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BBC3:IRE1-alpha*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa522_rc_csa522"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRE1*:BBC3"/> <bbox w="100.0" h="150.0" x="25719.06" y="13034.0"/> <glyph class="macromolecule" id="s_id_rc_sa5201_rc_sa5201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>synonym:PUMA</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="80.0" h="40.0" x="25729.06" y="13124.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5202_rc_sa5202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="70.0" x="25729.06" y="13049.0"/> <glyph class="state variable" id="_9e7e3686-ba58-4b8e-a080-2a0742de7280"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25780.629" y="13044.0"/> </glyph> <glyph class="unit of information" id="_b92b6f36-0b43-4e02-b46b-ca00b72746e6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25746.56" y="13044.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa47_wca1_wca4_sa47" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa47_wca1_wca4_sa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR31"/> <clone/> <bbox w="90.0" h="25.0" x="23659.06" y="21406.5"/> <glyph class="unit of information" id="_bfec997f-757a-41d0-b3c5-8f474d62b6c0"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23689.06" y="21401.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa47_emtc_em_sa714" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa47_emtc_em_sa714"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR31"/> <clone/> <bbox w="80.0" h="20.0" x="3757.5" y="17349.334"/> <glyph class="unit of information" id="_595a8f0d-05f7-49dd-a0b4-6aa9d4e56a3c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.5" y="17344.334"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa236_rc_csa236" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAD:GCK:PPP1C*:PRKAC*:WASF1</p> </body> </html> </notes> <label text="BAD_P:WASF1:GCK:PRKAC:PPP1C"/> <bbox w="180.0" h="168.0" x="21909.06" y="12815.0"/> <glyph class="macromolecule" id="s_id_rc_sa1777_rc_sa1777"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WAS protein family, member 1</p> <p>HUGO:WASF1 HGNC:12732 ENTREZ:8936 UNIPROT:Q92558</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="WASF1"/> <bbox w="80.0" h="40.0" x="21917.06" y="12915.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1780_rc_sa1780"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1, catalytic subunit, alpha isozyme</p> <p>HUGO:PPP1CA HGNC:9281 ENTREZ:5499 UNIPROT:P62136 </p> <p>protein phosphatase 1, catalytic subunit, beta isozyme</p> <p>HUGO:PPP1CB HGNC:9282 ENTREZ:5500 UNIPROT:P62140 </p> <p>protein phosphatase 1, catalytic subunit, gamma isozyme</p> <p>HUGO:PPP1CC HGNC:9283 ENTREZ:5501 UNIPROT:P36873</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>catalytic subunit of phosphatase PP1A, PP1c</p> <p>3 genes encode 3 isoforms</p> </body> </html> </notes> <label text="PPP1C*"/> <bbox w="80.0" h="40.0" x="22001.06" y="12871.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1781_rc_sa1781"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, cAMP-dependent, catalytic, alpha</p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 </p> <p>protein kinase, cAMP-dependent, catalytic, beta</p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 </p> <p>protein kinase, cAMP-dependent, catalytic, gamma</p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>There are 3 different genes that code for PKA catalytic subunits</p> </body> </html> </notes> <label text="PRKAC*"/> <bbox w="80.0" h="40.0" x="22001.06" y="12823.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1779_rc_sa1779"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>there are at least 2 isoforms of BAD. Here, protein BAD refers to any of the different isoforms. Numbering of amino-acids, used for phosphorylation sites, are adjusted to the 'canonical' isoform as defined in Uniprot. This lead to choosing different isoforms for different organisms.</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="21917.06" y="12871.0"/> <glyph class="state variable" id="_a30069a8-2c05-4dc7-9316-8ed9056031a4"> <state value="?" variable="S91"/> <bbox w="30.0" h="10.0" x="21959.01" y="12866.0"/> </glyph> <glyph class="state variable" id="_41cc574d-3d1d-4798-b473-29882a342060"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21933.156" y="12866.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1778_rc_sa1778"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glucokinase (hexokinase 4)</p> <p>HUGO:GCK HGNC:4195 ENTREZ:2645 UNIPROT:P35557</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="GCK"/> <bbox w="80.0" h="40.0" x="21915.06" y="12823.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa348_in_csa348" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa348_in_csa348"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16007092"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s902"/> <bbox w="100.0" h="150.0" x="21675.0" y="3885.0"/> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLCF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CLCF1"/> <bbox w="80.0" h="40.0" x="730.0" y="3750.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1341_ad_sa1341" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:CD4</p> <p>CELL:TREG</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p> PMID:8758473</p> <p>TReg cells — as defined by their expression of CD4+/CD25+/FOXP3+ and an ability to suppress the proliferation of CD4+/CD25− cells — express high levels of both CD39 (Ref. 56) and CD73 (Refs 56,57), cell surface ectoenzymes that convert extracellular ATP and ADP to adenosine</p> <p>PMID:17502665 </p> <p>the expression of CD39/ENTPD1 in concert with CD73/ecto-5'-nucleotidase distinguishes CD4(+)/CD25(+)/Foxp3(+) T reg cells from other T cells. These ectoenzymes generate pericellular adenosine from extracellular nucleotides. The coordinated expression of CD39/CD73 on T reg cells and the adenosine A2A receptor on activated T effector cells generates immunosuppressive loops, indicating roles in the inhibitory function of T reg cells.</p> <p>PMID:21292811 </p> <p>CD73-Deficient Mice Have Increased Antitumor Immunity and Are Resistant to Experimental Metastasis</p> <p>Using adoptive reconstitution of T regulatory cell (Treg)-depleted DEREG (depletion of regulatory T cells) mice, we demonstrated that part of the protumorigenic effect of Tregs was dependent on their expression of CD73.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>GLUL is a cytosolic enzyme that catalyzes the condensation of glutamate and ammonia to form glutamine, whereas GLUD1 is found in the mitochondrial matrix and converts glutamate to α-ketoglutarate</p> </body> </html> </notes> <label text="Glutaminolysis"/> <bbox w="100.0" h="25.0" x="20166.56" y="10158.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa823_ad_sa823" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.</p> <p>PMID:10221648</p> <p>c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.</p> <p>The IL-2Rα promoter contains an NF-κB/Rel regulatory element. </p> <p>Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1913_rc_sa1913"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIP1"/> <bbox w="80.0" h="40.0" x="25119.06" y="12919.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa304_akt1_akt2_sa304" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa304_akt1_akt2_sa304"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR214"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR214"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR214"/> <bbox w="90.0" h="25.0" x="12283.561" y="21899.5"/> <glyph class="unit of information" id="_0d590d76-2b90-4674-b225-bf96fcddad93"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="12313.561" y="21894.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5513_rc_sa5513" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C3 toxin*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5513_rc_sa5513"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="C3 toxin*"/> <bbox w="70.0" h="25.0" x="28854.06" y="9206.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2009_in_sa2009" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="FOS"/> <bbox w="90.0" h="25.0" x="10980.625" y="4485.625"/> <glyph class="unit of information" id="_9f2a8bc6-012e-49c2-815c-9145da33a8d5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11015.625" y="4480.625"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_gf1_sa148_gf1_sa148" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p> PMID:24703957</p> <p>PDGFs pathways</p> <p>PMID:25772309 </p> <p>FGFs pathways</p> <p>PMID:28513565</p> <p>EGFR pathways</p> <p> PMID:20388853 </p> <p>IGF1R</p> <p>PMID:23792360 </p> <p>MST1 pathways</p> <p>PMID:28475121</p> <p>HGF/MET</p> <p>PMID:16951216 </p> <p>Vascular Endothelial Growth Factor Signaling Pathways</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa148_gf1_sa148"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24703957"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25772309"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28513565"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20388853"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23792360"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28475121"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16951216"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PI3K_PATHWAY"/> <bbox w="415.0" h="43.0" x="9488.061" y="18648.25"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa49_akt1_akt2_csa49" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*:p21CIP1*</p> </body> </html> </notes> <label text="CDK4_6*:CyclinD*:p21CIP1*"/> <bbox w="103.0" h="161.0" x="13949.061" y="20908.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa285_akt1_akt2_sa285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="13959.061" y="20916.0"/> <glyph class="state variable" id="_6b3fc310-6239-48f8-a5d6-cd7c49195d42"> <state value="P" variable="T286"/> <bbox w="35.0" h="10.0" x="14021.561" y="20911.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa283_akt1_akt2_sa283"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (P21 Cip1)</p> <p>CDKN1</p> <p>HUGO:CDKN1A HGNC:1784 ENTREZ:1026 UNIPROT:P38936 GENECARDS:CDKN1A REACTOME:87048 KEGG:1026 ATLASONC:CDKN1AID139 WIKI:CDKN1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:P21CIP, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <label text="p21CIP1*"/> <bbox w="80.0" h="40.0" x="13960.561" y="21006.0"/> <glyph class="state variable" id="_c0db13cb-f4ee-4ae1-b5f7-f29dff1c7f97"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13953.061" y="21009.508"/> </glyph> <glyph class="state variable" id="_baefdff7-0fdc-4d07-a278-fee6e341b83e"> <state value="" variable="T145"/> <bbox w="30.0" h="10.0" x="13946.053" y="21001.0"/> </glyph> <glyph class="state variable" id="_aa22bce4-af46-4b05-a7e8-1da20fd4a019"> <state value="" variable="T146"/> <bbox w="30.0" h="10.0" x="13985.593" y="21001.0"/> </glyph> <glyph class="state variable" id="_316cf320-97d8-4c85-bee2-bd30bdc1c802"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13955.561" y="21040.72"/> </glyph> <glyph class="state variable" id="_e93bcf28-68bd-4273-9d53-83a9ad1dfd7e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13953.061" y="21014.338"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa284_akt1_akt2_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4 HGNC:1773 ENTREZ:1019 UNIPROT:P11802 GENECARDS:CDK4 REACTOME:68329 KEGG:1019 ATLASONC:CDK4ID238ch12q14 WIKI:CDK4 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6 HGNC:1777 ENTREZ:1021 UNIPROT:Q00534 GENECARDS:CDK6 REACTOME:68335 KEGG:1021 ATLASONC:GC_CDK6 WIKI:CDK6</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="13958.561" y="20960.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa408_rc_csa408" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAXX:HSPB1</p> </body> </html> </notes> <label text="DAXX:HSPB1"/> <bbox w="100.0" h="120.0" x="25091.56" y="16874.0"/> <glyph class="macromolecule" id="s_id_rc_sa3991_rc_sa3991"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-domain associated protein</p> <p>HUGO:DAXX HGNC:2681 ENTREZ:1616 UNIPROT:Q9UER7</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:11003656</p> </body> </html> </notes> <label text="DAXX"/> <bbox w="80.0" h="40.0" x="25101.06" y="16888.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3992_rc_sa3992"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 27kDa protein 1</p> <p>HUGO:HSPB1 HGNC:5246 ENTREZ:3315 UNIPROT:P04792</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>synonym:HSP27PMID:11003656</p> </body> </html> </notes> <label text="HSPB1"/> <bbox w="80.0" h="40.0" x="25101.56" y="16934.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa179_emtc_em_csa179" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JAM1_2_3*:ZO1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="JAM1_2_3*/ZO1*"/> <bbox w="107.0" h="56.0" x="1483.0" y="14893.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1343_emtc_em_sa1343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>JAM1_2_3*</p> <p>F11 receptor</p> <p>HUGO:F11R, HGNC:14685, ENTREZ:50848, UNIPROT:Q9Y624, GENECARDS:GC01M160965 </p> <p>junctional adhesion molecule 2</p> <p>HUGO:JAM2, HGNC:14686, ENTREZ:58494, UNIPROT:P57087, GENECARDS:GC21P027011 </p> <p>junctional adhesion molecule 3</p> <p>HUGO:JAM3, HGNC:15532, ENTREZ:83700, UNIPROT:Q9BX67, GENECARDS:GC11P133972 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="JAM1_2_3*"/> <bbox w="80.0" h="20.0" x="1490.0" y="14895.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1234_emtc_em_sa1234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15558297</p> <p>The localization of ZO-1 at gap junctions serves in part to resolve reports of ZO-1 expression in non-epithelial cells such as fibroblasts that lack tight junctions</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1*"/> <bbox w="40.0" h="16.0" x="1510.0" y="14917.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1810_in_sa1810" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL1A"/> <bbox w="70.0" h="25.0" x="12654.0" y="6577.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa487_ad_sa487" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>, </p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B.</p> <p>MLCK and ROCK phosphorylares RLC</p> <p>PMID:19349987</p> <p>T cell antigen receptor signaling and immunological synapse stability require myosin IIA.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa487_ad_sa487"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa1_wca1_wca4_sa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FERMT2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Kindlin2*"/> <bbox w="80.0" h="40.0" x="23360.06" y="20621.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa519_rc_sa519" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa519_rc_sa519"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKAB2"/> <bbox w="70.0" h="25.0" x="20816.56" y="16371.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa2_wca1_wca2_sa2" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa2_wca1_wca2_sa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DVL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL2"/> <bbox w="80.0" h="40.0" x="23539.31" y="18380.0"/> <glyph class="state variable" id="_d5c91091-d12d-4da4-b97e-a1a06bcbe678"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23614.31" y="18375.0"/> </glyph> <glyph class="state variable" id="_4d17d908-c4c6-48c0-ad53-d5376336273e"> <state value="" variable="S298"/> <bbox w="30.0" h="10.0" x="23524.31" y="18414.72"/> </glyph> <glyph class="state variable" id="_890a9e8f-4fa2-4927-bbd8-65ae321e7abe"> <state value="" variable="S480"/> <bbox w="30.0" h="10.0" x="23524.803" y="18375.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca1_sa721_wca1_wca1_sa721" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re75:(MAP:survival) PMID:17925383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa721_wca1_wca1_sa721"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17925383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell migration"/> <bbox w="80.0" h="30.0" x="21156.06" y="18713.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa421_an_sa421" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: SHC, p66, ShcA</p> <p>HGNC:10840</p> <p>PMID:19449109</p> <p>PMID:16076871</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa421_an_sa421"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16076871"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHC1"/> <bbox w="80.0" h="40.0" x="6832.0" y="6035.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4539_rc_sa4539" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>ChEBI:17154</p> </body> </html> </notes> <label text="Nicotinamide"/> <bbox w="96.0" h="26.0" x="19461.06" y="16806.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa140_emtc_em_csa140" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:LEF1:MIR34*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MIR31/LEF1"/> <bbox w="80.0" h="60.0" x="3610.713" y="18178.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa773_emtc_em_sa773"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34b</p> <p>HUGO:MIR34B, HGNC:31636, ENTREZ:407041, GENECARDS:GC11P111383</p> <p>microRNA 34c</p> <p>HUGO:MIR34C, HGNC:31637, ENTREZ:407042, GENECARDS:GC11P111384</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>PMID:21909380</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR34*"/> <bbox w="75.0" h="20.0" x="3614.713" y="18179.0"/> <glyph class="unit of information" id="_d12c95e3-760b-4a43-9add-67a406233928"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3637.213" y="18174.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa774_emtc_em_sa774"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1, HGNC:6551, ENTREZ:51176, 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1795_emtc_em_sa1795"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24766893"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s2428"/> <bbox w="100.0" h="120.0" x="15347.5" y="2120.0"/> <glyph class="simple chemical" id="s_id_in_sa2155_in_sa2155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cGAMP"/> <bbox w="70.0" h="25.0" x="15362.5" y="2137.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2154_in_sa2154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="STING*"/> <bbox w="80.0" h="40.0" x="15357.5" y="2170.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa38_ce_sa38" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:FIBROBLAST_ACTIVATION_MARKERS References:CASCADE:TGFBPMID:23784029TGFB upregulates FSP1 (S100A4) expression via Smad2 and smad3PMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1, BMP4, IL6, CXCL7, IL6R,IL6ST,CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:FIBROBLAST_ACTIVATION_MARKERS References:CASCADE:TGFBPMID:23784029TGFB upregulates FSP1 (S100A4) expression via Smad2 and smad3PMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa248_emtc_em_sa1440"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <clone/> <bbox w="42.0" h="17.0" x="4568.0" y="14509.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa309_rc_csa309" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CUL4A:DDB1:RBX1:_beta_TRCP*</p> </body> </html> </notes> <label text="rc_s2513"/> <bbox w="176.0" h="116.0" x="25896.738" y="12373.813"/> <glyph class="macromolecule" id="s_id_rc_sa2676_rc_sa2676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>damage-specific DNA binding protein 1, 127kDa</p> <p>HUGO:DDB1 HGNC:2717 ENTREZ:1642 UNIPROT:Q16531</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="DDB1"/> <bbox w="80.0" h="40.0" x="25986.738" y="12423.813"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2673_rc_sa2673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 4A</p> <p>HUGO:CUL4A HGNC:2554 ENTREZ:8451 UNIPROT:Q13619</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="CUL4A"/> <bbox w="80.0" h="40.0" x="25986.738" y="12377.813"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2674_rc_sa2674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="25900.738" y="12379.813"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2675_rc_sa2675"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>beta-transducin repeat containing E3 ubiquitin protein ligase</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 </p> <p>F-box and WD repeat domain containing 11</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>synonym:beta-TrCP1</p> <p>synonym:beta-TrCP2</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="25901.738" y="12426.813"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa118_in_csa118" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa118_in_csa118"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7650486"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10089876"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9973469"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1817"/> <bbox w="100.0" h="120.0" x="14140.0" y="4240.0"/> <glyph class="simple chemical" id="s_id_in_sa734_in_sa734"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="14177.5" y="4307.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa733_in_sa733"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="14150.0" y="4250.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa431_rc_csa431" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PDPK1:PIP3*</p> <p>References:</p> <p>17604717</p> <p>AKT and PDK1 bind to PIP3 at the plasma membrane,</p> </body> </html> </notes> <label text="PIP3*:PDPK1"/> <bbox w="100.0" h="110.0" x="21069.06" y="9294.0"/> <glyph class="macromolecule" id="s_id_rc_sa4195_rc_sa4195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>3-phosphoinositide dependent protein kinase-1</p> <p>HUGO:PDPK1 HGNC:8816 ENTREZ:5170 UNIPROT:O15530</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>synonym:PDK1PMID:17604717</p> </body> </html> </notes> <label text="PDPK1"/> <bbox w="80.0" h="40.0" x="21079.06" y="9344.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4196_rc_sa4196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16618</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17604717</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="21084.06" y="9311.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa104_mpk1_mpk1_csa104" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOS:JUN</p> </body> </html> </notes> <label text="(AP-1*)"/> <bbox w="108.0" h="88.0" x="8958.057" y="20485.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa540_mpk1_mpk1_sa540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FBJ murine osteosarcoma viral oncogene homolog</p> <p>"v-fos FBJ murine osteosarcoma viral oncogene homolog"</p> <p>HUGO:FOS HGNC:3796 ENTREZ:2353 UNIPROT:P01100</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>c-FOS is activated by ERK and RSK through phosphorylation.</p> </body> </html> </notes> <label text="FOS"/> <bbox w="50.0" h="25.0" x="8987.632" y="20519.0"/> <glyph class="state variable" id="_50b20973-72ea-4dc3-8e4e-123b3c9bd93a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8980.132" y="20526.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa535_mpk1_mpk1_sa535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="50.0" h="25.0" x="8988.224" y="20495.334"/> <glyph class="state variable" id="_c1156abf-e553-4e44-89de-f621b3aee7d9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8980.724" y="20502.834"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1483_emtc_em_sa1483" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1483_emtc_em_sa1483"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP5K1B"/> <bbox w="60.0" h="20.0" x="6051.0" y="15092.875"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa199_ad_sa199" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22406983 </p> <p>4-1BB (CD137, TNFRSF9) is a costimulatory receptor expressed on several subsets of activated immune cells. Numerous studies of mouse and human T cells indicate that 4-1BB promotes cellular proliferation, survival, and cytokine production.</p> <p>Targeting of 4-1BB by monoclonal antibody PF-05082566 enhances T-cell function and promotes anti-tumor activity.</p> <p>PF-05082566 enhances IL-2 production by primary human T cells and expansion of antigen-specific CD8+ T cells in vitro.</p> <p>PMID:23758787 </p> <p>4-1BB - TRAF1, 2, 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa199_ad_sa199"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22406983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23758787"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF9"/> <clone/> <bbox w="80.0" h="50.0" x="30896.0" y="2485.0"/> <glyph class="unit of information" id="_172fdfcf-63ed-4646-81ab-39a06853349f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30913.5" y="2480.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa199_ad_sa200" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22406983 </p> <p>4-1BB (CD137, TNFRSF9) is a costimulatory receptor expressed on several subsets of activated immune cells. Numerous studies of mouse and human T cells indicate that 4-1BB promotes cellular proliferation, survival, and cytokine production.</p> <p>Targeting of 4-1BB by monoclonal antibody PF-05082566 enhances T-cell function and promotes anti-tumor activity.</p> <p>PF-05082566 enhances IL-2 production by primary human T cells and expansion of antigen-specific CD8+ T cells in vitro.</p> <p>PMID:23758787 </p> <p>4-1BB - TRAF1, 2, 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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text="RPTOR"/> <bbox w="80.0" h="40.0" x="4655.0" y="9224.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa452_mo_sa452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MTOR</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="4655.0" y="9174.0"/> <glyph class="state variable" id="_a91cd99f-5057-41ef-ad8b-dc36e22ece67"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="4694.449" y="9169.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa451_mo_sa451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MLST8</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="4655.0" y="9124.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1790_rc_sa1790" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1790_rc_sa1790"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24519.06" y="12019.0"/> <glyph class="state variable" id="_bade0eaa-0450-45b2-90e9-3a5aff0cc850"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24532.492" y="12014.0"/> </glyph> <glyph class="state variable" id="_fb7bcdd7-0ee0-464d-b53d-215d7c3d0a95"> <state value="" variable="S87"/> <bbox w="25.0" h="10.0" x="24563.51" y="12014.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa840_ce_sa840" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa840_ce_sa840"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CIP/KIP*"/> <bbox w="70.0" h="25.0" x="15106.769" y="9362.3125"/> </glyph> <glyph class="complex" id="s_id_ce_csa33_ce_csa33" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATM:MRE11*:NBS1*:RAD50</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:17303408, PMID:16163361, PMID:15964794</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa33_ce_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16163361"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15964794"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM/MRE11*/NBS*/RAD50"/> <bbox w="187.0" h="117.0" x="14335.473" y="14489.356"/> <glyph class="macromolecule" id="s_id_ce_sa521_ce_sa521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRE11 meiotic recombination 11 homolog A (S. cerevisiae)</p> <p>HUGO:MRE11A, HGNC:7230, ENTREZ:4361, UNIPROT:P49959</p> <p>MRE11 meiotic recombination 11 homolog B (S. cerevisiae)</p> <p>HUGO:RE11B, HGNC:7231, ENTREZ:4362</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="14430.723" y="14503.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1485_ce_sa1485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="14347.056" y="14547.022"/> <glyph class="state variable" id="_c5db9d1a-41cb-4eb4-944c-1ed916bfffec"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="14329.556" y="14570.206"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa522_ce_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD50 homolog (S. cerevisiae)</p> <p>HUGO:RAD50, HGNC:9816, ENTREZ:10111, UNIPROT:Q92878</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="RAD50"/> <bbox w="80.0" h="40.0" x="14431.723" y="14545.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa520_ce_sa520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia mutated</p> <p>HUGO:ATM, HGNC:795, ENTREZ:472, UNIPROT:Q13315</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>DDR by ATM</p> <p>PMID:23847781</p> <p>PMID:17303408, PMID:16163361, PMID:15964794</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003, PMID:11877377</p> </body> </html> </notes> <label text="ATM"/> <bbox w="80.0" h="40.0" x="14348.689" y="14503.408"/> <glyph class="state variable" id="_a0d1692f-75b4-45be-8e3b-e0e9bf025ede"> <state value="P" variable="S1981"/> <bbox w="40.0" h="10.0" x="14328.689" y="14518.376"/> </glyph> <glyph class="state variable" id="_f7c22697-c793-4d50-b601-9163e778af15"> <state value="P" variable="S1893"/> <bbox w="40.0" h="10.0" x="14328.689" y="14533.939"/> </glyph> <glyph class="state variable" id="_7bc324b9-1ecf-4186-b6d2-4c39a576932d"> <state value="P" variable="S367"/> <bbox w="35.0" h="10.0" x="14345.337" y="14498.408"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa30_wca1_wca3_csa30" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NFKB1_p50*:RELA</p> <p>References:</p> <p>s_wca3_re73:(MAP:survival) PMID:19383900</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa30_wca1_wca3_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19383900"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB1_p50*:RELA"/> <bbox w="100.0" h="120.0" x="22291.06" y="21093.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa214_wca1_wca3_sa214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of kappa light polypeptide gene enhancer in B-cells 1</p> <p>HUGO:NFKB1 HGNC:7794 ENTREZ:4790 UNIPROT:P19838 GENECARDS:NFKB1 REACTOME:57855 KEGG:4790 ATLASONC:NFKB1ID323 WIKI:NFKB1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="22300.06" y="21145.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa213_wca1_wca3_sa213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-rel reticuloendotheliosis viral oncogene homolog A (avian)</p> <p>NFKB3 "nuclear factor of kappa light polypeptide gene enhancer in B-cells 3"</p> <p>HUGO:RELA HGNC:9955 ENTREZ:5970 UNIPROT:Q04206 GENECARDS:RELA REACTOME:65897 KEGG:5970 ATLASONC:RELAID325 WIKI:RELA</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="22300.06" y="21103.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa23_emtc_em_sa23" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation 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</rdf:RDF> </annotation> </extension> <label text="GJB2"/> <bbox w="38.0" h="20.0" x="3002.0" y="16932.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2541_rc_sa2541" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:50277 KEGGCOMPOUND:C00448 CAS:13058-04-3</p> </body> </html> </notes> <label text="farnesyl diphosphate"/> <bbox w="153.0" h="29.0" x="19053.31" y="12817.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa350_akt1_akt1_sa350" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa350_akt1_akt1_sa350"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <clone/> <bbox w="80.0" h="40.0" x="12652.561" y="18913.0"/> <glyph class="state variable" id="_ba983321-f63a-47bf-8a2e-3119f04884a6"> <state value="P" variable="S166"/> <bbox w="35.0" h="10.0" x="12635.061" y="18908.932"/> </glyph> <glyph class="state variable" id="_3816e478-9dbd-46ee-b459-054c79410e3a"> <state value="P" variable="S188"/> <bbox w="35.0" h="10.0" x="12714.442" y="18948.0"/> </glyph> <glyph class="state variable" id="_5b36aba9-cce6-4dc7-b485-94dfadfc32c5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12647.561" y="18918.3"/> </glyph> <glyph class="state variable" id="_bc91f90e-37af-4ea5-8b6e-0f96b716bbb7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12647.561" y="18928.969"/> </glyph> <glyph class="state variable" id="_0e0cd44f-4102-46b2-bdb7-d3ab3f023003"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12647.561" y="18935.264"/> </glyph> <glyph class="state variable" id="_d1344a1b-94fd-470f-bd6b-262e1099f6d0"> <state value="P" variable="S186"/> <bbox w="35.0" h="10.0" x="12715.061" y="18908.99"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa350_akt1_akt2_sa144" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa350_akt1_akt2_sa144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <clone/> <bbox w="80.0" h="40.0" x="13365.061" y="21904.0"/> <glyph class="state variable" id="_23018789-083d-4328-85ca-0080009f73f3"> <state value="P" variable="S166"/> <bbox w="35.0" h="10.0" x="13347.561" y="21899.932"/> </glyph> <glyph class="state variable" id="_38cfce7c-3d5e-45ad-9a75-7500ec330bd1"> <state value="P" variable="S188"/> <bbox w="35.0" h="10.0" x="13426.942" y="21939.0"/> </glyph> <glyph class="state variable" id="_a8330da4-9692-44d6-982c-2db077af62fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13360.061" y="21909.3"/> </glyph> <glyph class="state variable" id="_77beebe5-d4e3-46c0-a11c-ff8cfff73438"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13360.061" y="21919.969"/> </glyph> <glyph class="state variable" id="_cd6335d0-2546-406b-9591-94734c522915"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13360.061" y="21926.264"/> </glyph> <glyph class="state variable" id="_d1bc7d2b-96b3-4e53-a346-3a3f04100ff9"> <state value="P" variable="S186"/> <bbox w="35.0" h="10.0" x="13427.561" y="21899.99"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa11_ce_csa11" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK7:CyclinH*:ERCC1:MNAT1:RPA1:RPA2:RPA3:TFIIH1*:TFIIH2*:TFIIH3*:TFIIH4*:TFIIH5*:XAB2:XPA:XPB*:XPD*:XPF*:XPG*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:FANCONI</p> </body> </html> </notes> <label text="CDK7/CycH*/ERCC1/MNAT1/TFB5*/TFIIH1*/TFIIH2*/TFIIH3*/TFIIH4*/TTDA*/RPA1/RPA2/RPA3/XAB2/XPA/XPB*/XPD*/XPF*/XPG*"/> <bbox w="375.0" h="264.0" x="8080.472" y="16215.356"/> <glyph class="macromolecule" id="s_id_ce_sa1234_ce_sa1234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CyclinH</p> <p>HUGO:CCNH, HGNC:1594, ENTREZ:902, UNIPROT:P51946</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery:</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="CyclinH*"/> <bbox w="80.0" h="40.0" x="8187.235" y="16390.438"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1240_ce_sa1240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 1 (includes overlapping antisense sequence)</p> <p>HUGO:ERCC1, HGNC:3433, ENTREZ:2067, UNIPROT:P07992</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G, PMID:11900249</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="ERCC1"/> <bbox w="80.0" h="40.0" x="8364.729" y="16236.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1230_ce_sa1230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 4, 52kDa</p> <p>HUGO:GTF2H4, HGNC:4658, ENTREZ:2968, UNIPROT:Q92759</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH4*"/> <bbox w="80.0" h="40.0" x="8188.235" y="16347.4375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1242_ce_sa1242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 5</p> <p>HUGO:ERCC5, HGNC:3437, ENTREZ:2073, UNIPROT:P28715</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPG*"/> <bbox w="80.0" h="40.0" x="8365.729" y="16324.646"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1243_ce_sa1243"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="8278.523" y="16387.29"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1224_ce_sa1224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 5</p> <p>HUGO:GTF2H5, HGNC:21157, ENTREZ:404672, UNIPROT:Q6ZYL4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH5*"/> <bbox w="80.0" h="40.0" x="8100.235" y="16306.4375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1232_ce_sa1232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis)</p> <p>HUGO:MNAT1 , HGNC:7181, ENTREZ:4331, UNIPROT:P51948</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G,PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="MNAT1"/> <bbox w="80.0" h="40.0" x="8097.235" y="16345.4375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1241_ce_sa1241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 4</p> <p>HUGO:ERCC4, HGNC:3436, ENTREZ:2072, UNIPROT:Q92889</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:22101340, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XPF*"/> <bbox w="80.0" h="40.0" x="8364.729" y="16279.146"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1225_ce_sa1225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 2</p> <p>HUGO:ERCC2, HGNC:3434, ENTREZ:2068, UNIPROT:P18074</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPD*"/> <bbox w="80.0" h="40.0" x="8100.235" y="16269.1875"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1226_ce_sa1226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pigmentosum group B complementing)</p> <p>HUGO:ERCC3, HGNC:3435, ENTREZ:2071, UNIPROT:P19447</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPB*"/> <bbox w="80.0" h="40.0" x="8098.235" y="16227.9375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1244_ce_sa1244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="8279.185" y="16347.084"/> <glyph class="state variable" id="_23a9ea5c-68a0-4c14-a06c-52661e10391b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8271.685" y="16362.084"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1228_ce_sa1228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 2, 44kDa</p> <p>HUGO:GTF2H2, HGNC:4656, ENTREZ:2966, UNIPROT:Q13888</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH2*"/> <bbox w="80.0" h="40.0" x="8186.235" y="16265.4375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1233_ce_sa1233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 7</p> <p>HUGO:CDK7, HGNC:1778, ENTREZ:1022, UNIPROT:P50613</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> <p>CDK7 participates in basal transcription by phosphorylating the carboxy-terminal domain of the largest subunit of RNA polymerase II</p> </body> </html> </notes> <label text="CDK7"/> <bbox w="80.0" h="40.0" x="8098.235" y="16388.438"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1227_ce_sa1227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 1, 62kDa</p> <p>HUGO:GTF2H1, HGNC:4655, ENTREZ:HGNC:2965, UNIPROT:P32780</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH1*"/> <bbox w="80.0" h="40.0" x="8186.235" y="16230.4375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1246_ce_sa1246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>xeroderma pigmentosum, complementation group A</p> <p>HUGO:XPA, HGNC:12814, ENTREZ:7507, UNIPROT:P23025</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470 PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPA"/> <bbox w="80.0" h="40.0" x="8275.934" y="16271.575"/> <glyph class="state variable" id="_03951824-020a-4193-ae4d-5bc46af5a7bc"> <state value="P" variable="S196"/> <bbox w="35.0" h="10.0" x="8258.434" y="16278.082"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1247_ce_sa1247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XPA binding protein 2</p> <p>HUGO:XAB2, HGNC:14089, ENTREZ:56949, UNIPROT:Q9HCS7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XAB2"/> <bbox w="80.0" h="40.0" x="8275.112" y="16233.004"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1229_ce_sa1229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 3, 34kDa</p> <p>HUGO:GTF2H3, HGNC:4657, ENTREZ:2967, UNIPROT:Q13889</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH3*"/> <bbox w="80.0" h="40.0" x="8187.235" y="16305.4375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1245_ce_sa1245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="8279.523" y="16313.29"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa34_mo_csa34" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <label text="RHEB:GTP"/> <bbox w="100.0" h="120.0" x="4166.125" y="9427.5"/> <glyph class="macromolecule" id="s_id_mo_sa449_mo_sa449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RHEB</p> </body> </html> </notes> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="4176.125" y="9437.5"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa450_mo_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="4181.125" y="9485.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa383_rc_csa383" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TNFRSF11B:TRAIL*</p> </body> </html> </notes> <label text="rc_s5081"/> <bbox w="100.0" h="120.0" x="23309.06" y="9099.0"/> <glyph class="macromolecule" id="s_id_rc_sa3815_rc_sa3815"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="23319.06" y="9109.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3816_rc_sa3816"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily, member 11b</p> <p>HUGO:TNFRSF11B HGNC:11909 ENTREZ:4982 UNIPROT:O00300</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>tumor necrosis factor receptor superfamily, member 11b</p> <p>PMID:20531300</p> <p>Also known as osteoprotegrin, OPG</p> </body> </html> </notes> <label text="TNFRSF11B"/> <bbox w="80.0" h="40.0" x="23319.06" y="9149.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa264_in_csa264" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa264_in_csa264"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24766893"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10521409"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15145317"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18802069"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKK complex"/> <bbox w="100.0" h="164.0" x="21155.0" y="3028.0"/> <glyph class="macromolecule" id="s_id_in_sa2021_in_sa2021"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>(ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="21163.0" y="3035.0"/> <glyph class="state variable" id="_7e7b1915-ae6f-4664-87be-8e26ef4464f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21238.0" y="3050.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2136_in_sa2136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17485448</p> <p>TNIP3 (ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <p>of downstream NFkB signaling downstream of IL10.</p> <p>PMID:22435554, PMID:15485931, PMID:21217011, PMID:15199157</p> <p>Agonist stimulation induces IKK2, a catalytic subunit of the IKK complex, to phosphorylate p105. These phosphorylations</p> <p> create a binding site for the ubiquitin E3 ligase complex SCF-bTrCP which catalyzes K48-linked polyubiquitination of p105, followed by its proteasomal</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="21165.0" y="3080.0"/> <glyph class="state variable" id="_155a261c-441a-4349-a4ee-346b8d90f511"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21160.0" y="3095.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2137_in_sa2137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17485448</p> <p>TNIP3 (ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <p>of downstream NFkB signaling downstream of IL10.</p> <p>PMID:17237376, PMID:21807870</p> <p>Alternative pathways involeved IKKa activation by NIK. This signaling is important for DC maturation and T-cell activation (). NIK signaling is required in DCs to deliver co-stimulatory signals to CD4+ T cells</p> <p>PMID:23086447</p> <p>Alternative NFkB pathway induces via phosphorylation of IkB-specific kinase a (IKK-a) the cleavage of p100-RelB to p52-RelB, which then translocates as heterodimer into the nucleus.</p> <p>Both complete p100 degradation and p100 processing to p52 may occur in Dcs and expression of IKKa, the kinase determining the activity of noncanonical NF-kB pathway, gradually increased during DC differentiation with concomitant p100 processing to p52</p> <p>PMID:2649237</p> <p>In macrophages RELB /p52 pathway is associated with M1 polarization</p> <p>PMID:23422957</p> <p>IKKa could regulate IRF3 activity and IRF3-dependent IFNB and IL-12 production by DC. TAK1 (MAP3K7)-mediated IKKa/B activation is required for IRF3-dependent IFNB expression in DC. At the same time IKKa regulates IRF3-mediated transcription downstream of IKKe/TBK1mediated IRF3 phosphorylation. IKKa increases the association of IRF3 with the transcriptional co-activator CBP. The increased recruitment of CBP after overexpression of IKKa was also associated with increased transcription of endogenous IFNB mRNA.</p> <p>PMID:17254973</p> <p>NfkB heterodiners could be also bloked by p52 precursor, protein p100. Dissosiation of p100 from the comprex reactivate NF-kB signaling</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IKKα*"/> <bbox w="80.0" h="40.0" x="21166.0" y="3125.0"/> <glyph class="state variable" id="_588ee044-184c-4c21-89b0-b8c8f6218454"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21161.0" y="3140.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa246_ca_sa246" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa246_ca_sa246"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD3"/> <bbox w="80.0" h="40.0" x="3920.0" y="1705.0"/> <glyph class="state variable" id="_c0d03ee7-6672-49bb-a0da-d60b65906e1f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3912.5" y="1720.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa128_ad_csa128" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5365"/> <bbox w="100.0" h="120.0" x="28076.0" y="3860.0"/> <glyph class="simple chemical" id="s_id_ad_sa1059_ad_sa1059"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11062502, PMID:11385609, PMID:11907067, PMID:15536084</p> <p>Nkp46 controls NK cytolitic activity via PI3K /RAC1/PAK1/MEK /ERK pathway, probably throught SYK </p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway (PMID:11777960</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="28091.0" y="3867.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa682_ad_sa682"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ITK</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:25137453 </p> <p>Once bound to phosphorylated Lat molecules via GRAP2, SLP-76 is phosphorylated by Zap70 and recruits the Tec-family tyrosine kinase Itk. In turn, Itk phosphorylates PLC-γ1 and enhances its enzymatic activity</p> <p>PMID:12186560</p> <p>Phosphorylation of the linker for activation of T-cells by Itk promotes recruitment of Vav.</p> <p>PMID:15661896</p> <p>Kinase-Independent Functions for Itk in TCR-Induced Regulation of Vav and the Actin Cytoskeleton</p> <p> Itk is constitutively associated with Vav. Loss of Itk expression did not alter gross patterns of Vav tyrosine phosphorylation but appeared to disrupt the interactions of Vav with SLP-76.</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. 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compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa128_wca1_wca3_sa128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NLK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLK"/> <bbox w="80.0" h="40.0" x="21676.06" y="20833.232"/> <glyph class="state variable" id="_111b56e2-544d-4a64-9f0b-7cd9116d545d"> <state value="" variable="T286"/> <bbox w="30.0" h="10.0" 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<rdf:Description rdf:about="#s_id_wca1_wca3_csa44_wca1_wca3_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15525529"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12681518"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:CTBP*"/> <bbox w="100.0" h="120.0" x="21312.06" y="21757.0"/> <glyph class="macromolecule multimer" id="s_id_wca1_wca3_sa289_wca1_wca3_sa289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 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y="21769.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5523_rc_sa5523" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5523_rc_sa5523"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRPC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRPC1"/> <bbox w="80.0" h="50.0" x="28079.06" y="10104.0"/> <glyph class="unit of information" id="_07e089c6-06f9-479d-95e4-cdfb4da91b05"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28096.56" y="10099.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2414_rc_sa2414" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2414_rc_sa2414"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ESRRA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ESRRA"/> <bbox w="80.0" h="40.0" x="19951.56" y="16424.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa41_shh1_shh2_csa41" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FUS:MIR378</p> </body> </html> </notes> <label text="miR-378_FUS1"/> <bbox w="100.0" h="120.0" x="27884.06" y="21789.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa282_shh1_shh2_sa282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FUS1</p> <p>HUGO:FUS HGNC:4010 ENTREZ:2521 UNIPROT:P35637 GENECARDS:FUS REACTOME:55036 KEGG:2521 ATLASONC:FUSID44 WIKI:FUS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17533367</p> <p>FUS1</p> <p>HUGO:FUS HGNC:4010 ENTREZ:2521 UNIPROT:P35637 GENECARDS:FUS 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compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CORE References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CORE References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa769_ca_sa769"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ETS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847259"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ETS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847259"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ETS2"/> <bbox w="70.0" h="25.0" x="3845.0" y="3437.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa751_ad_sa751" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:SMAC, MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves.</p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:12218089</p> <p>Fyn is essential for tyrosine phosphorylation of Csk-binding protein/phosphoprotein associated with glycolipid-enriched microdomains in lipid rafts in resting T cells</p> <p>PMID:10648627 </p> <p>Fyn was able to induce tyrosine phosphorylation of the TCR and recruitment of the ZAP-70 kinase, but the pattern of TCR phosphorylation was altered and activation of ZAP-70 was defective.</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> <p>Fyn might trigger the switch of Tim-3 function from being permissive to TCR signaling to inhibition of upstream TCR signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa751_ad_sa751"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FYN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19290918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12218089"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648627"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192565"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22863785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21807895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FYN"/> <clone/> <bbox w="80.0" h="40.0" x="27996.0" y="2685.0"/> <glyph class="state variable" id="_e1c60fe2-f565-4553-af0e-2f2d142461e3"> <state value="P" variable="Y528"/> <bbox w="35.0" h="10.0" x="27981.945" y="2680.0"/> </glyph> <glyph class="state variable" id="_97867d68-0e80-449f-836b-2fd49b7f3ed1"> <state value="" variable="Y417"/> <bbox w="30.0" h="10.0" x="28061.0" y="2718.2295"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa751_ad_sa1008" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:SMAC, MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves.</p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:12218089</p> <p>Fyn is essential for tyrosine phosphorylation of Csk-binding protein/phosphoprotein associated with glycolipid-enriched microdomains in lipid rafts in resting T cells</p> <p>PMID:10648627 </p> <p>Fyn was able to induce tyrosine phosphorylation of the TCR and recruitment of the ZAP-70 kinase, but the pattern of TCR phosphorylation was altered and activation of ZAP-70 was defective.</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>Fyn and Bat3 bind to the same domain in 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y="6637.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa95_mo_sa95" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Actin polymerisation"/> <bbox w="135.0" h="36.0" x="5755.0" y="9865.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa65_emtc_em_csa65" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD3:SMAD4:SP1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SMAD3 homodimer/SMAD4/SP1"/> <bbox w="190.0" h="112.0" x="3619.5" y="15863.125"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa522_emtc_em_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3, 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transcription factor</p> <p>HUGO:SP1, HGNC:11205, ENTREZ:6667, GENECARDS:GC12P053801, UNIPROT:P08047</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11013220</p> <p>Cooperation and physical interaction of Smad2, Smad3, Smad4 with SP1 at the promoter of CDKN2B (p15INK4B) gene</p> <p>This interaction provides a mechanism underlying the TGFB-induced growth arrest</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SP1"/> <bbox w="40.0" h="20.0" x="3675.5" y="15865.0"/> <glyph class="state variable" id="_fb58ac2d-0171-4eec-bdf4-b3fd60175129"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3670.5" y="15870.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa523_emtc_em_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="3718.75" y="15865.125"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa8_wca1_wca4_csa8" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD7:MIR23B</p> <p>References:</p> <p>s_wca4_re18:(MAP:survival) PMID:22833265</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa8_wca1_wca4_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22833265"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD7:MIR23B"/> <bbox w="100.0" h="91.0" x="23821.06" y="21171.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa36_wca1_wca4_sa36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 7</p> <p>"frizzled (Drosophila) homolog 7" "frizzled 7 seven transmembrane spanning receptor" "frizzled homolog 7 (Drosophila)"</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>frizzled family receptor 7</p> <p>"frizzled (Drosophila) homolog 7" "frizzled 7 seven transmembrane spanning receptor" "frizzled homolog 7 (Drosophila)"</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7</p> <p>Map modules:</p> </body> </html> </notes> <label text="FZD7"/> <bbox w="90.0" h="25.0" x="23824.06" y="21185.0"/> <glyph class="unit of information" id="_9e4db122-1802-44f1-a5a9-d5c19ab07971"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23859.06" y="21180.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa37_wca1_wca4_sa37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 23b</p> <p>MIRN23B</p> <p>HUGO:MIR23B HGNC:31606 ENTREZ:407011 GENECARDS:MIR23B KEGG:407011 ATLASONC:GC_MIR23B WIKI:MIR23B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:WNT_CANONICAL, MAP:apoptosis / MODULE:APOPTOSIS_GENES</p> <p>microRNA 23b</p> <p>MIRN23B</p> <p>HUGO:MIR23B HGNC:31606 ENTREZ:407011 GENECARDS:MIR23B KEGG:407011 ATLASONC:GC_MIR23B WIKI:MIR23B</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR23B"/> <bbox w="90.0" h="25.0" x="23824.06" y="21213.0"/> <glyph class="unit of information" id="_97b5f93d-6e7e-4b3c-9347-426c5c804a0e"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23854.06" y="21208.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa90_ca_csa90" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:GDP:RAC1_2*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:PDGF, CASCADE:CAV</p> <p>CASCAFE:EGF</p> </body> </html> </notes> <label text="ca_s94"/> <bbox w="100.0" h="110.0" x="5779.0" y="3034.0"/> <glyph class="simple chemical" id="s_id_ca_sa763_ca_sa763"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="63.0" h="27.0" x="5797.75" y="3090.875"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa764_ca_sa764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rac family small GTPase 1</p> <p>HUGO:RAC1 hgnc_id:HGNC:9801 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 </p> <p>Rac family small GTPase 2</p> <p>HUGO:RAC2 hgnc_id:HGNC:9802 HGNC:9802 ENTREZ:5880 UNIPROT:P15153</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:PDGF, CASCADE:CAV</p> <p>CASCAFE:EGF</p> <p>PMID:17517963 </p> <p>caveolin-deficient MEFs showed a notable decrease in basal Rho activity and a significant increase in Rac and Cdc42 activity</p> <p>PMID:11747822</p> <p>Rac and Cdc42 are capable of inducing phosphorylation of Akt and that PDGF induces phosphorylation of Akt at least in part through Rac in fibroblasts.</p> <p>Expression of Rac V12 or Cdc42 V12 stimulated cell motility Figure 2 and Figure 3[14]. Coexpression of dominant-negative Akt suppressed cell motility stimulated by active Rac and Cdc42 to the basal levels (Figure 2d), suggesting that Akt is an essential downstream effector of Rac and Cdc42 in stimulating cell motility</p> <p>PMID:18423981 </p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>EGF down-regulated Rho-GTP levels in fibroblasts, giving permissive signals for Rac1 activation, fibroblast polarization, and invasion.</p> <p>PMID:21178402</p> <p> RhoA was thought to be activated mainly at the retracting tail (red) to promote tail contraction, while Rac1 was thought to be activated at the front of the cell to promote lamellipodial protrusion.</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="5789.0" y="3039.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa592_rc_sa592" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa592_rc_sa592"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR93"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR93"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR93"/> <bbox w="90.0" h="25.0" x="21734.32" y="15642.098"/> <glyph class="unit of information" id="_f49ec620-2995-4fff-8bec-c96958c80f03"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21764.32" y="15637.098"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa29_akt1_akt1_csa29" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> <p>References:</p> <p>s_akt1_re54(MAP:survival):</p> <p>PMID:10702316</p> <p>PMID:19244117</p> <p>s_akt1_re55(MAP:survival):</p> <p>PMID:19864431</p> <p>PMID:12150925</p> <p>PMID:15755954</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa29_akt1_akt1_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10702316"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19244117"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19864431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12150925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15755954"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="166.0" h="245.0" x="13905.4" y="19063.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa171_akt1_akt1_sa171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="150.0" h="53.0" x="13913.9" y="19160.5"/> <glyph class="state variable" id="_e189be52-d335-4669-9ce1-0f3b3da9c6a2"> <state value="" variable="S696"/> <bbox w="30.0" h="10.0" x="13898.9" y="19181.957"/> </glyph> <glyph class="state variable" id="_d4c7291e-d279-43ed-a623-341d512536f9"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="14005.681" y="19155.5"/> </glyph> <glyph class="state variable" id="_12cfec6e-b6f2-4ac3-a495-3b6d6a707dae"> <state value="" variable="S863"/> <bbox w="30.0" h="10.0" x="14005.398" y="19208.5"/> </glyph> <glyph class="state variable" id="_df92cf0b-1ca7-4726-945e-bd353e385e58"> <state value="" variable="S877"/> <bbox w="30.0" h="10.0" x="13938.373" y="19208.5"/> </glyph> <glyph class="state variable" id="_2437b41c-63f5-4b9d-a1a6-d5544607ea54"> <state value="" variable="S859"/> <bbox w="30.0" h="10.0" x="14048.9" y="19179.074"/> </glyph> <glyph class="state variable" id="_ade4c645-811a-4654-a033-2f507ce869f4"> <state value="" variable="T706"/> <bbox w="30.0" h="10.0" x="13935.878" y="19155.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa169_akt1_akt1_sa169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="150.0" h="44.0" x="13912.4" y="19073.0"/> <glyph class="state variable" id="_0729ddce-1211-45ad-be0f-8d03adf2dbf1"> <state value="" variable="S183"/> <bbox w="30.0" h="10.0" x="13898.324" y="19068.0"/> </glyph> <glyph class="state variable" id="_cbbf022a-3f2a-461c-9340-29424afedc7f"> <state value="" variable="S212"/> <bbox w="30.0" h="10.0" x="14047.4" y="19069.092"/> </glyph> <glyph class="state variable" id="_2ce96d2c-b599-4b30-81cf-e9a0fe4b54be"> <state value="" variable="S221"/> <bbox w="30.0" h="10.0" x="14047.4" y="19111.043"/> </glyph> <glyph class="state variable" id="_b084c207-ba7b-46e2-b40e-4a1d15f3b5a1"> <state value="" variable="T246"/> <bbox w="30.0" h="10.0" x="13897.4" y="19107.734"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa172_akt1_akt1_sa172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="152.0" h="62.0" x="13909.9" y="19223.0"/> <glyph class="state variable" id="_3fc1d154-cb24-4939-a66d-ef57e86741e4"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="13896.616" y="19218.0"/> </glyph> <glyph class="state variable" id="_5dbb907d-9397-4432-ba04-1b18004d1d21"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="13889.9" y="19278.371"/> </glyph> <glyph class="state variable" id="_c21c2d75-3c8c-4080-a126-b265d4eaa949"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="14037.906" y="19218.0"/> </glyph> <glyph class="state variable" id="_df22b2bc-b607-4781-8979-c2ea9fc556df"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="13894.9" y="19249.0"/> </glyph> <glyph class="state variable" id="_d01278f4-299b-48cd-b21c-c20ba73e4912"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="14043.226" y="19280.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa522_akt1_akt1_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="13985.561" y="19118.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa170_akt1_akt1_sa170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="13912.9" y="19119.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1887_rc_sa1887" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1887_rc_sa1887"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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rdf:about="#s_id_rc_sa1637_rc_sa1637"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L2"/> <bbox w="80.0" h="40.0" x="22959.06" y="13439.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2610_in_sa2610" compartmentRef="s_id_in_ca12_in_ca12"> <label text="α-Catenin*"/> <bbox w="80.0" h="40.0" x="10780.0" y="3550.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3106_rc_sa3106" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3106_rc_sa3106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SFN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SFN"/> <bbox w="80.0" h="40.0" x="25207.06" y="13965.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1071_in_sa1071" compartmentRef="s_id_in_ca12_in_ca12"> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="9590.0" y="2865.0"/> <glyph class="state variable" id="_8b10ca23-c97e-435e-b6f0-f10b13d6f1b1"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="9652.5" y="2862.541"/> </glyph> <glyph class="unit of information" id="_7790bf5f-f9dd-4f92-8b14-b0cffe48d5ba"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9607.5" y="2860.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa144_ad_csa144" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5622"/> <bbox w="110.0" h="180.0" x="26821.0" y="2860.0"/> <glyph class="macromolecule" id="s_id_ad_sa1209_ad_sa1209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:PD1</p> <p>HUGO:PTPN11</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:11572860</p> <p>Gab2 is phosphorylated by ZAP-70, is associated with the TCR signaling complex, and acts as an inhibitory adaptor molecule via recruitment of SHP-2 upon TCR engagement</p> <p> CD247 chain has been reported to be a substrate of SHP-2 in T cells (12), we examined the phosphorylation levels of CD267 in these lines after TCR engagement by immunoprecipitation with anti-CD247 mAb,followed by blotting with anti-PY mAb. As shown in Fig. 3 D, the phosphorylation levels of theCD247 chain were attenuated by Gab2(WT) expression but not by Gab2(Y614F). Therefore, the inhibitory function of Gab2 is mediated, at least in part, through SHP-2-dependent dephosphorylation of the CD247 chain.</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> </body> </html> </notes> <label text="PTPN11"/> <bbox w="80.0" h="40.0" x="26831.0" y="2970.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa187_ad_sa187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>HUGO:PDCD1</p> <p>CASCADE:PD1, CASCADE:TCR</p> <p>PMID:27806234 </p> <p>REW</p> <p>PMID:22437870</p> <p>PMID:26885856</p> <p> GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> <p>SHP-2 is recruited to the PD-1 cytoplasmic tail in absence of receptor ligation</p> <p>ITSM of PD-1 does not recruit SH2D1A</p> <p>PMID:23732914 </p> <p>PD-1 Increases PTEN Phosphatase Activity While Decreasing PTEN Protein Stability by Inhibiting Casein Kinase 2</p> <p>PMID:28893624</p> <p>Frequencies of PD-1+ TIGIT+ CD226− CD8+ T cells are increased in AML patients and correlate with poor clinical prognosis.</p> <p>PMID:17371980</p> </body> </html> </notes> <label text="PDCD1"/> <bbox w="80.0" h="50.0" x="26831.0" y="2875.0"/> <glyph class="unit of information" id="_b9ea7483-b421-4c6d-a416-a316a170a591"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26848.5" y="2870.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1210_ad_sa1210"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:PD1</p> <p>HUGO:PTPN6</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> </body> </html> </notes> <label text="PTPN6"/> <bbox w="80.0" h="40.0" x="26831.0" y="2930.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2455_emtc_em_sa2455" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2455_emtc_em_sa2455"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLCG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLCG2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLCγ*"/> <bbox w="49.0" h="18.0" x="3727.0" y="18366.5"/> <glyph class="state variable" id="_355d8077-fa7e-464a-a9d9-4d4622a1d913"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3747.0095" y="18361.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa532_ca_sa532" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa532_ca_sa532"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYD88"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYD88"/> <bbox w="80.0" h="40.0" x="1840.0" y="1330.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2824_in_sa2824" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD33"/> <bbox w="80.0" h="40.0" x="9351.156" y="538.03125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2550_emtc_em_sa2550" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:CK1_gamma_*:FZD*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa68_wca1_wca1_csa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="336.0" h="198.0" x="21869.936" y="19829.75"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa677_wca1_wca1_sa678"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22065.186" y="19849.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa668_wca1_wca1_sa668"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21957.936" y="19970.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa666_wca1_wca1_sa664"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21876.436" y="19910.25"/> <glyph class="unit of information" id="_fcd5cba9-f339-4f5d-805c-cb1d733c8961"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21893.936" y="19905.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa674_wca1_wca1_sa674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22122.686" y="19958.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa675_wca1_wca1_sa676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22118.686" y="19869.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa675_wca1_wca1_sa675"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21956.686" y="19869.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa669_wca1_wca1_sa669"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22000.936" y="19970.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa670_wca1_wca1_sa671"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22037.436" y="19867.25"/> <glyph class="state variable" id="_3b34b869-16ab-484e-b0e8-2cb6c57b288c"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22017.436" y="19887.21"/> </glyph> <glyph class="state variable" id="_fa3c53ab-3735-4aac-b953-730f9b435f0f"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22097.436" y="19862.516"/> </glyph> <glyph class="state variable" id="_b1a255d4-1a16-4592-9127-5cf40c7a77fd"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22096.816" y="19912.25"/> </glyph> <glyph class="state variable" id="_5a2c4325-60d7-4d50-b64b-a433ad0256ec"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="22056.54" y="19912.25"/> </glyph> <glyph class="state variable" id="_eba60a69-6c42-43d6-8121-f7727ef3fb34"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="22017.676" y="19912.25"/> </glyph> <glyph class="state variable" id="_46ba8a9c-f736-469c-91db-9e564272bf8e"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22057.467" y="19862.25"/> </glyph> <glyph class="unit of information" id="_5a1223c1-c135-4caa-9ede-24ebcbeacef8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22054.936" y="19862.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa679_wca1_wca1_sa679"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21889.367" y="19965.84"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa677_wca1_wca1_sa677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21895.186" y="19849.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa670_wca1_wca1_sa670"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21876.436" y="19866.25"/> <glyph class="state variable" id="_76aaac8a-50f8-4a3b-9c3e-cd3721d36c2e"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21856.436" y="19886.21"/> </glyph> <glyph class="state 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</glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa673_wca1_wca1_sa672"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22118.686" y="19911.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa673_wca1_wca1_sa673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21957.686" y="19909.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa666_wca1_wca1_sa666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22037.436" y="19911.25"/> <glyph class="unit of information" id="_5a47b16a-5708-4922-b3ab-bf8c8e647662"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22054.936" y="19906.25"/> </glyph> </glyph> </glyph> 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y="18954.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa596_mpk1_mpk1_sa596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor type I</p> <p>IL1R IL1RA</p> <p>HUGO:IL1R1 HGNC:5993 ENTREZ:3554 UNIPROT:P14778</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>IL-1 likely requires TRAF6 to signal to the SAPKs. IL-1 binding to its receptor (IL-1R) triggers heterodimerisation of IL-1R with IL-1RAcP (not modelled) a transmembrane protein necessary for IL-1 signal transduction. The IL-1R/IL-1RAcP heterodimer then recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="IL1R1"/> <bbox w="50.0" h="25.0" x="10538.515" y="18963.0"/> <glyph class="unit of information" id="_3538c15f-2f93-43ff-94ee-4d292cc46352"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10541.015" y="18958.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa445_mpk1_mpk1_sa445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid differentiation primary response 88</p> <p>"myeloid differentiation primary response gene (88)"</p> <p>HUGO:MYD88 HGNC:7562 ENTREZ:4615 UNIPROT:Q99836</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>The IL-1R/IL-1RAcP heterodimer recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="MYD88"/> <bbox w="59.0" h="24.0" x="10533.557" y="18985.0"/> 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x="3950.0" y="14949.5"/> <glyph class="unit of information" id="_9b108266-4a9a-4b56-ba18-17bcbc67e816"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3973.5" y="14944.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5_rc_sa5" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5_rc_sa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HTRA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HTRA2"/> <bbox w="80.0" h="40.0" x="21414.008" y="12889.569"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa1978_em_sa1978" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:12447393</p> <p>Activation of (activated) ARF6 is required for dynamin-dependent endocytosis of E-cadherin.</p> <p>Nm23-H1 binds ARF6-GTP and mediates dynamin-dependent vesicle fission.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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rdf:about="#s_id_em_sa1978_em_sa1991"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12447393"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARF6"/> <clone/> <bbox w="80.0" h="40.0" x="1829.0" y="12765.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2427_in_sa2427" compartmentRef="s_id_in_ca15_in_ca15"> <label text="CTSS"/> <clone/> <bbox w="80.0" h="40.0" x="20510.0" y="6330.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2427_in_sa44" compartmentRef="s_id_in_ca15_in_ca15"> <label text="CTSS"/> <clone/> <bbox w="80.0" h="40.0" x="20513.125" y="6417.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1226_ad_sa1226" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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compartmentRef="s_id_emtc_em_ca33_emtc_em_ca33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SARA*:SMAD3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SARA*/SMAD3"/> <bbox w="115.0" h="92.0" x="6252.0" y="16514.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa410_emtc_em_sa410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD3"/> <bbox w="111.0" h="46.0" x="6256.0" y="16536.5"/> <glyph class="state variable" 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class="nucleic acid feature" id="s_id_wca1_wca3_sa172_wca1_wca3_sa172" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa172_wca1_wca3_sa172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34C"/> <bbox w="70.0" h="25.0" x="20823.06" y="22302.928"/> </glyph> <glyph class="complex" id="s_id_ce_csa56_ce_csa56" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:SMC5:SMC6</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="SMC5/SMC6"/> <bbox w="100.0" h="120.0" x="14413.473" y="14215.356"/> <glyph class="macromolecule" id="s_id_ce_sa621_ce_sa621"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>structural maintenance of chromosomes 5</p> <p>HUGO:SMC5, HGNC:20465, ENTREZ:23137, UNIPROT:Q8IY18</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="SMC5"/> <bbox w="80.0" h="40.0" x="14419.363" y="14226.038"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa622_ce_sa622"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>structural maintenance of chromosomes 6</p> <p>HUGO:SMC6, HGNC:20466, ENTREZ:79677, UNIPROT:Q96SB8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="SMC6"/> <bbox w="80.0" h="40.0" x="14419.363" y="14267.038"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa21_ce_csa21" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ERCC1:XPF*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:A_NHEJ, MODULE:FANCONI</p> <p>References:</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa21_ce_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERCC1/XPF*"/> <bbox w="100.0" h="120.0" x="13831.473" y="16081.356"/> <glyph class="macromolecule" id="s_id_ce_sa474_ce_sa474"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 1 (includes overlapping antisense sequence)</p> <p>HUGO:ERCC1, HGNC:3433, ENTREZ:2067, UNIPROT:P07992</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G, PMID:11900249</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="ERCC1"/> <bbox w="80.0" h="40.0" x="13840.473" y="16088.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa475_ce_sa475"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 4</p> <p>HUGO:ERCC4, HGNC:3436, ENTREZ:2072, UNIPROT:Q92889</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:22101340, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XPF*"/> <bbox w="80.0" h="40.0" x="13843.473" y="16132.856"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc1_sa653_wnc1_wnc1_sa653" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="Cell death"/> <bbox w="80.0" h="30.0" x="15950.061" y="18465.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa762_ad_sa762" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa762_ad_sa762"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1/2*"/> <bbox w="80.0" h="40.0" x="27189.244" y="5633.5"/> <glyph class="state variable" id="_0fc00e89-4bfd-4455-8469-e4e59b68b991"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27181.744" y="5648.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa32_mo_sa32" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>glycogen synthase kinase 3 alpha</p> <p>glycogen synthase kinase 3 beta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa32_mo_sa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="80.0" h="40.0" x="2947.0" y="9779.0"/> <glyph class="state variable" id="_499f3bfb-00ed-4353-bb77-516877651180"> <state value="P" variable="Ser9"/> <bbox w="35.0" h="10.0" x="3009.5" y="9802.296"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa32_shh1_shh1_sa294" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>glycogen synthase kinase 3 alpha</p> <p>glycogen synthase kinase 3 beta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa32_shh1_shh1_sa294"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="80.0" h="40.0" x="26680.56" y="18237.0"/> <glyph class="state variable" id="_3fec717c-8e0a-4914-b9c7-73c5382fd336"> <state value="P" variable="Ser9"/> <bbox w="35.0" h="10.0" x="26743.06" y="18260.295"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa32_rc_sa1004" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>glycogen synthase kinase 3 alpha</p> <p>glycogen synthase kinase 3 beta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa32_rc_sa1004"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="80.0" h="40.0" x="25410.56" y="10806.0"/> <glyph class="state variable" id="_e25ff324-6703-4b21-9d6a-03a10273c6ea"> <state value="P" variable="Ser9"/> <bbox w="35.0" h="10.0" x="25473.06" y="10829.296"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa1322_rc_sa1322" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="rc_s1409"/> <bbox w="30.0" h="30.0" x="21516.56" y="16619.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5489_rc_sa5489" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TcdB cytotxin*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5489_rc_sa5489"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TcdB cytotxin*"/> <bbox w="70.0" h="25.0" x="29404.06" y="9206.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa119_emtc_em_csa119" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:JAG1:MIR200*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa119_emtc_em_csa119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21224848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR200/JAG1"/> <bbox w="80.0" h="60.0" x="2486.5" y="17818.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa732_emtc_em_sa732"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 200a</p> <p>HUGO:MIR200A, HGNC:31578, ENTREZ:406983, GENECARDS:GC01P001101 </p> <p>microRNA 200b</p> <p>HUGO:MIR200B, HGNC:31579, ENTREZ:406984, GENECARDS:GC01P001100 </p> <p>microRNA 200c</p> <p>HUGO:MIR200C, HGNC:31580, ENTREZ:406985, GENECARDS:GC12P007072</p> <p>microRNA 141</p> <p>HUGO:MIR141, HGNC:31528, ENTREZ:406933, GENECARDS:GC12P007073 </p> <p>microRNA 429</p> <p>HUGO:MIR429, HGNC:13784, ENTREZ:554210, GENECARDS:GC01P001109</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21336307</p> <p>PMID:22370643</p> <p>Regulation of BMI1 and JAG1</p> <p>PMID:21224848</p> <p>Feedback loops</p> <p>PMID:225147423</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR200*"/> <bbox w="75.0" h="20.0" x="2490.5" y="17819.0"/> <glyph class="unit of information" id="_1597ac7c-f2f4-4b84-8296-406b35756fd7"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2513.0" y="17814.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa731_emtc_em_sa731"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>jagged 1</p> <p>HUGO:JAG1, HGNC:6188, ENTREZ:182, GENECARDS:GC20M010618</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>PMID:20351093</p> 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y="14914.0"/> <glyph class="simple chemical" id="s_id_rc_sa1487_rc_sa1488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="19616.31" y="14923.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1487_rc_sa1487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="19548.81" y="14919.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1485_rc_sa1485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehyrogenase phosphatase catalytic subunit 1</p> <p>HUGO:PDP1 HGNC:9279 ENTREZ:54704 UNIPROT:Q9P0J1</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PDP1"/> <bbox w="80.0" h="40.0" x="19555.31" y="14930.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1486_rc_sa1486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cancer susceptibility candidate 5</p> <p>HUGO:CASC5 HGNC:24054 ENTREZ:57082 UNIPROT:Q8NG31</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>GeneID:55066</p> </body> </html> </notes> <label text="PDPR"/> <bbox w="80.0" h="40.0" x="19555.31" y="14974.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa95_wnc1_wnc4_sa95" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc4_re28:(MAP:survival) PMID:21908588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa95_wnc1_wnc4_sa95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ECM"/> <bbox w="80.0" h="30.0" x="19621.06" y="21514.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4263_rc_sa4263" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> </body> </html> </notes> <label text="GTP binding protein*"/> <bbox w="127.0" h="36.0" x="20591.06" y="9581.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1828_emtc_em_sa1828" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1828_emtc_em_sa1828"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR141"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR141"/> <bbox w="83.0" h="18.0" x="4019.0" y="17044.5"/> <glyph class="unit of information" id="_4d7506cf-2c27-4b34-b825-4aafa8e89976"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="4045.5" y="17039.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2168_em_sa2168" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="MAPK6"/> <bbox w="70.0" h="19.0" x="3190.0" y="16402.5"/> <glyph class="unit of information" id="_49f6b67e-6c82-4915-a794-326c1b3cc5d9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3215.0" y="16397.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa37_wnc1_wnc2_sa37" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa37_wnc1_wnc2_sa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CABIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CAINTRUNC*"/> <bbox w="80.0" h="40.0" x="17458.06" y="18176.0"/> <glyph class="unit of information" id="_1aac54ab-f109-4df2-a903-e0dc5598ed82"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="17473.06" y="18171.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa298_rc_csa298" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATP5A1:ATP5B:ATP5C1:ATP5D:ATP5E:ATP5F1:ATP5G*:ATP5H:ATP5I:ATP5J:ATP5J2:ATP5L:ATP5O:ATP5S:MT-ATP6:MT-ATP8</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>stoichiometry:FALSE</p> <p>PMID:12110673</p> <p>purification of human mitochondrial ATP synthase</p> <p>PMID:11744738</p> <p>ATP5SL</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa298_rc_csa298"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12110673"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11744738"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP synthase"/> <bbox w="331.0" h="197.0" x="20392.81" y="13652.5"/> <glyph class="macromolecule" id="s_id_rc_sa2552_rc_sa2552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit B1</p> <p>HUGO:ATP5F1 HGNC:840 ENTREZ:515 UNIPROT:P24539</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5F1"/> <bbox w="80.0" h="40.0" x="20556.81" y="13656.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2549_rc_sa2549"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial F1 complex, delta subunit</p> <p>HUGO:ATP5D HGNC:837 ENTREZ:513 UNIPROT:P30049</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5D"/> <bbox w="80.0" h="40.0" x="20393.81" y="13782.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2559_rc_sa2559"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit s (factor B)</p> <p>HUGO:ATP5S HGNC:18799 ENTREZ:27109 UNIPROT:Q99766</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5S"/> <bbox w="80.0" h="40.0" x="20639.81" y="13780.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2558_rc_sa2558"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit G</p> <p>HUGO:ATP5L HGNC:14247 ENTREZ:10632 UNIPROT:O75964</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5L"/> <bbox w="80.0" h="40.0" x="20639.81" y="13738.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2555_rc_sa2555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit E</p> <p>HUGO:ATP5I HGNC:846 ENTREZ:521 UNIPROT:P56385</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5I"/> <bbox w="80.0" h="40.0" x="20557.81" y="13782.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2550_rc_sa2550"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial F1 complex, epsilon subunit</p> <p>HUGO:ATP5E HGNC:838 ENTREZ:514 UNIPROT:P56381</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5E"/> <bbox w="80.0" h="40.0" x="20476.81" y="13656.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2551_rc_sa2551"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit</p> <p>HUGO:ATP5O HGNC:850 ENTREZ:539 UNIPROT:P48047</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5O"/> <bbox w="80.0" h="40.0" x="20474.81" y="13698.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2553_rc_sa2553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit C1 (subunit 9)</p> <p>HUGO:ATP5G1 HGNC:841 ENTREZ:516 UNIPROT:P05496 </p> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit C2 (subunit 9)</p> <p>HUGO:ATP5G2 HGNC:842 ENTREZ:517 UNIPROT:Q06055 </p> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit C3 (subunit 9)</p> <p>HUGO:ATP5G3 HGNC:843 ENTREZ:518 UNIPROT:P48201</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5G*"/> <bbox w="80.0" h="40.0" x="20556.81" y="13698.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2547_rc_sa2547"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide</p> <p>HUGO:ATP5B HGNC:830 ENTREZ:506 UNIPROT:P06576</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5B"/> <bbox w="80.0" h="40.0" x="20394.81" y="13698.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2554_rc_sa2554"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit d</p> <p>HUGO:ATP5H HGNC:845 ENTREZ:10476 UNIPROT:O75947</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5H"/> <bbox w="80.0" h="40.0" x="20556.81" y="13740.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2556_rc_sa2556"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit F6</p> <p>HUGO:ATP5J HGNC:847 ENTREZ:522 UNIPROT:P18859</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5J"/> <bbox w="80.0" h="40.0" x="20638.81" y="13656.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2548_rc_sa2548"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1</p> <p>HUGO:ATP5C1 HGNC:833 ENTREZ:509 UNIPROT:P36542</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5C1"/> <bbox w="80.0" h="40.0" x="20394.81" y="13740.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2557_rc_sa2557"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial Fo complex, subunit F2</p> <p>HUGO:ATP5J2 HGNC:848 ENTREZ:9551 UNIPROT:P56134</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5J2"/> <bbox w="80.0" h="40.0" x="20639.81" y="13696.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2546_rc_sa2546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle</p> <p>HUGO:ATP5A1 HGNC:823 ENTREZ:498 UNIPROT:P25705</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ATP5A1"/> <bbox w="80.0" h="40.0" x="20392.81" y="13656.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2544_rc_sa2544"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded ATP synthase 6</p> <p>HUGO:MT-ATP6 HGNC:7414 ENTREZ:4508 UNIPROT:P00846</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ATP6"/> <bbox w="80.0" h="40.0" x="20474.81" y="13740.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2545_rc_sa2545"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded ATP synthase 8</p> <p>HUGO:MT-ATP8 HGNC:7415 ENTREZ:4509 UNIPROT:P03928</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ATP8"/> <bbox w="80.0" h="40.0" x="20475.81" y="13782.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_in_sa10_in_sa10"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa10_in_sa10"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17948027"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17204652"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437871"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Antigen_presentation"/> <bbox w="460.0" h="165.0" x="21470.0" y="8327.5"/> </glyph> <glyph class="phenotype" id="s_id_em_sa1993_em_sa1993" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOSKELETON_POLARITY </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Clathrin Coated pit"/> <bbox w="130.0" h="25.0" x="1120.5" y="13907.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa58_ca_sa58" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa58_ca_sa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SERPINE1"/> <bbox w="80.0" h="40.0" x="570.0" y="1440.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4506_rc_sa4506" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4506_rc_sa4506"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP1LC3A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LC3*"/> <bbox w="80.0" h="40.0" x="28100.06" y="11993.5"/> <glyph class="state variable" id="_fc6bdef4-21a6-4a9f-8462-523eead64d95"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28172.56" y="12000.215"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5223_rc_sa5223" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:72080</p> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5223_rc_sa5223"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22421439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28645028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Phosphatidylserine"/> <bbox w="145.0" h="33.0" x="19626.56" y="17062.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa353_in_sa353" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR34C"/> <bbox w="90.0" h="25.0" x="21055.0" y="457.5"/> <glyph class="unit of information" id="_09f51450-7cfd-446b-aeb2-cd6facad89d4"> <label text="asRNA"/> <bbox 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text="p300*"/> <clone/> <bbox w="80.0" h="40.0" x="6921.0" y="7860.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa114_wca1_wca3_sa71" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa114_wca1_wca3_sa71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EP300"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p300*"/> <clone/> <bbox w="80.0" h="40.0" x="21115.873" y="21156.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa64_ce_csa64" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FANCC:FANCE:FANCF</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> </body> </html> </notes> <label text="FANCC/FANCE/FANCF"/> <bbox w="127.0" h="151.0" x="16324.473" y="16636.355"/> <glyph class="macromolecule" id="s_id_ce_sa654_ce_sa654"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group E</p> <p>HUGO:FANCE, HGNC:3586, ENTREZ:2178, UNIPROT:Q9HB96</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCE"/> <bbox w="80.0" h="40.0" x="16350.139" y="16686.416"/> <glyph class="state variable" id="_59e9617f-d90f-4459-862e-fe9d6b369653"> <state value="P" variable="S376"/> <bbox w="35.0" h="10.0" x="16332.639" y="16692.924"/> </glyph> <glyph class="state variable" id="_f7415e6e-fd65-4391-b32f-992e92cbd1f0"> <state value="P" variable="T346"/> <bbox w="35.0" h="10.0" x="16332.639" y="16701.385"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa652_ce_sa652"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group C</p> <p>HUGO:FANCC, HGNC:3584, ENTREZ:2176, UNIPROT:Q00597</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCC"/> <bbox w="80.0" h="40.0" x="16347.404" y="16644.828"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa653_ce_sa653"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group F</p> <p>HUGO:FANCF, HGNC:3587, ENTREZ:2188, UNIPROT:Q9NPI8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCF"/> <bbox w="80.0" h="40.0" x="16351.404" y="16724.828"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa1_an_sa1" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> <p>PMID:22064427</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa1_an_sa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22064427"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="4602.0" y="5645.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4832_rc_sa4832" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4738_rc_sa4738"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF10B"/> <bbox w="90.0" h="25.0" x="26552.201" y="16024.0"/> <glyph class="unit of information" id="_a573eb43-4f9d-45aa-afbc-606fab826ff9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26587.201" y="16019.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa70_mo_sa70" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>serum element response (SRE) transcription factor</p> <p>serum response factor </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa70_mo_sa70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SRE*"/> <clone/> <bbox w="80.0" h="40.0" x="4308.0" y="10619.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa70_mo_sa69" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>serum element response (SRE) transcription factor</p> <p>serum response factor </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa379_emtc_em_sa379"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD6"/> <bbox w="60.0" h="20.0" x="5397.0" y="16708.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa92_emtc_em_csa92" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA9:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="a9b1*"/> <bbox w="40.0" h="60.0" x="4621.992" y="18485.547"/> <glyph class="macromolecule" id="s_id_emtc_em_sa604_emtc_em_sa604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 9</p> <p>HUGO:ITGA9 HGNC:6145 ENTREZ:3680 UNIPROT:Q13797</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA9"/> <bbox w="36.0" h="20.0" x="4623.992" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa605_emtc_em_sa605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK6"/> <clone/> <bbox w="44.0" h="19.0" x="3782.0" y="15115.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa243_rc_csa243" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BIRC5:HBXIP</p> </body> </html> </notes> <label text="BIRC5:HBXIP"/> <bbox w="100.0" h="120.0" x="25119.06" y="12409.0"/> <glyph class="macromolecule" id="s_id_rc_sa1842_rc_sa1842"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor, MAPK and MTOR activator 5</p> <p>HUGO:LAMTOR5 HGNC:17955 ENTREZ:10542 UNIPROT:O43504</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="HBXIP"/> <bbox w="80.0" h="40.0" x="25129.06" y="12464.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1843_rc_sa1843"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>baculoviral IAP repeat containing 5</p> <p>HUGO:BIRC5 HGNC:593 ENTREZ:332 UNIPROT:O15392</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>synonym:survivin</p> </body> </html> </notes> <label text="BIRC5"/> <bbox w="80.0" h="40.0" x="25129.06" y="12420.0"/> <glyph class="state variable" id="_8d8a9dcf-790c-4ba6-bd77-c5caba678073"> <state value="P" variable="T34"/> <bbox w="30.0" h="10.0" x="25171.01" y="12415.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa174_ad_sa174" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22505239, PMID:16286920</p> <p>Tim-3/galectin-9 signaling pathway mediates T-cell dysfunction and predicts poor prognosis in patients with hepatitis B virus-associated hepatocellular carcinoma.</p> <p>There are different levels of galectin-9 expression on antigen-presenting cell (APC) subsets including Kupffer cells (KCs), myeloid dendritic cells (DCs), and plasmacytoid DCs</p> <p>PMID:27192565</p> <p>Tim-3 ligands include soluble ligands (galectin-9 and HMGB1) and cell</p> <p>surface ligands (Ceacam-1 and Phosphatidyl serine [PtdSer]).</p> <p>PMID:16286920</p> <p>The Tim-3 ligand galectin-9 negatively regulates T helper type 1 immunity.</p> <p>Galectin-9 induces TH1 cell death through Tim-3</p> <p>Galectin-9 eliminates IFN-γ-producing TH1 cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa174_ad_sa174"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LGALS9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22505239"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286920"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192565"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286920"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LGALS9"/> <bbox w="80.0" h="40.0" x="26016.0" y="2180.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa14_akt1_akt1_csa14" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AKT1:PI3,4,5-P3</p> <p>References:</p> <p>s_akt1_re21:(MAP:survival) PMID:10722653</p> <p>s_akt1_re57(MAP:survival):</p> <p>PMID:18372248</p> <p>PMID:20138985</p> <p>s_akt1_re96(MAP:survival):</p> <p>PMID:18570873</p> <p>PMID:18636226</p> <p>p27 is phosphorylated by Akt RSK1 and RSK2 in early G1 phase</p> <p>s_akt1_re114:(MAP:survival) PMID:17052453</p> <p>s_akt1_re116:(MAP:survival) PMID:15808505</p> <p>s_akt1_re118(MAP:survival):</p> <p>PMID:15169778</p> <p>PMID:11923280</p> <p>PMID:11715018</p> <p>PMID:16697215</p> <p>s_akt1_re123:(MAP:survival) PMID:10949026</p> <p>s_akt1_re134:(MAP:survival) PMID:9812896</p> <p>s_akt1_re186:(MAP:survival) PMID:11756412</p> <p>s_akt1_re198:(MAP:survival) PMID:20832730</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa14_akt1_akt1_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10722653"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372248"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138985"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18570873"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052453"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15808505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15169778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11923280"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11715018"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16697215"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9812896"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756412"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20832730"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PIP3/AKT)"/> <bbox w="100.0" h="112.0" x="12977.061" y="17926.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa72_akt1_akt1_sa72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-akt murine thymoma viral oncogene homolog 1</p> <p>HUGO:AKT1 HGNC:391 ENTREZ:207 UNIPROT:P31749 GENECARDS:AKT1 REACTOME:58253 KEGG:207 ATLASONC:AKT1ID355ch14q32 WIKI:AKT1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:cellcycle / MODULE:APOPTOSIS_ENTRY, MAP:cellcycle / MODULE:CYCLIND, MAP:cellcycle / MODULE:P21CIP, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20214616</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="12982.561" y="17969.0"/> <glyph class="state variable" id="_6c4b4077-7710-4022-9e53-18501f59dd07"> <state value="P" variable="T308"/> <bbox w="35.0" h="10.0" x="12965.061" y="17967.775"/> </glyph> <glyph class="state variable" id="_ccad9bf2-3090-498b-bd34-26edb2403520"> <state value="P" variable="S473"/> <bbox w="35.0" 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<label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="12992.561" y="17935.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa41_in_sa41" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Tumor_antigen_fragment"/> <bbox w="80.0" h="40.0" x="21970.0" y="6200.0"/> <glyph class="unit of information" id="_9aa2ed02-6301-40e2-a346-d04eec247039"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21985.0" y="6195.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa663_rc_sa663" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa663_rc_sa663"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO3"/> <clone/> <bbox w="70.0" h="25.0" x="23283.393" y="16269.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa663_akt1_akt2_sa200" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa663_akt1_akt2_sa200"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO3"/> <clone/> <bbox w="70.0" h="25.0" x="12591.561" y="21321.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3510_rc_sa3510" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3510_rc_sa3510"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BRCC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCC3"/> <clone/> <bbox w="80.0" h="40.0" x="18911.56" y="16474.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3510_rc_sa3516" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3510_rc_sa3516"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BRCC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCC3"/> <clone/> <bbox w="80.0" h="40.0" x="18531.56" y="16501.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa351_rc_sa351" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16240 KEGGCOMPOUND:C00027 CAS:7722-84-1</p> </body> </html> </notes> <label text="H2O2"/> <bbox w="70.0" h="25.0" x="19725.31" y="14517.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa26_shh1_shh1_csa26" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI3-190*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re56:(MAP:survival) PMID:16371461</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa26_shh1_shh1_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3179_rc_sa3179"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK2*"/> <bbox w="80.0" h="40.0" x="21899.06" y="10956.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa119_ce_sa119" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0C_NHEJ:DNA:st1 DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:C_NHEJReferences:PMID:22258607, PMID:22918414, PMID:20691907, PMID:23897299, PMID:23892398, PMID:23760025,PMID:24050180Double strand break triggers MRN complex association:first step in DNA damage recognition and initiation of G2/M checkpointPMID:17303408C_NHEJ in dividing and non-dividing cellsPMID:23684800 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0C_NHEJ:DNA:st1 DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:C_NHEJReferences:PMID:22258607, PMID:22918414, PMID:20691907, PMID:23897299, PMID:23892398, PMID:23760025,PMID:24050180Double strand break triggers MRN complex association:first step in DNA damage recognition and initiation of G2/M checkpointPMID:17303408C_NHEJ in dividing and non-dividing cellsPMID:23684800 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa119_ce_sa119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20691907"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23897299"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23760025"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23684800"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20691907"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23897299"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23760025"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23684800"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text=" C_NHEJ_DNA_st1*"/> <bbox w="150.0" h="26.0" x="12742.974" y="15558.987"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa939_ad_sa939" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11356195; PMID:17052756; PMID:21199863 </p> <p>CARMA1 induces BCL10 phosphorylation via CaMKII </p> <p>PMID:16809782;PMID:17052756 </p> <p>In the immune synapse, CaMKII phosphorylates Carma1 on Ser109 and the phosphorylation increases the interaction between Carma1 and Bcl10.</p> <p>Carma1/Bcl10/Malt1 complex induces NF-κB activation (Sun et al., 2004). Accordingly based on the findings in the present study, CaMKII phosphorylates Bcl10 on Ser138 while IKKβ phosphorylates residues Ser134, 136, 138, 141 and 144 (Wegener et al., 2006). Phosphorylation of Bcl10 disrupts Bcl10/Malt1 association (Wegener et al., 2006), and attenuates NF-κB activation.</p> <p>PMID:15843557</p> <p>Calcium/calmodulin-dependent protein kinase II (CaMKII),4 a multifunctional serine/threonine kinase, consists of four distinct isoforms (α, β, γ, and δ), and each comprises a family of alternatively spliced variants. A general feature of all CaMKII isoforms is their ability to decode the frequency of calcium oscillations by retaining calcium-independent kinase activity subsequent to the initial stimulation. The α and β isoforms are expressed abundantly in neurons, while the γ and δ isoforms are more widely expressed</p> <p>Active CaMKII-transduced T cells exhibit enhanced cytotoxic activity </p> <p>PMID:19349987 </p> <p>Ca2+ signaling requires myosin IIA activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa939_ad_sa939"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11356195"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052756"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21199863"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16809782"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052756"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15843557"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19349987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CAMK2*"/> <bbox w="80.0" h="40.0" x="29006.0" y="5275.0"/> <glyph class="state variable" id="_b9d95412-3dc9-4daf-a994-725763d726ec"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28998.5" y="5290.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa226_emtc_em_csa226" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RHOB:RhoB_cytoskeletal_effectors*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Once activated, the GTPases bind to a spectrum of effectors to stimulate downstream signaling pathways.</p> <p>RhoB binding to DIAPH1, DIAPH2 and RHPN2 leads to actin polymerization and cytoskeleton rearrangements, and also regulates endosomal trafficking.</p> <p>PRK1 and RTKN are also RhoB downstream effectors.</p> <p>RhoB can directly bind to PLCE1 and stimulate its enzymatic activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="RhoB/RhoB_cytoskeletal_effectors*"/> <bbox w="200.0" h="60.0" x="5841.0" y="15062.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1461_emtc_em_sa1461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member B</p> <p>HUGO:RHOB, HGNC:668, ENTREZ:388, GENECARDS:GC02P020568, UNIPROT:P62745</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOB"/> <bbox w="41.0" h="18.0" x="5880.5" y="15065.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1460_emtc_em_sa1460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RhoB_cytoskeletal_effectors*</p> <p>diaphanous homolog 1 (Drosophila)</p> <p>HUGO:DIAPH1, HGNC:2876, ENTREZ:1729, GENECARDS:GC05M140875, UNIPROT:O60610</p> <p>diaphanous homolog 3 (Drosophila)</p> <p>HUGO:DIAPH3, HGNC:15480, ENTREZ:81624, GENECARDS:GC13M060239, UNIPROT:Q9NSV4</p> <p>rhophilin, Rho GTPase binding protein 2</p> <p>HUGO:RHPN2, HGNC:19974, ENTREZ:85415, GENECARDS:GC19M033469, UNIPROT:Q8IUC4 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RhoB_cytoskeletal_effectors*"/> <bbox w="160.0" h="20.0" x="5861.0" y="15082.5"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1462_emtc_em_sa1462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="5921.0" y="15064.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa313_in_sa313" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa58_wnc1_wnc3_sa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIAS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIAS1"/> <clone/> <bbox w="80.0" h="40.0" x="16313.061" y="20809.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa58_wca1_wca3_sa345" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa58_wca1_wca3_sa345"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIAS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIAS1"/> <clone/> <bbox w="80.0" h="40.0" x="20929.06" y="22049.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa114_ca_sa114" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS MODULE:MOTILITY References:PMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS MODULE:MOTILITY References:PMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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</head> <body> <p>Growth factor</p> </body> </html> </notes> <label text="GF"/> <bbox w="70.0" h="25.0" x="2545.0" y="8863.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa208_in_sa208" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR150"/> <bbox w="70.0" h="25.0" x="13079.375" y="4316.875"/> </glyph> <glyph class="complex" id="s_id_te_csa34_te_csa34" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HSP90*/PTGES3/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa34_te_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10197982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90*/PTGES3/TERT"/> <bbox w="210.0" h="130.0" x="5770.06" y="20257.0"/> <glyph class="macromolecule multimer" id="s_id_te_sa277_te_sa277"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="5877.06" y="20274.0"/> <glyph class="unit of information" id="_1ba37b74-63d1-4a15-953a-00096e1c842d"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="5910.06" y="20269.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa276_te_sa276"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <bbox w="80.0" h="40.0" x="5840.06" y="20327.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa275_te_sa275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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<glyph class="state variable" id="_5d1546ad-3097-4bda-9678-f01f0b6e9b98"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5139.0" y="7446.93"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1027_ca_sa885" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1027_ca_sa885"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CFL1"/> <clone/> <bbox w="80.0" h="40.0" x="6550.0" y="4040.0"/> <glyph class="state variable" id="_ad23e485-5920-4843-bf4f-68fb15450285"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6545.0" y="4035.9302"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa476_in_sa476" compartmentRef="s_id_in_ca12_in_ca12"> <label text="RAF1"/> <bbox w="80.0" h="40.0" x="18000.0" y="3650.0"/> <glyph class="state variable" id="_d28ece6f-1572-46b8-a3fc-937d049283ad"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17995.0" y="3665.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa486_rc_csa486" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2-XL*:TMBIM6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa486_rc_csa486"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L1:TMBIM6"/> <bbox w="100.0" h="125.0" x="25719.06" y="13726.5"/> <glyph class="macromolecule" id="s_id_rc_sa5105_rc_sa5105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transmembrane BAX inhibitor motif containing 6</p> <p>HUGO:TMBIM6 HGNC:11723 ENTREZ:7009 UNIPROT:P55061</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="TMBIM6"/> <bbox w="80.0" h="50.0" x="25729.06" y="13774.0"/> <glyph class="unit of information" id="_b4010830-58af-4eee-8844-b42c4e1f7bd2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25746.56" y="13769.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5102_rc_sa5102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="25729.06" y="13731.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3689_rc_sa3689" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3689_rc_sa3689"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SPHK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SPHK*"/> <bbox w="80.0" h="40.0" x="20069.06" y="10979.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa18_wnc1_wnc2_csa18" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NFAT*:PPP3CB_sub_trunc_endsub_*:PPP3R*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> <p>s_wnc2_re82(MAP:survival):</p> <p>Most likely, the complex will dissociates </p> <p>PMID:16648474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa18_wnc1_wnc2_csa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16648474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFAT*:PPP3CBtrunc*:PPP3R*"/> <bbox w="103.0" h="175.0" x="18490.56" y="18106.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa84_wnc1_wnc2_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18500.56" y="18158.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa83_wnc1_wnc2_sa83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="18500.56" y="18115.0"/> <glyph class="unit of information" id="_afc04ba9-a3b0-4e80-99da-f35d6dd8ed61"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18515.56" y="18110.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa87_wnc1_wnc2_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase10*:Caspase8*:FADD:IKBKG:RIPK1:TRADD:TRAF2</p> <p>References:</p> <p>TRAF2:TRADD:FADD:Caspase8*:Caspase10*:IKBKG:RIPKA</p> <p>20531300</p> <p>The death domain kinase RIP is essential for TRAIL (Apo2L)-induced activation of IkappaB kinase and c-Jun N-terminal kinase</p> <p>10958661</p> <p>23845861</p> <p>21822306</p> <p>NF-κB exerts a pro-apoptotic role in TRAIL- and CD95-induced apoptosis in glioblastoma cells by facilitating DISC formation</p> </body> </html> </notes> <label text="TRAIL Complex II"/> <bbox w="210.0" h="218.0" x="24174.06" y="9670.25"/> <glyph class="macromolecule" id="s_id_rc_sa3924_rc_sa3924"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 10, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP10 HGNC:1500 ENTREZ:843 UNIPROT:Q92851</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>caspase 10, apoptosis-related cysteine peptidase (CASP10)</p> <p>PMID:20531300</p> </body> </html> </notes> <label text="Caspase10*"/> <bbox w="80.0" h="40.0" x="24194.06" y="9825.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3922_rc_sa3922"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="24194.06" y="9705.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3927_rc_sa3927"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma</p> <p>HUGO:IKBKG HGNC:5961 ENTREZ:8517 UNIPROT:Q9Y6K9</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>NEMO</p> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="24274.06" y="9795.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3921_rc_sa3921"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24194.06" y="9745.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3926_rc_sa3926"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:15592525</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="24274.06" y="9685.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3923_rc_sa3923"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP8 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:28462525</p> </body> </html> </notes> <label text="Caspase8*"/> <bbox w="80.0" h="40.0" x="24194.06" y="9785.25"/> <glyph class="state variable" id="_d4328d92-a0bd-4c92-a001-aa02dfda6d79"> <state value="" 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rdf:resource="urn:miriam:hgnc.symbol:MIR885"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR885"/> <bbox w="90.0" h="25.0" x="24190.06" y="15638.5"/> <glyph class="unit of information" id="_c6edfc0f-c078-46e5-99a5-31f0420f3491"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24220.06" y="15633.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa461_ad_sa461" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16606694</p> <p>WIPF1 forms complex with WASP.</p> <p>WIPF1 (WIP) phosphorylation in NK cells is mediated by PRKCQ (PKC theta)</p> <p> PMID:17890224</p> <p>in macrophages WASP and WASP-interacting protein (WIP) form a complex at the phagocytic cup and that the WASP.WIP complex plays a critical role in the phagocytic cup formation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa461_ad_sa461"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WIPF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16606694"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17890224"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="10948.02" y="9007.375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2078_in_sa2078" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SPI1"/> <bbox w="90.0" h="25.0" x="17850.0" y="4582.5"/> <glyph class="unit of information" id="_3961dc75-1287-463a-b8ea-e00093aca880"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="17885.0" y="4577.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa72_emtc_em_csa72" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA7:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrins a3b1, a6b1, a6b4 and a7b1 engage with laminins</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa72_emtc_em_csa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22118458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a7b1*"/> <bbox w="40.0" h="60.0" x="4521.959" y="18012.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa543_emtc_em_sa543"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4521.959" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa547_emtc_em_sa547"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 7</p> <p>HUGO:ITGA7 HGNC:6143 ENTREZ:3679 UNIPROT:Q13683</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA7"/> <bbox w="40.0" h="20.0" x="4521.959" y="18015.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1094_rc_sa1094" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa392_ca_sa392"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRADD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRADD"/> <clone/> <bbox w="80.0" h="40.0" x="1240.0" y="1497.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa392_rc_sa2903" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa392_rc_sa2903"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRADD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRADD"/> <clone/> <bbox w="80.0" h="40.0" x="22359.06" y="9409.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa392_rc_sa3931" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa392_rc_sa3931"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRADD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRADD"/> <clone/> <bbox w="80.0" h="40.0" x="24219.06" y="9479.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa186_wca1_wca3_sa186" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa186_wca1_wca3_sa186"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT1"/> <bbox w="70.0" h="25.0" x="20823.06" y="22370.357"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1581_emtc_em_sa1581" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1581_emtc_em_sa1581"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VTN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Vitronectin*"/> <bbox w="76.0" h="20.0" x="4788.0" y="18685.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa197_ce_csa197" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ORC1*:ORC2*:ORC3*:ORC4*:ORC5*:ORC6*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="ORC1*/ORC2*/ORC3*/ORC4*/ORC5*/ORC6*"/> <bbox w="183.0" h="153.0" x="12729.473" y="9461.356"/> <glyph class="macromolecule" id="s_id_ce_sa860_ce_sa860"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 2-like (yeast)</p> <p>HUGO:ORC2L, HGNC:8488, ENTREZ:4999, UNIPROT:Q13416</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC2*"/> <bbox w="80.0" h="40.0" x="12741.442" y="9507.034"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa859_ce_sa859"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 3-like (yeast)</p> <p>HUGO:ORC3L, HGNC:8489, ENTREZ:23595, UNIPROT:Q9UNT6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC3*"/> <bbox w="80.0" h="40.0" x="12741.442" y="9548.034"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa858_ce_sa858"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 4-like (yeast)</p> <p>HUGO:ORC4L, HGNC:8490, ENTREZ:5000, UNIPROT:O43929</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC4*"/> <bbox w="80.0" h="40.0" x="12824.442" y="9467.034"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa861_ce_sa861"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 1-like (yeast)</p> <p>HUGO:ORC1L, HGNC:8487, ENTREZ:4998, UNIPROT:Q13415</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC1*"/> <bbox w="80.0" h="40.0" x="12741.442" y="9466.034"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa856_ce_sa856"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 6-like (yeast)</p> <p>HUGO:ORC6L, HGNC:17151, ENTREZ:23594, UNIPROT:Q9Y5N6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC6*"/> <bbox w="80.0" h="40.0" x="12824.442" y="9549.034"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa857_ce_sa857"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 5-like (yeast)</p> <p>HUGO:ORC5L, HGNC:8491, ENTREZ:5001, UNIPROT:O43913</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC5*"/> <bbox w="80.0" h="40.0" x="12825.442" y="9509.034"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1105_emtc_em_sa1105" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1105_emtc_em_sa1105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DEF6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DEF6"/> <bbox w="35.0" h="16.0" x="5823.5" y="14758.715"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa395_in_sa395"> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="23550.0" y="1150.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa194_wca1_wca3_sa194" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa194_wca1_wca3_sa194"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="90.0" h="25.0" x="20923.56" y="22471.5"/> <glyph class="unit of information" id="_399aae70-190e-49f5-b12d-d86b3c8adc15"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20958.56" y="22466.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa194_wnc1_wnc4_sa79" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa194_wnc1_wnc4_sa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="90.0" h="25.0" x="19169.06" y="21468.5"/> <glyph class="unit of information" id="_a98e63e1-8ee4-4def-a693-1733e6e21358"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19204.06" y="21463.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa194_emtc_em_sa1826" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa194_emtc_em_sa1826"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="102.0" h="20.0" x="2759.5" y="16348.5"/> <glyph class="unit of information" id="_5382f5b0-04dd-4ff9-8701-1dc46928e784"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2800.5" y="16343.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa194_mo_sa76" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa194_mo_sa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <clone/> <bbox w="90.0" h="25.0" x="2236.0" y="10259.5"/> <glyph class="unit of information" id="_9306af24-e97a-45f5-8b19-8c265523a9de"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2271.0" y="10254.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa112_mpk1_mpk1_csa112" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAD:BCL2</p> </body> </html> </notes> <label text="BAD:BCL2"/> <bbox w="80.0" h="85.0" x="8620.061" y="19384.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa704_mpk1_mpk1_sa704"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>BCL2 protein can target Raf-1 (C-Raf) to mitochondria.</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="50.0" h="25.0" x="8635.061" y="19421.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa703_mpk1_mpk1_sa703"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. 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y="15758.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3381_rc_sa3381" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3381_rc_sa3381"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LDHA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LDHB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LDHC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LDH*"/> <bbox w="86.0" h="46.0" x="18854.777" y="11339.898"/> <glyph class="unit of information" id="_1fb4c9ce-7aee-4e8f-ade8-9c8b061b17cb"> <label text="N:4"/> <bbox w="20.0" h="10.0" x="18887.777" y="11334.898"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa782_rc_sa782" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa782_rc_sa782"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PFKFB2"/> <bbox w="80.0" h="40.0" x="18996.06" y="9671.5"/> <glyph class="state variable" id="_58f8d21a-09b2-4b11-aeeb-7084fa10b905"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19045.129" y="9666.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa521_rc_csa521" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2L11:IRE1-alpha*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa521_rc_csa521"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRE1*:Bim*"/> <bbox w="100.0" h="150.0" x="25709.06" y="13214.0"/> <glyph class="macromolecule" id="s_id_rc_sa5199_rc_sa5199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>synonym:BIM</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="80.0" h="40.0" x="25719.06" y="13309.0"/> <glyph class="state variable" id="_b58f5031-915e-44c5-b039-daa2129018a1"> <state value="" variable="S58"/> <bbox w="25.0" h="10.0" x="25786.56" y="13304.213"/> </glyph> <glyph class="state variable" id="_8bdf31a0-aac2-4a9c-9d86-7b25a8f6db48"> <state value="" variable="S44"/> <bbox w="25.0" h="10.0" x="25707.053" y="13304.0"/> </glyph> <glyph class="state variable" id="_cb30b059-b04a-4768-bf0a-91bb0f552b28"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25770.86" y="13344.0"/> </glyph> <glyph class="state variable" id="_8d331acf-913c-4b4b-9581-e8382dd1c420"> <state value="" variable="T56"/> <bbox w="25.0" h="10.0" x="25746.592" y="13304.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5200_rc_sa5200"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="70.0" x="25719.06" y="13229.0"/> <glyph class="state variable" id="_8b7a94e3-1bff-407c-953a-db348b6de531"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25770.629" y="13224.0"/> </glyph> <glyph class="unit of information" id="_60a03e2b-4f09-4e56-942d-d1b2a84ed75e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25736.56" y="13224.0"/> </glyph> </glyph> 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rdf:resource="urn:miriam:pubmed:19736394"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Trail pathway"/> <bbox w="80.0" h="30.0" x="26900.06" y="20464.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa18_ad_csa18" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MHC_class_I*:B2M:Tumor_antigen_fragment</p> <p>MODULE:DC, MODULE:CROSS_ACTIVATION_OF_IMMUNE_CELLS, MODULE:ANTIGEN_PRESENTATION_AND_ACTIVATING_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> </body> </html> </notes> <label text="MHC_class_I*:B2M:Tumor_antigen_fragment"/> <bbox w="230.0" h="135.0" x="28291.0" y="2172.5"/> <glyph class="macromolecule" id="s_id_ad_sa165_ad_sa165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:B2M</p> <p>MODULE:SMAC</p> <p>CASCADE:TCR</p> <p>PMID:16181333, PMID:22076556 </p> <p>Upon dissociation from CNX, the heavy chain of (MHC) class I binds β2 microglobulin (b2m) and is incorporated into the peptide-loading complex.</p> <p>PMID:10358761</p> <p>All CD1 proteins studied to date are expressed on the surface of cells as type I transmembrane proteins that associate noncovalently with β2-microglobulin</p> <p> PMID:11717192 </p> </body> </html> </notes> <label text="B2M"/> <bbox w="80.0" h="40.0" x="28406.0" y="2230.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa164_ad_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>HUGO:HLA-A</p> <p>HUGO:HLA-B</p> <p>HUGO:HLA-C </p> <p>HUGO:HLA-E</p> <p>HUGO:HLA-F </p> <p>HUGO:HLA-G </p> <p>HUGO:HLA-K </p> <p>HUGO:HLA-L</p> <p>MODULE:SMAC</p> <p>PMID:16181333, PMID:22076556, PMID:10559964</p> <p>MHC class I molecules is heterodimers that consist of two polypeptide chains, α and β2-microglobulin (b2m). The two chains are linked noncovalently via interaction of b2m and the α3 domain. Only the α chain is polymorphic and encoded by a HLA gene, while the b2m subunit is not polymorphic and encoded by the Beta-2 microglobulin gene. </p> <p>The MHC class I heavy chain, a transmembrane glycoprotein of approximately 44 kDa, binds upon synthesis to the membrane-associated endoplasmic reticulum (ER) chaperone, calnexin (CNX).</p> </body> </html> </notes> <label text="MHC_class_I*"/> <bbox w="80.0" h="50.0" x="28311.0" y="2227.5"/> <glyph class="unit of information" id="_18ed68e0-ea46-41e1-afed-3e20c7d81fde"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28328.5" y="2222.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa163_ad_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>PMID:8642276; PMID:24457417 </p> <p>Human tumor antigens could be recognized by T lymphocytes.</p> <p>PMID:11154916, PMID:11509172, PMID:22076556</p> <p>Processed antigen peptide in lysosomes forms complex with MHC-class-II. formation and transport to the cell surface of MHC-class-II–peptide complexes is induced by maturation.</p> <p>Immature DCs in culture can take up antigen but do not present it efficiently to T cells. After detecting microbial products or proinflammatory cytokines, immature DCs transform into mature DCs, cells with a reduced capacity for antigen uptake but now with an exceptional capacity for T cell stimulation.</p> <p> PMID:22790179, PMID:14508489</p> <p>The presentation of exogenous antigens on MHC class I molecules, known as cross-presentation, is essential for the initiation of CD8+ T cell responses. 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</glyph> <glyph class="macromolecule" id="s_id_gf1_sa157_gf1_sa157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MST1R</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:23792360 </p> <p>Both in vitro and in vivo evidence has revealed that MSP???RON signalling is important for the invasive growth of different types of cancers.</p> </body> </html> </notes> <label text="MST1R"/> <bbox w="80.0" h="50.0" x="10345.561" y="18074.5"/> <glyph class="state variable" id="_0dd83582-28cd-44d0-ada6-fa3d5a70cfa7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10338.061" y="18094.5"/> </glyph> <glyph class="unit of information" id="_865ded3e-7b45-4e8c-989f-aa7479f5ed00"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10363.061" y="18069.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa572_ca_sa572" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa572_ca_sa572"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ILK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ILK"/> <clone/> <bbox w="80.0" h="40.0" x="6280.0" y="2290.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa572_ca_sa573" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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<p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:CK2_alpha_:CK2_alpha_*:CK2_beta_*:CSN1*:CSN2*:CSN3*:CSN4*:CSN5*:CSN6*:CSN7*:CSN8*:CUL1:E1*:FAF*:GSK3*:NEDD8:PKD*:PtdIns:RAD6*:RBX1:SKP*:USP15:_beta_-Catenin*:_beta_TRCP*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re47(MAP:survival):</p> <p>PMID:19576224 PMID:17143292 PMID:10023660 PMID:21411632 PMID:22730322 PMID:22682247 </p> <p>FAF1 enhances poly-ubiquitination of beta-catenin by acting as scaffold protein</p> <p>Intact destruction complex in the proteosome complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa23_wca1_wca1_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19576224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10023660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411632"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22730322"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22682247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(CSN_CRL_Destruction_complex)"/> <bbox w="191.0" h="647.0" x="20980.56" y="19343.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa632_wca1_wca1_sa632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="80.0" h="40.0" x="20994.113" y="19363.053"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa464_wca1_wca1_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin specific peptidase 15</p> <p>HUGO:USP15 HGNC:12613 ENTREZ:9958 UNIPROT:Q9Y4E8 GENECARDS:USP15 REACTOME:66846 KEGG:9958 ATLASONC:USP15ID44585ch12q14 WIKI:USP15</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19849719</p> </body> </html> </notes> <label text="USP15"/> <bbox w="80.0" h="40.0" x="20991.56" y="19446.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa631_wca1_wca1_sa631"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="80.0" h="40.0" x="20990.113" y="19403.053"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa133_wca1_wca1_sa133"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19784.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa461_wca1_wca1_sa461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis)</p> <p>HUGO:COPS7A HGNC:16758 ENTREZ:50813 UNIPROT:Q9UBW8 GENECARDS:COPS7A KEGG:50813 ATLASONC:GC_COPS7A WIKI:COPS7A </p> <p>COP9 constitutive photomorphogenic homolog subunit 7B (Arabidopsis)</p> <p>HUGO:COPS7B HGNC:16760 ENTREZ:64708 UNIPROT:Q9H9Q2 GENECARDS:COPS7B KEGG:64708 ATLASONC:GC_COPS7B WIKI:COPS7B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN7*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19487.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa459_wca1_wca1_sa459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 5 (Arabidopsis)</p> <p>HUGO:COPS5 HGNC:2240 ENTREZ:10987 UNIPROT:Q92905 GENECARDS:COPS5 KEGG:10987 ATLASONC:GC_COPS5 WIKI:COPS5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN5*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19487.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa451_wca1_wca1_sa451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Beta-transducin repeat domain</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 GENECARDS:BTRC REACTOME:55056 KEGG:8945 ATLASONC:BTRCID451ch10q24 WIKI:BTRC </p> <p>F-box and WD repeat domain containing 11</p> <p>BTRC2, BTRCP2, Fbw1b, Fbw11, Hos, KIAA0696</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1 GENECARDS:FBXW11 REACTOME:55058 KEGG:23291 WIKI:FBXW11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19698.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa134_wca1_wca1_sa134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19829.0"/> <glyph class="state variable" id="_9eaaa6a3-237b-48ce-9600-6297cabf29eb"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20984.553" y="19824.0"/> </glyph> <glyph class="state variable" id="_e6b52633-c523-4f25-b36e-27718203cf5a"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21064.06" y="19824.213"/> </glyph> <glyph class="state variable" id="_16ada3b4-c3e9-4cf5-b94b-521da79ae8c6"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20979.06" y="19863.72"/> </glyph> <glyph class="state variable" id="_fd197cfe-7882-4eab-b944-1916c94a1a79"> <state value="P" variable="S222"/> <bbox w="35.0" h="10.0" x="21054.06" y="19824.213"/> </glyph> <glyph class="state variable" id="_734d8de7-7950-4cc6-af12-20c80ad49094"> <state value="P" variable="S473"/> <bbox w="35.0" h="10.0" x="21053.441" y="19864.0"/> </glyph> <glyph class="state variable" id="_df8700ba-dbec-4c49-9562-5f93df0f8f23"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21018.965" y="19864.0"/> </glyph> <glyph class="state variable" id="_03eeada4-f5a4-443b-8bf3-b6f623770121"> <state value="P" variable="S614"/> <bbox w="35.0" h="10.0" x="21013.965" y="19864.0"/> </glyph> <glyph class="state variable" id="_e56829b7-2ac9-40b7-aa26-094b77f29a4d"> <state value="P" variable="S621"/> <bbox w="35.0" h="10.0" x="20974.06" y="19863.72"/> </glyph> <glyph class="state variable" id="_76cdd375-2faf-41c2-8c21-e4e9af4193a1"> <state value="P" variable="S82"/> <bbox w="30.0" h="10.0" x="21016.592" y="19824.0"/> </glyph> <glyph class="state variable" id="_28429760-d070-4317-81ff-4dc57b2b96be"> <state value="P" variable="S80"/> <bbox w="30.0" h="10.0" x="20977.053" y="19824.0"/> </glyph> <glyph class="state variable" id="_b57dc308-57b2-40c7-ae18-a82515fbe5a9"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21058.441" y="19864.0"/> </glyph> <glyph class="state variable" id="_0ef9c42f-9d7c-4f57-b987-f6b5f867e093"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20986.564" y="19824.0"/> </glyph> <glyph class="state variable" id="_0615aaa3-a20c-4954-a8b7-4a2f3e31359a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21066.56" y="19824.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa686_wca1_wca1_sa686"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6) associated factor 1</p> <p>HUGO:FAF1 HGNC:3578 ENTREZ:11124 UNIPROT:Q9UNN5 GENECARDS:FAF1 KEGG:11124 ATLASONC:GC_FAF1 WIKI:FAF1 </p> <p>Fas associated factor family member 2</p> <p>HUGO:FAF2 HGNC:24666 ENTREZ:23197 UNIPROT:Q96CS3 GENECARDS:FAF2 KEGG:23197 WIKI:FAF2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FAF*"/> <bbox w="80.0" h="40.0" x="21074.06" y="19362.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa462_wca1_wca1_sa462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 8 (Arabidopsis)</p> <p>HUGO:COPS8 HGNC:24335 ENTREZ:10920 UNIPROT:Q99627 GENECARDS:COPS8 KEGG:10920 ATLASONC:GC_COPS8 WIKI:COPS8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN8*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19529.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa456_wca1_wca1_sa456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis)</p> <p>HUGO:COPS2 HGNC:30747 ENTREZ:9318 UNIPROT:P61201 GENECARDS:COPS2 KEGG:9318 ATLASONC:COPS2ID47362ch15q21 WIKI:COPS2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN2*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19613.0"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa719_wca1_wca1_sa719"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="21078.06" y="19932.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa720_wca1_wca1_sa720"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20992.06" y="19920.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa136_wca1_wca1_sa136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19872.5"/> <glyph class="state variable" id="_f974d422-66a2-4d2f-ada1-c47cf58e4e24"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21139.56" y="19867.713"/> </glyph> <glyph class="state variable" id="_d0a922c9-25bd-4ded-8781-cf2900e23b44"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21088.777" y="19867.5"/> </glyph> <glyph class="state variable" id="_ae7d5185-70a9-492e-8eff-274fcdeaed6c"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="21060.053" y="19867.5"/> </glyph> <glyph class="state variable" id="_0b91bfcc-96fe-4533-810d-76e2951ddf54"> <state value="P" variable="S37"/> <bbox w="30.0" h="10.0" x="21139.56" y="19867.713"/> </glyph> <glyph class="state variable" id="_1522d351-ff72-4379-a0b0-a43d4932c94d"> <state value="P" variable="S33"/> <bbox w="30.0" h="10.0" x="21099.592" y="19867.5"/> </glyph> <glyph class="state variable" id="_b607683a-4d82-4cdc-a05e-6c1da83de317"> <state value="" variable="K345"/> <bbox w="30.0" h="10.0" x="21139.56" y="19867.713"/> </glyph> <glyph class="state variable" id="_ad368659-8aa3-4b96-a2cd-e156ddc68ee6"> <state value="Ub" variable="K19"/> <bbox w="35.0" h="10.0" x="21057.553" y="19867.5"/> </glyph> <glyph class="state variable" id="_3c7b4197-f368-4378-8121-0ca1bc6af85a"> <state value="Ub" variable="K49"/> <bbox w="35.0" h="10.0" x="21057.06" y="19907.22"/> </glyph> <glyph class="state variable" id="_2727bd4f-f02c-416a-a67b-a8189e555757"> <state value="P" variable="T41"/> <bbox w="30.0" h="10.0" x="21138.941" y="19907.5"/> </glyph> <glyph class="state variable" id="_24187452-f76e-47ab-a196-bb7695c28064"> <state value="P" variable="S45"/> <bbox w="30.0" h="10.0" x="21099.465" y="19907.5"/> </glyph> <glyph class="state variable" id="_29713221-fa5e-4199-bec4-d85a4b98430e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21069.56" y="19873.771"/> </glyph> <glyph class="state variable" id="_50ac8fee-a1fd-4ade-9d30-e2c5fb369cc9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21069.56" y="19885.46"/> </glyph> <glyph class="state variable" id="_bcb3cf87-0dc2-4866-9120-cd168736e9b6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21069.56" y="19879.008"/> </glyph> <glyph class="state variable" id="_2ce60573-b121-4cad-9155-a83233a38bb2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21069.56" y="19887.469"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa457_wca1_wca1_sa457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 3 (Arabidopsis)</p> <p>HUGO:COPS3 HGNC:2239 ENTREZ:8533 UNIPROT:Q9UNS2 GENECARDS:COPS3 KEGG:8533 ATLASONC:GC_COPS3 WIKI:COPS3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN3*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19571.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa453_wca1_wca1_sa453"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-like modifier activating enzyme 1</p> <p>HUGO:UBA1 HGNC:12469 ENTREZ:7317 UNIPROT:P22314 GENECARDS:UBA1 REACTOME:66719 KEGG:7317 ATLASONC:GC_UBA1 WIKI:UBA1 </p> <p>ubiquitin-like modifier activating enzyme 2</p> <p>HUGO:UBA2 HGNC:30661 ENTREZ:10054 UNIPROT:Q9UBT2 GENECARDS:UBA2 KEGG:10054 ATLASONC:GC_UBA2 WIKI:UBA2 </p> <p>ubiquitin-like modifier activating enzyme 5</p> <p>HUGO:UBA5 HGNC:23230 ENTREZ:79876 UNIPROT:Q9GZZ9 GENECARDS:UBA5 REACTOME:253490 KEGG:79876 ATLASONC:GC_UBA5 WIKI:UBA5 </p> <p>ubiquitin-like modifier activating enzyme 6</p> <p>HUGO:UBA6 HGNC:25581 ENTREZ:55236 UNIPROT:A0AVT1 GENECARDS:UBA6 REACTOME:253493 KEGG:55236 WIKI:UBA6 </p> <p>ubiquitin-like modifier activating enzyme 7</p> <p>HUGO:UBA7 HGNC:12471 ENTREZ:7318 UNIPROT:P41226 GENECARDS:UBA7 REACTOME:66721 KEGG:7318 ATLASONC:GC_UBA7 WIKI:UBA7 </p> <p>ubiquitin-like modifier activating enzyme 3</p> <p>HUGO:UBA3 HGNC:12470 ENTREZ:9039 UNIPROT:Q8TBC4 GENECARDS:UBA3 REACTOME:155454 KEGG:9039 ATLASONC:GC_UBA3 WIKI:UBA3 </p> <p>ENREZ:79876</p> <p>POC20 "POC20 centriolar protein homolog (Chlamydomonas)" "UBA1 ubiquitin-activating enzyme E1 homolog (yeast)" UBE1X</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> <p>PMID:19352404</p> </body> </html> </notes> <label text="E1*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19741.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa632_wca1_wca1_sa629"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="80.0" h="40.0" x="20990.113" y="19403.053"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa460_wca1_wca1_sa460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis)</p> <p>HUGO:COPS6 HGNC:21749 ENTREZ:10980 UNIPROT:Q7L5N1 GENECARDS:COPS6 KEGG:10980 ATLASONC:GC_COPS6 WIKI:COPS6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN6*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19529.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa465_wca1_wca1_sa465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase D1</p> <p>HUGO:PRKD1 HGNC:9407 ENTREZ:5587 UNIPROT:Q15139 GENECARDS:PRKD1 REACTOME:58211 KEGG:5587 ATLASONC:PRKCMID41860ch14q11 WIKI:PRKD1 </p> <p>protein kinase D2</p> <p>HUGO:PRKD2 HGNC:17293 ENTREZ:25865 UNIPROT:Q9BZL6 GENECARDS:PRKD2 KEGG:25865 ATLASONC:GC_PRKD2 WIKI:PRKD2 </p> <p>protein kinase D3</p> <p>HUGO:PRKD3 HGNC:9408 ENTREZ:23683 UNIPROT:O94806 GENECARDS:PRKD3 KEGG:23683 ATLASONC:GC_PRKD3 WIKI:PRKD3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19576224</p> </body> </html> </notes> <label text="PKD*"/> <bbox w="80.0" h="40.0" x="21073.56" y="19447.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa452_wca1_wca1_sa452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-conjugating enzyme E2A</p> <p>HUGO:UBE2A HGNC:12472 ENTREZ:7319 UNIPROT:P49459 GENECARDS:UBE2A REACTOME:66747 KEGG:7319 ATLASONC:GC_UBE2A WIKI:UBE2A </p> <p>ubiquitin-conjugating enzyme E2B</p> <p>HUGO:UBE2B HGNC:12473 ENTREZ:7320 UNIPROT:P63146 GENECARDS:UBE2B REACTOME:66729 KEGG:7320 ATLASONC:GC_UBE2B WIKI:UBE2B </p> <p>ubiquitin-conjugating enzyme E2C</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:TLS, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="RAD6*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19741.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa630_wca1_wca1_sa630"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="80.0" h="40.0" x="21072.113" y="19401.053"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa454_wca1_wca1_sa454"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neural precursor cell expressed developmentally down-regulated 8</p> <p>HUGO:NEDD8 HGNC:7732 ENTREZ:4738 UNIPROT:Q15843 GENECARDS:NEDD8 KEGG:4738 ATLASONC:GC_NEDD8 WIKI:NEDD8</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:NER, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15688063</p> </body> </html> </notes> <label text="NEDD8"/> <bbox w="80.0" h="40.0" x="21074.56" y="19784.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa448_wca1_wca1_sa448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="20991.56" y="19655.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa458_wca1_wca1_sa458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 4 (Arabidopsis)</p> <p>HUGO:COPS4 HGNC:16702 ENTREZ:51138 UNIPROT:Q9BT78 GENECARDS:COPS4 KEGG:51138 ATLASONC:GC_COPS4 WIKI:COPS4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN4*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19613.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa450_wca1_wca1_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="20991.56" y="19698.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa449_wca1_wca1_sa449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2 HGNC:10901 ENTREZ:6502 UNIPROT:Q13309 GENECARDS:SKP2 REACTOME:405589 KEGG:6502 ATLASONC:GC_SKP2 WIKI:SKP2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15688063</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19655.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa455_wca1_wca1_sa455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein </p> <p>HUGO:GPS1 HGNC:4549 ENTREZ:2873 UNIPROT:Q13098 GENECARDS:GPS1 KEGG:2873 ATLASONC:GC_GPS1 WIKI:GPS1 </p> <p>HUGO:GPS2 HGNC:4550 ENTREZ:2874 UNIPROT:Q13227 GENECARDS:GPS2 KEGG:2874 WIKI:GPS2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN1*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19571.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa132_wca1_wca1_sa132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19826.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa135_wca1_wca1_sa135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20991.56" y="19872.5"/> <glyph class="state variable" id="_e434ace0-dc31-4f5f-ad0c-615b4e0c229a"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20979.553" y="19867.5"/> </glyph> <glyph class="state variable" id="_04780884-5b0a-4250-8235-b697e2326dfb"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20974.06" y="19907.22"/> </glyph> <glyph class="state variable" id="_bc6ba5b7-b2a0-4582-83d5-88434694fa04"> <state value="P" variable="S1505"/> <bbox w="40.0" h="10.0" x="21050.941" y="19907.5"/> </glyph> <glyph class="state variable" id="_da558a0d-41c7-493c-a68b-0333e08adaf8"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20974.553" y="19867.5"/> </glyph> <glyph class="state variable" id="_ed32dfa3-dbf7-4717-a19a-77156c9a8bda"> <state value="P" variable="S1504"/> <bbox w="40.0" h="10.0" x="21051.56" y="19867.713"/> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:20430953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa134_gf1_sa134"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HBEGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20430953"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa412_in_sa412"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22683124"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19454690"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Conjugate_formation"/> <bbox w="260.0" h="75.0" x="16090.0" y="7962.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1533_in_sa1533" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10734131, 11672593, 16283355, 12811837., 12803886, 11964313, 12032143 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCCASCADE:MIF, CASCADE:TLR2_4, CASCADE:IFNGMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSReferences:PMID:11964313, PMID:11672593, PMID:12032143, PMID:12811837.INFG upregulates mRNA level and surface expression of TLR4 and TLR2.PMID:10734131, PMID:12803886, PMID:16283355MIF upregulates expression of TLR4 in macrothages via PU.1 (SPI1) activation via PU.1 (SPI1) activation; PU.1 (SPI1) together with IRF8 relulates TLR4 expression in myeloid cells ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 10734131, 11672593, 16283355, 12811837., 12803886, 11964313, 12032143 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCCASCADE:MIF, CASCADE:TLR2_4, CASCADE:IFNGMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSReferences:PMID:11964313, PMID:11672593, PMID:12032143, PMID:12811837.INFG upregulates mRNA level and surface expression of TLR4 and TLR2.PMID:10734131, PMID:12803886, PMID:16283355MIF upregulates expression of TLR4 in macrothages via PU.1 (SPI1) activation via PU.1 (SPI1) activation; PU.1 (SPI1) together with IRF8 relulates TLR4 expression in myeloid cells </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1533_in_sa1533"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10734131"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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</head> <body> <p>NAME:DR4/5*:TRAIL*</p> <p>References:</p> <p>TRAIL*:DR4/5*</p> </body> </html> </notes> <label text="TRAIL*/DR4/5*"/> <bbox w="100.0" h="133.0" x="24169.06" y="9096.5"/> <glyph class="macromolecule" id="s_id_rc_sa3829_rc_sa3829"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="24179.06" y="9151.5"/> <glyph class="state variable" id="_1bcc1c1d-7442-40f9-8230-184148dd0fbe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24254.06" y="9171.5"/> </glyph> <glyph class="state variable" id="_83fdbbb9-3365-4d76-9888-c1b39d62dbce"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24214.06" y="9196.5"/> </glyph> <glyph class="unit of information" id="_48746060-3d05-48f3-858f-b3b084cd976a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24196.56" y="9146.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3828_rc_sa3828"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="24179.06" y="9106.5"/> </glyph> </glyph> <glyph 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compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI1:MSIN3*:SAP18:SUFU:promoter_region</p> <p>References:</p> <p>s_shh2_re81:(MAP:survival) PMID:11960000</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa12_shh1_shh2_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11960000"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sin3 homologue A transcription regulator</p> <p>HUGO:SIN3A HGNC:19353 ENTREZ:25942 UNIPROT:Q96ST3 GENECARDS:SIN3A REACTOME:101853 ATLASONC:GC_SIN3A WIKI:SIN3A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="MSIN3*"/> <bbox w="80.0" h="40.0" x="26196.31" y="22160.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa124_shh1_shh2_sa124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 1</p> <p>HUGO:GLI1 HGNC:4317 ENTREZ:2735 UNIPROT:P08151 GENECARDS:GLI1 KEGG:2735 ATLASONC:GLIID310ch12q13 WIKI:GLI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="26196.06" y="22007.0"/> <glyph class="state variable" id="_4168ad3a-c25d-48cd-a6a6-7d4e6ed92ca8"> <state value="" variable="K518"/> <bbox w="30.0" h="10.0" x="26204.035" y="22042.0"/> </glyph> <glyph class="state variable" id="_e9aba42a-100c-488a-baf5-d4df199222e0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26188.564" y="22002.0"/> </glyph> <glyph class="state variable" id="_629e5ef2-3ce5-4efa-95d2-6389113ed58d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26191.064" y="22042.0"/> </glyph> <glyph class="state variable" id="_6cb454ec-dbc6-444f-8a81-b6bc53aea15c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26271.06" y="22042.0"/> </glyph> <glyph class="state variable" id="_6ab3a4ee-b4b6-4935-ac3b-b065e2491d5f"> <state value="" variable="T374"/> <bbox w="30.0" h="10.0" x="26260.441" y="22042.0"/> </glyph> <glyph class="state variable" id="_615af045-9f81-43f2-bf5f-260490f98eb0"> <state value="" variable="S640"/> <bbox w="30.0" h="10.0" x="26181.06" y="22041.72"/> </glyph> <glyph class="state variable" id="_cb4435f7-c4c4-4d41-b010-7b44a91a6b1f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26268.56" y="22002.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa126_shh1_shh2_sa126"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sin3A-associated protein 18 kDa</p> <p>HUGO:SAP18 HGNC:10530 ENTREZ:10284 UNIPROT:O00422 GENECARDS:SAP18 KEGG:10284 ATLASONC:GC_SAP18 WIKI:SAP18</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="SAP18"/> <bbox w="80.0" h="40.0" x="26196.31" y="22120.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa125_shh1_shh2_sa125"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="26196.56" y="22079.5"/> <glyph class="state variable" id="_52b46c07-728e-4ea8-b6b3-d4c9463ac5f0"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="26182.053" y="22074.5"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1091_ca_sa1091" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:22101652; PMID:19923890</p> <p>The M1 or M2 splice isoforms of pyruvate kinase (PK), a mandatory regulatory glycolytic enzyme, shift glucose metabolism towards aerobic glycolysis (PKM2) or oxidative phosphorylation (PKM1)</p> <p>PKM2 and lactate dehydrogenase are highly expressed in the stroma of breast cancer lacking caveolin-1 expression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1091_ca_sa1091"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22101652"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19923890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Phosphoenolpyruvate"/> <bbox w="70.0" h="25.0" x="2715.0" y="4527.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa516_rc_csa516" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NFKB*:NFKBIA</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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text="PPi"/> <clone/> <bbox w="70.0" h="25.0" x="26524.06" y="9816.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa455_rc_csa455" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATG12:ATG5</p> <p>References:</p> <p>23725295</p> <p>PMID:24070470</p> <p>PMID:22166994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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x="22253.56" y="22230.213"/> </glyph> <glyph class="state variable" id="_6ea28640-2312-43c8-ba0b-a4441ed87665"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22252.941" y="22270.0"/> </glyph> <glyph class="state variable" id="_a5e90f5f-0e93-4c8b-ab5f-04799146aba0"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="22258.56" y="22230.0"/> </glyph> <glyph class="state variable" id="_84e8f7b4-0acb-4408-8937-0227362f7366"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="22178.564" y="22230.0"/> </glyph> <glyph class="state variable" id="_04d23565-56ac-4846-a69e-0789b71de31a"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22176.06" y="22269.72"/> </glyph> <glyph class="state variable" id="_6c2b04d7-3b67-4a45-990b-b0c6fd999e29"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22215.965" y="22270.0"/> </glyph> <glyph class="state variable" id="_c1fb5875-a7ce-4265-a9e1-2cc2e93ae538"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22255.441" y="22270.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1235_in_sa1235" compartmentRef="s_id_in_ca12_in_ca12"> <label text="trILB1"/> <bbox w="80.0" h="40.0" x="12930.0" y="6680.0"/> <glyph class="unit of information" id="_a0265a98-6740-4dad-bcfb-1f6ab755dfff"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="12945.0" y="6675.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa135_gf1_sa135" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:20430953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa135_gf1_sa135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPGN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20430953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EPGN"/> <bbox w="80.0" h="40.0" x="9055.561" y="17629.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa203_an_sa203" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa203_an_sa203"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AGK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AGK"/> <bbox w="80.0" h="40.0" x="4349.0" y="7110.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa292_te_sa292" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>makorin ring finger protein 1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:15805468</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa292_te_sa292"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MKRN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15805468"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MKRN1"/> <bbox w="80.0" h="40.0" x="5613.06" y="20312.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa24_shh1_shh2_csa24" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:KCASH3*</p> </body> </html> </notes> <label text="CUL3_KCASH3"/> <bbox w="100.0" h="120.0" x="26093.56" y="21529.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa209_shh1_shh2_sa209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>KCASH3</p> <p>HUGO:KCTD6 HGNC:22235 ENTREZ:200845 UNIPROT:Q8NC69 GENECARDS:KCTD6 KEGG:200845 ATLASONC:GC_KCTD6 WIKI:KCTD6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21472142</p> </body> </html> </notes> <label text="KCASH3*"/> <bbox w="80.0" h="40.0" x="26102.56" y="21584.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa207_shh1_shh2_sa207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618 GENECARDS:CUL3 REACTOME:53166 KEGG:8452 ATLASONC:GC_CUL3 WIKI:CUL3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17312394</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="26102.56" y="21542.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2516_rc_sa2516" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2516_rc_sa2516"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATPAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATPAF1"/> <bbox w="80.0" h="40.0" x="20325.81" y="13884.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa104_an_sa104" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:10625301</p> <p>PMID:11532940</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa104_an_sa104"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10625301"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <clone/> <bbox w="80.0" h="40.0" x="7268.0" y="6651.0"/> <glyph class="state variable" id="_620fb603-220d-49c9-90bd-7cc8ec90d278"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7319.5684" y="6686.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa104_an_sa380" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:10625301</p> <p>PMID:11532940</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa104_an_sa380"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10625301"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <clone/> <bbox w="80.0" h="40.0" x="5302.0" y="6405.0"/> <glyph class="state variable" id="_63fc3bbf-3970-43eb-9ab6-5d5e5881647d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5353.5684" y="6440.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa837_in_sa837" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="SHIP1*"/> <bbox w="90.0" h="25.0" x="10923.5" y="2947.5"/> <glyph class="unit of information" id="_ef8075db-0fcd-4878-81b5-172009c837a0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10958.5" y="2942.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa34_mo_sa34" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Mdm2 p53 binding protein homolog (mouse)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa34_mo_sa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <bbox w="80.0" h="40.0" x="4315.0" y="9884.0"/> <glyph class="state variable" id="_86bbb6db-e0d3-4413-93fd-909fe16b20a7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4366.5684" y="9879.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa58_ce_csa58" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EME1:MUS81:SNM1B*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:HR</p> </body> </html> </notes> <label text="EME1/MUS81/SNM1B*"/> <bbox w="123.0" h="166.0" x="14491.473" y="17196.355"/> <glyph class="macromolecule" id="s_id_ce_sa626_ce_sa626"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>essential meiotic endonuclease 1 homolog 1 (S. pombe)</p> <p>HUGO:EME1, HGNC:24965, ENTREZ:146956, UNIPROT:Q96AY2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="EME1"/> <bbox w="80.0" h="40.0" x="14521.748" y="17252.475"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa627_ce_sa627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MUS81 endonuclease homolog (S. cerevisiae)</p> <p>HUGO:MUS81, HGNC:29814, ENTREZ:80198, UNIPROT:Q96NY9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258, PMID:22101340</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MUS81"/> <bbox w="80.0" h="40.0" x="14523.748" y="17294.475"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa628_ce_sa628"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA cross-link repair 1B (PSO2 homolog, S. cerevisiae)</p> <p>HUGO:DCLRE1B, HGNC:17641, ENTREZ:64858, UNIPROT:Q9H816</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:20655466, PMID:18469862</p> </body> </html> </notes> <label text="SNM1B*"/> <bbox w="80.0" h="40.0" x="14523.473" y="17207.355"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa129_emtc_em_sa129" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa129_emtc_em_sa129"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fibronectin*"/> <bbox w="69.0" h="21.0" x="3061.0" y="17545.938"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa973_ca_sa973" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>PMID:21753853 </p> <p> The ability of hypoxic medium to recruit preferentially CD4+CD25+FOXP3+ cells was abrogated by antibody that neutralized human CCL28</p> <p>(no data that they are produced by fibroblasts)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa973_ca_sa973"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL28"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21753853"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL28"/> <bbox w="80.0" h="40.0" x="402.5" y="4674.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa122_ce_sa122" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0C_NHEJ:DNA:st4 DNA with processed (ligatable) ends, gap-filled by POLG or POLM Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:C_NHEJReferences:PMID:24050180 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0C_NHEJ:DNA:st4 DNA with processed (ligatable) ends, gap-filled by POLG or POLM Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:C_NHEJReferences:PMID:24050180 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa122_ce_sa122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="C_NHEJ_DNA_st4*"/> <bbox w="150.0" h="26.0" x="12742.974" y="16621.988"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3080_rc_sa3080" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3080_rc_sa3080"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC38A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC38A3"/> <bbox w="80.0" h="40.0" x="17689.06" y="12119.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1002_rc_sa1002" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1002_rc_sa1002"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3α*"/> <bbox w="80.0" h="40.0" x="25404.56" y="10878.0"/> <glyph class="state variable" id="_0476750f-6e26-42cc-86d2-970418eaa74e"> <state value="P" variable="S21"/> <bbox w="30.0" h="10.0" x="25409.643" y="10873.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa528_rc_csa528" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARP1:p53*</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>PMID:24684389</p> <p>PMID:27048819Identifiers_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa528_rc_csa528"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24684389"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048819Identifiers_end"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53*:PARP1"/> <bbox w="100.0" h="120.0" x="20599.06" y="16889.0"/> <glyph class="macromolecule" id="s_id_rc_sa5230_rc_sa5230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53</p> <p>HUGO:TP53 HGNC:11998 ENTREZ:7157 UNIPROT:P04637</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:PENTOSE_PHOSPHATE_PATHWAY, MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:PCD_GENES, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="p53*"/> <bbox w="80.0" h="40.0" x="20609.06" y="16899.0"/> <glyph class="state variable" id="_d4a12f77-5a8e-49dd-82ec-defa639cc686"> <state value="P" variable="S15"/> <bbox w="30.0" h="10.0" x="20651.01" y="16894.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5229_rc_sa5229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1 HGNC:270 ENTREZ:142 UNIPROT:P09874</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:PARTHANATOS, MODULE:AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:17116881</p> <p>PMID:24684389</p> <p>PARP-1 becomes overactivated and produces toxic</p> <p>levels of PAR, which translocates to the cytosol, from where it</p> <p>signals to AIF to effect its nuclear translocation</p> <p>PMID:24976506</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="80.0" h="40.0" x="20609.06" y="16949.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3748_rc_sa3748" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3748_rc_sa3748"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALOX12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALOX12"/> <bbox w="80.0" h="40.0" x="21089.06" y="10889.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4650_rc_sa4650" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4650_rc_sa4650"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR31"/> <clone/> <bbox w="90.0" h="25.0" x="21810.06" y="15642.5"/> <glyph class="unit of information" id="_1c9f93da-d3af-49c3-83cd-83afe68e04b3"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21840.06" y="15637.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4650_ca_sa889" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4650_ca_sa889"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR31"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR31"/> <clone/> <bbox w="90.0" h="25.0" x="2875.0" y="2807.5"/> <glyph class="unit of information" id="_e8e11452-a3b4-4fcc-b419-98f806f94203"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2905.0" y="2802.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa707_ca_sa707" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFB, CASCADE:IL1, CASCADE:TNFPMID:24857661 ;PMID:8432990TGF-β1-stimulated hDF was thus assessed by quantitative real-time PCR, that disclosed a 100-fold increase of LIF and 5-fold increase of IL6 mRNA steady-state levels ( Figure 2B).PMID:8432990TNF, IL1A induces LIF gene expression and protein level. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:TGFB, CASCADE:IL1, CASCADE:TNFPMID:24857661 ;PMID:8432990TGF-β1-stimulated hDF was thus assessed by quantitative real-time PCR, that disclosed a 100-fold increase of LIF and 5-fold increase of IL6 mRNA steady-state levels ( Figure 2B).PMID:8432990TNF, IL1A induces LIF gene expression and protein level. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa707_ca_sa707"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24857661"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8432990"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8432990"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24857661"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8432990"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8432990"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIF"/> <bbox w="70.0" h="25.0" x="475.0" y="3168.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa870_rc_sa870" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17794 KEGGCOMPOUND:C00197</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="glycerate-3P"/> <clone/> <bbox w="70.0" h="25.0" x="18704.06" y="10726.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa870_rc_sa5346" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17794 KEGGCOMPOUND:C00197</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="glycerate-3P"/> <clone/> <bbox w="85.0" h="23.0" x="26014.06" y="10226.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa104_wca1_wca3_sa104" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</rdf:RDF> </annotation> </extension> <label text="GSK3*"/> <clone/> <bbox w="80.0" h="40.0" x="18910.06" y="19464.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa197_wnc1_wnc4_sa76" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa197_wnc1_wnc4_sa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3*"/> <clone/> <bbox w="80.0" h="40.0" x="18501.06" y="22239.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa197_wnc1_wnc4_sa73" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa197_wnc1_wnc4_sa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3*"/> <clone/> <bbox w="80.0" h="40.0" x="18501.06" y="22134.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa90_ad_csa90" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21059766</p> <p>The TCR of αβ T cells is composed of the ligand-binding subunits TCRα and TCRβ, which form the disulfide-linked TCRαβ heterodimer, non-covalently bound to the signal transducing CD3 subunits [CD3γ, CD3δ, CD3ε and CD3ζ (CD247)].</p> <p>PMID:23886063 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa90_ad_csa90"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21059766"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s4356"/> <bbox w="119.0" h="210.0" x="28526.625" y="3067.0"/> <glyph class="macromolecule" id="s_id_ad_sa811_ad_sa811"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD3E</p> <p>HUGO:CD3G</p> <p>HUGO:CD3D</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> </body> </html> </notes> <label text="CD3*"/> <bbox w="80.0" h="50.0" x="28545.375" y="3152.0"/> <glyph class="state variable" id="_6b0b5272-af43-45b8-b8af-cf7bcbfe9e4e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28537.875" y="3172.0"/> </glyph> <glyph class="unit of information" id="_908ce4d7-0a2b-4984-9021-a92591658776"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28562.875" y="3147.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa812_ad_sa812"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD247</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> <p>TCR–CD3 complex is lolalized in the central part of immunological synapse.</p> <p>PMID:21059766</p> <p>The TCR of αβ T cells is composed of the ligand-binding subunits TCRα and TCRβ, which form the disulfide-linked TCRαβ heterodimer, non-covalently bound to the signal transducing CD3 subunits [CD3γ, CD3δ, CD3ε and CD3ζ (CD247)].</p> <p>PMID:11353765 </p> </body> </html> </notes> <label text="CD247"/> <bbox w="80.0" h="50.0" x="28545.375" y="3112.0"/> <glyph class="state variable" id="_f4fc44b1-df34-4fec-88aa-9763aaf3bb67"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28537.875" y="3132.0"/> </glyph> <glyph class="state variable" id="_6e55248b-0da6-4147-b255-4011c4f593fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28620.375" y="3133.469"/> </glyph> <glyph class="unit of information" id="_6f07c54a-58f7-43ff-a082-0bfb6f36a91a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28562.875" y="3107.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa810_ad_sa810"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TRA</p> <p>HUGO:TRB</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> <p>TCR–CD3 complex is localized in the central part of immunological synapse.</p> <p>PMID:21059766</p> </body> </html> </notes> <label text="alpha_/beta_TCR*"/> <bbox w="80.0" h="50.0" x="28545.375" y="3072.0"/> <glyph class="unit of information" id="_27d595cd-22cc-4e91-896f-85fced6d92e5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28562.875" y="3067.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa813_ad_sa813"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ZAP70</p> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:SMAC</p> <p>PMID:23620508</p> <p>ZAP70 (ζ-chain-associated protein of 70 kDa) is a tyrosine-protein kinase from the Syk family that docks at phosphorylated ITAMs of the TCR. Docking, subsequent phosphorylation by Lck and trans-autophosphorylation all increase kinase activity. 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id="_86e0fb34-64db-47f6-85db-d848b2f4de2e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28537.875" y="3232.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa106_mpk1_mpk1_csa106" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DUSP1:JNK*</p> </body> </html> </notes> <label text="DUSP1:JNK*"/> <bbox w="105.0" h="86.0" x="9765.061" y="20542.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa549_mpk1_mpk1_sa549"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 8</p> <p>PRKM8</p> <p>HUGO:MAPK8 HGNC:6881 ENTREZ:5599 UNIPROT:P45983 </p> <p>mitogen-activated protein kinase 9</p> <p>PRKM9</p> <p>HUGO:MAPK9 HGNC:6886 ENTREZ:5601 UNIPROT:P45984 </p> <p>mitogen-activated protein kinase 10</p> <p>PRKM10</p> <p>HUGO:MAPK10 HGNC:6872 ENTREZ:5602 UNIPROT:P53779</p> <p>Map modules:</p> </body> </html> </notes> <label text="JNK*"/> <bbox w="62.0" h="25.0" x="9795.061" y="20576.857"/> <glyph class="state variable" id="_d23de0d4-d6ec-4a21-bdb7-699174afc343"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9790.061" y="20589.11"/> </glyph> <glyph class="state variable" id="_db4591dc-92a6-43b7-a9e1-341e5458fd14"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9790.061" y="20579.605"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa547_mpk1_mpk1_sa547"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dual specificity phosphatase 1</p> <p>PTPN10</p> <p>HUGO:DUSP1 HGNC:3064 ENTREZ:1843 UNIPROT:P28562</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MKP-1 (DUSP1) preferentially 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RIPK3"/> <bbox w="80.0" h="40.0" x="22372.06" y="9894.25"/> <glyph class="state variable" id="_15b1b29f-db33-4059-9bf9-8714e9ae8b66"> <state value="" variable="S199"/> <bbox w="30.0" h="10.0" x="22414.01" y="9889.25"/> </glyph> <glyph class="state variable" id="_4bf7e715-752e-4cd8-92b6-2bac14523fdf"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="22357.553" y="9889.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2025_em_sa2025" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2025_em_sa2025"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="α-Catenin*"/> <bbox w="69.0" h="18.0" x="1443.5" y="13828.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa56_wca1_wca1_csa56" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JBN*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca1_re57(MAP:survival):</p> <p>PMID:19718039 PMID:21602792 </p> <p>In presence of WNT ligand</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa56_wca1_wca1_csa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19718039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21602792"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JBN*:β-Catenin*"/> <bbox w="100.0" h="120.0" x="20812.06" y="18445.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa539_wca1_wca1_sa539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Abelson helper integration site 1</p> <p>HUGO:AHI1 HGNC:21575 ENTREZ:54806 UNIPROT:Q8N157 GENECARDS:AHI1 KEGG:54806 ATLASONC:GC_AHI1 WIKI:AHI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19718039</p> </body> </html> </notes> <label text="JBN*"/> <bbox w="80.0" h="40.0" x="20823.06" y="18503.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa538_wca1_wca1_sa538"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20823.31" y="18460.0"/> <glyph class="state variable" id="_4f2a098a-f38e-40f3-827b-afe05fbae63a"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20888.31" y="18455.213"/> </glyph> <glyph class="state variable" id="_730e6e2b-9410-4593-bde8-6e9a5d4aacd4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20837.527" y="18455.0"/> </glyph> <glyph class="state variable" id="_17711779-ad6f-4fbe-ae64-5721e71c1c78"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20808.803" y="18455.0"/> </glyph> <glyph class="state variable" id="_13e9770e-e0fe-4dbb-b04b-e842b84c4012"> <state value="" variable="S37"/> <bbox w="25.0" h="10.0" x="20890.81" y="18455.213"/> </glyph> <glyph class="state variable" id="_5ee8cea4-4ab6-4069-9011-5fb2c54d1db1"> <state value="" variable="S33"/> <bbox w="25.0" h="10.0" x="20850.842" y="18455.0"/> </glyph> <glyph class="state variable" id="_f1b6d002-ac37-41a7-8312-9968c4de19e4"> <state value="" variable="K345"/> <bbox w="30.0" h="10.0" x="20888.31" y="18455.213"/> </glyph> <glyph class="state variable" id="_b7d3d9ed-8ad5-4036-b803-276bee203045"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="20811.303" y="18455.0"/> </glyph> <glyph class="state variable" id="_8fac963e-8a2e-4cd6-b7be-b0ae840ba02f"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="20810.81" y="18494.72"/> </glyph> <glyph class="state variable" id="_f8c7444b-ac35-49b8-81b1-30c611781c9f"> <state value="" variable="T41"/> <bbox w="25.0" h="10.0" x="20890.191" y="18495.0"/> </glyph> <glyph class="state variable" id="_ebff0c7a-232c-4f0b-9a1c-1fba7341a50d"> <state value="" variable="S45"/> <bbox w="25.0" h="10.0" x="20850.715" y="18495.0"/> </glyph> <glyph class="state variable" id="_122cd6c6-e7cf-4232-bbbe-b316dde55a4b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20818.31" y="18461.271"/> </glyph> <glyph class="state variable" id="_4dfb2216-e8ca-4d14-9fb9-33e792e7f476"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20818.31" y="18472.96"/> </glyph> <glyph class="state variable" id="_86fa8b58-ec6d-4d25-b8a3-09ed4cf4df19"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20818.31" y="18466.508"/> </glyph> <glyph class="state variable" id="_d818970b-8fa5-4f2e-8c9f-3042826797b8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20818.31" y="18474.969"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa956_ad_sa956" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:17462996</p> <p>Following TCR ligation, a small portion of total cellular caspase-8 and c-FLIP(L) rapidly migrate to lipid rafts where they associate in an active caspase complex. Activation of caspase-8 in lipid rafts is followed by rapid cleavage of c-FLIP(L) at a known caspase-8 cleavage site. The active caspase.c-FLIP complex forms in the absence of Fas (CD95/APO1) and associates with the NF-kappaB signaling molecules RIP1, TRAF2, and TRAF6, as well as upstream NF-kappaB regulators PKC theta, CARMA1, Bcl-10, and MALT1, which connect to the TCR.</p> <p>PMID:19392652 </p> <p>Siva-1 promotes K-48 polyubiquitination of TRAF2 and inhibits TCR-mediated activation of NF-kappaB.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa956_ad_sa956"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17462996"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19392652"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="28836.0" y="4475.0"/> <glyph class="state variable" id="_b0e35551-f079-45b9-a0d2-9d1798ff3db4"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="28826.0" y="4490.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa33_te_csa33" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RNA_polymerase_II</p> <p>ALT_NAME:PLR2A/PLR2B/POLR2C/POLR2D/POLR2E/POLR2F/POLR2G/POLR2H/POLR2I/POLR2J/POLR2J2/POLR2J3/POLR2K/POLR2L</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:9201987, PMID:10567706</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa33_te_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9201987"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10567706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label 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<body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="POLR2H"/> <bbox w="80.0" h="40.0" x="6872.06" y="22227.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa257_te_sa257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="POLR2J2"/> <bbox w="80.0" h="40.0" x="6782.06" y="22277.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa261_te_sa261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="POLR2I"/> <bbox w="80.0" h="40.0" x="6602.06" y="22277.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa259_te_sa259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="POLR2F"/> <bbox w="80.0" h="40.0" x="6692.06" y="22227.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa260_te_sa260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="POLR2G"/> <bbox w="80.0" h="40.0" x="6782.06" y="22227.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa255_te_sa255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="POLR2B"/> <bbox w="80.0" h="40.0" x="6692.06" y="22178.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa258_te_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="POLR2E"/> <bbox w="80.0" h="40.0" x="6602.06" y="22227.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1787_rc_sa1787" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1787_rc_sa1787"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAF1"/> <bbox w="80.0" h="40.0" x="22369.06" y="11429.0"/> </glyph> <glyph class="complex" id="s_id_em_csa322_em_csa322" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:p27KIP1*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK2/p27KIP1*"/> <bbox w="112.0" h="71.0" x="3411.0" y="13948.0"/> <glyph class="macromolecule" id="s_id_em_sa2150_em_sa2150"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, GENECARDS:GC12P056360, UNIPROT:P24941 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="40.0" h="20.0" x="3445.2222" y="13974.333"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2149_em_sa2149"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B, HGNC:1785, ENTREZ:1027, GENECARDS:GC12P012867, UNIPROT:P46527 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:24954210</p> <p>p27, p16 and p15 inhibits CDK4_6. This induces a G1 cell cycle arrest.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="64.0" h="20.0" x="3435.2222" y="13952.333"/> <glyph class="state variable" id="_8ced235e-2b07-41b6-92ab-31289bd6652c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3430.2222" y="13967.194"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa528_in_sa528" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PLCG2"/> <bbox w="80.0" h="40.0" x="13830.0" y="3070.0"/> <glyph class="state variable" id="_c20abedd-b2fb-4e56-aa17-74a9d8441a44"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13822.5" y="3085.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1149_emtc_em_sa1149" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1149_emtc_em_sa1149"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin2*"/> <bbox w="64.0" h="19.0" x="1127.0" y="15219.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa32_akt1_akt2_csa32" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO4:IMPORTIN*</p> <p>References:</p> <p>s_akt2_re114:(MAP:survival) PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa32_akt1_akt2_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO4:IMPORTIN*"/> <bbox w="100.0" h="120.0" x="11865.061" y="20752.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa215_akt1_akt2_sa215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>importin 4</p> <p>HUGO:IPO4 HGNC:19426 ENTREZ:79711 UNIPROT:Q8TEX9 GENECARDS:IPO4 KEGG:79711 ATLASONC:GC_IPO4 WIKI:IPO4 </p> <p>importin 5</p> <p>HUGO:IPO5 HGNC:6402 ENTREZ:3843 UNIPROT:O00410 GENECARDS:IPO5 REACTOME:57347 KEGG:3843 ATLASONC:GC_IPO5 WIKI:IPO5 </p> <p>importin 7</p> <p>HUGO:IPO7 HGNC:9852 ENTREZ:10527 UNIPROT:O95373 GENECARDS:IPO7 KEGG:10527 ATLASONC:GC_IPO7 WIKI:IPO7 </p> <p>importin 8</p> <p>HUGO:IPO8 HGNC:9853 ENTREZ:10526 UNIPROT:O15397 GENECARDS:IPO8 KEGG:10526 ATLASONC:GC_IPO8 WIKI:IPO8 </p> <p>importin 9</p> <p>HUGO:IPO9 HGNC:19425 ENTREZ:55705 UNIPROT:Q96P70 GENECARDS:IPO9 KEGG:55705 WIKI:IPO9 </p> <p>importin 11</p> <p>HUGO:IPO11 HGNC:20628 ENTREZ:51194 UNIPROT:Q9UI26 GENECARDS:IPO11 KEGG:51194 ATLASONC:GC_IPO11 WIKI:IPO11 </p> <p>importin 13</p> <p>HUGO:IPO13 HGNC:16853 ENTREZ:9670 UNIPROT:O94829 GENECARDS:IPO13 KEGG:9670 ATLASONC:GC_IPO13 WIKI:IPO13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="IMPORTIN*"/> <bbox w="80.0" h="40.0" x="11872.561" y="20806.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa212_akt1_akt2_sa212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O4</p> <p>HUGO:FOXO4 HGNC:7139 ENTREZ:4303 UNIPROT:P98177 GENECARDS:FOXO4 REACTOME:404982 KEGG:4303 ATLASONC:AFX1ID57 WIKI:FOXO4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="11873.561" y="20762.0"/> <glyph class="state variable" id="_d2275a4e-24f8-4ab6-8b4d-0e6e3d2c9fc3"> <state value="" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa763_ad_sa763"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK*"/> <bbox w="80.0" h="40.0" x="27202.5" y="4953.0"/> <glyph class="state variable" id="_9252f901-34d4-48aa-b871-79c994f14d24"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27195.0" y="4967.9683"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa469_rc_sa469" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa469_rc_sa469"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX4I2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX4I2"/> <bbox w="80.0" h="40.0" x="19555.81" y="13514.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2747_rc_sa2747" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MI34*:WNT1</p> <p>References:</p> <p>s_wca3_re52:(MAP:survival) PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa25_wca1_wca3_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MI34*:WNT1"/> <bbox w="100.0" h="120.0" x="21168.06" y="22131.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa176_wca1_wca3_sa176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>INT1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL, MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> <p>wingless-type MMTV integration site family member 1</p> <p>INT1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1</p> <p>Map modules:</p> </body> </html> </notes> <label text="WNT1"/> <bbox w="90.0" h="25.0" x="21172.56" y="22166.5"/> <glyph class="unit of information" id="_1b57b365-f256-4a33-9207-3fcca08431ed"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21207.56" y="22161.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa175_wca1_wca3_sa175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Its the miR34 family depcited here</p> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> 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<p>NAME:TGFB*:TGFBR1:TGFBR2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>15265520, 11792802, 12809600</p> <p>The canonical TGFB signalling pathway involves phosphorylation of the carboxy-terminal serine residue of the internal modulator SMAD proteins, </p> <p>SMAD2 or SMAD3, by the activated receptors. This phosphorylation induces oligomerization of SMAD2 or SMAD3 with SMAD4, which is necessary for nuclear translocation</p> </body> </html> </notes> <label text="ca_s1320"/> <bbox w="120.0" h="170.0" x="3880.0" y="1005.0"/> <glyph class="macromolecule" id="s_id_ca_sa265_ca_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 2</p> <p>HUGO:TGFBR2 hgnc_id:HGNC:11773 HGNC:11773 ENTREZ:7048 UNIPROT:P37173</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS, MODULE:CAF</p> <p>CASCADE:TGFB</p> <p>References:</p> <p>PMID:24132110,PMID:15265520</p> <p>TGFB1, TGFB2, TGFB3 ligands bind to the type 2 TGFβ receptor (TGFBR2), which causes recruitment and phosphorylation of TGFBR1, resulting in downstream signalling activation.</p> <p>PMID:24336330 </p> <p>TGFBR2 in CAFs</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="80.0" h="50.0" x="3900.0" y="1115.0"/> <glyph class="state variable" id="_6ee203f9-05b2-4e92-8196-d32d63734a1e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3895.0" y="1135.0"/> </glyph> <glyph class="unit of information" id="_92c83258-6a49-417b-8b81-84f26f09f04c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3917.5" y="1110.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa267_ca_sa267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 hgnc_id:HGNC:11766 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 </p> <p>transforming growth factor beta 2</p> <p>HUGO:TGFB2 hgnc_id:HGNC:11768 HGNC:11768 ENTREZ:7042 UNIPROT:P61812 </p> <p>transforming growth factor beta 3</p> <p>HUGO:TGFB3 hgnc_id:HGNC:11769 HGNC:11769 ENTREZ:7043 UNIPROT:P10600</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TNF</p> <p>PMID:21098712 </p> <p>Cancer TGFB exosomes trigger fibroblast to myofibroblast differentiation</p> <p>PMID:15653932 </p> <p>Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. Western blot analysis showed that TNF-α activated the extracellular signal–regulated kinase (ERK), and inhibitors of the ERK-specific mitogen-activated protein kinase pathway (PD98059 or U0126) blocked TNF-α induction of TGF-β1</p> <p>PMID:23784029, PMID:16572188, PMID:8515656</p> <p>TGF-β1 treatment successfully transformed primary resting fibroblasts into CAFs</p> <p>PMID:19038247 </p> <p>TGFbeta induces fibroblast collagen biosynthesis downstream of CCL7 and via SMAD3.</p> <p>Thus, ERK, a MAPK family member, phosphorylates serine residues in the linker regions of Smad1–3 and ERK inhibition reduces TGFβ-stimulated Smad phosphorylation as well as collagen biosynthesis, suggesting that ERK activation is necessary for an optimal response to TGFβ [9]. Similarly, p38 MAPK has been shown to be central to TGFβ mediated-collagen and fibronectin expression in SSc fibroblasts [10].</p> <p>PMID:19747910</p> <p>Through paracrine signaling molecules, TGF-beta and IL-1beta, cancer cells activate stromal fibroblasts and induce the expression of fibroblast activation protein (FAP). FAP, in turn, affects the proliferation, invasion and migration of the cancer cells. We report that TGF-beta and IL-1beta are important factors in inducing differentiation of myofibroblasts and expression of functional markers, notably alpha-SMA.</p> <p>PMID:18423981 </p> <p>Differential impact of TGF-beta and EGF on fibroblast differentiation and invasion reciprocally promotes colon cancer cell invasion.</p> <p>PMID:23034983 </p> <p>Inhibition of TGF-beta/Smad signaling by BAMBI blocks differentiation of human mesenchymal stem cells to carcinoma-associated fibroblasts and abolishes their protumor effects</p> <p>PMID:21041659 </p> <p>Autocrine TGF-beta and stromal cell-derived factor-1 (SDF-1) signaling drives the evolution of tumor-promoting mammary stromal myofibroblasts</p> <p>PMID:17768418</p> <p>TGFbeta is responsible for skin tumour infiltration by macrophages enabling the tumours to escape immune destruction.</p> <p>TGFbeta-mediated tumour progression was accompanied by an increase in tumour-associated macrophages (TAM) and a decrease in tumour-infiltrating dendritic cells (DCs). </p> <p>???</p> <p>both TGF-β1 and TGF-β2 are up-regulated in CAFs</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling</p> <p>PMID:15003992 </p> <p> TGF-β-mediated myofibroblast differentiation and proliferation of the NRK fibroblasts are mutually exclusive responses to TGF-β. Differentiation into myofibroblasts appears to be the default pathway whereas proliferation becomes the dominant and sole response when both TGF-β and EGF are present.</p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>PMID:17979848</p> <p>TGF-β promotes the generation and function of Treg cells</p> <p>TGF-β is able to convert CD4+CD25− non-Treg cells into CD4+CD25+ Treg cells, and this conversion was accompanied with increased Foxp3 expression</p> <p>PMID:26201938 </p> <p>The expression levels of cytokine genes, including those for IL6, CXCL8, TNF, TGFB1, and VEGFA, were higher in CAFs. T cell proliferation was suppressed more by CAFs or their supernatants than by NFs.</p> <p>PMID:22874531</p> <p>TGFB treatment induces the autophagy-mediated downregulation of Cav-1 in fibroblasts.</p> </body> </html> </notes> <label text="TGFB*"/> <bbox w="80.0" h="40.0" x="3900.0" y="1020.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa264_ca_sa264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>HUGO:TGFBR1 hgnc_id:HGNC:11772 HGNC:11772 ENTREZ:7046 UNIPROT:P36897</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS, MODULE:CAF</p> <p>CASCADE:TGFB</p> <p>References:</p> <p>PMID:24132110, PMID:15265520</p> <p>TGFB1, TGFB2, TGFB3 ligands bind to the type 2 TGFβ receptor (TGFBR2), which causes recruitment and phosphorylation of TGFBR1, resulting in downstream signalling activation.</p> <p>Map modules:</p> 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h="200.0" x="23815.0" y="4420.0"/> <glyph class="macromolecule" id="s_id_in_sa2886_in_sa2886"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK3"/> <bbox w="80.0" h="40.0" x="23830.0" y="4550.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1903_in_sa1903"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="23920.0" y="4555.0"/> <glyph class="state variable" id="_d7439f99-40b1-4686-8ff1-4d9e9a6f269e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23915.0" y="4570.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1900_in_sa1900"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <bbox w="80.0" h="50.0" x="23915.75" y="4425.0"/> <glyph class="unit of information" id="_3999edbc-e616-421f-88a5-c496171aa238"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23933.25" y="4420.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1899_in_sa1899"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RB"/> <bbox w="80.0" h="50.0" x="23913.75" y="4485.0"/> <glyph class="state variable" id="_5df9199c-4ecc-4eee-bf5c-87709ef5ea98"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23908.75" y="4505.0"/> </glyph> <glyph class="unit of information" id="_5d31d88d-da20-4f95-a6b1-57c5a1884ec4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23931.25" y="4480.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1901_in_sa1901"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2"/> <bbox w="80.0" h="40.0" x="23825.0" y="4430.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1898_in_sa1898"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RA"/> <bbox w="80.0" h="50.0" x="23823.75" y="4475.0"/> <glyph class="unit of information" id="_13622878-4337-4fc8-981e-19fec5c3f44c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23841.25" y="4470.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa163_emtc_em_csa163" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BCL2-XL*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID9153240</p> <p>By immunoprecipitation and yeast two-hybrid select studies, it appears that Bax may form homodimers or heterodimers with either Bcl2 or BCL2L1 (so-called BCL-XL)</p> <p>Formation of Bax homodimers has been proposed to promote cell death, and this could be blocked by Bax heterodimerization with BCL2 or BCL2L1.</p> <p>Based on Bax overexpression and dimerization studies, it has been postulated that the relative ratio of Bax homodimers to heterodimers may serve as a key sensory switch that dictates the initiation of apoptosis</p> <p>PMID:8358790</p> <p>Bax homodimerizes and forms heterodimers with BCL2 in vivo.</p> <p>Overexpressed Bax accelerates apoptotic death induced by cytokine deprivation in an IL-3-dependent cell line. </p> <p>Overexpressed Bax also counters the death repressor activity of BCL2. </p> <p>These data suggest a model in which the ratio of BCL2 to Bax determines survival or death following an apoptotic stimulus.</p> <p>PMID:7937747</p> <p>Interactions of the BCL2 protein with itself and other members of the BCL2 family, including BCL2L1 (so-called BCL-XL) and Bax, were explored with a yeast two-hybrid system.</p> <p>This approach gave evidence for BCL2 protein homodimerization.</p> <p>BCL2 also interacted with BCL2L1 with the dominant inhibitors Bax.</p> <p>PMID:11085534</p> <p>Bax undergoes a concurrent inhibition and priming by BCL2L1</p> <p>Derepressor (such as Bad or Noxa), is sufficient to trigger apoptosis through interaction with antiapoptotic proteins.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa163_emtc_em_csa163"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8358790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7937747"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11085534"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX/BCL2L1"/> <bbox w="110.0" h="42.0" x="5189.0" y="13544.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa916_emtc_em_sa916"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1, HGNC:992, ENTREZ:598, UNIPROT:Q07817, GENECARDS:GC20M030252</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:12667443</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:22836101</p> <p>BCL2L1 (BCL-X) promotes survival of adult and developing retinal ganglion cells.</p> <p>The activation of the pro-death family member BAX is often the final step before cell death in neurons. </p> <p>Pro-survival family members such as BCL2L1 act to inhibit BAX activation</p> <p>PMID:23064052</p> <p>PMID:11085534</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers. </p> <p>In particular, BCL2L1 overexpression has been correlated with cancer cells resistance to chemotherapeutic agents</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="60.0" h="16.0" x="5195.5" y="13548.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa917_emtc_em_sa917"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein </p> <p>HUGO:BAX, HGNC:959, ENTREZ:581, UNIPROT:Q07812, GENECARDS:GC19P049458</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:8358790</p> <p>Bax homodimerizes and forms heterodimers with BCL2 in vivo.</p> <p>Overexpressed Bax accelerates apoptotic death induced by cytokine deprivation in an IL-3-dependent cell line. </p> <p>Overexpressed Bax also counters the death repressor activity of BCL2.</p> <p>These data suggest a model in which the ratio of BCL2 to Bax determines survival or death following an apoptotic stimulus.</p> <p>PMID:7644501</p> <p>The susceptibility to apoptosis is determined by multiple competing dimerizations in which Bax may be a common partner.</p> <p>Multiple BCL2 family members demonstrate selective dimerizations with Bax</p> <p>PMID:21641962</p> <p>The pro-apoptototic protein Bax plays a central role in the mitochondria- dependent apoptotic pathway. </p> <p>In healthy mammalian cells, Bax is essentially cytosolic and inactive. </p> <p>Following a death signal, the protein is translocated to the outer mitochondrial membrane, where it promotes a permeabilization that favors the release of different apoptogenic factors, such as cytochrome c.</p> <p>PMID:23064052</p> <p>Inactive Bax can be directly converted into an active conformation following the interaction with activator Bid , Bim (BCL2L11) or Puma (BBC3)</p> <p>The interaction of Bax with BCL2 or BCL2L1 drives the translocation of Bax to the outer mitochondrial membrane</p> <p>Under this condition, active Bax can be liberated from its interaction with BCL2L1 by a derepressor BH3-only protein, such as Bad. </p> <p>Other experiments have shown that Bax can be translocated to the outer mitochondrial membrane and further activated by different proteins such as Myc or p38MapK</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAX"/> <bbox w="31.0" h="16.0" x="5262.5" y="13549.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa244_mo_sa244" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR17"/> <bbox w="70.0" h="25.0" x="6163.0" y="10687.5"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa230_mo_sa230"> <label text="Invasion"/> <bbox w="80.0" h="30.0" x="4742.0" y="12484.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa299_emtc_em_csa299" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EGF family*:EGFR family*:GRB2:SHC1_p66_p52*:SOS*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>Phosphorylation of SCH1 at tyrosine forms docking sitess for GRB2 adaptator protein via ist SH2 domain</p> <p>The SH3 domain of GRB2 then binds to the proline-rich motifs in SOS, which is the GTP exchange factor for RAS</p> <p>Via this process that SOS is recruited to the membrane and colocalizes with Ras.</p> <p>Upon ligand (EGF, TGFA) binding, or upon transactiviation by Endothelin via HB-EGF ligand, EGFR is dimerized, then phosphorylated and thus activated by c-Src, which also phosphorylates and activates Shc1 (p66, p52).</p> <p>EGFR binds to Shc (p66, p52) and both proteins bind to GRB2.</p> <p>Both Shc and GRB2 bind to and thus recruit SOS to the membrane to colocalize and thus activate Ras.</p> <p>Activation of Ras results in activation of ERK1_2, which is signal tranducer and activator of SP1, STAT3, STAT5, EGR1 and c-Fos transcription factors </p> <p>SP1 stimulates expression of Collagen 1 (PMID:15240825).</p> <p>STAT3 induces transcriptional expression of VEGFA, TIMP1 and TWIST (PMID:17909010).</p> <p>EGR1 induces transcriptional expression of TIMP1.</p> <p>c-Fos induces transcriptional expression of Endothelin1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa299_emtc_em_csa299"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17673906"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="(urn:miriam:pubmed:15240825)."/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="(urn:miriam:pubmed:17909010)."/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(GRB2/SOS*/SHC1_p66_p52/EGFR family)"/> <bbox w="254.0" h="112.0" x="6571.0" y="15790.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2018_emtc_em_sa2018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2, HGNC:4566, ENTREZ:2885, UNIPROT:P62993, GENECARDS:GC17M073313</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>GRB2 is an adaptator for Ras</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="38.0" h="17.0" x="6643.875" y="15818.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2019_emtc_em_sa2019"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>HUGO:SOS1, HGNC:11187, ENTREZ:6654, UNIPROT:Q07889 , GENECARDS:GC02M039208</p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>HUGO:SOS2, HGNC:11188, ENTREZ:6655, UNIPROT:Q07890, GENECARDS:GC14M050583</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>SOS is an GTP-exchange factor for Ras</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="35.0" h="17.0" x="6604.875" y="15817.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2020_emtc_em_sa2020"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SHC (Src homology 2 domain containing) transforming protein 1</p> <p>HUGO:SHC1, HGNC:10840, ENTREZ:6464, UNIPROT:P29353 , GENECARDS:GC01M154934</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SHC1_p66_p52*"/> <bbox w="101.0" h="31.0" x="6579.625" y="15842.0"/> <glyph class="state variable" id="_54ade6ba-1e4b-4e1d-9d85-6324303e050f"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="6570.2466" y="15837.0"/> </glyph> <glyph class="state variable" id="_f3062854-e8ab-466e-98bf-877878468d2a"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="6670.162" y="15837.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2188_em_sa2188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, alpha</p> <p>HUGO:TGFA HGNC:11765 ENTREZ:7039 UNIPROT:P01135</p> <p>heparin-binding EGF-like growth factor</p> <p>HUGO:HBEGF, HGNC:3059, ENTREZ:1839, UNIPROT:Q99075 , GENECARDS:GC05M139694  </p> <p>epidermal growth factor</p> <p>"epidermal growth factor (beta-urogastrone)"</p> <p>HUGO:EGF HGNC:3229 ENTREZ:1950 UNIPROT:P01133</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="EGF family*"/> <bbox w="78.0" h="21.0" x="6702.077" y="15797.538"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2378_emtc_em_sa2378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Receptor tyrosine kinase</p> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:24970086</p> <p>Knockdown of NM23-H1 and -H2 (fig. S1, A to E) reduced clathrin-dependent endocytosis of the transferrin (Tf) and epidermal growth factor (EGF) receptors</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="EGFR family*"/> <bbox w="86.0" h="56.0" x="6700.0" y="15822.0"/> <glyph class="unit of information" id="_d15b5660-1ca1-46b5-93a1-bb3d38f0ec2e"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6733.0" y="15817.0"/> </glyph> <glyph class="state variable" id="_1255c282-181c-424f-bd2d-e63410f0ccc2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6734.6743" y="15817.0"/> </glyph> <glyph class="unit of information" id="_6ce144b8-f80e-4c35-88de-5ff11a5ec2fa"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6720.5" y="15817.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa919_in_sa919" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SMAD2"/> <bbox w="80.0" h="40.0" x="9870.0" y="2255.0"/> <glyph class="state variable" id="_2b8c7a97-3f48-4536-8a0b-4ddc045f1679"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9865.0" y="2269.9683"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa226_akt1_akt1_sa226" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa226_akt1_akt1_sa226"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p70α*"/> <bbox w="80.0" h="40.0" x="12361.561" y="19044.5"/> <glyph class="state variable" id="_f9db2850-0d6d-41d6-8963-351538db4ab2"> <state value="P" variable="T389"/> <bbox w="35.0" h="10.0" x="12424.061" y="19077.156"/> </glyph> <glyph class="state variable" id="_7b09b770-6a2e-4ab7-a654-bb6fb7678668"> <state value="" variable="T229"/> <bbox w="30.0" h="10.0" x="12346.561" y="19041.904"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1611_ce_sa1611" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:DNA_REPAIR MODULE:BER References:Node_Type:GenericPMID:23892398 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:DNA_REPAIR MODULE:BER References:Node_Type:GenericPMID:23892398 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1611_ce_sa1611"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Single_strand_breaks_SSB*"/> <bbox w="238.0" h="27.0" x="9769.77" y="15261.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa95_ca_sa95" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa95_ca_sa95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <bbox w="90.0" h="25.0" x="3285.0" y="3767.5"/> <glyph class="unit of information" id="_1a2f9476-4fef-433d-a97b-ab2d07e9fa62"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3320.0" y="3762.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa155_wca1_wca3_sa155" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa155_wca1_wca3_sa155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HES1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HES1"/> <bbox w="80.0" h="40.0" x="22023.06" y="21400.0"/> </glyph> <glyph class="source and sink" id="s_id_in_sa2430_in_sa2430" compartmentRef="s_id_in_ca15_in_ca15"> <label text="in_csa23_degraded"/> <bbox w="30.0" h="30.0" x="20725.0" y="6285.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa410_rc_csa410" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FAS:FASLG</p> </body> </html> </notes> <label text="FAS:FASLG:FADD:DAXX:ASK1"/> <bbox w="130.0" h="150.0" x="25894.06" y="9094.0"/> <glyph class="macromolecule" id="s_id_rc_sa4049_rc_sa4049"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25921.06" y="9175.0"/> <glyph class="state variable" id="_ce62b665-64ed-4c5e-84d5-3f4b065f203d"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25991.06" y="9184.644"/> </glyph> <glyph class="unit of information" id="_cbd45324-2b51-4a6b-aef3-5b87b9ed298a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25938.56" y="9170.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3999_rc_sa3999"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25922.06" y="9135.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3999_rc_sa4052"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25914.06" y="9124.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4049_rc_sa4051"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25911.06" y="9165.0"/> <glyph class="state variable" id="_073e156f-3dd7-4562-9b18-ed0c7315c8b6"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25981.06" y="9174.644"/> </glyph> <glyph class="unit of information" id="_500a075c-33d9-4c5d-9ce5-7e32b5aa42af"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25928.56" y="9160.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4049_rc_sa4053"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25901.06" y="9155.0"/> <glyph class="state variable" id="_f841eb9d-bd41-4763-bae3-9ea4a765bc80"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25971.06" y="9164.644"/> </glyph> <glyph class="unit of information" id="_b488fe4f-5951-4626-8bdb-98f90e66f8f0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25918.56" y="9150.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3999_rc_sa4054"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25904.06" y="9114.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2362_rc_sa2362" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2362_rc_sa2362"> 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rdf:resource="urn:miriam:hgnc.symbol:HSP90AA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90AA1"/> <bbox w="90.0" h="25.0" x="24061.56" y="16046.5"/> <glyph class="unit of information" id="_4b51a571-d308-4355-91df-4c80d83c3e80"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24096.56" y="16041.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa328_em_csa328" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin1*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2505"/> <bbox w="94.0" h="48.0" x="1052.0" y="15168.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1209_emtc_em_sa1209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 1</p> <p>HUGO:CLDN1, HGNC:2032, ENTREZ:9076, UNIPROT:O95832, GENECARDS:GC03M190023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Claudin1*"/> <bbox w="72.0" h="24.0" x="1063.0" y="15172.0"/> <glyph class="unit of information" id="_da3b4dac-12c3-4071-b647-4a429240bd87"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1089.0" y="15167.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_in_sa1368_in_sa1368" compartmentRef="s_id_in_ca12_in_ca12"> <label text="INHBA"/> <bbox w="86.0" h="46.0" x="11847.0" y="5797.0"/> <glyph class="unit of information" id="_df2b2ef9-707b-4f68-b449-5ea0441fadd2"> <label text="N:2"/> <bbox w="20.0" h="10.0" 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variable" id="_68490528-ad1d-4de2-963b-33e7d0c2e240"> <state value="" variable="S676"/> <bbox w="30.0" h="10.0" x="15954.053" y="20914.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa1975_em_sa1975" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:25234227</p> <p>Nm23-h1(NME1) binds to gelsolin and inactivates its actin-severing capacity to promote tumor cell motility and metastasis.</p> <p>Dynamin 2 act on the actin cytoskeleton by Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>NPDK-A and dynamin associate during cytokinesis to promote chromosome stability.</p> <p>Loss of NDPK-A is linked to cytokinesis failure and tetraploidy</p> <p>PMID:18470881</p> <p>Nm23-H1 binds Dbl-1(MCF2) and thus interferes with the ability of Dbl-1 to load GTP onto CDC42</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa1975_em_sa1975"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> 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rdf:resource="urn:miriam:hgnc.symbol:ATG10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG10"/> <bbox w="90.0" h="25.0" x="24717.56" y="16122.5"/> <glyph class="unit of information" id="_d274ef58-7980-4eb8-bd81-7cf21365166b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24752.56" y="16117.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa420_in_sa420" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="NKp30*"/> <bbox w="90.0" h="25.0" x="18860.0" y="1927.5"/> <glyph class="unit of information" id="_fc4388e0-1f5b-44da-84f0-1545119ab2dd"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="18895.0" y="1922.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5016_rc_sa5016" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5016_rc_sa5016"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDF2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDF2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SDF2L1"/> <bbox w="70.0" h="25.0" x="28826.326" y="16111.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa938_emtc_em_sa938" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa938_emtc_em_sa938"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="N-Cadherin*"/> <bbox w="80.0" h="20.0" x="1005.0" y="16289.0"/> <glyph class="state variable" id="_65777a97-db22-4dda-a29a-cf3aa7bb09c2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1080.0" y="16303.565"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa57_akt1_akt1_csa57" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> </body> </html> </notes> <label text="(mTORC1)"/> <bbox w="179.0" h="250.0" x="13306.061" y="19063.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa334_akt1_akt1_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="13312.561" y="19132.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa335_akt1_akt1_sa335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="160.0" h="57.0" x="13316.311" y="19070.0"/> <glyph class="state variable" id="_afebcc90-fa7e-47db-b828-3d0fdc8721dc"> <state value="" variable="S183"/> <bbox w="30.0" h="10.0" x="13302.296" y="19065.0"/> </glyph> <glyph class="state variable" id="_4842f095-b482-4dd6-8eb0-5ed20c9e88bc"> <state value="" variable="S212"/> <bbox w="30.0" h="10.0" x="13461.311" y="19066.41"/> </glyph> <glyph class="state variable" id="_2e108cfb-667e-4fa0-9ffd-2015daf9d155"> <state value="" variable="S221"/> <bbox w="30.0" h="10.0" x="13461.311" y="19120.762"/> </glyph> <glyph class="state variable" id="_3e8df733-3608-4400-8c01-626321d271fe"> <state value="" variable="T246"/> <bbox w="30.0" h="10.0" x="13301.311" y="19116.47"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa519_akt1_akt1_sa519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="13399.561" y="19131.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa332_akt1_akt1_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="156.0" h="62.0" x="13318.561" y="19231.0"/> <glyph class="state variable" id="_9de115a3-ae73-453d-a3a9-b282400f99e6"> <state value="P" variable="S2448"/> <bbox w="40.0" h="10.0" x="13453.355" y="19288.0"/> </glyph> <glyph class="state variable" id="_743043ec-0fde-47cf-aaf9-d454446281d0"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="13450.3955" y="19226.0"/> </glyph> <glyph class="state variable" id="_e27a00b1-a1d1-4e69-a203-7cc629d24fee"> <state value="" variable="S2481"/> <bbox w="35.0" h="10.0" x="13301.061" y="19286.37"/> </glyph> <glyph class="state variable" id="_b756a5bf-694a-40d1-bd98-649395fd5344"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="13303.561" y="19257.0"/> </glyph> <glyph class="state variable" id="_ce936d2f-9780-4f09-a2d1-ffa59bf5a274"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="13307.953" y="19226.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa333_akt1_akt1_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="170.0" h="50.0" x="13307.811" y="19176.0"/> <glyph class="state variable" id="_6ce71124-be48-4e04-a103-4cf7fa136349"> <state value="" variable="S696"/> <bbox w="30.0" h="10.0" x="13292.811" y="19195.96"/> </glyph> <glyph class="state variable" id="_a5fd9bc7-fd73-4d8a-866f-b8c5d7618dd7"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="13413.828" y="19171.0"/> </glyph> <glyph class="state variable" id="_d469b9a0-b9d2-4742-ad26-ee9d0a4d1094"> <state value="" variable="S863"/> <bbox w="30.0" h="10.0" x="13413.509" y="19221.0"/> </glyph> <glyph class="state variable" id="_83b4d89d-570d-4760-a250-274d0c63c4a6"> <state value="" variable="S877"/> <bbox w="30.0" h="10.0" x="13337.546" y="19221.0"/> </glyph> <glyph class="state variable" id="_ba722923-090a-481f-a361-b3ebbc854a57"> <state value="" variable="S859"/> <bbox w="30.0" h="10.0" x="13462.811" y="19193.238"/> </glyph> <glyph class="state variable" id="_87c566fd-ee90-4ab5-bd98-fed3b67e3d61"> <state value="" variable="T706"/> <bbox w="30.0" h="10.0" x="13334.719" y="19171.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa39_shh1_shh1_csa39" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HH Ligand:HHIP1</p> <p>References:</p> <p>s_shh1_re79(MAP:survival):</p> <p>PMID:10050855</p> <p>PMID:16571352</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa39_shh1_shh1_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10050855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16571352"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIP1_ligand"/> <bbox w="105.0" h="145.0" x="27732.06" y="17565.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa255_shh1_shh1_sa255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Hedgehog interacting protein</p> <p>HUGO:HHIP HGNC:14866 ENTREZ:64399 UNIPROT:Q96QV1 GENECARDS:HHIP KEGG:64399 ATLASONC:GC_HHIP WIKI:HHIP</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16571352</p> </body> </html> </notes> <label text="HHIP1"/> <bbox w="78.0" h="114.0" x="27744.56" y="17574.0"/> <glyph class="unit of information" id="_6d34d808-222c-4b52-983d-fb48e345bc28"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27761.06" y="17569.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa256_shh1_shh1_sa256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="27750.56" y="17568.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa54_mo_sa54" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>catenin (cadherin-associated protein), delta </p> <p>catenin (cadherin-associated protein), delta 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa54_mo_sa54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="1urn:miriam:hgnc.symbol:"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="γ-catenin*"/> <bbox w="80.0" h="40.0" x="2773.0" y="10153.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa1821_rc_sa1821" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s3211"/> <bbox w="30.0" h="30.0" x="25334.06" y="12724.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1061_emtc_em_sa1061" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1061_emtc_em_sa1061"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RALBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RALBP1"/> <bbox w="50.0" h="19.0" x="6550.1" y="14236.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4926_rc_sa4926" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4926_rc_sa4926"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HERPUD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HERP*"/> <bbox w="80.0" h="40.0" x="29239.06" y="13089.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa523_rc_csa523" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BiP*:Ca2+:Grp75*:ITPR*:SIGMAR1:VDAC*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS MODULE:MOMP_REGULATION </p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa523_rc_csa523"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="rc_s619"/> <bbox w="240.0" h="205.0" x="25859.06" y="13886.5"/> <glyph class="simple chemical" id="s_id_rc_sa4802_rc_sa4802"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="33.0" h="33.0" x="26015.076" y="14007.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5205_rc_sa5205"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family A (Hsp70) member 5</p> <p>HUGO:HSPA5 hgnc_id:HGNC:5238 HGNC:5238 ENTREZ:3309 UNIPROT:P11021</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>GRP78</p> </body> </html> </notes> <label text="BiP*"/> <bbox w="80.0" h="40.0" x="25999.06" y="13901.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5206_rc_sa5206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inositol 1,4,5-trisphosphate receptor type 1</p> <p>HUGO:ITPR1 hgnc_id:HGNC:6180 HGNC:6180 ENTREZ:3708 UNIPROT:Q14643 </p> <p>inositol 1,4,5-trisphosphate receptor type 2</p> <p>HUGO:ITPR2 hgnc_id:HGNC:6181 HGNC:6181 ENTREZ:3709 UNIPROT:Q14571 </p> <p>inositol 1,4,5-trisphosphate receptor type 3</p> <p>HUGO:ITPR3 hgnc_id:HGNC:6182 HGNC:6182 ENTREZ:3710 UNIPROT:Q14573</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="ITPR*"/> <bbox w="80.0" h="50.0" x="25879.06" y="13904.0"/> <glyph class="unit of information" id="_5758cc25-9b72-435f-abe0-ee396b1fcecb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25896.56" y="13899.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5207_rc_sa5207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>voltage-dependent anion channel 1</p> <p>HUGO:VDAC1 HGNC:12669 ENTREZ:7416 UNIPROT:P21796 </p> <p>voltage-dependent anion channel 2</p> <p>HUGO:VDAC2 HGNC:12672 ENTREZ:7417 UNIPROT:P45880 </p> <p>voltage-dependent anion channel 3</p> <p>HUGO:VDAC3 HGNC:12674 ENTREZ:7419 UNIPROT:Q9Y277</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:21887410</p> <p>PMID:18309324</p> <p>PMID:17568748</p> </body> </html> </notes> <label text="VDAC*"/> <bbox w="80.0" h="40.0" x="25879.06" y="14009.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5204_rc_sa5204"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sigma non-opioid intracellular receptor 1</p> <p>HUGO:SIGMAR1 hgnc_id:HGNC:8157 HGNC:8157 ENTREZ:10280 UNIPROT:Q99720</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>SIGMAR1</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="SIGMAR1"/> <bbox w="80.0" h="50.0" x="25999.06" y="13946.5"/> <glyph class="unit of information" id="_1ce144b1-7de3-431f-99bd-2bd2f962b574"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26016.56" y="13941.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5203_rc_sa5203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family A (Hsp70) member 9</p> <p>HUGO:HSPA9 hgnc_id:HGNC:5244 HGNC:5244 ENTREZ:3313 UNIPROT:P38646</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="Grp75*"/> <bbox w="80.0" h="40.0" x="25879.06" y="13959.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1114_emtc_em_sa1114" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1114_emtc_em_sa1114"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DIAPH3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DIAPH3"/> <bbox w="49.0" h="17.0" x="5552.5" y="14935.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa252_akt1_akt2_sa252" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:apoptosis / MODULE:APOPTOSIS_GENESs_akt2_re134:(MAP:survival) PMID:19574223 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:apoptosis / MODULE:APOPTOSIS_GENESs_akt2_re134:(MAP:survival) PMID:19574223 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa252_akt1_akt2_sa252"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR182"/> <bbox w="90.0" h="25.0" x="12762.061" y="21725.5"/> <glyph class="unit of information" id="_3ad2e9c8-377f-418d-a75e-fdbfe1f7fdb9"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="12792.061" y="21720.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1207_in_sa1207" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCR5"/> <bbox w="80.0" h="50.0" x="14000.0" y="1910.0"/> <glyph class="unit of information" id="_1c70b28d-d99a-4280-8627-ff27f8871dbe"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14017.5" y="1905.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa391_rc_csa391" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:RBX1</p> <p>References:</p> <p>RBX1:CUL3</p> <p>19427028</p> <p>Cullin3-based polyubiquitination and p62-dependent aggregation of caspase-8 mediate extrinsic apoptosis signaling.</p> </body> </html> </notes> <label text="CUL3:RBX1"/> <clone/> <bbox w="100.0" h="120.0" x="24709.06" y="9439.0"/> <glyph class="macromolecule" id="s_id_rc_sa3881_rc_sa3881"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <clone/> <bbox w="80.0" h="40.0" x="24719.06" y="9449.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3880_rc_sa3880"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="CUL3"/> <clone/> <bbox w="80.0" h="40.0" x="24719.06" y="9489.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa391_rc_csa394" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:RBX1</p> <p>References:</p> <p>RBX1:CUL3</p> <p>19427028</p> <p>Cullin3-based polyubiquitination and p62-dependent aggregation of caspase-8 mediate extrinsic apoptosis signaling.</p> </body> </html> </notes> <label text="CUL3:RBX1"/> <clone/> <bbox w="100.0" h="120.0" x="25189.06" y="9329.0"/> <glyph class="macromolecule" id="s_id_rc_sa3880_rc_sa3916"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="CUL3"/> <clone/> <bbox w="80.0" h="40.0" x="25199.06" y="9379.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3881_rc_sa3915"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <clone/> <bbox w="80.0" h="40.0" x="25199.06" y="9339.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4583_rc_sa4583" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4583_rc_sa4583"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34C"/> <bbox w="90.0" h="25.0" x="20239.06" y="15637.5"/> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4397_rc_sa4397"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG16L2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG16L2"/> <bbox w="80.0" h="40.0" x="28755.56" y="11916.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa837_ca_sa837" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa837_ca_sa837"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK1/2*"/> <bbox w="80.0" h="40.0" x="4980.0" y="3090.0"/> <glyph class="state variable" id="_5b3ef925-f439-4af7-9fd3-65487f6f845c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4972.5" y="3105.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa17_shh1_shh1_csa17" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HH Ligand:PTCH*</p> <p>References:</p> <p>s_shh1_re27:(MAP:survival) PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa17_shh1_shh1_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTC_HH_ligand"/> <clone/> <bbox w="105.0" h="173.0" x="26018.936" y="17560.5"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa140_shh1_shh1_sa140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <clone/> <bbox w="78.0" h="114.0" x="26031.436" y="17587.5"/> <glyph class="unit of information" id="_1e633813-db28-4168-a797-9a2e4e46d7ca"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26047.936" y="17582.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa141_shh1_shh1_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <clone/> <bbox w="70.0" h="25.0" x="26034.436" y="17576.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa17_shh1_shh1_csa15" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HH Ligand:PTCH*</p> <p>References:</p> <p>s_shh1_re27:(MAP:survival) PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa17_shh1_shh1_csa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTC_HH_ligand"/> <clone/> <bbox w="117.0" h="159.0" x="26440.56" y="17560.5"/> <glyph class="simple chemical" id="s_id_shh1_shh1_sa141_shh1_shh1_sa136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <clone/> <bbox w="70.0" h="25.0" x="26461.06" y="17576.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa140_shh1_shh1_sa135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <clone/> <bbox w="78.0" h="114.0" x="26458.06" y="17587.5"/> <glyph class="unit of information" id="_b4fb9a47-2883-438f-b0d0-d39bc8a83ecd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26474.56" y="17582.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa61_ce_csa61" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRCA1:BRCA2:FANCD2:FANCI:H2AFX:NBS1*:PCNA:RAD51:TIP60*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>The complex participates in the HR and S-checkpoint</p> <p>PMID:12239151, PMID:19686080</p> <p>For Fanconi</p> <p>PMID:19622404</p> <p>The complex is considered to be the actual repair structure of the pathway. </p> <p>Fanconi pathway is regulated at two levels:1. FANCD2 and FANCI uiquitination by UBE2T for Fanconi foci association. Followed by FANCD2 and FANCI DE-uiquitination by USP1/UAF1 to allow the repair process</p> <p>PMID:19217432, PMID:18082604, PMID:19075014, PMID:18082605, PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa61_ce_csa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12239151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19075014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082605"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/BRCA2/FANCD2/FANCI/H2AX*/NBS*/PCNA/RAD51/Tip60*"/> <bbox w="287.0" h="180.0" x="14317.473" y="16274.356"/> <glyph class="macromolecule" id="s_id_ce_sa635_ce_sa635"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 2, early onset, FANCD1</p> <p>HUGO:BRCA2, HGNC:1101, ENTREZ:675, UNIPROT:P51587</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="BRCA2"/> <bbox w="80.0" h="40.0" x="14419.473" y="16372.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa643_ce_sa643"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group D2</p> <p>HUGO:FANCD2, HGNC:3585, ENTREZ:2177, UNIPROT:Q9BXW9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22751496, PMID:23444773, PMID:20723763</p> </body> </html> </notes> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="14505.336" y="16285.5"/> <glyph class="state variable" id="_7f3e710d-ab0a-499c-b7b2-981b07b149f9"> <state value="Ub" variable="K561"/> <bbox w="40.0" h="10.0" x="14525.24" y="16320.5"/> </glyph> <glyph class="state variable" id="_b638a55f-6a45-49c1-9b97-957f64d81d6d"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="14531.168" y="16280.5"/> </glyph> <glyph class="state variable" id="_d34f15af-8cb5-4c98-8f4a-a3c72912edc6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14497.836" y="16292.216"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa638_ce_sa638"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>H2A histone family, member X</p> <p>HUGO:H2AFX , HGNC:4739, ENTREZ:3014, UNIPROT:P16104</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:9488723, PMID:19772495, PMID:17303408</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003</p> </body> </html> </notes> <label text="H2AFX"/> <bbox w="80.0" h="40.0" x="14327.579" y="16282.07"/> <glyph class="state variable" id="_7d768328-f1b0-46bb-ad9a-a87ef4fb0dbc"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="14310.079" y="16297.07"/> </glyph> <glyph class="state variable" id="_f85673e3-a90b-4533-af63-d333e0b046cb"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="14317.579" y="16280.002"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa642_ce_sa642"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group I</p> <p>HUGO:FANCI, HGNC:25568, ENTREZ:55215, UNIPROT:Q9NVI1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22101340</p> </body> </html> </notes> <label text="FANCI"/> <bbox w="80.0" h="40.0" x="14506.473" y="16333.07"/> <glyph class="state variable" id="_2209f224-20ac-4e2f-968e-8fbf976886fe"> <state value="Ub" variable="K523"/> <bbox w="40.0" h="10.0" x="14525.177" y="16368.07"/> </glyph> <glyph class="state variable" id="_f0ef88c3-3774-437e-8d63-04412f2db130"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14578.972" y="16368.07"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa639_ce_sa639"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), RAD51A</p> <p>HUGO:RAD51, HGNC:9817, ENTREZ:5888, UNIPROT:Q06609</p> <p>RAD51-like 1 (S. cerevisiae), RAD51B</p> <p>HUGO:RAD51L1, HGNC:9822, ENTREZ:5890, UNIPROT:Q86U92</p> <p>RAD51 homolog C (S. cerevisiae)</p> <p>HUGO:RAD51C, HGNC:9820, ENTREZ:5889, UNIPROT:O43502</p> <p>RAD51-like 3 (S. cerevisiae), RAD51D</p> <p>HUGO:RAD51L3, HGNC:9823, ENTREZ:5892, UNIPROT:O94908</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="RAD51"/> <bbox w="80.0" h="40.0" x="14508.044" y="16375.928"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa640_ce_sa640"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="14416.723" y="16283.356"/> <glyph class="state variable" id="_f98ea4ba-2144-4ea6-914c-b35c2b5e7fd6"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="14399.223" y="16306.54"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa636_ce_sa636"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14414.329" y="16328.047"/> <glyph class="state variable" id="_070aee99-fee5-430a-87ed-fa0c7b1d615b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14486.415" y="16363.047"/> </glyph> <glyph class="state variable" id="_9ac1e672-fa76-47d6-963c-433a785ac00d"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="14454.19" y="16323.047"/> </glyph> <glyph class="state variable" id="_6e37ab1e-335b-4bb7-9e01-15c6919fea3b"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="14415.956" y="16323.047"/> </glyph> <glyph class="state variable" id="_60347dc2-87b7-4bba-a6a7-59a4f05a3d9f"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14434.081" y="16323.047"/> </glyph> <glyph class="state variable" id="_9b86f252-7b41-4eeb-be29-382e48dc2c7a"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14396.829" y="16343.015"/> </glyph> <glyph class="state variable" id="_bab43d8d-a440-4967-b685-05db6460fd21"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14399.329" y="16358.519"/> </glyph> <glyph class="state variable" id="_4e1df9ff-4037-4c1e-b24e-72ea4aa78622"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14476.829" y="16328.287"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa641_ce_sa641"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>K(lysine) acetyltransferase 5</p> <p>HUGO:KAT5, HGNC:5275, ENTREZ:10524, UNIPROT:Q92993</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:12551922, PMID:11927554, PMID:21574959, PMID:18085520</p> </body> </html> </notes> <label text="TIP60*"/> <bbox w="80.0" h="40.0" x="14329.056" y="16327.106"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa637_ce_sa637"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="14332.044" y="16372.07"/> <glyph class="state variable" id="_e623953d-54e6-4a7a-b46b-e274c6c2d761"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="14317.044" y="16387.07"/> </glyph> <glyph class="state variable" id="_c0088fb3-7c8a-4add-ae7d-c15616314644"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14327.045" y="16407.07"/> </glyph> <glyph class="state 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa297_akt1_akt2_sa297"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREB*"/> <bbox w="80.0" h="40.0" x="13601.311" y="21953.0"/> <glyph class="state variable" id="_cbf12b5e-d137-478e-8ba9-41e77fd3ac72"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13593.814" y="21948.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_te_sa455_te_sa455" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="Sliding clamp formation"/> <bbox w="207.0" h="55.0" x="4818.06" y="22457.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa253_emtc_em_csa253" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:8636223</p> <p>Integrin aVb3 is distinct in its capacity to recognize the sequence Arg-Gly-Asp (RGD) in many extra-cellular matrix (ECM) components. </p> <p>aVb3 can also interact with the neural cell adhesion molecule L1CAM; a member of the immunoglobulin superfamily (IgSF). In other words, aVb3 undergoes heterophilic binding with L1CAM</p> <p>M21 cells display some aVb3-dependent adhesion and spreading on immunopurified human L1. Ligation between this ligand and aVb3 was also observed to promote significant haptotactic cell migration. </p> <p>Significant aVb3-dependent adhesion and spreading was evident on a L1 fragment containing Ig-like domains 4, 5, and 6. </p> <p>Importantly, mutation of an RGD sequence present in the sixth Ig-like domain of L1 abrogated M21 cell adhesion. </p> <p>Despite high levels of L1 expression the M21 melanoma cells did not display significant adhesion via a homophilic L1-L1 interaction. </p> <p>These data suggest that M21 melanoma cells recognize and adhere to L1 through a mechanism that is primarily heterophilic and integrin dependent. </p> <p>Finally, we present evidence that melanoma cells can shed and deposit L1 in occluding ECM. </p> <p>aVb3 may recognize L1 in a cell-cell or cell-substrate interaction.</p> <p>PMID:11553709</p> <p>Tumor metastasis involves many stage-specific adhesive interactions. The expression of several cell adhesion molecules, notably the integrin aVb3 has been associated with the metastatic potential of tumor cells. </p> <p>In the context of in vitro monolayer of human lung microvascular, L1CAM was shown to serve as a potential ligand for aVb3 during melanoma transendothelial migration.</p> <p>Also, polyclonal antibodies against L1 partially inhibited the transendothelial migration of melanoma cells. </p> <p>However, addition of both L1 and aVb3 antibodies did not show additive effects, suggesting that they are components of the same adhesion system.</p> <p>Together, the data suggest that interactions between the integrin aVb3 on melanoma cells and L1 on endothelial cells play an important role in the transendothelial migration of melanoma cells.</p> <p>PMID:10022831</p> <p>Interaction between integrin avb3 and extracellular matrix,as the most important survival system for nascent vessels, is crucial for endothelial cells sprouting from capillaries and for angiogenesis.</p> <p>Tyrosine-phosphorylated VEGFR2 co-immunoprecipitated with b3 integrin subunit, but not with b1 or b5, from cells stimulated with VEGFA (165 amino acid isoform)</p> <p>VEGFR2 phosphorylation and mitogenicity induced by VEGFA were enhanced in cells plated on the avb3 ligand, vitronectin, compared with cells plated on the a5b1 ligand, fibronectin or the a2b1 ligand, collagen.</p> <p>A new role for avb3 integrin in the activation of an in vitro angiogenic program in endothelial cells. </p> <p>Besides being the most important survival system for nascent vessels by regulating cell adhesion to matrix, avb3 integrin participates in the full activation of VEGFR2 triggered by VEGFA.</p> <p>PMID:7512751</p> <p>PMID:8755653</p> <p>Integrin avb3 is expressed in high quantities on angiogenic endothelial cells where it suppresses the activity of p53 and the p53-inducible cell-cycle inhibitor p21WAF1/CIP1 and increases the BCL2/Bax ratio, with a consequent antiapoptotic effect</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa253_emtc_em_csa253"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8636223"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11553709"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10022831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7512751"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8755653"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb3*"/> <bbox w="40.0" h="60.0" x="5192.5" y="19063.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1609_emtc_em_sa1609"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)</p> <p>GP3A</p> <p>HUGO:ITGB3 HGNC:6156 ENTREZ:3690 UNIPROT:P05106 GENECARDS:GC17P045331</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB3"/> <bbox w="40.0" h="20.0" x="5191.5" y="19085.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1610_emtc_em_sa1610"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5192.5" y="19066.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa35_ce_csa35" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATM:CTIP*:MRE11*:NBS1*:RAD50:WRN</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> <p>Activation of WRN in cancers</p> <p>PMID:18524993</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa35_ce_csa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18809224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18584027"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19772495"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18087292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18524993"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM/CtIP*/MRE11*/NBS*/RAD50/WRN"/> <bbox w="196.0" h="161.0" x="13767.473" y="15752.356"/> <glyph class="macromolecule" id="s_id_ce_sa530_ce_sa530"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma binding protein 8 (RIM)</p> <p>CTBP-interacting protein (CtIP)</p> <p>HUGO:RBBP8, HGNC:9891, ENTREZ:5932, UNIPROT:Q99708</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:17965729, PMID:9721205, PMID:19202191, PMID:18171986, PMID:20723763</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="CTIP*"/> <bbox w="80.0" h="40.0" x="13874.223" y="15810.356"/> <glyph class="state variable" id="_ca2200b3-b0c0-4c9f-a886-7630c0982ecd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13869.223" y="15825.356"/> </glyph> <glyph class="state variable" id="_a6f3b561-5b61-474d-80c1-50fdab75296b"> <state value="" variable="T847"/> <bbox w="30.0" h="10.0" x="13859.223" y="15812.208"/> </glyph> <glyph class="state variable" id="_074cfbc1-f7c0-4774-b837-e23d8646e960"> <state value="" variable="S267"/> <bbox w="30.0" h="10.0" x="13859.223" y="15835.729"/> </glyph> <glyph class="state variable" id="_471c843f-8c90-46d7-83e6-430bc49af0cb"> <state value="" variable="BRCA1-dep"/> <bbox w="55.0" h="10.0" x="13878.092" y="15845.356"/> </glyph> <glyph class="state variable" id="_08bc27aa-ce33-4e66-8d45-489cec683581"> <state value="" variable="S372"/> <bbox w="30.0" h="10.0" x="13882.817" y="15805.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1604_ce_sa1604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Werner syndrome, RecQ helicase-like</p> <p>HUGO:WRN, HGNC:12791, ENTREZ:7486, UNIPROT:Q14191</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:20691907</p> <p>For A_NHEJ pathway</p> <p> (alt_NHEJ or B_NHEJ or MMEJ)</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>, PMID:21376743, PMID:24050180, PMID:22743550</p> <p>For HR pathway</p> <p>PMID:19490890, PMID:22657828 </p> <p>For BER pathway</p> <p>PMID:17116323, PMID:18398454, PMID:16449207, PMID:15385537, PMID:18558713, PMID:23161013</p> <p>WRN in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>Inhibiting WNT kills alt_NHEJ pathway</p> <p>PMID:24036544</p> <p>PARP1 inhibits WRN</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> <p>Activation of WRN in cancers</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="WRN"/> <bbox w="80.0" h="40.0" x="13874.011" y="15852.279"/> <glyph class="state variable" id="_ba2bed7e-73ee-498b-9ec1-6ecd3d8c312e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13907.759" y="15847.279"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1405_ce_sa1405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia mutated</p> <p>HUGO:ATM, HGNC:795, ENTREZ:472, UNIPROT:Q13315</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>DDR by ATM</p> <p>PMID:23847781</p> <p>PMID:17303408, PMID:16163361, PMID:15964794</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003, PMID:11877377</p> </body> </html> </notes> <label text="ATM"/> <bbox w="80.0" h="40.0" x="13778.212" y="15764.589"/> <glyph class="state variable" id="_f774b0ef-f4af-44d1-b517-d44ccf26a24d"> <state value="P" variable="S1981"/> <bbox w="40.0" h="10.0" x="13758.212" y="15779.557"/> </glyph> <glyph class="state variable" id="_298b2713-4c35-4931-b818-c4bb05149685"> <state value="P" variable="S1893"/> <bbox w="40.0" h="10.0" x="13758.212" y="15795.12"/> </glyph> <glyph class="state variable" id="_893e362b-a4f4-464b-9ee0-163760d0d22a"> <state value="P" variable="S367"/> <bbox w="35.0" h="10.0" x="13774.859" y="15759.589"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa534_ce_sa534"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="13780.223" y="15811.856"/> <glyph class="state variable" id="_be8d9f01-f988-446c-94d2-b6696b4f9570"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="13762.723" y="15835.04"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa533_ce_sa533"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD50 homolog (S. cerevisiae)</p> <p>HUGO:RAD50, HGNC:9816, ENTREZ:10111, UNIPROT:Q92878</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="RAD50"/> <bbox w="80.0" h="40.0" x="13783.973" y="15853.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa532_ce_sa532"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRE11 meiotic recombination 11 homolog A (S. cerevisiae)</p> <p>HUGO:MRE11A, HGNC:7230, ENTREZ:4361, UNIPROT:P49959</p> <p>MRE11 meiotic recombination 11 homolog B (S. cerevisiae)</p> <p>HUGO:RE11B, HGNC:7231, ENTREZ:4362</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="13870.973" y="15764.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa44_gf1_sa44" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:20430953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa44_gf1_sa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AREG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20430953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AREG"/> <bbox w="80.0" h="40.0" x="8865.561" y="17629.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1985_in_sa1985" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRF3"/> <bbox w="80.0" h="40.0" x="19012.5" y="4718.75"/> <glyph class="state variable" id="_db855bef-e291-4418-9733-f243d97e243e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19007.5" y="4733.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa415_rc_csa415" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase8*:FLASH*:TRAF2</p> <p>References:</p> <p>15592525</p> <p>caspase-8 formed triple complex with TRAF2 and FLASH</p> <p>endogenous caspase-8 mediates TNF-alpha-induced activation of NF-kappaB via FLASH.</p> <p>11340079</p> <p>FLASH coordinates NF-kappa B activity via TRAF2</p> </body> </html> </notes> <label text="Caspase8*:FLASH:TRAF2"/> <bbox w="100.0" h="160.0" x="29254.56" y="11619.5"/> <glyph class="macromolecule" id="s_id_rc_sa4099_rc_sa4099"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP8 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:28462525</p> </body> </html> </notes> <label text="Caspase8*"/> <bbox w="80.0" h="40.0" x="29264.56" y="11629.5"/> <glyph class="state variable" id="_866ed4bb-0665-439c-a5c8-f6bcbc8384b3"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="29254.56" y="11636.216"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4101_rc_sa4101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8 associated protein 2</p> <p>HUGO:CASP8AP2 HGNC:1510 ENTREZ:9994 UNIPROT:Q9UKL3</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE</p> <p>References:</p> <p>PMID:22427918</p> <p>FLASH (FLICE-associated huge protein or CASP8AP2) is a large multifunctional protein that is involved in many cellular processes associated with cell death and survival</p> <p>PMID:12702723</p> <p>PMID:15592525</p> <p>PMID:1134007</p> </body> </html> </notes> <label text="FLASH*"/> <bbox w="80.0" h="40.0" x="29264.56" y="11709.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4100_rc_sa4100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:15592525</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="29264.56" y="11669.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa247_shh1_shh2_sa247" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa247_shh1_shh2_sa247"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR19A"/> </rdf:Bag> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa247_mo_sa246"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR19A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR19A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR19A"/> <clone/> <bbox w="90.0" h="25.0" x="6240.0" y="10608.5"/> <glyph class="unit of information" id="_f9c9d0b7-248a-4145-babc-7097a93be442"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="6270.0" y="10603.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ad_sa918_ad_sa918" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa918_ad_sa918"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHUK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKKα*"/> <bbox w="86.0" h="46.0" x="28153.0" y="5572.0"/> <glyph class="unit of information" id="_48e4e065-9733-4ae1-a4db-84d22abe9a55"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="28186.0" y="5567.0"/> </glyph> <glyph class="state variable" id="_ddf0de90-d72a-43a9-96e9-4749508b000a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28148.0" y="5590.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa170_an_sa170" compartmentRef="s_id_an_ca1_an_ca1"> <label text="c-JUN expression"/> <bbox w="116.0" h="29.0" x="6244.0" y="6590.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2093_emtc_em_sa2093" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2093_emtc_em_sa2093"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NICD*"/> <bbox w="50.0" h="19.0" x="1307.0" y="14356.5"/> <glyph class="state variable" id="_69ba8164-742f-45a2-a782-96747c0973b9"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="1297.0" y="14351.5"/> </glyph> <glyph class="state variable" id="_a1c30314-cb77-4f48-ae2d-46690ede7f3e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1352.0" y="14351.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa55_shh1_shh2_sa55" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa55_emtc_em_sa2193"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RUNX2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RUNX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RUNX2"/> <clone/> <bbox w="70.0" h="18.0" x="2859.0" y="14698.5"/> <glyph class="unit of information" id="_a31a4f2c-6c28-4d8b-9692-f658e94b8f7f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2884.0" y="14693.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1469_ce_sa1469" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1469_ce_sa1469"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XRCC4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XRCC4"/> <bbox w="74.0" h="34.0" x="13454.526" y="16850.578"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa21_wnc1_wnc2_csa21" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*:NFAT*:PPP3CB:PPP3R*</p> <p>References:</p> <p>s_wnc2_re42:(MAP:survival) PMID:21115349</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa21_wnc1_wnc2_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21115349"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin/_BR_Calmodulin/_BR_Ca2+)"/> <bbox w="107.0" h="277.0" x="18662.06" y="18038.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa94_wnc1_wnc2_sa94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="18671.56" y="18130.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa96_wnc1_wnc2_sa96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18673.06" y="18211.0"/> <glyph class="state variable" id="_0ffbd6a4-2727-42e0-8760-cc3c5543bd5f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18745.56" y="18226.0"/> </glyph> <glyph class="state variable" id="_58fd0dba-d5b3-446b-87e1-8a2c0febd498"> <state value="P" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18671.56" y="18087.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa92_wnc1_wnc2_sa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="18671.56" y="18044.5"/> <glyph class="state variable" id="_92cb914e-1f25-4f56-bfff-e823d4267465"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="18736.56" y="18039.713"/> </glyph> <glyph class="state variable" id="_df78030f-2674-4b07-aa4d-3def79edd535"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18666.56" y="18059.5"/> </glyph> <glyph class="state variable" id="_59ffe3e4-c8b3-4869-8c4e-5cee0bbe79d8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18666.564" y="18079.5"/> </glyph> <glyph class="state variable" id="_abf5fc09-5467-4b44-bb8e-f397f22e5b58"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18666.564" y="18039.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa95_wnc1_wnc2_sa95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18699.31" y="18171.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5313_rc_sa5313" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:5951</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5313_rc_sa5313"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Sérine"/> <bbox w="70.0" h="25.0" x="26244.06" y="10006.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa520_rc_csa520" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:HSP70*:IRE1-alpha*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa520_rc_csa520"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRE1*:HSPA1A"/> <bbox w="100.0" h="150.0" x="25839.06" y="12964.0"/> <glyph class="macromolecule" id="s_id_rc_sa5198_rc_sa5198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="70.0" x="25849.06" y="12979.0"/> <glyph class="state variable" id="_66148287-efd4-41ad-8c1f-b5066726ab79"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25900.629" y="12974.0"/> </glyph> <glyph class="unit of information" id="_0d29c416-1c4b-4f92-95b7-ae0281fe22df"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25866.56" y="12974.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5197_rc_sa5197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 70kDa protein 1A</p> <p>HUGO:HSPA1A HGNC:5232 ENTREZ:3303 UNIPROT:P08107 </p> <p>heat shock 70kDa protein 1B</p> <p>HUGO:HSPA1B HGNC:5233 ENTREZ:3304 UNIPROT:P08107 </p> <p>heat shock 70kDa protein 1-like</p> <p>HUGO:HSPA1L HGNC:5234 ENTREZ:3305 UNIPROT:P34931</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="25849.06" y="13054.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2395_in_sa2395" compartmentRef="s_id_in_ca12_in_ca12"> <label text="TBX21"/> <bbox w="80.0" h="40.0" x="19880.0" y="4865.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2817_rc_sa2817" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:18077 KEGGCOMPOUND:C00459 CAS:365-08-2</p> </body> </html> </notes> <label text="dTTP"/> <bbox w="70.0" h="25.0" x="19734.06" y="11996.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa177_ca_sa177" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa177_ca_sa177"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL5"/> <bbox w="90.0" h="25.0" x="1435.0" y="3993.5"/> <glyph class="unit of information" id="_13feea56-48ad-43ce-afc6-a42013ea5432"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1470.0" y="3988.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa83_shh1_shh2_sa83" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa83_shh1_shh2_sa83"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAX6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAX6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAX6"/> <bbox w="90.0" h="25.0" x="26604.06" y="21317.5"/> <glyph class="unit of information" id="_b1426e28-af70-4610-80f6-b9bd9a83488d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21312.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4611_rc_sa4611" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4611_rc_sa4611"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIFM1"/> <bbox w="90.0" h="25.0" x="23404.56" y="16092.5"/> <glyph class="unit of information" id="_70897dc4-1054-44a7-a99c-90adc628b923"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23439.56" y="16087.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa83_wnc1_wnc3_sa83" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa83_wnc1_wnc3_sa83"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPC6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPC6"/> <bbox w="70.0" h="25.0" x="15651.061" y="21119.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa4_wnc1_wnc2_csa4" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPP3CB:PPP3R*</p> <p>References:</p> <p>s_wnc2_re7(MAP:survival):</p> <p>PMID:17593948</p> <p>PMID:18235236</p> <p>s_wnc2_re9(MAP:survival):</p> <p>Calcineurin can be proteolysed which results in a truncated form of the catalytic subunit A. The truncated form is constitutively active and irreversible and does not require calcium and calmodulin for activation.</p> <p>PMID:17593948, PMID:14627704</p> <p>s_wnc2_re50:(MAP:survival) PMID:16131541</p> <p>s_wnc2_re68:(MAP:survival) PMID:15489953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa4_wnc1_wnc2_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18235236"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16131541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15489953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin)"/> <bbox w="100.0" h="120.0" x="17891.06" y="17962.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa19_wnc1_wnc2_sa19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="17904.06" y="17974.0"/> <glyph class="state variable" id="_bb3f39ff-c0e2-4dea-b4e9-9d30bc785ffc"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="17969.06" y="17969.213"/> </glyph> <glyph class="state variable" id="_69338ecc-4312-4896-8755-a649f0c9dfda"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17899.06" y="17989.0"/> </glyph> <glyph class="state variable" id="_44295ff7-b9b4-4f1d-9918-4eaccaa684e3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17899.064" y="18009.0"/> </glyph> <glyph class="state variable" id="_f8ad07e4-dc6d-486b-a322-fca23da98b7e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17899.064" y="17969.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa20_wnc1_wnc2_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="17904.06" y="18017.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa472_rc_csa472" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMBRA1:BCL2</p> <p>References:</p> <p>23377657</p> <p>21358617</p> </body> </html> </notes> <label text="AMBRA1:BCL2"/> <bbox w="100.0" h="120.0" x="27079.06" y="10849.0"/> <glyph class="macromolecule" id="s_id_rc_sa4468_rc_sa4468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy/beclin-1 regulator 1</p> <p>HUGO:AMBRA1 HGNC:25990 ENTREZ:55626 UNIPROT:Q9C0C7</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:21358617</p> </body> </html> </notes> <label text="AMBRA1"/> <bbox w="80.0" h="40.0" x="27084.346" y="10862.714"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4469_rc_sa4469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="27085.346" y="10914.714"/> <glyph class="state variable" id="_52c4c794-6a9b-43df-b186-4cdc03e73c61"> <state value="" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa216_in_csa216"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11438547"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFR2"/> <bbox w="190.0" h="120.0" x="24140.0" y="3470.0"/> <glyph class="macromolecule" id="s_id_in_sa1637_in_sa1637"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="24145.0" y="3530.0"/> <glyph class="state variable" id="_4e5a228d-6b20-4414-a21a-c2df4130091a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24220.0" y="3543.6672"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1638_in_sa1638"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TRAF1"/> <bbox w="80.0" h="40.0" x="24145.0" y="3480.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1636_in_sa1636"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:EXOCYTOSIS_AND_PHAGOCYTOSIS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSION</p> <p>CASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:KLRG1, CASCADE:FCAR, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:IL15, CASCADE:CSF2, CASCADE:CSF1, CASCADE:TNF, CASCADE:IFNG</p> <p>PMID:19732719</p> <p>Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)</p> <p>References:</p> <p>PMID:21133840</p> <p>TNF is a pleiotropic cytokine produced by many different types of cells in the body. However, cells of the monocytic lineage-such as macrophages, astroglia, microglia, Langerhans cells, Kupffer cells, and alveolar macrophages-are the primary synthesizers of TNF</p> <p>PMID:1431106</p> <p>TNF induced tumoricidal activity of macrophages.</p> <p>PMID:14607933, 14625680</p> <p>TNF and IFNG cooperate in the activation of macrophages.</p> <p>PMID:18633355</p> <p>TNF is pro-angiogenic facror.</p> <p>PMID:23510023, PMID:23170255</p> <p>TRAIL, FASL and TNF provides Dendritic cell tumor killing activity.()</p> <p>L10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expression</p> <p>PMID:22955274</p> <p>SHIP inhibit MAPKp38 activation and prevent MNK1 phosphorylation by inhibiting the p38 MAPK pathway downstream of IL10. MNK1 regulates TNFa mRNA polysome assembly and upregulates TNFa translation.IL-10 Inhibits TNF Translation through SHIP1-mediated Inhibition of Mnk1</p> <p>PMID:15699106, PMID:12646658</p> <p>Phosphorylated STAT1 binds to TNF promoter end induces TNF expression downstream of IFNG.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:24092389</p> <p>TANs from early tumors are more cytotoxic toward tumor cells and produce higher levels of TNF-a, NO, and H2O2 and, in established tumors, these functions are downregulated and TAN acquire a more protumorigenic phenotype</p> <p>PMID:21826665</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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rdf:resource="urn:miriam:hgnc.symbol:ORC6L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ORC6*"/> <bbox w="80.0" h="40.0" x="12490.27" y="9620.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa144_ce_sa144" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Additional pathway names: alternative NHEJ (A_NHEJ or alt_NHEJ) or backup NHEJ (B_NHEJ) or MMEJA_NHEJ:DNA:st2Resected DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):PMID:21376743, PMID:24050180, PMID:22743550 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Additional pathway names: alternative NHEJ (A_NHEJ or alt_NHEJ) or backup NHEJ (B_NHEJ) or MMEJA_NHEJ:DNA:st2Resected DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):PMID:21376743, PMID:24050180, PMID:22743550 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa144_ce_sa144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="A_NHEJ_DNA_st2*"/> <bbox w="150.0" h="26.0" x="13566.926" y="15837.272"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa340_akt1_akt1_sa340" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa340_akt1_akt1_sa340"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PHLPP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PHLPP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PHLPP*"/> <bbox w="80.0" h="40.0" x="13146.061" y="18201.0"/> <glyph class="state variable" id="_8944c677-ecfb-4b42-8504-b4bfdd4421bf"> <state value="" variable="S869"/> <bbox w="30.0" h="10.0" x="13211.061" y="18196.213"/> </glyph> <glyph class="state variable" id="_ac70320d-adb0-40b7-bdc1-f617264a1122"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13141.061" y="18216.0"/> </glyph> <glyph class="state variable" id="_74a0925c-d95d-4d45-b18d-fea4908824ca"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13221.061" y="18207.715"/> </glyph> <glyph class="state variable" id="_9d98e13e-2db9-499e-93b0-69fe1c0300ab"> <state value="" variable="S847"/> <bbox w="30.0" h="10.0" x="13131.553" y="18196.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa205_ce_sa205" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa205_ce_sa205"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCF"/> <bbox w="80.0" h="40.0" x="16652.443" y="16717.889"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa21_wca1_wca1_csa21" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN*:CK1_alpha_*:GSK3*:PP2A_C*:PR55_alpha_*:PR65_A*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca1_re21:(MAP:survival) PMID:19556239</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa21_wca1_wca1_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19556239"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex_PP2A)"/> <bbox w="276.0" h="163.0" x="20506.56" y="18872.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa119_wca1_wca1_sa119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20517.56" y="18882.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa117_wca1_wca1_sa117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox 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variable="S1507"/> <bbox w="35.0" h="10.0" x="20539.965" y="19005.5"/> </glyph> <glyph class="state variable" id="_2841e822-f06e-4402-ad5a-0fb3c2c981b9"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20580.06" y="19004.633"/> </glyph> <glyph class="state variable" id="_aff061e1-866b-47f6-85f7-9a62759078e6"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20540.092" y="18965.5"/> </glyph> <glyph class="state variable" id="_530d9e31-1c61-43da-92c5-1ec1c6171866"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20500.06" y="19005.22"/> </glyph> <glyph class="state variable" id="_32cfda45-6880-4fb2-9b9d-efe9020af82c"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20500.553" y="18965.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa122_wca1_wca1_sa122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label text="PP2A_C*"/> <bbox w="80.0" h="40.0" x="20689.56" y="18883.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa123_wca1_wca1_sa123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PR55α*"/> <bbox w="80.0" h="40.0" x="20689.56" y="18925.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa118_wca1_wca1_sa118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20601.56" y="18882.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa120_wca1_wca1_sa120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20603.06" y="18926.0"/> <glyph class="state variable" id="_30c2359e-715a-4e76-a03e-dceae188de34"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20668.06" y="18921.213"/> </glyph> <glyph class="state variable" id="_ad83fc5f-c298-4061-95d2-a747da444c80"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20617.277" y="18921.0"/> </glyph> <glyph class="state variable" id="_bc308fcd-2a2d-4397-9da9-b18181f1abf8"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20588.553" y="18921.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PR65_A*"/> <bbox w="80.0" h="40.0" x="20689.56" y="18968.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa121_wca1_wca1_sa121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="ARF3"/> <bbox w="80.0" h="40.0" x="2178.0" y="12974.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc1_sa685_wnc1_wnc1_sa685" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re142(MAP:survival):</p> <p>Activated Daam1 is responisble for the inhibition</p> <p>PMID:20351293</p> <p>s_wnc1_re154(MAP:survival):</p> <p>PTEN contains a C2-domain which inhibits cell migration. 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rdf:resource="urn:miriam:hgnc.symbol:FTL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FTL"/> <clone/> <bbox w="80.0" h="40.0" x="25389.06" y="15406.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2305_rc_sa3654" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2305_rc_sa3654"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FTL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FTL"/> <clone/> <bbox w="80.0" h="40.0" x="21639.06" y="10746.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa17_shh1_shh3_csa17" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TSC1:TSC2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re24:(MAP:survival) PMID:15611338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa17_shh1_shh3_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSC1/2"/> <bbox w="100.0" h="120.0" x="27535.06" y="22855.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa89_shh1_shh3_sa89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 1</p> <p>HUGO:TSC1 HGNC:12362 ENTREZ:7248 UNIPROT:Q92574 GENECARDS:TSC1 REACTOME:66499 KEGG:7248 ATLASONC:TSC1ID183 WIKI:TSC1 </p> <p>Q92574</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="27543.56" y="22865.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa90_shh1_shh3_sa90"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="27543.56" y="22907.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa150_mo_sa150" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0vascular endothelial growth factor A vascular endothelial growth factor B vascular endothelial growth factor Cvascular endothelial growth factor D ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0vascular endothelial growth factor A vascular endothelial growth factor B vascular endothelial growth factor Cvascular endothelial growth factor D </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa150_mo_sa150"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGF*"/> <bbox w="90.0" h="25.0" x="5131.0" y="10865.5"/> <glyph class="unit of information" id="_b052c757-864c-4d07-a89f-77f68dbc6f7f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5166.0" y="10860.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa947_ca_sa947" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:26921338 (PEDF, SERPINF1) normal dermal fibroblasts expressing high PEDF levels attenuated melanoma growth and angiogenesis in vivo, whereas PEDF-depleted fibroblasts exerted tumor-promoting effects. melanoma cells produced PDGF-BB and TGFβ, which blocked PEDF production in fibroblasts. Notably, cancer-associated fibroblasts (CAF) isolated from patient-derived tumors expressed markedly low levels of PEDF. Treatment of patient CAF and TGFβ-treated normal fibroblasts with exogenous PEDF decreased the expression of CAF markers and restored PEDF expression. Finally, expression profiling of PEDF-depleted fibroblasts revealed induction of IL8, SERPINB2, hyaluronan synthase-2, and other genes associated with tumor promotion and metastasis.PEDF treatment strongly elevated cytoplasmic PEDF levels in the activated fibroblasts, suggesting a positive feedback loop. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:26921338 (PEDF, SERPINF1) normal dermal fibroblasts expressing high PEDF levels attenuated melanoma growth and angiogenesis in vivo, whereas PEDF-depleted fibroblasts exerted tumor-promoting effects. melanoma cells produced PDGF-BB and TGFβ, which blocked PEDF production in fibroblasts. Notably, cancer-associated fibroblasts (CAF) isolated from patient-derived tumors expressed markedly low levels of PEDF. Treatment of patient CAF and TGFβ-treated normal fibroblasts with exogenous PEDF decreased the expression of CAF markers and restored PEDF expression. Finally, expression profiling of PEDF-depleted fibroblasts revealed induction of IL8, SERPINB2, hyaluronan synthase-2, and other genes associated with tumor promotion and metastasis.PEDF treatment strongly elevated cytoplasmic PEDF levels in the activated fibroblasts, suggesting a positive feedback loop. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa947_ca_sa947"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINF1"/> </rdf:Bag> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="9310.0" y="6040.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2850_in_sa2850" compartmentRef="s_id_in_ca47_in_ca47"> <label text="MME"/> <bbox w="80.0" h="40.0" x="10543.75" y="192.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1136_ad_sa1136" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:TCRMODULE:TCR_SIGNALINGPMID:15536066 The p100 gene promoter is itself a target of NF-κB (23), so it was possible that the increase in p100 level and the generation of p52 in response to TCR/CD28 signaling is an indirect effect of PKCθ-mediated NF-κB activation. We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manner ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:TCRMODULE:TCR_SIGNALINGPMID:15536066 The p100 gene promoter is itself a target of NF-κB (23), so it was possible that the increase in p100 level and the generation of p52 in response to TCR/CD28 signaling is an indirect effect of PKCθ-mediated NF-κB activation. We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manner </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1136_ad_sa1136"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536066"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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of a receptor tyrosine residue </p> <p>(Y440) that serves as a docking site for STAT1, which exists in a latent state in the cytoplasm.</p> </body> </html> </notes> <label text="IFNGR"/> <bbox w="120.0" h="130.0" x="2560.0" y="995.0"/> <glyph class="macromolecule" id="s_id_ca_sa421_ca_sa421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interferon gamma receptor 1</p> <p>HUGO:IFNGR1 hgnc_id:HGNC:5439 HGNC:5439 ENTREZ:3459 UNIPROT:P15260</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:IFNG</p> <p>References:</p> <p>PMID:17683974</p> <p>IFNG dimer binds to receptor contained two IFNGR1 and two IFNGR2 subunits.</p> </body> </html> </notes> <label text="IFNGR1"/> <bbox w="80.0" h="50.0" x="2580.0" y="1010.0"/> <glyph class="state variable" id="_7a9c67e0-a77f-4f44-8509-20013c306940"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2575.0" 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id="_6b219a7d-6688-4d9b-b749-623210e26d5a"> <state value="" variable="S1341"/> <bbox w="35.0" h="10.0" x="25694.236" y="11989.0"/> </glyph> <glyph class="state variable" id="_2cf56196-10c4-4081-b82d-14f83ea3ed92"> <state value="" variable="S939"/> <bbox w="30.0" h="10.0" x="25682.656" y="11949.0"/> </glyph> <glyph class="state variable" id="_9f6f3361-4b26-4d3f-bf66-1a7ca243e8aa"> <state value="" variable="T1462"/> <bbox w="35.0" h="10.0" x="25713.51" y="11949.0"/> </glyph> <glyph class="state variable" id="_40b77989-b519-4b1c-b6e1-c11ef34cb10c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25749.06" y="11989.0"/> </glyph> <glyph class="state variable" id="_4c419624-6a59-482d-bd55-228e0126ca89"> <state value="" variable="S1345"/> <bbox w="35.0" h="10.0" x="25712.89" y="11989.0"/> </glyph> <glyph class="state variable" id="_2eba0f04-3b6b-4154-9858-21850f43291a"> <state value="" variable="S1798"/> <bbox w="35.0" h="10.0" x="25736.56" y="11949.579"/> </glyph> <glyph class="state variable" id="_46efad94-5fc9-41b9-8447-2a1f77c3de23"> <state value="?" variable="M1"/> <bbox w="25.0" h="10.0" x="25661.56" y="11988.721"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa153_an_sa153" compartmentRef="s_id_an_ca1_an_ca1"> <label text="IP3 activation"/> <bbox w="80.0" h="30.0" x="5242.0" y="7020.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa499_rc_csa499" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CASP8:FADD</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>CASP8:CASP8-ubq:FADD</p> <p>PMID:26587781</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa499_rc_csa499"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26587781"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CASP8:CASP8-ubq:FADD"/> <bbox w="117.0" h="142.0" x="28570.846" y="14798.286"/> <glyph class="macromolecule" id="s_id_rc_sa5131_rc_sa5132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28580.846" y="14859.714"/> <glyph class="state variable" id="_aed35596-51a5-4d99-886e-a035a0ad5273"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28643.346" y="14866.493"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5134_rc_sa5135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="28597.275" y="14828.286"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5131_rc_sa5133"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28590.846" y="14869.714"/> <glyph class="state variable" id="_be17e4bb-1e9e-47c3-a992-98e58be8c727"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28653.346" y="14876.493"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5134_rc_sa5134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="28577.275" y="14818.286"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5131_rc_sa5131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8</p> <p>HUGO:CASP8 hgnc_id:HGNC:1509 HGNC:1509 ENTREZ:841 UNIPROT:Q14790</p> </body> </html> </notes> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="28580.846" y="14859.714"/> <glyph class="state variable" id="_bef426e3-07c0-4343-a540-f7920d693f91"> <state value="Ub" variable="K63"/> <bbox w="35.0" h="10.0" x="28643.346" y="14866.493"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa427_mpk1_mpk1_sa427" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa427_mpk1_mpk1_sa427"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF2"/> <bbox w="50.0" h="25.0" x="9898.061" y="20424.5"/> <glyph class="state variable" id="_2c036bac-dd54-450c-aaa3-bc5df2316be4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9893.061" y="20432.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa22_shh1_shh2_csa22" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK8:Core_promoter*:CyclinC*:MED12:MED13:Mediator*</p> <p>References:</p> <p>s_shh2_re51(MAP:survival):</p> <p>PMID:9216996 PMID:16413481 PMID:17000779 </p> <p>ANNOTATION: it was shown that Med12 binds to Gli1 promoter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa22_shh1_shh2_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9216996"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16413481"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17000779"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEDIATOR_MED_CYCLINC_CDK8"/> <bbox w="283.0" h="244.0" x="27011.56" y="21169.5"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa195_shh1_shh2_sa195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin-dependent kinase 8</p> <p>HUGO:CDK8 HGNC:1779 ENTREZ:1024 UNIPROT:P49336 GENECARDS:CDK8 REACTOME:69456 KEGG:1024 ATLASONC:GC_CDK8 WIKI:CDK8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21327159</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="CDK8"/> <bbox w="80.0" h="40.0" x="27190.56" y="21182.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa201_shh1_shh2_sa201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CREB binding protein</p> <p>HUGO:CREBBP HGNC:2348 ENTREZ:1387 UNIPROT:Q92793 GENECARDS:CREBBP REACTOME:51510 KEGG:1387 ATLASONC:CBPID42 WIKI:CREBBP </p> <p>cAMP responsive element binding protein 3</p> <p>HUGO:CREB3 HGNC:2347 ENTREZ:10488 UNIPROT:O43889 GENECARDS:CREB3 KEGG:10488 ATLASONC:GC_CREB3 WIKI:CREB3 </p> <p>cAMP responsive element binding protein 5</p> <p>HUGO:CREB5 HGNC:16844 ENTREZ:9586 UNIPROT:Q02930 GENECARDS:CREB5 KEGG:9586 WIKI:CREB5 </p> <p>CBP KAT3A RTS</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:E2F1, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17565603</p> <p>PMID:15337521</p> </body> </html> </notes> <label text="CBP*"/> <bbox w="80.0" h="40.0" x="27017.56" y="21320.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa194_shh1_shh2_sa194"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin C</p> <p>HUGO:CCNC HGNC:1581 ENTREZ:892 UNIPROT:P24863 GENECARDS:CCNC REACTOME:51936 KEGG:892 ATLASONC:GC_CCNC WIKI:CCNC</p> <p>Map modules:</p> <p>MAP:cellcycle / MODULE:CYCLINC, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="CyclinC*"/> <bbox w="80.0" h="40.0" x="27190.56" y="21227.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa196_shh1_shh2_sa196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mediator complex subunit 12</p> <p>HUGO:MED12 HGNC:11957 ENTREZ:9968 UNIPROT:Q93074 GENECARDS:MED12 REACTOME:65526 KEGG:9968 ATLASONC:GC_MED12 WIKI:MED12</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17000779</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="MED12"/> <bbox w="80.0" h="40.0" x="27106.56" y="21182.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa199_shh1_shh2_sa199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 3</p> <p>HUGO:GLI3 HGNC:4319 ENTREZ:2737 UNIPROT:P10071 GENECARDS:GLI3 KEGG:2737 ATLASONC:GC_GLI3 WIKI:GLI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI3-190*"/> <bbox w="165.0" h="41.0" x="27107.81" y="21317.0"/> <glyph class="state variable" id="_16c76a1e-e97b-48fd-b7aa-5361016a843d"> <state value="" variable="S877"/> <bbox w="30.0" h="10.0" x="27256.535" y="21353.0"/> </glyph> <glyph class="state variable" id="_46dbabd7-84b5-4842-ad88-94b7309b07a4"> <state value="" variable="S903"/> <bbox w="30.0" h="10.0" x="27176.764" y="21353.0"/> </glyph> <glyph class="state variable" id="_6371644d-0bc2-404e-a5bb-4aa547e741fb"> <state value="" variable="S860"/> <bbox w="30.0" h="10.0" x="27192.963" y="21312.0"/> </glyph> <glyph class="state variable" id="_6b25af6c-a61d-4fdc-a4cc-8488a83201b5"> <state 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y="21281.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa193_shh1_shh2_sa193"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="Mediator*"/> <bbox w="80.0" h="40.0" x="27022.56" y="21227.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa197_shh1_shh2_sa197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mediator complex subunit 13</p> <p>HUGO:MED13 HGNC:22474 ENTREZ:9969 UNIPROT:Q9UHV7 GENECARDS:MED13 REACTOME:65530 KEGG:9969 WIKI:MED13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17000779</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="MED13"/> <bbox w="80.0" h="40.0" x="27106.56" y="21227.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa198_shh1_shh2_sa198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="27198.56" y="21281.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_wca1_wca2_sa211_wca1_wca2_sa211" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <label text="endosomal degradation"/> <bbox w="30.0" h="30.0" x="25210.06" y="19607.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2711_in_sa2711" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SOCS2"/> <bbox w="80.0" h="40.0" x="23015.0" y="2410.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa958_ad_sa958" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR, MODULE:TCR_SIGNALING</p> <p>PMID:12215447 </p> <p>The long form of FLIP c-FLIP(L) is an activator of caspase-8.</p> <p>FLIPL induces processing of caspase-8. (non immune cells) </p> <p>PMID:17462996</p> <p>Following TCR ligation, a small portion of total cellular caspase-8 and c-FLIP(L) rapidly migrate to lipid rafts where they associate in an active caspase complex. Activation of caspase-8 in lipid rafts is followed by rapid cleavage of c-FLIP(L) at a known caspase-8 cleavage site. 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id="s_id_in_sa1076_in_sa1076"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL6R"/> <bbox w="80.0" h="50.0" x="9086.625" y="2898.1875"/> <glyph class="unit of information" id="_ffc1e2b6-ea89-457d-b6f1-1de1e25b73a2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9104.125" y="2893.1875"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa878_rc_sa878" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa878_rc_sa878"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ENO3"/> <bbox w="80.0" h="40.0" x="19096.777" y="10995.898"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa38_wnc1_wnc3_sa38" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa38_wnc1_wnc3_sa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EREG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EREG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERE"/> <bbox w="70.0" h="25.0" x="15831.061" y="20772.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa230_ce_csa230" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CIP1_KIP1*:PARP1</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CIP/KIP*/PARP*"/> <bbox w="100.0" h="120.0" x="11945.473" y="9003.356"/> <glyph class="macromolecule" id="s_id_ce_sa1176_ce_sa1176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (p21, Cip1)</p> <p>HUGO:CDKN1A, HGNC:1784, ENTREZ:1026, UNIPROT:P38936</p> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B, HGNC:1785, ENTREZ:1027, UNIPROT:P46527</p> <p>cyclin-dependent kinase inhibitor 1C (p57, Kip2)</p> <p>HUGO:CDKN1C, HGNC:1786, ENTREZ:1028, UNIPROT:P49918</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CIP1_KIP1*"/> <bbox w="80.0" h="40.0" x="11956.171" y="9010.338"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1174_ce_sa1174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="81.0" h="40.0" x="11952.193" y="9055.814"/> <glyph class="state variable" id="_6c753132-a377-45da-98ff-993b9e9803d9"> <state value="" variable="PolyADPribose"/> <bbox w="75.0" h="10.0" x="11950.753" y="9050.814"/> </glyph> <glyph class="state variable" id="_82cd8383-7e9d-4b8d-a344-439a598a8dd3"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="11932.193" y="9075.044"/> </glyph> <glyph class="state variable" id="_1991f89f-fff2-42f0-9883-fc8c6dbabfc9"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="11941.105" y="9090.814"/> </glyph> <glyph class="state variable" id="_f30e6978-31c7-468d-a8b0-4befb6a8b2e0"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="11932.193" y="9084.745"/> </glyph> <glyph class="state variable" id="_5b577e75-700b-462c-bdd7-3c899099931c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12028.193" y="9070.814"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa52_wca1_wca3_csa52" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP*:HDAC1_2*:LEF_TCF*:WRE*</p> <p>References:</p> <p>s_wca3_re109:(MAP:survival) PMID:12711682 PMID:15834423 PMID:16510874 PMID:15327769 PMID:16547505</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa52_wca1_wca3_csa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12711682"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15834423"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327769"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547505"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP*:HDAC1_2*:LEF_TCF*:WRE*"/> <bbox w="103.0" h="213.0" x="21467.06" y="22431.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa318_wca1_wca3_sa318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> <p>PMID:21285352</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="21474.436" y="22526.5"/> <glyph class="state variable" id="_3c4941ef-36f6-4ce9-a85e-dc45cb0245a1"> <state value="" variable="S166"/> <bbox w="30.0" h="10.0" x="21459.928" y="22521.5"/> </glyph> <glyph class="state variable" id="_4bee0024-bdb1-4864-ae18-81d73b7df83b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21549.436" y="22522.377"/> </glyph> <glyph class="state variable" id="_d95a9be4-5499-4f33-932a-d5aca0a3c267"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="21541.936" y="22558.115"/> </glyph> <glyph class="state variable" id="_5c7e8731-42ff-4584-99a1-68cf69e6f375"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21549.436" y="22541.5"/> </glyph> <glyph class="state variable" id="_f1aed57d-12f8-4d0e-a1e0-7166a3fa421f"> <state value="" variable="T155"/> <bbox w="30.0" h="10.0" x="21459.436" y="22561.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa320_wca1_wca3_sa320"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="21475.686" y="22437.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa321_wca1_wca3_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="21475.936" y="22483.0"/> <glyph class="state variable" id="_676fd703-8df5-44c1-910d-a67d49ce7628"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="21540.936" y="22478.213"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa319_wca1_wca3_sa319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="21478.936" y="22573.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa43_mpk1_mpk1_csa43" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:MEK*:SEF*</p> </body> </html> </notes> <label text="ERK*:MEK*:SEF*"/> <bbox w="126.0" h="87.0" x="8120.06" y="19953.5"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa221_mpk1_mpk1_sa221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 17 receptor D</p> <p>HUGO:IL17RD HGNC:17616 ENTREZ:54756 UNIPROT:Q8NFM7</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sef1 which is a putative transmembrane protein of the Golgi apparatus seems to be a scaffold protein that recruits ERK1/2 and MEK1/2 to its vicinity and probably allows their activation by Golgi-localised Ras proteins.</p> <p>Unlike many other scaffolds ERK1/2 do not dissociate from Sef1 upon stimulation and therefore nuclear translocation of the Sef1 anchored fraction of ERK1/2 molecules is blocked.</p> </body> </html> </notes> <label text="SEF*"/> <bbox w="50.0" h="25.0" x="8136.935" y="19962.25"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa222_mpk1_mpk1_sa222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="8173.3213" y="19962.658"/> <glyph class="state variable" id="_b059cfd2-46b2-4485-b7ff-f7f6bc0b4f01"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8165.8213" y="19974.324"/> </glyph> <glyph class="state variable" id="_9e142329-f160-47fd-a870-9936623e82f4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8165.8213" y="19965.783"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa223_mpk1_mpk1_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="8172.049" y="19988.842"/> <glyph class="state variable" id="_8d89dea9-87c6-4d49-9f24-f87fe849a5b9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8164.549" y="20000.7"/> </glyph> <glyph class="state variable" id="_3b004465-dd4f-4eb9-9eb2-29bf053227ea"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8164.549" y="19991.39"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa49_emtc_em_sa49" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa49_emtc_em_sa49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP1"/> <clone/> <bbox w="40.0" h="20.0" x="2605.0" y="17250.566"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa49_ca_sa955" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa49_ca_sa955"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP1"/> <clone/> <bbox w="80.0" h="40.0" x="5170.0" y="4690.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1083_ad_sa1083" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING, MODULE:TH1</p> <p>CASCADE:TCR</p> <p>PMID:24104473; PMID:16799472</p> <p> Triggering of the T cell receptor (TCR) activates Src family kinases (SFK) and the zeta-chain-associated protein of 70 kDa (ZAP-70). These tyrosine kinases lead to the activation of the transcription factor NF-κB and the p38 mitogen-activated protein kinase. NF-κB induces transcription of the Gadd45b gene. The same applies to the cytokines IL-12 and IL-18 as well as stimulation of the Notch receptor and its cytoplasmic effector Deltex. The cytokine IL-2 activates transcription of the Gadd45g gene. Both Gadd45β and Gadd45γ proteins interact with the kinase MEKK4, which leads to sustained p38 activation and, subsequently, to interferon-γ (IFN-γ) production and Th1 differentiation.</p> <p>PMID:11371360</p> <p>mice deficient in MKK3, a direct upstream activator of the p38 kinase pathway, have impaired type I cytokine immune responses (Lu et al., 1999)</p> <p>PMID:15735649 </p> <p>In the classical MAPK enzymatic cascade, p38 dual phosphorylation is mediated by the MAPKKs MKK3, MKK4 and MKK6, which themselves are activated by MAPKK kinase−mediated phosphorylation</p> <p>Spontaneous phosphorylation of MKK3 and MKK6 was low in CD4+ T cells and increased equivalently in a dose-dependent way after stimulation with anti-CD3</p> <p>Baseline phosphorylation of MKK4 did not increase with anti-CD3 stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1083_ad_sa1083"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24104473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11371360"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15735649"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K3"/> <bbox w="80.0" h="40.0" x="26666.0" y="5305.0"/> <glyph class="state variable" id="_d5de04af-acd3-4fb4-a53d-de4e0c901552"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26661.0" y="5319.9683"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa93_ca_sa93" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:MACROPHAGE</p> <p>References:</p> <p>PMID:23204521 </p> <p>Mitochondrial reactive oxygen species regulate transforming growth factor-beta signaling</p> <p>PMID:22874531</p> <p>Fibroblasts overexpressing the constitutively active TGF-β</p> <p>receptor kinase (RI; T204D) show increased autophagy and oxidative stress-induced aerobic glycolysis</p> <p>ROS production downstream of TGFB induces lactate secretion</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa93_ca_sa93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23204521"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22874531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS production"/> <bbox w="139.0" h="37.0" x="3200.75" y="4261.75"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa336_an_sa336" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: Ang1</p> <p>HGNC:484</p> <p>PMID:19223473</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa336_an_sa336"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19223473"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ANGPT1"/> <bbox w="80.0" h="40.0" x="7212.0" y="7505.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa218_ce_csa218" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Securin*:Separin*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>Separin is ihibited by Securin</p> </body> </html> </notes> <label text="Securin*/Separin*"/> <bbox w="100.0" h="113.0" x="10324.473" y="10648.356"/> <glyph class="macromolecule" id="s_id_ce_sa1091_ce_sa1091"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pituitary tumor-transforming 1, Securin</p> <p>HUGO:PTTG1, HGNC:9690, ENTREZ:9232, UNIPROT:O95997</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:SPINDLE_CHECKPOINT, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:17962814, PMID:11238996, PMID:20691907</p> </body> </html> </notes> <label text="Securin*"/> <bbox w="80.0" h="40.0" x="10336.712" y="10697.677"/> <glyph class="state variable" id="_cfb06b4a-49ff-494b-9a3e-08e72cffd524"> <state value="" variable="S165"/> <bbox w="30.0" h="10.0" x="10333.204" y="10692.677"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1090_ce_sa1090"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>extra spindle pole bodies homolog 1 (S. cerevisiae), Separin, Separase</p> <p>HUGO:ESPL1, HGNC:16856, ENTREZ:9700, UNIPROT:Q14674</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:12297314, PMID:17604273, PMID:19342897, PMID:20144767, PMID:19758559</p> </body> </html> </notes> <label text="Separin*"/> <bbox w="80.0" 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compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="miR-21_PTEN"/> <bbox w="100.0" h="100.0" x="6522.0" y="10264.0"/> <glyph class="nucleic acid feature" id="s_id_mo_sa480_mo_sa480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR21"/> <bbox w="90.0" h="25.0" x="6527.0" y="10281.5"/> <glyph class="unit of information" id="_91d5450f-d676-420e-bbf1-de86bf540884"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="6557.0" y="10276.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa479_mo_sa479"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:PTEN ----- content merged by Celldesigner to SBGN-ML translation ------ phosphatase and tensin homolog </body> </html> </notes> <label text="PTEN"/> <bbox w="90.0" h="25.0" x="6527.0" y="10311.5"/> <glyph class="unit of information" id="_e9741ace-e1d8-4e9a-ba61-91a895857beb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6562.0" y="10306.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1097_ad_sa1097" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGCASCADE:TCRPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGCASCADE:TCRPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1097_ad_sa1097"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592273"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592273"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GADD45B"/> <bbox w="90.0" h="25.0" x="27961.0" y="7172.5"/> <glyph class="unit of information" id="_666fd4ab-efdb-437a-8e04-45e4f4e8b5c9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27996.0" y="7167.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa30_ca_csa30" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IL1R1:IL1RAP</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:IL1</p> <p>PMID:19161412 </p> <p>IL-1 signaling is initiated by the recruitment of MyD88 to the IL-1RI/IL-1RAcP complex.</p> <p>The recruitment of MyD88 leads to the recruitment of IRAK1 and IRAK4, probably via their death domains. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor accessory protein</p> <p>HUGO:IL1RAP hgnc_id:HGNC:5995 HGNC:5995 ENTREZ:3556 UNIPROT:Q9NPH3</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:IL1</p> <p>PMID:18977329</p> <p>IL-1β activates MDSC in vitro and in vivo through an IL-1RI/NF-κB pathway.</p> </body> </html> </notes> <label text="IL1RAP"/> <bbox w="80.0" h="50.0" x="1825.0" y="1175.0"/> <glyph class="unit of information" id="_b52cd65a-3ac3-4583-aabe-773cbcf818cc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1842.5" y="1170.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa342_ca_sa342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor type 1</p> <p>HUGO:IL1R1 hgnc_id:HGNC:5993 HGNC:5993 ENTREZ:3554 UNIPROT:P14778</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:IL1</p> <p>PMID:18977329</p> <p>IL-1β activates MDSC in vitro and in vivo through an IL-1RI/NF-κB pathway.</p> </body> </html> </notes> <label text="IL1R1"/> <bbox w="80.0" h="50.0" x="1825.0" y="1225.0"/> <glyph class="unit of information" id="_5d5171bc-8726-4ad6-92ca-17ccd33aea50"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1842.5" y="1220.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1978_rc_sa1978" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18050 KEGGCOMPOUND:C00064 CAS:56-85-9</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="L-glutamine"/> <bbox w="85.0" h="33.0" x="17636.56" y="12302.75"/> </glyph> <glyph class="phenotype" id="s_id_gf1_sa146_gf1_sa146" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p> PMID:24703957</p> <p>PDGFs pathways</p> <p>PMID:25772309 </p> <p>FGFs pathways</p> <p>PMID:28513565</p> <p>EGFR pathways</p> <p>PMID:20388853 </p> <p>IGFR1 pathways</p> <p>PMID:23792360 </p> <p>MST1 pathways</p> <p>PMID:20303741 </p> <p>HGF</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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class="complex" id="s_id_in_csa185_in_csa185" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Inflammasome"/> <bbox w="110.0" h="150.0" x="13075.0" y="6725.0"/> <glyph class="macromolecule" id="s_id_in_sa1241_in_sa1241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NLRP3"/> <bbox w="80.0" h="40.0" x="13085.0" y="6815.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1242_in_sa1242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="13085.0" y="6775.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1243_in_sa1243"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cleaved Caspase1*"/> <bbox w="80.0" h="40.0" x="13090.0" y="6730.0"/> <glyph class="unit of information" id="_a386df78-6d1d-4245-854e-cf07992f652d"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="13105.0" y="6725.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa857_rc_sa857" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa857_rc_sa857"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC2A4"/> <bbox w="80.0" h="40.0" x="18099.06" y="9159.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa84_ca_csa84" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:M20*:PPP1C*:PPP1R12A</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:15124925</p> <p>Phosphorylation of myosin II plays an important role in many cell functions, including smooth muscle contraction. The level of myosin II phosphorylation is determined by activities of myosin light chain kinase and myosin phosphatase (MP). MP is composed of 3 subunits: a catalytic subunit of type 1 phosphatase, PPlc; a targeting subunit, termed myosin phosphatase target subunit, MYPT; and a smaller subunit, M20, of unknown function. </p> <p>PMID:10953004 </p> <p>ROCK not only inhibits myosin phosphatase but also phosphorylates MLC directly in the center of cells (fibroblasts).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa84_ca_csa84"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15124925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10953004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Myosin_Phosphatase"/> <bbox w="110.0" h="160.0" x="7035.0" y="3600.0"/> <glyph class="macromolecule" id="s_id_ca_sa705_ca_sa705"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 regulatory subunit 12B</p> <p>HUGO:PPP1R12B hgnc_id:HGNC:7619 HGNC:7619 ENTREZ:4660 UNIPROT:O60237</p> <p>Map modules:</p> <p>MODULE:MOTILITY </p> <p>References:</p> <p>PMID:15124925</p> <p>Phosphorylation of myosin II plays an important role in many cell functions, including smooth muscle contraction. The level of myosin II phosphorylation is determined by activities of myosin light chain kinase and myosin phosphatase (MP). MP is composed of 3 subunits: a catalytic subunit of type 1 phosphatase, PPlc; a targeting subunit, termed myosin phosphatase target subunit, MYPT; and a smaller subunit, M20, of unknown function. </p> <p>Myosin phosphatase is a protein complex comprised of three subunits: a catalytic subunit (PP1c-delta, protein phosphatase 1, catalytic subunit delta), a large regulatory subunit (MYPT, myosin phosphatase target) and small regulatory subunit (sm-M20). Two isoforms of MYPT have been isolated--MYPT1 and MYPT2, the first of which is widely expressed, and the second of which may be specific to heart, skeletal muscle, and brain. Each of the MYPT isoforms functions to bind PP1c-delta and increase phosphatase activity. This locus (PPP1R12B)encodes both MYTP2 and M20.</p> </body> </html> </notes> <label text="M20*"/> <bbox w="80.0" h="40.0" x="7045.0" y="3610.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa700_ca_sa700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 regulatory subunit 12A</p> <p>HUGO:PPP1R12A hgnc_id:HGNC:7618 HGNC:7618 ENTREZ:4659 UNIPROT:O14974</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>PMID:10953004 </p> <p>ROCK not only inhibits myosin phosphatase but also phosphorylates MLC directly in the center of cells (fibroblasts).</p> </body> </html> </notes> <label text="PPP1R12A"/> <bbox w="80.0" h="40.0" x="7045.0" y="3690.0"/> <glyph class="state variable" id="_356b217d-6b5f-4233-ae3a-90101420ce0e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7040.0" y="3705.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa702_ca_sa702"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 catalytic subunit alpha</p> <p>HUGO:PPP1CA hgnc_id:HGNC:9281 HGNC:9281 ENTREZ:5499 UNIPROT:P62136 </p> <p>protein phosphatase 1 catalytic subunit beta</p> <p>HUGO:PPP1CB hgnc_id:HGNC:9282 HGNC:9282 ENTREZ:5500 UNIPROT:P62140 </p> <p>protein phosphatase 1 catalytic subunit gamma</p> <p>HUGO:PPP1CC hgnc_id:HGNC:9283 HGNC:9283 ENTREZ:5501 UNIPROT:P36873</p> <p>Map modules:</p> <p>MODULE:MOTILITY </p> </body> </html> </notes> <label text="PPP1C*"/> <bbox w="80.0" h="40.0" x="7045.0" y="3650.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa46_in_csa46" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa46_in_csa46"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16606694"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASP*:WIPF1"/> <bbox w="110.0" h="140.0" x="18305.0" y="6107.5"/> <glyph class="macromolecule" id="s_id_in_sa307_in_sa307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="WASP*"/> <bbox w="80.0" h="40.0" x="18325.0" y="6117.5"/> <glyph class="state variable" id="_b43cbafb-9956-4e1f-b93d-4f0eb7292aa0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18317.5" y="6132.5"/> </glyph> </glyph> </glyph> <glyph class="unspecified entity" id="s_id_akt1_akt1_sa154_akt1_akt1_sa154" compartmentRef="s_id_akt1_akt1_ca3_akt1_akt1_ca3"> <label text="Unknown"/> <bbox w="70.0" h="25.0" x="13838.061" y="18880.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa109_emtc_em_csa109" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGAE:ITGB7</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:11413131</p> <p>E-cadherin dimerization is essential for adhesion to the integrin aEb7</p> <p>PMID:17325197</p> <p>Interaction between E-cadherin and aEb7 integrin plays major role in effective tumor cell lysis, during cytolytic granule polarization and subsequent exocytosis</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa109_emtc_em_csa109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="s_id_emtc_em_sa655_emtc_em_sa655"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> <p>HUGO:CDH1, HGNC:1748, ENTREZ:999, GENECARDS:GC16P068771, UNIPROT:P12830</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:10671552</p> <p>PMID:11348595</p> <p>PMID:17928543</p> <p>in vitro phosphorylation of Cadherin at S834, 836, 842 significantly enhances the affinity with which beta-catenin binds cadherins.</p> <p>GSK3B and CSNK2 (casein kinase II) have been shown to phosphorylate these sites in vitro.</p> <p>PMID:16371504</p> <p>N-cadherin is phosphorylated by c-Src at Tyr-820, Tyr-853, Tyr-860, Tyr-884, and Tyr-886. </p> <p>Phosphorylation of Tyr-860 (Tyr-835 in E-cadherin) can disrupt cadherin binding to beta-catenin</p> <p>The endocytosis of trans-interacting E-cadherin was inhibited by Rac and Cdc42 small G proteins, which were activated by trans-interacting E-cadherin.</p> <p> PMID:22674073</p> <p>Studies have suggested that cadherin endocytosis may occur through both caveolin-mediated and macropinocytosis-like pathways. Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin</p> <p>Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin </p> <p>In contrast, Bryant and colleagues characterized the EGF-induced internalization of E-cadherin in a breast carcinoma cell line, in which E-cadherin was internalized along with the cadherin-binding proteins p120 and β-catenin, as Rac1-modulated macropinocytosis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="86.0" h="26.0" x="1127.0625" y="15982.5"/> <glyph class="unit of information" id="_6371be7c-ff3c-49d1-8b7b-9215b6acbc63"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1160.0625" y="15977.5"/> </glyph> <glyph class="state variable" id="_1d38ac25-782c-4c37-aca7-783f730c02ad"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1205.5625" y="15979.098"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>16469705</p> </body> </html> </notes> <label text="rc_s3871"/> <clone/> <bbox w="30.0" h="30.0" x="22114.06" y="10711.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1344_emtc_em_sa1344" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1344_emtc_em_sa1344"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZO2_3*"/> <bbox w="50.0" h="20.0" x="1541.0" y="15077.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa383_an_sa383" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa383_an_sa383"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK1*"/> <bbox w="80.0" h="40.0" x="5509.5" y="6690.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa237_ad_sa237" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD4</p> <p>CASCADE:TCR</p> <p>PMID:3263576</p> <p>CD4 and CD8 are cell-surface glycoproteins expressed on mutually exclusive subsets of peripheral T cells. T cells that express CD4 have T-cell antigen receptors that are specific for antigens presented by major histocompatibility complex class II molecules, whereas T cells that express CD8 have receptors specific for antigens presented by MHC class I molecules</p> <p>PMID:10398592 </p> <p>CD4 in immunological synapse</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa237_ad_sa237"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:3263576"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10398592"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD4"/> <bbox w="80.0" h="50.0" x="28046.0" y="2520.0"/> <glyph class="unit of information" id="_b65e63b5-6f9d-44fe-b947-0112022277d7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28063.5" y="2515.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa796_ca_sa796" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:MODULE:GROWTH_FACTORS_PRODUCTION PMID:23010081 Celecoxib (specific COX-2 inhibitor)increases EGF signaling in colon tumor associated fibroblasts, modulating EGFR expression and degradation and increase colon TAFs proliferation in the presence of EGF.Also it induces neo-expression and release of Amphiregulin (AREG), a well known EGFR agonist;EGF signaling induces AREG release. ----- content merged by Celldesigner to SBGN-ML translation ------ References:MODULE:GROWTH_FACTORS_PRODUCTION PMID:23010081 Celecoxib (specific COX-2 inhibitor)increases EGF signaling in colon tumor associated fibroblasts, modulating EGFR expression and degradation and increase colon TAFs proliferation in the presence of EGF.Also it induces neo-expression and release of Amphiregulin (AREG), a well known EGFR agonist;EGF signaling induces AREG release. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa796_ca_sa796"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AREG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010081"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AREG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010081"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AREG"/> <bbox w="70.0" h="25.0" x="3475.0" y="4242.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa102_rc_csa102" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HIF1A:HIF1B*:p300*</p> </body> </html> </notes> <label text="ARNT:HIF1:EP300"/> <bbox w="100.0" h="176.0" x="23241.56" y="16526.0"/> <glyph class="macromolecule" id="s_id_rc_sa1195_rc_sa1195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aryl hydrocarbon receptor nuclear translocator</p> <p>HUGO:ARNT HGNC:700 ENTREZ:405 UNIPROT:P27540</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:HIF1beta</p> </body> </html> </notes> <label text="HIF1B*"/> <bbox w="80.0" h="40.0" x="23249.06" y="16534.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1196_rc_sa1196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)</p> <p>HUGO:HIF1A HGNC:4910 ENTREZ:3091 UNIPROT:Q16665</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="80.0" h="40.0" x="23248.826" y="16583.37"/> <glyph class="state variable" id="_b09c4fa5-5a2e-433d-a15c-7d3f42b2156a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23300.395" y="16578.37"/> </glyph> <glyph class="state variable" id="_79bf8fd2-5ba2-49c9-b07e-fbd4b73c589b"> <state value="" variable="N803"/> <bbox w="30.0" h="10.0" x="23256.328" y="16618.37"/> </glyph> <glyph class="state variable" id="_7623d4fd-39e8-43c3-8037-531d73225798"> <state value="" variable="P564"/> <bbox w="30.0" h="10.0" x="23257.422" y="16578.37"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1194_rc_sa1194"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472</p> <p>Map modules:</p> <p>MODULE:RCD_GENES</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="23249.06" y="16634.0"/> <glyph class="state variable" id="_67de2e9c-d2bd-415c-875b-61e6ca0bfe6c"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="23298.129" y="16629.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3175_rc_sa3175" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3175_rc_sa3175"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <bbox w="80.0" h="40.0" x="21899.06" y="11146.0"/> <glyph class="state variable" id="_dc87797e-ac62-4bbb-a388-63eefc6fda05"> <state value="P" variable="Y185"/> <bbox w="35.0" h="10.0" x="21938.51" y="11141.0"/> </glyph> <glyph class="state variable" id="_270e842f-ab4f-44f1-a648-447d9781bbd7"> <state value="" variable="T183"/> <bbox w="30.0" h="10.0" x="21907.656" y="11141.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa70_mpk1_mpk1_csa70" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LEF_TCF*:_beta_-Catenin*</p> </body> </html> </notes> <label text="LEF_TCF*:β-Catenin*"/> <bbox w="120.0" h="83.0" x="7770.06" y="20541.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa351_mpk1_mpk1_sa351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>TCF3</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>TCF4</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0</p> <p>Map modules:</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="65.0" h="25.0" x="7796.676" y="20577.23"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa350_mpk1_mpk1_sa350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) beta 1 88kDa</p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="72.0" h="26.0" x="7794.676" y="20552.23"/> <glyph class="state variable" id="_50670ffc-9ae4-4bac-8d95-6871adc3d013"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7789.676" y="20560.23"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa97_in_sa97" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CD1*"/> <bbox w="70.0" h="25.0" x="22755.0" y="6067.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa481_in_sa481" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD11b*"/> <bbox w="80.0" h="50.0" x="17672.5" y="1305.0"/> <glyph class="unit of information" id="_5eeff451-9514-4a26-bc83-10b18c69f477"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17690.0" y="1300.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1442_ce_sa1442" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0SSA:DNA:st6Repaired ligated DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:SSA ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0SSA:DNA:st6Repaired ligated DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:SSA </body> </html> </notes> <label text="SSA_DNA_st6*"/> <bbox w="120.0" h="26.0" x="12019.352" y="16833.723"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa858_emtc_em_sa858" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa858_emtc_em_sa858"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT18"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT18"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT18"/> <bbox w="60.0" h="20.0" x="4839.5" y="15535.5"/> </glyph> <glyph 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<clone/> <bbox w="70.0" h="25.0" x="26451.06" y="21823.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa155_rc_sa4672" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa155_rc_sa4672"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULK1"/> <clone/> <bbox w="70.0" h="25.0" x="24419.56" y="16215.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4577_rc_sa4577" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4577_rc_sa4577"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR143"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR143"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR143"/> <bbox w="90.0" h="25.0" x="20385.06" y="15612.5"/> <glyph class="unit of information" id="_d1384f0e-9702-4449-9f69-49a06b96ef0e"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20415.06" y="15607.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa80_ca_csa80" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ELC_MYOSIN_II*:MYH*:RLC_MYOSIN_II*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:LIF, CASCADE:TGFB</p> <p>PMID:12194823</p> <p>Rho-Kinase and Myosin-II Control Phagocytic Cup Formation during CR3, but Not FcγR, Phagocytosis</p> <p> inhibition of the Rho → ROK → myosin-II pathway caused a decreased accumulation of Arp2/3 complex and F-actin around bound particles, which led to a reduction in CR-mediated phagocytic engulfment.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa80_ca_csa80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12194823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYOSIN_II"/> <bbox w="100.0" h="170.0" x="7251.0" y="3480.0"/> <glyph class="macromolecule" id="s_id_ca_sa681_ca_sa681"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myosin light chain 9</p> <p>HUGO:MYL9 hgnc_id:HGNC:15754 HGNC:15754 ENTREZ:10398 UNIPROT:P24844 </p> <p>myosin light chain 12A</p> <p>HUGO:MYL12A hgnc_id:HGNC:16701 HGNC:16701 ENTREZ:10627 UNIPROT:P19105 </p> <p>myosin light chain 12B</p> <p>HUGO:MYL12B hgnc_id:HGNC:29827 HGNC:29827 ENTREZ:103910 UNIPROT:O14950</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p> </p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B.</p> <p>MLCK and ROCK phosphorylares RLC</p> <p>PMID:21840487 </p> <p>JAK1 expression with four different siRNAs reduced MLC2 phosphorylation</p> <p>PMID:24857661</p> <p>Long-term stimulation of both TGF-β and LIF cytokines also upregulated RhoA small GTPase and myosin light chain 2 (MLC2) proteins, leading to an increase in MLC2 phosphorylation at ser19, which attests for an increased activity (Figure S2D). Finally, forced expression of an active form of ROCK (ROCK-ER) (Croft and Olson, 2006) following 4-hydroxytamoxifen (4OHT) treatment was sufficient to induce hDF contractility (Figure S2E), proinvasive capacity (Figures S2Fa and b), and MLC2 phosphorylation (Figure S2G) and also rescued the inhibitory effect of P6 or anti-LIF antibody treatments under TGF-β1 stimulation</p> </body> </html> </notes> <label text="RLC_MYOSIN_II*"/> <bbox w="80.0" h="40.0" x="7262.0" y="3580.0"/> <glyph class="state variable" id="_ec4fbae5-310e-44bb-82cc-fe8e7c26bff5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7257.0" y="3595.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ca_sa679_ca_sa679"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myosin heavy chain 9</p> <p>HUGO:MYH9 hgnc_id:HGNC:7579 HGNC:7579 ENTREZ:4627 UNIPROT:P35579 </p> <p>myosin heavy chain 10</p> <p>HUGO:MYH10 hgnc_id:HGNC:7568 HGNC:7568 ENTREZ:4628 UNIPROT:P35580 </p> <p>myosin heavy chain 14</p> <p>HUGO:MYH14 hgnc_id:HGNC:23212 HGNC:23212 ENTREZ:79784 UNIPROT:Q7Z406</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B.</p> <p>MLCK and ROCK phosphorylares RLC</p> </body> </html> </notes> <label text="MYH*"/> <bbox w="86.0" h="46.0" x="7257.0" y="3497.0"/> <glyph class="unit of information" id="_a5dbe7ed-01d1-46aa-bba3-b935039442c8"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="7290.0" y="3492.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa680_ca_sa680"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myosin light chain 6</p> <p>HUGO:MYL6 hgnc_id:HGNC:7587 HGNC:7587 ENTREZ:4637 UNIPROT:P60660 </p> <p>myosin light chain 6B</p> <p>HUGO:MYL6B hgnc_id:HGNC:29823 HGNC:29823 ENTREZ:140465 UNIPROT:P14649</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p> </p> <p>B</p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="20942.5" y="4057.5"/> <glyph class="unit of information" id="_fa90163b-0ff4-4cac-937a-0050b17447f5"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20957.5" y="4052.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa358_rc_sa358" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa358_rc_sa358"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRXN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SRXN1"/> <bbox w="80.0" h="40.0" x="20008.81" y="14643.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa114_emtc_em_csa114" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Integrin A8B1_AVB1_AVB5_AVB6_AVB8*:LTBP1:Latency-associated protein*</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:10025398</p> <p>Large latent complex binds to aVb6 via the RGD motif present in the LAP of TGFb, then</p> <p>the b6 cytoplasmic domain binds to the actin cytoskeleton, then</p> <p>Cytoskeleton-associated integrin induces release of mature TGFb from the large latent complex</p> <p>PMID:21883891</p> <p>This is one of the 2 mechanisms for activating TGFb via integrins.</p> <p>In this model, there is no proteolysis of either the LAP or LTBP.</p> <p>PMID:21900405</p> <p>LAP contains an integrin-binding site called RBD</p> <p>Several RBD-binding integrins are able to activate latent TGFB complex through binding this site.</p> <p>PMID:21909923</p> <p>The previously mentionned integrins are: a8b1, aVb1, aVb5, aVb6, aVb8.</p> <p>In the complex Ingergin-large latent TGFB complex, I picked aVb6 as example. But a8b1, aVb1, aVb5, and aVb8 can active TGFB with the same mechanism.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa114_emtc_em_csa114"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10025398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21883891"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Intergrin/LTBP1/LAP*"/> <bbox w="241.0" h="66.0" x="959.0" y="19317.25"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa691_emtc_em_sa691"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="185.0" h="26.0" x="1013.5" y="19318.75"/> <glyph class="unit of information" id="_2740a97f-7edc-4842-97cc-a45fec148e93"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1096.0" y="19313.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1369_emtc_em_sa1369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Integrin A8B1_AVB1_AVB5_AVB6_AVB8*</p> <p>NAME:a8b1*</p> <p>ITGA8/ITGB1</p> <p>NAME:aVb1*</p> <p>ITGAV/ITGB1</p> <p>NAME:aVb5*</p> <p>ITGAV/ITGB5</p> <p>NAME:aVb6*</p> <p>ITGAV/ITGB6</p> <p>NAME:aVb8*</p> <p>ITGAV/ITGB8</p> <p>HUGO:ITGA8, HUGO:ITGB1, HUGO:ITGAV, HUGO:ITGB1, HUGO:ITGAV, HUGO:ITGB5, HUGO:ITGAV, HUGO:ITGB6, HUGO:ITGAV, HUGO:ITGB8</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Integrin A8B1_AVB1_AVB5_AVB6_AVB8*"/> <bbox w="240.0" h="20.0" x="960.0" y="19344.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa689_emtc_em_sa689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1, HGNC:6714, ENTREZ:4052, UNIPROT:Q14766,GENECARDS:GC02P033172, UNIPROT:Q14766</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LTBPs are microfibril-associated proteins that tether latent TGFB to the ECM</p> <p>There are 4 LTBP proteins (1, 2, 3, 4). Although LTBP1 and 3 bind all three TGFB (1, 2, 3), LTBP4 binds only TGFB1</p> <p>PMID:9931372</p> <p>LTBP1 is a member of the fibrillin family</p> <p>An extracellular fibrillar structure containing LTBP1 was found in both the basement membrane of epithelia and mesenchymal tissue in which extensive tissue remodeling is carried out</p> <p>PMID:10544215</p> <p>Extracellular tTgase is located at the basal and apical surfaces of cells and at cell–cell contacts, and that LTBP1 is co-distributed with cell surface tTgase</p> <p>LTPB1 was also found to co-localize with both intracellular and extracellular fibronectin</p> <p>Regulation of tTgase expression is important for controlling matrix storage of latent TGFB1 complexes</p> <p>Fibronectin may be one extracellular component to which LTBP1 is crosslinked when LTBP1 and tTgase interact at the cell surface</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LTBP1"/> <bbox w="45.0" h="20.0" x="964.66" y="19320.875"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa416_rc_csa416" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase3*:DCC:NTN1</p> <p>References:</p> <p>DCC:Caspase3*:NTN1</p> <p>19543238</p> <p>netrin-1 triggers the multimerization of both DCC and UNC5H2 receptors, and that multimerization of the intracellular domain of DCC and UNC5H2 is the critical step to inhibit the proapoptotic effects of both of these receptors</p> </body> </html> </notes> <label text="multimerize DCC:NTN1"/> <bbox w="110.0" h="200.0" x="18902.111" y="9098.431"/> <glyph class="macromolecule" id="s_id_rc_sa4108_rc_sa4109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>netrin 1</p> <p>HUGO:NTN1 HGNC:8029 ENTREZ:9423 UNIPROT:O95631</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:19543238</p> <p>PMID:22920895</p> <p>Netrin-1 was recently proposed to control tumorigenesis by inhibiting apoptosis induced by the dependence receptors DCC (Deleted in colorectal cancer) and UNC5H</p> </body> </html> </notes> <label text="NTN1"/> <bbox w="80.0" h="40.0" x="18922.111" y="9118.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4106_rc_sa4106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>deleted in colorectal carcinoma</p> <p>HUGO:DCC HGNC:2701 ENTREZ:1630 UNIPROT:P43146</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:11248093</p> </body> </html> </notes> <label text="DCC"/> <bbox w="80.0" h="50.0" x="18912.111" y="9153.431"/> <glyph class="unit of information" id="_bcb9e8e7-6aaf-46a3-b8f3-9c62bb99aac0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18929.611" y="9148.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4118_rc_sa4119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 3, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP3 HGNC:1504 ENTREZ:836 UNIPROT:P42574</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> </body> </html> </notes> <label text="Caspase3*"/> <bbox w="80.0" h="40.0" x="18922.111" y="9228.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4118_rc_sa4118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 3, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP3 HGNC:1504 ENTREZ:836 UNIPROT:P42574</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> </body> </html> </notes> <label text="Caspase3*"/> <bbox w="80.0" h="40.0" x="18912.111" y="9218.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4106_rc_sa4107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>deleted in colorectal carcinoma</p> <p>HUGO:DCC HGNC:2701 ENTREZ:1630 UNIPROT:P43146</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:11248093</p> </body> </html> </notes> <label text="DCC"/> <bbox w="80.0" h="50.0" x="18922.111" y="9163.431"/> <glyph class="unit of information" id="_a20363ea-fb1b-491f-b121-cd9a241a2465"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18939.611" y="9158.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4108_rc_sa4108"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>netrin 1</p> <p>HUGO:NTN1 HGNC:8029 ENTREZ:9423 UNIPROT:O95631</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:19543238</p> <p>PMID:22920895</p> <p>Netrin-1 was recently proposed to control tumorigenesis by inhibiting apoptosis induced by the dependence receptors DCC (Deleted in colorectal cancer) and UNC5H</p> </body> </html> </notes> <label text="NTN1"/> <bbox w="80.0" h="40.0" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/GAR1/NHP2/NOP10/TERC/WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa29_te_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/GAR1/NHP2/NOP10/TERC/WRAP53"/> <bbox w="305.0" h="130.0" x="4607.06" y="21992.0"/> <glyph class="macromolecule" id="s_id_te_sa236_te_sa236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="4624.06" y="22062.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa237_te_sa237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <bbox w="80.0" h="40.0" x="4717.06" y="22062.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa234_te_sa234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="4627.06" y="22012.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa235_te_sa235"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="4717.06" y="22012.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa239_te_sa239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat containing, antisens to TP53</p> <p>HUGO:WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="WRAP53"/> <bbox w="80.0" h="40.0" x="4807.06" y="22062.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa238_te_sa238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <bbox w="90.0" h="25.0" x="4812.06" y="22019.5"/> <glyph class="state variable" id="_fd3fee10-26a5-4d6b-836f-cc5f015bc17b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4847.56" y="22014.5"/> </glyph> <glyph class="unit of information" id="_b0d2990f-4bf0-40b1-ac12-a74a861aa516"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4847.06" y="22014.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2357_rc_sa2357" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2357_rc_sa2357"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytochrome_C*"/> <bbox w="90.0" h="25.0" x="20367.06" y="16038.75"/> <glyph class="unit of information" id="_57749374-e6dc-4cd0-8962-3c034df7baa7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20402.06" y="16033.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa320_an_sa320" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4567</p> <p>PMID:19449109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa320_an_sa320"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRB7"/> <bbox w="80.0" h="40.0" x="7102.0" y="6385.0"/> </glyph> <glyph class="source and sink" id="s_id_in_sa232_in_sa232" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa112_degraded"/> <bbox w="30.0" h="30.0" x="15945.0" y="5935.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3704_rc_sa3704" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 18066</p> </body> </html> </notes> <label text="UDP-Glucose"/> <bbox w="85.0" h="23.0" x="19981.56" y="10701.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3486_rc_sa3486" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3486_rc_sa3486"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EYA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EYA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EYA*"/> <bbox w="80.0" h="40.0" x="18094.06" y="16314.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa87_ca_csa87" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JAK1:LIF:LIFR:gp130*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:LIF</p> <p>PMID:22595692 </p> <p>The structure of receptors of IL6 like cytokines</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa87_ca_csa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595692"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4426"/> <bbox w="210.0" h="175.0" x="535.0" y="2342.0"/> <glyph class="macromolecule" id="s_id_ca_sa714_ca_sa714"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 6 signal transducer</p> <p>HUGO:IL6ST hgnc_id:HGNC:6021 HGNC:6021 ENTREZ:3572 UNIPROT:P40189</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:LIF, CASCADE:TGFB, CASCADE:IL6, CASCADE:PLAU</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <p>and blocks gp130 and CSF1R (CD115)surface expression.</p> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="555.0" y="2397.0"/> <glyph class="state variable" id="_3a791ef2-3506-4cf6-9923-10cbe423768b"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="617.5" y="2394.541"/> </glyph> <glyph class="unit of information" id="_f374e88a-f245-4d38-8e78-09067cbd59d9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="572.5" y="2392.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa719_ca_sa719"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>LIF, interleukin 6 family cytokine</p> <p>HUGO:LIF hgnc_id:HGNC:6596 HGNC:6596 ENTREZ:3976 UNIPROT:P15018</p> <p>Map modules:</p> <p>MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION </p> <p>References:</p> <p>CASCADE:TGFB, CASCADE:IL1, CASCADE:TNF, CASCADE:LIF</p> <p>PMID:24857661 </p> <p>LIF mediates TGF-β-dependent actomyosin contractility and extracellular matrix remodeling,</p> <p> LIF as the major cytokine mediating STAT3 phosphorylation upon TGF-β1 stimulation.</p> <p>TGF-β1 relies on a LIF/GP130-IL6ST/JAK1 signaling cascade to induce STAT3 activation.</p> <p>LIF signaling mediates onset of a proinvasive microenvironment by proinvasive fibroblast activation and actomyosin contractility regulation independent of α-SMA expression.</p> </body> </html> </notes> <label text="LIF"/> <bbox w="80.0" h="40.0" x="645.0" y="2347.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa713_ca_sa713"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>LIF receptor alpha</p> <p>HUGO:LIFR hgnc_id:HGNC:6597 HGNC:6597 ENTREZ:3977 UNIPROT:P42702</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:LIF</p> <p>PMID:22595692 </p> <p>The structure of receptors of IL6 like cytokines</p> </body> </html> </notes> <label text="LIFR"/> <bbox w="80.0" h="50.0" x="555.0" y="2347.0"/> <glyph class="unit of information" id="_1368d014-52c1-461a-82f1-6b2b6d57ee4a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="572.5" y="2342.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa715_ca_sa715"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Janus kinase 1</p> <p>HUGO:JAK1 hgnc_id:HGNC:6190 HGNC:6190 ENTREZ:3716 UNIPROT:P23458</p> <p>References:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:IL6, CASCADE:PLAU, CASCADE:LIF, CASCADE:IFNG</p> <p>PMID:21840487 </p> <p>CAF-dependent matrix remodelling is essential for collective carcinoma cell invasion</p> <p>JAK kinase inhibitor P6 tested blocked remodelling (Hooper et al., 2010). P6 inhibits multiple members of the JAK family (Pedranzini et al., 2006), so we used JAK isoform-specific inhibitors to probe which JAKs are involved; neither JAK2 nor JAK3-specific inhibitors recapitulated the effect of the pan-JAK inhibitor (P6) on matrix remodelling (Figure 1A), suggesting that JAKI is the family member involved. </p> <p>Jak 1 regulates Actomyosin Contractility in CAFs downstream of GP130-IL6ST IL6 and oncostatin M (OSM) and via STAT3</p> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="555.0" y="2457.0"/> <glyph class="state variable" id="_e420f159-3be3-409f-98e4-d81b11341478"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="547.5" y="2472.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa872_rc_sa872" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa872_rc_sa872"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGAM4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGAM4"/> <bbox w="80.0" h="40.0" x="18913.777" y="10845.898"/> </glyph> <glyph class="complex" id="s_id_rc_csa432_rc_csa432" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NGF:TrkA*</p> <p>References:</p> <p>22465479</p> <p>Binding of NGF on TrkA trigger his dimerization</p> </body> </html> </notes> <label text="NGF:TrkA*"/> <bbox w="110.0" h="130.0" x="20984.06" y="9074.0"/> <glyph class="macromolecule" id="s_id_rc_sa4202_rc_sa4203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nerve growth factor (beta polypeptide)</p> <p>HUGO:NGF HGNC:7808 ENTREZ:4803 UNIPROT:P01138</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:22465479</p> </body> </html> </notes> <label text="NGF"/> <bbox w="80.0" h="40.0" x="21004.06" y="9094.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4199_rc_sa4199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit alpha</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17604717</p> <p>PMID:22465479</p> <p>The lack of NGF suppresses the survival signals controlled by PI3K-Akt, finally leading to a de-repression of the pro-apoptotic Bad; on the other hand, the loss of the survival signals is associated with JNK-mediated transcriptional activation of other pro-apoptotic inducers such as DP5, Bim and Puma.</p> </body> </html> </notes> <label text="TrkA*"/> <bbox w="80.0" h="50.0" x="20994.06" y="9129.0"/> <glyph class="unit of information" id="_ff852ade-4a45-4bcc-96d9-04271fbf6816"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21011.56" y="9124.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4202_rc_sa4202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nerve growth factor (beta polypeptide)</p> <p>HUGO:NGF HGNC:7808 ENTREZ:4803 UNIPROT:P01138</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:22465479</p> </body> </html> </notes> <label text="NGF"/> <bbox w="80.0" h="40.0" x="20994.06" y="9084.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4199_rc_sa4200"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit alpha</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17604717</p> <p>PMID:22465479</p> <p>The lack of NGF suppresses the survival signals controlled by PI3K-Akt, finally leading to a de-repression of the pro-apoptotic Bad; on the other hand, the loss of the survival signals is associated with JNK-mediated transcriptional activation of other pro-apoptotic inducers such as DP5, Bim and Puma.</p> </body> </html> </notes> <label text="TrkA*"/> <bbox w="80.0" h="50.0" x="21004.06" y="9139.0"/> <glyph class="unit of information" id="_a5c1f614-065d-45dc-8090-18578c931923"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21021.56" y="9134.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5471_rc_sa5471" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5471_rc_sa5471"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Flagellin*"/> <bbox w="70.0" h="25.0" 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAQ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAZ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*"/> <clone/> <bbox w="70.0" h="25.0" x="24676.56" y="16335.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2389_rc_sa2389" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2389_rc_sa2389"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPARGC1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPARGC1A"/> <bbox w="80.0" h="40.0" x="20065.06" y="15860.37"/> <glyph class="state variable" id="_fb6eedb3-d3c9-41bd-8251-41cdc5127151"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20116.629" y="15855.37"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2134_in_sa2134" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CEBPD"/> <bbox w="70.0" h="25.0" x="12376.0" y="4344.375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa27_wnc1_wnc3_sa27" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for GATA ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for GATA </body> </html> </notes> <label text="GATA binding site*"/> <bbox w="166.0" h="25.0" x="15175.561" y="21261.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa326_mo_sa326" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>ras homolog family member A</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa326_mo_sa326"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHOA"/> <bbox w="80.0" h="40.0" x="6015.0" y="10259.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1329_emtc_em_sa1329" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1329_emtc_em_sa1329"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCE"/> <bbox w="46.0" h="16.0" x="1298.0" y="17424.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2360_rc_sa2360" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2360_rc_sa2360"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ESRRA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ESRRA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ESRRA"/> <bbox w="70.0" h="25.0" x="20428.56" y="16311.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa70_akt1_akt1_csa70" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:RBX1:SKP1:_beta_TRCP*</p> </body> </html> </notes> <label text="(SCF)"/> <bbox w="173.0" h="122.0" x="13153.561" y="18302.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa421_akt1_akt1_sa421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>"S-phase kinase-associated protein 1A (p19A)", SKP1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="13241.561" y="18317.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa423_akt1_akt1_sa423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="13241.561" y="18360.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa420_akt1_akt1_sa420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Beta-transducin repeat domain</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 GENECARDS:BTRC REACTOME:55056 KEGG:8945 ATLASONC:BTRCID451ch10q24 WIKI:BTRC </p> <p>F-box and WD repeat domain containing 11</p> <p>BTRC2, BTRCP2, Fbw1b, Fbw11, Hos, KIAA0696</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1 GENECARDS:FBXW11 REACTOME:55058 KEGG:23291 WIKI:FBXW11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="13160.561" y="18317.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa422_akt1_akt1_sa422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GSF3"/> <bbox w="80.0" h="40.0" x="9230.0" y="2570.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2431_in_sa2431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF3R"/> <bbox w="80.0" h="50.0" x="9225.0" y="2625.0"/> <glyph class="unit of information" id="_847d2b39-244b-4bb3-9313-583544e9b5af"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9242.5" y="2620.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2435_in_sa2435"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc4_re33:(MAP:survival) PMID:18285450</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa104_wnc1_wnc4_sa104"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18285450"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Tight junctions"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CHUK:IKBKG:IKK_beta_*</p> <p>Map modules:</p> <p>MODULE:DC, MODULE:MACROPHAGE , MODULE:MDSC, MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> <p>CASCADE:IL13, CASCADE:STING, CASCADE:TLR2_4, CASCADE:IL2, CASCADE:CSF2, CASCADE:TNF</p> <p>GASCADE:VEGFA</p> <p>References:</p> <p>complex</p> <p>PMID:12133805</p> <p>The activated IKK complex,</p> <p>catalyzes the phosphorylation of IkBs (at sites</p> <p>equivalent to Ser32 and Ser36 of IkBa), polyubiquitination</p> <p>(at sites equivalent to Lys21 and Lys22 of IkBa) and</p> <p> subsequent degradation by the 26S proteasome. 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text="THBS2"/> <bbox w="80.0" h="40.0" x="4462.0" y="6435.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5529_rc_sa5529" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:interleukin 18</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5529_rc_sa5529"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL18"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL18"/> <bbox w="80.0" h="40.0" x="29509.06" y="10219.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa507_in_sa507" compartmentRef="s_id_in_ca12_in_ca12"> <label text="VAV2"/> <clone/> <bbox w="80.0" h="40.0" x="15890.0" y="2925.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa507_in_sa509" compartmentRef="s_id_in_ca12_in_ca12"> <label text="VAV2"/> <clone/> <bbox w="80.0" h="40.0" x="15900.0" y="3125.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2012_rc_sa2012" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2012_rc_sa2012"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRPS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRPS1"/> <bbox w="80.0" h="40.0" x="18101.06" y="11251.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa931_ca_sa931" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:HH</p> <p>PMID:17638910 </p> <p>GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3</p> <p>PMID:19081070; PMID:22354771 </p> <p>The vertebrate GliRepressor function is largely derived from Gli3 while the primary GliActivator activity is largely contributed by Gli2. Gli1 is a transcriptional target of Hh signaling and acts as a transcriptional activator to reinforce GliA function</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa931_ca_sa931"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19081070"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22354771"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI3"/> <bbox w="80.0" h="40.0" x="5840.0" y="1620.0"/> </glyph> <glyph class="complex" id="s_id_mo_csa57_mo_csa57" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="PAF complex"/> <bbox w="180.0" h="130.0" x="3251.0" y="10898.0"/> <glyph class="macromolecule" id="s_id_mo_sa511_mo_sa511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>LEO1 homolog, Paf1/RNA polymerase II complex component </p> </body> </html> </notes> <label text="LEO1"/> <bbox w="80.0" h="40.0" x="3301.0" y="10918.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa510_mo_sa510"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="LEO1_binding partners*"/> <bbox w="160.0" h="20.0" x="3261.0" y="10968.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa272_akt1_akt1_sa272" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa272_akt1_akt1_sa272"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLDIP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SKAR*"/> <bbox w="80.0" h="40.0" x="12518.061" y="19867.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa475_in_sa475" compartmentRef="s_id_in_ca12_in_ca12"> <label text="RAF1"/> <bbox w="80.0" h="40.0" x="18000.0" y="3750.0"/> <glyph class="state variable" id="_7b7ab5e3-6153-4be2-befa-202157d7c985"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17992.5" y="3765.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2967_rc_sa2967" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:48153 KEGGCOMPOUND:C00279 CAS:585-18-2</p> </body> </html> </notes> <label text="erythrose-4P"/> <bbox w="95.0" h="33.0" x="18511.56" y="9992.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1171_in_sa1171" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCR2"/> <bbox w="70.0" h="25.0" x="13905.0" y="2092.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa348_mo_sa348" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Interleukin 4 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Interleukin 4 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa348_mo_sa348"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL-4*"/> <bbox w="90.0" h="25.0" x="5379.0" y="11137.5"/> <glyph class="unit of information" id="_dedfd5fe-4fbe-4ebf-a289-572c090750a6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5414.0" y="11132.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa153_wca1_wca3_sa153" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa153_wca1_wca3_sa153"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLE2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLE3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLE4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AES"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLE6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TLE*"/> <bbox w="80.0" h="40.0" x="22016.727" y="21608.223"/> <glyph class="state variable" id="_67172120-a003-4ad5-8090-c6a5b64de5bd"> <state value="P" variable="S239"/> <bbox w="35.0" h="10.0" x="21999.72" y="21603.223"/> </glyph> <glyph class="state variable" id="_7bb09a38-22c7-4982-9ffa-38adf44a469e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22091.725" y="21603.223"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1361_in_sa1361" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24669294, 11306493 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:GSF1, CASCADE:IL4</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling blocks CSF (M-CSF) production in DC induced by tumor cells.</p> <p>PMID:24669294</p> <p>SCF1 (M-CSF) is assosiated with M2 phenotype of macrophages</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1361_in_sa1361"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24669294"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11306493"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSF1"/> <bbox w="80.0" h="40.0" x="11012.5" y="5297.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1926_in_sa1926" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="STAT4"/> <bbox w="70.0" h="25.0" x="23432.5" y="3735.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa477_rc_csa477" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATG16L1:ATG9*</p> <p>References:</p> <p>PMID:24257061</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa477_rc_csa477"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24257061"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG9*:ATG16L1"/> <bbox w="96.0" h="116.0" x="28967.56" y="12068.5"/> <glyph class="macromolecule" id="s_id_rc_sa4699_rc_sa4699"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 16-like 1 (S. cerevisiae)</p> <p>HUGO:ATG16L1 HGNC:21498 ENTREZ:55054 UNIPROT:Q676U5</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:24257061</p> <p>PMID:23725295</p> <p>PMID:24070470</p> <p>PMID:PMID:24257061</p> </body> </html> </notes> <label text="ATG16L1"/> <bbox w="80.0" h="40.0" x="28977.105" y="12119.228"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4697_rc_sa4697"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 9A</p> <p>HUGO:ATG9A HGNC:22408 ENTREZ:79065 UNIPROT:Q7Z3C6</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:24257061</p> </body> </html> </notes> <label text="ATG9*"/> <bbox w="80.0" h="40.0" x="28977.105" y="12076.228"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa899_in_sa899" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="70.0" h="25.0" x="9670.0" y="2337.5"/> </glyph> <glyph class="nucleic 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGF*"/> <bbox w="80.0" h="40.0" x="4200.0" y="4746.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa536_rc_csa536" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TRU-TCA1-1:isopentenylation</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa536_rc_csa536"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRU-TCA1-1*"/> <bbox w="173.0" h="144.0" x="27366.56" y="9809.0"/> <glyph class="simple chemical" id="s_id_rc_sa5539_rc_sa5539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>isopentenyl diphosphate</p> <p>CHEBI:16584</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="isopentenyl diphosphate"/> <bbox w="155.0" h="23.0" x="27375.56" y="9877.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5300_rc_sa5300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:TRU-TCA1-1synonyms:tRNA(Sec)Map modules:MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSISReferences:PMID:27048822PMID:26653790PMID:26794443 ----- content merged by Celldesigner to SBGN-ML translation ------ synonyms:tRNA(Sec)Map modules:MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSISReferences:PMID:27048822PMID:26653790PMID:26794443 </body> </html> </notes> <label text="TRU-TCA1-1"/> <bbox w="90.0" 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</annotation> </extension> <label text="WASF1"/> <clone/> <bbox w="45.0" h="22.0" x="6400.5" y="15200.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1501_rc_sa1770" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1501_rc_sa1770"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WASF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASF1"/> <clone/> <bbox w="80.0" h="40.0" x="20121.06" y="11509.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1631_emtc_em_sa1631" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1631_emtc_em_sa1631"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH4"/> <bbox w="40.0" h="17.0" x="5495.648" y="16119.791"/> </glyph> <glyph class="complex" id="s_id_rc_csa319_rc_csa319" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:p27KIP1*</p> </body> </html> </notes> <label text="14-3-3:CDKN1B"/> <bbox w="100.0" h="120.0" x="21919.06" y="15689.0"/> <glyph class="macromolecule" id="s_id_rc_sa2877_rc_sa2877"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="21929.887" y="15748.0"/> <glyph class="state variable" id="_23e68e8a-c3bb-4217-b74f-ece63ddda626"> <state value="P" variable="T198"/> <bbox w="35.0" h="10.0" x="21969.336" y="15743.0"/> </glyph> <glyph class="state variable" id="_7623ee55-b0b1-45b3-a393-4b0536e3f5ce"> <state value="P" variable="T157"/> <bbox w="35.0" h="10.0" x="21935.818" y="15743.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2878_rc_sa2878"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="21929.06" y="15697.0"/> <glyph class="state variable" id="_48aa0594-6288-43fb-a9a4-25e1bf96e36d"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="21978.158" y="15692.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1914_rc_sa1914" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1914_rc_sa1914"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFT57"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IFT57"/> <bbox w="80.0" h="40.0" x="25116.06" y="12862.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2175_in_sa2175" compartmentRef="s_id_in_ca13_in_ca13"> <label text="TIMD4"/> <bbox w="80.0" h="50.0" x="15882.5" y="1395.0"/> <glyph class="unit of information" id="_3914d639-8c9a-4d0a-a309-8a5eb417af5b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15900.0" y="1390.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4934_rc_sa4934" compartmentRef="s_id_rc_ca38_rc_ca38"> <label text="chaperones"/> <bbox w="80.0" h="30.0" x="26502.967" y="13474.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2000_rc_sa2000" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2000_rc_sa2000"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR23A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR23A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR23A"/> <bbox w="70.0" h="25.0" x="24609.037" y="16298.798"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa5522_rc_sa5522" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pyroptosis</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>the amino-terminal gasdermin D</p> <p>domain may oligomerize to form a membrane pore akin to</p> <p>how MLKL may act during necroptosis [80, 81]. Alternatively, the pyroptotic gasdermin D domain may induce cell</p> <p>lysis indirectly by damaging intracellular organelles that</p> <p>result in disruption of mitochondrial respiration and ATP</p> <p>synthesis</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5522_rc_sa5522"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21910624"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EXOCYTOSIS_AND_PHAGOCYTOSIS"/> <bbox w="360.0" h="145.0" x="18090.0" y="8147.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa69_wca1_wca1_csa69" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:Microtubules</p> <p>References:</p> <p>s_wca1_re74:(MAP:survival) PMID:21498506 PMID:17925382</p> <p>s_wca1_re75:(MAP:survival) PMID:17925383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa225_wnc1_wnc1_sa225"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTHRC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="17111.06" y="18944.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa257_ca_sa257" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0References:PMID:16713975IL12,IL15 and IL18 significantly suppresse TGF-BRII mRNA expression and inhibit downstream signaling. ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0References:PMID:16713975IL12,IL15 and IL18 significantly suppresse TGF-BRII mRNA expression and inhibit downstream signaling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa257_ca_sa257"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713975"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713975"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFBR2"/> <bbox w="70.0" h="25.0" x="3655.0" y="1507.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa769_in_sa769" compartmentRef="s_id_in_ca48_in_ca48"> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="19720.0" y="965.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4705_rc_sa4705" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27048813</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4705_rc_sa4705"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048813"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Survival"/> <clone/> <bbox w="80.0" h="30.0" x="23329.06" y="11194.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4705_an_sa316" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27048813</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa330_mpk1_mpk1_sa330"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREB1"/> <bbox w="50.0" h="25.0" x="7942.8936" y="20646.0"/> <glyph class="state variable" id="_91630c77-6ba6-49ee-aecf-0f5528f5997e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7935.3936" y="20653.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2523_in_sa2523" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PIAS1"/> <bbox w="80.0" h="40.0" x="11302.25" y="3960.0"/> </glyph> <glyph 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:INTEGRIN_AVB5</p> <p>MODULE:DC, MODULE:NK, MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> </body> </html> </notes> <label text="ad_s94"/> <bbox w="90.0" h="105.0" x="26751.0" y="4362.5"/> <glyph class="simple chemical" id="s_id_ad_sa715_ad_sa715"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="26766.0" y="4415.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa716_ad_sa716"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RAC1</p> <p>HUGO:RAC2</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING, MODULE:TH1</p> <p>PMID:10714681</p> <p> PKCθ is regulated by Vav1, a guanine nucleotide exchange factor for Rac and Cdc42 that plays an important role in T cell development and activation46. Thus, a dominant negative PKCθ mutant blocked a number of growth signals, which are normally induced by overexpression of Vav1, namely, activation of JNK, the IL-2 gene promoter and NFAT or AP-1 reporter genes. Conversely, a dominant negative Vav1 mutant did not significantly inhibit the same signaling events induced by a constitutively active PKCθ mutant46, tentatively placing PKCθ downstream of Vav1 in these growth signaling pathways.</p> <p>Vav promoted PKCθ translocation from the cytosol to the membrane and cytoskeleton and induced its enzymatic activation in a CD3/CD28-initiated pathway that was dependent on Rac and on actin cytoskeleton reorganization. These findings reveal that the Vav/Rac pathway promotes the recruitment of PKCθ to the T cell synapse and its activation, essential processes for T cell activation and IL-2 production.</p> <p>PMID:15184873 </p> <p>The action of Vav and Rac1 proteins on RasGRP1 is specifically dependent on PLCG activity</p> <p>The effect of the Vav/Rac pathway on RasGRP1 is independent of the kinase activity of PI3-K</p> <p>Vav and Rac1 proteins promote constitutive tyrosine phosphorylation and increased membrane localization of PLC- in Jurkat cells</p> <p>The interaction between Vav and RasGRP1 results in enhanced activation of Ras- and Rac-dependent biological responses</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="26756.0" y="4365.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa115_mo_sa115" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa700_wnc1_wnc2_sa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <clone/> <bbox w="80.0" h="40.0" x="18909.06" y="17975.0"/> <glyph class="state variable" id="_65892294-a051-4150-8ea5-0299895d3815"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18981.56" y="17970.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2807_in_sa2807" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCL17"/> <bbox w="80.0" h="40.0" x="13380.0" y="2195.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2186_emtc_em_sa2186" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2186_emtc_em_sa2186"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HEY1"/> <bbox w="42.0" h="17.0" x="2746.0" y="14625.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa902_ca_sa902" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:MODULE:FIBROBLAST_ACTIVATION_MARKERSPMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. ----- content merged by Celldesigner to SBGN-ML translation ------ References:MODULE:FIBROBLAST_ACTIVATION_MARKERSPMID:20980827 miR-31 directly targets the homeobox gene SATB2, which is responsible for chromatin remodeling and regulation of gene expression, and was significantly elevated in CAFs. The functional relevance of miR-31 and SATB2 were tested in in vitro models of endometrial cancer. Overexpression of miR-31 significantly impaired the ability of CAFs to stimulate tumor cell migration and invasion, without affecting tumor cell proliferation. Genetic manipulation of SATB2 levels in normal fibroblasts or CAFs showed that, reciprocally to miR-31, SATB2 increased tumor cell migration and invasion, while knock-down of endogenous SATB2 in CAFs reversed this phenotype. Introduction of SATB2 into normal fibroblasts stimulated expression of a number of genes involved in cell invasion, migration and scattering. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa902_ca_sa902"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SATB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20980827"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SATB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20980827"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SATB2"/> <bbox w="70.0" h="25.0" x="2475.0" y="4007.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4336_rc_sa4336" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>References:</p> <p>PMID:22166994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4336_rc_sa4336"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP2"/> <bbox w="70.0" h="25.0" x="28500.31" y="11397.583"/> </glyph> <glyph class="complex" id="s_id_rc_csa216_rc_csa216" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2L2:cleaved_BID*</p> </body> </html> </notes> <label text="BCL2L2:tBID"/> <bbox w="104.0" h="113.0" x="21935.31" y="13436.0"/> <glyph class="macromolecule" id="s_id_rc_sa1676_rc_sa1676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 2</p> <p>HUGO:BCL2L2 HGNC:995 ENTREZ:599 UNIPROT:Q92843</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL-W</p> </body> </html> </notes> <label text="BCL2L2"/> <bbox w="80.0" h="40.0" x="21949.06" y="13489.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1657_rc_sa1657"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BH3 interacting domain death agonist</p> <p>HUGO:BID HGNC:1050 ENTREZ:637 UNIPROT:P55957</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="cleaved_BID*"/> <bbox 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa470_rc_csa470"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23787782"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22362782"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8,10*:ATG5:FADD"/> <bbox w="133.0" h="162.0" x="28846.56" y="11192.5"/> <glyph class="macromolecule" id="s_id_rc_sa4461_rc_sa4461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="28858.988" y="11205.214"/> <glyph class="state variable" id="_4a2fe84e-75e9-44c1-aafd-c89aacfcdd5e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="28848.988" y="11211.931"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4457_rc_sa4457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 5</p> <p>HUGO:ATG5 HGNC:589 ENTREZ:9474 UNIPROT:Q9H1Y0</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <label text="ATG5"/> <bbox w="80.0" h="40.0" x="28877.988" y="11297.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4459_rc_sa4459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="28875.988" y="11251.214"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2189_emtc_em_sa2189" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2189_emtc_em_sa2189"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HEY1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HEY1"/> <bbox w="38.0" h="21.0" x="2990.0" y="14621.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa146_te_sa146" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Telomeric DNA under t-loop conformationModules_begin:MODULE:SHELTERINModules_end ----- content merged by Celldesigner to SBGN-ML translation ------ Telomeric DNA under t-loop conformationModules_begin:MODULE:SHELTERINModules_end </body> </html> </notes> <label text="Telomeric_DNA_t-loop*"/> <bbox w="152.0" h="22.0" x="2265.56" y="21698.75"/> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa2158_emtc_em_sa2158" compartmentRef="s_id_emtc_em_ca41_emtc_em_ca41"> <label text="NICD nuclear prteasomal degradation"/> <bbox w="30.0" h="30.0" x="4786.0" y="14661.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa604_rc_sa604" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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x="5100.0" y="16963.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1845_rc_sa1845" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1845_rc_sa1845"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SEPT4"/> <bbox w="80.0" h="40.0" x="21424.06" y="13290.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa19_akt1_akt2_csa19" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC53*:RBX1:SKP1:SKP2</p> </body> </html> </notes> <label text="CDC53*:RBX1:SKP1:SKP2"/> <bbox w="173.0" h="117.0" x="12860.061" y="21011.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa114_akt1_akt2_sa114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>"S-phase kinase-associated protein 1A (p19A)", SKP1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="12866.061" y="21059.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa116_akt1_akt2_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring finger protein 7</p> <p>HUGO:RNF7 HGNC:10070 ENTREZ:9616 UNIPROT:Q9UBF6 GENECARDS:RNF7 KEGG:9616 ATLASONC:RNF7ID44108ch3q22 WIKI:RNF7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11554450</p> </body> </html> </notes> <label text="CDC53*"/> <bbox w="80.0" h="40.0" x="12947.061" y="21019.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa113_akt1_akt2_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="12865.061" y="21018.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa118_akt1_akt2_sa118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2 HGNC:10901 ENTREZ:6502 UNIPROT:Q13309 GENECARDS:SKP2 REACTOME:405589 KEGG:6502 ATLASONC:GC_SKP2 WIKI:SKP2 </p> <p>Q13309</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="SKP2"/> <bbox w="80.0" h="40.0" x="12944.061" y="21058.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa90_in_sa90" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CIITA"/> <bbox w="80.0" h="40.0" x="22950.0" y="6007.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1952_rc_sa1952" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1952_rc_sa1952"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIFM1"/> <bbox w="80.0" h="40.0" x="18977.81" y="13461.0"/> <glyph class="state variable" id="_98aa0472-f1b1-4778-a4b7-f477bd5412a7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19014.248" y="13456.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2729_in_sa2729" compartmentRef="s_id_in_ca12_in_ca12"> <label text="JNK*"/> <bbox w="80.0" h="40.0" x="18815.0" y="3700.0"/> <glyph class="state variable" id="_080c82f8-c2c1-41be-8467-27bbf56a9791"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18807.5" y="3715.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ca_sa610_ca_sa610" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ca_sa609_degraded"/> <bbox w="30.0" h="30.0" x="7975.0" y="2835.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa193_wnc1_wnc2_sa193" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa193_wnc1_wnc2_sa193"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA1C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA3C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA3D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA3E"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA4A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TUBA8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="19026.81" y="19240.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa500_rc_csa500" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATF6:BiP*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa500_rc_csa500"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF6:BiP*"/> <bbox w="100.0" h="120.0" x="28662.967" y="13849.0"/> <glyph class="macromolecule" id="s_id_rc_sa5136_rc_sa5136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family A (Hsp70) member 5</p> <p>HUGO:HSPA5 hgnc_id:HGNC:5238 HGNC:5238 ENTREZ:3309 UNIPROT:P11021</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>GRP78</p> </body> </html> </notes> <label text="BiP*"/> <bbox w="80.0" h="40.0" x="28672.967" y="13909.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5137_rc_sa5137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>activating transcription factor 6</p> <p>HUGO:ATF6 hgnc_id:HGNC:791 HGNC:791 ENTREZ:22926 UNIPROT:P18850</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>ATF6 respond to fluctuations in the ratio of free BiP that are caused by alterations in ER load or the accumulation of unfolded proteins</p> <p>PMID:26587781</p> <p>PMID:17991856</p> <p>PMID:18360008</p> </body> </html> </notes> <label text="ATF6"/> <bbox w="80.0" h="40.0" x="28672.967" y="13859.0"/> <glyph class="unit of information" id="_5b1db465-1dff-417a-89ff-6571507da5ba"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28690.467" y="13854.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1641_rc_sa1641" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1641_rc_sa1641"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HRK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HRK"/> <bbox w="80.0" h="40.0" x="22369.06" y="13859.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa118_shh1_shh2_sa118" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa118_shh1_shh2_sa118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNAI1"/> <clone/> <bbox w="90.0" h="25.0" x="26604.06" y="21608.5"/> <glyph class="unit of information" id="_0a6d3664-e8c1-4e04-a7c2-fcbfb264cc16"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21603.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa118_emtc_em_sa19" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa118_emtc_em_sa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNAI1"/> <clone/> <bbox w="60.0" h="20.0" x="3816.5" y="16144.0"/> <glyph class="unit of information" id="_367f3408-8576-4b3e-a956-dbdb57e08691"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3836.5" y="16139.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa124_emtc_em_csa124" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR205</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21518799</p> <p>PMID:22753312</p> <p>PMID:21209780</p> <p>PMID:18376396</p> <p>ZEB1 and ZEB2 contain one and two sites, respectively that are targeted by miRNA-205</p> <p>PMID:19244118</p> <p>miR-205 targets N-chimaerin, ErbB3, E2F1, E2F5, ZEB2, and protein kinase C-epsilon.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa124_emtc_em_csa124"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21518799"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22753312"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209780"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18376396"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19244118"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MIR205/ZEB1_ZEB2*)"/> <bbox w="156.0" h="62.0" x="3285.5" y="17986.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa742_emtc_em_sa742"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 205</p> <p>HUGO:MIR205, HGNC:31583, ENTREZ:406988, GENECARDS:GC01P209605</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21518799</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR205"/> <bbox w="74.0" h="20.0" x="3297.5" y="17986.0"/> <glyph class="unit of information" id="_10bd3e95-b2b7-4c39-a805-235bce8cf445"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3319.5" y="17981.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa218_rc_csa218" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MCL1:cleaved_BID*</p> </body> </html> </notes> <label text="MCL1:tBID"/> <bbox w="100.0" h="120.0" x="21929.06" y="13729.0"/> <glyph class="macromolecule" id="s_id_rc_sa1680_rc_sa1680"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid cell leukemia sequence 1 (BCL2-related)</p> <p>HUGO:MCL1 HGNC:6943 ENTREZ:4170 UNIPROT:Q07820</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="MCL1"/> <bbox w="80.0" h="40.0" x="21941.06" y="13741.0"/> <glyph class="state variable" id="_2915ba2c-03cd-472a-a560-f9a9e29eef02"> <state value="?" variable="S159"/> <bbox w="35.0" h="10.0" x="21942.225" y="13736.0"/> </glyph> <glyph class="state variable" id="_c110a7b1-000e-4bf2-b53e-f8bfa826cb87"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21996.055" y="13736.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1681_rc_sa1681"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BH3 interacting domain death agonist</p> <p>HUGO:BID HGNC:1050 ENTREZ:637 UNIPROT:P55957</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="cleaved_BID*"/> <bbox w="80.0" h="40.0" x="21941.06" y="13784.0"/> <glyph class="state variable" 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ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="26752.227" y="11527.659"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1108_rc_sa1108"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:PRAS</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="26834.559" y="11528.326"/> <glyph class="state variable" 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associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="26836.227" y="11485.659"/> <glyph class="state variable" id="_a560be35-64db-4502-88fc-01d447918438"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="26844.822" y="11480.659"/> </glyph> <glyph class="state variable" id="_0b6f1d49-c785-4b62-8561-80baa793b6f1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26854.658" y="11520.659"/> </glyph> <glyph class="state variable" id="_4a3aa7c3-96e5-4db2-90ad-ff7b689ab87c"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="26878.176" y="11480.659"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa352_in_csa352" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa352_in_csa352"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24227772"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s5214"/> <bbox w="100.0" h="120.0" x="20930.0" y="2450.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa638_in_sa638"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="LCP2"/> <bbox w="90.0" h="25.0" x="20935.0" y="2507.5"/> <glyph class="unit of information" id="_8d9a94ab-d869-4b83-b1b8-c6bf11fbedbf"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20970.0" y="2502.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa639_in_sa639"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR155"/> <bbox w="90.0" h="25.0" x="20935.0" y="2477.5"/> <glyph class="unit of information" id="_9caeb5c9-ffaa-4e05-8980-dcf748f85c2e"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20965.0" y="2472.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa117_emtc_em_csa117" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MIR192:ZEB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21518799</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa117_emtc_em_csa117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21518799"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR192/ZEB2"/> <bbox w="93.0" h="62.0" x="3070.5" y="17989.5"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa728_emtc_em_sa728"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 192</p> <p>HUGO:MIR192, HGNC:31562, ENTREZ:406967, GENECARDS:GC11M064676</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21518799</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR192"/> <bbox w="75.0" h="20.0" x="3074.5" y="17990.5"/> <glyph class="unit of information" id="_e5a5b87c-2376-4a2c-8296-2eaab4aca4af"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3097.0" y="17985.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa727_emtc_em_sa727"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger E-box binding homeobox 2</p> <p>HUGO:ZEB2, HGNC:14881, ENTREZ:9839, GENECARDS:GC02M145145</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19839049</p> <p>Feedback 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<head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. 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class="macromolecule multimer" id="s_id_rc_sa3413_rc_sa3413"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aminolevulinate dehydratase</p> <p>HUGO:ALAD HGNC:395 ENTREZ:210 UNIPROT:P13716</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="ALAD"/> <bbox w="86.0" h="46.0" x="17752.537" y="12603.448"/> <glyph class="unit of information" id="_ce8ebe9a-9f3e-4efb-ac0d-c930fb019bd9"> <label text="N:8"/> <bbox w="20.0" h="10.0" x="17785.537" y="12598.448"/> </glyph> </glyph> <glyph class="simple chemical multimer" id="s_id_rc_sa3414_rc_sa3414"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Zn2+"/> <bbox w="31.0" h="31.0" x="17895.084" y="12650.552"/> <glyph class="unit of information" id="_030d425a-af7f-4398-a714-4203253bdd7a"> <label text="N:8"/> <bbox w="20.0" h="10.0" x="17900.584" y="12645.552"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa7_wca1_wca1_csa7" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re6:(MAP:survival) PMID:17910481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa7_wca1_wca1_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17910481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="187.0" x="20020.06" y="19330.875"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa710_wca1_wca1_sa710"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20114.06" y="19455.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa35_wca1_wca1_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="19384.375"/> <glyph class="state variable" id="_075802fe-b4e5-4c26-811d-e4e1a2623c6a"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="19379.588"/> </glyph> <glyph class="state variable" id="_1087ed5d-09d7-42c5-8854-b5e2b7c00a62"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="19379.375"/> </glyph> <glyph class="state variable" id="_6f130239-dbc8-4fe6-bdf6-be0c8e13c2b2"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="19379.375"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20122.06" y="19426.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa33_wca1_wca1_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20115.06" y="19340.875"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa34_wca1_wca1_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="19340.875"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa79_wca1_wca1_sa79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20031.06" y="19384.0"/> <glyph class="state variable" id="_bb54b536-7cc1-4994-b8a2-6f38a7f8913d"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20024.053" y="19379.0"/> </glyph> <glyph class="state variable" id="_fdb2364e-a7f6-4954-bc4a-e10d5f5afebb"> <state 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class="macromolecule" id="s_id_wca1_wca1_sa32_wca1_wca1_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20031.06" y="19428.875"/> <glyph class="state variable" id="_42319ac3-81a9-42dc-a3e7-411266bf7ab9"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.053" y="19423.875"/> </glyph> <glyph class="state variable" id="_6e366c9e-8adf-422a-aa2f-c5e2ac81b736"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20013.56" y="19463.596"/> </glyph> <glyph class="state variable" id="_321e9492-f13b-46fc-b57b-0539d9bb78cf"> <state value="P" variable="S1505"/> <bbox w="40.0" h="10.0" x="20090.441" y="19463.875"/> </glyph> <glyph class="state variable" id="_398a445c-7854-405e-8d0d-383f83116848"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20014.053" y="19423.875"/> </glyph> <glyph class="state variable" id="_b957d5fe-8db9-432b-aab7-e5672e51a9ad"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20093.56" y="19424.088"/> </glyph> <glyph class="state variable" id="_e53b728a-83f1-4515-bdd5-6d7342a025a6"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20053.465" y="19463.875"/> </glyph> <glyph class="state variable" id="_7cc8b005-bf93-4724-a899-58d2c2c05177"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20093.56" y="19463.008"/> </glyph> <glyph class="state variable" id="_ea230c49-15a3-46a5-be2f-968e3c52095a"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20053.592" y="19423.875"/> </glyph> <glyph class="state variable" id="_61007ae9-7dda-4aff-946e-97a34ea70117"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20013.56" y="19463.596"/> </glyph> <glyph class="state variable" id="_e64420de-cca4-4ba9-a03f-cc799fbae4b2"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20014.053" y="19423.875"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa300_mo_sa300" compartmentRef="s_id_mo_ca7_mo_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 5 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa33_wnc1_wnc2_sa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CABIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CAIN*"/> <bbox w="80.0" h="40.0" x="17458.06" y="18065.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa962_ce_sa962" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa962_ce_sa962"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC26"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="10508.281" y="10180.02"/> </glyph> <glyph class="complex" id="s_id_in_csa296_in_csa296" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s3698"/> <bbox w="100.0" h="120.0" x="15752.5" y="1510.0"/> <glyph class="simple chemical" id="s_id_in_sa2183_in_sa2183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdSer"/> <bbox w="70.0" h="25.0" x="15767.5" y="1517.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2180_in_sa2180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HAVCR1"/> <bbox w="80.0" h="50.0" x="15762.5" y="1555.0"/> <glyph class="unit of information" id="_4ad77a16-39a2-4ba2-ae7f-bbf654e0c346"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15780.0" y="1550.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5037_rc_sa5037" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5037_rc_sa5037"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HOXA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HOXA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HOXA1"/> <bbox w="70.0" h="25.0" x="28776.326" y="16341.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1827_rc_sa1827" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1827_rc_sa1827"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~BIRC6"/> <bbox w="80.0" h="40.0" x="23924.06" y="14004.0"/> <glyph class="unit of information" id="_90943fbc-196f-4c93-870b-954287f9a317"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23939.06" y="13999.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa653_emtc_em_sa653" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa653_emtc_em_sa653"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="86.0" h="26.0" x="1117.0" y="15877.5"/> <glyph class="unit of information" id="_a3865dac-8b7e-4ce5-b593-242e9980ff9f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1150.0" y="15872.5"/> </glyph> <glyph class="state variable" id="_c6356c9c-8ec4-42d9-a0dc-fce7aa6e4f87"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1195.5" y="15874.098"/> </glyph> <glyph class="state variable" id="_5107517f-935a-473b-a230-95aec9491b8f"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="1109.5" y="15873.592"/> </glyph> <glyph class="state variable" id="_ea338bc0-2cd7-46ab-84d2-e4c170199e08"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1194.8354" y="15898.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa225_mo_sa225" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>cyclin-dependent kinase 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa225_mo_sa225"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="1905.0" y="9051.0"/> <glyph class="state variable" id="_d41fa0c7-3e64-4400-ab69-2c8edf022586"> <state value="" variable="Tyr15"/> <bbox w="35.0" h="10.0" x="1944.4493" y="9046.0"/> </glyph> <glyph class="state variable" id="_4e6a31c8-f2b5-4431-836f-f46d15499efb"> <state value="" variable="Thr14"/> <bbox w="35.0" h="10.0" x="1943.8306" y="9086.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa44_shh1_shh2_sa44" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re44(MAP:survival):</p> <p>Only Y654-phosphorylated isoform of beta-catenin was able to indcue EMT</p> <p>PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa44_shh1_shh2_sa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EMT"/> <clone/> <bbox w="80.0" h="30.0" x="26900.06" y="20672.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa44_wnc1_wnc4_sa77" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re44(MAP:survival):</p> <p>Only Y654-phosphorylated isoform of beta-catenin was able to indcue EMT</p> <p>PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa44_wnc1_wnc4_sa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EMT"/> <clone/> <bbox w="80.0" h="30.0" x="18625.06" y="22265.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa44_wca1_wca2_sa108" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re44(MAP:survival):</p> <p>Only Y654-phosphorylated isoform of beta-catenin was able to indcue EMT</p> <p>PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa569_rc_sa569"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C12orf5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C12orf5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIGAR*"/> <bbox w="90.0" h="25.0" x="21676.06" y="16040.5"/> <glyph class="unit of information" id="_1925d081-74ee-44c0-9ba4-7c2c7b55a387"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21711.06" y="16035.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa117_ce_sa117" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa112_in_csa112"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7890616"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IP3:IP3R*"/> <bbox w="86.0" h="115.0" x="14092.0" y="3777.5"/> <glyph class="simple chemical" id="s_id_in_sa717_in_sa717"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IP3"/> <bbox w="70.0" h="25.0" x="14099.125" y="3799.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa716_in_sa716"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IP3R*"/> <bbox w="80.0" h="50.0" x="14094.125" y="3823.0"/> <glyph class="unit of information" id="_99e660ff-16fa-43c1-b5b0-aa38396d91f2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14111.625" y="3818.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa796_emtc_em_sa796" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa796_emtc_em_sa796"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDR"/> </rdf:Bag> </bqbiol:isEncodedBy> 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VDAC2"/> <bbox w="80.0" h="40.0" x="25769.06" y="14279.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2024_em_sa2024" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2024_em_sa2024"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="80.0" h="20.0" x="1488.0" y="13937.0"/> <glyph class="state variable" id="_4fd30103-da22-4e83-8151-8a4df86f8bcc"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1560.5" y="13933.2295"/> </glyph> <glyph class="state variable" id="_0fe2fcaf-933e-495c-9c67-44660913bcb2"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="1480.5" y="13932.84"/> </glyph> <glyph class="state variable" id="_7b8df228-5308-44e0-921a-47e67300fb0f"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1559.8818" y="13952.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2088_rc_sa2088" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2088_rc_sa2088"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RRM1"/> <bbox w="80.0" h="40.0" x="18882.81" y="11635.25"/> </glyph> <glyph class="complex" id="s_id_te_csa62_te_csa62" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:R2TP_complex</p> <p>ALT_NAME:PIH1D1/RPAP3/Pontin/Reptin</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:22923768 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa62_te_csa62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22923768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="R2TP_Complex_without_PIH1D1"/> <bbox w="218.0" h="166.0" x="5546.3545" y="22445.059"/> <glyph class="macromolecule multimer" id="s_id_te_sa415_te_sa415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RuvB-like AAA ATPase 1</p> <p>HUGO:RUVBL1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="Pontin*"/> <bbox w="92.0" h="52.0" x="5558.3545" y="22521.559"/> <glyph class="unit of information" id="_77329d01-f91a-48d0-a4a1-94961b860c8e"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="5594.3545" y="22516.559"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa416_te_sa416"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RuvB-like AAA ATPase 2</p> <p>HUGO:RUVBL2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="Reptin*"/> <bbox w="92.0" h="52.0" x="5662.3545" y="22522.559"/> <glyph class="unit of information" id="_a3ad4c00-76ed-4495-a1bb-34a8dc56a7ca"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="5698.3545" y="22517.559"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa417_te_sa417"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RNA polymerase II associated protein 3</p> <p>HUGO:RPAP3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:22923768 </p> </body> </html> </notes> <label text="RPAP3"/> <bbox w="80.0" h="40.0" x="5657.3545" y="22464.059"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa27_mpk1_mpk1_csa27" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KSR1:MEK*</p> </body> </html> </notes> <label text="KSR1:MEK*"/> <bbox w="112.0" h="108.0" x="9130.061" y="19355.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa149_mpk1_mpk1_sa149"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9183.561" y="19391.5"/> <glyph class="state variable" id="_67162925-f094-4b46-ac4d-a79235f5ac98"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9178.561" y="19403.166"/> </glyph> <glyph class="state variable" id="_263b343b-0659-4b98-a1bf-f0ea050a5545"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9178.561" y="19394.627"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa148_mpk1_mpk1_sa148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is a scaffold protein for ERK cascade. It normally localises in the cytosol but after GF treatment it moves to the plasma membrane. Its interaction with MEK1/2 is constitutive. Under endogenous conditions KSR1 facilitates the association of MEK and B-Raf (and not C-Raf) thus promoting MEK and ERK activation (on plasma membrane).</p> </body> </html> </notes> <label text="KSR1"/> <bbox w="41.0" h="77.0" x="9140.061" y="19366.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa881_emtc_em_sa881" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa881_emtc_em_sa881"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1119_emtc_em_sa1119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KIFAP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KIFAP3"/> <bbox w="48.0" h="17.0" x="5654.0" y="14621.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa121_an_sa121" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3819</p> <p>FKHR-1 is a strong inducer of Ang-2 expression and</p> <p>inhibits Ang-2 liberation</p> <p>PMID:19449109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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y="15735.5"/> <glyph class="unit of information" id="_33e5e66a-df53-4159-a90f-9a405c5de623"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5228.0" y="15730.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa797_rc_sa797" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa797_rc_sa797"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa316_in_csa316"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14568985"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="THBS1:CD36"/> <bbox w="100.0" h="130.0" x="9350.0" y="5335.0"/> <glyph class="macromolecule" id="s_id_in_sa2364_in_sa2364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD36"/> <bbox w="80.0" h="50.0" x="9360.0" y="5390.0"/> <glyph class="unit of information" id="_60dab7fb-084c-4c77-9c47-cdca74827a33"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9377.5" y="5385.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2363_in_sa2363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="THBS1"/> <bbox w="80.0" h="40.0" x="9360.0" y="5345.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa712_mpk1_mpk1_sa712" 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x="9351.061" y="19734.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa8_in_sa8" compartmentRef="s_id_in_ca49_in_ca49"> <label text="Tumor_antigen"/> <bbox w="80.0" h="40.0" x="19350.0" y="8850.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa338_mo_sa338" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa338_mo_sa338"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa18_wca1_wca1_csa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:AXIN*:CK1α*:GSK3*:PPP1C*:PPP1R*"/> <bbox w="196.0" h="166.0" x="20641.06" y="18211.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa101_wca1_wca1_sa101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1A</p> <p>HUGO:PPP1R1A HGNC:9286 ENTREZ:5502 UNIPROT:Q13522 GENECARDS:PPP1R1A KEGG:5502 ATLASONC:GC_PPP1R1A WIKI:PPP1R1A </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1B</p> <p>HUGO:PPP1R1B HGNC:9287 ENTREZ:84152 UNIPROT:Q9UD71 GENECARDS:PPP1R1B REACTOME:57451 KEGG:84152 ATLASONC:PPP1R1BID44096ch17q12 WIKI:PPP1R1B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 1C</p> <p>HUGO:PPP1R1C HGNC:14940 ENTREZ:151242 UNIPROT:Q8WVI7 GENECARDS:PPP1R1C KEGG:151242 ATLASONC:GC_PPP1R1C WIKI:PPP1R1C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 2</p> <p>HUGO:PPP1R2 HGNC:9288 ENTREZ:5504 UNIPROT:P41236 GENECARDS:PPP1R2 KEGG:5504 ATLASONC:GC_PPP1R2 WIKI:PPP1R2 </p> <p>protein phosphatase 1 regulatory subunit 3A</p> <p>HUGO:PPP1R3A HGNC:9291 ENTREZ:5506 UNIPROT:Q16821 GENECARDS:PPP1R3A KEGG:5506 ATLASONC:GC_PPP1R3A WIKI:PPP1R3A </p> <p>protein phosphatase 1 regulatory subunit 3B</p> <p>HUGO:PPP1R3B HGNC:14942 ENTREZ:79660 UNIPROT:Q86XI6 GENECARDS:PPP1R3B KEGG:79660 ATLASONC:GC_PPP1R3B WIKI:PPP1R3B </p> <p>protein phosphatase 1 regulatory subunit 3C</p> <p>HUGO:PPP1R3C HGNC:9293 ENTREZ:5507 UNIPROT:Q9UQK1 GENECARDS:PPP1R3C KEGG:5507 ATLASONC:GC_PPP1R3C WIKI:PPP1R3C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 3D</p> <p>HUGO:PPP1R3D HGNC:9294 ENTREZ:5509 UNIPROT:O95685 GENECARDS:PPP1R3D KEGG:5509 ATLASONC:GC_PPP1R3D WIKI:PPP1R3D </p> <p>protein phosphatase 1 regulatory subunit 3E</p> <p>HUGO:PPP1R3E HGNC:14943 ENTREZ:90673 UNIPROT:Q9H7J1 GENECARDS:PPP1R3E ATLASONC:GC_PPP1R3E WIKI:PPP1R3E </p> <p>protein phosphatase 1 regulatory subunit 3F</p> <p>HUGO:PPP1R3F HGNC:14944 ENTREZ:89801 UNIPROT:Q6ZSY5 GENECARDS:PPP1R3F KEGG:89801 ATLASONC:GC_PPP1R3F WIKI:PPP1R3F </p> <p>protein phosphatase 1 regulatory subunit 3G</p> <p>HUGO:PPP1R3G HGNC:14945 ENTREZ:648791 UNIPROT:B7ZBB8 GENECARDS:PPP1R3G ATLASONC:GC_PPP1R3G WIKI:PPP1R3G </p> <p>protein phosphatase 1 regulatory subunit 7</p> <p>HUGO:PPP1R7 HGNC:9295 ENTREZ:5510 UNIPROT:Q15435 GENECARDS:PPP1R7 KEGG:5510 ATLASONC:GC_PPP1R7 WIKI:PPP1R7 </p> <p>protein phosphatase 1 regulatory subunit 8</p> <p>HUGO:PPP1R8 HGNC:9296 ENTREZ:5511 UNIPROT:Q12972 GENECARDS:PPP1R8 KEGG:5511 ATLASONC:PPP1R8ID41811ch1p35 WIKI:PPP1R8 </p> <p>protein phosphatase 1 regulatory subunit 9A</p> <p>HUGO:PPP1R9A HGNC:14946 ENTREZ:55607 UNIPROT:Q9ULJ8 GENECARDS:PPP1R9A KEGG:55607 ATLASONC:GC_PPP1R9A WIKI:PPP1R9A </p> <p>protein phosphatase 1 regulatory subunit 9B</p> <p>HUGO:PPP1R9B HGNC:9298 ENTREZ:84687 UNIPROT:Q96SB3 GENECARDS:PPP1R9B KEGG:84687 ATLASONC:PPP1R9BID51558ch17q21 WIKI:PPP1R9B </p> <p>protein phosphatase 1 regulatory subunit 10</p> <p>HUGO:PPP1R10 HGNC:9284 ENTREZ:5514 UNIPROT:Q96QC0 GENECARDS:PPP1R10 KEGG:5514 ATLASONC:GC_PPP1R10 WIKI:PPP1R10 </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 11</p> <p>HUGO:PPP1R11 HGNC:9285 ENTREZ:6992 UNIPROT:O60927 GENECARDS:PPP1R11 KEGG:6992 ATLASONC:GC_PPP1R11 WIKI:PPP1R11 </p> <p>protein phosphatase 1 regulatory subunit 12A</p> <p>HUGO:PPP1R12A HGNC:7618 ENTREZ:4659 UNIPROT:O14974 GENECARDS:PPP1R12A REACTOME:150515 KEGG:4659 ATLASONC:GC_PPP1R12A WIKI:PPP1R12A </p> <p>protein phosphatase 1 regulatory subunit 12B</p> <p>HUGO:PPP1R12B HGNC:7619 ENTREZ:4660 UNIPROT:O60237 GENECARDS:PPP1R12B REACTOME:150526 KEGG:4660 ATLASONC:GC_PPP1R12B WIKI:PPP1R12B </p> <p>protein phosphatase 1 regulatory subunit 12C</p> <p>HUGO:PPP1R12C HGNC:14947 ENTREZ:54776 UNIPROT:Q9BZL4 GENECARDS:PPP1R12C KEGG:54776 ATLASONC:GC_PPP1R12C WIKI:PPP1R12C </p> <p>protein phosphatase 1 regulatory subunit 13B</p> <p>HUGO:PPP1R13B HGNC:14950 ENTREZ:23368 UNIPROT:Q96KQ4 GENECARDS:PPP1R13B KEGG:23368 ATLASONC:GC_PPP1R13B WIKI:PPP1R13B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14A</p> <p>HUGO:PPP1R14A HGNC:14871 ENTREZ:94274 UNIPROT:Q96A00 GENECARDS:PPP1R14A KEGG:94274 ATLASONC:GC_PPP1R14A WIKI:PPP1R14A </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14B</p> <p>HUGO:PPP1R14B HGNC:9057 ENTREZ:26472 UNIPROT:Q96C90 GENECARDS:PPP1R14B KEGG:26472 ATLASONC:GC_PPP1R14B WIKI:PPP1R14B </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14C</p> <p>HUGO:PPP1R14C HGNC:14952 ENTREZ:81706 UNIPROT:Q8TAE6 GENECARDS:PPP1R14C KEGG:81706 ATLASONC:GC_PPP1R14C WIKI:PPP1R14C </p> <p>protein phosphatase 1 regulatory (inhibitor) subunit 14D</p> <p>HUGO:PPP1R14D HGNC:14953 ENTREZ:54866 UNIPROT:Q9NXH3 GENECARDS:PPP1R14D KEGG:54866 ATLASONC:GC_PPP1R14D WIKI:PPP1R14D </p> <p>protein phosphatase 1 regulatory subunit 15A</p> <p>HUGO:PPP1R15A HGNC:14375 ENTREZ:23645 UNIPROT:O75807 GENECARDS:PPP1R15A REACTOME:243750 KEGG:23645 ATLASONC:GC_PPP1R15A WIKI:PPP1R15A </p> <p>protein phosphatase 1 regulatory subunit 15B</p> <p>HUGO:PPP1R15B HGNC:14951 ENTREZ:84919 UNIPROT:Q5SWA1 GENECARDS:PPP1R15B KEGG:84919 ATLASONC:GC_PPP1R15B WIKI:PPP1R15B HUGO:PPP1R15A HGNC:14375 ENTREZ:23645 UNIPROT:O75807 GENECARDS:PPP1R15A REACTOME:243750 KEGG:23645 ATLASONC:GC_PPP1R15A WIKI:PPP1R15A </p> <p>protein phosphatase 1 regulatory subunit 16A</p> <p>HUGO:PPP1R16A HGNC:14941 ENTREZ:84988 UNIPROT:Q96I34 GENECARDS:PPP1R16A KEGG:84988 ATLASONC:GC_PPP1R16A WIKI:PPP1R16A </p> <p>protein phosphatase 1 regulatory subunit 16B</p> <p>HUGO:PPP1R16B HGNC:15850 ENTREZ:26051 UNIPROT:Q96T49 GENECARDS:PPP1R16B KEGG:26051 ATLASONC:GC_PPP1R16B WIKI:PPP1R16B </p> <p>protein phosphatase 1 regulatory subunit 17</p> <p>HUGO:PPP1R17 HGNC:16973 ENTREZ:10842 UNIPROT:O96001 GENECARDS:PPP1R17 KEGG:10842 WIKI:PPP1R17 </p> <p>protein phosphatase 1 regulatory subunit 18</p> <p>HUGO:PPP1R18 HGNC:29413 ENTREZ:170954 UNIPROT:Q6NYC8 GENECARDS:PPP1R18 KEGG:170954 WIKI:PPP1R18 </p> <p>protein phosphatase 1 regulatory subunit 21</p> <p>HUGO:PPP1R21 HGNC:30595 ENTREZ:129285 UNIPROT:Q6ZMI0 GENECARDS:PPP1R21 KEGG:129285 WIKI:PPP1R21 </p> <p>protein phosphatase 1 regulatory subunit 26</p> <p>HUGO:PPP1R26 HGNC:29089 ENTREZ:9858 UNIPROT:Q5T8A7 GENECARDS:PPP1R26 KEGG:9858 ATLASONC:GC_PPP1R26 WIKI:PPP1R26 </p> <p>protein phosphatase 1 regulatory subunit 27</p> <p>HUGO:PPP1R27 HGNC:16813 ENTREZ:116729 UNIPROT:Q86WC6 GENECARDS:PPP1R27 KEGG:116729 WIKI:PPP1R27 </p> <p>protein phosphatase 1 regulatory subunit 32</p> <p>HUGO:PPP1R32 HGNC:28869 ENTREZ:220004 UNIPROT:Q7Z5V6 GENECARDS:PPP1R32 KEGG:220004 WIKI:PPP1R32 </p> <p>protein phosphatase 1 regulatory subunit 35</p> <p>HUGO:PPP1R35 HGNC:28320 ENTREZ:221908 UNIPROT:Q8TAP8 GENECARDS:PPP1R35 KEGG:221908 WIKI:PPP1R35 </p> <p>protein phosphatase 1 regulatory subunit 36</p> <p>HUGO:PPP1R36 HGNC:20097 ENTREZ:145376 UNIPROT:Q96LQ0 GENECARDS:PPP1R36 KEGG:145376 WIKI:PPP1R36 </p> <p>protein phosphatase 1 regulatory subunit 37</p> <p>HUGO:PPP1R37 HGNC:27607 ENTREZ:284352 UNIPROT:O75864 GENECARDS:PPP1R37 KEGG:284352 WIKI:PPP1R37 </p> <p>protein phosphatase 1 regulatory subunit 39</p> <p>HUGO:PPP1R39 GENECARDS:PPP1R39 KEGG:153769 WIKI:PPP1R39 </p> <p>protein phosphatase 1 regulatory subunit 42</p> <p>HUGO:PPP1R42 HGNC:33732 ENTREZ:286187 UNIPROT:Q7Z4L9 GENECARDS:PPP1R42 KEGG:286187 WIKI:PPP1R42</p> <p>Map modules:</p> <p>MAP:cellcycle / MODULE:RB, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PPP1R*"/> <bbox w="80.0" h="40.0" x="20741.56" y="18308.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa105_wca1_wca1_sa105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Protein phosphatase 1 catalytic subunit alpha isozyme</p> <p>HUGO:PPP1CA HGNC:9281 ENTREZ:5499 UNIPROT:P62136 GENECARDS:PPP1CA REACTOME:61996 KEGG:5499 ATLASONC:GC_PPP1CA WIKI:PPP1CA </p> <p>Protein phosphatase 1 catalytic subunit beta isozyme</p> <p>HUGO:PPP1CB HGNC:9282 ENTREZ:5500 UNIPROT:P62140 GENECARDS:PPP1CB REACTOME:62004 KEGG:5500 ATLASONC:GC_PPP1CB WIKI:PPP1CB </p> <p>Protein phosphatase 1 catalytic subunit gamma isozyme</p> <p>HUGO:PPP1CC HGNC:9283 ENTREZ:5501 UNIPROT:P36873 GENECARDS:PPP1CC REACTOME:62014 KEGG:5501 ATLASONC:GC_PPP1CC WIKI:PPP1CC</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:cellcycle / MODULE:RB, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PPP1C*"/> <bbox w="80.0" h="40.0" x="20741.56" y="18266.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa104_wca1_wca1_sa104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20657.06" y="18266.0"/> <glyph class="state variable" id="_1b120eb0-24fb-4751-8ce7-7d9909939fbf"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20650.053" y="18261.0"/> </glyph> <glyph class="state variable" id="_35aaa32e-7b25-4d86-b461-cd3794496886"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20729.56" y="18261.213"/> </glyph> <glyph class="state variable" id="_70855981-8867-461c-8ada-dd89f4229dc6"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20644.56" y="18300.72"/> </glyph> <glyph class="state variable" id="_8a34d3db-d982-4b77-a477-1abed774c1f8"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="20722.06" y="18261.213"/> </glyph> <glyph class="state variable" id="_e5101fa2-8011-4288-a708-3b971c2e8fd5"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="20721.441" y="18301.0"/> </glyph> <glyph class="state variable" id="_25aee4d0-d118-4f20-bae7-098abb9526a8"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="20684.465" y="18301.0"/> </glyph> <glyph class="state variable" id="_ab5f4cb6-7f97-46b3-a44d-1338de34b5f3"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="20681.965" y="18301.0"/> </glyph> <glyph class="state variable" id="_17ced60a-3ccb-4bcd-ad99-19946680639a"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="20642.06" y="18300.72"/> </glyph> <glyph class="state variable" id="_d916fd53-6116-47ba-96c7-994994f51de2"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="20684.592" y="18261.0"/> </glyph> <glyph class="state variable" id="_305fc9f0-7b7d-464b-81d1-149e22b11e7a"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="20645.053" y="18261.0"/> </glyph> <glyph class="state variable" id="_4a1abce4-e416-4700-a1a9-760dcb3eab05"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="20723.941" y="18301.0"/> </glyph> <glyph class="state variable" id="_eaf0cf5d-23e1-436c-ad8d-eccdeaa20b66"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20652.064" y="18261.0"/> </glyph> <glyph class="state variable" id="_b78272e7-ea3a-4e26-b04a-b5ea6171f28d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20732.06" y="18261.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa100_wca1_wca1_sa100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20741.56" y="18223.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa102_wca1_wca1_sa102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20657.06" y="18223.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa103_wca1_wca1_sa103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20657.06" y="18308.0"/> <glyph class="state variable" id="_3a899a88-c9e1-4256-b047-2ab4cb5bd9dd"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20645.053" y="18303.0"/> </glyph> <glyph class="state variable" id="_bd814f43-25f4-4b08-9aa2-7019345c7d6d"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20639.56" y="18342.72"/> </glyph> <glyph class="state variable" id="_647823a9-0f94-4a3e-b18a-2fbf6d5bcc65"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20718.941" y="18343.0"/> </glyph> <glyph class="state variable" id="_71397011-11be-4078-9112-66833787fdec"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20640.053" y="18303.0"/> </glyph> 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y="18303.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa147_emtc_em_csa147" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ETS1_WASF3_WAVE3*:MIR200B</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21081489</p> <p>miR-200b interacts with the Ets-encoding RNA to exert translational repression</p> <p>PMID:20706219</p> <p>ETS1, WASF3 and WAVE3 are targeted by MIR-200B</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa147_emtc_em_csa147"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21081489"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MIR200B/ETS1_WASF3_WAVE3*)"/> <bbox w="200.0" h="61.0" x="3050.5" y="17819.5"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1852_emtc_em_sa1852"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>EST1_WASF3_WAVE3*</p> <p>v-ets erythroblastosis virus E26 oncogene homolog 1 (avian)</p> <p>HUGO:ETS1, HGNC:3488, ENTREZ:2113, GENECARDS:GC11M128328</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20706219</p> <p>ETS1, WASF3 and WAVE3 are targeted by MIR-200B</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ETS1_WASF3_WAVE3*"/> <bbox w="165.0" h="19.0" x="3070.5" y="17842.5"/> <glyph class="unit of information" id="_09206985-5202-4376-8f3d-be54626668d0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3143.0" y="17837.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa791_emtc_em_sa791"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 200b </p> <p>HUGO:MIR200B, HGNC:31579, ENTREZ:406984, GENECARDS:GC01P001100</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21081489</p> <p>miR-200b targets Ets-1 and is down-regulated by Hypoxia to induce Angiogenic response of Endothelial cells</p> <p>Overexpression of Est-1 reverses the phenotypic changes caused by miR-200b, supporting that miR-200b inhibits the angiogenic response via silencing of Est-1</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR200B"/> <bbox w="75.0" h="20.0" x="3120.5" y="17820.5"/> <glyph class="unit of information" id="_20e71ca5-f41a-46b8-99c7-8d49d0037837"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3143.0" y="17815.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa317_em_csa317" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K7:TAB1</p> <p>Map modules:</p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.</p> <p>PMID:10391247</p> <p>TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_csa317_em_csa317"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10391247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K7/NLK"/> <bbox w="80.0" h="110.0" x="5663.0" y="14873.0"/> <glyph class="macromolecule" id="s_id_em_sa2052_em_sa2052"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:21041997</p> <p>TGFB has been shown to induce p38 and JNK MAP kinase signaling through activation of TAK1 (MAP3K7) by the ubiquitin ligase TRAF6 that interacts with the TGFB receptor complex</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.</p> <p>PMID:10391247</p> <p>TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MAP3K7"/> <bbox w="62.0" h="22.0" x="5672.0" y="14902.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2059_em_sa2059"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5021_rc_sa5021"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRELD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRELD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRELD2"/> <bbox w="70.0" h="25.0" x="28916.326" y="16111.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa342_rc_csa342" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ASK1*:TXN</p> </body> </html> </notes> <label text="MAP3K5:TXN"/> <bbox w="100.0" h="120.0" x="22409.06" y="10539.0"/> <glyph class="macromolecule" id="s_id_rc_sa3189_rc_sa3189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>thioredoxin</p> <p>HUGO:TXN HGNC:12435 ENTREZ:7295 UNIPROT:P10599</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> <p>KEGGCOMPOUND: C00342</p> </body> </html> </notes> <label text="TXN"/> <bbox w="80.0" h="40.0" x="22418.56" y="10591.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3190_rc_sa3190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 5</p> 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAP1GDS1"/> <clone/> <bbox w="68.0" h="16.0" x="5670.0" y="14655.571"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa610_ad_sa610" compartmentRef="s_id_ad_ca9_ad_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC, MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:23886063 </p> <p>For a successful T cell activation the TcR signal alone is insufficient, a second, co-stimulatory signaling is also necessary The immunological synapse (A.Kupfer and M. Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal link</p> <p>er proteins (such as talin) . Proteins with large extracellular domains, including protein-tyrosine phosphatase CD45 and glycoproteins CD44 and CD43, accumulate in the distal SMAC (d).</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>CD58 (LFA-3) is the high affinity ligand for CD2</p> <p>PMID:19398758 </p> <p>The coreceptor CD2 uses plasma membrane microdomains to transduce signals in T cells</p> <p>the binding of CD58 to CD2, even in the absence of TCR activation, also induces signaling through the actin-dependent coalescence of signaling molecules (including TCR-zeta chain, Lck, and LAT) into microdomains.</p> <p>PMID:19494291</p> <p> when either CD2 or CD48 were lacking from the T cell, there was reduced linker for activation of T cells (LAT) recruitment to the TCR, LAT phosphorylation, calcium flux, and IL-2 production. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="15874.061" y="21263.5"/> <glyph class="state variable" id="_edc091ec-16c0-4b13-9232-15df4e1b0002"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15949.061" y="21278.5"/> </glyph> <glyph class="state variable" id="_08fe52f8-4cf2-4f8e-9145-eef7af058b2e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15949.061" y="21286.785"/> </glyph> <glyph class="state variable" id="_aafd0c23-3a38-4739-b3e4-8fd372c27358"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15949.061" y="21298.5"/> </glyph> <glyph class="state variable" id="_8ead75e5-8f64-4bf1-8ba7-6ce6bf7a3ca9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15909.061" y="21258.5"/> </glyph> <glyph class="state variable" id="_b20e8d4b-1565-45d1-8ad4-171c9abfb391"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15925.629" y="21258.5"/> </glyph> <glyph class="state variable" id="_7a9ca320-5324-4c34-83d8-b316794b1821"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15925.629" y="21298.5"/> </glyph> <glyph class="state variable" id="_43abe12b-25e5-4e07-8dfe-0ae986ea2eb1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15949.061" y="21258.5"/> </glyph> <glyph class="state variable" id="_5b6c8f80-2c7c-4b00-b0cf-844175aa5148"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15949.061" y="21270.215"/> </glyph> <glyph class="state variable" id="_f7bbe844-9c12-430f-a65f-0202165baf3b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15892.492" y="21258.5"/> </glyph> <glyph class="state variable" id="_78eaa80a-8d07-4763-bcd3-b3ed4ffb46e3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15869.064" y="21258.5"/> </glyph> <glyph class="state variable" id="_6186d89a-e037-40d1-bfed-b527c649e849"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15869.064" y="21258.5"/> </glyph> <glyph class="state variable" id="_50c2decd-84f8-481a-9247-74af920ce09d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15869.061" y="21270.217"/> </glyph> <glyph class="state variable" id="_3ae921e4-2c5b-485f-87c7-82efcda955a2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15869.061" y="21286.783"/> </glyph> <glyph class="state variable" id="_fdca4f55-9444-4190-98dc-6a7aed662910"> <state value="" variable="S289"/> <bbox w="30.0" h="10.0" x="15872.717" y="21298.5"/> </glyph> <glyph class="state variable" id="_7e3e216d-1f47-468c-93d0-f6bca71125ec"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="15892.917" y="21298.5"/> </glyph> <glyph class="state variable" id="_daee72fe-5a14-40ed-bcb6-7866d25a9d57"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15909.061" y="21298.5"/> </glyph> <glyph class="state variable" id="_623e0842-44e1-4cc4-8910-2c11de1b07e4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15892.492" y="21298.5"/> </glyph> <glyph class="state variable" id="_eff40011-afd6-44d4-9911-a430ebb2bc80"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15869.064" y="21298.5"/> </glyph> <glyph class="state variable" id="_577c4dbb-ec95-4c2b-9a1a-99ac28206d6d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15869.061" y="21278.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa93_wnc1_wnc3_sa93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, alpha isozyme</p> <p>CALN, CALNA, "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform (calcineurin A alpha)"</p> <p>HUGO:PPP3CA HGNC:9314 ENTREZ:5530 UNIPROT:Q08209 GENECARDS:PPP3CA REACTOME:61110 KEGG:5530 ATLASONC:GC_PPP3CA WIKI:PPP3CA </p> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB </p> <p>protein phosphatase 3, catalytic subunit, gamma isozyme</p> <p>"protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform (calcineurin A gamma)"</p> <p>HUGO:PPP3CC HGNC:9316 ENTREZ:5533 UNIPROT:P48454 GENECARDS:PPP3CC REACTOME:61114 KEGG:5533 ATLASONC:GC_PPP3CC WIKI:PPP3CC</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="15874.061" y="21178.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa96_wnc1_wnc3_sa96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1, PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482 GENECARDS:MAPK1 REACTOME:59283 KEGG:5594 ATLASONC:MAPK1ID41288ch22q11 WIKI:MAPK1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> </body> </html> </notes> <label text="ERK2*"/> <bbox w="80.0" h="40.0" x="15957.061" y="21178.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa97_wnc1_wnc3_sa97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 GENECARDS:MAP2K1 REACTOME:59503 KEGG:5604 ATLASONC:GC_MAP2K1 WIKI:MAP2K1</p> <p>Map modules:</p> </body> </html> </notes> <label text="MEK1*"/> <bbox w="80.0" h="40.0" x="15957.061" y="21221.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa94_wnc1_wnc3_sa94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="15874.061" y="21221.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa299_in_csa299"> <label text="in_s3711"/> <bbox w="100.0" h="120.0" x="16130.0" y="1070.0"/> <glyph class="simple chemical" id="s_id_in_sa2191_in_sa2191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdSer"/> <bbox w="70.0" h="25.0" x="16145.0" y="1137.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2192_in_sa2192"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GAS6"/> <bbox w="80.0" h="40.0" x="16140.0" y="1080.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa359_rc_csa359" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2:p53*</p> </body> </html> </notes> <label text="BCL2:TP53"/> <bbox w="110.0" h="130.0" x="22684.06" y="13544.0"/> <glyph class="macromolecule" id="s_id_rc_sa3352_rc_sa3352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53</p> <p>HUGO:TP53 HGNC:11998 ENTREZ:7157 UNIPROT:P04637</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="p53*"/> <bbox w="80.0" h="40.0" x="22704.0" y="13599.342"/> <glyph class="state variable" id="_4b0bc081-9a94-45ea-b0a5-e6975b03820f"> <state value="" variable="S15"/> <bbox w="25.0" h="10.0" x="22748.45" y="13594.342"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3353_rc_sa3353"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="22700.742" y="13555.487"/> <glyph class="state variable" id="_751055c4-9e64-44c9-a34c-44529a2120bf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22752.31" y="13550.487"/> </glyph> <glyph class="state variable" id="_f1717bd6-a7cb-44f4-8c5c-3ef9c5110d37"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22695.742" y="13570.487"/> </glyph> <glyph class="state variable" id="_f26816ac-e15c-4467-90f4-57e7493aa68d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22719.174" y="13550.487"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1_in_sa1" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD209"/> <clone/> <bbox w="80.0" h="50.0" x="9893.75" y="147.5"/> <glyph class="unit of information" id="_7dc88a42-fd57-436e-aefa-b48404abcbb3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9911.25" y="142.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1_in_sa2488" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD209"/> <clone/> <bbox w="80.0" h="50.0" x="10612.25" y="645.625"/> <glyph class="unit of information" id="_61ef9161-6f61-451d-842f-37b85049069e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10629.75" y="640.625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1145_in_sa1145" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SLC7A11"/> <bbox w="80.0" h="40.0" x="23260.0" y="7630.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa143_ad_sa143" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:19062317, PMID:17237405 </p> <p>CD70 is a costimulatory ligand acquired upon DC maturation. It stimulates T-cells and provides tumor regression.</p> <p>PMID:17237405 </p> <p>Surface expression of CD70 in DC is TLR and CD40 dependent.</p> <p> PMID:26098609 </p> <p> CD70 is exclusively expressed after immune activation. It is found on activated DCs [15–17,29,30], B cells [25], conventional- and regulatory T cells [15,24,25,31] and NK cells [27]. CD70 expression is highly regulated by antigen, since it is under control of PRRs, T cell and B cell antigen receptors and its expression is further tuned by cytokines such as IL-1α, IL-12, TNFα, prostaglandin E2 and by CD28- and CD40 co-stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa143_ad_sa143"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD70"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19062317"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17237405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17237405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26098609"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD70"/> <bbox w="80.0" h="40.0" x="30706.0" y="2220.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa348_rc_csa348" compartmentRef="s_id_rc_ca14_rc_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CHUK:IKBKG:IKK_beta_*</p> </body> </html> </notes> <label text="IKK complex"/> <bbox w="98.0" h="176.0" x="23654.06" y="9784.25"/> <glyph class="macromolecule" id="s_id_rc_sa3240_rc_sa3240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase beta</p> <p>HUGO:IKBKB HGNC:5960 ENTREZ:3551 UNIPROT:O14920</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:28462531</p> </body> </html> </notes> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="23663.06" y="9843.25"/> <glyph class="state variable" id="_e6c761e1-b106-43ab-ba99-0184eb8ea068"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23714.629" y="9838.25"/> </glyph> <glyph class="state variable" id="_cba1cc31-b292-45dc-8f30-137b746b1258"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23681.492" y="9838.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3239_rc_sa3239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma</p> <p>HUGO:IKBKG HGNC:5961 ENTREZ:8517 UNIPROT:Q9Y6K9</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>NEMO</p> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="23663.06" y="9793.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3241_rc_sa3241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23430059</p> <p>IKBK-alpha</p> <p>synonym:IKBKA synonym:IKK_alpha_</p> </body> </html> </notes> <label text="CHUK"/> <bbox w="80.0" h="40.0" x="23663.06" y="9891.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4683_rc_sa4683" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4683_rc_sa4683"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR30A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR30A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR30A"/> <bbox w="90.0" h="25.0" x="24270.06" y="15638.5"/> <glyph class="unit of information" id="_5d026dd8-5f46-4289-9a8e-6bb7c85932af"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24300.06" y="15633.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa112_ce_csa112" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*:CDC20</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> </body> </html> </notes> <label text="APC1*/APC2*/APC3*/APC4*/APC5*/APC6*/APC7*/APC8*/APC9*/APC10*/APC11*/APC12/CDC20"/> <bbox w="278.0" h="214.0" x="11072.473" y="10037.356"/> <glyph class="macromolecule" id="s_id_ce_sa980_ce_sa980"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4, HGNC:19990, ENTREZ:29945, UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="11089.494" y="10178.337"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa978_ce_sa978"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC1, HGNC:19988, ENTREZ:64682, UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="11088.494" y="10047.337"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa983_ce_sa983"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7, HGNC:17380, ENTREZ:51434, UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="11175.08" y="10133.337"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa979_ce_sa979"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27 homolog (S. cerevisiae)</p> <p>HUGO:CDC27, HGNC:1728, ENTREZ:996, UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="11088.494" y="10133.337"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa987_ce_sa987"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10, HGNC:24077, ENTREZ:10393, UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="11261.494" y="10089.847"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa977_ce_sa977"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2, HGNC:19989, ENTREZ:29882, UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="11086.494" y="10089.847"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa986_ce_sa986"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11, HGNC:14452, ENTREZ:51529, UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="11261.494" y="10133.337"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa772_ce_sa772"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 20 homolog (S. cerevisiae)</p> <p>HUGO:CDC20, HGNC:1723, ENTREZ:991, UNIPROT:Q12834</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC20"/> <bbox w="80.0" h="40.0" x="11266.494" y="10045.978"/> <glyph class="state variable" id="_0bb1ceff-e7e6-4c18-8795-791a22227b12"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11261.494" y="10060.978"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa984_ce_sa984"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23 homolog (S. cerevisiae)</p> <p>HUGO:CDC23, HGNC:1724, ENTREZ:8697, UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="11175.08" y="10178.337"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa982_ce_sa982"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16 homolog (S. cerevisiae)</p> <p>HUGO:CDC16, HGNC:1720, ENTREZ:8881, UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="11175.08" y="10089.847"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa985_ce_sa985"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26 homolog (S. cerevisiae)</p> <p>HUGO:CDC26, HGNC:17839, ENTREZ:246184, UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="11261.494" y="10178.337"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa981_ce_sa981"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5, HGNC:15713, ENTREZ:51433, UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="11177.08" y="10047.337"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa2_an_csa2" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa2_an_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s29"/> <bbox w="190.0" h="120.0" x="4747.0" y="5905.0"/> <glyph class="macromolecule" id="s_id_an_sa514_an_sa514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3708</p> <p>Previous name : VEGFD</p> </body> </html> </notes> <label text="FIGF"/> <bbox w="80.0" h="40.0" x="4830.4546" y="5910.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa30_an_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:6307</p> <p>Synonyms : FLK1, VEGFR, VEGFR2, CD309</p> </body> </html> </notes> <label text="KDR"/> <bbox w="80.0" h="50.0" x="4852.0" y="5960.0"/> <glyph class="state variable" id="_f400318a-c0a3-4973-ad04-497cfdaeca7d"> <state value="" variable="Y1175"/> <bbox w="35.0" h="10.0" x="4890.8306" y="6005.0"/> </glyph> <glyph class="state variable" id="_d8c70d82-7f7a-4c2c-9e56-abae0f4061b1"> <state value="" variable="1054"/> <bbox w="30.0" h="10.0" x="4859.9756" y="6005.0"/> </glyph> <glyph class="unit of information" id="_f325e475-4139-4043-8412-30a2145974f6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4869.5" y="5955.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa29_an_sa29"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> </body> </html> </notes> <label text="NRP1"/> <bbox w="80.0" h="40.0" x="4757.0" y="5955.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa513_an_sa513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12682</p> </body> </html> </notes> <label text="VEGFC"/> <bbox w="80.0" h="40.0" x="4757.4546" y="5908.8184"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1286_ad_sa1286" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19406987 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa793_ca_sa793"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR"/> <bbox w="70.0" h="25.0" x="5194.0" y="1347.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa303_ce_sa303" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa303_ce_sa303"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MSH3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSH3"/> <bbox w="80.0" h="40.0" x="11863.187" y="15695.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1381_ad_sa1381" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ICOS"/> <bbox w="70.0" h="25.0" x="30291.0" y="2767.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa508_emtc_em_sa508" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa508_emtc_em_sa508"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinE1*"/> <bbox w="60.0" h="20.0" x="3420.0" y="14969.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa23_ca_csa23" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IkB*:NFKB1_p50*:RELB</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> </body> </html> </notes> <label text="ca_s32"/> <bbox w="108.0" h="160.0" x="2046.0" y="2950.0"/> <glyph class="macromolecule" id="s_id_ca_sa322_ca_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RELB proto-oncogene, NF-kB subunit</p> <p>HUGO:RELB hgnc_id:HGNC:9956 HGNC:9956 ENTREZ:5971 UNIPROT:Q01201</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>CASCADE:IL1, CASCADE:TNF</p> <p>PMID:18697742 </p> <p>RelB is constitutively expressed in mouse lung fibroblasts.</p> <p>PMID:10523657</p> <p>RelB is an important transcription suppressor in fibroblasts which limits the expression of proinflammatory mediators and may exert its function by modulating the stability</p> <p>Fibroblasts from relb(-/-) mice overexpress interleukin-1alpha (IL-1alpha), IL-1beta, and tumor necrosis factor alpha in response to lipopolysaccharide (LPS) stimulation. These cells have an augmented and prolonged LPS-inducible IKK activity and an accelerated degradation which results in a diminished level of IkappaBalpha protein, despite an upregulated IkappaBalpha mRNA expression.</p> </body> </html> </notes> <label text="RELB"/> <bbox w="90.0" h="40.0" x="2056.0" y="3010.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa321_ca_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>MODULE:CAF, MODULE:CORE, MODULE:CAF</p> <p>Map modules:</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control miceReferences_end</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="2061.0" y="3050.0"/> <glyph class="unit of information" id="_ed08342b-9bb0-486a-be46-6ff6731880c5"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="2076.0" y="3045.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa323_ca_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NFKB inhibitor alpha</p> <p>HUGO:NFKBIA hgnc_id:HGNC:7797 HGNC:7797 ENTREZ:4792 UNIPROT:P25963 </p> <p>NFKB inhibitor beta</p> <p>HUGO:NFKBIB hgnc_id:HGNC:7798 HGNC:7798 ENTREZ:4793 UNIPROT:Q15653 </p> <p>NFKB inhibitor epsilon</p> <p>HUGO:NFKBIE hgnc_id:HGNC:7799 HGNC:7799 ENTREZ:4794 UNIPROT:O00221</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:23086447, PMID:25305492, PMID:23422957 </p> <p> In canonical NFkB pathway RelB/p50, RelA/p50 and c-Rel/p50 heterodimers are sequestered by IκB-α, IκB-β, and IκB-ε</p> </body> </html> </notes> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="2061.0" y="2960.0"/> <glyph class="state variable" id="_c556e983-1d04-4b17-85ae-9d010c10a3b6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2053.5" y="2975.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa206_ce_sa206" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa206_ce_sa206"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCL"/> <bbox w="80.0" h="40.0" x="16652.443" y="16830.889"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa126_an_sa126" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9812896</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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y="2665.0"/> <glyph class="macromolecule" id="s_id_ad_sa191_ad_sa191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CTLA4</p> <p>CELL:CD4</p> <p>CELL:TREG</p> <p>MODULE:SMAC, MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:22116087 </p> <p>CTLA4 has been reported to recruit phosphatases — such as protein phosphatase 2A (PP2A)72,73 and SYP (also known as PTPN11)74 — and to decrease the phosphorylation of several key proteins in the TCR signalling cascade, including CD3ζ and linker for activation of T cells (LAT).</p> <p>PMID:16227604</p> <p>similarly constructed CD3/CD28/PD-1 aAPCs inhibited T-cell expansion and IL-2 production as well as CD3/CD28/CTLA-4-coated beads. </p> <p>CTLA-4 and PD-1 ablate the effect of costimulation on glucose uptake in T lymphocytes.</p> <p>PD-1 signaling blocks CD28-mediated activation of PI3K and Akt.</p> <p>CTLA-4 ligation blocks Akt but not PI3K activation.</p> <p>PD-1 suppression of PI3K/Akt is dependent upon factors binding to the ITSM motif in its cytoplasmic tail.</p> </body> </html> </notes> <label text="CTLA4"/> <bbox w="80.0" h="50.0" x="27796.0" y="2670.0"/> <glyph class="unit of information" id="_df4fb5de-91bf-4e5e-841b-276cca1fa063"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27813.5" y="2665.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1208_ad_sa1208"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PPP2CA</p> <p>HUGO:PPP2CB</p> <p>MODULE:INHIBITING_CHECKPOINTS, MODULE:TCR_SIGNALING, MODULE:SMAC</p> <p>PMID:11093160</p> </body> </html> </notes> <label text="PP2A*"/> <bbox w="80.0" h="40.0" x="27796.0" y="2725.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa106_akt1_akt1_sa106" compartmentRef="s_id_akt1_akt1_ca3_akt1_akt1_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa106_akt1_akt1_sa106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHEB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="13916.311" y="18811.25"/> <glyph class="state variable" id="_c5fdab52-a334-442c-b799-12f117425982"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13988.811" y="18806.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa546_in_sa546" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PKC*"/> <bbox w="80.0" h="40.0" x="17352.5" y="1910.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2977_rc_sa2977" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2977_rc_sa2977"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TKTL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TKTL1"/> <bbox w="80.0" h="40.0" x="18559.06" y="9769.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5485_rc_sa5485" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanylate-binding protein 2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:25774716</p> <p>these two GBPs targeted cytosolic F. novicida and promoted bacteriolysis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5485_rc_sa5485"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25774716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GBP2"/> <bbox w="80.0" h="40.0" x="28599.06" y="9189.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3172_rc_sa3172" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3172_rc_sa3172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K7"/> <bbox w="80.0" h="40.0" x="22697.56" y="10821.0"/> <glyph class="state variable" id="_8ef7771d-8c6a-47a3-9d29-90d99d6514a7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22746.629" y="10816.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa152_shh1_shh2_sa152" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa152_shh1_shh2_sa152"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARC"/> <bbox w="70.0" h="25.0" x="26451.06" y="21788.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa331_ce_sa331" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa331_ce_sa331"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RBL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p107*"/> <bbox w="80.0" h="40.0" x="12222.52" y="9644.875"/> <glyph class="state variable" id="_35d6c88b-37d3-4a44-8abc-0373d39e9e49"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12295.02" y="9656.289"/> </glyph> </glyph> <glyph class="unspecified entity" id="s_id_ce_sa1492_ce_sa1492" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ultraviolet light or radiation (UV-A and UV-B)</p> <p>Damage types are bulky adducts, 6-4 phosphoproducts, cyclobutane pyrimidinr dimer (CPD), pyrimidine dimer, thymidine dimer.</p> <p>Causes direct damage, NER gap, stalled transcription and stalled replication fork or indirect damage by formation of free radicals</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:C_NHEJ, MODULE:FANCONI, MODULE:TLS, MODULE:DR</p> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>For NER</p> <p>PMID:22743272, PMID:22822215, PMID:22492724, PMID:22373527</p> <p>For C_NHEJ</p> <p>PMID:17293412, PMID:15367581</p> <p>FOR HR</p> <p>PMID:21646340, PMID:22987150, PMID:22860035</p> <p>For TLS</p> <p>PMID:22521143</p> <p>For Fanconi</p> <p>PMID:17145857</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1492_ce_sa1492"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19267553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18256616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743272"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22822215"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22492724"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22373527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17293412"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15367581"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21646340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22987150"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22860035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22521143"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145857"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UV"/> <bbox w="70.0" h="25.0" x="12748.77" y="14406.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa1_wnc1_wnc4_csa1" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FGF2:RTK*</p> <p>References:</p> <p>s_wnc4_re4:(MAP:survival) PMID:22558232</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa1_wnc1_wnc4_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22558232"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF2:RTK*"/> <bbox w="100.0" h="120.0" x="17541.06" y="20410.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa7_wnc1_wnc4_sa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fibroblast growth factor 2 (basic)</p> <p>FGFB</p> <p>HUGO:FGF2 HGNC:3676 ENTREZ:2247 UNIPROT:P09038 GENECARDS:FGF2 REACTOME:54764 KEGG:2247 ATLASONC:FGF2ID511ch4q27 WIKI:FGF2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:ECM</p> </body> </html> </notes> <label text="FGF2"/> <bbox w="80.0" h="40.0" x="17552.06" y="20418.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa1_wnc1_wnc4_sa1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 GENECARDS:EGFR REACTOME:54208 KEGG:1956 ATLASONC:GC_EGFR WIKI:EGFR </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 GENECARDS:ERBB2 REACTOME:54422 KEGG:2064 ATLASONC:ERBB2ID162ch17q11 WIKI:ERBB2 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860 GENECARDS:ERBB3 REACTOME:403310 KEGG:2065 ATLASONC:ERBB3ID40479ch12q13 WIKI:ERBB3 </p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 GENECARDS:ERBB4 REACTOME:54426 KEGG:2066 ATLASONC:GC_ERBB4 WIKI:ERBB4 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 GENECARDS:FGFR1 REACTOME:402793 KEGG:2260 ATLASONC:FGFR1113 WIKI:FGFR1 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 GENECARDS:FGFR2 REACTOME:403305 KEGG:2263 ATLASONC:FGFR2ID40570ch10q26 WIKI:FGFR2 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 GENECARDS:FGFR3 REACTOME:403340 KEGG:2261 ATLASONC:FGFR99 WIKI:FGFR3 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 GENECARDS:FGFR4 REACTOME:54820 KEGG:2264 ATLASONC:FGFR4ID512ch5q35 WIKI:FGFR4 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 GENECARDS:FLT1 REACTOME:403120 KEGG:2321 ATLASONC:GC_FLT1 WIKI:FLT1 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 GENECARDS:FLT3 KEGG:2322 ATLASONC:FLT3ID144 WIKI:FLT3 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 GENECARDS:FLT4 REACTOME:67176 KEGG:2324 ATLASONC:GC_FLT4 WIKI:FLT4 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 GENECARDS:PDGFRA REACTOME:61602 KEGG:5156 ATLASONC:GC_PDGFRA WIKI:PDGFRA </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619 GENECARDS:PDGFRB REACTOME:61600 KEGG:5159 ATLASONC:PDGFRBID21ch5q32 WIKI:PDGFRB </p> <p>A generic name for this family of receptors that contain a tyrosine kinase activity.</p> <p>rhotekin</p> <p>HUGO:RTKN HGNC:10466 ENTREZ:6242 UNIPROT:Q9BST9 GENECARDS:RTKN ATLASONC:GC_RTKN WIKI:RTKN</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="80.0" h="50.0" x="17552.06" y="20459.0"/> <glyph class="unit of information" id="_d6cd1734-a4fb-4727-8645-c75961c358f9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17569.56" y="20454.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3340_rc_sa3340" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3340_rc_sa3340"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIDD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRDD"/> <bbox w="80.0" h="40.0" x="18034.06" y="16124.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2019_rc_sa2019" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2019_rc_sa2019"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLUD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLUD1"/> <bbox w="80.0" h="40.0" x="18041.06" y="14955.0"/> <glyph class="state variable" id="_865b5df5-5899-4972-80d2-587c88f2d4fd"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="18090.129" y="14950.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa94_wca1_wca3_sa94" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20435894 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSTIMULATORYCASCADE:IL10, CASCADE:KLRB1References:PMID:20435894IL10 inhibits miR155 expression via STAT3. 3'-UTR of SHIP1 is targeted by miR-155.Inhibition of Mir155 expression upregulates SHIPdownstream of IL10. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 20435894 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSTIMULATORYCASCADE:IL10, CASCADE:KLRB1References:PMID:20435894IL10 inhibits miR155 expression via STAT3. 3'-UTR of SHIP1 is targeted by miR-155.Inhibition of Mir155 expression upregulates SHIPdownstream of IL10. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa990_in_sa990"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR155"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20435894"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR155"/> <bbox w="70.0" h="25.0" x="20410.0" y="4632.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1623_emtc_em_sa1623" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1623_emtc_em_sa1623"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACTN1"/> <bbox w="50.0" h="18.0" x="6047.0" y="15483.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2311_rc_sa2311" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17245 KEGGCOMPOUND:C00237 CAS:630-08-0</p> </body> </html> </notes> <label text="CO"/> <bbox w="70.0" h="25.0" x="27933.113" y="10433.269"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa186_ad_sa186" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:PD1, CASCADE:TCR</p> <p>PMID:27806234 </p> <p>REW</p> <p>PMID:22437870</p> <p>PMID:26885856</p> <p> GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> <p>SHP-2 is recruited to the PD-1 cytoplasmic tail in absence of receptor ligation</p> <p>ITSM of PD-1 does not recruit SH2D1A</p> <p>PMID:23732914 </p> <p>PD-1 Increases PTEN Phosphatase Activity While Decreasing PTEN Protein Stability by Inhibiting Casein Kinase 2</p> <p>PMID:28893624</p> <p>Frequencies of PD-1+ TIGIT+ CD226− CD8+ T cells are increased in AML patients and correlate with poor clinical prognosis.</p> <p>PMID:17371980</p> <p>AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines IFN-gamma, RANTES, IL-12P(70), and IL-2. ATL313 also increased negative costimulatory molecules programmed death-1 and CTLA-4 expressed on T cells. In lymphocytes activated with anti-CD3e mAb, ATL313 inhibited the phosphorylation of Zap70, an effect that was reversed by the protein kinase A inhibitor H-89.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa186_ad_sa186"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27806234"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240681"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23732914"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28893624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17371980"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDCD1"/> <bbox w="80.0" h="50.0" x="26806.0" y="2465.0"/> <glyph class="unit of information" id="_b339db8e-00be-424f-8989-2a0f8d681842"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26823.5" y="2460.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa940_ca_sa940" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:25364523We cultured cardiac fibroblasts of mice were in hypoxia or normoxia conditions for 12, 24 and 48 hours. At all the time points, caveolin-1 and PTEN expression were gradually reduced, whereas, α-SMA was gradually increased. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:25364523We cultured cardiac fibroblasts of mice were in hypoxia or normoxia conditions for 12, 24 and 48 hours. At all the time points, caveolin-1 and PTEN expression were gradually reduced, whereas, α-SMA was gradually increased. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa940_ca_sa940"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAV1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25364523"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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Tera, Sema3a, Lrp4, Actc1, Myl3, Hspg2, Pgm2, Hif3a, Asb5, E2f5, Npm1, Cenpb, Rbbp6,Scyl1, ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Examples of target genes : Raf1, Map4k4, Bicc1, Mapk10 (JNK3), Txnl2, Azi2, Tera, Sema3a, Lrp4, Actc1, Myl3, Hspg2, Pgm2, Hif3a, Asb5, E2f5, Npm1, Cenpb, Rbbp6,Scyl1, </body> </html> </notes> <label text="target genes*"/> <bbox w="134.0" h="24.0" x="4009.0" y="10641.0"/> <glyph class="unit of information" id="_db131773-baea-4a4d-8324-ede0f877b528"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4066.0" y="10636.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa90_akt1_akt2_sa90" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa90_akt1_akt2_sa90"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="14208.061" y="20507.0"/> <glyph class="state variable" id="_30704bf6-fc3f-470f-80ff-77065a2ac342"> <state value="" variable="S10"/> <bbox w="25.0" h="10.0" x="14195.561" y="20504.404"/> </glyph> <glyph class="state variable" id="_0475673b-bdb7-4885-823d-4934e5072dec"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="14272.442" y="20542.0"/> </glyph> <glyph class="state variable" id="_cefff6d0-7c5f-4c5b-a24e-173fc0733b2a"> <state 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<state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="14238.093" y="20502.0"/> </glyph> <glyph class="state variable" id="_d4fc646d-e814-49ea-8daa-ce6e43e37624"> <state value="" variable="S157"/> <bbox w="30.0" h="10.0" x="14273.061" y="20502.213"/> </glyph> <glyph class="state variable" id="_a223b378-5767-4852-a18b-0c38f2e85ef8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14200.561" y="20522.969"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa614_rc_sa614" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa614_rc_sa614"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDK1"/> <bbox w="70.0" h="25.0" x="22728.06" y="16302.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa120_ce_csa120" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinB1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycB*"/> <bbox w="104.0" h="105.0" x="12785.473" y="10678.356"/> <glyph class="macromolecule" id="s_id_ce_sa791_ce_sa791"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="12798.973" y="10722.856"/> <glyph class="state variable" id="_afd95ecd-1d79-4b9d-a199-9541a8650c1a"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="12835.922" y="10717.856"/> </glyph> <glyph class="state variable" id="_654e9f31-3df2-419b-9364-4c275fda18a3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12793.973" y="10737.824"/> </glyph> <glyph class="state variable" 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compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa389_mpk1_mpk1_sa389"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC1"/> <bbox w="60.0" h="25.0" x="8433.061" y="19094.5"/> <glyph class="state variable" id="_f30b4454-03d1-48fb-a5fb-6d03fcb8a09e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8428.061" y="19102.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa435_in_sa435" compartmentRef="s_id_in_ca13_in_ca13"> <label text="SH2D1B"/> <bbox w="90.0" h="50.0" x="22250.0" y="1355.0"/> <glyph class="state variable" id="_2f355dd2-8319-4bbf-9008-cc2934221dd4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22245.0" y="1375.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa748_ca_sa748" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PGDFPMID:18232728 FGF-2 Functionally Contributes to the Angiogenic Phenotype. FGF-2 and FGF-7 are expressed by CAFs and Repressed by Specific Inhibition of PDGF Receptor Signaling ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PGDFPMID:18232728 FGF-2 Functionally Contributes to the Angiogenic Phenotype. FGF-2 and FGF-7 are expressed by CAFs and Repressed by Specific Inhibition of PDGF Receptor Signaling </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa748_ca_sa748"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18232728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18232728"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF7"/> <bbox w="90.0" h="25.0" x="3685.0" y="4342.5"/> <glyph class="unit of information" id="_51f05bff-e258-46b2-b702-b4383ebacac1"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3720.0" y="4337.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa20_wca1_wca2_csa20" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD2:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re47:(MAP:survival) PMID:19104148</p> <p>s_wca2_re43(MAP:survival):</p> <p>Y654-phosphorylated isoform is able to induce canonical TCF/LEF transcription</p> <p>PMID:22203675</p> <p>s_wca2_re44(MAP:survival):</p> <p>Only Y654-phosphorylated isoform of beta-catenin was able to indcue EMT</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa20_wca1_wca2_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19104148"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2:β-Catenin*"/> <bbox w="100.0" h="120.0" x="23781.06" y="19297.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa122_wca1_wca2_sa122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23792.06" y="19311.25"/> <glyph class="state variable" id="_03aedc27-def9-4e2d-a963-624d16043d71"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="23779.56" y="19345.97"/> </glyph> <glyph class="state variable" id="_1481089c-9c6e-4183-abaf-9a6094357777"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23806.277" y="19306.25"/> </glyph> <glyph class="state variable" id="_3b002ed8-2fe9-4898-ad43-76acbb53956f"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23777.553" y="19306.25"/> </glyph> <glyph class="state variable" id="_97086abc-7c96-422e-80a2-4787acfc1eb6"> <state value="" variable="T41"/> <bbox w="25.0" h="10.0" x="23858.941" y="19346.25"/> </glyph> <glyph class="state variable" id="_d6a3ac81-0095-4159-a7b2-903996c2d00d"> <state value="" variable="S37"/> <bbox w="25.0" h="10.0" x="23859.56" y="19306.463"/> </glyph> <glyph class="state variable" id="_26bae3d7-3cc7-43a9-95db-171c7af8dbc3"> <state value="" variable="K345"/> <bbox w="30.0" h="10.0" x="23857.06" y="19306.463"/> </glyph> <glyph class="state variable" id="_32b22afe-9f32-4474-9554-8caeac889ebb"> <state value="" variable="S33"/> <bbox w="25.0" h="10.0" x="23819.592" y="19306.25"/> </glyph> <glyph class="state variable" id="_ad70b224-a0cc-415c-af75-f0f176b3ff05"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="23780.053" y="19306.25"/> </glyph> <glyph class="state variable" id="_6463cab0-ba1f-4aaf-b727-d766e2bdb00a"> <state value="" variable="S45"/> <bbox w="25.0" h="10.0" x="23819.465" y="19346.25"/> </glyph> <glyph class="state variable" id="_2f438ddc-b433-4fdd-a0d8-cb19c698c291"> <state value="P" variable="Y654"/> <bbox w="35.0" h="10.0" x="23854.56" y="19306.463"/> </glyph> <glyph class="state variable" id="_3595fa19-e740-4d39-addc-45548d56e030"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23787.06" y="19312.521"/> </glyph> <glyph class="state variable" id="_4509a61c-65e6-4297-bb7b-936da22dcd11"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23787.06" y="19324.21"/> </glyph> <glyph class="state variable" id="_a181ed28-1838-403b-9897-069c36dee712"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23787.06" y="19317.758"/> </glyph> <glyph class="state variable" id="_237af46f-e1b4-4b42-9903-b9a05302b799"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23787.06" y="19326.219"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa123_wca1_wca2_sa123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>"MAD mothers against decapentaplegic homolog 2 (Drosophila)" MADH2 "SMAD mothers against DPP homolog 2 (Drosophila)"</p> <p>HUGO:SMAD2 HGNC:6768 ENTREZ:4087 UNIPROT:Q15796 GENECARDS:SMAD2 REACTOME:405890 KEGG:4087 ATLASONC:SMAD2ID370 WIKI:SMAD2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>TGF-?? exerts its biological effects by binding to a cell surface receptor complex composed of type I (TbRI) and type II (TbRII) receptor serine/threonine kinases. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16977 KEGGCOMPOUND:C00041 CAS:56-41-7</p> </body> </html> </notes> <label text="L-alanine"/> <bbox w="70.0" h="25.0" x="18550.81" y="14857.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1508_emtc_em_sa1508" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1508_emtc_em_sa1508"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGDIB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Rac1_GDIs*"/> <bbox w="80.0" h="20.0" x="6142.0" y="14418.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa138_emtc_em_csa138" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MIR34*:WNT3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MIR34A/WNT3"/> <bbox w="80.0" h="60.0" x="3524.926" y="18178.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa770_emtc_em_sa770"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34b</p> <p>HUGO:MIR34B, HGNC:31636, ENTREZ:407041, GENECARDS:GC11P111383</p> <p>microRNA 34c</p> <p>HUGO:MIR34C, HGNC:31637, ENTREZ:407042, GENECARDS:GC11P111384</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>PMID:21909380</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR34*"/> <bbox w="75.0" h="20.0" x="3528.926" y="18179.0"/> <glyph class="unit of information" id="_69b13250-c101-4a1e-80f1-4bdae5a52ee9"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3551.426" y="18174.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa769_emtc_em_sa769"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family, member 3</p> <p>HUGO:WNT3, HGNC:12782, ENTREZ:7473, GENECARDS:GC17M044839</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NEUTROPHIL</p> <p>MODULE:MARKERS_DC, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:MIF, CASCADE:IL3, CASCADE:IL10, CASCADE:TLR2_4, CASCADE:TNF, CASCADE:FLT3LG, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:20805416</p> <p>Expression of CD86, a critical costimulatory molecule for efficient T cell priming, is enhanced in activated MDSC during mTOR inhibition</p> <p>This phenotype was not observed in moDCs, in which surface expression of CD80 and CD86 was inhibited by rapamycin.</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p>FLT3L induces Ag-presenting ability of Dcs. Probably via induction of surface expression of class II MHC and CD86.</p> <p>PMID:22076556, PMID:21220452 , PMID:24218453</p> <p>CD83 increases MHC II and CD86 on dendritic cells by opposing IL-10-driven MARCH1-mediated ubiquitination and degradation.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> PMID:15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:9359474</p> <p>DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p> PMID:11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. 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class="state variable" id="_6ac164cb-b59a-498b-a32d-a4c94c6a36dc"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20618.941" y="21265.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa258_rc_csa258" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DIABLO:XIAP</p> </body> </html> </notes> <label text="DIABLO:XIAP"/> <bbox w="100.0" h="130.0" x="24949.06" y="12234.0"/> <glyph class="macromolecule" id="s_id_rc_sa1961_rc_sa1961"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>diablo, IAP-binding mitochondrial protein</p> <p>HUGO:DIABLO HGNC:21528 ENTREZ:56616 UNIPROT:Q9NR28</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="DIABLO"/> <bbox 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x="12998.061" y="18119.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa43_ad_csa43" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:NKG2D</p> <p>MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:LYTIC_GRANULES_EXOCYTOSIS</p> <p>PMID:24655141; PMID:17006514 </p> <p>REW</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>HUGO:TUBGCP5</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP5"/> <bbox w="80.0" h="40.0" x="29646.625" y="6363.125"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa491_ad_sa491"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBG1</p> <p>HUGO:TUBG2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="Tubulin-γ*"/> <bbox w="80.0" h="40.0" x="29646.625" y="6323.125"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa493_ad_sa493"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP3</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP3"/> <bbox w="80.0" h="40.0" x="29556.625" y="6363.125"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa494_ad_sa494"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP4</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP4"/> <bbox w="80.0" h="40.0" x="29556.625" y="6403.125"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa497_ad_sa497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt:Q71U36</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt:P68363</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt:Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt:Q6PEY2</p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt:Q9NY65</p> <p>MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="29552.875" y="6483.125"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa492_ad_sa492"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBGCP2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18802074</p> </body> </html> </notes> <label text="TUBGCP2"/> <bbox w="80.0" h="40.0" x="29556.625" y="6323.125"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa498_ad_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBB</p> <p>HUGO:TUBB1</p> <p>HUGO:TUBB2A</p> <p>HUGO:TUBB2B</p> <p>HUGO:TUBB2C</p> <p>HUGO:TUBB3</p> <p>HUGO:TUBB4</p> <p>HUGO:TUBB4Q</p> <p>HUGO:TUBB6</p> <p>MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="Tubulin-β*"/> <bbox w="80.0" h="40.0" x="29636.625" y="6483.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1958_emtc_em_sa1958" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1958_emtc_em_sa1958"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC1B*"/> <bbox w="42.0" h="21.0" x="2615.0" y="17719.5"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa205_shh1_shh2_sa205" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16880536</p> <p>s_wnc3_re15:(MAP:survival) PMID:21376121</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa205_shh1_shh2_sa205"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376121"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK pathway"/> <bbox w="80.0" h="30.0" x="25798.06" y="21699.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa334_rc_csa334" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPIA:cleaved~AIFM1*</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:NECROPTOSIS, MODULE:PARTHANATOS</p> </body> </html> </notes> <label text="AIF:CypA"/> <bbox w="100.0" h="120.0" x="18712.06" y="16114.0"/> <glyph class="macromolecule" id="s_id_rc_sa3048_rc_sa3048"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptosis-inducing factor, mitochondrion-associated, 1</p> <p>HUGO:AIFM1 HGNC:8768 ENTREZ:9131 UNIPROT:O95831</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PARTHANATOS</p> <p>References:</p> <p>PMID:21887410</p> </body> </html> </notes> <label text="cleaved~AIFM1*"/> <bbox w="80.0" h="40.0" x="18721.56" y="16123.0"/> <glyph class="state variable" id="_b6063fb7-b344-48c9-acb8-a4f027d5ef1e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18773.129" y="16118.0"/> </glyph> <glyph class="unit of information" id="_92de7721-f5fc-4b32-b6bc-cf9c2ffcded3"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18736.56" y="16118.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3047_rc_sa3047"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peptidylprolyl isomerase A (cyclophilin A)</p> <p>HUGO:PPIA HGNC:9253 ENTREZ:5478 UNIPROT:P62937</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:NECROPTOSIS, MODULE:PARTHANATOS</p> <p>References:</p> <p>synonym:cyclophilin A</p> </body> </html> </notes> <label text="PPIA"/> <bbox w="80.0" h="40.0" x="18724.56" y="16172.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa251_in_csa251" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa251_in_csa251"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10358772"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10856136"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4_receptor_TYPE1"/> <clone/> <bbox w="196.0" h="80.0" x="24142.25" y="4835.4375"/> <glyph class="macromolecule" id="s_id_in_sa1893_in_sa1893"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <clone/> <bbox w="80.0" h="50.0" x="24237.75" y="4839.5625"/> <glyph class="state variable" id="_10ce386a-7341-4e11-898c-7f1d767bf510"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24312.75" y="4873.9517"/> </glyph> <glyph class="unit of information" id="_867bed66-6e3f-4395-b323-d2e3c386cf4d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24255.25" y="4834.5625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1894_in_sa1894"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <clone/> <bbox w="80.0" h="50.0" x="24157.75" y="4839.5625"/> <glyph class="unit of information" id="_ea34c53a-5d26-4af8-9d05-1ac0e5fdae82"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24175.25" y="4834.5625"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa251_in_csa153" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa251_in_csa153"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10358772"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10856136"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4_receptor_TYPE1"/> <clone/> <bbox w="104.0" h="133.0" x="9138.0" y="5198.5"/> <glyph class="macromolecule" id="s_id_in_sa1893_in_sa1031"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <clone/> <bbox w="80.0" h="50.0" x="9151.857" y="5248.643"/> <glyph class="state variable" id="_df1f14fc-b409-4291-a3db-187bef4e28a0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9226.857" y="5283.032"/> </glyph> <glyph class="unit of information" id="_137924c1-6414-49eb-9342-69804c496efb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9169.357" y="5243.643"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1894_in_sa1032"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <clone/> <bbox w="80.0" h="50.0" x="9150.0" y="5200.0"/> <glyph class="unit of information" id="_e0d075a9-4af0-4f94-a22e-11a30e378724"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9167.5" y="5195.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa336_em_csa336" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin3*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2532"/> <bbox w="93.0" h="42.0" x="1063.0" y="15323.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1213_emtc_em_sa1213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claudin 3</p> <p>HUGO:CLDN3, HGNC:2045, ENTREZ:1365, GENECARDS:GC07M073183, UNIPROT:O15551</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> 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rdf:resource="urn:miriam:hgnc.symbol:INPP5D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHIP2*"/> <bbox w="80.0" h="40.0" x="13225.061" y="18121.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1592_emtc_em_sa1592" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1592_emtc_em_sa1592"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAMC3"/> <bbox w="48.0" h="17.0" x="6651.0" y="18296.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa232_ce_csa232" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRCA1:E2F1:RB1</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> </body> </html> </notes> <label text="BRCA1/E2F1/RB1"/> <bbox w="110.0" h="156.0" x="11782.473" y="12945.356"/> <glyph class="macromolecule" id="s_id_ce_sa1180_ce_sa1180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="11791.542" y="12959.578"/> <glyph class="state variable" id="_ede46c2d-c339-4702-807b-c6dc7075921f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11863.628" y="12994.578"/> </glyph> <glyph class="state variable" id="_4df8f224-720d-4632-a576-571ad5641257"> <state value="P" variable="S988"/> <bbox w="35.0" h="10.0" x="11828.903" y="12954.578"/> </glyph> <glyph class="state variable" id="_75b57fd0-068b-49a7-9c87-69e110ca6f4b"> <state value="P" variable="S1423"/> <bbox w="40.0" h="10.0" x="11790.669" y="12954.578"/> </glyph> <glyph class="state variable" id="_fabb94f3-fc8a-43dc-beee-ec07803ceef4"> <state value="P" variable="S1497"/> <bbox w="40.0" h="10.0" x="11808.794" y="12954.578"/> </glyph> <glyph class="state variable" id="_c591b4d9-afbc-405a-9458-f8f24cf89561"> <state value="P" variable="S1524"/> <bbox w="40.0" h="10.0" x="11771.542" y="12974.546"/> </glyph> <glyph class="state variable" id="_a6f3495d-869c-4351-bb4a-bea31f9a1025"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="11776.542" y="12990.049"/> </glyph> <glyph class="state variable" id="_9d25144e-33c6-49c6-9cb9-28076250f62c"> <state value="P" variable="S1387"/> <bbox w="40.0" h="10.0" x="11851.542" y="12959.817"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1178_ce_sa1178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma 1</p> <p>HUGO:RB1, HGNC:9884, ENTREZ:5925, UNIPROT:P06400</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:7935440</p> </body> </html> </notes> <label text="RB1"/> <bbox w="80.0" h="40.0" x="11793.502" y="13000.844"/> <glyph class="state variable" id="_5b365577-3924-47ec-82a5-24698941266e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11868.502" y="13015.844"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1177_ce_sa1177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E2F transcription factor 1</p> <p>HUGO:E2F1, HGNC:3113, ENTREZ:1869, UNIPROT:Q01094</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E2F1"/> <bbox w="80.0" h="40.0" x="11796.502" y="13039.844"/> <glyph class="state variable" id="_c495bd64-55b0-40e8-99cc-a8ca8799cd29"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11871.502" y="13054.844"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2974_rc_sa2974" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2974_rc_sa2974"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TKT"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TKT"/> <bbox w="80.0" h="40.0" x="18079.06" y="10379.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1977_in_sa1977" compartmentRef="s_id_in_ca12_in_ca12"> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="21435.0" y="3020.0"/> <glyph class="state variable" id="_fbd20a03-a931-4bbf-857e-ba3d44e545a0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21510.0" y="3035.4336"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa202_emtc_em_csa202" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA1:GJA1_4_GJC1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:16359940</p> <p>PMID:14576341</p> <p>Among the Connexins, Cx43 (GJA1) is the most ubiquitously expressed. </p> <p>Cx43 is endogenously expressed in at least 35 distinct tissues encompassing over 35 cell types that include cardiomyocytes, keratinocytes, astrocytes, endothelial cells and smooth-muscle cells among many others. </p> <p>Cx43 co-oligomerize with other Connexins like Cx26 (GJB2, keratinocytes and hepatocytes), Cx31 (GJB5, keratinocytes), Cx45 (GJC1, myocardium) and Cx46 (GJA3, trans-Golgi network). </p> <p>However Cx43 is unable to co-oligomerize with Cx32 (GJB1).</p> <p>PMID:16492141</p> <p>Binding partners proteins of Connexin 43 (GJA1):</p> <p>-Kinases: v-Src, c-Src, PKC, PKA, MAPK, Casein kinase 1, Cdc2 kinase</p> <p>-TIGHT_JUNCTIONS scaffold proteins: ZO1, ZO2, caveolin 1</p> <p>-Cytoskeleton: b-catenin, a-tubulin, b-tubulin</p> <p>-Others: Drebrin, NOV, CIP85</p> <p>Cx43 binds with ZO-1 and ZO-2, at different stages of the cell cycle to regulate Gap Junctions size and stability; </p> <p>Cx43 interacts directly with b-Catenin to regulate Gap junctional intercelullar communication cross-talk activity with the WNT signaling (essential for cell survival);</p> <p>Binding of CIP85 to Cx43 regulates the turnover of Cx43-containing Gap Junctions, stabilizing the junctions. </p> <p>Drebrin 1 (Actin-binding protein) binds Cx43 and links Gap junctions to the sub-membrane cytoskeleton</p> <p>Other cytoskeletal proteins like a and b-Tubulin bind with Cx43 to facilitate Connexion transport. </p> <p>Binding of NOV to the C-terminus of Cx43 potentially regulates growth suppression. </p> <p>Binding of Cx43 to Caveolin-1 may play a role in internalization of Cx43. </p> <p>Connexin-specific selectivity:</p> <p>Homomeric Connexons made up of Cx32 are permeable both to cAMP and cGMP </p> <p>Heteromeric Connexons containing both Cx26 (GJB2) and Cx32 are not permeable to cAMP but allow passage of cGMP</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa202_emtc_em_csa202"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16359940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14576341"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16492141"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA1/GJA1_4_GJC1*"/> <bbox w="140.0" h="40.0" x="1031.0" y="17532.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1358_emtc_em_sa1358"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GJA1_4_GJC1*</p> <p>gap junction protein, alpha 1, 43kDa</p> <p>HUGO:GJA1, HGNC:4274, ENTREZ:2697, UNIPROT:P17302, GENECARDS:GC06P121756  </p> <p>gap junction protein, alpha 4, 37kDa</p> <p>HUGO:GJA4, HGNC:4278, ENTREZ:2701 , UNIPROT:P35212, GENECARDS:GC01P035258 </p> <p>gap junction protein, gamma 1, 45kDa</p> <p>HUGO:GJC1, HGNC:4280, ENTREZ:10052 , UNIPROT:P36383, GENECARDS:GC17M042875</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:16359940</p> <p>PMID:14576341</p> <p>Among the Connexins, Cx43 (GJA1) is the most ubiquitously expressed. </p> <p>Cx43 is endogenously expressed in at least 35 distinct tissues encompassing over 35 cell types that include cardiomyocytes, keratinocytes, astrocytes, endothelial cells and smooth-muscle cells among many others. </p> <p>Cx43 co-oligomerize with other Connexins like Cx26 (GJB2, keratinocytes and hepatocytes), Cx31 (GJB5, keratinocytes), Cx45 (GJC1, myocardium) and Cx46 (GJA3, trans-Golgi network). </p> <p>However Cx43 is unable to co-oligomerize with Cx32 (GJB1).</p> <p>PMID:16492141</p> <p>Binding partners proteins of Connexin 43 (GJA1):</p> <p>-Kinases: v-Src, c-Src, PKC, PKA, MAPK, Casein kinase 1, Cdc2 kinase</p> <p>-TIGHT_JUNCTIONS scaffold proteins: ZO1, ZO2, caveolin 1</p> <p>-Cytoskeleton: b-catenin, a-tubulin, b-tubulin</p> <p>-Others: Drebrin, NOV, CIP85</p> <p>Cx43 binds with ZO-1 and ZO-2, at different stages of the cell cycle to regulate Gap Junctions size and stability; </p> <p>Cx43 interacts directly with b-Catenin to regulate Gap junctional intercelullar communication cross-talk activity with the WNT signaling (essential for cell survival);</p> <p>Binding of CIP85 to Cx43 regulates the turnover of Cx43-containing Gap Junctions, stabilizing the junctions. </p> <p>Drebrin 1 (Actin-binding protein) binds Cx43 and links Gap junctions to the sub-membrane cytoskeleton</p> <p>Other cytoskeletal proteins like a and b-Tubulin bind with Cx43 to facilitate Connexion transport. </p> <p>Binding of NOV to the C-terminus of Cx43 potentially regulates growth suppression. </p> <p>Binding of Cx43 to Caveolin-1 may play a role in internalization of Cx43. </p> <p>Connexin-specific selectivity:</p> <p>Homomeric Connexons made up of Cx32 are permeable both to cAMP and cGMP </p> <p>Heteromeric Connexons containing both Cx26 (GJB2) and Cx32 are not permeable to cAMP but allow passage of cGMP</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA1_4_GJC1*"/> <bbox w="100.0" h="20.0" x="1033.0" y="17533.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1297_emtc_em_sa1297"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 1, 43kDa</p> <p>HUGO:GJA1, HGNC:4274, ENTREZ:2697, UNIPROT:P17302, GENECARDS:GC06P121756  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:16359940</p> <p>PMID:14576341</p> <p>Among the Connexins, Cx43 (GJA1) is the most ubiquitously expressed. </p> <p>Cx43 is endogenously expressed in at least 35 distinct tissues encompassing over 35 cell types that include cardiomyocytes, keratinocytes, astrocytes, endothelial cells and smooth-muscle cells among many others. </p> <p>Cx43 co-oligomerize with other Connexins like Cx26 (GJB2, keratinocytes and hepatocytes), Cx31 (GJB5, keratinocytes), Cx45 (GJC1, myocardium) and Cx46 (GJA3, trans-Golgi network). </p> <p>However Cx43 is unable to co-oligomerize with Cx32 (GJB1).</p> <p>PMID:16492141</p> <p>Binding partners proteins of Connexin 43 (GJA1):</p> <p>-Kinases: v-Src, c-Src, PKC, PKA, MAPK, Casein kinase 1, Cdc2 kinase</p> <p>-TIGHT_JUNCTIONS scaffold proteins: ZO1, ZO2, caveolin 1</p> <p>-Cytoskeleton: b-catenin, a-tubulin, b-tubulin</p> <p>-Others: Drebrin, NOV, CIP85</p> <p>Cx43 binds with ZO-1 and ZO-2, at different stages of the cell cycle to regulate Gap Junctions size and stability; </p> <p>Cx43 interacts directly with b-Catenin to regulate Gap junctional intercelullar communication cross-talk activity with the WNT signaling (essential for cell survival);</p> <p>Binding of CIP85 to Cx43 regulates the turnover of Cx43-containing Gap Junctions, stabilizing the junctions. </p> <p>Drebrin 1 (Actin-binding protein) binds Cx43 and links Gap junctions to the sub-membrane cytoskeleton</p> <p>Other cytoskeletal proteins like a and b-Tubulin bind with Cx43 to facilitate Connexion transport. </p> <p>Binding of NOV to the C-terminus of Cx43 potentially regulates growth suppression. </p> <p>Binding of Cx43 to Caveolin-1 may play a role in internalization of Cx43. </p> <p>Connexin-specific selectivity:</p> <p>Homomeric Connexons made up of Cx32 are permeable 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y="10758.389"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa288_emtc_em_csa288" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BMI1:TWIST1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20818389</p> <p>Physical interaction between BMI1 and TWIST1</p> <p>E-Cadherin repression by cooperative BMI1 and TWIST1</p> <p>p16INK4A repression by cooperative BMI1 and TWIST1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa288_emtc_em_csa288"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20818389"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMI1/TWIST1"/> <bbox w="114.0" h="61.0" x="2839.125" y="16196.13"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1923_emtc_em_sa1923"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>itwist homolog 1 (Drosophila)</p> <p>HUGO:TWIST1 HGNC:12428, ENTREZ:7291, UNIPROT:Q15672, GENECARDS:GC07M019121</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:15640618</p> <p>Twist induces an epithelial-mesenchymal transition to facilitate tumor metastasis.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TWIST1"/> <bbox w="104.0" h="19.0" x="2846.625" y="16218.13"/> <glyph class="state variable" id="_1933eafb-d534-4815-b381-71bc60b95b31"> <state value="P" variable="S68"/> <bbox w="30.0" h="10.0" x="2831.625" y="16222.63"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1922_emtc_em_sa1922"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BMI1 polycomb ring finger oncogene</p> <p>"B lymphoma Mo-MLV insertion region 1 homolog (mouse)", PCGF4, "polycomb group ring finger 4"</p> <p>HUGO:BMI1 HGNC:1066 ENTREZ:648 UNIPROT:P35226</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22796940</p> <p>The silencing of E-cadherin expression by hypermethylation is a common event in cancer.</p> <p>DNMTs target cytosine residues in CpG dinucleotides for methylation and have been identified in the repression of E-cadherin in normal and pathological contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that inhibit gene expression through chromatin remodeling. </p> <p>The polycomb repressive complex 2 (PRC2) recruits PRC1 after chromatin methylation at H3K27 through enhancer of EZH2, a histone H3 lysine-27-specific methyltransferase.</p> <p>Both, PRC1 and PRC2 have been shown to interact with SNAI1 and TWIST1 to promote EMT.</p> <p>SNAI1 is stabilized 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compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Caspase9*</p> </body> </html> </notes> <label text="redox_CASP9:CASP9"/> <bbox w="100.0" h="140.0" x="21249.06" y="13129.0"/> <glyph class="macromolecule" id="s_id_rc_sa497_rc_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> <p>PMID:12011067</p> <p>DCC interacts with both 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Celldesigner to SBGN-ML translation ------ Pubmed_ID: 22067385 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYSCASCADE:IL4, CASCADE:IL13References:PMID:22067385MYC upregulates expression of STAT6 ans enhances downstreamIL4 signaling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa981_in_sa981"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22067385"/> </rdf:Bag> 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rdf:resource="urn:miriam:hgnc.symbol:ZEB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZEB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZEB1"/> <bbox w="60.0" h="20.0" x="4168.0" y="16322.5"/> <glyph class="unit of information" id="_ce8b27ef-0405-40c8-83ad-a27193d2dc8e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4188.0" y="16317.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa817_rc_sa817" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa817_rc_sa817"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALDOC"/> <bbox w="80.0" h="40.0" x="18549.06" y="10479.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1391_in_sa1391" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL1RN"/> <bbox w="90.0" h="25.0" x="11547.5" y="5405.0"/> <glyph class="unit of information" id="_1595d7ee-212b-4ee3-9858-ec11e7ae41fa"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11582.5" y="5400.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa546_rc_csa546" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AIM2:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa546_rc_csa546"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIM2:PYCARD"/> <bbox w="100.0" h="140.0" x="28769.06" y="9399.0"/> <glyph class="macromolecule" id="s_id_rc_sa5447_rc_sa5447"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="28779.06" y="9469.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5457_rc_sa5457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:AIM2</p> <p>synonyms:absent in melanoma 2</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="AIM2"/> <bbox w="80.0" h="50.0" x="28779.06" y="9414.0"/> <glyph class="unit of information" id="_4332f1ad-0150-4ded-aa4a-dec12fc7fa35"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28796.56" y="9409.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa425_in_sa425" compartmentRef="s_id_in_ca13_in_ca13"> <label text="NKG2D*"/> <bbox w="80.0" h="50.0" x="21105.0" y="1755.0"/> <glyph class="unit of information" id="_ae1069ed-4d9a-4eb4-b5f1-b876017cbaf9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21122.5" y="1750.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa339_wca1_wca3_sa339" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MLH1:PMS2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> </body> </html> </notes> <label text="MLH1/PMS2"/> <bbox w="113.0" h="117.0" x="11258.473" y="15712.356"/> <glyph class="macromolecule" id="s_id_ce_sa470_ce_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)</p> <p>HUGO:MLH1, HGNC:7127, ENTREZ:4292, UNIPROT:P40692</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MLH1"/> <bbox w="80.0" h="40.0" x="11277.473" y="15726.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa471_ce_sa471"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMS1 postmeiotic segregation increased 2 (S. cerevisiae)</p> <p>HUGO:PMS2, HGNC:9122, ENTREZ:5395, UNIPROT:P54278</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="PMS2"/> <bbox w="80.0" h="40.0" x="11280.473" y="15764.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa15_wca1_wca2_csa15" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TGFB1:TGFBR*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re37:(MAP:survival) PMID:19171760</p> <p>s_wca2_re48:(MAP:survival) part of canonical TGF pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa15_wca1_wca2_csa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFB1:TGFBR*"/> <bbox w="100.0" h="120.0" x="23135.06" y="19138.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa87_wca1_wca2_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897 GENECARDS:TGFBR1 REACTOME:65969 KEGG:7046 ATLASONC:GC_TGFBR1 WIKI:TGFBR1 </p> <p>transforming growth factor beta receptor 2</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173 GENECARDS:TGFBR2 REACTOME:65971 KEGG:7048 ATLASONC:GC_TGFBR2 WIKI:TGFBR2 </p> <p>transforming growth factor beta receptor 3</p> <p>HUGO:TGFBR3 HGNC:11774 ENTREZ:7049 UNIPROT:Q03167 GENECARDS:TGFBR3 KEGG:7049 ATLASONC:TGFBR3ID42541ch1p33 WIKI:TGFBR3</p> <p>Map modules:</p> </body> </html> </notes> <label text="TGFBR*"/> <bbox w="80.0" h="50.0" x="23144.06" y="19181.0"/> <glyph class="unit of information" id="_d6c5c630-2200-4e33-b914-f7ef63ca4280"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23161.56" y="19176.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa88_wca1_wca2_sa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 GENECARDS:TGFB1 REACTOME:65937 KEGG:7040 ATLASONC:GC_TGFB1 WIKI:TGFB1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:emtcellmotility / MODULE:ECM</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="52.0" h="29.0" x="23157.06" y="19157.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa661_ca_sa661" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa661_ca_sa661"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LTBP*"/> <bbox w="80.0" h="40.0" x="3510.0" y="4710.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa985_in_sa985" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24030977, 12907458, 12193690 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYSCASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2References:PMID:12907458, PMID:12193690IL10 upregulates expressionof IL4RA in STAT3 dependent manner.PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 24030977, 12907458, 12193690 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSCMODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYSCASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2References:PMID:12907458, PMID:12193690IL10 upregulates expressionof IL4RA in STAT3 dependent manner.PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa985_in_sa985"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030977"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12907458"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12193690"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4R"/> <bbox w="90.0" h="25.0" x="9575.0" y="4759.0"/> <glyph class="unit of information" id="_0f405e3a-de0e-464c-9bd8-0e96b30e33e5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="9610.0" y="4754.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa940_ad_sa940" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18264101 </p> <p>Lymphocyte activation induces a smaller Bcl-10 isoform downstream of CD3 and CD28</p> <p>Formation of the faster migrating Bcl-10 isoform depends on its recruitment by CARMA1 and on the formation of CARMA1 oligomers.</p> <p>activation of the NF-B pathway by antigen-presenting cells or by drugs that mimic the antigen receptor signal does not require MALT1-dependent cleavage of Bcl-10 but most likely depends on other MALT1 substrates.</p> <p>After activation with either anti-CD3 and anti-CD28 or PMA, cells expressing the R228G mutant had less adhesion to fibronectin than did cells expressing wild-type Bcl-10</p> <p>(. In Jurkat T cells, adhesion to the 1 ligand fibronectin is mediated mainly by the integrin a4b1, with a minor contribution from a5b1)</p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>In the CARMA1–Bcl-10–MALT1 signaling complex, Bcl-10 acts as an adaptor protein that binds, through its caspase-recruitment domain (CARD), to the CARD motif of CARMA1 (refs. 6,7,8,9,10,11,12); this interaction leads to the recruitment of MALT1 and/or the stabilization of the MALT1-CARMA1 interaction13, 14, 15. The formation of the CARMA1–Bcl-10–MALT1 complex is central to antigen receptor–mediated activation of the NF-B pathway and thereby controls the antigen receptor–induced expression and secretion of cytokines that are essential for lymphocyte proliferation</p> <p>PMID:11356195; PMID:17052756 </p> <p>CARMA1 induces BCL10 phosphorylation (data from non immune cells)</p> <p>Phosphorylation of Bcl10 at S138 Negatively Regulates T-Cell Receptor-Mediated NF-κB Activation.</p> <p>CaMKII phosphorylates Bcl10 on Ser138. Furthermore, a CaMKII inhibitor, KN93, and CaMKII siRNA substantially reduce Bcl10 phosphorylation induced by phorbol myristate acetate/ionomycin. S138A mutation prolongs Bcl10-induced NF-κB activation, suggesting that Bcl10 phosphorylation is involved in attenuation of NF-κB activation.</p> <p>Phosphorylation of Bcl10, especially at Ser138, has been linked to a signal-induced degradation of Bcl10. </p> <p>PMID:16818229 </p> <p>IKK2 (IKBKB) phoshorylates BCL10 downstream of TCR.</p> <p>Mutation of the IKKbeta phosphorylation sites on Bcl10 enhances expression of NF-kappaB target genes IL-2 and TNFalpha after activation of primary T cells.</p> <p>PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> <p>Mechanistically, the positive effect of calcineurin on the CBM complex formation seems to be linked to a dephosphorylation of Bcl10. </p> <p>PMID:17462996</p> <p>Bcl-10 links MALT1 to the active caspase complex in effector T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa940_ad_sa940"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264101"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11356195"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052756"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16818229"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21199863"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17462996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL10"/> <bbox w="80.0" h="40.0" x="29006.0" y="5445.0"/> <glyph class="state variable" id="_206276ec-4fa9-4cf6-8377-bbe1cf5d501a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29001.0" y="5460.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa154_ad_csa154" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5760"/> <bbox w="120.0" h="155.0" x="27056.0" y="2622.5"/> <glyph class="macromolecule" id="s_id_ad_sa1329_ad_sa1329"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:GNG</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>PMID:18758473</p> </body> </html> </notes> <label text="GNG*"/> <bbox w="80.0" h="40.0" x="27066.0" y="2687.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1330_ad_sa1330"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:GNB1</p> <p>HUGO:GNB2</p> <p>HUGO:GNB3</p> <p>HUGO:GNB4</p> <p>HUGO:GNB5</p> <p>CASCADE:AR2A</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:18758473</p> </body> </html> </notes> <label text="GNB*"/> <bbox w="80.0" h="40.0" x="27066.0" y="2727.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1325_ad_sa1325"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>CASCADE:AR2A</p> <p>HUGO:ADORA2A</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p> PMID:22116345</p> <p>A2A receptor KO mice reject tumors more efficiently than WT controls</p> <p>PMID:17909080 </p> <p>A2A receptor signaling promotes peripheral tolerance by inducing T-cell anergy and the generation of adaptive regulatory T cells.</p> <p>T cells initially stimulated in the presence of an A(2A)R agonist fail to proliferate and produce interleukin-2 and interferon (IFN)-gamma when rechallenged in the absence of A(2A)R stimulation.</p> <p>Accordingly, treating mice with A(2A)R agonists not only inhibits Th1 and Th17 effector cell generation but also promotes the generation of Foxp3(+) and LAG-3(+) regulatory T cells.</p> <p>http://cancerres.aacrjournals.org/content/77/13_Supplement/1683</p> <p>A2A receptor was the main adenosine receptor expressed by CD4 and CD8 T lymphocytes and monocytes, and the only one in mature monocyte-derived dendritic cells and NK cells. A2B receptor was poorly detected in T cells and monocytes, while A1 and A3 receptors were never detected.</p> <p>PMID:18758473</p> <p>A2A receptors are the dominant adenosine receptors in dictating lymphocyte responses.</p> <p>PMID:17371980</p> <p>AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines IFN-gamma, RANTES, IL-12P(70), and IL-2. ATL313 also increased negative costimulatory molecules programmed death-1 and CTLA-4 expressed on T cells. 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rdf:resource="urn:miriam:hgnc.symbol:MIR29B*2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR29B*"/> <bbox w="90.0" h="25.0" x="26605.06" y="22068.5"/> <glyph class="unit of information" id="_e12c858c-a206-4095-9309-73d7d5091a24"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="26635.06" y="22063.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa372_rc_csa372" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DEPDC6:MAPKAP1:MLST8:MTOR:RICTOR</p> </body> </html> </notes> <label text="mTORC2:DEPTOR"/> <bbox w="177.0" h="154.0" x="27055.56" y="11257.0"/> <glyph class="macromolecule" id="s_id_rc_sa3537_rc_sa3537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="27143.56" y="11262.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3538_rc_sa3538"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="27061.56" y="11304.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3539_rc_sa3539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR, complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="27144.56" y="11304.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3527_rc_sa3541"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DEP domain containing MTOR-interacting protein</p> <p>HUGO:DEPTOR HGNC:22953 ENTREZ:64798 UNIPROT:Q8TB45</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>synonym:DEPT</p> </body> </html> </notes> <label text="DEPDC6"/> <bbox w="80.0" h="40.0" x="27060.56" y="11347.0"/> <glyph class="state variable" id="_8aa1991d-9b40-4add-9729-eed3565bb7e3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27112.129" y="11342.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3527_rc_sa3527"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DEP domain containing MTOR-interacting protein</p> <p>HUGO:DEPTOR HGNC:22953 ENTREZ:64798 UNIPROT:Q8TB45</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>synonym:DEPT</p> </body> </html> </notes> <label text="DEPDC6"/> <bbox w="80.0" h="40.0" x="27144.06" y="11344.0"/> <glyph class="state variable" id="_021c7352-15b9-4a29-b31b-a877a87132fe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27195.629" y="11339.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3540_rc_sa3540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase associated protein 1</p> <p>HUGO:MAPKAP1 HGNC:18752 ENTREZ:79109 UNIPROT:Q9BPZ7</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:SIN1</p> </body> </html> </notes> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="27060.56" y="11262.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa168_shh1_shh1_sa168" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa168_shh1_shh1_sa168"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SUFU"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="27623.06" y="17757.0"/> <glyph class="state variable" id="_4157cf2c-09a2-4600-81a4-972cfbbc9024"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="27608.553" y="17752.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa402_rc_csa402" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAPN1:Ca2+</p> </body> </html> </notes> <label text="Calpain activated"/> <bbox w="100.0" h="100.0" x="23821.56" y="13364.0"/> <glyph class="macromolecule" id="s_id_rc_sa3965_rc_sa3965"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 1, (mu/I) large subunit</p> <p>HUGO:CAPN1 HGNC:1476 ENTREZ:823 UNIPROT:P07384</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>synonym:Calpain 1</p> <p>synonym:mu-calpain</p> </body> </html> </notes> <label text="CAPN1"/> <bbox w="80.0" h="40.0" x="23829.06" y="13399.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3961_rc_sa3961"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> <p>Map modules:</p> <p>MODULE:AKT_MTOR</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="23876.56" y="13376.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa25_wca1_wca2_csa25" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL2:RIPK4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re59:(MAP:survival) PMID:23371553</p> <p>s_wca2_re60(MAP:survival):</p> <p>Without RIPK4 upon wnt3 stimulation 25% of HeLa cells show DVL2 in puncta. Co-transfection of RIPK4 increases this number to more than 75%</p> <p>PMID:23371553</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa25_wca1_wca2_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23371553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23371553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL2:RIPK4"/> <bbox w="100.0" h="120.0" x="25152.06" y="18911.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa161_wca1_wca2_sa161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>"dishevelled 2 (homologous to Drosophila dsh)"</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL2"/> <bbox w="80.0" h="40.0" x="25161.06" y="18922.0"/> <glyph class="state variable" id="_5b1264cf-791c-41fc-9302-5a6f56d49b21"> <state value="P" variable="S480"/> <bbox w="35.0" h="10.0" x="25144.053" y="18917.0"/> </glyph> <glyph class="state variable" id="_78edc281-fb99-48c1-8a79-553f47b522c9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25236.06" y="18917.0"/> </glyph> <glyph class="state variable" id="_8f212a68-8412-48a2-ba9d-7ff35e48c49c"> <state value="P" variable="S298"/> <bbox w="35.0" h="10.0" x="25143.56" y="18956.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa160_wca1_wca2_sa160"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor-interacting serine-threonine kinase 4</p> <p>ANKRD3 "ankyrin repeat domain 3"</p> <p>HUGO:RIPK4 HGNC:496 ENTREZ:54101 UNIPROT:P57078 GENECARDS:RIPK4 KEGG:54101 ATLASONC:GC_RIPK4 WIKI:RIPK4</p> <p>Map modules:</p> </body> </html> </notes> <label text="RIPK4"/> <bbox w="80.0" h="40.0" x="25161.06" y="18967.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa16_akt1_akt1_csa16" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAPKAP1:MLST8:MTOR:PROTOR*:RAC1:RICTOR</p> <p>References:</p> <p>s_akt1_re174(MAP:survival):</p> <p>PMID:20027184</p> <p>PMID:21474067</p> <p>s_akt1_re21:(MAP:survival) PMID:10722653</p> <p>s_akt1_re84(MAP:survival):</p> <p>PMID:20338997</p> <p>PMID:18570873</p> <p>PMID:18925875</p> <p>s_akt1_re86:(MAP:survival) PMID:19720745</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa16_akt1_akt1_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027184"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10722653"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20338997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18570873"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18925875"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19720745"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC2)"/> <bbox w="180.0" h="153.0" x="12564.894" y="17889.375"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa529_akt1_akt1_sa529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="12655.561" y="17985.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa83_akt1_akt1_sa83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="12572.394" y="17898.125"/> <glyph class="state variable" id="_0c331874-e77f-4320-beca-db9172f80bff"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="12552.394" y="17932.076"/> </glyph> <glyph class="state variable" id="_1d4ea98f-e956-4c26-9e84-bf524be684e5"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12631.476" y="17893.125"/> </glyph> <glyph class="state variable" id="_2df5f0f5-e443-45b2-8db9-74606be89bd4"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="12634.275" y="17933.125"/> </glyph> <glyph class="state variable" id="_2e963119-350b-49dc-ac09-19565d5cc943"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="12557.394" y="17913.125"/> </glyph> <glyph class="state variable" id="_6a2e9d03-9a36-4a92-a67f-9bab4f578a1b"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="12558.429" y="17893.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa87_akt1_akt1_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12654.644" y="17898.125"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa84_akt1_akt1_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mitogen-activated protein kinase associated protein 1</p> <p>HUGO:MAPKAP1 HGNC:18752 ENTREZ:79109 UNIPROT:Q9BPZ7 GENECARDS:MAPKAP1 REACTOME:413323 KEGG:79109 ATLASONC:GC_MAPKAP1 WIKI:MAPKAP1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="12572.394" y="17939.375"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa85_akt1_akt1_sa85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PROTOR</p> <p>HUGO:PRR5 HGNC:31682 ENTREZ:55615 UNIPROT:P85299 GENECARDS:PRR5 KEGG:55615 ATLASONC:GC_PRR5 WIKI:PRR5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PROTOR*"/> <bbox w="80.0" h="40.0" x="12572.144" y="17980.625"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa86_akt1_akt1_sa86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12655.644" y="17939.375"/> <glyph class="state variable" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MHC_class_II*"/> <bbox w="80.0" h="40.0" x="21070.0" y="8040.0"/> <glyph class="state variable" id="_2c049c8e-4829-4595-8b19-d0a316e2a2a2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21065.0" y="8055.0"/> </glyph> <glyph class="unit of information" id="_ffbeeacb-033c-412e-9fc2-7b7a04440d89"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21087.5" y="8035.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa120_in_sa120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Tumor_antigen_fragment"/> <bbox w="80.0" h="40.0" x="21070.0" y="7990.0"/> <glyph class="unit of information" id="_e91b33a9-3307-44c1-823f-1871121c0bb2"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21085.0" y="7985.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1278_ad_sa1278" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:16424155</p> <p>E-cadherin is a ligand for the murine killer cell lectin-like receptor G1.</p> <p>E-cadherin expression inhibits Ag-induced cell division and induction of cytolytic activity of CD8 T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1278_ad_sa1278"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16424155"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDH1"/> <bbox w="80.0" h="40.0" x="26126.0" y="2180.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2271_in_sa2271" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP7"/> <bbox w="80.0" h="40.0" x="11590.0" y="6990.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa9_emtc_em_csa9" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LIN10*:LIN2*:LIN7C</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9753323</p> <p>Heterotrimeric complex Lin2-Lin7-Lin10 (C. elegans)</p> <p>PMID:9822620</p> <p>human lin10 contains 2 PDZ domains</p> <p>human lin10 interacts with mammalian lin2 (CASK)</p> <p>mammalian lin7 interacts with mammalian lin2 (CASK)</p> <p>heterotrimeric complex Lin2-lin7-Lin10 in mouse brain</p> <p>PMID:9753324</p> <p>Trimeric complex Lin2-Lin7-Lin10 in brain. </p> <p>Each protein contains PDZ domains-not involved in complex formation </p> <p>PMID:10871881</p> <p>LIN2(CASK) contains two L27 domains, 1 PDZ domain, 1 SH3 domain, 1 inactive Guanylate Kinase domain</p> <p>LIN7 contains one L27 domain</p> <p>Interaction LIN2-LIN7 via L27 domain</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa9_emtc_em_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9753323"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9822620"/> </rdf:Bag> </bqbiol:isEncodedBy> 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(CASK)</p> <p>mammalian lin7 interacts with mammalian lin2 (CASK)</p> <p>heterotrimeric complex Lin2-lin7-Lin10 in mouse brain</p> <p>PMID:9753324</p> <p>Trimeric complex Lin2-Lin7-Lin10 in brain. </p> <p>Each protein contains PDZ domains-not involved in complex formation </p> <p>PMID:10871881</p> <p>LIN2(CASK) contains two L27 domains, 1 PDZ domain, 1 SH3 domain, 1 inactive Guanylate Kinase domain</p> <p>LIN7 contains one L27 domain, 1 PDZ domain</p> <p>Interaction LIN2-LIN7 via L27 domain</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LIN7C"/> <bbox w="48.0" h="17.0" x="5533.875" y="15727.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa175_emtc_em_sa175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calcium/calmodulin-dependent serine protein kinase (MAGUK family)</p> <p>HUGO:CASK, HGNC:1497, ENTREZ:8573, UNIPROT:O14936, GENECARDS:GC0XM041374  </p> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 16 open reading frame 70</p> <p>HUGO:C16orf70, HGNC:29564, ENTREZ:80262, UNIPROT:Q9BSU1, GENECARDS:GC16P067143  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9753323</p> <p>Heterotrimeric complex Lin2-Lin7-Lin10 (C. elegans)</p> <p>PMID:9822620</p> <p>human lin10 contains 2 PDZ domains</p> <p>human lin10 interacts with mammalian lin2 (CASK)</p> <p>mammalian lin7 interacts with mammalian lin2 (CASK)</p> <p>heterotrimeric complex Lin2-lin7-Lin10 in mouse brain</p> <p>PMID:9753324</p> <p>Trimeric complex Lin2-Lin7-Lin10 in brain. </p> <p>Each protein contains PDZ domains-not involved in complex formation</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LIN10*"/> <bbox w="51.0" h="16.0" x="5481.875" y="15728.25"/> </glyph> </glyph> <glyph class="macromolecule" 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y="18484.5"/> </glyph> <glyph class="unit of information" id="_e9f4360f-a1b1-4c45-b551-30823fde691e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3631.5" y="18484.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa678_mpk1_mpk1_sa678" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa678_mpk1_mpk1_sa678"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM"/> <bbox w="50.0" h="25.0" x="11608.061" y="20075.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa43_shh1_shh2_sa43" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa43_shh1_shh2_sa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXL1"/> <bbox w="90.0" h="25.0" x="26603.06" y="20637.5"/> <glyph class="unit of information" id="_4a4232fb-b322-46a0-9804-1204f50ec13c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26638.06" y="20632.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa576_ca_sa576" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:INTEGRINPMID:11696562 Integrin-linked kinase (ILK) is a binding partner of the integrin 1 and 3 subunits and is involved in the signal transduction from integrin receptors The activity is stimulated in a phosphatidylinositol (PI) 3-kinase–dependent manner and likely involves binding of the phosphoinositide phospholipid product of PI 3-kinase, PI 3,4,5-triphosphate, to the PH-like domain of ILKILK has been shown recently to directly phosphorylate proteins such as PKB (PKB/Akt) on ser 473.PMID:15905178 Knock-down of ILK by small, interfering RNA (siRNA) attenuated Akt phosphorylation in response to ligation of beta1 integrin by collagen or activating antibody and enhanced fibroblast apoptosis in response to collagen contraction. PMID:27111285 ILK–PI3K/AKT pathway participates in cutaneous wound contraction by regulating fibroblast migration and differentiation to myofibroblast ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:INTEGRINPMID:11696562 Integrin-linked kinase (ILK) is a binding partner of the integrin 1 and 3 subunits and is involved in the signal transduction from integrin receptors The activity is stimulated in a phosphatidylinositol (PI) 3-kinase–dependent manner and likely involves binding of the phosphoinositide phospholipid product of PI 3-kinase, PI 3,4,5-triphosphate, to the PH-like domain of ILKILK has been shown recently to directly phosphorylate proteins such as PKB (PKB/Akt) on ser 473.PMID:15905178 Knock-down of ILK by small, interfering RNA (siRNA) attenuated Akt phosphorylation in response to ligation of beta1 integrin by collagen or activating antibody and enhanced fibroblast apoptosis in response to collagen contraction. PMID:27111285 ILK–PI3K/AKT pathway participates in cutaneous wound contraction by regulating fibroblast migration and differentiation to myofibroblast </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa576_ca_sa576"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ILK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11696562"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15905178"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27111285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ILK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11696562"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15905178"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27111285"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ILK"/> <bbox w="70.0" h="25.0" x="6285.0" y="2117.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa771_ad_sa771" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:24027568 </p> <p>Ras·GTP is a potent signaling hub, connecting to many downstream effector molecules like RAF, PI3K, and RalGDS. The best-characterized signaling cascade is the Ras·GTP-RAF-MEK-ERK pathway</p> <p>The physiological significance of biochemical signals transduced by an intact Ras-RAF-MEK-ERK pathway in lymphocytes was subsequently shown through transgenic expression of mutant Ras- and MEK-alleles in thymocytes;</p> <p>PMID:14764585 </p> <p>Vav1 Is Required for TCR-induced Activation of Ras, B-Raf, MEK, and ERK</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa771_ad_sa771"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24027568"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAF1"/> <bbox w="80.0" h="40.0" x="27486.0" y="4615.0"/> <glyph class="state variable" id="_6fcb29ee-805a-4f4f-80ba-abb3604e0fdc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27481.0" y="4630.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa272_ce_sa272" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa272_ce_sa272"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POLL"/> <bbox w="80.0" h="40.0" x="10864.73" y="15397.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5270_rc_sa5270" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:SLC11A3</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5270_rc_sa5270"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC40A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC40A1"/> <bbox w="80.0" h="50.0" x="27439.06" y="9134.0"/> <glyph class="unit of information" id="_c33527c1-f748-496e-8ae9-ed22fe60a9bc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27456.56" y="9129.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa771_rc_sa771" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17634 KEGGCOMPOUND:C00031 CAS:50-99-7</p> <p>References:</p> <p>PMID:12546687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa771_rc_sa771"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="glucose"/> <clone/> <bbox w="70.0" h="25.0" x="18274.06" y="9616.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa771_ca_sa100" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17634 KEGGCOMPOUND:C00031 CAS:50-99-7</p> <p>References:</p> <p>PMID:12546687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa771_ca_sa100"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="glucose"/> <clone/> <bbox w="70.0" h="25.0" x="2975.0" y="4537.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa771_rc_sa1016" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17634 KEGGCOMPOUND:C00031 CAS:50-99-7</p> <p>References:</p> <p>PMID:12546687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa771_rc_sa1016"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="glucose"/> <clone/> <bbox w="70.0" h="25.0" x="25865.045" y="11595.68"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa462_ca_sa462" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa462_ca_sa462"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <bbox w="80.0" h="40.0" x="5090.0" y="3320.0"/> <glyph class="state variable" id="_bd9b4c92-7465-49ad-a3c4-40a4b6e583a9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5082.5" y="3335.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa65_ce_csa65" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FAAP100*:FANCB:FANCL</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> </body> </html> </notes> <label text="FAAP100/FANCB/FANCL"/> <bbox w="134.0" h="151.0" x="16314.473" y="16806.355"/> <glyph class="macromolecule" id="s_id_ce_sa657_ce_sa657"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>some 17 open reading frame 70, FAAP100</p> <p>HUGO:C17orf70, HGNC:26171, ENTREZ:80233, UNIPROT:Q0VG06</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP100*"/> <bbox w="80.0" h="40.0" x="16348.404" y="16896.053"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa656_ce_sa656"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group L</p> <p>HUGO:FANCL, HGNC:20748, ENTREZ:55120, UNIPROT:Q9NW38</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>The enzyme possesses E3 ubiquitin ligase activity, the active part in the Fanconi core complex</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCL"/> <bbox w="80.0" h="40.0" x="16349.404" y="16856.053"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa655_ce_sa655"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group B</p> <p>HUGO:FANCB, HGNC:3583, ENTREZ:2187, UNIPROT:Q8NB91</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCB"/> <bbox w="80.0" h="40.0" x="16348.404" y="16815.053"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa3334_rc_sa3334" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s4365"/> <bbox w="30.0" h="30.0" x="23124.06" y="11214.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa11_mpk1_mpk1_csa11" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRAF:GRB2:KSR1:MEK*:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="BRAF:GRB2:KSR1:MEK*:RAS*:RTK*:SOS*"/> <bbox w="259.0" h="168.0" x="9249.561" y="18922.5"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa57_mpk1_mpk1_sa57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="9417.061" y="18979.25"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa63_mpk1_mpk1_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="66.0" h="26.0" x="9314.561" y="19005.0"/> <glyph class="state variable" id="_9fc28e70-8ca1-409c-9405-05752cf4c142"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9307.061" y="19017.332"/> </glyph> <glyph class="state variable" id="_72b1c30d-c840-4e59-a86d-572b1921a860"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9307.061" y="19008.451"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa620_mpk1_mpk1_sa620"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="9369.186" y="18979.0"/> <glyph class="state variable" id="_bc5aceb5-a6a2-40bc-bf02-05c12e9412a6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9361.686" y="18986.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa584_mpk1_mpk1_sa584"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="9418.061" y="18933.0"/> <glyph class="unit of information" id="_81957dd7-0402-4efb-ae23-739749eb4202"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9420.561" y="18928.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa56_mpk1_mpk1_sa56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="9417.061" y="18954.25"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa59_mpk1_mpk1_sa59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf murine sarcoma viral oncogene homolog B1</p> <p>HUGO:BRAF HGNC:1097 ENTREZ:673 UNIPROT:P15056</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>B-Raf is the MAPKKK for ERK cascade on plasma membrane. It is phosphorylated by RasGTP and phosphorylates MEK1/2 on plasma membrane.</p> </body> </html> </notes> <label text="BRAF"/> <bbox w="66.0" h="26.0" x="9310.061" y="18980.0"/> <glyph class="state variable" id="_f40ebfbe-9c4e-4e73-8071-27b3adc449c5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9302.561" y="18988.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa62_mpk1_mpk1_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is a scaffold protein for ERK cascade. It normally localises in the cytosol but after GF treatment it moves to the plasma membrane. Its interaction with MEK1/2 is constitutive. Under endogenous conditions KSR1 facilitates the association of MEK and B-Raf (and not C-Raf) thus promoting MEK and ERK activation (on plasma membrane).</p> </body> </html> </notes> <label text="KSR1"/> <bbox w="41.0" h="77.0" x="9269.561" y="18980.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ca_sa102_ca_sa102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>PMID:21674557</p> <p>Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.</p> <p>This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression.</p> <p>LPA induces fibroblast proliferation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa102_ca_sa102"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21674557"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="lysophostatidic acid"/> <bbox w="70.0" h="25.0" x="5965.0" y="727.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1170_ad_sa1170" compartmentRef="s_id_ad_ca15_ad_ca15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:20634814</p> <p>Granzymes and other soluble proteins, including lysosomal hydrolases, are sorted from the trans-Golgi network by the mannose-6-phosphate receptor (M6PR) and transported to early endosomes before they are sorted to late endosomes. M6PR is then recycled to the trans-Golgi network.</p> <p>PMID:11081635</p> <p>Mannose 6-phosphate/insulin-like growth factor II receptor is a death receptor for granzyme B during cytotoxic T cell-induced apoptosis. </p> <p>PMID:8432729 </p> <p>Granzymes A and B are targeted to the lytic granules of lymphocytes by the mannose-6-phosphate receptor.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1170_ad_sa1170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:M6PR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20634814"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11081635"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8432729"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="M6PR"/> <bbox w="80.0" h="50.0" x="28516.0" y="8125.0"/> <glyph class="unit of information" id="_5503fc23-924d-4a28-b8ca-d8425f6c4519"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28533.5" y="8120.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1452_emtc_em_sa1452" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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<glyph class="state variable" id="_595cab3a-2689-44f5-83a0-cdd71ef572c7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6612.5" y="2575.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa257_emtc_em_sa257" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa257_emtc_em_sa257"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAL"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGAL"/> <bbox w="40.0" h="20.0" x="4707.135" y="17647.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa581_rc_sa581" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa581_rc_sa581"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR19A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR19A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR19A"/> <bbox w="90.0" h="25.0" x="20816.025" y="15627.348"/> <glyph class="unit of information" id="_b88afe39-d3b0-4a04-a1d0-cd4da8aaa50f"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20846.025" y="15622.348"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa22_ce_csa22" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:MMR</p> </body> </html> </notes> <label text="RPA1/RPA2/RPA3"/> <bbox w="113.0" h="146.0" x="14672.473" y="15706.356"/> <glyph class="macromolecule" id="s_id_ce_sa478_ce_sa478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="14687.589" y="15791.365"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa477_ce_sa477"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="14687.589" y="15751.365"/> <glyph class="state variable" id="_8c8c9441-9841-4fc4-96fc-ce44836647a8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14682.589" y="15766.365"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa476_ce_sa476"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="14687.589" y="15709.365"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa32_ca_csa32" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MAP3K7:TAB2:TAB3</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:14660645, PMID:18264787, PMID:12620219</p> <p>IRAK-1 interacts with the downstream adaptor TRAF6, </p> <p>resulting in formation of a complex that also includes TAK1 and TAB2.</p> <p> IRAK-1 mediates the translocation of TRAF6, TAK1 and TAB2 to the cytosol,</p> <p> where they form a multiprotein complex with other cytosolic proteins, </p> <p>which are needed for stimulation of TAK1 kinase activity.</p> <p>PMID:14660645, PMID:18264787, PMID:11460167</p> <p>Activated TAK1 phosphorylates IKK-beta proteins </p> <p>leading to activation of NF-κB downstream of HMGB1.</p> <p>PMID:23681101, PMID:11477091</p> <p>There are three main signaling pathways could be activated downstream of TRR4/MyD88/TAK1 signaling : p38 (via MKK3 or MKK6), JNK (via MKK4 or MKK7) and NfkB ) IN DC all these signaling pathways are activated downstream of TLR4 and TLR2 signaling )</p> <p>PMID:21232017, PMID:21133840 PMID:17301840, PMID:18641653, PMID:24958845, PMID:16603398, PMID:14633987</p> <p>cIAP1 and cIAP2 modify RIP1, TRAF2 and themselves with K63-linked ubiquitin chains. This creates docking sites for the LUBAC complex, an E3 ligase capable of forming linear polyubiquitin chains. The LUBAC complex ubiquitinates NEMO, a subunit of the IKK complex, which by help of its IKK2 subunit also interacts with TRADD-bound TRAF2. In parallel, the TAK1-TAB 2 complex interacts with K63-ubiquitin modieed RIP1 by use of the K63-ubiquitin binding TAB 2 subunit. TAK1 become activated and then phosphorylates and activates IKK2 which in turn now phosphorylates IjBa, marking it for K48-ubiquitination and proteasomal degradation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa32_ca_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12620219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11460167"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23681101"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11477091"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21232017"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17301840"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18641653"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24958845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16603398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14633987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s651"/> <bbox w="110.0" h="165.0" x="1885.0" y="2207.0"/> <glyph class="macromolecule" id="s_id_ca_sa357_ca_sa357"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>HUGO:MAP3K7 hgnc_id:HGNC:6859 HGNC:6859 ENTREZ:6885 UNIPROT:O43318</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:19161412, PMID:12620219</p> <p>IRAK-1 interacts with the downstream adaptor TRAF6, </p> <p>resulting in formation of a complex that also includes TAK1 and TAB2.</p> <p> IRAK-1 mediates the translocation of TRAF6, TAK1 and TAB2 to the cytosol,</p> <p> where they form a multiprotein complex with other cytosolic proteins, </p> <p>which are needed for stimulation of TAK1 kinase activity.</p> <p>K63-pUb-Traf6 can then recruit transforming growth factor β-activated protein kinase (TAK1) in a complex with TAK1-binding protein 2 (TAB2) and TAB3, which both contain nuclear zinc finger motifs that interact with K63-polyubiquitin chains (41). This somehow activates TAK1, which then couples to the inhibitor of NF-κB (IκB) kinase (IKK) complex, which contains the scaffold protein NF-κB essential modulator (NEMO) and IKK2, the kinase responsible for phosphorylation of IκB.</p> </body> </html> </notes> <label text="MAP3K7"/> <bbox w="80.0" h="40.0" x="1895.0" y="2222.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa358_ca_sa358"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>HUGO:TAB2 hgnc_id:HGNC:17075 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:12620219</p> <p>IRAK-1 interacts with the downstream adaptor TRAF6, </p> <p>resulting in formation of a complex that also includes TAK1 and TAB2.</p> <p> IRAK-1 mediates the translocation of TRAF6, TAK1 and TAB2 to the cytosol,</p> <p> where they form a multiprotein complex with other cytosolic proteins, </p> <p>which are needed for stimulation of TAK1 kinase activity.</p> </body> </html> </notes> <label text="TAB2"/> <bbox w="80.0" h="40.0" x="1895.0" y="2272.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa359_ca_sa359"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1 and MAP3K7 binding protein 3</p> <p>HUGO:TAB3 hgnc_id:HGNC:30681 HGNC:30681 ENTREZ:257397 UNIPROT:Q8N5C8</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:19161412, PMID:12620219</p> <p>IRAK-1 interacts with the downstream adaptor TRAF6, </p> <p>resulting in formation of a complex that also includes TAK1 and TAB2.</p> <p> IRAK-1 mediates the translocation of TRAF6, TAK1 and TAB2 to the cytosol,</p> <p> where they form a multiprotein complex with other cytosolic proteins, </p> <p>which are needed for stimulation of TAK1 kinase activity.</p> <p>K63-pUb-Traf6 can then recruit transforming growth factor β-activated protein kinase (TAK1) in a complex with TAK1-binding protein 2 (TAB2) and TAB3, which both contain nuclear zinc finger motifs that interact with K63-polyubiquitin chains (41). This somehow activates TAK1, which then couples to the inhibitor of NF-κB (IκB) kinase (IKK) complex, which contains the scaffold protein NF-κB essential modulator (NEMO) and IKK2, the kinase responsible for phosphorylation of IκB.</p> </body> </html> </notes> <label text="TAB3"/> <bbox w="80.0" h="40.0" x="1895.0" y="2312.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa135_emtc_em_sa135" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Invasiveness"/> <bbox w="118.0" h="20.0" x="2559.25" y="13308.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa13_wnc1_wnc2_sa13" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa13_wnc1_wnc2_sa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CASR"/> <bbox w="80.0" h="50.0" x="18475.06" y="17901.0"/> <glyph class="unit of information" id="_991dc6c8-bb90-4299-9f82-9b0a7c50b32b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18492.56" y="17896.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa154_mo_sa154" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0paxillin ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0paxillin </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa154_mo_sa154"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PXN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PXN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PXN"/> <bbox w="70.0" h="25.0" x="4134.0" y="10899.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1165_in_sa1165" compartmentRef="s_id_in_ca12_in_ca12"> <label text="FN1"/> <bbox w="80.0" h="40.0" x="14400.0" y="2175.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4599_rc_sa4599" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4599_rc_sa4599"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR149"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR149"/> <clone/> <bbox w="90.0" h="25.0" x="23119.06" y="15636.5"/> <glyph class="unit of information" id="_725cc9a3-ab87-4c18-9c5c-d10f959b350c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23149.06" y="15631.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4599_ca_sa961" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4599_ca_sa961"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR149"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR149"/> <clone/> <bbox w="90.0" h="25.0" x="2715.0" y="2562.25"/> <glyph class="unit of information" id="_99c0f22f-7c17-4fd3-9d15-c9dc75c08a7b"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2745.0" y="2557.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa4_rc_csa4" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAK1:IGFBP1</p> </body> </html> </notes> <label text="BAK1:IGFBP1"/> <bbox w="100.0" h="120.0" x="22879.06" y="14789.0"/> <glyph class="macromolecule" id="s_id_rc_sa44_rc_sa44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>insulin-like growth factor binding protein 1</p> <p>HUGO:IGFBP1 HGNC:5469 ENTREZ:3484 UNIPROT:P08833</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="IGFBP1"/> <bbox w="80.0" h="40.0" x="22889.607" y="14839.349"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa45_rc_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22890.607" y="14796.349"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1478_rc_sa1478" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1478_rc_sa1478"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BTRC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBXW11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="27311.088" y="12366.764"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa983_emtc_em_sa983" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa983_emtc_em_sa983"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AXIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN1"/> <bbox w="40.0" h="20.0" x="1329.0" y="16079.5"/> <glyph class="state variable" id="_da319c46-2cf7-4a04-ada6-6f2255f234ac"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1344.416" y="16074.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa39_wca1_wca3_csa39" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:B56_alpha_*</p> <p>References:</p> <p>s_wca3_re91:(MAP:survival) PMID:11585828</p> <p>s_wca3_re79(MAP:survival):</p> <p>This transport is enhanced upon phosphorylation however it is not necessary for import of APC into nucleus</p> <p>PMID:11689703 PMID:15649893 PMID:11050185 PMID:12223464</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa39_wca1_wca3_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11585828"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15649893"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11050185"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223464"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:B56α*"/> <bbox w="100.0" h="120.0" x="20690.06" y="21236.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa253_wca1_wca3_sa253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20702.06" y="21247.0"/> <glyph class="state variable" id="_8a34e03a-2406-49ca-ab5a-b9a1db0a92fa"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20684.56" y="21281.72"/> </glyph> <glyph class="state variable" id="_6c560481-4952-46b7-b640-356823ffcfc6"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20690.053" y="21242.0"/> </glyph> <glyph class="state variable" id="_17b315fb-5441-49f6-8071-c684be33bc03"> <state value="P" variable="S2034"/> 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value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20724.592" y="21242.0"/> </glyph> <glyph class="state variable" id="_f1c9fb10-fd31-485f-9756-de53dee8f8a9"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20763.941" y="21282.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa254_wca1_wca3_sa254"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B' alpha</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A</p> <p>Map modules:</p> </body> </html> </notes> <label text="B56α*"/> <bbox w="80.0" h="40.0" x="20702.06" y="21293.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3348_rc_sa3348" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3348_rc_sa3348"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="20509.797" y="12056.934"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4810_rc_sa4810" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4810_rc_sa4810"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK5"/> <clone/> <bbox w="80.0" h="40.0" x="26149.06" y="14649.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4810_rc_sa4811" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4810_rc_sa4811"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK5"/> <clone/> <bbox w="80.0" h="40.0" x="25999.06" y="14649.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa921_in_sa921" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SMAD4"/> <bbox w="80.0" h="40.0" x="9990.0" y="2315.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3824_rc_sa3824" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3824_rc_sa3824"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF10B"/> <clone/> <bbox w="80.0" h="50.0" x="23939.06" y="9134.0"/> <glyph class="unit of information" id="_2549bfa1-fcdd-4f61-a578-d7607cc99866"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23956.56" y="9129.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3824_rc_sa4734" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3824_rc_sa4734"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF10B"/> <clone/> <bbox w="80.0" h="50.0" x="26561.498" y="15762.0"/> <glyph class="unit of information" id="_36f61f24-a4bc-4416-a019-9554112cfe2e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26578.998" y="15757.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa139_ce_sa139" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa139_ce_sa139"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DCLRE1C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Artemis*"/> <bbox w="80.0" h="40.0" x="13286.269" y="16418.408"/> <glyph class="state variable" id="_8a579c30-48e4-443a-bc3d-37837f8a99c7"> <state value="P" variable="S645"/> <bbox w="35.0" h="10.0" x="13269.262" y="16413.408"/> </glyph> <glyph class="state variable" id="_eb3467fb-21df-4aa3-a977-99e9e4a4fa62"> <state value="P" variable="S516"/> <bbox w="35.0" h="10.0" x="13308.801" y="16413.408"/> </glyph> <glyph class="state variable" id="_0c50ae4c-ea4c-43cf-a7ae-59377bb03269"> <state value="P" variable="S518"/> <bbox w="35.0" h="10.0" x="13325.718" y="16413.408"/> </glyph> <glyph class="state variable" id="_9ae58849-1bd8-4997-9d21-e1e59fd63414"> <state value="P" variable="S385"/> <bbox w="35.0" h="10.0" x="13292.363" y="16413.408"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1976_emtc_em_sa1976" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1976_emtc_em_sa1976"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF3α*"/> <bbox w="49.0" h="17.0" x="4299.0" y="14215.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1807_in_sa1807" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MICB"/> <bbox w="90.0" h="25.0" x="22091.25" y="5312.5"/> <glyph class="unit of information" id="_18a0fb46-31d7-447c-97d1-ffddfeba63b2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22126.25" y="5307.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa46_wca1_wca1_csa46" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:E1*:FAF*:NEDD8:RAD6*:RBX1:SKP*:_beta_TRCP*</p> <p>References:</p> <p>s_wca1_re46(MAP:survival):</p> <p>PMID:15688063 PMID:22730322 </p> <p>FAF1 acts as scaffold protein</p> <p>s_wca1_re47(MAP:survival):</p> <p>PMID:19576224 PMID:17143292 PMID:10023660 PMID:21411632 PMID:22730322 PMID:22682247 </p> <p>FAF1 enhances poly-ubiquitination of beta-catenin by acting as scaffold protein</p> <p>Intact destruction complex in the proteosome complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa46_wca1_wca1_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15688063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22730322"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19576224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10023660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411632"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22730322"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22682247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(CRL)"/> <bbox w="212.0" h="216.0" x="20695.06" y="19514.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa430_wca1_wca1_sa430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2 HGNC:10901 ENTREZ:6502 UNIPROT:Q13309 GENECARDS:SKP2 REACTOME:405589 KEGG:6502 ATLASONC:GC_SKP2 WIKI:SKP2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15688063</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP*"/> <bbox w="80.0" h="40.0" x="20802.06" y="19538.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa432_wca1_wca1_sa432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Beta-transducin repeat domain</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 GENECARDS:BTRC REACTOME:55056 KEGG:8945 ATLASONC:BTRCID451ch10q24 WIKI:BTRC </p> <p>F-box and WD repeat domain containing 11</p> <p>BTRC2, BTRCP2, Fbw1b, Fbw11, Hos, KIAA0696</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1 GENECARDS:FBXW11 REACTOME:55058 KEGG:23291 WIKI:FBXW11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="20802.06" y="19581.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa433_wca1_wca1_sa433"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-conjugating enzyme E2A</p> <p>HUGO:UBE2A HGNC:12472 ENTREZ:7319 UNIPROT:P49459 GENECARDS:UBE2A REACTOME:66747 KEGG:7319 ATLASONC:GC_UBE2A WIKI:UBE2A </p> <p>ubiquitin-conjugating enzyme E2B</p> <p>HUGO:UBE2B HGNC:12473 ENTREZ:7320 UNIPROT:P63146 GENECARDS:UBE2B REACTOME:66729 KEGG:7320 ATLASONC:GC_UBE2B WIKI:UBE2B </p> <p>ubiquitin-conjugating enzyme E2C</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:TLS, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="RAD6*"/> <bbox w="80.0" h="40.0" x="20719.56" y="19624.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa429_wca1_wca1_sa429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="20719.56" y="19538.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa436_wca1_wca1_sa436"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neural precursor cell expressed developmentally down-regulated 8</p> <p>HUGO:NEDD8 HGNC:7732 ENTREZ:4738 UNIPROT:Q15843 GENECARDS:NEDD8 KEGG:4738 ATLASONC:GC_NEDD8 WIKI:NEDD8</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:NER, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15688063</p> </body> </html> </notes> <label text="NEDD8"/> <bbox w="80.0" h="40.0" x="20802.06" y="19667.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa431_wca1_wca1_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="20719.56" y="19581.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa685_wca1_wca1_sa685"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6) associated factor 1</p> <p>HUGO:FAF1 HGNC:3578 ENTREZ:11124 UNIPROT:Q9UNN5 GENECARDS:FAF1 KEGG:11124 ATLASONC:GC_FAF1 WIKI:FAF1 </p> <p>Fas associated factor family member 2</p> <p>HUGO:FAF2 HGNC:24666 ENTREZ:23197 UNIPROT:Q96CS3 GENECARDS:FAF2 KEGG:23197 WIKI:FAF2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FAF*"/> <bbox w="80.0" h="40.0" x="20720.06" y="19668.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa434_wca1_wca1_sa434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-like modifier activating enzyme 1</p> <p>HUGO:UBA1 HGNC:12469 ENTREZ:7317 UNIPROT:P22314 GENECARDS:UBA1 REACTOME:66719 KEGG:7317 ATLASONC:GC_UBA1 WIKI:UBA1 </p> <p>ubiquitin-like modifier activating enzyme 2</p> <p>HUGO:UBA2 HGNC:30661 ENTREZ:10054 UNIPROT:Q9UBT2 GENECARDS:UBA2 KEGG:10054 ATLASONC:GC_UBA2 WIKI:UBA2 </p> <p>ubiquitin-like modifier activating enzyme 5</p> <p>HUGO:UBA5 HGNC:23230 ENTREZ:79876 UNIPROT:Q9GZZ9 GENECARDS:UBA5 REACTOME:253490 KEGG:79876 ATLASONC:GC_UBA5 WIKI:UBA5 </p> <p>ubiquitin-like modifier activating enzyme 6</p> <p>HUGO:UBA6 HGNC:25581 ENTREZ:55236 UNIPROT:A0AVT1 GENECARDS:UBA6 REACTOME:253493 KEGG:55236 WIKI:UBA6 </p> <p>ubiquitin-like modifier activating enzyme 7</p> <p>HUGO:UBA7 HGNC:12471 ENTREZ:7318 UNIPROT:P41226 GENECARDS:UBA7 REACTOME:66721 KEGG:7318 ATLASONC:GC_UBA7 WIKI:UBA7 </p> <p>ubiquitin-like modifier activating enzyme 3</p> <p>HUGO:UBA3 HGNC:12470 ENTREZ:9039 UNIPROT:Q8TBC4 GENECARDS:UBA3 REACTOME:155454 KEGG:9039 ATLASONC:GC_UBA3 WIKI:UBA3 </p> <p>ENREZ:79876</p> <p>POC20 "POC20 centriolar protein homolog (Chlamydomonas)" "UBA1 ubiquitin-activating enzyme E1 homolog (yeast)" UBE1X</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> <p>PMID:19352404</p> </body> </html> </notes> <label text="E1*"/> <bbox w="80.0" h="40.0" x="20802.06" y="19624.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4908_rc_sa4908" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15422 KEGGCOMPOUND:C00002 CAS:56-65-5</p> </body> </html> </notes> <label text="ATP"/> <bbox w="70.0" h="25.0" x="29257.967" y="13696.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa253_emtc_em_sa253" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p> PMID:26366398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa22_an_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26366398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s266"/> <bbox w="150.0" h="130.0" x="7647.0" y="6930.0"/> <glyph class="macromolecule" id="s_id_an_sa236_an_sa236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: DFNB97, "hepatocyte growth factor receptor", HGFR, RCCP2</p> <p>HGNC:7029</p> <p>PMID:17145802</p> </body> </html> </notes> <label text="MET"/> <bbox w="80.0" h="50.0" x="7657.0" y="6985.0"/> <glyph class="unit of information" id="_ec2e67ea-90cf-43de-8e5d-5a3a2aee5b53"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7674.5" y="6980.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa237_an_sa237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4893</p> <p>PMID:17145802</p> </body> </html> </notes> <label text="HGF"/> <bbox w="80.0" h="40.0" x="7707.0" y="6950.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2340_emtc_em_sa2340" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1D-myo-Inositol 1,4,5-trisphosphate;</p> <p>CAS:N/A PUBCHEM:4466, CHEBI:16595, KEGGCOMPOUND:C01245</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="I(1,4,5)P3"/> <bbox w="70.0" h="25.0" x="5183.0" y="13589.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5001_rc_sa5001" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5001_rc_sa5001"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNAJB11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNAJB11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNAJB11"/> <bbox w="70.0" h="25.0" x="28376.326" y="16111.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa28_akt1_akt1_csa28" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> <p>References:</p> <p>s_akt1_re54(MAP:survival):</p> <p>PMID:10702316</p> <p>PMID:19244117</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa28_akt1_akt1_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10702316"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19244117"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="175.0" h="249.0" x="13707.88" y="19063.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa521_akt1_akt1_sa521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="13795.561" y="19132.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa165_akt1_akt1_sa165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="156.0" h="55.0" x="13716.88" y="19070.0"/> <glyph class="state variable" id="_e7d2904b-461e-4fdf-8746-b82dbde2ae31"> <state value="" variable="S183"/> <bbox w="30.0" h="10.0" x="13702.84" y="19065.0"/> </glyph> <glyph class="state variable" id="_d9c44191-58e3-40ff-9236-874db6031002"> <state value="" variable="S212"/> <bbox w="30.0" h="10.0" x="13857.88" y="19066.361"/> </glyph> <glyph class="state variable" id="_99e77f90-d6ef-4108-9258-3fca7897a3d7"> <state value="" variable="S221"/> <bbox w="30.0" h="10.0" x="13857.88" y="19118.807"/> </glyph> <glyph class="state variable" id="_3032d269-ef81-46ab-8e52-299bef3694dc"> <state value="" variable="T246"/> <bbox w="30.0" h="10.0" x="13701.88" y="19114.664"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa166_akt1_akt1_sa166"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="13712.38" y="19132.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa167_akt1_akt1_sa167"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="164.0" h="44.0" x="13711.38" y="19180.5"/> <glyph class="state variable" id="_3dfd7c16-5254-444f-ac57-9166cfb0def1"> <state value="" variable="S696"/> <bbox w="30.0" h="10.0" x="13696.38" y="19197.465"/> </glyph> <glyph class="state variable" id="_187c5250-e6c5-49af-b58d-d924ac31722e"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="13813.126" y="19175.5"/> </glyph> <glyph class="state variable" 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GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="161.0" h="63.0" x="13710.38" y="19233.0"/> <glyph class="state variable" id="_80407bd0-9f83-44e4-8e56-ee98e991e0b6"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="13697.494" y="19228.0"/> </glyph> <glyph class="state variable" id="_c8fc422a-a1d6-43a0-938a-0d73fb375969"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="13847.001" y="19228.0"/> </glyph> <glyph class="state variable" id="_9aa82e1c-8fa9-4498-8300-c81097a44d75"> <state value="" variable="S2481"/> <bbox w="35.0" h="10.0" x="13692.88" y="19289.342"/> </glyph> <glyph class="state variable" id="_60f59164-8cdd-4a58-9977-17a2311085bc"> <state value="" variable="Y631"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa510_emtc_em_sa510"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinE1*"/> <bbox w="60.0" h="20.0" x="3581.5" y="14106.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2399_in_sa2399" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 12055627, 14614857</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2399_in_sa2399"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12055627"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14614857"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text=" HLX"/> <bbox w="80.0" h="40.0" x="19745.0" y="4935.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa27_ca_csa27" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NFKB1_p50*:RELA</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control mice </p> <p>PMID:23831470 </p> <p>we performed immunostaining for the NF-κB subunit p65 (RelA). When active, the NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes [31]. Indeed, we found that in addition to its accumulation in the tumor cells, NF-κB was upregulated in CAFs in the stroma of breast and ovarian tumorsReferences_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa27_ca_csa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23831470"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELA:p50"/> <bbox w="140.0" h="175.0" x="2300.0" y="3252.0"/> <glyph class="macromolecule" id="s_id_ca_sa332_ca_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RELA proto-oncogene, NF-kB subunit</p> <p>HUGO:RELA hgnc_id:HGNC:9955 HGNC:9955 ENTREZ:5970 UNIPROT:Q04206</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>CASCADE:IL1, CASCADE:TNF</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control mice </p> </body> </html> </notes> <label text="RELA"/> <bbox w="121.0" h="59.0" x="2310.0" y="3268.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa331_ca_sa331"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>MODULE:CAF, MODULE:CORE, MODULE:CAF, MODULE:MACROPHAGE</p> <p>Map modules:</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control miceReferences_end</p> <p>PMID:19171876, PMID:17145890</p> <p>NFkB p50/p50 homodimers (which lack the transactivation </p> <p>domain) compete with canonical p65/p50 heterodimers for </p> <p>the binding sites on the inflammatory</p> <p>gene promoters, thereby blocking p65/p50 promoter </p> <p>binding and gene transcription.</p> <p>p50 NF-kappaB overexpression accounts for the</p> <p>inability of tumor assasiated macrophages to mount </p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="119.0" h="67.0" x="2310.75" y="3333.25"/> <glyph class="unit of information" id="_c6809657-1dea-4c84-9873-5ba0038797c8"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="2345.25" y="3328.25"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa154_in_csa154" compartmentRef="s_id_in_ca13_in_ca13"> <label text="IL4/Receptor-TYPE_2:IL4:JAK1:TYK2:JAK2"/> <bbox w="211.0" h="164.0" x="9224.5" y="4773.375"/> <glyph class="macromolecule" id="s_id_in_sa1036_in_sa1036"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4"/> <bbox w="80.0" h="40.0" x="9244.5" y="4786.625"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1035_in_sa1035"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="9335.5" y="4873.375"/> <glyph class="state variable" id="_eab26edf-1346-47da-bbd6-1a4db8557f99"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9330.5" y="4888.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1038_in_sa1038"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="9244.5" y="4831.625"/> <glyph class="state variable" id="_a7536778-154a-4815-b762-cbf8537db140"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9319.5" y="4866.014"/> </glyph> <glyph class="unit of information" id="_0f5188cf-0d89-48d8-9140-42a15fb1c960"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9262.0" y="4826.625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2343_in_sa2343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="9335.5" y="4783.375"/> <glyph class="state variable" id="_a575bf8c-5855-4cb2-a3bf-08498a404a57"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9328.0" y="4798.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1037_in_sa1037"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13RA1"/> <bbox w="80.0" h="50.0" x="9244.5" y="4871.625"/> <glyph class="state variable" id="_f5de2eea-a289-41e7-a0e9-b27908014989"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9319.5" y="4905.382"/> </glyph> <glyph class="unit of information" id="_15dfddac-4cce-490f-900b-84ee78c2e7ca"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9262.0" y="4866.625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1033_in_sa1033"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TYK2"/> <bbox w="80.0" h="40.0" x="9335.5" y="4833.375"/> <glyph class="state variable" id="_38dddffa-d401-4844-8d1e-2a361e4100af"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9330.5" y="4848.375"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa129_ad_csa129" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5372"/> <bbox w="100.0" h="120.0" x="27696.0" y="3640.0"/> <glyph class="simple chemical" id="s_id_ad_sa1064_ad_sa1064"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11062502, PMID:11385609, PMID:11907067, PMID:15536084</p> <p>Nkp46 controls NK cytolitic activity via PI3K /RAC1/PAK1/MEK /ERK pathway, probably throught SYK </p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway (PMID:11777960</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="27711.0" y="3657.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1062_ad_sa1062"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TXK</p> <p>MODULE:TH1, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. Step 2: once at the</p> <p>membrane, Tec kinases are phosphorylated</p> <p>on a tyrosine in their activation loop by SFKs.</p> <p>Subsequently, the SH3 domain is</p> <p>autophosphorylated.</p> <p> In T cells, mutation of Itk or combined mutation of Itk and Rlk/TXK leads to parallel</p> <p>defects in response to anti-CD3 stimulation, with impaired</p> <p>proliferation and cytokine production .</p> <p>PMID:10523612</p> <p>Txk expression is intimately associated with development of Th1/Th0 cells and is significantly involved in the IFN-gamma production by the cells through Th1 cell-specific positive transcriptional regulation of the IFN-gamma gene.</p> <p>we cotransfected pIFN-γ(-538)-luciferase and pME18S-Txk into Jurkat cells. We found that Txk transfection induced several-fold more luciferase activity in the cells than the mock (pIFN-γ[-538]-luciferase and pME18S)-transfected cells (Fig. 2 e). As control cytokine-promoter plasmids, we used pIL-2(-568)-luciferase and pIL-4(-265)-CAT. We found that Txk transfection did not affect activities of pIL-2 promoter-luciferase– and pIL-4 promoter-CAT–transfected Jurkat cells, regardless of the presence or absence of mitogenic stimulation. The results revealed that Txk acts specifically on IFN-γ promoter/enhancer (-538) and upregulates IFN-γ gene transcription.</p> </body> </html> </notes> <label text="TXK"/> <bbox w="80.0" h="40.0" x="27706.0" y="3690.0"/> <glyph class="state variable" id="_2d65af8e-9ba7-4e75-ac20-af4bec09339f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27701.0" y="3705.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa96_mo_sa96" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa107_ca_sa107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CNN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CNN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CNN1"/> <bbox w="70.0" h="25.0" x="2535.0" y="4313.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa5_ce_csa5" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MSH2:MSH6:MUTH*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa5_ce_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17129768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSH2/MSH6/MUTH*"/> <bbox w="169.0" h="112.0" x="9324.473" y="15864.356"/> <glyph class="macromolecule" id="s_id_ce_sa391_ce_sa391"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 6 (E. coli)</p> <p>HUGO:MSH6, HGNC:7329, ENTREZ:2956, UNIPROT:P52701</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MSH6"/> <bbox w="80.0" h="40.0" x="9330.276" y="15870.609"/> <glyph class="state variable" id="_528e27de-fee1-4b83-bf70-61a02da6e843"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9325.276" y="15885.609"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa67_ce_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) </p> <p>HUGO:MSH2, HGNC:7325, ENTREZ:4436, UNIPROT:P43246</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR , MODULE:BER, MODULE:SSA</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:19847258, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH2"/> <bbox w="80.0" h="40.0" x="9330.4375" y="15914.004"/> <glyph class="state variable" id="_0db04f46-6920-4751-8f8b-572a79a1c609"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9325.4375" y="15929.004"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa389_ce_sa389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutY homolog (E. coli) </p> <p>HUGO:MUTYH, HGNC:7527, ENTREZ:4595, UNIPROT:Q9UIF7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768, PMID:15703371, PMID:19847258, PMID:16697054, PMID:23507534</p> </body> </html> </notes> <label text="MUTH*"/> <bbox w="80.0" h="40.0" x="9406.276" y="15904.02"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_mo_sa81_mo_sa81" compartmentRef="s_id_rc_ca43_mo_ca3"> <label text="mo_sa80_degraded"/> <bbox w="30.0" h="30.0" x="3159.4773" y="9054.818"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa578_ca_sa578" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa578_ca_sa578"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFBR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFBR2"/> <bbox w="80.0" h="50.0" x="3769.0" y="1385.0"/> <glyph class="state variable" id="_13358e9a-ca8f-481b-a9bf-4c29a4499332"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="3759.0" y="1405.0"/> </glyph> <glyph class="unit of information" id="_78b3ce9c-2e8f-4a0d-b496-ea8e325bab1b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3786.5" y="1380.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa138_rc_csa138" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinB1*</p> </body> </html> </notes> <label text="CCNB1:CDC2"/> <bbox w="100.0" h="120.0" x="24515.727" y="12600.724"/> <glyph class="macromolecule" id="s_id_rc_sa1764_rc_sa1764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1 HGNC:1722 ENTREZ:983 UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:CDC2</p> </body> </html> </notes> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="24528.227" y="12657.582"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1432_rc_sa1432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin B1</p> <p>HUGO:CCNB1 HGNC:1579 ENTREZ:891 UNIPROT:P14635</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="CyclinB1*"/> <bbox w="80.0" h="40.0" x="24526.727" y="12613.724"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5236_rc_sa5236" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29988 KEGGCOMPOUND:C00025 CAS:56-86-0</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5236_rc_sa5236"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-glutamate"/> <clone/> <bbox w="70.0" h="25.0" x="26284.06" y="9271.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5236_rc_sa2048" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29988 KEGGCOMPOUND:C00025 CAS:56-86-0</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5236_rc_sa2048"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-glutamate"/> <clone/> <bbox w="93.0" h="25.0" x="18812.81" y="12296.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5236_rc_sa5357" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29988 KEGGCOMPOUND:C00025 CAS:56-86-0</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5236_rc_sa5357"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-glutamate"/> <clone/> <bbox w="70.0" h="25.0" x="25926.56" y="10085.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5236_rc_sa2609" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29988 KEGGCOMPOUND:C00025 CAS:56-86-0</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5236_rc_sa2609"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-glutamate"/> <clone/> <bbox w="70.0" h="25.0" x="26300.06" y="9687.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2393_emtc_em_sa2393" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2393_emtc_em_sa2393"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT5*"/> <bbox w="50.0" h="18.0" x="5745.5" y="13818.0"/> <glyph class="state variable" id="_ecfb5264-5ce4-461f-b27e-295c6b5c7a40"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5788.0" y="13822.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2533_rc_sa2533" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:28494 KEGGCOMPOUND:C05980</p> </body> </html> </notes> <label text="cardiolipin"/> <bbox w="70.0" h="25.0" x="20977.81" y="13472.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa1_ce_csa1" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LIG3:PARP1:XRCC1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20056333</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa1_ce_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15703371"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16697054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14726013"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20056333"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIG3/PARP*/XRCC1"/> <bbox w="112.0" h="167.0" x="9380.473" y="16860.355"/> <glyph class="macromolecule" id="s_id_ce_sa365_ce_sa365"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XRCC1 , X-ray repair complementing defective repair in Chinese hamster cells 1</p> <p>HUGO:XRCC1, HGNC:12828, ENTREZ:7515, UNIPROT:P18887</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:8978692, PMID:8264637, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20227374</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XRCC1"/> <bbox w="80.0" h="40.0" x="9394.017" y="16966.303"/> <glyph class="state variable" id="_17117892-8508-4142-90c4-b61853d105b5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9443.085" y="16961.303"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1632_ce_sa1632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="79.0" h="40.0" x="9397.372" y="16871.156"/> <glyph class="state variable" id="_887fcd83-19e1-4b1a-a52e-0cedaece1e1d"> <state value="?" variable="PolyADPribose"/> <bbox w="79.0" h="10.0" x="9393.041" y="16866.156"/> </glyph> <glyph class="state variable" id="_72df379c-0d70-4bb5-9cd3-e4f63e536c59"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="9377.372" y="16890.387"/> </glyph> <glyph class="state variable" id="_dbaca8bc-185e-4975-a0c5-bb3b9d6ab8ea"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="9386.064" y="16906.156"/> </glyph> <glyph class="state variable" id="_69b8c4c6-ae94-4ef8-a7ae-7822086d38e2"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="9377.372" y="16900.088"/> </glyph> <glyph class="state variable" id="_4170487b-9e51-4e07-897d-ffb1d5d237b6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9468.872" y="16886.156"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa364_ce_sa364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ligase III DNA, ATP-dependent</p> <p>HUGO:LIG3, HGNC:6600, ENTREZ:3980, UNIPROT:P49916</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>For BER:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20056333</p> <p>For NER:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> <p>Activation of WRN in cancers</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="LIG3"/> <bbox w="80.0" h="40.0" x="9392.973" y="16921.855"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa35_wca1_wca3_csa35" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re89:(MAP:survival) PMID:10984057 PMID:11263497</p> <p>s_wca3_re87:(MAP:survival) PMID:10980707 PMID:12606575</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa35_wca1_wca3_csa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10984057"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11263497"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10980707"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12606575"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:β-Catenin*"/> <bbox w="100.0" h="120.0" x="20913.06" y="21637.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa245_wca1_wca3_sa245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20923.81" y="21690.0"/> <glyph class="state variable" id="_9c38007d-cbf2-49df-bc55-16372fe781aa"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20911.803" y="21685.0"/> </glyph> <glyph class="state variable" id="_cfe7292d-2c65-4d9a-baf6-ea7815aff77b"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20906.31" y="21724.72"/> </glyph> <glyph class="state variable" id="_598f8b6d-8f32-453a-9644-a89a62485265"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20985.691" y="21725.0"/> </glyph> <glyph class="state variable" id="_12ccc4f3-6c4a-4007-826d-88995c8d8c71"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20906.803" y="21685.0"/> </glyph> <glyph class="state variable" id="_956ffbb6-694f-47cb-bc68-7e2620d63117"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20986.31" y="21685.213"/> </glyph> <glyph class="state variable" id="_2b01f0e1-15f8-487b-827a-6bad7ba099fa"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20946.215" y="21725.0"/> </glyph> <glyph class="state variable" id="_031f6085-7026-4d03-be41-870b779024f7"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20986.31" y="21724.133"/> </glyph> <glyph class="state variable" id="_d7023e4a-a370-4864-a742-cb69fd609423"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20946.342" y="21685.0"/> </glyph> <glyph class="state variable" id="_45a931d3-f257-4d91-a3ac-4976647930a7"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20906.31" y="21724.72"/> </glyph> <glyph class="state variable" id="_250282c1-96c3-44cf-a609-d9fa91dd740a"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20906.803" y="21685.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa244_wca1_wca3_sa244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / 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GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20923.81" y="21646.0"/> <glyph class="state variable" id="_0ae42cd6-d6e6-47eb-9be9-03b319f9e29f"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20988.81" y="21641.213"/> </glyph> <glyph class="state variable" id="_9a89cf2e-0c58-4bb7-be55-389306385b51"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20938.027" y="21641.0"/> </glyph> <glyph class="state variable" id="_b2a59c5a-06ef-4c45-8c5e-e21a00e78708"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20909.303" y="21641.0"/> </glyph> <glyph class="state variable" 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As in all other PLC families, </p> <p>the main signaling output is generation of the second messengers inositol 1,4,5-</p> <p>trisphosphate (IP3, or InsP3) and diacylglycerol (DAG), from phosphatidylinositol 4,5-</p> <p>bisphosphate (PIP2, or PtdIns(4,5)P2). The released IP3 binds to IP3 receptors on the </p> <p>endoplasmic reticulum resulting in Ca2+ release into the cytoplasm. D</p> <p>PMID:10811803; PMID:9846483</p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>LAT Is Required for TCR-Mediated Activation of PLCγ1 and the Ras Pathways.</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>Tec family kinases directly activate PLCγ1 and regulate Ca2+ responses in immune cells</p> <p>AP-1 activation by Tec is largely dependent on PLCγ1 function. Moreover, ionomycin did not enhance Tec-induced AP-1 activation (Fig. 4C), also suggesting that Tec contributes to AP-1 activation upstream of Ca2+ release.</p> <p>PMID:14764585; PMID:11994416 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of Phospholipase C-γ1 via Phosphoinositide 3-Kinase-dependent and -independent Pathways</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1023_ad_sa1023"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLCG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1712101"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25456276"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10811803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9846483"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15214048"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11994416"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26552706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLCG1"/> <bbox w="80.0" h="40.0" x="28726.0" y="3670.0"/> <glyph class="state variable" id="_7ee9d2c7-509d-459d-bdcd-6ada7d08632b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28721.0" y="3685.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2783_rc_sa2783" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:30089</p> </body> </html> </notes> <label text="acetate"/> <bbox w="70.0" h="25.0" x="18784.06" y="11806.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1364_in_sa1364" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="INHBA"/> <bbox w="90.0" h="25.0" x="11845.0" y="5606.25"/> <glyph class="unit of information" id="_597562a3-6191-4053-9ccc-f21c590c08e7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11880.0" y="5601.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa376_in_sa376" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="ULBP2"/> <bbox w="70.0" h="25.0" x="20725.0" y="327.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa15_wnc1_wnc3_csa15" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CNA*:CNB*:ERK2*:MEK1*:NFAT*</p> <p>References:</p> <p>s_wnc3_re30(MAP:survival):</p> <p>CnA binds to MEK1, MEK1 binds to ERK2 and ERK2 phosphorylates NFAT</p> <p>PMID15657416</p> <p>s_wnc3_re31(MAP:survival):</p> <p>Phosphorylation of NFAT leads to increased DNA binding of NFAT -> increased gene transcription</p> <p>Not sure if dissociation of calcineurin and ERK/MEK occurs</p> </body> </html> </notes> <label text="(Calcineurin/NFAT/ERK2/MEK1)"/> <bbox w="184.0" h="159.0" x="16137.061" y="21171.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa102_wnc1_wnc3_sa102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 GENECARDS:MAP2K1 REACTOME:59503 KEGG:5604 ATLASONC:GC_MAP2K1 WIKI:MAP2K1</p> <p>Map modules:</p> </body> </html> </notes> <label text="MEK1*"/> <bbox w="80.0" h="40.0" x="16229.061" y="21221.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa98_wnc1_wnc3_sa98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, alpha isozyme</p> <p>CALN, CALNA, "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform (calcineurin A alpha)"</p> <p>HUGO:PPP3CA HGNC:9314 ENTREZ:5530 UNIPROT:Q08209 GENECARDS:PPP3CA REACTOME:61110 KEGG:5530 ATLASONC:GC_PPP3CA WIKI:PPP3CA </p> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB </p> <p>protein phosphatase 3, catalytic subunit, gamma isozyme</p> <p>"protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform (calcineurin A gamma)"</p> <p>HUGO:PPP3CC HGNC:9316 ENTREZ:5533 UNIPROT:P48454 GENECARDS:PPP3CC REACTOME:61114 KEGG:5533 ATLASONC:GC_PPP3CC WIKI:PPP3CC</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="16146.061" y="21178.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa100_wnc1_wnc3_sa100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="16146.061" y="21263.5"/> <glyph class="state variable" id="_3f5103ba-2a49-4c20-8bff-0543e4090e0f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16221.061" y="21270.215"/> </glyph> <glyph class="state variable" id="_2d0c87a3-cd17-4342-bc47-30b2e093f6df"> <state 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1, PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482 GENECARDS:MAPK1 REACTOME:59283 KEGG:5594 ATLASONC:MAPK1ID41288ch22q11 WIKI:MAPK1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> </body> </html> </notes> <label text="ERK2*"/> <bbox w="80.0" h="40.0" x="16229.061" y="21178.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa99_wnc1_wnc3_sa99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="16146.061" y="21221.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa130_wnc1_wnc1_sa130" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa130_wnc1_wnc1_sa130"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HBEGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Pro HB-EGF*"/> <bbox w="80.0" h="40.0" x="14725.061" y="18789.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa14_rc_csa14" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:SUCLG1:SUCLG2</p> </body> </html> </notes> <label text="succinyl coA synthetase"/> <bbox w="100.0" h="120.0" x="18031.81" y="14582.0"/> <glyph class="macromolecule" id="s_id_rc_sa191_rc_sa191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>succinate-CoA ligase, alpha subunit</p> <p>HUGO:SUCLG1 HGNC:11449 ENTREZ:8802 UNIPROT:P53597</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="SUCLG1"/> <bbox w="80.0" h="40.0" x="18041.81" y="14594.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa192_rc_sa192"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>succinate-CoA ligase, GDP-forming, beta subunit</p> <p>HUGO:SUCLG2 HGNC:11450 ENTREZ:8801 UNIPROT:Q96I99</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="SUCLG2"/> <bbox w="80.0" h="40.0" x="18041.81" y="14638.0"/> </glyph> </glyph> <glyph 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: SHC, p66, ShcA</p> <p>HGNC:10840</p> <p>PMID:19449109</p> </body> </html> </notes> <label text="SHC1"/> <bbox w="80.0" h="40.0" x="6812.0" y="6170.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa409_an_sa409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SOS*"/> <bbox w="80.0" h="40.0" x="6812.0" y="6270.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa406_an_sa406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4566</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="6812.0" y="6220.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa443_wca1_wca3_sa443" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="G2_M phase"/> <bbox w="80.0" h="30.0" x="22818.06" y="22370.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa371_mpk1_mpk1_sa371" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa699_mpk1_mpk1_sa699"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <bbox w="50.0" h="25.0" x="8078.06" y="20085.5"/> <glyph class="state variable" id="_dbec9fa3-c480-4fd9-b91b-1c8caac92c5a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8073.06" y="20093.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1299_emtc_em_sa1299" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1299_emtc_em_sa1299"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA3"/> <bbox w="39.0" h="16.0" x="1031.5" y="17591.0"/> <glyph class="state variable" id="_d00bbaf2-b497-4528-b339-af47b9a5ca5a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1065.5" y="17586.84"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa28_ca_sa28" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="CYTOKINE_CHEMOKINE_PRODUCTION"/> <bbox w="244.0" h="61.0" x="648.0" y="4239.5"/> </glyph> <glyph class="complex" id="s_id_ad_csa130_ad_csa130" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5373"/> <bbox w="100.0" h="120.0" x="27696.0" y="3860.0"/> <glyph class="macromolecule" id="s_id_ad_sa1063_ad_sa1063"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TXK</p> <p>MODULE:TH1, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. Step 2: once at the</p> <p>membrane, Tec kinases are phosphorylated</p> <p>on a tyrosine in their activation loop by SFKs.</p> <p>Subsequently, the SH3 domain is</p> <p>autophosphorylated.</p> <p> In T cells, mutation of Itk or combined mutation of Itk and Rlk/TXK leads to parallel</p> <p>defects in response to anti-CD3 stimulation, with impaired</p> <p>proliferation and cytokine production .</p> <p>PMID:10523612</p> <p>Txk expression is intimately associated with development of Th1/Th0 cells and is significantly involved in the IFN-gamma production by the cells through Th1 cell-specific positive transcriptional regulation of the IFN-gamma gene.</p> <p>we cotransfected pIFN-γ(-538)-luciferase and pME18S-Txk into Jurkat cells. We found that Txk transfection induced several-fold more luciferase activity in the cells than the mock (pIFN-γ[-538]-luciferase and pME18S)-transfected cells (Fig. 2 e). As control cytokine-promoter plasmids, we used pIL-2(-568)-luciferase and pIL-4(-265)-CAT. We found that Txk transfection did not affect activities of pIL-2 promoter-luciferase– and pIL-4 promoter-CAT–transfected Jurkat cells, regardless of the presence or absence of mitogenic stimulation. The results revealed that Txk acts specifically on IFN-γ promoter/enhancer (-538) and upregulates IFN-γ gene transcription.</p> </body> </html> </notes> <label text="TXK"/> <bbox w="80.0" h="40.0" x="27706.0" y="3910.0"/> <glyph class="state variable" id="_d3933355-709b-48f2-ae95-0463be7c4cc9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27698.5" y="3925.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ad_sa1065_ad_sa1065"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11062502, PMID:11385609, PMID:11907067, PMID:15536084</p> <p>Nkp46 controls NK cytolitic activity via PI3K /RAC1/PAK1/MEK /ERK pathway, probably throught SYK </p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway (PMID:11777960</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="27711.0" y="3867.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa222_ce_sa222" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa222_ce_sa222"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="14901.165" y="15727.159"/> <glyph class="state variable" id="_c178934f-ef35-40d3-a590-ddf881b4ab74"> <state value="Ub" variable="K561"/> <bbox w="40.0" h="10.0" x="14921.069" y="15762.159"/> </glyph> <glyph class="state variable" id="_19bddf83-d7df-4049-9bd8-caed27429048"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="14926.997" y="15722.159"/> </glyph> <glyph class="state variable" id="_aef4bebd-0bec-4084-8090-4c24ed935c6e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14893.665" y="15733.875"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa16_mpk1_mpk1_csa16" compartmentRef="s_id_mpk1_mpk1_ca3_mpk1_mpk1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:LAMTOR2:MEK*:MP1*:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:LAMTOR2:MEK*:MP1*:RAS*:RTK*:SOS*"/> <bbox w="276.0" h="152.0" x="8349.061" y="19765.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa605_mpk1_mpk1_sa605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="8480.186" y="19824.0"/> <glyph class="state variable" id="_55d41a5a-d763-44e3-a5eb-20a59de5854d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8472.686" y="19831.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa579_mpk1_mpk1_sa579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="8522.878" y="19777.455"/> <glyph class="unit of information" id="_4294d9b0-032a-44c9-9631-de032cadeb7c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8525.378" y="19772.455"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa266_mpk1_mpk1_sa266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="8397.561" y="19847.166"/> <glyph class="state variable" id="_2f27a20b-fc30-4c80-a096-7f344796700e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8392.561" y="19858.832"/> </glyph> <glyph class="state variable" id="_489ba1ed-0d49-4f82-a325-3cf539b7cb20"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8392.561" y="19850.293"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa83_mpk1_mpk1_sa83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8522.561" y="19799.75"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa87_mpk1_mpk1_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 3</p> <p>MAP2K1IP1 "MODULE:MAPK scaffold protein 1" MAPKSP1 "mitogen-activated protein kinase kinase 1 interacting protein 1"</p> <p>HUGO:LAMTOR3 HGNC:15606 ENTREZ:8649 UNIPROT:Q9UHA4</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MP1 is localised in late endosomes by P14 forming a very stable heterodimeric complex that is required for ERK activation.</p> <p>It is required for efficient and sustained EGF-induced MEK and ERK activation (in late endosomes)</p> </body> </html> </notes> <label text="MP1*"/> <bbox w="50.0" h="25.0" x="8438.061" y="19804.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa86_mpk1_mpk1_sa86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 2</p> <p>"roadblock domain containing 3" ROBLD3</p> <p>HUGO:LAMTOR2 HGNC:29796 ENTREZ:28956 UNIPROT:Q9Y2Q5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>P14 is an adaptor protein responsible for the recruitment of MP1 to late endosomes.</p> <p>P14 is peripherally associated with the cytoplasmic face of late endosomes.</p> </body> </html> </notes> <label text="LAMTOR2"/> <bbox w="65.0" h="24.0" x="8480.811" y="19851.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa84_mpk1_mpk1_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="8523.561" y="19824.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa291_ce_sa291" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa291_ce_sa291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BTBD12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLX4*"/> <bbox w="80.0" h="40.0" x="12380.417" y="16301.309"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1162_emtc_em_sa1162" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1162_emtc_em_sa1162"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA1"/> <bbox w="39.0" h="16.0" x="1141.5" y="17424.5"/> <glyph class="state variable" id="_cc4aa720-8ed5-4386-99c4-d75212304d3c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1175.3213" y="17419.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa507_rc_csa507" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:NDUFA4:NDUFB2:NDUFS4:NDUFV3</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:16246152</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa507_rc_csa507"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16246152"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF2:GDP"/> <bbox w="100.0" h="200.0" x="27509.373" y="15429.0"/> <glyph class="macromolecule" id="s_id_rc_sa5163_rc_sa5163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>HUGO:EIF2S2 hgnc_id:HGNC:3266 HGNC:3266 ENTREZ:8894 UNIPROT:P20042</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="EIF2S2"/> <bbox w="80.0" h="40.0" x="27518.604" y="15487.125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5162_rc_sa5162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>HUGO:EIF2S1 hgnc_id:HGNC:3265 HGNC:3265 ENTREZ:1965 UNIPROT:P05198</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>PMID:12667446</p> <p>PMID:16246152</p> <p>PMID:12601012</p> </body> </html> </notes> <label text="EIF2S1"/> <bbox w="80.0" h="40.0" x="27519.373" y="15447.125"/> <glyph class="state variable" id="_1d9b049a-ee3a-4a6b-8cfb-a8d7290b851b"> <state value="" variable="Ser51"/> <bbox w="35.0" h="10.0" x="27558.822" y="15442.125"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5161_rc_sa5161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NDUFA4"/> <bbox w="70.0" h="25.0" x="27523.748" y="15576.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5164_rc_sa5164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit gamma</p> <p>HUGO:EIF2S3 hgnc_id:HGNC:3267 HGNC:3267 ENTREZ:1968 UNIPROT:P41091</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit gamma</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="EIF2S3"/> <bbox w="80.0" h="40.0" x="27519.373" y="15532.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1909_in_sa1909" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="FLT3"/> <bbox w="90.0" h="25.0" x="23340.0" y="5717.5"/> <glyph class="unit of information" id="_c55fa0f3-91cf-4846-9c4e-a5e2e9575740"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23375.0" y="5712.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa212_emtc_em_csa212" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJB1:ZO1_2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:11978007</p> <p>Cx32 Formation and / or Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:19284610</p> <p>Cx32, colocalizes with tight junction proteins ZO-1 and ZO-2 in rat hepatocytes, and small gap junction plaques were found within tight junction strands.</p> <p>It was suggested that Cx32 can participate in the formation of functional tight junctions and in actin organization.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa212_emtc_em_csa212"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11978007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19284610"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJB1/ZO1_2*"/> <bbox w="100.0" h="40.0" x="1511.0" y="18072.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1380_emtc_em_sa1380"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, beta 1, 32kDa</p> <p>HUGO:GJB1, HGNC:4283, ENTREZ:2705, UNIPROT:P08034, GENECARDS:GC0XP070435  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>PMID:11978007</p> <p>Cx32 Formation and / or Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:19284610</p> <p>Cx32, colocalizes with tight junction proteins ZO-1 and ZO-2 in rat hepatocytes, and small gap junction plaques were found within tight junction strands.</p> <p>It was suggested that Cx32 can participate in the formation of functional tight junctions and in actin organization.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJB1"/> <bbox w="35.0" h="16.0" x="1570.5" y="18074.078"/> <glyph class="state variable" id="_fc5f525a-19e6-43ab-8014-f449d725b1ce"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1600.5" y="18069.475"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1379_emtc_em_sa1379"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ZO1_2*</p> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>tight junction protein 2</p> <p>HUGO:TJP2, HGNC:11828, ENTREZ:9414, GENECARDS:GC09P071766, UNIPROT:Q9UDY2 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> 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y="15208.792"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4462_rc_sa4462" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23774579</p> <p>Autophagy is induced in cells after many stressful situations such as starvation, hypoxia and infection, among others. 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id="s_id_akt1_akt1_csa1_akt1_akt1_csa1" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GF:RTK*</p> <p>References:</p> <p>s_akt1_re1(MAP:survival):</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa1_akt1_akt1_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19568798"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GF:RTK*"/> <bbox w="105.0" h="175.0" x="12132.061" y="17607.0"/> <glyph class="simple chemical" id="s_id_akt1_akt1_sa4_akt1_akt1_sa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GF"/> <bbox w="70.0" h="25.0" x="12146.97" y="17624.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_akt1_akt1_sa380_akt1_akt1_sa380"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 GENECARDS:EGFR REACTOME:54208 KEGG:1956 ATLASONC:GC_EGFR WIKI:EGFR </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 GENECARDS:ERBB2 REACTOME:54422 KEGG:2064 ATLASONC:ERBB2ID162ch17q11 WIKI:ERBB2 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860 GENECARDS:ERBB3 REACTOME:403310 KEGG:2065 ATLASONC:ERBB3ID40479ch12q13 WIKI:ERBB3 </p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 GENECARDS:ERBB4 REACTOME:54426 KEGG:2066 ATLASONC:GC_ERBB4 WIKI:ERBB4 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 GENECARDS:FGFR1 REACTOME:402793 KEGG:2260 ATLASONC:FGFR1113 WIKI:FGFR1 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 GENECARDS:FGFR2 REACTOME:403305 KEGG:2263 ATLASONC:FGFR2ID40570ch10q26 WIKI:FGFR2 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 GENECARDS:FGFR3 REACTOME:403340 KEGG:2261 ATLASONC:FGFR99 WIKI:FGFR3 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 GENECARDS:FGFR4 REACTOME:54820 KEGG:2264 ATLASONC:FGFR4ID512ch5q35 WIKI:FGFR4 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 GENECARDS:FLT1 REACTOME:403120 KEGG:2321 ATLASONC:GC_FLT1 WIKI:FLT1 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 GENECARDS:FLT3 KEGG:2322 ATLASONC:FLT3ID144 WIKI:FLT3 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 GENECARDS:FLT4 REACTOME:67176 KEGG:2324 ATLASONC:GC_FLT4 WIKI:FLT4 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 GENECARDS:PDGFRA REACTOME:61602 KEGG:5156 ATLASONC:GC_PDGFRA WIKI:PDGFRA </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619 GENECARDS:PDGFRB REACTOME:61600 KEGG:5159 ATLASONC:PDGFRBID21ch5q32 WIKI:PDGFRB </p> <p>A generic name for this family of receptors that contain a tyrosine kinase activity.</p> <p>rhotekin</p> <p>HUGO:RTKN HGNC:10466 ENTREZ:6242 UNIPROT:Q9BST9 GENECARDS:RTKN ATLASONC:GC_RTKN WIKI:RTKN</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="90.0" h="139.0" x="12139.061" y="17630.0"/> <glyph class="unit of information" id="_63071817-75cc-4c33-98f0-a2c2966611ea"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="12174.061" y="17625.0"/> </glyph> <glyph class="state variable" id="_3b942899-379c-4185-9599-af17f02054b5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12221.561" y="17723.29"/> </glyph> <glyph class="state variable" id="_c3da4160-4bfe-403d-ad45-9dc93dece80c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12224.061" y="17723.29"/> </glyph> <glyph class="state variable" id="_3dd4bdc9-f5bc-47e8-9937-7736a9222b2b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12221.561" y="17694.5"/> </glyph> <glyph class="unit of information" id="_4b29698e-7f6d-476f-8986-4c16ee5f64be"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12161.561" y="17625.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3031_rc_sa3031" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3031_rc_sa3031"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB3"/> <clone/> <bbox w="80.0" h="40.0" x="23308.215" y="9287.736"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3031_ca_sa354" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3031_ca_sa354"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB3"/> <clone/> <bbox w="80.0" h="40.0" x="1670.0" y="2210.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa271_ce_csa271" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARP1:PARP3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:22055391</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PARP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions (PARP3 in telomere maintenance)</p> <p>PMID:22713970, PMID:21270334</p> <p>PARP3 in HR and C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa271_ce_csa271"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22055391"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21270334"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22713970"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21270334"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22469522"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:196269035"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP1/PARP3"/> <bbox w="100.0" h="120.0" x="9982.473" y="16870.355"/> <glyph class="macromolecule" id="s_id_ce_sa1569_ce_sa1569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 3</p> <p>HUGO:PARP3, HGNC:273, ENTREZ:10039, UNIPROT:Q9Y6F1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:22055391</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PARP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions (PARP3 in telomere maintenance)</p> <p>PMID:22713970, PMID:21270334</p> <p>PARP3 in HR and C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> <p>PARP3 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>APLF and PARP3 in C_NHEJ</p> <p>PMID:21211721‎</p> <p>PMID:23178593</p> <p>PMID:18077224‎</p> <p>PARP3 in C_NHEJ</p> <p>PMID:22743550</p> </body> </html> </notes> <label text="PARP3"/> <bbox w="80.0" h="40.0" x="9993.473" y="16929.023"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1576_ce_sa1576"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="79.0" h="40.0" x="9995.115" y="16882.928"/> <glyph class="state variable" id="_5de1dae7-2a14-4b46-b9d1-25f04458e3cf"> <state value="?" variable="PolyADPribose"/> <bbox w="79.0" h="10.0" x="9990.784" y="16877.928"/> </glyph> <glyph class="state variable" id="_854f3a21-a1c6-42a7-a21a-80a8572a8b49"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="9975.115" y="16902.158"/> </glyph> <glyph class="state variable" id="_a1af0bb5-5272-44e6-9bea-637e17f23c21"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="9983.808" y="16917.928"/> </glyph> <glyph class="state variable" id="_bcc75a1c-57e8-441a-a2c0-3f8bc0cf3bae"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="9975.115" y="16911.86"/> </glyph> <glyph class="state variable" id="_eef78bcc-24e7-4e71-9057-d80d8577ebf8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10066.615" y="16897.928"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa647_rc_sa647" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa647_rc_sa647"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BNIP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BNIP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BNIP3"/> <bbox w="90.0" h="25.0" x="23121.06" y="16020.5"/> <glyph class="unit of information" id="_137c984d-3b2d-404d-8435-cac71cf524a0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23156.06" y="16015.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3785_rc_sa3785" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18367</p> </body> </html> </notes> <label text="Orthophosphate"/> <bbox w="105.0" h="23.0" x="19006.56" y="10241.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1291_emtc_em_sa1291" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1291_emtc_em_sa1291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin1*"/> <bbox w="81.0" h="17.0" x="2708.0" y="15164.0"/> <glyph class="unit of information" id="_02f49c3d-9693-40ae-824f-b2377cdedfb9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2738.5" y="15159.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa5505_rc_sa5505" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5505_rc_sa5505"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Histophilus somni"/> <bbox w="120.0" h="25.0" x="28969.06" y="9034.0"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa71_mo_sa71" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="G1 Cell cycle arrest"/> <bbox w="80.0" h="30.0" x="3361.5" y="10246.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa45_akt1_akt2_csa45" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*:p27KIP1*</p> <p>References:</p> <p>s_akt2_re136:(MAP:survival) PMID:11124803 PMID:12459251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa45_akt1_akt2_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11124803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12459251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4_6*:CyclinD*:p27KIP1*"/> <bbox w="103.0" h="157.0" x="13713.061" y="20397.5"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa263_akt1_akt2_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="13722.061" y="20443.5"/> <glyph class="state variable" id="_6e4b0a90-29f4-4490-a8a0-4ac45d94b5bb"> <state value="P" variable="T286"/> <bbox w="35.0" h="10.0" x="13784.561" y="20438.713"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa262_akt1_akt2_sa262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4 HGNC:1773 ENTREZ:1019 UNIPROT:P11802 GENECARDS:CDK4 REACTOME:68329 KEGG:1019 ATLASONC:CDK4ID238ch12q14 WIKI:CDK4 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6 HGNC:1777 ENTREZ:1021 UNIPROT:Q00534 GENECARDS:CDK6 REACTOME:68335 KEGG:1021 ATLASONC:GC_CDK6 WIKI:CDK6</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="13722.061" y="20402.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa264_akt1_akt2_sa264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27 Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>IbpA*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5514_rc_sa5514"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IbpA*"/> <bbox w="70.0" h="25.0" x="28994.06" y="9206.5"/> </glyph> <glyph class="phenotype" id="s_id_gf1_sa150_gf1_sa150" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p> PMID:24703957</p> <p>PDGFs pathways</p> <p>PMID:25772309 </p> <p>FGFs pathways</p> <p>PMID:24675568 </p> <p>EGFR/JAK/STAT</p> 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rdf:resource="urn:miriam:hgnc.symbol:AREG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AREG"/> <bbox w="80.0" h="40.0" x="4960.0" y="560.0"/> </glyph> <glyph class="simple chemical" id="s_id_mpk1_mpk1_sa169_mpk1_mpk1_sa169" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Diacylglycerol</p> <p>CAS:N/A PUBCHEM:3914 CHEBI:17815 KEGGCOMPOUND:C00165</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="7773.06" y="19170.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa234_ce_sa234" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa122_emtc_em_sa122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP3"/> <bbox w="60.0" h="20.0" x="2744.5" y="17329.688"/> <glyph class="unit of information" id="_720b09c0-7c9a-48d0-bd1d-4c779ebbf81e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2764.5" y="17324.688"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa904_emtc_em_sa904" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa317_wnc1_wnc1_sa317"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VANGL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VANGL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="15669.561" y="18643.0"/> <glyph class="state variable" id="_b87e6b1f-9c8f-424f-9058-2ee41ade6c8f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15664.564" y="18638.0"/> </glyph> <glyph class="state variable" id="_90abfe23-8768-4379-a1d1-abf3ddc5fef5"> <state 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa540_akt1_akt1_sa540"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RICTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12314.311" y="18273.5"/> <glyph class="state variable" id="_c2443640-1f97-40c4-874d-eb0b5bed315a"> <state value="P" variable="T1135"/> <bbox w="40.0" h="10.0" x="12313.871" y="18308.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5425_rc_sa5425" compartmentRef="s_id_rc_ca50_rc_ca50"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5425_rc_sa5425"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~GSDMD"/> <bbox w="80.0" h="40.0" x="28114.06" y="9945.25"/> <glyph class="unit of information" id="_2b27f439-5030-406d-b26c-b55a97753026"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28129.06" y="9940.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa11_akt1_akt2_csa11" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*:p27KIP1*</p> <p>References:</p> <p>s_akt2_re37(MAP:survival):</p> <p>PMID:18636226</p> <p>PMID:15147722</p> <p>PMID:14536078</p> <p>s_akt2_re38(MAP:survival):</p> <p>PMID:12459251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa11_akt1_akt2_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12459251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK2:CyclinE*:p27KIP1*"/> <bbox w="182.0" h="116.0" x="12860.061" y="20688.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa84_akt1_akt2_sa84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2 HGNC:1771 ENTREZ:1017 UNIPROT:P24941 GENECARDS:CDK2 REACTOME:87018 KEGG:1017 ATLASONC:GC_CDK2 WIKI:CDK2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:dnarepair / MODULE:S_CC_PHASE, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="12868.561" y="20739.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa83_akt1_akt2_sa83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1 HGNC:1589 ENTREZ:898 UNIPROT:P24864 GENECARDS:CCNE1 REACTOME:87225 KEGG:898 ATLASONC:GC_CCNE1 WIKI:CCNE1 </p> <p>cyclin E2</p> <p>HUGO:CCNE2 HGNC:1590 ENTREZ:9134 UNIPROT:O96020 GENECARDS:CCNE2 REACTOME:87228 KEGG:9134 ATLASONC:GC_CCNE2 WIKI:CCNE2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 1431106, 23170255, 14607933, 18633355, 15699106, 21826665, 22955274, 15099563, 19732719, 12646658, 24092389, 21133840, 23510023 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:EXOCYTOSIS_AND_PHAGOCYTOSIS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSION</p> <p>CASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:KLRG1, CASCADE:FCAR, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:IL15, CASCADE:CSF2, CASCADE:CSF1, CASCADE:TNF, CASCADE:IFNG</p> <p>PMID:19732719</p> <p>Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)</p> <p>References:</p> <p>PMID:21133840</p> <p>TNF is a pleiotropic cytokine produced by many different types of cells in the body. However, cells of the monocytic lineage-such as macrophages, astroglia, microglia, Langerhans cells, Kupffer cells, and alveolar macrophages-are the primary synthesizers of TNF</p> <p>PMID:1431106</p> <p>TNF induced tumoricidal activity of macrophages.</p> <p>PMID:14607933, 14625680</p> <p>TNF and IFNG cooperate in the activation of macrophages.</p> <p>PMID:18633355</p> <p>TNF is pro-angiogenic facror.</p> <p>PMID:23510023, PMID:23170255</p> <p>TRAIL, FASL and TNF provides Dendritic cell tumor killing activity.()</p> <p>L10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expression</p> <p>PMID:22955274</p> <p>SHIP inhibit MAPKp38 activation and prevent MNK1 phosphorylation by inhibiting the p38 MAPK pathway downstream of IL10. MNK1 regulates TNFa mRNA polysome assembly and upregulates TNFa translation.IL-10 Inhibits TNF Translation through SHIP1-mediated Inhibition of Mnk1</p> <p>PMID:15699106, PMID:12646658</p> <p>Phosphorylated STAT1 binds to TNF promoter end induces TNF expression downstream of IFNG.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:24092389</p> <p>TANs from early tumors are more cytotoxic toward tumor cells and produce higher levels of TNF-a, NO, and H2O2 and, in established tumors, these functions are downregulated and TAN acquire a more protumorigenic phenotype</p> <p>PMID:21826665</p> <p>TANs produce TNF and IL1B, probably downstream of TLR4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2310_in_sa2310"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1431106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23170255"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14607933"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15699106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21826665"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22955274"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15099563"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19732719"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12646658"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24092389"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23510023"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <clone/> <bbox w="80.0" h="40.0" x="20976.25" y="5655.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2310_in_sa2725" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 1431106, 23170255, 14607933, 18633355, 15699106, 21826665, 22955274, 15099563, 19732719, 12646658, 24092389, 21133840, 23510023 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:EXOCYTOSIS_AND_PHAGOCYTOSIS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSION</p> <p>CASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:KLRG1, CASCADE:FCAR, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:IL15, CASCADE:CSF2, CASCADE:CSF1, CASCADE:TNF, CASCADE:IFNG</p> <p>PMID:19732719</p> <p>Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)</p> <p>References:</p> <p>PMID:21133840</p> <p>TNF is a pleiotropic cytokine produced by many different types of cells in the body. However, cells of the monocytic lineage-such as macrophages, astroglia, microglia, Langerhans cells, Kupffer cells, and alveolar macrophages-are the primary synthesizers of TNF</p> <p>PMID:1431106</p> <p>TNF induced tumoricidal activity of macrophages.</p> <p>PMID:14607933, 14625680</p> <p>TNF and IFNG cooperate in the activation of macrophages.</p> <p>PMID:18633355</p> <p>TNF is pro-angiogenic facror.</p> <p>PMID:23510023, PMID:23170255</p> <p>TRAIL, FASL and TNF provides Dendritic cell tumor killing activity.()</p> <p>L10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expression</p> <p>PMID:22955274</p> <p>SHIP inhibit MAPKp38 activation and prevent MNK1 phosphorylation by inhibiting the p38 MAPK pathway downstream of IL10. MNK1 regulates TNFa mRNA polysome assembly and upregulates TNFa translation.IL-10 Inhibits TNF Translation through SHIP1-mediated Inhibition of Mnk1</p> <p>PMID:15699106, PMID:12646658</p> <p>Phosphorylated STAT1 binds to TNF promoter end induces TNF expression downstream of IFNG.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:24092389</p> <p>TANs from early tumors are more cytotoxic toward tumor cells and produce higher levels of TNF-a, NO, and H2O2 and, in established tumors, these functions are downregulated and TAN acquire a more protumorigenic phenotype</p> <p>PMID:21826665</p> <p>TANs produce TNF and IL1B, probably downstream of TLR4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2310_in_sa2725"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1431106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23170255"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14607933"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15699106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21826665"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22955274"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15099563"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19732719"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12646658"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24092389"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23510023"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <clone/> <bbox w="80.0" h="40.0" x="16085.0" y="7665.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa443_rc_csa443" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NADE*:YWHAE</p> <p>References:</p> <p>11278287</p> <p>14-3-3ε binds to NADE and forms signaling complexes consisting of p75NTR, NADE, and 14-3-3</p> </body> </html> </notes> <label text="NADE*:YWHAE"/> <bbox w="100.0" h="125.0" x="21299.06" y="9544.0"/> <glyph class="macromolecule" id="s_id_rc_sa4261_rc_sa4261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>synonym:14-3-3 epsilon</p> <p>PMID:11278287</p> </body> </html> </notes> <label text="YWHAE"/> <bbox w="80.0" h="40.0" x="21309.06" y="9554.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4260_rc_sa4260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nerve growth factor receptor (TNFRSF16) associated protein 1</p> <p>HUGO:NGFRAP1 HGNC:13388 ENTREZ:27018 UNIPROT:Q00994</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:15721744</p> <p>PMID:10764727</p> <p>NADE, a p75NTR-associated cell death executor, is involved in signal transduction mediated by the common neurotrophin receptor p75NTR.</p> </body> </html> </notes> <label text="NADE*"/> <bbox w="80.0" h="40.0" x="21308.56" y="9601.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1502_in_sa1502" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRAK1"/> <bbox w="80.0" h="40.0" x="19215.0" y="2840.0"/> <glyph class="state variable" id="_b4de9437-e3b7-45f2-a04a-dbac9762b1d7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19210.0" y="2855.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa55_ca_csa55" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD3:SMAD7</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>PMID:23784029</p> <p>Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa55_ca_csa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4217"/> <bbox w="100.0" h="120.0" x="3550.0" y="1330.0"/> <glyph class="macromolecule" id="s_id_ca_sa486_ca_sa486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3 hgnc_id:HGNC:6769 HGNC:6769 ENTREZ:4088 UNIPROT:P84022</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:11792802, PMID:12809600</p> <p>The canonical TGFB signalling pathway involves phosphorylation of the carboxy-terminal serine residue of the internal modulator SMAD proteins, SMAD2 or SMAD3, by the activated receptors. This phosphorylation induces oligomerization of SMAD2 or SMAD3 with SMAD4, which is necessary for nuclear translocation. </p> <p>PMID:11279127 </p> <p>Dominant-Negative Smad3 and Inhibitory Smad7 Expression Block TGF-β-induced ECM Promoter Activation in fibroblasts</p> <p> COL1A2, COL3A1, COL6A1, COL6A3, and TIMP-1</p> <p>PMID:12702545, PMID:8515656</p> <p>Smad3 mediates transforming growth factor-beta-induced alpha-smooth muscle actin expression.</p> <p>Protein level of SMAD3 and SMAD4 is upregulated after TGFB treatment</p> <p>PMID:16179589 </p> <p>NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.</p> <p>On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.</p> <p>Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylation</p> </body> </html> </notes> <label text="SMAD3"/> <bbox w="80.0" h="40.0" x="3560.0" y="1340.0"/> <glyph class="state variable" id="_86e67c44-72d7-41e1-b3d1-c99e1de9f90c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3555.0" y="1355.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa485_ca_sa485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 7</p> <p>HUGO:SMAD7 hgnc_id:HGNC:6773 HGNC:6773 ENTREZ:4092 UNIPROT:O15105</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>_INHIBITION_ANTITUMOR</p> <p>PMID:15265520,PMID:14722617</p> <p>SMAD7 has been shown to interact with the E3 ubiquitin ligases Smurf 1 and Smurf 2, recruiting them to TβR complexes and inducing the degradation of activated TβRI [20] and [21].</p> <p>PMID:11279127 </p> <p>Dominant-Negative Smad3 and Inhibitory Smad7 Expression Block TGF-β-induced ECM Promoter Activation in fibroblasts</p> <p>PMID:23784029</p> <p>mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation.</p> </body> </html> </notes> <label text="SMAD7"/> <bbox w="80.0" h="40.0" x="3560.0" y="1390.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa249_emtc_em_sa249" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa249_emtc_em_sa249"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA6"/> <bbox w="40.0" h="20.0" x="4321.059" y="17647.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2429_in_sa2429" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CST3"/> <bbox w="90.0" h="25.0" x="20935.0" y="5907.5"/> <glyph class="unit of information" id="_61087b21-516c-4099-abd9-3a028f732369"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20970.0" y="5902.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa16_rc_csa16" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DLAT:DLD:FAD:PDHA*:thiamine diphosphate</p> </body> </html> </notes> <label text="pyruvate dehydrogenase"/> <bbox w="268.0" h="96.0" x="19262.477" y="14796.333"/> <glyph class="macromolecule" id="s_id_rc_sa224_rc_sa228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="19287.727" y="14825.083"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa218_rc_sa220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-acetyltransferase</p> <p>HUGO:DLAT HGNC:2896 ENTREZ:1737 UNIPROT:P10515</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide S-acetyltransferase</p> </body> </html> </notes> <label text="DLAT"/> <bbox w="80.0" h="40.0" x="19444.977" y="14825.833"/> <glyph class="state variable" id="_26c7d70c-814b-43eb-a81a-d8184ba7279d"> <state value="lipoylated" variable=""/> <bbox w="60.0" h="10.0" x="19454.977" y="14820.833"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa225_rc_sa227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="19283.727" y="14839.583"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa221_rc_sa222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) alpha 1</p> <p>HUGO:PDHA1 HGNC:8806 ENTREZ:5160 UNIPROT:P08559 </p> <p>pyruvate dehydrogenase (lipoamide) alpha 2</p> <p>HUGO:PDHA2 HGNC:8807 ENTREZ:5161 UNIPROT:P29803</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PDHA*"/> <bbox w="80.0" h="40.0" x="19357.977" y="14815.833"/> <glyph class="state variable" id="_21b0b092-fc6e-454f-986a-46777392d14b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19409.545" y="14810.833"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa225_rc_sa225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="19273.727" y="14829.583"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa224_rc_sa226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="19277.727" y="14815.083"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa221_rc_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) alpha 1</p> <p>HUGO:PDHA1 HGNC:8806 ENTREZ:5160 UNIPROT:P08559 </p> <p>pyruvate dehydrogenase (lipoamide) alpha 2</p> <p>HUGO:PDHA2 HGNC:8807 ENTREZ:5161 UNIPROT:P29803</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PDHA*"/> <bbox w="80.0" h="40.0" x="19367.977" y="14825.833"/> <glyph class="state variable" id="_90a6ac28-b4c4-4729-8f5c-9ac57d711cc3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19419.545" y="14820.833"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa225_rc_sa229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="19293.727" y="14849.583"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa218_rc_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-acetyltransferase</p> <p>HUGO:DLAT HGNC:2896 ENTREZ:1737 UNIPROT:P10515</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide S-acetyltransferase</p> </body> </html> </notes> <label text="DLAT"/> <bbox w="80.0" h="40.0" x="19432.977" y="14815.833"/> <glyph class="state variable" id="_cb392306-c726-4ff7-bf71-fd338c82fc31"> <state value="lipoylated" variable=""/> <bbox w="60.0" h="10.0" x="19442.977" y="14810.833"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3415_rc_sa3415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:9532</p> <p>KEGGCOMPOUND: C00068</p> </body> </html> </notes> <label text="thiamine diphosphate"/> <bbox w="70.0" h="25.0" x="19372.504" y="14850.777"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa218_rc_sa218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide S-acetyltransferase</p> <p>HUGO:DLAT HGNC:2896 ENTREZ:1737 UNIPROT:P10515</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide S-acetyltransferase</p> </body> </html> </notes> <label text="DLAT"/> <bbox w="80.0" h="40.0" x="19424.977" y="14805.833"/> <glyph class="state variable" id="_ddabcad8-a949-470d-a5eb-be0b39fc7ae1"> <state value="lipoylated" variable=""/> <bbox w="60.0" h="10.0" x="19434.977" y="14800.833"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa221_rc_sa221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) alpha 1</p> <p>HUGO:PDHA1 HGNC:8806 ENTREZ:5160 UNIPROT:P08559 </p> <p>pyruvate dehydrogenase (lipoamide) alpha 2</p> <p>HUGO:PDHA2 HGNC:8807 ENTREZ:5161 UNIPROT:P29803</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="PDHA*"/> <bbox w="80.0" h="40.0" x="19347.977" y="14805.833"/> <glyph class="state variable" id="_e82bc7d5-961d-4112-8b42-ccc1ad374509"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19399.545" y="14800.833"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa224_rc_sa224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dihydrolipoamide dehydrogenase</p> <p>HUGO:DLD HGNC:2898 ENTREZ:1738 UNIPROT:P09622</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:dihydrolipoamide dehydrogenase</p> </body> </html> </notes> <label text="DLD"/> <bbox w="80.0" h="40.0" x="19267.727" y="14805.083"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa964_ad_sa964" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19392652 </p> <p>Siva-1 promotes K-48 polyubiquitination of TRAF2 and inhibits TCR-mediated activation of NF-kappaB.</p> <p>Siva-1 Knockdown T Cells Demonstrate Decreased K48 and Increased K63 Ubiquitination of TRAF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa964_ad_sa964"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIVA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19392652"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIVA1"/> <bbox w="80.0" h="40.0" x="28716.0" y="4525.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa256_ce_csa256" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GINS1:GINS2:GINS3:GINS4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="GINS1/GINS2/GINS3/GINS4"/> <bbox w="176.0" h="114.0" x="13733.473" y="9506.356"/> <glyph class="macromolecule" id="s_id_ce_sa1343_ce_sa1343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GINS complex subunit 2 (Psf2 homolog)</p> <p>HUGO:GINS2 HGNC:24575 ENTREZ:51659 UNIPROT:Q9Y248</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE , MODULE:S_CC_PHASE</p> <p>References:</p> <p>GINS complex subunit 2 (Psf2 homolog)</p> <p>PMID:17417653, PMID:17652513, PMID:19223333, PMID:16531994</p> </body> </html> </notes> <label text="GINS2"/> <bbox w="80.0" h="40.0" x="13738.473" y="9558.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1344_ce_sa1344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GINS complex subunit 3 (Psf3 homolog)</p> <p>HUGO:GINS3 HGNC:25851 ENTREZ:64785 UNIPROT:Q9BRX5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>GINS complex subunit 3 (Psf3 homolog)</p> <p> CC phase:S</p> <p>PMID:17417653, PMID:17652513, PMID:19223333, PMID:16531994</p> </body> </html> </notes> <label text="GINS3"/> <bbox w="80.0" h="40.0" x="13822.473" y="9517.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1342_ce_sa1342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GINS complex subunit 1 (Psf1 homolog)</p> <p>HUGO:GINS1 HGNC:28980 ENTREZ:9837 UNIPROT:Q14691</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>GINS complex subunit 1 (Psf1 homolog)</p> <p>PMID:17417653, PMID:17652513, PMID:19223333, PMID:16531994</p> </body> </html> </notes> <label text="GINS1"/> <bbox w="80.0" h="40.0" x="13737.473" y="9517.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1345_ce_sa1345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GINS complex subunit 4 (Sld5 homolog)</p> <p>HUGO:GINS4 HGNC:28226 ENTREZ:84296 UNIPROT:Q9BRT9</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>GINS complex subunit 4 (Sld5 homolog)</p> <p>PMID:17417653, PMID:17652513, PMID:19223333, PMID:16531994</p> </body> </html> </notes> <label text="GINS4"/> <bbox w="80.0" h="40.0" x="13824.473" y="9559.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1960_emtc_em_sa1960" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1960_emtc_em_sa1960"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1_2*"/> <bbox w="57.0" h="21.0" x="3735.0" y="15644.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1145_emtc_em_sa1145" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1145_emtc_em_sa1145"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAM3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAM3"/> <bbox w="41.0" h="16.0" x="1132.25" y="14918.3"/> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2104_em_sa2104" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID : 26548401miR-302c was found to inhibit IL-8 expression and restrain tumor invasion and metastasis.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID : 26548401miR-302c was found to inhibit IL-8 expression and restrain tumor invasion and metastasis.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="MIR302C"/> <bbox w="77.0" h="21.0" x="3746.0" y="16811.5"/> <glyph class="unit of information" id="_2c8fc2e5-fd99-48d1-9d0b-e7d7e5c93efb"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3769.5" y="16806.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1991_emtc_em_sa1991" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1991_emtc_em_sa1991"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF3"/> <clone/> <bbox w="53.0" h="17.0" x="4616.0" y="16741.0"/> <glyph class="unit of information" id="_14f54b78-ebc6-4d28-8c3d-67efa0cf9b29"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4632.5" y="16736.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1991_rc_sa4783" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1991_rc_sa4783"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF3"/> <clone/> <bbox w="90.0" h="25.0" x="27636.326" y="16042.5"/> <glyph class="unit of information" id="_41002b19-5ae7-4d34-a2fb-1c9a7d53488e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27671.326" y="16037.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa784_rc_sa784" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa784_rc_sa784"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PFKFB3"/> <bbox w="80.0" h="40.0" x="18996.06" y="9713.5"/> <glyph class="state variable" id="_b2efba3d-7614-4564-b044-36a997772a1c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19045.129" y="9708.5"/> </glyph> <glyph class="state variable" id="_a6fea65b-f45b-4ee2-b318-4e6af6e90f43"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19014.492" y="9708.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1290_ad_sa1290" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:19406987 Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cellsKLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expressionKLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:19406987 Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cellsKLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expressionKLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1290_ad_sa1290"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19406987"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19406987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCNE*"/> <bbox w="90.0" h="25.0" x="27061.0" y="8302.5"/> <glyph class="unit of information" id="_9fe87f88-7161-4eaf-9a34-68813d84fcc6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27096.0" y="8297.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa1407_emtc_em_sa1407" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <label text="CRB3 degradation by endocytosis"/> <bbox w="30.0" h="30.0" x="2054.25" y="13874.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa14_ce_csa14" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CSA*:CUL4*:DDB1:RBX1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="CSA*/CUL4*/DDB1/RBX1"/> <bbox w="172.0" h="114.0" x="7604.472" y="15635.356"/> <glyph class="macromolecule" id="s_id_ce_sa459_ce_sa459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cockayne syndrome 1 (classical)</p> <p>excision repair cross-complementing rodent repair deficiency, complementation group 8</p> <p>HUGO:ERCC8, HGNC:3439, ENTREZ:1161, UNIPROT:Q13216</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="CSA*"/> <bbox w="80.0" h="40.0" x="7612.4927" y="15648.012"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa457_ce_sa457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 4A</p> <p>HUGO:CUL4A, HGNC:2554, ENTREZ:8451, UNIPROT:Q13619</p> <p>Cullin 4B</p> <p>HUGO:CUL4B, HGNC:2555, ENTREZ:8450, UNIPROT:Q13620</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="CUL4*"/> <bbox w="80.0" h="40.0" x="7611.972" y="15687.856"/> <glyph class="state variable" id="_e0451311-2c78-403e-abde-b622430546dd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7606.972" y="15702.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa458_ce_sa458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Damage-specific DNA binding protein 1, 127kDa, XPE, p48</p> <p>HUGO:DDB1, HGNC:2717, ENTREZ:1642, UNIPROT:Q16531</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:1570337, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="DDB1"/> <bbox w="80.0" h="40.0" x="7693.972" y="15684.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa456_ce_sa456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1</p> <p>HUGO:RBX1, HGNC:9928, ENTREZ:9978, UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:NER, MODULE:FANCONI</p> <p>References:</p> <p>PMID:15459660</p> <p>For NER pathway:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For Fanconi pathway:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="7688.972" y="15647.856"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa439_wca1_wca3_sa439" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa439_wca1_wca3_sa439"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TCF4"/> <bbox w="90.0" h="25.0" x="21794.06" y="22668.5"/> <glyph class="unit of information" id="_d46909e8-fdb3-4888-b14d-3bc37a2e31ab"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21829.06" y="22663.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa297_ca_sa297" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa297_ca_sa297"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELB"/> <clone/> <bbox w="90.0" h="40.0" x="2105.0" y="2530.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa297_rc_sa4950" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa297_rc_sa4950"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELB"/> <clone/> <bbox w="80.0" h="40.0" x="27689.06" y="14369.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1009_ca_sa1009" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CASCADE:GAST</p> <p>PMID:10477091, PMID:24584707</p> <p>CCKRB is a gastrin receptor.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1009_ca_sa1009"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10477091"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24584707"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCKBR"/> <bbox w="80.0" h="50.0" x="5930.0" y="1105.0"/> <glyph class="unit of information" id="_0fe0dcd8-06b7-44c9-91e0-a189d25b64bc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5947.5" y="1100.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4895_rc_sa4895" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4895_rc_sa4895"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:H2AFB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="H2AFB1"/> <bbox w="80.0" h="40.0" x="27921.326" y="16194.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa454_wca1_wca3_sa454" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa454_wca1_wca3_sa454"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRS2"/> <bbox w="70.0" h="25.0" x="21912.06" y="22670.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa386_in_sa386" compartmentRef="s_id_in_ca47_in_ca47"> <label text="BAG6"/> <bbox w="80.0" h="40.0" x="19000.0" y="695.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa2752_in_sa2752" compartmentRef="s_id_in_ca12_in_ca12"> <label text="N-formyl-kynurenine"/> <bbox w="70.0" h="25.0" x="12885.0" y="6047.5"/> </glyph> <glyph class="phenotype" id="s_id_in_sa221_in_sa221" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa221_in_sa221"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19689731"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887996"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18287025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MTOC_polarization"/> <bbox w="160.0" h="35.0" x="16900.0" y="6262.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1167_in_sa1167" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CXCR4"/> <bbox w="90.0" h="25.0" x="13465.0" y="2032.5"/> <glyph class="unit of information" id="_36c38033-b01f-4d28-a57b-a5f4a04e0810"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="13500.0" y="2027.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa1938_emtc_em_sa1938" compartmentRef="s_id_emtc_em_ca36_emtc_em_ca36"> <label text="p53 degradation in proteasome by MDM2"/> <bbox w="30.0" h="30.0" x="4239.0" y="13808.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1478_emtc_em_sa1478" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1478_emtc_em_sa1478"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD6B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARD6B"/> <bbox w="60.0" h="20.0" x="6031.0" y="14949.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3751_rc_sa3751" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3751_rc_sa3751"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALOX15B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALOX15B"/> <bbox w="80.0" h="40.0" x="20939.06" y="10979.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa102_ce_csa102" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK2:CIP1_KIP1*:CyclinE*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CIP/KIP*/CycE*"/> <bbox w="119.0" h="149.0" x="11690.473" y="9009.356"/> <glyph class="macromolecule" id="s_id_ce_sa750_ce_sa750"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (p21, Cip1)</p> <p>HUGO:CDKN1A, HGNC:1784, ENTREZ:1026, UNIPROT:P38936</p> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B, HGNC:1785, ENTREZ:1027, UNIPROT:P46527</p> <p>cyclin-dependent kinase inhibitor 1C (p57, Kip2)</p> <p>HUGO:CDKN1C, HGNC:1786, ENTREZ:1028, UNIPROT:P49918</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CIP1_KIP1*"/> <bbox w="80.0" h="40.0" x="11707.473" y="9094.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa748_ce_sa748"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1, HGNC:1589, ENTREZ:898, UNIPROT:P24864</p> <p>cyclin E2</p> <p>HUGO:CCNE2, HGNC:1590, ENTREZ:9134, UNIPROT:O96020</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="11709.973" y="9009.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa749_ce_sa749"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="11709.973" y="9052.356"/> <glyph class="state variable" id="_7ba3038c-a55b-4ec0-b65b-67331c70bed9"> <state value="" variable="T160"/> <bbox w="30.0" h="10.0" x="11694.973" y="9067.324"/> </glyph> <glyph class="state variable" id="_48697b32-4f7d-4ab8-9b54-248745f178fe"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="11709.798" y="9047.356"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2554_emtc_em_sa2554" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2554_emtc_em_sa2554"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO3"/> <bbox w="45.0" h="19.0" x="5697.5" y="13740.5"/> <glyph class="state variable" id="_5bfe3bfb-d37c-4017-959e-b82916ed8ad2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5692.5" y="13735.572"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa534_rc_csa534" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KEAP1:NFE2L2</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa534_rc_csa534"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFE2L2:KEAP1"/> <bbox w="100.0" h="130.0" x="27169.06" y="10459.0"/> <glyph class="macromolecule" id="s_id_rc_sa5287_rc_sa5287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kelch-like ECH-associated protein 1</p> <p>HUGO:KEAP1 HGNC:23177 ENTREZ:9817 UNIPROT:Q14145</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="KEAP1"/> <bbox w="80.0" h="40.0" x="27179.06" y="10469.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5286_rc_sa5286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor (erythroid-derived 2)-like 2</p> <p>HUGO:NFE2L2 HGNC:7782 ENTREZ:4780 UNIPROT:Q16236</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:23850759</p> <p>NOTE: * means activated form</p> </body> </html> </notes> <label text="NFE2L2"/> <bbox w="80.0" h="40.0" x="27179.06" y="10519.0"/> <glyph class="state variable" id="_d371c6cb-8e61-4afd-8924-9d84b5592377"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27197.492" y="10514.0"/> </glyph> <glyph class="state variable" id="_df76b9d8-5e28-486b-a399-dcbeda750da0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27230.629" y="10514.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa984_rc_sa984" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa984_rc_sa984"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR182"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR182"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR182"/> <bbox w="90.0" h="25.0" x="23534.06" y="15622.5"/> <glyph class="unit of information" id="_3a3f83e5-4e6d-4562-b16b-05037bfb225c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23564.06" y="15617.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa12_ce_csa12" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CHTF18:PCNA:POLD*:POLE*:POLK:RFC*:RPA1:RPA2:RPA3:XRCC1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:21282463</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa12_ce_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21282463"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHTF18/PCNA/POLD*/POLE*/POLK/RFC/RPA1/RPA2/RPA3/XRCC1"/> <bbox w="332.0" h="210.0" x="8087.472" y="16554.355"/> <glyph class="macromolecule" id="s_id_ce_sa1432_ce_sa1432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed) kappa</p> <p>HUGO:POLK, HGNC:9183, ENTREZ:51426, UNIPROT:Q96Q87</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS, MODULE:NER</p> <p>References:</p> <p>PMID:18196958, PMID:17652783</p> <p>Related to Y-family polymerases</p> <p>PMID:19258535</p> <p>Bypasses benzo(a)pyrene (B(a)P) adducts on guanine (dG-n2-BPDE adducts)</p> <p>PMID:15189466</p> <p>For NER pathway</p> <p>PMID:20227374</p> </body> </html> </notes> <label text="POLK"/> <bbox w="80.0" h="40.0" x="8194.444" y="16700.887"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa449_ce_sa449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C (activator 1) 1, 145kDa</p> <p>HUGO:RFC1, HGNC:9969, ENTREZ:5981, UNIPROT:P35251</p> <p>replication factor C (activator 1) 2, 40kDa</p> <p>HUGO:RFC2, HGNC:9970, ENTREZ:5982, UNIPROT:P35250</p> <p>replication factor C (activator 1) 3, 38kDa</p> <p>HUGO:RFC3, HGNC:9971, ENTREZ:5983, UNIPROT:P40938</p> <p>replication factor C (activator 1) 4, 37kDa</p> <p>HUGO:RFC4, HGNC:9972, ENTREZ:5984, UNIPROT:P35249</p> <p>replication factor C (activator 1) 5, 36.5kDa</p> <p>HUGO:RFC5, HGNC:9973, ENTREZ:5985, UNIPROT:P40937</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="RFC*"/> <bbox w="80.0" h="40.0" x="8197.148" y="16649.703"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1478_ce_sa1478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="8196.4" y="16559.785"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1431_ce_sa1431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae)</p> <p>HUGO:CHTF18, HGNC:18435, ENTREZ:63922, UNIPROT:Q8WVB6</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:12930902, PMID:20227374</p> </body> </html> </notes> <label text="CHTF18"/> <bbox w="80.0" h="40.0" x="8290.665" y="16612.78"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1477_ce_sa1477"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="8292.062" y="16568.578"/> <glyph class="state variable" id="_bbc83c31-6053-42cd-9264-b4add90636f0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8284.562" y="16583.578"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa450_ce_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), epsilon</p> <p>HUGO:POLE, HGNC:9177, ENTREZ:5426, UNIPROT:Q07864</p> <p>polymerase (DNA directed), epsilon 2 (p59 subunit)</p> <p>HUGO:POLE2, HGNC:9178, ENTREZ:5427, UNIPROT:P56282</p> <p>polymerase (DNA directed), epsilon 3 (p17 subunit)</p> <p>HUGO:POLE3, HGNC:13546, ENTREZ:54107, UNIPROT:Q9NRF9</p> <p>polymerase (DNA-directed), epsilon 4 (p12 subunit)</p> <p>HUGO:POLE4, HGNC:18755, ENTREZ:56655, UNIPROT:Q9NR33</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="POLE*"/> <bbox w="80.0" h="40.0" x="8099.1484" y="16666.703"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa448_ce_sa448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="8291.648" y="16658.203"/> <glyph class="state variable" id="_ccdd6243-7e0c-4ca2-a399-6c5134304825"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="8276.648" y="16673.203"/> </glyph> <glyph class="state variable" id="_cebb487e-82ab-4260-bd33-134a46904511"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8286.648" y="16693.203"/> </glyph> <glyph class="state variable" id="_d9354043-c1bf-464b-b717-50b35fe2cb8b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8310.08" y="16693.203"/> </glyph> <glyph class="state variable" id="_ceb8c99a-f7b1-444b-8d85-e62c97d385b1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8326.648" y="16693.203"/> </glyph> <glyph class="state variable" id="_d63a47c7-bf22-45f9-bf5d-197efc63f8c7"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="8280.633" y="16653.203"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa451_ce_sa451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), delta 1, catalytic subunit 125kDa</p> <p>HUGO:POLD1, HGNC:9175, ENTREZ:5424, UNIPROT:P28340</p> <p>polymerase (DNA directed), delta 2, regulatory subunit 50kDa</p> <p>HUGO:POLD2, HGNC:9176, ENTREZ:5425, UNIPROT:P49005</p> <p>polymerase (DNA-directed), delta 3, accessory subunit</p> <p>HUGO:POLD3, HGNC:20932, ENTREZ:10714, UNIPROT:Q15054</p> <p>polymerase (DNA-directed), delta 4</p> <p>HUGO:POLD4, HGNC:14106, ENTREZ:57804, UNIPROT:Q9HCU8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER, MODULE:MMR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20478261</p> <p>For A_NHEJ</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292</p> </body> </html> </notes> <label text="POLD*"/> <bbox w="80.0" h="40.0" x="8097.6484" y="16616.203"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1433_ce_sa1433"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XRCC1 , X-ray repair complementing defective repair in Chinese hamster cells 1</p> <p>HUGO:XRCC1, HGNC:12828, ENTREZ:7515, UNIPROT:P18887</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:8978692, PMID:8264637, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20227374</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XRCC1"/> <bbox w="80.0" h="40.0" x="8098.745" y="16568.934"/> <glyph class="state variable" id="_c96d2423-d185-4f24-974f-2ffcc0b26382"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8147.814" y="16563.934"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1476_ce_sa1476"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="8195.4" y="16605.785"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3387_rc_sa3387" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3387_rc_sa3387"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLUL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLUL"/> <bbox w="86.0" h="46.0" x="18686.06" y="12446.0"/> <glyph class="unit of information" id="_cc78965f-cb37-4e66-a798-29f6cdc922b1"> <label text="N:8"/> <bbox w="20.0" h="10.0" x="18719.06" y="12441.0"/> </glyph> <glyph class="state variable" id="_e29b7d0f-9cde-48f0-b0ba-a6403ee6f6bf"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="18739.371" y="12441.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa68_in_sa68" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CD70"/> <bbox w="80.0" h="40.0" x="23060.0" y="7750.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa121_rc_sa121" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16452 KEGGCOMPOUND:C00036 CAS:149-63-3</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa121_rc_sa121"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="oxaloacetate"/> <bbox w="70.0" h="25.0" x="18931.81" y="14513.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa8_wnc1_wnc4_csa8" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN1:GSK3*:MYC:PIN1</p> <p>References:</p> <p>s_wnc4_re13:(MAP:survival) PMID:19131971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa8_wnc1_wnc4_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(c-Myc destruction complex)"/> <bbox w="261.0" h="127.0" x="18608.06" y="21632.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa52_wnc1_wnc4_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peptidylprolyl cis/trans isomerase, NIMA-interacting 1</p> <p>"protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting 1"</p> <p>HUGO:PIN1 HGNC:8988 ENTREZ:5300 UNIPROT:Q13526 GENECARDS:PIN1 REACTOME:69717 KEGG:5300 ATLASONC:GC_PIN1 WIKI:PIN1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE</p> </body> </html> </notes> <label text="PIN1"/> <bbox w="80.0" h="40.0" x="18781.06" y="21688.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa53_wnc1_wnc4_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="80.0" h="40.0" x="18617.06" y="21644.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa50_wnc1_wnc4_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>"v-myc avian myelocytomatosis viral oncogene homolog"</p> <p>HUGO:MYC HGNC:7553 ENTREZ:4609 UNIPROT:P01106 GENECARDS:MYC REACTOME:59773 KEGG:4609 ATLASONC:MYCID27 WIKI:MYC</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>C-MYC is a key regulator of cell proliferation differentiaton and apoptosis. 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However, it was not induced in GADD45γ−/− TH1 effector cellsGADD45γ protein therefore mediates TCR-stimulated p38 MAP kinase activation in TH1 effector cells.JNK activity was induced in wild-type TH1 effector cells upon α-CD3 antibody treatment, it was not induced in GADD45γ−/− TH1 effector cells (Figure 4B). Therefore, GADD45γ is required for both p38 and JNK MAP kinase activation through TCR stimulation in TH1 effector cells.The reduction in IFN-γ secretion was the result of reduced expression of IFN-γ mRNA by GADD45γ−/− CD4+ T cells ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:IL2, CASCADE:IL12, CASCADE:IL18MODULE:TCR_SIGNALING, MODULE:TH1PMID:11371360GADD45G was highly expressed in TH1 versus TH2 cellsp38 kinase activity was induced when TH1 cells were activated by α-CD3 antibody. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19956757</p> <p>Cancer associated fibroblasts promote tumor growth and metastasis by modulating the tumor immune microenvironment in a 4T1 murine breast cancer model</p> <p>PMID:21051638 </p> <p>Depletion of FAP-expressing cells, which made up only 2% of all tumor cells in established Lewis lung carcinomas, caused rapid hypoxic necrosis of both cancer and stromal cells in immunogenic tumors by a process involving interferon-γ and tumor necrosis factor-α. Depleting FAP-expressing cells in a subcutaneous model of pancreatic ductal adenocarcinoma also permitted immunological control of growth. 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h="10.0" x="14291.442" y="20889.0"/> </glyph> <glyph class="state variable" id="_ad57ecc3-dbd4-471f-8902-f8d57411b16d"> <state value="" variable="S157"/> <bbox w="30.0" h="10.0" x="14292.061" y="20849.213"/> </glyph> <glyph class="state variable" id="_1c7e0df5-6a21-4670-9e52-e7df45846528"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="14256.965" y="20889.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa59_te_csa59" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/NAF1/NHP2/NOP10/TERC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa59_te_csa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/NAF1/NHP2/NOP10/TERC"/> <bbox w="365.0" h="135.0" x="6329.56" y="21981.5"/> <glyph class="macromolecule" id="s_id_te_sa404_te_sa404"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="6369.56" y="22051.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa403_te_sa403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="6459.56" y="22001.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa406_te_sa406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <bbox w="90.0" h="25.0" x="6557.06" y="22036.5"/> <glyph class="state variable" id="_427a61d4-7189-434e-b8d6-a4c74ec4ad8d"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="6590.06" y="22031.5"/> </glyph> <glyph class="unit of information" id="_3d15221f-aaa6-45ea-9d67-4320b7332d52"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6592.06" y="22031.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa402_te_sa402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="6369.56" y="22001.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa405_te_sa405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear assembly factor 1 ribonucleoprotein</p> <p>HUGO:NAF1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NAF1"/> <bbox w="80.0" h="40.0" x="6459.56" y="22051.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3117_rc_sa3117" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3117_rc_sa3117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DAB2IP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DAB2IP"/> <bbox w="80.0" h="40.0" x="22559.06" y="9549.0"/> <glyph class="state variable" id="_b8e5ca18-77e5-48af-856b-9ad962352890"> <state value="" variable="S604"/> <bbox w="30.0" h="10.0" x="22601.01" y="9544.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa829_emtc_em_sa829" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa829_emtc_em_sa829"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK1*"/> <bbox w="60.0" h="50.0" x="6192.0" y="13367.0"/> <glyph class="state variable" id="_4c056af4-abce-4d73-a45d-cb9e842ad277"> <state value="" variable="S218"/> <bbox w="30.0" h="10.0" x="6177.0" y="13365.97"/> </glyph> <glyph class="state variable" id="_dcd50d59-d883-4958-939b-80ffd3039a24"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="6237.0" y="13364.6045"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2188_in_sa2188" compartmentRef="s_id_in_ca48_in_ca48"> <label text="GAS6"/> <bbox w="80.0" h="40.0" x="16130.0" y="920.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4338_rc_sa4338" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4338_rc_sa4338"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WASH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASH1"/> <bbox w="80.0" h="40.0" x="27701.56" y="11541.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2332_in_sa2332" compartmentRef="s_id_in_ca12_in_ca12"> <label text="cREL*"/> <bbox w="70.0" h="25.0" x="20950.0" y="3527.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa366_emtc_em_csa366" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19564415</p> <p>The transcription factor FOXO3, negatively regulated by binding to 14-3-3 protein family, induces MMP9 and MMP13 expression.</p> <p>This explains the role of FOXO3 in promoting tumor invasion.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa366_emtc_em_csa366"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19564415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(FOXO3/14-3-3 family)"/> <bbox w="141.0" h="66.0" x="3626.0" y="14797.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2552_emtc_em_sa2552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>14-3-3*</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 GENECARDS:SFN REACTOME:48913 KEGG:2810 ATLASONC:GC_SFN WIKI:SFN </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>YWHAB is so-called 14-3-3 alpha/beta</p> <p>PMID:9069260</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="105.0" h="17.0" x="3647.5" y="14824.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2553_emtc_em_sa2553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>HUGO:FOXO3, HGNC:3821, ENTREZ:2309, GENECARDS:GC06P108881, 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa490_an_sa490"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FTK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAK*"/> <bbox w="80.0" h="40.0" x="4764.0" y="7346.0"/> <glyph class="state variable" id="_0548929f-92f0-4650-9427-3c2b596ec08f"> <state value="activated" variable=""/> <bbox w="55.0" h="10.0" x="4776.5" y="7341.0"/> </glyph> <glyph class="state variable" id="_39e307e1-e023-4105-913d-bce2b6e66ec9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4815.5684" y="7341.0"/> </glyph> <glyph class="state variable" id="_b7b74bf3-f08e-45cc-8c81-2cab8c12fca1"> <state value="" variable="Y397"/> <bbox w="30.0" h="10.0" x="4829.0" y="7352.779"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa324_in_sa324" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MYH9"/> <bbox w="80.0" h="40.0" x="18680.0" y="6100.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4426_rc_sa4426" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4426_rc_sa4426"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SH3GLB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIF1*"/> <bbox w="80.0" h="40.0" x="28038.186" y="11227.5"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa93_mpk1_mpk1_csa93" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RIPK1:TAK1*:TNFRSF1A:TRADD:TRAF2</p> </body> </html> </notes> <label text="RIPK1:TAK1*:TNFRSF1A:TRADD:TRAF2"/> <bbox w="275.0" h="87.0" x="11012.057" y="19501.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa564_mpk1_mpk1_sa564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1A</p> <p>TNFR1</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="11054.97" y="19511.908"/> <glyph class="unit of information" id="_c2525195-cef0-4beb-80f0-5bcb1bc37bf6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11067.47" y="19506.908"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa507_mpk1_mpk1_sa507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="76.0" h="25.0" x="11162.134" y="19534.924"/> <glyph class="state variable" id="_20b6f5fb-2ffc-485c-b80e-04a1ff86051e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11154.634" y="19542.424"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa498_mpk1_mpk1_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="11063.557" y="19535.666"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa500_mpk1_mpk1_sa500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="56.0" h="25.0" x="11122.557" y="19507.666"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa501_mpk1_mpk1_sa501"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TNF treatment is thought to result in the formation of a TRADD-RIP-TRAF2 complex at the membrane.</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="50.0" h="25.0" x="11111.557" y="19534.666"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1408_ce_sa1408" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1408_ce_sa1408"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNTT"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TdT* "/> <bbox w="80.0" h="40.0" x="13045.731" y="16524.064"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa219_mo_sa219"> <label text="K+"/> <bbox w="25.0" h="25.0" x="2006.0" y="8863.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1055_ce_sa1055" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1055_ce_sa1055"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:INCENP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="INCENP"/> <bbox w="80.0" h="40.0" x="10663.77" y="13798.5"/> <glyph class="state variable" id="_c0ebbc54-0003-4ef9-91d1-40004ba81931"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10656.27" y="13813.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3269_rc_sa3269" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3269_rc_sa3269"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYBA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CYBA"/> <clone/> <bbox w="80.0" h="40.0" x="24171.06" y="10686.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3269_ca_sa1050" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3269_ca_sa1050"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYBA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CYBA"/> <clone/> <bbox w="80.0" h="40.0" x="2822.9688" y="3997.5"/> </glyph> <glyph class="complex" id="s_id_em_csa320_em_csa320" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:MYC</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK2/MYC"/> <bbox w="61.0" h="85.0" x="3521.0" y="14685.0"/> <glyph class="macromolecule" id="s_id_em_sa2122_em_sa2122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC, HGNC:7553, ENTREZ:4609, GENECARDS:GC08P128748, UNIPROT:P01106   </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID :17055429</p> <p>MYC stimulate P53 and ARF(CDKN2A)</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MYC"/> <bbox w="40.0" h="20.0" x="3533.1" y="14697.0"/> <glyph class="state variable" id="_7c4a2a8f-abd7-4bad-a428-e1381dcb2ec3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3525.6" y="14701.984"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2123_em_sa2123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, GENECARDS:GC12P056360, UNIPROT:P24941 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="40.0" h="20.0" x="3533.1" y="14718.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa6_shh1_shh3_csa6" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha__sub_i_endsub_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <label text="Gi_protein_GTP"/> <bbox w="100.0" h="120.0" x="25842.06" y="22649.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa40_shh1_shh3_sa40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gαi*"/> <bbox w="80.0" h="40.0" x="25852.56" y="22659.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa76_shh1_shh3_sa76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="30.0" h="30.0" x="25877.56" y="22702.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa375_in_sa375" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="ULBP2"/> <bbox w="90.0" h="25.0" x="20715.0" y="567.5"/> <glyph class="unit of information" id="_947c3e8e-64b7-4414-b9b6-6f1874356896"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20750.0" y="562.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa712_ca_sa712" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa712_ca_sa712"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIF"/> <bbox w="80.0" h="40.0" x="220.0" y="1630.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa9_wnc1_wnc3_csa9" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAXX:HDAC2:PML</p> <p>References:</p> <p>s_wnc3_re19:(MAP:survival) PMID:19218564, PMID:17928811</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa9_wnc1_wnc3_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19218564"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17928811"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC2/PML/Daxx"/> <bbox w="147.0" h="193.0" x="16684.06" y="20663.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa61_wnc1_wnc3_sa61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 2</p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> </body> </html> </notes> <label text="HDAC2"/> <bbox w="80.0" h="40.0" x="16695.06" y="20670.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa66_wnc1_wnc3_sa66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-domain associated protein</p> <p>HUGO:DAXX HGNC:2681 ENTREZ:1616 UNIPROT:Q9UER7 GENECARDS:DAXX KEGG:1616 ATLASONC:DAXXID40265ch6p21 WIKI:DAXX </p> <p>"death-associated protein 6"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20452955</p> </body> </html> </notes> <label text="DAXX"/> <bbox w="80.0" h="40.0" x="16710.06" y="20788.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa64_wnc1_wnc3_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16713.56" y="20724.0"/> <glyph class="state variable" id="_6ca4f305-9e32-4b07-beb6-9e5004ca52e3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16788.56" y="20719.0"/> </glyph> <glyph class="state variable" id="_6a750179-a41c-4ab0-9321-1a7f5db3db40"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16788.56" y="20759.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa65_wnc1_wnc3_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16733.56" y="20744.0"/> <glyph class="state variable" id="_e165fd5b-5a8f-4d4d-8e42-dde2ab308055"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="16806.06" y="20739.0"/> </glyph> <glyph class="state variable" id="_46b894e4-0ab5-4ad6-9c22-ae3d05696d69"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="16806.06" y="20779.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa64_wnc1_wnc3_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16723.56" y="20734.0"/> <glyph class="state variable" id="_4b20a600-69b9-4be7-b816-2e991e527e2c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16798.56" y="20729.0"/> </glyph> <glyph class="state variable" id="_d8ba2e6b-9a66-4664-8465-10860b6c2dad"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16798.56" y="20769.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa64_wnc1_wnc3_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="16707.06" y="20713.0"/> <glyph class="state variable" id="_aff60a80-1ee3-4b3d-a6d6-627e497bdf4e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16782.06" y="20708.0"/> </glyph> <glyph class="state variable" id="_22eb015d-3a64-46f7-a2bd-ef3d41d91305"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16782.06" y="20748.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa2_ce_sa2" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>BER:M-glyc:DNA:st2Base-free DNA containing an apurinic/apyrimidinic (AP) siteNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR ----- content merged by Celldesigner to SBGN-ML translation ------ BER:M-glyc:DNA:st2Base-free DNA containing an apurinic/apyrimidinic (AP) siteNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR </body> </html> </notes> <label text="BER_M-glyc_DNA_st2*"/> <bbox w="150.0" h="26.0" x="10189.334" y="15759.338"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1251_in_sa1251" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL6"/> <bbox w="80.0" h="40.0" x="10652.5" y="5457.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa47_shh1_shh1_csa47" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AKT*:PI3,4,5-P3</p> <p>References:</p> <p>s_shh1_re101:(MAP:survival) PMID:17688959</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa47_shh1_shh1_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17688959"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PIP3_AKT)"/> <bbox w="100.0" h="120.0" x="25751.06" y="17591.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa298_shh1_shh1_sa298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-akt murine thymoma viral oncogene homolog 1</p> <p>HUGO:AKT1 HGNC:391 ENTREZ:207 UNIPROT:P31749 GENECARDS:AKT1 REACTOME:58253 KEGG:207 ATLASONC:AKT1ID355ch14q32 WIKI:AKT1 </p> <p>v-akt murine thymoma viral oncogene homolog 2</p> <p>HUGO:AKT2 HGNC:392 ENTREZ:208 UNIPROT:P31751 GENECARDS:AKT2 REACTOME:49860 KEGG:208 ATLASONC:AKT2ID517ch19q13 WIKI:AKT2 </p> <p>v-akt murine thymoma viral oncogene homolog 3 (protein kinase B gamma)</p> <p>HUGO:AKT3 HGNC:393 ENTREZ:10000 UNIPROT:Q9Y243 GENECARDS:AKT3 REACTOME:415917 KEGG:10000 ATLASONC:AKT3ID615ch1q44 WIKI:AKT3 </p> <p>HUGO:AKT3 HGNC:393 ENTREZ:10000 UNIPROT:Q9Y243 GENECARDS:AKT3 REACTOME:415917 KEGG:10000 ATLASONC:AKT3ID615ch1q44 WIKI:AKT3 HUGO:CDH2 HGNC:1759 ENTREZ:1000 UNIPROT:P19022 GENECARDS:CDH2 REACTOME:51212 KEGG:1000 ATLASONC:GC_CDH2 WIKI:CDH2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20214616</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="AKT*"/> <bbox w="80.0" h="40.0" x="25761.06" y="17643.0"/> <glyph class="state variable" id="_33561df4-b934-4075-a713-cb9b240fff15"> <state value="P" variable="T308"/> <bbox w="35.0" h="10.0" x="25744.053" y="17638.0"/> </glyph> <glyph class="state variable" id="_4e5a32df-d942-4b03-a7e1-2a85a0489da0"> <state value="" variable="S129"/> <bbox w="30.0" h="10.0" x="25746.06" y="17677.72"/> </glyph> <glyph class="state variable" id="_6b740ed5-5705-413f-b864-8bdc003bdb07"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="25825.441" y="17678.0"/> </glyph> <glyph class="state variable" id="_a529b2a0-7f1a-47f3-8acf-7c06b32e6f82"> <state value="P" variable="T450"/> <bbox w="35.0" h="10.0" x="25823.56" y="17638.213"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa297_shh1_shh1_sa297"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="25763.06" y="17604.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa61_mpk1_mpk1_csa61" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:KSR1:MEK*</p> </body> </html> </notes> <label text="ERK*:KSR1:MEK*"/> <bbox w="136.0" h="110.0" x="9066.061" y="19551.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa300_mpk1_mpk1_sa300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="9126.394" y="19611.666"/> <glyph class="state variable" id="_f257f0cb-cbcc-4b76-8d2b-f56395f2030b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9118.894" y="19623.523"/> </glyph> <glyph class="state variable" id="_3033642c-b710-4c0e-8cc6-8175c5eed8ea"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9118.894" y="19614.215"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa299_mpk1_mpk1_sa299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9126.394" y="19586.666"/> <glyph class="state variable" id="_5696dd3b-93dc-413d-82ac-2368a3322997"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9118.894" y="19598.332"/> </glyph> <glyph class="state variable" id="_0a506184-3008-45c5-8c3c-61e610525114"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9118.894" y="19589.791"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa298_mpk1_mpk1_sa298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is a scaffold protein for ERK cascade. It normally localises in the cytosol but after GF treatment it moves to the plasma membrane. Its interaction with MEK1/2 is constitutive. Under endogenous conditions KSR1 facilitates the association of MEK and B-Raf (and not C-Raf) thus promoting MEK and ERK activation (on plasma membrane).</p> </body> </html> </notes> <label text="KSR1"/> <bbox w="50.0" h="25.0" x="9080.394" y="19559.666"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa712_rc_sa712" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa712_rc_sa712"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTSB"/> <bbox w="90.0" h="25.0" x="23787.56" y="16048.5"/> <glyph class="unit of information" id="_e8e7b10c-8d8a-4a1b-b7da-3ea4876a66e4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23822.56" y="16043.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa192_in_sa192" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR15/16*"/> <bbox w="90.0" h="25.0" x="11455.0" y="4538.125"/> <glyph class="unit of information" id="_2d3d6f3f-1f18-4ccf-a6c9-ee6bb32ad3b9"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="11485.0" y="4533.125"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa148_an_sa148" compartmentRef="s_id_an_ca1_an_ca1"> <label text="MAPK pathway activation"/> <bbox w="165.0" h="35.0" x="6239.5" y="6847.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa478_ad_sa478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3479_rc_sa1320"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <clone/> <bbox w="80.0" h="40.0" x="21589.06" y="16704.0"/> <glyph class="state variable" id="_74934ed2-8918-4f20-87d9-a5fdb058c654"> <state value="P" variable="Y185"/> <bbox w="35.0" h="10.0" 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BUB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BUB1"/> <bbox w="90.0" h="25.0" x="15248.269" y="10142.894"/> <glyph class="unit of information" id="_fe605cdc-2ef2-407b-885b-3b2f651930c8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15283.269" y="10137.894"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa496_akt1_akt1_sa496" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa496_akt1_akt1_sa496"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="12879.811" y="19093.156"/> <glyph class="state variable" id="_9ed88ccd-b264-4fc5-90d4-dea74e12382d"> <state value="Ub" variable="Y631"/> <bbox w="40.0" h="10.0" x="12859.811" y="19108.156"/> </glyph> <glyph class="state variable" id="_7f6899e9-bf45-4435-be5b-36742df04ec1"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12938.893" y="19088.156"/> </glyph> <glyph class="state variable" id="_85ba3a54-49ec-4520-906c-d59767d55ffc"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="12941.692" y="19128.156"/> </glyph> <glyph class="state variable" id="_31cd1a20-d3c9-48df-b73a-1964b640292c"> <state value="" variable="S2481"/> <bbox w="35.0" h="10.0" x="12862.311" y="19127.104"/> </glyph> <glyph class="state variable" id="_7863b18f-268f-4ade-b19e-82c5f438f7ee"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="12865.846" y="19088.156"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1076_ca_sa1076" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:1989648 </p> <p> Among 102 unselected breast carcinoma primary lesions, only 9 contained CD73-positive tumour cells, whereas in 95 cases, stromal fibroblasts and fibrocytes showed variable degrees of CD73 expression. </p> <p>PMID:26363007 </p> <p>CD73 (NT5E) expression in fibroblasts promotes tumor immune escape and thereby tumor growth. </p> <p>CD73 expression in HGS ovarian tumors contributes to suppress the function of tumor-infiltrating CD8+ T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1076_ca_sa1076"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NT5E"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1989648 "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26363007 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NT5E"/> <bbox w="80.0" h="40.0" x="210.0" y="3321.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa352_emtc_em_csa352" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Laminin 1 partners*:Laminin1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Laminin1/Laminin 1 partners)"/> <bbox w="176.0" h="64.0" x="6498.0" y="18938.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2488_emtc_em_sa2488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143", MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>fibulin 1</p> <p>HUGO:FBLN1 HGNC:3600 ENTREZ:2192 UNIPROT:P23142</p> <p>fibulin 2</p> <p>HUGO:FBLN2 HGNC:3601 ENTREZ:2199 UNIPROT:P98095</p> <p>elastin</p> <p>HUGO:ELN HGNC:3327 ENTREZ:2006 UNIPROT:P15502</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Laminin 1 partners*"/> <bbox w="121.0" h="22.0" x="6527.75" y="18959.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2487_emtc_em_sa2487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Laminin 1*</p> <p>laminin, alpha 1</p> <p>HUGO:LAMA1 HGNC:6481 ENTREZ:284217 UNIPROT:P25391</p> <p>laminin, beta 1</p> <p>CLM, "cutis laxa with marfanoid phenotype"</p> <p>HUGO:LAMB1 HGNC:6486 ENTREZ:3912 UNIPROT:P07942</p> <p>laminin, gamma 1</p> <p>HUGO:LAMC1 HGNC:6492 ENTREZ:3915 UNIPROT:P11047</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:114518</p> <p>Laminin-1: LAMA1, LAMB1, LAMC1</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Laminin1*"/> <bbox w="74.0" h="18.0" x="6556.75" y="18940.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca1_sa690_wca1_wca1_sa690" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re74:(MAP:survival) PMID:21498506 PMID:17925382</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa690_wca1_wca1_sa690"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17925382"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Microtubules"/> <clone/> <bbox w="80.0" h="30.0" x="20845.06" y="18742.0"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca1_sa690_wnc1_wnc1_sa710" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re74:(MAP:survival) PMID:21498506 PMID:17925382</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa690_wnc1_wnc1_sa710"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17925382"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Microtubules"/> <clone/> <bbox w="80.0" h="30.0" x="14875.061" y="18735.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa219_ce_csa219" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:YAP1:p73*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="YAP1/p73*"/> <bbox w="102.0" h="124.0" x="12760.473" y="13912.356"/> <glyph class="macromolecule" id="s_id_ce_sa1108_ce_sa1108"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p73</p> <p>HUGO:TP73, HGNC:12003, ENTREZ:7161, UNIPROT:Q8TDY6</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:12890487, PMID:10362363, PMID:20485546, PMID:18260640, PMID:21317061, PMID:21672615, PMID:21516125</p> </body> </html> </notes> <label text="p73*"/> <bbox w="80.0" h="40.0" x="12772.473" y="13926.356"/> <glyph class="state variable" id="_303152d4-c568-478a-b5c7-8491a6606400"> <state value="P" variable="Y99"/> <bbox w="30.0" h="10.0" x="12797.473" y="13921.356"/> </glyph> <glyph class="state variable" id="_90b0f746-2ffb-47e2-a18a-39aa8f881287"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12767.473" y="13941.324"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1109_ce_sa1109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Yes-associated protein 1, 65kDa</p> <p>HUGO:YAP1, HGNC:16262, ENTREZ:10413, UNIPROT:P46937</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:7782338, PMID:12807903, PMID:18280240, PMID:18617895, PMID:21666501</p> </body> </html> </notes> <label text="YAP1"/> <bbox w="80.0" h="40.0" x="12771.584" y="13966.326"/> <glyph class="state variable" id="_b6396507-1f70-4aa1-af87-7d39d1dc970d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12820.652" y="13961.326"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa6_shh1_shh2_csa6" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:promoter_region</p> <p>References:</p> <p>s_shh2_re19:(MAP:survival) PMID:19049965</p> <p>s_shh2_re20(MAP:survival):</p> <p>PMID:19049965</p> <p>PMID:11493558</p> <p>s_shh2_re22:(MAP:survival) PMID:18813803 PMID:16880536 PMID:19190345</p> <p>s_shh2_re36:(MAP:survival) PMID:16880536 PMID:18813803 PMID:19190345</p> <p>s_shh2_re38:(MAP:survival) PMID:15140221 PMID:18813803 PMID:18698484</p> <p>s_shh2_re40:(MAP:survival) PMID:20712011</p> <p>s_shh2_re42:(MAP:survival) PMID:16396903 PMID:20107231 PMID:16054035 PMID:16406505 PMID:16880536 PMID:17000779</p> <p>s_shh2_re43:(MAP:survival) PMID:9609833 PMID:16413481</p> <p>s_shh2_re45:(MAP:survival) PMID:15087129</p> <p>s_shh2_re49:(MAP:survival) PMID:20143239 PMID:16413481</p> <p>s_shh2_re51(MAP:survival):</p> <p>PMID:9216996 PMID:16413481 PMID:17000779 </p> <p>ANNOTATION: it was shown that Med12 binds to Gli1 promoter</p> <p>s_shh2_re58:(MAP:survival) PMID:15520176 PMID:14555646</p> <p>s_shh2_re73:(MAP:survival) PMID:16571352</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="27216.56" y="20875.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa38_shh1_shh2_sa38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 2</p> <p>HUGO:GLI2 HGNC:4318 ENTREZ:2736 UNIPROT:P10070 GENECARDS:GLI2 KEGG:2736 ATLASONC:GC_GLI2 WIKI:GLI2</p> <p>Map modules:</p> 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value="" variable=""/> <bbox w="10.0" h="10.0" x="27196.55" y="20813.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa399_rc_csa399" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase7*:XIAP</p> </body> </html> </notes> <label text="Caspase7*:XIAP"/> <bbox w="100.0" h="120.0" x="24717.727" y="13486.724"/> <glyph class="macromolecule" id="s_id_rc_sa3951_rc_sa3951"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24727.727" y="13496.724"/> <glyph class="state variable" id="_a51999d0-d130-4f72-b7de-f530b4893f85"> <state value="?" variable="S87"/> <bbox w="30.0" h="10.0" x="24769.676" y="13491.724"/> </glyph> <glyph class="state variable" id="_f67e8c2d-9e56-444a-b763-3d8eb4662c92"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24746.158" y="13491.724"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3953_rc_sa3953"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 7, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP7 HGNC:1508 ENTREZ:840 UNIPROT:P55210</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="Caspase7*"/> <bbox w="80.0" h="40.0" x="24727.727" y="13536.724"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2388_in_sa2388" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="ETS1"/> <bbox w="70.0" h="25.0" x="19540.0" y="4652.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa144_rc_sa144" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15380 KEGGCOMPOUND:C00091 CAS:604-98-8</p> </body> </html> </notes> <label text="succinyl-CoA"/> <bbox w="70.0" h="25.0" x="18241.81" y="14721.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa16_wnc1_wnc4_csa16" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC_sub_TRUNC_endsub_*:HTID1_40_kDA_isoform*</p> <p>References:</p> <p>s_wnc4_re44(MAP:survival):</p> <p>The 40 kDa isoform has high affinity for cleaved APC, this results in decreased apoptsis</p> <p>PMID:19900451</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa16_wnc1_wnc4_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19900451"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APCTRUNC*:HTID1_40_kDA_isoform*"/> <bbox w="100.0" h="120.0" x="18431.06" y="21143.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa128_wnc1_wnc4_sa128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DnaJ (Hsp40) homolog, subfamily A, member 3</p> <p>HUGO:DNAJA3 HGNC:11808 ENTREZ:9093 UNIPROT:Q96EY1 GENECARDS:DNAJA3 KEGG:9093 ATLASONC:DNAJA3ID40342ch16p13 WIKI:DNAJA3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Different splice isoforms: Tid50, Tid48 and Tid46 are present in the cytosol and Tid43, Tid40 and Tid38 translocate into the mitochondrium</p> </body> </html> </notes> <label text="HTID1_40_kDA_isoform*"/> <bbox w="80.0" h="40.0" x="18439.06" y="21197.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa129_wnc1_wnc4_sa129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>"adenomatosis polyposis coli"</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC</p> <p>Map modules:</p> </body> </html> </notes> <label text="APCTRUNC*"/> <bbox w="80.0" h="40.0" x="18438.81" y="21155.0"/> <glyph class="unit of information" id="_8366f0c9-1038-4f25-b27e-5566fc727b3b"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18453.81" y="21150.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1176_in_sa1176" compartmentRef="s_id_in_ca12_in_ca12"> <label text="S100A9"/> <bbox w="80.0" h="40.0" x="13070.0" y="2125.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa292_mo_sa292" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0SRY (sex determining region Y)-box 2 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0SRY (sex determining region Y)-box 2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa292_mo_sa292"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOX2"/> <clone/> <bbox w="70.0" h="25.0" x="3511.0" y="10919.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa292_emtc_em_sa1910" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0SRY (sex determining region Y)-box 2 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0SRY (sex determining region Y)-box 2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa292_emtc_em_sa1910"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOX2"/> <clone/> <bbox w="70.0" h="25.0" x="4612.0" y="17073.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa128_mo_sa128" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>SMAD family member 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa128_mo_sa128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2_3*"/> <bbox w="80.0" h="40.0" x="4952.7856" y="10252.786"/> <glyph class="state variable" id="_6d36849a-1e0f-418f-9540-862ce9e94f42"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5001.854" y="10247.786"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2485_in_sa2485" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CD36"/> <bbox w="90.0" h="25.0" x="16147.5" y="1945.6274"/> <glyph class="unit of information" id="_c6a7cc7f-30d4-46e6-8a99-bc9ef9940222"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="16182.5" y="1940.6274"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa78_mpk1_mpk1_csa78" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IL1R1:IRAK1:MYD88:TRAF6</p> </body> </html> </notes> <label text="IL1R1:IRAK1:MYD88:TRAF6"/> <bbox w="190.0" h="85.0" x="10479.057" y="19175.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa447_mpk1_mpk1_sa447"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid differentiation primary response 88</p> <p>"myeloid differentiation primary response gene (88)"</p> <p>HUGO:MYD88 HGNC:7562 ENTREZ:4615 UNIPROT:Q99836</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>The IL-1R/IL-1RAcP heterodimer recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="MYD88"/> <bbox w="56.0" h="25.0" x="10519.557" y="19209.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa449_mpk1_mpk1_sa449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 6 E3 ubiquitin protein ligase</p> <p>"TNF receptor-associated factor 6"</p> <p>HUGO:TRAF6 HGNC:12036 ENTREZ:7189 UNIPROT:Q9Y4K3</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon recruitment to the IL-1R complex IRAK1 binds TRAF6 forming a MyD88-IRAK1-TRAF6 complex analogous to the TNFR-associated complex of TRADD RIP and TRAF2.</p> </body> </html> </notes> <label text="TRAF6"/> <bbox w="50.0" h="25.0" x="10571.557" y="19183.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa448_mpk1_mpk1_sa448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin-1 receptor-associated kinase 1</p> <p>HUGO:IRAK1 HGNC:6112 ENTREZ:3654 UNIPROT:P51617</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Similar to RIP recruitment by TRADD the death domain of receptor-bound MyD88 binds IRAK1.</p> </body> </html> </notes> <label text="IRAK1"/> <bbox w="50.0" h="25.0" x="10575.557" y="19209.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa594_mpk1_mpk1_sa594"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor type I</p> <p>IL1R IL1RA</p> <p>HUGO:IL1R1 HGNC:5993 ENTREZ:3554 UNIPROT:P14778</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>IL-1 likely requires TRAF6 to signal to the SAPKs. IL-1 binding to its receptor (IL-1R) triggers heterodimerisation of IL-1R with IL-1RAcP (not modelled) a transmembrane protein necessary for IL-1 signal transduction. The IL-1R/IL-1RAcP heterodimer then recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="IL1R1"/> <bbox w="50.0" h="25.0" x="10521.515" y="19185.0"/> <glyph class="unit of information" id="_a486c40d-67b3-4dc6-9942-1ae3a6694e36"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10524.015" y="19180.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa98_ca_csa98" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RAS*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> </body> </html> </notes> <label text="ca_s4558"/> <bbox w="100.0" h="120.0" x="5000.0" y="2630.0"/> <glyph class="simple chemical" id="s_id_ca_sa855_ca_sa855"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="5015.0" y="2697.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa852_ca_sa852"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NRAS proto-oncogene, GTPase</p> <p>HUGO:NRAS hgnc_id:HGNC:7989 HGNC:7989 ENTREZ:4893 UNIPROT:P01111 </p> <p>KRAS proto-oncogene, GTPase</p> <p>HUGO:KRAS hgnc_id:HGNC:6407 HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>HRas proto-oncogene, GTPase</p> <p>HUGO:HRAS hgnc_id:HGNC:5173 HGNC:5173 ENTREZ:3265 UNIPROT:P01112</p> <p>Map modules:</p> <p>MODULE:CORE </p> <p>References:</p> <p>CASCADE:FGF, CASCADE:EGFR</p> <p>GASCADE:IGF1R</p> <p>PMID:12419216</p> <p>FGF activares RAS in fibroblasts</p> <p>PMID:16227978</p> <p>Ras GTPases comprise a large family of mostly membrane-resident proteins that shuttle between an inactive GDP-bound and active GTP-bound conformation105. The best-characterized family members are K-Ras, H-Ras and N-Ras.</p> <p>RasGTP can bind to a number of effector molecules, including the serine/threonine kinase Raf, phosphatidylinositol 3-kinase, RalGDS and others106. RasGTP recruits these proteins to the membrane compartment, which is crucial for their activation and signalling function. All three Raf family members, A-Raf, B-Raf and Raf-1, bind RasGTP as the first step in their activation process. Whereas RasGTP association might suffice to activate B-Raf, both Raf-1 and A-Raf undergo a complex series of activation steps that have not been entirely elucidated and involve changes in phosphorylation levels and protein interactions. For recent reviews on Raf isoforms and their activation mechanisms see Refs 1–3. All Raf isoforms can activate MAPK and ERK kinase (MEK) by phosphorylating two serines in the MEK ACTIVATION LOOP,</p> <p>PMID:10567412; PMID:15567848</p> <p>EGFR activates ERK via GRB2/SOS/RAS/RAF pathway</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="80.0" h="40.0" x="5010.0" y="2640.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa139_in_csa139" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KLRB1:CLEC2D "/> <bbox w="100.0" h="120.0" x="10625.0" y="1510.0"/> <glyph class="macromolecule" id="s_id_in_sa878_in_sa878"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="KLRB1"/> <bbox w="80.0" h="50.0" x="10635.0" y="1565.0"/> <glyph class="unit of information" id="_61edeceb-b25d-4b9e-bab5-df5acf2c73b8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10652.5" y="1560.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa879_in_sa879"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CLEC2D"/> <bbox w="80.0" h="40.0" 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compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:IL1PMID:23567181inhibition of NF-κB signaling, driving expression of CXCL1 and CXCL2 in skin CAFs resulted in decreased macrophage infiltration into transplanted skin tumors, and reduced tumor growth, indicating a central role for CAFs in facilitating the trafficking of macrophages into tumorsPMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFsprobably downstream of IL1B via NFkB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:IL1PMID:23567181inhibition of NF-κB signaling, driving expression of CXCL1 and CXCL2 in skin CAFs resulted in decreased macrophage infiltration into transplanted skin tumors, and reduced tumor growth, indicating a central role for CAFs in facilitating the trafficking of macrophages into tumorsPMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFsprobably downstream of IL1B via NFkB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa173_ca_sa173"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL1"/> </rdf:Bag> 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<p>NAME:VEGFA:VEGFR2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:11166270</p> <p>VEGF stands for the vascular Endothelial Growth Factor family of ligands and receptors is crucial for vascular development and neovascularization in physiological and pathological processes in both embryos, and in adults</p> <p>VEGFR2 is highly specific towards VEGFA.</p> <p>VEGFR2 is activated through ligand-stimulated receptor dimerization and transphosphorylation (autophosphorylation) of tyrosine residues in the cytoplasmic kinase domain. </p> <p>A total of four major autophosphorylation sites have been identified in VEGFR2, Y951, Y996, Y1054 and Y1059. </p> <p>Y951 and 996 are in the kinase insert region, and Y1054 and 1059 are in the kinase domain</p> <p>PMID:13678960</p> <p>Upon ligation, VEGF-receptors dimerize, autophosphorylate and, thereby transduce signals that direct cellular functions.</p> <p>VEGFR2 is expressed in both vascular endothelial and lymphatic endothelial cells. </p> <p>Its expression has also been demonstrated in several other cell types such as megakaryocytes and haematopoietic stemm cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa154_emtc_em_csa154"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11166270"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13678960"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFA/VEGFR2*"/> <bbox w="60.0" h="80.0" x="6690.0" y="17261.5"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa884_emtc_em_sa884"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase insert domain receptor (a type III receptor tyrosine kinase)</p> <p>HUGO:KDR, HGNC:6307, ENTREZ:3791, GENECARDS:GC04M055944, UNIPROT:P35968</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21081489</p> <p>MiR-200b Regulates Ets-1-associated Genes</p> <p>Suppression of endogenous miR-200b induced MMP-1 and VEGFR2 expressions</p> <p>Overexpression of Ets-1 did not completely reverse miR- 200b-associated MMP-1 and VEGFR2 down-regulation. </p> <p>It indicates that miR-200b, apart from targeting Ets-1, might silence other target proteins involved in transcription of the indicated genes.</p> <p>PMID:11166270</p> <p>VEGFR2 is highly specific towards VEGFA.</p> <p>PMID:11741095</p> <p>PMID:13678960</p> <p>However VEGFR2 also binds to processed forms of VEGF-C, D, E.</p> <p>VEGFR2 is expressed in both vascular endothelial and lymphatic endothelial cells. </p> <p>Its expression has also been demonstrated in several other cell types such as megakaryocytes and haematopoietic stemm cells.</p> <p>PMID:15501236</p> <p>PMID:14739162</p> <p>Although Endothelial cells express both receptors VEGFR1 and VEGFR2, only VEGFR2 is able to mediate angiogenic effects of VEGFA</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="VEGFR2*"/> <bbox w="60.0" h="40.0" x="6691.0" y="17285.5"/> <glyph class="unit of information" id="_93f06877-2db4-465d-9063-b2b3847fccc0"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6711.0" y="17280.5"/> </glyph> <glyph class="state variable" id="_a18f48da-e0e2-4835-b467-0cc69f4260eb"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="6683.5" y="17281.045"/> </glyph> <glyph class="unit of information" id="_86a5bc84-5550-49bb-a1ce-e4d72cc2779a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6698.5" y="17280.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa883_emtc_em_sa883"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vascular endothelial growth factor A</p> <p>HUGO:VEGFA, HGNC:12680, ENTREZ:7422, GENECARDS:GC06P043737, UNIPROT:P15692</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:9157999</p> <p>VEGF increased the level of ETS1 mRNA in human umbifical vein endothelial cells and lung microvascular endothelial cells over 5-fold.</p> <p>Protein levels were shown to increase concordantly.</p> <p>PMID:15111329</p> <p>VEGF is a predominant angiogenic factor that mediates ocular neovascularization. </p> <p>VEGF is increased by hypoxia, which is one of the primary stimuli for ocular neovascularization.</p> <p>VEGF induces Ets-1 expression in bovine retinal endothelial cells and its expression is PKC/ERK pathway-dependent. </p> <p>Ets-1 up-regulation is involved in the development of retinal neovascularization, and inhibition of Ets-1 may be beneficial in the treatment of ischemic ocular diseases</p> <p>PMID:11166270</p> <p>VEGF stands for the vascular Endothelial Growth Factor family of ligands and receptors is crucial for vascular development and neovascularization in physiological and pathological processes in both embryos, and in adults</p> <p>PMID:13678960</p> <p>VEGFs belong to a family of homodimeric glycoproteins that containts five members (VEGF-A, B, C, D, and Placenta growth factor PLGF).</p> <p>VEGFs bind to 3 different VEGF-receptor tyrosine kinases (VEGFR-1, 2, 3).</p> <p>Upon ligation, VEGF-receptors dimerize, autophosphorylate and, thereby transduce signals that direct cellular functions.</p> <p>PMID:10022831</p> <p>PMID:15501236</p> <p>VEGFA is a homodimer that exists in five different isoforms comprising 121, 145, 165, 189, and 206 amino acids per chain.</p> <p>The isoforms differ in their ability to bind heparan sulfate proteoglycans in the extracellular matrix (ECM).</p> <p>In adult Endothelial cells, VEGFA exhibits high affinity binding to tyrosine kinase receptors, VEGFR1 and VEGFR2.</p> <p>Although ECs express both receptors, recent findings suggest that only VEGFR2 is able to mediate angiogenic effects of VEGFA</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:22349261</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="40.0" h="20.0" x="6703.0" y="17263.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4696_rc_sa4696" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4696_rc_sa4696"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FASLG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="20579.06" y="15859.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa96_rc_csa96" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:2-oxoglutarate:CUL2:O_sub_2_endsub_:RACK1*:RBX1:TCEB1:TCEB2:VHL</p> </body> </html> </notes> <label text="HIF1A_E3 ligase"/> <bbox w="260.0" h="124.0" x="24839.06" y="15417.0"/> <glyph class="macromolecule" id="s_id_rc_sa1171_rc_sa1171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription elongation factor B (SIII), polypeptide 2 (18kDa, elongin B)</p> <p>HUGO:TCEB2 HGNC:11619 ENTREZ:6923 UNIPROT:Q15370</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>subunit B</p> </body> </html> </notes> <label text="TCEB2"/> <bbox w="80.0" h="40.0" x="24931.06" y="15470.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1172_rc_sa1172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:RACK1</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="25014.06" y="15470.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1159_rc_sa1159"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="O2"/> <bbox w="70.0" h="25.0" x="24926.06" y="15441.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1168_rc_sa1168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="25012.06" y="15426.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1170_rc_sa1170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C)</p> <p>HUGO:TCEB1 HGNC:11617 ENTREZ:6921 UNIPROT:Q15369</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>subunit C</p> </body> </html> </notes> <label text="TCEB1"/> <bbox w="80.0" h="40.0" x="24929.06" y="15426.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1169_rc_sa1169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 2</p> <p>HUGO:CUL2 HGNC:2552 ENTREZ:8453 UNIPROT:Q13617</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="CUL2"/> <bbox w="80.0" h="40.0" x="24846.06" y="15470.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1162_rc_sa1162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16810 KEGGCOMPOUND:C00026 CAS:64-15-3</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="2-oxoglutarate"/> <bbox w="70.0" h="25.0" x="24894.06" y="15481.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1167_rc_sa1167"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>von Hippel-Lindau tumor suppressor, E3 ubiquitin protein ligase</p> <p>HUGO:VHL HGNC:12687 ENTREZ:7428 UNIPROT:P40337</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="VHL"/> <bbox w="80.0" h="40.0" x="24845.06" y="15425.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa369_rc_csa369" compartmentRef="s_id_rc_ca16_rc_ca16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BARD1:BRCA1:BRCC3:FAM175A:UIMC1</p> </body> </html> </notes> <label text="BRCA1-A"/> <bbox w="101.0" h="243.0" x="18705.56" y="16362.0"/> <glyph class="macromolecule" id="s_id_rc_sa3520_rc_sa3520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin interaction motif containing 1</p> <p>HUGO:UIMC1 HGNC:30298 ENTREZ:51720 UNIPROT:Q96RL1</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:RAP80</p> </body> </html> </notes> <label text="UIMC1"/> <bbox w="80.0" h="40.0" x="18715.0" y="16455.943"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3521_rc_sa3521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1/BRCA2-containing complex, subunit 3</p> <p>HUGO:BRCC3 HGNC:24185 ENTREZ:79184 UNIPROT:P46736</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:BRCC36</p> </body> </html> </notes> <label text="BRCC3"/> <bbox w="80.0" h="40.0" x="18716.0" y="16498.943"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3519_rc_sa3519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1 HGNC:1100 ENTREZ:672 UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="18716.14" y="16367.839"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3518_rc_sa3518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 175, member A</p> <p>HUGO:FAM175A HGNC:25829 ENTREZ:84142 UNIPROT:Q6UWZ7</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:Abraxas synonym:ABRA1 synonym:CCDC98</p> </body> </html> </notes> <label text="FAM175A"/> <bbox w="80.0" h="40.0" x="18716.0" y="16411.943"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3522_rc_sa3522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1 associated RING domain 1</p> <p>HUGO:BARD1 HGNC:952 ENTREZ:580 UNIPROT:Q99728</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="BARD1"/> <bbox w="80.0" h="40.0" x="18716.0" y="16541.943"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa96_mpk1_mpk1_csa96" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K5:TXN</p> </body> </html> </notes> <label text="MAP3K5:TXN"/> <bbox w="107.0" h="85.0" x="10878.057" y="19494.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa514_mpk1_mpk1_sa514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 5</p> <p>MEKK5</p> <p>HUGO:MAP3K5 HGNC:6857 ENTREZ:4217 UNIPROT:Q99683</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1 and the consequently liberalised ASK1 binds to TRAF2. Finally TRAF2 appears to activate ASK1 (by phosphorylation) by enhancing and stabilising the oligomerisation of ASK1.</p> </body> </html> </notes> <label text="MAP3K5"/> <bbox w="76.0" h="25.0" x="10895.557" y="19529.334"/> <glyph class="state variable" id="_53ab4019-83a4-4c2c-b71a-dfd0146d498b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10890.557" y="19536.834"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa513_mpk1_mpk1_sa513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>thioredoxin</p> <p>HUGO:TXN HGNC:12435 ENTREZ:7295 UNIPROT:P10599</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1 and the consequently liberalised ASK1 binds to TRAF2. Finally TRAF2 appears to activate ASK1 (by phosphorylation) by enhancing and stabilising the oligomerisation of ASK1.</p> </body> </html> </notes> <label text="TXN"/> <bbox w="50.0" h="25.0" x="10906.557" y="19503.334"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa874_ad_sa874" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HIGO:IL2RA</p> <p>CELL:TREG</p> <p>MODULE:TCR_SIGNALING</p> <p> PMID:15032588</p> <p>CD25 is a marker of TREG</p> <p>PMID:16799562 </p> <p>Thymic generation of Treg cells requires TAK1</p> <p>Foxp3 and Cd25 mRNA was also much lower in TAK1-deficient CD4 SP thymocytes, indicating that the reduced Foxp3 and CD25 were a result of decreased expression of their mRNA</p> <p>PMID:10820393, PMID:24829413</p> <p>The IL-2R is composed of three different subunits,</p> <p>IL-2R alpha (CD25), IL-2/15R beta (CD122) and gamma (CD131)</p> <p>PMID:17371980</p> <p>AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa874_ad_sa874"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15032588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799562"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10820393"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24829413"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17371980"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL2RA"/> <bbox w="190.0" h="145.0" x="27821.0" y="7907.5"/> <glyph class="unit of information" id="_3ca450ab-aeac-447b-baf4-cc25466c1871"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27893.5" y="7902.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa63_ad_csa63" compartmentRef="s_id_ad_ca9_ad_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>PMID:23886063; PMID:9738502</p> <p>For a successful T cell activation the TcR signal alone is insufficient, a second, co-stimulatory signaling is also necessary The immunological synapse (A.Kupfer and M. Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal linker proteins (such as talin) . Proteins with large extracellular domains, including protein-tyrosine phosphatase CD45 and glycoproteins CD44 and CD43, accumulate in the distal SMAC (d).</p> <p>PMID:10591186; PMID:14676297</p> <p> LFA-1 physically associates with DNAM-1 in NK cells and anti-CD3 mAb stimulated T cells, for which serine phosphorylation of DNAM-1 plays a critical role.</p> <p>CD226 (DNAM-1) Is Involved in Lymphocyte Function–associated Antigen 1 Costimulatory Signal for Naive T Cell Differentiation and Proliferation</p> <p>Upon antigen recognition by the T cell receptor, lymphocyte function–associated antigen 1 (LFA-1) physically associates with the leukocyte adhesion molecule CD226 (DNAM-1) and the protein tyrosine kinase Fyn. </p> <p>proliferation induced by LFA-1 costimulatory signal was suppressed in mutant (Y-F322) CD226-transduced naive CD4+ and CD8+ T cells in the absence of IL-2. These results suggest that CD226 is involved in LFA-1–mediated costimulatory signals for triggering naive T cell differentiation and proliferation. </p> <p>PMID:24337740</p> <p>DNAM-1 interacts with LFA-1, a critical molecule for immunological synapse formation between T cells and APCs, and for cytotoxic killing of target cells. Mice that lack DNAM-1 display abnormal T cell responses and antitumor activity; </p> <p>DNAM-1 deficiency results in reduced proliferation of CD8+ T cells after Ag presentation and impaired cytotoxic activity. We also demonstrate that DNAM-1–deficient T cells show reduced conjugations with tumor cells and decreased recruitment of both LFA-1 and lipid rafts to the immunological synapse, which correlates with reduced tumor cell killing in vitro. This synapse defect may explain why DNAM-1–deficient mice cannot clear tumors in vivo, and highlights the importance of DNAM-1 and the immunological synapse in T cell–mediated antitumor immunity.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa63_ad_csa63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10591186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14676297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24337740"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LFA1"/> <bbox w="100.0" h="130.0" x="29376.0" y="2530.0"/> <glyph class="macromolecule" id="s_id_ad_sa611_ad_sa611"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ITGB2</p> <p>MODULE:SMAC</p> <p>PMID:2150484</p> </body> </html> </notes> <label text="CD18*"/> <bbox w="80.0" h="50.0" x="29386.0" y="2535.0"/> <glyph class="unit of information" id="_805dcef1-c369-48ee-b5d1-0513b52a470a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29403.5" y="2530.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa612_ad_sa612"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ITGAL</p> <p>MODULE:SMAC</p> <p>PMID:2150484</p> </body> </html> </notes> <label text="CD11a*"/> <bbox w="80.0" h="50.0" x="29386.0" y="2585.0"/> <glyph class="unit of information" id="_de26a3a2-7d44-46a8-8815-68cadd86b2dd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29403.5" y="2580.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa8_akt1_akt2_csa8" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PP2A_A*:PP2A_B*:PP2A_C*</p> <p>References:</p> <p>s_akt2_re27(MAP:survival):</p> <p>PMID:16680151</p> <p>PMID:20452955</p> <p>PMID:19216069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa8_akt1_akt2_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16680151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20452955"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19216069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PP2A)"/> <clone/> <bbox w="97.0" h="149.0" x="12890.061" y="21796.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa54_akt1_akt2_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A </p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R1B HGNC:9303 ENTREZ:5519 UNIPROT:P30154 GENECARDS:PPP2R1B REACTOME:49127 KEGG:5519 ATLASONC:GC_PPP2R1B WIKI:PPP2R1B </p> <p>PP2A-Aalpha, PR65A, "protein phosphatase 2, 65kDa regulatory subunit A", "protein phosphatase 2A, regulatory subunit A, alpha isoform"</p> <p>protein phosphatase 2, regulatory subunit A, beta</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18559511</p> <p>PMID:10026142</p> </body> </html> </notes> <label text="PP2A_A*"/> <clone/> <bbox w="80.0" h="40.0" x="12899.061" y="21802.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa55_akt1_akt2_sa55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label text="PP2A_C*"/> <clone/> <bbox w="80.0" h="40.0" x="12899.061" y="21841.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa56_akt1_akt2_sa56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A </p> <p>P63151</p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R2B HGNC:9305 ENTREZ:5521 UNIPROT:Q00005 GENECARDS:PPP2R2B KEGG:5521 ATLASONC:GC_PPP2R2B WIKI:PPP2R2B </p> <p>Q00005</p> <p>protein phosphatase 2 regulatory subunit B gamma</p> <p>HUGO:PPP2R2C HGNC:9306 ENTREZ:5522 UNIPROT:Q9Y2T4 GENECARDS:PPP2R2C KEGG:5522 ATLASONC:GC_PPP2R2C WIKI:PPP2R2C </p> <p>Q9Y2T4</p> <p>protein phosphatase 2 regulatory subunit B delta</p> <p>HUGO:PPP2R2D HGNC:23732 ENTREZ:55844 UNIPROT:Q66LE6 GENECARDS:PPP2R2D REACTOME:217408 KEGG:55844 ATLASONC:GC_PPP2R2D WIKI:PPP2R2D </p> <p>Q66LE6</p> <p>PP2A 55 kDa regulatory subunit B beta isoform</p> <p>PP2A 55 kDa regulatory subunit B gamma isoform</p> <p>PP2A 55 kDa regulatory subunit B delta isoform</p> <p>PP2A 72/130 kDa regulatory subunit B</p> <p>HUGO:PPP2R3A HGNC:9307 ENTREZ:5523 UNIPROT:Q06190 GENECARDS:PPP2R3A KEGG:5523 ATLASONC:GC_PPP2R3A WIKI:PPP2R3A </p> <p>PP2A 48 kDa regulatory subunit B</p> <p>HUGO:PPP2R3B HGNC:13417 ENTREZ:28227 UNIPROT:Q9Y5P8 GENECARDS:PPP2R3B REACTOME:49140 KEGG:28227 ATLASONC:GC_PPP2R3B WIKI:PPP2R3B </p> <p>PP2A regulatory subunit B'' subunit gamma</p> <p>HUGO:PPP2R3C HGNC:17485 ENTREZ:55012 UNIPROT:Q969Q6 GENECARDS:PPP2R3C KEGG:55012 WIKI:PPP2R3C </p> <p>PP2A regulatory subunit B'</p> <p>HUGO:PPP2R4 HGNC:9308 ENTREZ:5524 UNIPROT:Q15257 GENECARDS:PPP2R4 KEGG:5524 ATLASONC:PPP2R4ID41817ch9q34 WIKI:PPP2R4 </p> <p>PP2A 56 kDa regulatory subunit alpha isoform</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A </p> <p>PP2A 56 kDa regulatory subunit beta isoform</p> <p>HUGO:PPP2R5B HGNC:9310 ENTREZ:5526 UNIPROT:Q15173 GENECARDS:PPP2R5B REACTOME:405832 KEGG:5526 ATLASONC:GC_PPP2R5B WIKI:PPP2R5B </p> <p>PP2A 56 kDa regulatory subunit gamma isoform</p> <p>HUGO:PPP2R5C HGNC:9311 ENTREZ:5527 UNIPROT:Q13362 GENECARDS:PPP2R5C REACTOME:405599 KEGG:5527 ATLASONC:GC_PPP2R5C WIKI:PPP2R5C </p> <p>PP2A 56 kDa regulatory subunit delta isoform</p> <p>HUGO:PPP2R5D HGNC:9312 ENTREZ:5528 UNIPROT:Q14738 GENECARDS:PPP2R5D REACTOME:405743 KEGG:5528 ATLASONC:GC_PPP2R5D WIKI:PPP2R5D </p> <p>PP2A 56 kDa regulatory subunit epsilon isoform</p> <p>HUGO:PPP2R5E HGNC:9313 ENTREZ:5529 UNIPROT:Q16537 GENECARDS:PPP2R5E REACTOME:49121 ATLASONC:GC_PPP2R5E WIKI:PPP2R5E</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> </body> </html> </notes> <label text="PP2A_B*"/> <clone/> <bbox w="80.0" h="40.0" x="12900.061" y="21880.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa8_akt1_akt2_csa9" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PP2A_A*:PP2A_B*:PP2A_C*</p> <p>References:</p> <p>s_akt2_re27(MAP:survival):</p> <p>PMID:16680151</p> <p>PMID:20452955</p> <p>PMID:19216069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa8_akt1_akt2_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16680151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20452955"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19216069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PP2A)"/> <clone/> <bbox w="97.0" h="149.0" x="12890.561" y="21595.5"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa54_akt1_akt2_sa57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A </p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R1B HGNC:9303 ENTREZ:5519 UNIPROT:P30154 GENECARDS:PPP2R1B REACTOME:49127 KEGG:5519 ATLASONC:GC_PPP2R1B WIKI:PPP2R1B </p> <p>PP2A-Aalpha, PR65A, "protein phosphatase 2, 65kDa regulatory subunit A", "protein phosphatase 2A, regulatory subunit A, alpha isoform"</p> <p>protein phosphatase 2, regulatory subunit A, beta</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18559511</p> <p>PMID:10026142</p> </body> </html> </notes> <label text="PP2A_A*"/> <clone/> <bbox w="80.0" h="40.0" x="12899.561" y="21601.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa55_akt1_akt2_sa58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label text="PP2A_C*"/> <clone/> <bbox w="80.0" h="40.0" x="12899.561" y="21640.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa56_akt1_akt2_sa59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A </p> <p>P63151</p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R2B HGNC:9305 ENTREZ:5521 UNIPROT:Q00005 GENECARDS:PPP2R2B KEGG:5521 ATLASONC:GC_PPP2R2B WIKI:PPP2R2B </p> <p>Q00005</p> <p>protein phosphatase 2 regulatory subunit B gamma</p> <p>HUGO:PPP2R2C HGNC:9306 ENTREZ:5522 UNIPROT:Q9Y2T4 GENECARDS:PPP2R2C KEGG:5522 ATLASONC:GC_PPP2R2C WIKI:PPP2R2C </p> <p>Q9Y2T4</p> <p>protein phosphatase 2 regulatory subunit B delta</p> <p>HUGO:PPP2R2D HGNC:23732 ENTREZ:55844 UNIPROT:Q66LE6 GENECARDS:PPP2R2D REACTOME:217408 KEGG:55844 ATLASONC:GC_PPP2R2D WIKI:PPP2R2D </p> <p>Q66LE6</p> <p>PP2A 55 kDa regulatory subunit B beta isoform</p> <p>PP2A 55 kDa regulatory subunit B gamma isoform</p> <p>PP2A 55 kDa regulatory subunit B delta isoform</p> <p>PP2A 72/130 kDa regulatory subunit B</p> <p>HUGO:PPP2R3A HGNC:9307 ENTREZ:5523 UNIPROT:Q06190 GENECARDS:PPP2R3A KEGG:5523 ATLASONC:GC_PPP2R3A WIKI:PPP2R3A </p> <p>PP2A 48 kDa regulatory subunit B</p> <p>HUGO:PPP2R3B HGNC:13417 ENTREZ:28227 UNIPROT:Q9Y5P8 GENECARDS:PPP2R3B REACTOME:49140 KEGG:28227 ATLASONC:GC_PPP2R3B WIKI:PPP2R3B </p> <p>PP2A regulatory subunit B'' subunit gamma</p> <p>HUGO:PPP2R3C HGNC:17485 ENTREZ:55012 UNIPROT:Q969Q6 GENECARDS:PPP2R3C KEGG:55012 WIKI:PPP2R3C </p> <p>PP2A regulatory subunit B'</p> <p>HUGO:PPP2R4 HGNC:9308 ENTREZ:5524 UNIPROT:Q15257 GENECARDS:PPP2R4 KEGG:5524 ATLASONC:PPP2R4ID41817ch9q34 WIKI:PPP2R4 </p> <p>PP2A 56 kDa regulatory subunit alpha isoform</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A </p> <p>PP2A 56 kDa regulatory subunit beta isoform</p> <p>HUGO:PPP2R5B HGNC:9310 ENTREZ:5526 UNIPROT:Q15173 GENECARDS:PPP2R5B REACTOME:405832 KEGG:5526 ATLASONC:GC_PPP2R5B WIKI:PPP2R5B </p> <p>PP2A 56 kDa regulatory subunit gamma isoform</p> <p>HUGO:PPP2R5C HGNC:9311 ENTREZ:5527 UNIPROT:Q13362 GENECARDS:PPP2R5C REACTOME:405599 KEGG:5527 ATLASONC:GC_PPP2R5C WIKI:PPP2R5C </p> <p>PP2A 56 kDa regulatory subunit delta isoform</p> <p>HUGO:PPP2R5D HGNC:9312 ENTREZ:5528 UNIPROT:Q14738 GENECARDS:PPP2R5D REACTOME:405743 KEGG:5528 ATLASONC:GC_PPP2R5D WIKI:PPP2R5D </p> <p>PP2A 56 kDa regulatory subunit epsilon isoform</p> <p>HUGO:PPP2R5E HGNC:9313 ENTREZ:5529 UNIPROT:Q16537 GENECARDS:PPP2R5E REACTOME:49121 ATLASONC:GC_PPP2R5E WIKI:PPP2R5E</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> </body> </html> </notes> <label text="PP2A_B*"/> <clone/> <bbox w="80.0" h="40.0" x="12900.561" y="21679.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa9_wnc1_wnc2_sa9" compartmentRef="s_id_wnc1_wnc2_ca5_wnc1_wnc2_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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class="complex" id="s_id_emtc_em_csa175_emtc_em_csa175" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin3*:Claudin5*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Claudin 3/Claudin 5*"/> <bbox w="122.0" h="36.0" x="1038.0" y="15449.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1225_emtc_em_sa1225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claudin 3</p> <p>HUGO:CLDN3, HGNC:2045, ENTREZ:1365, GENECARDS:GC07M073183, UNIPROT:O15551</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin3*"/> <bbox w="60.0" h="16.0" x="1040.5" y="15450.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1226_emtc_em_sa1226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 5</p> <p>HUGO:CLDN5, HGNC:2047, ENTREZ:7122, UNIPROT:O00501, GENECARDS:GC22M019510</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin5*"/> <bbox w="61.0" h="16.0" x="1097.5" y="15450.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2096_em_sa2096" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:17533374</p> <p>HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expression</p> <p>PMID:26548401</p> <p>IL-8 exerts its effect by binding to the IL-8Rs, which are</p> <p>two heterotrimeric G protein-coupled receptors, CXCR1 and CXCR2.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<label text="ad_s94"/> <bbox w="100.0" h="110.0" x="26506.0" y="4360.0"/> <glyph class="macromolecule" id="s_id_ad_sa718_ad_sa718"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RAC1</p> <p>HUGO:RAC2</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING, MODULE:TH1</p> <p>PMID:10714681</p> <p> PKCθ is regulated by Vav1, a guanine nucleotide exchange factor for Rac and Cdc42 that plays an important role in T cell development and activation46. Thus, a dominant negative PKCθ mutant blocked a number of growth signals, which are normally induced by overexpression of Vav1, namely, activation of JNK, the IL-2 gene promoter and NFAT or AP-1 reporter genes. Conversely, a dominant negative Vav1 mutant did not significantly inhibit the same signaling events induced by a constitutively active PKCθ mutant46, tentatively placing PKCθ downstream of Vav1 in these growth signaling pathways.</p> <p>Vav promoted PKCθ translocation from the cytosol to the membrane and cytoskeleton and induced its enzymatic activation in a CD3/CD28-initiated pathway that was dependent on Rac and on actin cytoskeleton reorganization. These findings reveal that the Vav/Rac pathway promotes the recruitment of PKCθ to the T cell synapse and its activation, essential processes for T cell activation and IL-2 production.</p> <p>PMID:15184873 </p> <p>The action of Vav and Rac1 proteins on RasGRP1 is specifically dependent on PLCG activity</p> <p>The effect of the Vav/Rac pathway on RasGRP1 is independent of the kinase activity of PI3-K</p> <p>Vav and Rac1 proteins promote constitutive tyrosine phosphorylation and increased membrane localization of PLC- in Jurkat cells</p> <p>The interaction between Vav and RasGRP1 results in enhanced activation of Ras- and Rac-dependent biological responses</p> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="26516.0" y="4365.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa717_ad_sa717"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="63.0" h="27.0" x="26524.75" y="4411.875"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4875_rc_sa4875" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="GCN4"/> <bbox w="80.0" h="40.0" x="27839.998" y="15799.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa121_akt1_akt2_sa121" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa121_akt1_akt2_sa121"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="13125.561" y="20902.0"/> <glyph class="state variable" id="_341b7bbd-5d34-4707-adb6-ca9046772800"> <state value="P" variable="T380"/> <bbox w="35.0" h="10.0" x="13108.064" y="20897.0"/> </glyph> <glyph class="state variable" id="_e0919623-996d-4dd3-b6da-694bee001492"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13120.564" y="20937.0"/> </glyph> <glyph class="state variable" id="_bae58a8a-4ed6-4443-b707-bc62af8b9495"> <state value="P" variable="S384"/> <bbox w="35.0" h="10.0" x="13188.061" y="20897.213"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1115_ad_sa1115" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGCASCADE:TCRPMID:16200688; PMID:15282297 Phosphorylation of p38 after TCR stimulation was enhanced in anergic CD4+ T cells over that in naive CD4+ T cells, which showed limited phosphorylation. In contrast, the phosphorylation of ERK and JNK in anergic CD4+ T cells was severely reduced, consistent with the previous report of T cells that were anergized in vitroT-cell proliferation is inhibited by p38 MAPK activity in anergic CD4+ T cells. The production of IL-2 is inhibited by p38 activity in anergic CD4+ T cells, while IL-10 production is p38 dependentPMID:26013006 IL-27 stimulation of Tregs induced expression of Lag3qPCR analysis confirmed that IL-27 upregulated Tbx21, Lag3, Ccl3, Ccl4, and Il10 expression ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGCASCADE:TCRPMID:16200688; PMID:15282297 Phosphorylation of p38 after TCR stimulation was enhanced in anergic CD4+ T cells over that in naive CD4+ T cells, which showed limited phosphorylation. In contrast, the phosphorylation of ERK and JNK in anergic CD4+ T cells was severely reduced, consistent with the previous report of T cells that were anergized in vitroT-cell proliferation is inhibited by p38 MAPK activity in anergic CD4+ T cells. 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id="s_id_ad_sa1309_ad_sa1309" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CELL:TCD4MODULE:TCR_SIGNALINGPMID:11160275T cell prolipheration is dependent on IL2 and IL4IκBα(ΔN) inhibition of the NF-κB/Rel pathway impairs the competence of T cells to respond to IL-4 growth signaling.the inhibitory effects of IκBα(ΔN) on IL-4 signaling pathways include decreased expression of selected target genes such as c-myc, IL4RA and IL2RBPMID:11371360GADD45B was also highly expressed in TH1 versus TH2 cellsthe expression of this gene is both upregulated by TCR signaling and IL-12 but repressed by IL-4.PMID:1825141; PMID:2965306The stacks contact the plasma membrane (Stinchcombe et al., 2006), which would lead to very focused secretion of cytokines. 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ENOS*"/> <bbox w="80.0" h="40.0" x="28269.06" y="10479.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa209_emtc_em_sa209" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa209_emtc_em_sa209"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFBR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFBR1"/> <bbox w="52.0" h="45.0" x="6697.344" y="16098.633"/> <glyph class="unit of information" id="_0cfebc7c-006e-4c9e-8d1c-b33fabf8d200"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6713.344" y="16093.633"/> </glyph> <glyph class="state variable" id="_e405bbc2-3152-4507-9792-13aae98f20d5"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="6684.844" y="16094.679"/> </glyph> <glyph class="state variable" id="_972eb377-6a78-4bec-9220-f56037ad30d9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6744.344" y="16093.875"/> </glyph> <glyph class="unit of information" id="_751a4645-dc87-4a52-9d21-d7da56fe3039"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6700.844" y="16093.633"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa459_in_sa459" compartmentRef="s_id_in_ca13_in_ca13"> <label text="ITGA4"/> <bbox w="80.0" h="50.0" x="16727.5" y="1505.0"/> <glyph class="unit of information" id="_c1962725-d56a-4e4f-8d71-9109ffdeff05"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16745.0" y="1500.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa528_emtc_em_sa528" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa528_emtc_em_sa528"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL1A2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COL1A2"/> <bbox w="53.0" h="19.0" x="5268.75" y="18535.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa33_wnc1_wnc1_csa33" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:RGS3</p> <p>References:</p> <p>s_wnc1_re56(MAP:survival):</p> <p>PMID:20347994</p> <p>PMID:10862767</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa33_wnc1_wnc1_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20347994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10862767"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:RGS3"/> <bbox w="100.0" h="122.0" x="16615.06" y="18260.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa213_wnc1_wnc1_sa213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RGS3 HGNC:9999 ENTREZ:5998 UNIPROT:P49796 GENECARDS:RGS3 KEGG:5998 ATLASONC:GC_RGS3 WIKI:RGS3 </p> <p>regulator of G-protein signaling 4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="RGS3"/> <bbox w="80.0" h="40.0" x="16624.06" y="18312.0"/> <glyph class="state variable" id="_54791f2d-6ce7-4949-ab69-4b466a5f06c6"> <state value="P" variable="S264"/> <bbox w="35.0" h="10.0" x="16686.56" y="18318.78"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa212_wnc1_wnc1_sa212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="16625.06" y="18272.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa51_akt1_akt1_csa51" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:MAPKAP1:MLST8:MTOR:PROTOR*:RICTOR</p> </body> </html> </notes> <label text="(mTORC2)"/> <bbox w="179.0" h="183.0" x="12137.561" y="17870.375"/> <glyph class="macromolecule" id="s_id_akt1_sa700_akt1_sa700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> <p>PMID:11274345</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="12227.061" y="18004.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa286_akt1_akt1_sa286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="12146.061" y="17877.125"/> <glyph class="state variable" id="_78ef9bd9-717b-450c-82fc-f8e6922c7c90"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="12126.061" y="17911.072"/> </glyph> <glyph class="state variable" id="_fe36853a-8dfd-4258-8a03-c2d520d2a7a9"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12205.143" y="17872.125"/> </glyph> <glyph class="state variable" id="_7e8ef66a-b953-4278-bee9-503153959965"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="12207.942" y="17912.125"/> </glyph> <glyph class="state variable" id="_5d9cfbe4-9f06-44b1-8265-394b17f898b6"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="12131.061" y="17892.125"/> </glyph> <glyph class="state variable" id="_21401870-16dd-41f8-bbd9-c25131d83d86"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="12132.096" y="17872.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa287_akt1_akt1_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mitogen-activated protein kinase associated protein 1</p> <p>HUGO:MAPKAP1 HGNC:18752 ENTREZ:79109 UNIPROT:Q9BPZ7 GENECARDS:MAPKAP1 REACTOME:413323 KEGG:79109 ATLASONC:GC_MAPKAP1 WIKI:MAPKAP1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="12144.061" y="17920.375"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa292_akt1_akt1_sa292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="12227.561" y="17961.875"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa290_akt1_akt1_sa290"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12227.311" y="17917.375"/> <glyph class="state variable" id="_a58f8659-7c77-4e8c-85e5-b5c37fd1bd5b"> <state value="P" variable="T1135"/> <bbox w="40.0" h="10.0" x="12226.871" y="17952.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa288_akt1_akt1_sa288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PROTOR</p> <p>HUGO:PRR5 HGNC:31682 ENTREZ:55615 UNIPROT:P85299 GENECARDS:PRR5 KEGG:55615 ATLASONC:GC_PRR5 WIKI:PRR5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PROTOR*"/> <bbox w="80.0" h="40.0" x="12144.811" y="17961.625"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa289_akt1_akt1_sa289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12229.311" y="17875.125"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2466_emtc_em_sa2466" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2466_emtc_em_sa2466"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFA"/> <bbox w="72.0" h="16.0" x="2740.0" y="16995.0"/> <glyph class="unit of information" id="_9a7da9c7-bcf3-43c6-b1b0-7cae0e92258e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2766.0" y="16990.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2407_in_sa2407" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="STAB1"/> <bbox w="70.0" h="25.0" x="10423.75" y="528.125"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa428_te_sa428" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RNA polymerase II associated protein 3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:22923768 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa428_te_sa428"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPAP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22923768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RPAP3"/> <bbox w="80.0" h="40.0" x="5778.3545" y="22395.059"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3747_rc_sa3747" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3747_rc_sa3747"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALOX5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALOX5"/> <bbox w="80.0" h="40.0" x="21089.06" y="10839.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1132_ce_sa1132" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1132_ce_sa1132"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC25A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC25A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC25A"/> <bbox w="90.0" h="25.0" x="15248.269" y="9884.862"/> <glyph class="unit of information" id="_8d98f057-3e9e-45e0-88ae-561ae401b627"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15283.269" y="9879.862"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4606_rc_sa4606" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4606_rc_sa4606"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR375"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR375"/> <bbox w="90.0" h="25.0" x="24588.06" y="15634.5"/> <glyph class="unit of information" id="_eb5f3687-7453-4320-b5ac-7adaa742ebb8"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24618.06" y="15629.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1345_ad_sa1345" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTSCELL:CD4CELL:TREGPMID:17449799 In mice, the enzyme is present on virtually all CD4(+)CD25(+) cells. CD39 expression is driven by the Treg-specific transcription factor Foxp3 and its catalytic activity is strongly enhanced by T-cell receptor (TCR) ligation. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTSCELL:CD4CELL:TREGPMID:17449799 In mice, the enzyme is present on virtually all CD4(+)CD25(+) cells. CD39 expression is driven by the Treg-specific transcription factor Foxp3 and its catalytic activity is strongly enhanced by T-cell receptor (TCR) ligation. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1345_ad_sa1345"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENTPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17449799"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENTPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17449799"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD39*"/> <bbox w="90.0" h="25.0" x="27101.0" y="2517.5"/> <glyph class="unit of information" id="_6bcc42b9-b4c7-4f1b-9340-7942c41d9c6e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27136.0" y="2512.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1291_rc_sa1291" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1291_rc_sa1291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GNB2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="21988.06" y="11929.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa7_wnc1_wnc4_csa7" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PP2A_A*:PP2A_B*:PP2_C*</p> <p>References:</p> <p>s_wnc4_re15:(MAP:survival) PMID:19131971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa7_wnc1_wnc4_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PP2A)"/> <bbox w="269.0" h="69.0" x="18282.06" y="21779.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa45_wnc1_wnc4_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2, catalytic subunit, alpha isozyme</p> <p>PP2Calpha, "protein phosphatase 2A catalytic subunit, alpha isoform"</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>protein phosphatase 2, catalytic subunit, beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PP2_C*"/> <bbox w="80.0" h="40.0" x="18374.56" y="21789.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa46_wnc1_wnc4_sa46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A </p> <p>P63151</p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R2B HGNC:9305 ENTREZ:5521 UNIPROT:Q00005 GENECARDS:PPP2R2B KEGG:5521 ATLASONC:GC_PPP2R2B WIKI:PPP2R2B </p> <p>Q00005</p> <p>protein phosphatase 2 regulatory subunit B gamma</p> <p>HUGO:PPP2R2C HGNC:9306 ENTREZ:5522 UNIPROT:Q9Y2T4 GENECARDS:PPP2R2C KEGG:5522 ATLASONC:GC_PPP2R2C WIKI:PPP2R2C </p> <p>Q9Y2T4</p> <p>protein phosphatase 2 regulatory subunit B delta</p> <p>HUGO:PPP2R2D HGNC:23732 ENTREZ:55844 UNIPROT:Q66LE6 GENECARDS:PPP2R2D REACTOME:217408 KEGG:55844 ATLASONC:GC_PPP2R2D WIKI:PPP2R2D </p> <p>Q66LE6</p> <p>PP2A 55 kDa regulatory subunit B beta isoform</p> <p>PP2A 55 kDa regulatory subunit B gamma isoform</p> <p>PP2A 55 kDa regulatory subunit B delta isoform</p> <p>PP2A 72/130 kDa regulatory subunit B</p> <p>HUGO:PPP2R3A HGNC:9307 ENTREZ:5523 UNIPROT:Q06190 GENECARDS:PPP2R3A KEGG:5523 ATLASONC:GC_PPP2R3A WIKI:PPP2R3A </p> <p>PP2A 48 kDa regulatory subunit B</p> <p>HUGO:PPP2R3B HGNC:13417 ENTREZ:28227 UNIPROT:Q9Y5P8 GENECARDS:PPP2R3B REACTOME:49140 KEGG:28227 ATLASONC:GC_PPP2R3B WIKI:PPP2R3B </p> <p>PP2A regulatory subunit B'' subunit gamma</p> <p>HUGO:PPP2R3C HGNC:17485 ENTREZ:55012 UNIPROT:Q969Q6 GENECARDS:PPP2R3C KEGG:55012 WIKI:PPP2R3C </p> <p>PP2A regulatory subunit B'</p> <p>HUGO:PPP2R4 HGNC:9308 ENTREZ:5524 UNIPROT:Q15257 GENECARDS:PPP2R4 KEGG:5524 ATLASONC:PPP2R4ID41817ch9q34 WIKI:PPP2R4 </p> <p>PP2A 56 kDa regulatory subunit alpha isoform</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A </p> <p>PP2A 56 kDa regulatory subunit beta isoform</p> <p>HUGO:PPP2R5B HGNC:9310 ENTREZ:5526 UNIPROT:Q15173 GENECARDS:PPP2R5B REACTOME:405832 KEGG:5526 ATLASONC:GC_PPP2R5B WIKI:PPP2R5B </p> <p>PP2A 56 kDa regulatory subunit gamma isoform</p> <p>HUGO:PPP2R5C HGNC:9311 ENTREZ:5527 UNIPROT:Q13362 GENECARDS:PPP2R5C REACTOME:405599 KEGG:5527 ATLASONC:GC_PPP2R5C WIKI:PPP2R5C </p> <p>PP2A 56 kDa regulatory subunit delta isoform</p> <p>HUGO:PPP2R5D HGNC:9312 ENTREZ:5528 UNIPROT:Q14738 GENECARDS:PPP2R5D REACTOME:405743 KEGG:5528 ATLASONC:GC_PPP2R5D WIKI:PPP2R5D </p> <p>PP2A 56 kDa regulatory subunit epsilon isoform</p> <p>HUGO:PPP2R5E HGNC:9313 ENTREZ:5529 UNIPROT:Q16537 GENECARDS:PPP2R5E REACTOME:49121 ATLASONC:GC_PPP2R5E WIKI:PPP2R5E</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> </body> </html> </notes> <label text="PP2A_B*"/> <bbox w="80.0" h="40.0" x="18456.06" y="21789.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa44_wnc1_wnc4_sa44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A </p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R1B HGNC:9303 ENTREZ:5519 UNIPROT:P30154 GENECARDS:PPP2R1B REACTOME:49127 KEGG:5519 ATLASONC:GC_PPP2R1B WIKI:PPP2R1B </p> <p>PP2A-Aalpha, PR65A, "protein phosphatase 2, 65kDa regulatory subunit A", "protein phosphatase 2A, regulatory subunit A, alpha isoform"</p> <p>protein phosphatase 2, regulatory subunit A, beta</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18559511</p> <p>PMID:10026142</p> </body> </html> </notes> <label text="PP2A_A*"/> <bbox w="80.0" h="40.0" x="18293.06" y="21789.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2568_emtc_em_sa2568" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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variable" id="_c76e6460-17f9-4a13-95ca-59be4b47cd8f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27396.0" y="7060.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa352_rc_csa352" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Ca2+:NOX5</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="NOX5"/> <bbox w="116.0" h="85.0" x="24143.06" y="10894.0"/> <glyph class="simple chemical" id="s_id_rc_sa3282_rc_sa3282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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text="receptor"/> <bbox w="45.0" h="10.0" x="12977.5" y="1525.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1370_ad_sa1370" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>PMID:24484736 In Tregs, Foxp3 modulates GITR expression: ectopic expression of Foxp3 in initially GITRlo CD4+CD25− cells confers both suppressive activity and high-level GITR expression [17]. In conventional T cells, GITR is reciprocally regulated by classical nuclear factor κB (NF-κB; RelA most critical, but cRel and p50 are also important) and nuclear factor of activated T cells (NFAT), with NF-κB inducing and NFAT repressing GITR expression downstream of TCR signals ----- content merged by Celldesigner to SBGN-ML translation ------ PMID:24484736 In Tregs, Foxp3 modulates GITR expression: ectopic expression of Foxp3 in initially GITRlo CD4+CD25− cells confers both suppressive activity and high-level GITR expression [17]. In conventional T cells, GITR is reciprocally regulated by classical nuclear factor κB (NF-κB; RelA most critical, but cRel and p50 are also important) and nuclear factor of activated T cells (NFAT), with NF-κB inducing and NFAT repressing GITR expression downstream of TCR signals </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1370_ad_sa1370"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24484736"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2111_in_sa2111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <bbox w="80.0" h="40.0" x="18681.0" y="3700.0"/> <glyph class="state variable" id="_5816e518-051a-4fe9-975c-e60742522973"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18673.5" 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFAT*"/> <bbox w="61.0" h="24.0" x="9448.224" y="20440.0"/> <glyph class="state variable" id="_f3c2969b-489d-4cd9-a0ce-25bf1e1d148f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9443.224" y="20447.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1084_ce_sa1084" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1084_ce_sa1084"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTTG1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Securin*"/> <bbox w="80.0" h="40.0" x="10531.203" y="10637.068"/> <glyph class="state variable" id="_46b338cc-ed56-43c2-8f38-d328ea6c3bc5"> <state value="" variable="S165"/> <bbox w="30.0" h="10.0" x="10527.694" y="10632.068"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa28_rc_csa28" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cytochrome_C*:cardiolipin</p> </body> </html> </notes> <label text="ferroCYCS"/> <clone/> <bbox w="100.0" h="120.0" x="19681.81" y="14019.33"/> <glyph class="macromolecule" id="s_id_rc_sa2247_rc_sa2247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <clone/> <bbox w="80.0" h="40.0" x="19692.81" y="14035.0"/> <glyph class="state variable" id="_6b8213d3-9cbe-4500-99ef-a43236a2cb17"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="19705.31" y="14030.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa391_rc_sa391"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:28494</p> </body> </html> </notes> <label text="cardiolipin"/> <clone/> <bbox w="70.0" h="25.0" x="19696.81" y="14080.33"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa28_rc_csa299" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cytochrome_C*:cardiolipin</p> </body> </html> </notes> <label text="ferroCYCS"/> <clone/> <bbox w="100.0" h="120.0" x="20985.81" y="13539.0"/> <glyph class="macromolecule" id="s_id_rc_sa2247_rc_sa2561"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <clone/> <bbox w="80.0" h="40.0" x="20996.088" y="13553.259"/> <glyph class="state variable" id="_ae0d10c6-c006-4d07-9bd2-98354dc3eb3f"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="21008.588" y="13548.259"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa391_rc_sa2560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:28494</p> </body> </html> </notes> <label text="cardiolipin"/> <clone/> <bbox w="70.0" h="25.0" x="21000.81" y="13600.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa2_shh1_shh3_csa2" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha__sub_i_endsub_*:G_beta_*:G_gamma_*:HH Ligand:PTCH*:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re2(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:18815277</p> <p>s_shh3_re5(MAP:survival):</p> <p>PMID:17430994</p> <p>PMID:21474452</p> <p>PMID:20081366</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa2_shh1_shh3_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474452"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081366"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ptc_HH_ligand_Smo"/> <bbox w="340.0" h="179.0" x="26399.56" y="22386.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa25_shh1_shh3_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="80.0" h="40.0" x="26489.56" y="22477.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa26_shh1_shh3_sa26"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="80.0" h="40.0" x="26571.56" y="22477.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa7_shh1_shh3_sa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="26654.06" y="22390.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa6_shh1_shh3_sa6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="78.0" h="114.0" x="26651.06" y="22402.0"/> <glyph class="unit of information" id="_e4b575b4-f015-4757-be25-8e2abfff3b74"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26667.56" y="22397.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh3_sa74_shh1_shh3_sa74"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="30.0" h="30.0" x="26434.56" y="22515.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa8_shh1_shh3_sa8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Smoothened</p> <p>HUGO:SMO HGNC:11119 ENTREZ:6608 UNIPROT:Q99835 GENECARDS:SMO REACTOME:64670 KEGG:6608 ATLASONC:GC_SMO WIKI:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18820483</p> <p>PMID:17641202</p> </body> </html> </notes> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26569.56" y="22431.0"/> <glyph class="state variable" id="_ffcc216a-5e2b-44a7-9d4f-503377e55236"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26644.56" y="22426.0"/> </glyph> <glyph class="state variable" id="_8aa600f4-36f3-437d-8577-4c1d590c442d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26644.56" y="22426.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa24_shh1_shh3_sa24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gαi*"/> <bbox w="80.0" h="40.0" x="26408.56" y="22478.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2813_rc_sa2813" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:28862</p> </body> </html> </notes> <label text="dGDP"/> <bbox w="70.0" h="25.0" x="19674.06" y="11497.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1757_rc_sa1757" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1757_rc_sa1757"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD"/> <bbox w="80.0" h="40.0" x="23059.06" y="13059.0"/> <glyph class="state variable" id="_d29b0a44-e472-4770-82ce-7c94d7e78bd0"> <state value="active" variable=""/> <bbox w="40.0" h="10.0" x="23079.06" y="13054.0"/> </glyph> <glyph class="state variable" id="_2cbeaaeb-743c-4509-939b-8d0af63594bd"> <state value="?" variable="S91"/> <bbox w="30.0" h="10.0" x="23101.01" y="13054.0"/> </glyph> <glyph class="state variable" id="_af8fbbc9-48b9-461b-9aa2-915d8fc1338d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23077.656" y="13054.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa34_wnc1_wnc2_csa34" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB1:TAB2:TAK1*</p> <p>References:</p> <p>s_wnc2_re53:(MAP:survival) PMID:19136967</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa34_wnc1_wnc2_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB1:TAB2:TAK1*"/> <bbox w="187.0" h="125.0" x="18801.686" y="18303.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa180_wnc1_wnc2_sa180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="18811.686" y="18313.5"/> <glyph class="state variable" id="_77a2f942-143e-4620-add8-3c367812879d"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="18797.178" y="18308.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa182_wnc1_wnc2_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>MAP3K7IP2 "mitogen-activated protein kinase kinase kinase 7 interacting protein 2"</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 GENECARDS:TAB2 REACTOME:168084 KEGG:23118 ATLASONC:GC_TAB2 WIKI:TAB2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB2"/> <bbox w="80.0" h="40.0" x="18895.686" y="18313.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa181_wnc1_wnc2_sa181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 GENECARDS:TAB1 REACTOME:65612 KEGG:10454 ATLASONC:GC_TAB1 WIKI:TAB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB1"/> <bbox w="80.0" h="40.0" x="18811.686" y="18354.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa309_in_csa309" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa309_in_csa309"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12194823"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYOSIN_IIA"/> <bbox w="100.0" h="170.0" x="18900.0" y="6475.0"/> <glyph class="macromolecule multimer" id="s_id_in_sa2250_in_sa2250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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text="p120*"/> <bbox w="80.0" h="40.0" x="17704.56" y="20718.5"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2159_em_sa2159" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2159_em_sa2159"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO4"/> <bbox w="51.0" h="23.0" x="3617.0" y="14625.0"/> </glyph> <glyph 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x="5665.0" y="6491.0"/> <glyph class="state variable" id="_a542459d-a210-454d-a479-9b94010bc815"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5716.5684" y="6486.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa11_wnc1_wnc1_csa11" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:E-Cadherin*:FZD*:GTP:G_alpha_*:G_beta_*:G_gamma_*:LRP5_6*:WNT*:p120*</p> <p>References:</p> <p>s_wnc1_re19(MAP:survival):</p> <p>PMID:21727895</p> <p>PMID:21909076</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa11_wnc1_wnc1_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21727895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909076"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:E-Cadherin*:FZD*:GTP:Gα*:Gβ*:Gγ*:LRP5_6*:WNT*:p120*"/> <bbox w="238.0" h="189.0" x="15879.061" y="17663.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa71_wnc1_wnc1_sa71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15913.061" y="17677.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa65_wnc1_wnc1_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16031.061" y="17787.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa66_wnc1_wnc1_sa66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 11 (Gq class) </p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12 </p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 5Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="15886.061" y="17791.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa61_wnc1_wnc1_sa61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15894.061" y="17695.0"/> <glyph class="unit of information" id="_fbb8bc32-68b0-45e1-b83a-50ee6dd27480"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15911.561" y="17690.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa70_wnc1_wnc1_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="15899.561" y="17809.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa62_wnc1_wnc1_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="15894.061" y="17739.0"/> <glyph class="unit of information" id="_9a1e57e5-94e8-4e67-8b24-c891c7013e52"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15911.561" y="17734.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa63_wnc1_wnc1_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="55.0" h="105.0" x="15976.061" y="17676.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa68_wnc1_wnc1_sa68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="15968.311" y="17791.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa67_wnc1_wnc1_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="15927.311" y="17791.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa64_wnc1_wnc1_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="16031.061" y="17746.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1045_ce_sa1045" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4454_rc_sa3857"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase8*"/> <clone/> <bbox w="80.0" h="40.0" x="24499.06" y="9349.0"/> <glyph class="state variable" id="_d333a7ee-7daf-47ae-8b73-94e62e773982"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24494.06" y="9355.716"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa93_in_sa93" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MHC class I*"/> <bbox w="90.0" h="25.0" x="23035.0" y="6135.0"/> <glyph class="unit of information" id="_3ef34fd4-785a-4bb5-8c2b-e85f4d6cd82b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23070.0" y="6130.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa123_ad_csa123" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5335"/> <bbox w="100.0" h="120.0" x="28146.0" y="4240.0"/> <glyph class="simple chemical" id="s_id_ad_sa1037_ad_sa1037"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18784374, PMID:23077238</p> <p>PKC-theta requires DAG for activation. DAG is generated by PLCG through enzymatic cleavage of PIP2</p> <p>PMID:25456276 </p> <p>Functional activation of the T-cell antigen receptor induces tyrosine phosphorylation of phospholipase C-gamma 1.</p> <p>The exception is T-cell receptor activation, which is linked to PLCG1, not PLCG2.</p> <p>PLCγ enzymes are mainly activated through tyrosine </p> <p>phosphorylation by receptor and non-receptor kinases. As in all other PLC families, </p> <p>the main signaling output is generation of the second messengers inositol 1,4,5-</p> <p>trisphosphate (IP3, or InsP3) and diacylglycerol (DAG), from phosphatidylinositol 4,5-</p> <p>bisphosphate (PIP2, or PtdIns(4,5)P2). The released IP3 binds to IP3 receptors on the </p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="28161.0" y="4257.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1035_ad_sa1035"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RASGRP1</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10807788; PMID:24027568; PMID:14764585 </p> <p> RasGRP, a Ras activator that contains calcium-binding EF hands and a DAG-binding domain, is expressed in T cells. A PLC-gamma1 inhibitor diminished activation of Ras following TCR stimulation. Membranes from TCR-stimulated Jurkat T cells exhibited increased RasGRP and increased Ras-guanyl nucleotide association activity that was inhibited by antibodies directed against RasGRP. Overexpression of RasGRP in T cells enhanced TCR-Ras-Erk signaling and augmented interleukin-2 secretion in response to calcium ionophore plus DAG analogues phorbol ester myristate or bryostatin-1. Thus, RasGRP links TCR and PLC-gamma1 to Ras-Erk signaling, a pathway amenable to pharmacologic manipulation.</p> <p>Biochemical Synergy between SOS1 and RasGRP1 in Ras activation</p> <p>both the phosphorylation of ERK and the activation of Ras were reduced by treatment with U73122 (PLCG inhibitor) to a level similar to that observed in Vav1–/– cells</p> <p>In contrast to the effects of U73122, treatment of wild-type DP thymocytes with BAPTA, which blocks the intracellular calcium flux by chelating Ca2+, had no effect on TCR-induced ERK phosphorylation</p> <p>PMID:15184873 </p> <p>The action of Vav and Rac1 proteins on RasGRP1 is specifically dependent on PLCG activity</p> <p>The effect of the Vav/Rac pathway on RasGRP1 is independent of the kinase activity of PI3-K</p> <p>Vav and Rac1 proteins promote constitutive tyrosine phosphorylation and increased membrane localization of PLC- in Jurkat cells</p> </body> </html> </notes> <label text="RASGRP1"/> <bbox w="80.0" h="40.0" x="28156.0" y="4290.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa448_ad_sa448" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11698448</p> <p>LIMK1 is a serine/threonine kinase that phosphorylates and inactivates the actin-depolymerization factor cofilin, thereby regulating actin cytoskeletal reorganization.</p> <p>LIMK1 phosphorylates CLF1 (cofilin) downstream of killer cell-activating receptors via RHOA/ROCK1 pathway.</p> <p>Inhibition of the p160ROCK/LIMK1 pathway results in decreased actin polymerization at the effector/target interface.</p> <p>PMID:11093160</p> <p>Following co-stimulation through accessory receptors (e.g. CD2 or CD28) - however, not following TCR/CD3 stimulation alone - cofilin undergoes dephosphorylation. The subcellular localization as well as the actin-binding activity of cofilin are regulated by the phosphorylation state of serine-3. Thus, only the dephosphorylated form of cofilin associates with the actin cytoskeleton and possesses the capability to translocate into the nucleus. Recently, LIM-kinase 1 was shown to inactivate cofilin through phosphorylation. Here, we have identified the functional counterparts of LIM-kinase 1: the serine/threonine phosphatases of type 1 and type 2A not only associate with cofilin but also dephosphorylate this 19-kDa protein and thereby mediate cofilin activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa448_ad_sa448"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Hedgehog ligand molecule</p> <p>s_shh1_re79(MAP:survival):</p> <p>PMID:10050855</p> <p>PMID:16571352</p> <p>s_shh1_re80:(MAP:survival) PMID:18477453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa2_shh1_shh1_sa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10050855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="heme"/> <bbox w="70.0" h="25.0" x="18065.06" y="12547.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2243_rc_sa2243"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aminolevulinate, delta-, synthase 1</p> <p>HUGO:ALAS1 HGNC:396 ENTREZ:211 UNIPROT:P13196</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:RCD_GENES, MODULE:PORPHYRIN_METABOLISM</p> </body> </html> </notes> <label text="ALAS1"/> <bbox w="80.0" h="40.0" x="18058.06" y="12496.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa136_in_csa136" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KIR2DL2:HLA-C"/> <bbox w="100.0" h="130.0" x="11145.0" y="1605.0"/> <glyph class="macromolecule" id="s_id_in_sa870_in_sa870"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="KIR2DL2"/> <bbox w="80.0" h="50.0" x="11155.0" y="1660.0"/> <glyph class="unit of information" id="_d61477a2-8ad5-4cec-a3d9-282abc16bb53"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11172.5" y="1655.0"/> </glyph> </glyph> 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAQ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAZ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*"/> <clone/> <bbox w="90.0" h="25.0" x="15235.769" y="11046.0"/> <glyph class="unit of information" id="_418bbf77-4237-4450-b508-043f1b9adecf"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15270.769" y="11041.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1146_rc_sa4604" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="p52"/> <bbox w="80.0" h="40.0" x="20150.0" y="4195.0"/> <glyph class="unit of information" id="_9591b831-3649-4c48-9da5-cf4ae27189e7"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20165.0" y="4190.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1139_rc_sa1139" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1139_rc_sa1139"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT5*"/> <bbox w="80.0" h="40.0" x="23314.06" y="16384.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2339_in_sa2339" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <p>MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> </body> </html> </notes> <label text="JAK3"/> <clone/> <bbox w="80.0" h="40.0" x="9760.0" y="4895.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2339_in_sa1844" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <p>MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> </body> </html> </notes> <label text="JAK3"/> <clone/> <bbox w="80.0" h="40.0" x="23565.0" y="4940.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2339_in_sa1203" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <p>MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> </body> </html> </notes> <label text="JAK3"/> <clone/> <bbox w="80.0" h="40.0" x="14350.0" y="1915.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2339_in_sa1205" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <p>MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> </body> </html> </notes> <label text="JAK3"/> <clone/> <bbox w="80.0" h="40.0" x="14350.0" y="2005.0"/> </glyph> <glyph class="unspecified entity" id="s_id_wca1_wca3_sa67_wca1_wca3_sa67" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca3_re8(MAP:survival):</p> <p>MEK/ERK cascade activation is the upstream signal required for phosphorylation.</p> <p>PMID:21751375</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa67_wca1_wca3_sa67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21751375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Unknown kinase"/> <clone/> <bbox w="70.0" h="25.0" x="22578.06" y="21069.5"/> </glyph> <glyph class="unspecified entity" id="s_id_wca1_wca3_sa67_akt1_akt2_sa78" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca3_re8(MAP:survival):</p> <p>MEK/ERK cascade activation is the upstream signal required for phosphorylation.</p> <p>PMID:21751375</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa67_akt1_akt2_sa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21751375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Unknown kinase"/> <clone/> <bbox w="70.0" h="25.0" x="13141.061" y="20582.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2083_emtc_em_sa2083" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2083_emtc_em_sa2083"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NEURL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NEURL"/> <bbox w="53.0" h="18.0" x="930.0" y="14222.0"/> </glyph> <glyph class="complex" id="s_id_te_csa16_te_csa16" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/SHQ1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa16_te_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/SHQ1"/> <bbox w="100.0" h="120.0" x="5481.06" y="22166.0"/> <glyph class="macromolecule" id="s_id_te_sa173_te_sa173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SHQ1, H/ACA ribonucleoprotein assembly factor</p> <p>HUGO:SHQ1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="SHQ1"/> <bbox w="80.0" h="40.0" x="5491.06" y="22176.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa174_te_sa174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="5491.06" y="22226.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4860_rc_sa4860" compartmentRef="s_id_rc_ca42_rc_ca42"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa187_wca1_wca3_sa187"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT3"/> <bbox w="70.0" h="25.0" x="20823.06" y="22404.072"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa26_akt1_akt2_csa26" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO3:promoter_region</p> <p>References:</p> <p>s_akt2_re80:(MAP:survival) PMID15084260</p> </body> </html> </notes> <label text="FOXO3:promoter_region"/> <bbox w="100.0" h="110.0" x="12480.061" y="20631.0"/> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa165_akt1_akt2_sa165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="12494.061" y="20691.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa164_akt1_akt2_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 ATLASONC:AF6q21ID125 WIKI:FOXO3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16288288</p> </body> </html> </notes> <label text="FOXO3"/> <bbox w="80.0" h="40.0" x="12487.561" y="20642.5"/> <glyph class="state variable" id="_fae6b3c0-d0f8-4c65-b9e2-223e7834faee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12482.561" y="20650.838"/> </glyph> <glyph class="state variable" id="_9e4fc1f6-e485-459d-ae02-56f03daed8d6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12482.561" y="20655.057"/> </glyph> <glyph class="state variable" id="_8f572a4e-cee8-4280-9744-e53a53239d23"> <state value="P" variable="S644"/> <bbox w="35.0" h="10.0" x="12470.061" y="20677.22"/> </glyph> <glyph class="state variable" id="_b34fb820-492e-4d5e-ade5-c6e9fb10c371"> <state value="" variable="S253"/> <bbox w="30.0" h="10.0" x="12552.561" y="20676.633"/> </glyph> <glyph class="state variable" id="_7301f31e-4fea-4d71-ba99-c5901396ba12"> <state value="" variable="S315"/> <bbox w="30.0" h="10.0" x="12549.143" y="20637.5"/> </glyph> <glyph class="state variable" id="_b763e2d5-6fb6-408e-9a76-a74c4361ec41"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12522.593" y="20637.5"/> </glyph> <glyph class="state variable" id="_2a07409f-5c0a-41ce-ae8a-1980fb2801d0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12482.561" y="20646.008"/> </glyph> <glyph class="state variable" id="_3fb74cd5-8815-4b4b-938f-ac73f4d902fd"> <state value="" variable="T32"/> <bbox w="25.0" h="10.0" x="12475.061" y="20638.432"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa71_ca_csa71" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA3:ITGB1</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> </body> </html> </notes> <label text="ca_s4358"/> <clone/> <bbox w="100.0" h="120.0" x="7510.0" y="2380.0"/> <glyph class="macromolecule" id="s_id_ca_sa630_ca_sa630"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="7520.0" y="2380.0"/> <glyph class="unit of information" id="_681d5171-007e-4fd3-ae59-3b688a787c6c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7537.5" y="2375.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa632_ca_sa632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 3</p> <p>HUGO:ITGA3 hgnc_id:HGNC:6139 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:21666923 </p> <p>Integrin α3 blockade enhances microtopographical down-regulation of α-smooth muscle actin: role of microtopography in ECM regulation.</p> <p>PMID:18037882</p> <p>Integrin a3 and a5 are important in leading fibroblasts in SCC.</p> <p>siRNA against integrin 3 or integrin 5 in stromal fibroblasts would prevent the invasion of SCC cells and Figure 4C shows that siRNA-mediated depletion of either integrin 3 or integrin 5 in stromal fibroblasts, but not in SCC cells, reduced the collective invasion of SCC cells.</p> </body> </html> </notes> <label text="ITGA3"/> <clone/> <bbox w="80.0" h="50.0" x="7520.0" y="2415.0"/> <glyph class="unit of information" id="_d13d8f18-347f-4712-8434-fda09f463078"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7537.5" y="2410.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa71_ca_csa75" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA3:ITGB1</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> </body> </html> </notes> <label text="ca_s4358"/> <clone/> <bbox w="100.0" h="120.0" x="7310.0" y="2610.0"/> <glyph class="macromolecule" id="s_id_ca_sa630_ca_sa643"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="7320.0" y="2620.0"/> <glyph class="unit of information" id="_5d85d432-483e-43d5-8bac-d824c8f1be51"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7337.5" y="2615.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa632_ca_sa644"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 3</p> <p>HUGO:ITGA3 hgnc_id:HGNC:6139 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:21666923 </p> <p>Integrin α3 blockade enhances microtopographical down-regulation of α-smooth muscle actin: role of microtopography in ECM regulation.</p> <p>PMID:18037882</p> <p>Integrin a3 and a5 are important in leading fibroblasts in SCC.</p> <p>siRNA against integrin 3 or integrin 5 in stromal fibroblasts would prevent the invasion of SCC cells and Figure 4C shows that siRNA-mediated depletion of either integrin 3 or integrin 5 in stromal fibroblasts, but not in SCC cells, reduced the collective invasion of SCC cells.</p> </body> </html> </notes> <label text="ITGA3"/> <clone/> <bbox w="80.0" h="50.0" x="7320.0" y="2655.0"/> <glyph class="unit of information" id="_91a710f4-0ddd-434d-ab36-0f58149fa4e0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7337.5" y="2650.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4547_rc_sa4547" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4547_rc_sa4547"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP60*"/> <bbox w="90.0" h="25.0" x="20344.56" y="16073.5"/> <glyph class="unit of information" id="_b8ef1c11-e261-4f75-9697-addbeb0823ac"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20379.56" y="16068.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa131_wnc1_wnc1_sa131" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa131_wnc1_wnc1_sa131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HBEGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HB-EGF*"/> <bbox w="80.0" h="40.0" x="14605.061" y="18789.0"/> <glyph class="unit of information" id="_8c8e58a0-d079-436a-8112-bea62be2c590"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="14620.061" y="18784.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa475_rc_sa475" compartmentRef="s_id_rc_ca4_rc_ca2"> <label text="rc_s821"/> <bbox w="30.0" h="30.0" x="19750.81" y="13929.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1332_rc_sa1332" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1332_rc_sa1332"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIK"/> <bbox w="90.0" h="25.0" x="20467.06" y="16008.75"/> <glyph class="unit of information" id="_638967b7-6766-4b20-940b-96b911cb07b8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20502.06" y="16003.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3339_rc_sa3339" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3339_rc_sa3339"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase2*"/> <bbox w="80.0" h="40.0" x="18121.56" y="16184.0"/> <glyph class="state variable" id="_96b8c588-8557-4189-84c5-6712dacd32aa"> <state value="P" variable="S122"/> <bbox w="35.0" h="10.0" x="18161.01" y="16179.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1331_emtc_em_sa1331" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1331_emtc_em_sa1331"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="v-SRC*"/> <bbox w="54.0" h="21.0" x="1578.0" y="17616.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4370_rc_sa4370" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23846383</p> <p>PMID:23774579</p> <p>PMID:27754749</p> <p>PMID:27048813</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4370_rc_sa4370"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23774579"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<title/> </head> <body> <p>Charge: 0</p> <p>mitogen-activated protein kinase 1</p> <p>mitogen-activated protein kinase 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa159_mo_sa159"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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<label text="SLC25A6"/> <clone/> <bbox w="80.0" h="40.0" x="20706.06" y="14049.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa27_mo_sa27" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>forkhead box O1</p> <p>forkhead box O3Cytosolic rentetion</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa27_mo_sa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO*"/> <bbox w="80.0" h="40.0" x="3364.375" y="9794.625"/> <glyph class="state variable" id="_16411010-2486-43d7-82ae-7e84f3e4157c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3413.4436" y="9789.625"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa57_wca1_wca1_csa57" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JBN*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca1_re57(MAP:survival):</p> <p>PMID:19718039 PMID:21602792 </p> <p>In presence of WNT ligand</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa57_wca1_wca1_csa57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19718039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21602792"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JBN*:β-Catenin*"/> <bbox w="100.0" h="120.0" x="20836.56" y="17571.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa541_wca1_wca1_sa541"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Abelson helper integration site 1</p> <p>HUGO:AHI1 HGNC:21575 ENTREZ:54806 UNIPROT:Q8N157 GENECARDS:AHI1 KEGG:54806 ATLASONC:GC_AHI1 WIKI:AHI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19718039</p> </body> </html> </notes> <label text="JBN*"/> <bbox w="80.0" h="40.0" x="20847.56" y="17629.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa540_wca1_wca1_sa540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 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GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2507_emtc_em_sa2507"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2*"/> <bbox w="53.0" h="17.0" x="1814.0" y="18709.0"/> <glyph class="unit of information" id="_c54c9387-3198-4f4e-aac3-f5c34edd9b35"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1815.5" y="18704.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa215_rc_csa215" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAD:BCL2-XL*</p> </body> </html> </notes> <label text="BAD:BCL2L1"/> <bbox w="102.0" h="118.0" x="23180.06" y="13292.0"/> <glyph class="macromolecule" id="s_id_rc_sa1674_rc_sa1674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="23189.06" y="13349.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1675_rc_sa1675"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>there are at least 2 isoforms of BAD. Here, protein BAD refers to any of the different isoforms. Numbering of amino-acids, used for phosphorylation sites, are adjusted to the 'canonical' isoform as defined in Uniprot. 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa135_wca1_wca3_sa135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="21199.06" y="20842.5"/> <glyph class="state variable" id="_9076e850-6914-4e52-8102-22b249d11acb"> <state value="" variable="T184"/> <bbox w="30.0" h="10.0" x="21184.553" y="20837.5"/> </glyph> <glyph class="state variable" id="_e993a06d-9b44-4bc7-bc2f-cf6809074f0b"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="21264.06" y="20837.713"/> </glyph> <glyph class="state variable" id="_5121c8e4-9659-4810-b3c3-f2808c83018d"> <state value="" variable="S192"/> <bbox w="30.0" h="10.0" x="21263.441" y="20877.5"/> </glyph> <glyph class="state variable" id="_26581ff1-c011-4817-a9a0-ba8f9da136cc"> <state value="" variable="T178"/> <bbox w="30.0" h="10.0" x="21184.06" y="20877.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1413_in_sa1413" compartmentRef="s_id_in_ca13_in_ca13"> <label text="S1PR*"/> <bbox w="80.0" h="50.0" x="14882.5" y="1355.0"/> <glyph class="unit of information" id="_fc9fccda-5386-4a24-867c-fc4a31dc9c1b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14900.0" y="1350.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa372_an_sa372" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11532940</p> <p>PMID:11335727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa372_an_sa372"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11335727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREB*"/> <bbox w="80.0" h="40.0" x="5045.5" y="6782.0"/> <glyph class="state variable" id="_5d1d9fb9-ad4d-4a4a-8d6a-210edf4f0207"> <state value="" variable="S133"/> <bbox w="30.0" h="10.0" x="5086.0513" y="6777.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3592_rc_sa3592" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3592_rc_sa3592"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTSB"/> <bbox w="80.0" h="40.0" x="25628.56" y="15242.0"/> <glyph class="state variable" id="_07bd981d-2506-472a-85df-413797f9f32e"> <state value="Modification in lysosome " variable=""/> <bbox w="80.0" h="10.0" x="25628.56" y="15237.0"/> </glyph> <glyph class="state variable" id="_951929a0-08c5-4d24-aa78-89c300452c6a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25623.56" y="15257.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa10_mpk1_mpk1_csa10" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IMP*:KSR1:MEK*</p> </body> </html> </notes> <label text="IMP*:KSR1:MEK*"/> <bbox w="163.0" h="109.0" x="9689.561" y="19413.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa61_mpk1_mpk1_sa61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9792.561" y="19449.0"/> <glyph class="state variable" id="_e7f93d28-48cf-4b5f-b431-4d7fbb501661"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9787.561" y="19460.666"/> </glyph> <glyph class="state variable" id="_961682d8-62ae-4be6-a7f1-2c8f7a909f86"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9787.561" y="19452.127"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa146_mpk1_mpk1_sa146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1 associated protein</p> <p>HUGO:BRAP HGNC:1099 ENTREZ:8315 UNIPROT:Q7Z569</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>IMP (BRAP) is a RasGTP-interacting protein. It is constitutively bound to KSR1 blocking the enhancement of ERK activation (KSR1 is kept in an inactivated state) maybe recruiting KSR1 to microdomains inaccessible to activators of its function.</p> <p>This could be a mechanism to limit the engagement of ERK cascade in the absence of Ras activation.</p> </body> </html> </notes> <label text="IMP*"/> <bbox w="50.0" h="25.0" x="9697.561" y="19448.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa60_mpk1_mpk1_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is a scaffold protein for ERK cascade. It normally localises in the cytosol but after GF treatment it moves to the plasma membrane. Its interaction with MEK1/2 is constitutive. 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa924_ce_sa924"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAD2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAD2L2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAD2*"/> <bbox w="80.0" h="40.0" x="11401.77" y="13557.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa215_shh1_shh2_sa215" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa215_shh1_shh2_sa215"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMO"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26471.06" y="20110.0"/> <glyph class="state variable" id="_6ec1266c-fa9f-4b09-9eeb-d2a46ffe0c05"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26546.06" y="20105.0"/> </glyph> <glyph class="state variable" id="_3b0f8dc1-70b6-49f2-9259-26df4acce0e0"> <state value="" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1466_ce_sa1466"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="C_NHEJ_DNA_st3*"/> <bbox w="150.0" h="26.0" x="12742.974" y="16312.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa961_ad_sa961" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR, MODULE:TCR_SIGNALING</p> <p>PMID:17462996</p> <p>Humans and mice lacking functional caspase-8 in T cells manifest a profound immunodeficiency syndrome due to defective T cell antigen receptor (TCR)-induced NF-kappaB signaling and proliferation.</p> <p>following TCR ligation, a small portion of total cellular caspase-8 and c-FLIP(L) rapidly migrate to lipid rafts where they associate in an active caspase complex. Activation of caspase-8 in lipid rafts is followed by rapid cleavage of c-FLIP(L) at a known caspase-8 cleavage site. The active caspase.c-FLIP complex forms in the absence of Fas (CD95/APO1) and associates with the NF-kappaB signaling molecules RIP1, TRAF2, and TRAF6, as well as upstream NF-kappaB regulators PKC theta, CARMA1, Bcl-10, and MALT1, which connect to the TCR.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa961_ad_sa961"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<rdf:Description rdf:about="#s_id_rc_sa5337_rc_sa5337"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFRC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFRC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFRC"/> <bbox w="70.0" h="25.0" x="25824.06" y="16496.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa77_ce_sa77" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa77_ce_sa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RPA3"/> <clone/> <bbox w="80.0" h="40.0" x="12520.84" y="15898.52"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa77_ce_sa1628" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa77_ce_sa1628"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RPA3"/> <clone/> <bbox w="80.0" h="40.0" x="13038.881" y="9709.722"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa13_ca_sa13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa13_ca_sa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGF"/> <bbox w="80.0" h="40.0" x="5120.0" y="580.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa505_rc_csa505" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EIF2S1:EIF2S2:EIF2S3:NDUFA1</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:16246152</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa505_rc_csa505"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16246152"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF2-P*:GDP"/> <bbox w="100.0" h="200.0" x="27049.373" y="15429.0"/> <glyph class="macromolecule" id="s_id_rc_sa5158_rc_sa5158"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>HUGO:EIF2S1 hgnc_id:HGNC:3265 HGNC:3265 ENTREZ:1965 UNIPROT:P05198</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>PMID:12667446</p> <p>PMID:16246152</p> <p>PMID:12601012</p> </body> </html> </notes> <label text="EIF2S1"/> <bbox w="80.0" h="40.0" x="27059.06" y="15439.0"/> <glyph class="state variable" id="_14d23d3b-3c7d-4eab-b358-76a654091df4"> <state value="P" variable="Ser51"/> <bbox w="40.0" h="10.0" x="27096.01" y="15434.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5155_rc_sa5155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NDUFA1"/> <bbox w="70.0" h="25.0" x="27063.748" y="15576.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5157_rc_sa5157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit gamma</p> <p>HUGO:EIF2S3 hgnc_id:HGNC:3267 HGNC:3267 ENTREZ:1968 UNIPROT:P41091</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit gamma</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="EIF2S3"/> <bbox w="80.0" h="40.0" x="27059.373" y="15532.125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5156_rc_sa5156"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>HUGO:EIF2S2 hgnc_id:HGNC:3266 HGNC:3266 ENTREZ:8894 UNIPROT:P20042</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="EIF2S2"/> <bbox w="80.0" h="40.0" x="27058.604" y="15487.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1314_ce_sa1314" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1314_ce_sa1314"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD9A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD9B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD9*"/> <bbox w="80.0" h="40.0" x="10858.346" y="16067.864"/> <glyph class="state variable" id="_9c9864c9-144b-4463-9f19-6e72c14dad42"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10893.346" y="16062.864"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4417_rc_sa4417" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27048813</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4417_rc_sa4417"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048813"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Apoptotic death"/> <bbox w="118.0" h="29.0" x="22320.06" y="11194.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2268_in_sa2268" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP1"/> <bbox w="80.0" h="40.0" x="11600.0" y="6740.0"/> </glyph> <glyph class="complex" id="s_id_mo_csa60_mo_csa60" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="VEGFR2/VEGF*"/> <bbox w="100.0" h="120.0" x="6723.0" y="11501.0"/> <glyph class="macromolecule" id="s_id_mo_sa519_mo_sa519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vascular endothelial growth factor A </p> <p>HUGO:VEGFA</p> <p>vascular endothelial growth factor B </p> <p>HUGO:VEGFB</p> <p>vascular endothelial growth factor C</p> <p>HUGO:VEGFC</p> <p>vascular endothelial growth factor D </p> </body> </html> </notes> <label text="VEGF*"/> <bbox w="80.0" h="40.0" x="6730.727" y="11562.182"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa518_mo_sa518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:KDR</p> </body> </html> </notes> <label text="VEGFR2"/> <bbox w="80.0" h="50.0" x="6732.727" y="11512.182"/> <glyph class="state variable" id="_28addb4b-9b2f-42c3-97ec-08d8e97c90a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6727.727" y="11521.826"/> </glyph> <glyph class="unit of information" id="_9a936e91-5f6d-4f2b-89fb-7a872cb35b79"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6750.227" y="11507.182"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa561_ca_sa561" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa561_ca_sa561"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2"/> <clone/> <bbox w="80.0" h="40.0" x="5030.0" y="4690.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa561_ca_sa562" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa561_ca_sa562"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2"/> <clone/> <bbox w="80.0" h="40.0" x="5030.0" y="4790.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa561_emtc_em_sa121" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa561_emtc_em_sa121"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2"/> <clone/> <bbox w="40.0" h="20.0" x="2605.0" y="17290.635"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa561_mo_sa188" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa561_mo_sa188"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP2"/> <clone/> <bbox w="80.0" h="40.0" x="4913.0" y="11394.0"/> </glyph> <glyph class="simple chemical" id="s_id_ce_sa11_ce_sa11" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:BER</p> </body> </html> </notes> <label text="Modified 2-12 nucl fragment"/> <bbox w="163.0" h="26.0" x="10053.27" y="16542.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa454_an_sa454" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa454_an_sa454"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LMK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LMK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK*"/> <bbox w="80.0" h="40.0" x="5014.0" y="7301.0"/> <glyph class="state variable" id="_4128aedb-6c0b-4371-ac85-558be16e9f91"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5065.5684" y="7296.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1845_emtc_em_sa1845" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1845_emtc_em_sa1845"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR183"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR183"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR183"/> <bbox w="81.0" h="19.0" x="3756.5" y="17104.666"/> <glyph class="unit of information" id="_6f9316e2-16bb-4f19-9762-742862cc2270"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.0" y="17099.666"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa737_in_sa737" compartmentRef="s_id_in_ca13_in_ca13"> <label text="NKp44*"/> <bbox w="80.0" h="50.0" x="19755.0" y="1695.0"/> <glyph class="unit of information" id="_af9e807a-4266-4cc0-9518-99dd509032cd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19772.5" y="1690.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_an_sa189_an_sa189" compartmentRef="s_id_an_ca1_an_ca1"> <label text="acétyl"/> <clone/> <bbox w="70.0" h="25.0" x="4374.0" y="6967.5"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa189_an_sa212" compartmentRef="s_id_an_ca1_an_ca1"> <label text="acétyl"/> <clone/> <bbox w="70.0" h="25.0" x="4544.0" y="6907.5"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa189_an_sa194" compartmentRef="s_id_an_ca1_an_ca1"> <label text="acétyl"/> <clone/> <bbox w="70.0" h="25.0" x="4684.0" y="7077.5"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa308_mo_sa308" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Actin fibers disassembly"/> <bbox w="200.0" h="25.0" x="5375.0" y="9550.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa9_an_sa9" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8893</p> <p>synonyms: PGFL, "placental growth factor, vascular endothelial growth factor-related protein", "placental growth factor-like"</p> </body> </html> </notes> <label text="PGF"/> <bbox w="80.0" h="40.0" x="4192.0" y="5775.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5333_rc_sa5333" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:28938</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5333_rc_sa5333"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NH4+"/> <bbox w="70.0" h="25.0" x="26481.56" y="10077.75"/> </glyph> <glyph class="complex" id="s_id_in_csa63_in_csa63" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s747"/> <bbox w="200.0" h="160.0" x="19335.0" y="1320.0"/> <glyph class="macromolecule" id="s_id_in_sa602_in_sa602"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FCER1G"/> <bbox w="80.0" h="50.0" x="19355.0" y="1345.0"/> <glyph class="state variable" id="_863612ec-8665-4610-94be-b65cfb251c9d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19350.0" y="1365.0"/> </glyph> <glyph class="unit of information" id="_3d84d527-a0e7-461e-9f52-c9d089fd74de"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19372.5" y="1340.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa603_in_sa603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD247"/> <bbox w="80.0" h="50.0" x="19435.0" y="1345.0"/> <glyph class="state variable" id="_bca57974-a2e7-4873-90f5-e816a8c4769a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19430.0" y="1365.0"/> </glyph> <glyph class="unit of information" id="_fffeefbb-d47c-4aa2-b75f-d332e89461f7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19452.5" y="1340.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa601_in_sa601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NKp46*"/> <bbox w="80.0" h="50.0" x="19392.5" y="1395.0"/> <glyph class="unit of information" id="_b78b55f9-9dd8-4eb6-9fc7-6f76f01d671e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19410.0" y="1390.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa789_in_sa789" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LTB"/> <bbox w="80.0" h="40.0" x="15726.25" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2667_rc_sa2667"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BECN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BECN1"/> <bbox w="80.0" h="40.0" x="27721.56" y="11331.5"/> <glyph class="state variable" id="_dcc89a73-81e1-4140-9490-1b231ee6c0d3"> <state value="P" variable="T119"/> <bbox w="35.0" h="10.0" x="27761.01" y="11326.5"/> </glyph> <glyph class="state variable" id="_95389ed9-697f-42ec-9e2f-e7c9b90af508"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27716.564" y="11326.5"/> 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD3"/> <bbox w="117.0" h="55.0" x="5387.5" y="16379.0"/> <glyph class="state variable" id="_d8bb0193-4d39-4eaf-af19-6cadaf86ac91"> <state value="" variable="S425"/> <bbox w="30.0" h="10.0" x="5489.5" y="16423.883"/> </glyph> <glyph class="state variable" id="_ff26a978-d638-42cc-a61f-2ce9f8f9285b"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="5434.69" y="16429.0"/> </glyph> <glyph class="state variable" id="_b79126ff-6d2b-4999-addf-71829b0398e3"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="5489.5" y="16397.904"/> </glyph> <glyph class="state variable" id="_2b93b75d-5d7b-4e9c-95ff-e5ad9bbfde80"> <state value="" variable="S204"/> <bbox w="30.0" h="10.0" x="5372.5" y="16405.611"/> </glyph> <glyph class="state variable" id="_62be09ad-39b1-41a9-b462-2f57664ff95f"> <state value="" variable="S208"/> <bbox w="30.0" h="10.0" x="5372.5" y="16392.945"/> </glyph> <glyph class="state variable" id="_927774a8-d814-4cab-a1cb-a8ba3d28b2a2"> <state value="" variable="S213"/> <bbox w="30.0" h="10.0" x="5372.5" y="16377.303"/> </glyph> <glyph class="state variable" id="_04f2455c-3af6-4944-8755-86e8da8bca40"> <state value="" variable="S423"/> <bbox w="30.0" h="10.0" x="5489.5" y="16408.91"/> </glyph> <glyph class="state variable" id="_569524a8-cea7-48e5-a7fd-9482321d8025"> <state value="" variable="T179"/> <bbox w="30.0" h="10.0" x="5372.5" y="16423.666"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa46_akt1_akt1_csa46" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EIF3*:EIF4A*:EIF4B:EIF4E*:EIF4G*:M7GTP*:MLST8:MTOR:PABP1*:RPS6:RPTOR:mRNA generic*</p> <p>References:</p> <p>s_akt1_re77:(MAP:survival) PMID:16286006</p> <p>s_akt1_re163:(MAP:survival) PMID:21177869</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa46_akt1_akt1_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21177869"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(eIF3/mRNA/mTOR)"/> <bbox w="366.0" h="322.0" x="11923.561" y="19405.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa257_akt1_akt1_sa257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E</p> <p>HUGO:EIF4E HGNC:3287 ENTREZ:1977 UNIPROT:P06730 GENECARDS:EIF4E REACTOME:72577 KEGG:1977 ATLASONC:EIF4EID40431ch4q23 WIKI:EIF4E </p> <p>eukaryotic translation initiation factor 4E family member 1B</p> <p>HUGO:EIF4E1B HGNC:33179 ENTREZ:253314 UNIPROT:A6NMX2 GENECARDS:EIF4E1B WIKI:EIF4E1B </p> <p>eukaryotic translation initiation factor 4E family member 2</p> <p>HUGO:EIF4E2 HGNC:3293 ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2 </p> <p>eukaryotic translation initiation factor 4E family member 3</p> <p>HUGO:EIF4E3 HGNC:31837 ENTREZ:317649 UNIPROT:Q8N5X7 GENECARDS:EIF4E3 REACTOME:232515 WIKI:EIF4E3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19597330</p> <p>PMID:19339977</p> </body> </html> </notes> <label text="EIF4E*"/> <bbox w="113.0" h="38.0" x="11932.561" y="19575.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa256_akt1_akt1_sa256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E family member 2</p> <p>4EHP IF4e</p> <p>HUGO:EIF4E2 HGNC:3293 ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="M7GTP*"/> <bbox w="49.0" h="45.0" x="11932.561" y="19613.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa263_akt1_akt1_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4B</p> <p>HUGO:EIF4B HGNC:3285 ENTREZ:1975 UNIPROT:P23588 GENECARDS:EIF4B REACTOME:72588 KEGG:1975 WIKI:EIF4B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12867079</p> </body> </html> </notes> <label text="EIF4B"/> <bbox w="80.0" h="40.0" x="12127.561" y="19574.0"/> <glyph class="state variable" id="_d02f8a8b-e9a2-48df-b35b-e40f46c36cc5"> <state value="P" variable="S422"/> <bbox w="35.0" h="10.0" x="12110.553" y="19569.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa462_akt1_akt1_sa462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="160.0" h="62.0" x="12050.957" y="19505.53"/> <glyph class="state variable" id="_9c7a38da-06d0-4e8d-a985-23d791b709d1"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="12038.026" y="19500.53"/> </glyph> <glyph class="state variable" id="_72cecb52-e7a4-429c-8211-bc7363e36b93"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="12030.957" y="19560.896"/> </glyph> <glyph class="state variable" id="_fddfabbd-2b14-4e0b-b032-c9e38d261c80"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12186.621" y="19500.53"/> </glyph> <glyph class="state variable" id="_98274850-9969-49c9-8187-04fe655b624a"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="12035.957" y="19531.53"/> </glyph> <glyph class="state 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12083.707" y="19412.53"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa266_akt1_akt1_sa266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4 gamma 1</p> <p>HUGO:EIF4G1 HGNC:3296 ENTREZ:1981 UNIPROT:Q04637 GENECARDS:EIF4G1 REACTOME:72583 KEGG:1981 ATLASONC:GC_EIF4G1 WIKI:EIF4G1 </p> <p>eukaryotic translation initiation factor 4 gamma 2</p> <p>HUGO:EIF4G2 HGNC:3297 ENTREZ:1982 UNIPROT:P78344 GENECARDS:EIF4G2 REACTOME:92738 KEGG:1982 ATLASONC:GC_EIF4G2 WIKI:EIF4G2 </p> <p>eukaryotic translation initiation factor 4 gamma 3</p> <p>HUGO:EIF4G3 HGNC:3298 ENTREZ:8672 UNIPROT:O43432 GENECARDS:EIF4G3 REACTOME:148636 KEGG:8672 ATLASONC:GC_EIF4G3 WIKI:EIF4G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12867079</p> </body> </html> </notes> <label text="EIF4G*"/> <bbox w="80.0" h="40.0" x="11960.561" y="19533.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa264_akt1_akt1_sa264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ribosomal protein S6</p> <p>HUGO:RPS6 HGNC:10429 ENTREZ:6194 UNIPROT:P62753 GENECARDS:RPS6 REACTOME:72380 KEGG:6194 ATLASONC:GC_RPS6 WIKI:RPS6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16679021</p> </body> </html> </notes> <label text="RPS6"/> <bbox w="114.0" h="53.0" x="12044.561" y="19650.0"/> <glyph class="state variable" id="_97599e51-5983-485c-9469-d7f404627ff5"> <state value="P" variable="S235"/> <bbox w="35.0" h="10.0" x="12027.061" y="19696.605"/> </glyph> <glyph class="state variable" id="_bc961a12-d1a5-4d42-aaa7-7d89adcfc736"> <state value="P" variable="S240"/> <bbox w="35.0" h="10.0" x="12141.061" y="19646.31"/> </glyph> <glyph class="state variable" id="_14d7e1b1-5f0b-4fb0-bb6b-ada14371d127"> <state value="P" variable="S244"/> <bbox w="35.0" h="10.0" x="12135.857" y="19698.0"/> </glyph> <glyph class="state variable" id="_df419cec-0378-440b-b603-d3be3357dd74"> <state value="P" variable="S247"/> <bbox w="35.0" h="10.0" x="12082.784" y="19698.0"/> </glyph> <glyph class="state variable" id="_6b71c300-ea7f-483f-83c2-65d5e016813e"> <state value="P" variable="S236"/> <bbox w="35.0" h="10.0" x="12027.061" y="19646.234"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa262_akt1_akt1_sa262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4A1</p> <p>HUGO:EIF4A1 HGNC:3282 ENTREZ:1973 UNIPROT:P60842 GENECARDS:EIF4A1 REACTOME:72572 KEGG:1973 ATLASONC:GC_EIF4A1 WIKI:EIF4A1 </p> <p>eukaryotic translation initiation factor 4A2</p> <p>HUGO:EIF4A2 HGNC:3284 ENTREZ:1974 UNIPROT:Q14240 GENECARDS:EIF4A2 REACTOME:72574 KEGG:1974 ATLASONC:EIF4A2ID262 WIKI:EIF4A2 </p> <p>eukaryotic translation initiation factor 4A3</p> <p>HUGO:EIF4A3 HGNC:18683 ENTREZ:9775 UNIPROT:P38919 GENECARDS:EIF4A3 REACTOME:57148 KEGG:9775 ATLASONC:GC_EIF4A3 WIKI:EIF4A3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12867079</p> </body> </html> </notes> <label text="EIF4A*"/> <bbox w="80.0" h="40.0" x="12202.561" y="19575.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa268_akt1_akt1_sa268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly(A) binding protein cytoplasmic 1</p> <p>HUGO:PABPC1 HGNC:8554 ENTREZ:26986 UNIPROT:P11940 GENECARDS:PABPC1 REACTOME:72228 KEGG:26986 ATLASONC:GC_PABPC1 WIKI:PABPC1 </p> <p>poly(A) binding protein cytoplasmic 3</p> <p>HUGO:PABPC3 HGNC:8556 ENTREZ:5042 UNIPROT:Q9H361 GENECARDS:PABPC3 KEGG:5042 WIKI:PABPC3 </p> <p>poly(A) binding protein cytoplasmic 5</p> <p>HUGO:PABP5 GENECARDS:PABP5 WIKI:PABP5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12844354</p> </body> </html> </notes> <label text="PABP1*"/> <bbox w="80.0" h="40.0" x="11961.561" y="19492.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa258_akt1_akt1_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 3 subunit A</p> <p>HUGO:EIF3A HGNC:3271 ENTREZ:8661 UNIPROT:Q14152 GENECARDS:EIF3A REACTOME:72545 KEGG:3692 ATLASONC:EIF3AID40425ch10q26 WIKI:EIF3A </p> <p>eukaryotic translation initiation factor 3 subunit B</p> <p>HUGO:EIF3B HGNC:3280 ENTREZ:8662 UNIPROT:P55884 GENECARDS:EIF3B REACTOME:72541 KEGG:8662 ATLASONC:GC_EIF3B WIKI:EIF3B </p> <p>eukaryotic translation initiation factor 3 subunit C</p> <p>HUGO:EIF3C HGNC:3279 ENTREZ:8663 UNIPROT:Q99613 GENECARDS:EIF3C REACTOME:72549 KEGG:8663 ATLASONC:EIF3CID44187ch16p11 WIKI:EIF3C </p> <p>eukaryotic translation initiation factor 3 subunit D</p> <p>HUGO:EIF3D HGNC:3278 ENTREZ:8664 UNIPROT:O15371 GENECARDS:EIF3D REACTOME:72547 KEGG:8664 WIKI:EIF3D </p> <p>eukaryotic translation initiation factor 3 subunit E</p> <p>HUGO:EIF3E HGNC:3277 ENTREZ:3646 UNIPROT:P60228 GENECARDS:EIF3E REACTOME:72551 KEGG:3646 ATLASONC:GC_EIF3E WIKI:EIF3E </p> <p>eukaryotic translation initiation factor 3 subunit F</p> <p>HUGO:EIF3F HGNC:3275 ENTREZ:8665 UNIPROT:O00303 GENECARDS:EIF3F REACTOME:72539 KEGG:8665 ATLASONC:EIF3FID44407ch11p15 WIKI:EIF3F </p> <p>eukaryotic translation initiation factor 3 subunit G</p> <p>HUGO:EIF3G HGNC:3274 ENTREZ:8666 UNIPROT:O75821 GENECARDS:EIF3G REACTOME:72537 KEGG:8666 WIKI:EIF3G </p> <p>eukaryotic translation initiation factor 3 subunit H</p> <p>HUGO:EIF3H HGNC:3273 ENTREZ:8667 UNIPROT:O15372 GENECARDS:EIF3H REACTOME:72543 KEGG:8667 ATLASONC:GC_EIF3H WIKI:EIF3H </p> <p>eukaryotic translation initiation factor 3 subunit I</p> <p>HUGO:EIF3I HGNC:3272 ENTREZ:8668 UNIPROT:Q13347 GENECARDS:EIF3I REACTOME:72535 KEGG:8668 ATLASONC:GC_EIF3I WIKI:EIF3I </p> <p>eukaryotic translation initiation factor 3 subunit J</p> <p>HUGO:EIF3J HGNC:3270 ENTREZ:8669 UNIPROT:O75822 GENECARDS:EIF3J REACTOME:72533 KEGG:8669 WIKI:EIF3J </p> <p>eukaryotic translation initiation factor 3 subunit K</p> <p>HUGO:EIF3K HGNC:24656 ENTREZ:27335 UNIPROT:Q9UBQ5 GENECARDS:EIF3K REACTOME:72553 KEGG:27335 ATLASONC:GC_EIF3K WIKI:EIF3K </p> <p>eukaryotic translation initiation factor 3 subunit L</p> <p>HUGO:EIF3L HGNC:18138 ENTREZ:51386 UNIPROT:Q9Y262 GENECARDS:EIF3L KEGG:51386 WIKI:EIF3L </p> <p>eukaryotic translation initiation factor 3 subunit M</p> <p>HUGO:EIF3M HGNC:24460 ENTREZ:10480 UNIPROT:Q7L2H7 GENECARDS:EIF3M KEGG:10480 ATLASONC:GC_EIF3M WIKI:EIF3M</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <label text="EIF3*"/> <bbox w="80.0" h="40.0" x="12047.561" y="19573.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa463_akt1_akt1_sa463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAB1"/> <bbox w="80.0" h="40.0" x="13641.561" y="17997.0"/> <glyph class="state variable" id="_d06d74bf-f5cc-49e0-8ec0-395fbbe8f456"> <state value="" variable="Y977"/> <bbox w="30.0" h="10.0" x="13627.053" y="17992.0"/> </glyph> <glyph class="state variable" id="_26411379-26e9-4858-800c-c00c4e2e2594"> <state value="" variable="Y989"/> <bbox w="30.0" h="10.0" x="13706.561" y="17992.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa466_ca_sa466" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa466_ca_sa466"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RB1"/> <bbox w="80.0" h="40.0" x="2980.0" y="2720.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa312_rc_csa312" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ACAC*:Mg2+:biotin</p> </body> </html> </notes> <label text="ACC"/> <bbox w="100.0" h="120.0" x="18168.803" y="11911.125"/> <glyph class="simple chemical" id="s_id_rc_sa2764_rc_sa2764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="51.0" h="39.0" x="18222.803" y="11977.875"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2763_rc_sa2763"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15956</p> <p>KEGGCOMPOUND: C00120</p> </body> </html> </notes> <label text="biotin"/> <bbox w="70.0" h="25.0" x="18183.803" y="11962.625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2762_rc_sa2762"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>acetyl-CoA carboxylase alpha</p> <p>HUGO:ACACA HGNC:84 ENTREZ:31 UNIPROT:Q13085 </p> <p>acetyl-CoA carboxylase beta</p> <p>HUGO:ACACB HGNC:85 ENTREZ:32 UNIPROT:O00763</p> <p>Map modules:</p> <p>MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> <p>References:</p> <p>PMID:25979092 </p> </body> </html> </notes> <label text="ACAC*"/> <bbox w="80.0" h="40.0" x="18178.803" y="11917.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1485_in_sa1485"> <label text="LTF"/> <clone/> <bbox w="80.0" h="40.0" x="13130.0" y="1080.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1485_in_sa2669"> <label text="LTF"/> <clone/> <bbox w="80.0" h="40.0" x="23690.0" y="1150.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa294_ce_sa294" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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Thus, a dominant negative PKCθ mutant blocked a number of growth signals, which are normally induced by overexpression of Vav1, namely, activation of JNK, the IL-2 gene promoter and NFAT or AP-1 reporter genes. Conversely, a dominant negative Vav1 mutant did not significantly inhibit the same signaling events induced by a constitutively active PKCθ mutant46, tentatively placing PKCθ downstream of Vav1 in these growth signaling pathways.</p> <p>Vav promoted PKCθ translocation from the cytosol to the membrane and cytoskeleton and induced its enzymatic activation in a CD3/CD28-initiated pathway that was dependent on Rac and on actin cytoskeleton reorganization. These findings reveal that the Vav/Rac pathway promotes the recruitment of PKCθ to the T cell synapse and its activation, essential processes for T cell activation and IL-2 production.</p> <p>PMID:25539813 </p> <p>Vav1 is the linker molecule that couples the C-terminal proline-rich motif of CD28 to the recruitment and activation of PIP5Kα, which in turn cooperates with Vav1 in regulating actin polymerization and CD28 signaling functions.</p> <p>PMID:12186560</p> <p>Phosphorylation of the linker for activation of T-cells by Itk promotes recruitment of Vav.</p> <p>PMID:11754814</p> <p>CD28 signaling is dependent on VAV/SLP-76 complex formation and induces membrane localization of these complexes. </p> <p>PMID:10849438; PMID:10077632 ;PMID:9438848</p> <p>Tyr174 of Vav is thought to be the site of phosphorylation by Lck that regulates Vav function </p> <p>Tyrosine-phosphorylated Vav1 as a Point of Integration for T-cell Receptor- and CD28-mediated Activation of JNK, p38, and Interleukin-2 Transcription</p> <p>Vav1 is phosphorylated probably by Lck.</p> <p>The Rho-family GTP exchange factor Vav is a critical transducer of T cell receptor signals to the calcium, ERK, and NF-κB pathways</p> <p>PMID:10898494</p> <p>Vav-induced NFAT activation involves a MEK/ERK pathway</p> <p>3 Vav functions upstream of Ras in the NFAT activation pathway</p> <p>Ras function is required for Vav-induced ERK activation</p> <p>Vav up-regulates the expression of CD69 via</p> <p>a Ras-dependent, but Rac-independent,</p> <p>PMID:14764585 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>pathway.</p> <p>Vav1 Transduces TCR Signals to Ras and ERK via PLC and DAG</p> <p>Defective TCR-induced DAG Production in Vav1-deficient Cells</p> <p>Defective phosphorylation of PKCθ and PKD in Vav1–/– thymocytes.</p> <p>Vav1 Is Required for TCR-induced Translocation of Ras-GRP1</p> <p>in Vav1–/– cells, whereasGrb2 was constitutively associated with Sos1 and Sos2, there was very little or no inducible association with LAT.</p> <p>Taken together these results show that in Vav1-deficient cells there is a failure to form a LAT-Grb2-Sos complex following TCR stimulation, probably because of reduced phosphorylation of key tyrosine residues on LAT. This in turn may contribute to the profound defect in TCR-induced Ras and ERK activation.</p> <p>PMID:11994416 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of Phospholipase C-γ1 via Phosphoinositide 3-Kinase-dependent and -independent Pathways</p> <p>PMID:10646608 </p> <p>Negative regulation of lymphocyte activation and autoimmunity by the molecular adaptor Cbl-b</p> <p>Cbl-b negatively regulates Vav1 tyrosine phosphorylation. Probably downstream of PI3K)</p> <p>PMID:11526404 </p> <p>inhibition of PI3K leads to a reduction in TCR-induced</p> <p>Vav phosphorylation</p> <p>PMID:12616499</p> <p>Vav1 transduces TCR signals required for LFA-1 function and cell polarization at the immunological synapse.</p> <p>Vav1 is required for TCR-induced activation of LFA-1</p> <p>Vav1 is required for TCR-induced polarization of the MTOC</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~NDUFS3*"/> <bbox w="80.0" h="40.0" x="18443.31" y="13294.0"/> <glyph class="unit of information" id="_fc10ac3e-5b73-42ff-ba9d-3eb11fbcb5ac"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18458.31" y="13289.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa993_in_sa993" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 15356132, 19380816, 23454751, 18776941, 15573129, 12223527, 20237412, 10347215, 15218058, 14607900, 20581311, 20093776, 20406969, 7543512, 16418395, 14670306, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:NEUTROPHIL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IFNAB</p> <p>References:</p> <p>21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates JAK1</p> <p>Two tyrosines (Tyr 446 and Tyr 496) of IL-10RA</p> <p>are phosphorylated by the JAK1, to which</p> <p> the transcription factor STAT3 binds via its SH2 domain</p> <p> and in turn becomes itself phosphorylated.</p> <p>PMID:10347215</p> <p>Only JAK1/STAT3 pathway (but not TYK) plays role in</p> <p>anti-inflammatory action of IL10 in macrophages.</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Stat3 activation (tyr 705) by IL-4 requires Jak1 kinase in monocytes</p> <p>PMID:15218058</p> <p>Stat3 binds ILR1N promoter and upregulates expression of IL1RN downstream of IL10</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:23454751</p> <p>MDSC showed high phosphorylated STAT3 levels that correlated with arginase-I expression levels and activity.</p> <p>phosphorylated STAT3 binds to multiple sites in the arginase-I promoter. Rescue of arginase-I activity after STAT3 blockade restored MDSC's suppressive function.</p> <p>Taken together, these results demonstrate that the suppressive function of arginase-I in both infiltrating and circulating MDSC is a downstream target of activated STAT3.</p> <p>PMID:20581311</p> <p>STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.</p> <p>STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.</p> <p>PMID:19380816</p> <p>MDSC-induced immune suppression is mediated by reactive oxygen species (ROS).</p> <p>STAT3 mediates the function of MDSCs by regulating NADPH oxidase (NOX2) expression</p> <p> In the absence of NOX2 activity, MDSC lost the ability to suppress T cell responses</p> <p>PMID:20093776</p> <p>IL6 signaling ilduces STAT3 phosphorylation in MDSC cells.</p> <p>PMID:20406969</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> <p>PMID:18776941</p> <p>Expression of VEGF and bFGF, but also IL-1B, MMP9, CCL2, and CXCL2 is STAT3-dependent in myeloid cells.</p> <p>PMID:15573129</p> <p>Constitutively active STAT3 inhibited the functional maturation of DCs in vitro.</p> <p>PMID:15356132</p> <p>The activation of STAT3 by IL-6 was required for the suppression of LPS-induced DC maturation. In addition, STAT3 was required for the IL-6-mediated suppression of bone-marrow-derived DC activation and/or maturation.</p> <p>16286017</p> <p>IL-6-STAT3 Controls Intracellular MHC Class II aB Dimer Level through Cathepsin S Activity in Dendritic Cells. IL-6 Stimulation via STAT3 Decreased Cystatin C Expression, Increased the Cathepsin S Activity, and Reduced the MHCII aB Dimer Level in DCs In Vivo</p> <p>G-CSF signaling by STAT3 controls c-myc transcription by regulating the ratio of C/EBPa to C/EBPB at the c-myc promoter</p> <p>Stat3 activity is required for tumor factor-induced migration of ECs.</p> <p>PMID:14670306, PMID:16418395</p> <p>FLT3 sidnaling in Dcs acts via STAT3</p> <p>PMID:20237412</p> <p>IFN-B regulates expression of homing and angiogenic factors in neutrophils.</p> <p>IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophils</p> <p>additionally Stat3 and c-myc are downregulated by IFN-B.</p> <p>(STAT3 is known to be required for full activation of the Cxcr4 gene )</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 15356132, 19380816, 23454751, 18776941, 15573129, 12223527, 20237412, 10347215, 15218058, 14607900, 20581311, 20093776, 20406969, 7543512, 16418395, 14670306, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:NEUTROPHIL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IFNAB</p> <p>References:</p> <p>21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates JAK1</p> <p>Two tyrosines (Tyr 446 and Tyr 496) of IL-10RA</p> <p>are phosphorylated by the JAK1, to which</p> <p> the transcription factor STAT3 binds via its SH2 domain</p> <p> and in turn becomes itself phosphorylated.</p> <p>PMID:10347215</p> <p>Only JAK1/STAT3 pathway (but not TYK) plays role in</p> <p>anti-inflammatory action of IL10 in macrophages.</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Stat3 activation (tyr 705) by IL-4 requires Jak1 kinase in monocytes</p> <p>PMID:15218058</p> <p>Stat3 binds ILR1N promoter and upregulates expression of IL1RN downstream of IL10</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:23454751</p> <p>MDSC showed high phosphorylated STAT3 levels that correlated with arginase-I expression levels and activity.</p> <p>phosphorylated STAT3 binds to multiple sites in the arginase-I promoter. Rescue of arginase-I activity after STAT3 blockade restored MDSC's suppressive function.</p> <p>Taken together, these results demonstrate that the suppressive function of arginase-I in both infiltrating and circulating MDSC is a downstream target of activated STAT3.</p> <p>PMID:20581311</p> <p>STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.</p> <p>STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.</p> <p>PMID:19380816</p> <p>MDSC-induced immune suppression is mediated by reactive oxygen species (ROS).</p> <p>STAT3 mediates the function of MDSCs by regulating NADPH oxidase (NOX2) expression</p> <p> In the absence of NOX2 activity, MDSC lost the ability to suppress T cell responses</p> <p>PMID:20093776</p> <p>IL6 signaling ilduces STAT3 phosphorylation in MDSC cells.</p> <p>PMID:20406969</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> <p>PMID:18776941</p> <p>Expression of VEGF and bFGF, but also IL-1B, MMP9, CCL2, and CXCL2 is STAT3-dependent in myeloid cells.</p> <p>PMID:15573129</p> <p>Constitutively active STAT3 inhibited the functional maturation of DCs in vitro.</p> <p>PMID:15356132</p> <p>The activation of STAT3 by IL-6 was required for the suppression of LPS-induced DC maturation. In addition, STAT3 was required for the IL-6-mediated suppression of bone-marrow-derived DC activation and/or maturation.</p> <p>16286017</p> <p>IL-6-STAT3 Controls Intracellular MHC Class II aB Dimer Level through Cathepsin S Activity in Dendritic Cells. IL-6 Stimulation via STAT3 Decreased Cystatin C Expression, Increased the Cathepsin S Activity, and Reduced the MHCII aB Dimer Level in DCs In Vivo</p> <p>G-CSF signaling by STAT3 controls c-myc transcription by regulating the ratio of C/EBPa to C/EBPB at the c-myc promoter</p> <p>Stat3 activity is required for tumor factor-induced migration of ECs.</p> <p>PMID:14670306, PMID:16418395</p> <p>FLT3 sidnaling in Dcs acts via STAT3</p> <p>PMID:20237412</p> <p>IFN-B regulates expression of homing and angiogenic factors in neutrophils.</p> <p>IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophils</p> <p>additionally Stat3 and c-myc are downregulated by IFN-B.</p> <p>(STAT3 is known to be required for full activation of the Cxcr4 gene )</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <bbox w="90.0" h="25.0" x="21433.06" y="16040.5"/> <glyph class="unit of information" id="_26061d81-ff0d-4bd2-aff1-0a4aacbb21ac"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21468.06" y="16035.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa227_ce_csa227" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:CDC25C</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CDC25C/14-3-3*"/> <bbox w="96.0" h="128.0" x="12717.473" y="10391.356"/> <glyph class="macromolecule" id="s_id_ce_sa1148_ce_sa1148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 25 homolog C (S. pombe)</p> <p>HUGO:CDC25C, HGNC:1727, ENTREZ:995, UNIPROT:P30307</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE</p> <p>References:</p> <p>PMID:1075565, PMID:18073536, PMID:18786381, PMID:17568790, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC25C"/> <bbox w="80.0" h="40.0" x="12729.346" y="10408.364"/> <glyph class="state variable" id="_94f88b4a-316f-43df-9ee6-64323178d7a5"> <state value="P" variable="S191"/> <bbox w="35.0" h="10.0" x="12711.846" y="10423.732"/> </glyph> <glyph class="state variable" id="_28963b61-74aa-413b-83ef-13a07a6ad015"> <state value="P" variable="S214"/> <bbox w="35.0" h="10.0" x="12712.732" y="10443.364"/> </glyph> <glyph class="state variable" id="_d83f7c34-05ff-461d-9e9e-464ffc4b0e0d"> <state value="" variable="S216"/> <bbox w="30.0" h="10.0" x="12771.295" y="10403.364"/> </glyph> <glyph class="state variable" id="_13a44eca-4348-428c-b96c-6ee4feee6661"> <state value="P" variable="S198"/> <bbox w="35.0" h="10.0" x="12711.846" y="10410.611"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1144_ce_sa1144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB, HGNC:12849, ENTREZ:7529, UNIPROT:P31946</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG, HGNC:12852, ENTREZ:7532, UNIPROT:P61981</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH, HGNC:12853, ENTREZ:7533, UNIPROT:Q04917</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE, HGNC:12851, ENTREZ:7531, UNIPROT:P62258</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ, HGNC:12854, ENTREZ:10971, UNIPROT:P27348</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ, HGNC:12855, ENTREZ:7534, UNIPROT:Q6NUR9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:21708191, PMID:21621563, PMID:21533173, PMID:16678438, PMID:16556040</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="12727.098" y="10455.961"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa30_wca1_wca2_csa30" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGA9:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re68:(MAP:survival) PMID:22370635</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa30_wca1_wca2_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370635"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:ITGA9:β-Catenin*"/> <bbox w="229.0" h="135.0" x="23427.06" y="19620.5"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa187_wca1_wca2_sa187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin alpha 9</p> <p>HUGO:ITGA9 HGNC:6145 ENTREZ:3680 UNIPROT:Q13797 GENECARDS:ITGA9 REACTOME:57577 KEGG:3680 ATLASONC:GC_ITGA9 WIKI:ITGA9</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_MATRIX_ADHESIONS</p> </body> </html> </notes> <label text="ITGA9"/> <bbox w="80.0" h="40.0" x="23466.06" y="19635.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa188_wca1_wca2_sa188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="23469.81" y="19689.0"/> <glyph class="state variable" id="_beb347ce-a62b-49d2-95fd-47c39bb0119e"> <state value="P" variable="S840"/> <bbox w="35.0" h="10.0" x="23452.68" y="19725.0"/> </glyph> <glyph class="state variable" id="_b2ff7e56-b083-4c70-8d26-f9fd7790c8c3"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="23570.83" y="19725.0"/> </glyph> <glyph class="state variable" id="_5f4a30ac-98c4-48d0-81ce-c1e4090866c1"> <state value="P" variable="S849"/> <bbox w="35.0" h="10.0" x="23454.271" y="19684.0"/> </glyph> <glyph class="state variable" id="_9de1862d-8fdb-4049-a5b1-58d65da64f6b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23587.81" y="19684.0"/> </glyph> <glyph class="state variable" id="_a260ae9b-d3ee-4eb6-8566-e699eeb5fff3"> <state value="P" variable="S853"/> <bbox w="35.0" h="10.0" x="23575.31" y="19684.219"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa189_wca1_wca2_sa189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23552.06" y="19636.0"/> <glyph class="state variable" id="_33acd65f-87d7-41f5-aa5a-7719fdf13d8b"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="23540.053" y="19631.0"/> </glyph> <glyph class="state variable" id="_a8e07847-a2ff-4918-b48a-c3575cc07526"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="23539.56" y="19670.72"/> </glyph> <glyph class="state variable" id="_08c92935-5131-47d7-9e24-32505074a188"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23537.553" y="19631.0"/> </glyph> <glyph class="state variable" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1433_rc_sa1433"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DYRK1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DYRK1A"/> <bbox w="80.0" h="40.0" x="24422.727" y="12640.724"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa20_shh1_shh1_csa20" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:KIF7:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re36(MAP:survival):</p> <p>PMID:20956384</p> <p>PMID:19592253</p> <p>PMID:0643644</p> <p>s_shh1_re38(MAP:survival):</p> <p>PMID:21209912</p> <p>PMID:19549984</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa20_shh1_shh1_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592253"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:0643644"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209912"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19549984"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SUFU_Gli2"/> <bbox w="210.0" h="170.0" x="25971.06" y="17852.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa181_shh1_shh1_sa181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Unc-51-like kinase</p> </body> </html> </notes> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="26077.56" y="17865.0"/> <glyph class="state variable" id="_a5c28318-f5a5-4cf6-bfed-8601d91e47ee"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26063.053" y="17860.0"/> </glyph> <glyph class="state variable" id="_9b380b67-05ad-4e56-8f4e-3ecc02147b0e"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26141.941" y="17900.0"/> </glyph> <glyph class="state variable" id="_1e43ee05-96f3-4b29-a13c-582697d723af"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="26062.56" y="17899.72"/> </glyph> <glyph class="state variable" id="_3eaaf917-3b79-474d-9a9d-c6631f0d0d7e"> <state value="" variable="S350"/> <bbox w="30.0" h="10.0" x="26142.56" y="17860.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa160_shh1_shh1_sa160"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="25993.56" y="17864.0"/> <glyph class="state variable" id="_dc5d3805-e98e-4d3f-9bd2-d53868ea14e8"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="25979.053" y="17859.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa159_shh1_shh1_sa159"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 2</p> <p>HUGO:GLI2 HGNC:4318 ENTREZ:2736 UNIPROT:P10070 GENECARDS:GLI2 KEGG:2736 ATLASONC:GC_GLI2 WIKI:GLI2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Glioma-associated oncogene family zinc finger</p> </body> </html> </notes> <label text="GLI2-185*"/> <bbox w="165.0" h="39.0" x="25994.81" y="17910.0"/> <glyph class="state variable" id="_03e163df-bc31-4165-a507-4b719a9ae6b4"> <state value="" variable="S820"/> <bbox w="30.0" h="10.0" x="26108.2" y="17944.0"/> </glyph> <glyph class="state variable" id="_f51e6f4e-14d9-40c5-ba56-53f4331e8a4a"> <state value="" variable="S850"/> <bbox w="30.0" h="10.0" x="25979.81" y="17942.975"/> </glyph> <glyph class="state variable" id="_aa13936a-d78f-43d3-bf73-53b6186df4d4"> <state value="" variable="S801"/> <bbox w="30.0" h="10.0" x="26048.217" y="17905.0"/> </glyph> <glyph class="state variable" id="_a3f46a70-6c83-43c6-854d-51b7c32a7727"> <state value="" variable="S817"/> <bbox w="30.0" h="10.0" x="26143.535" y="17944.0"/> </glyph> <glyph class="state variable" id="_acd1b33f-05a1-427c-a5b6-5bef638ec468"> <state value="" variable="S847"/> <bbox w="30.0" h="10.0" x="26031.031" 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w="10.0" h="10.0" x="26072.31" y="17905.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa175_shh1_shh1_sa175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 7</p> <p>HUGO:KIF7 HGNC:30497 ENTREZ:374654 UNIPROT:Q2M1P5 GENECARDS:KIF7 KEGG:374654 WIKI:KIF7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19666503</p> <p>PMID:19906571</p> <p>PMID:19592253</p> </body> </html> </notes> <label text="KIF7"/> <bbox w="80.0" h="40.0" x="26031.56" y="17956.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa12_wnc1_wnc4_csa12" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:G_alpha__sub_12_endsub_*</p> <p>References:</p> <p>s_wnc4_re30:(MAP:survival) PMID:11136230</p> <p>s_wnc4_re31(MAP:survival):</p> <p>binding of G-alpha12 toE-cadherin results of loss of binding of b-catenin from the adherence junction</p> <p>PMID:11136230</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa12_wnc1_wnc4_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11136230"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11136230"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:Gα12*"/> <bbox w="179.0" h="111.0" x="17991.06" y="20756.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa100_wnc1_wnc4_sa100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="154.0" h="40.0" x="18006.06" y="20802.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa99_wnc1_wnc4_sa99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα12*"/> <bbox w="35.0" h="25.0" x="18063.06" y="20774.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa112_ca_sa112" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa112_ca_sa112"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAGLN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAGLN2"/> <bbox w="80.0" h="40.0" x="2000.0" y="4370.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2821_rc_sa2821" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:37037</p> </body> </html> </notes> <label text="pyrimidine 2'-deoxyribonucleoside 5'-diphosphate"/> <bbox w="305.0" h="33.0" x="19666.56" y="11852.75"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa215_an_sa215" compartmentRef="s_id_an_ca1_an_ca1"> <label text="GPAT4"/> <bbox w="80.0" h="40.0" x="4809.0" y="6970.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa22_wca1_wca3_csa22" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HDAC1_2*:LEF_TCF*:TLE*:WRE*</p> <p>References:</p> <p>PMID:11266540</p> <p>s_wca3_re111:(MAP:survival) PMID:16510874</p> <p>s_wca3_re147(MAP:survival):</p> <p>Phosphorylated TCF/LEF transcription factor dissociates and is replaced by another unphosphorylated one. For example TCF3 (repressor) is phosphorylated by HIPK2 and will dissociate from the complex and is replaced by TCF1.</p> <p>PMID:21285352</p> <p>s_wca3_re7(MAP:survival):</p> <p>The transcription complex containing P300 initiates transcription of genes that are involved in differentiation.</p> <p>PMID:20920541</p> <p>The repressor complex is is by default present on the enhancers of wnt-target genes</p> <p>PMID:16510874</p> <p>s_wca3_re40(MAP:survival):</p> <p>Not sure if ubiquitination by XIAP is necessary for replacement of TLE by b-catenin upon canonical WNT signaling</p> <p>PMID:22304967</p> <p>s_wca3_re125(MAP:survival):</p> <p>CBP-mediated transcription effects genes that are involved in stemm cell or progenitor cell maintenance and proliferation</p> <p>Repressor complex is default present on the enhance of wnt-target genes</p> <p>s_wca3_re146(MAP:survival):</p> <p>HIPK2 phosphorylates any TCF/LEF</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa22_wca1_wca3_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11266540"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20920541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22304967"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Repressor_complex)"/> <bbox w="101.0" h="187.0" x="22079.56" y="21728.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa164_wca1_wca3_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transducin-like enhancer of split 1 (E(sp1) homolog Drosophila)</p> <p>"transducin-like enhancer of split 1 homolog of Drosophila E(sp1)"</p> <p>HUGO:TLE1 HGNC:11837 ENTREZ:7088 UNIPROT:Q04724 GENECARDS:TLE1 REACTOME:66083 KEGG:7088 ATLASONC:GC_TLE1 WIKI:TLE1 </p> <p>transducin-like enhancer of split 2 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE2 HGNC:11838 ENTREZ:7089 UNIPROT:Q04725 GENECARDS:TLE2 REACTOME:66085 KEGG:7089 WIKI:TLE2 </p> <p>transducin-like enhancer of split 3 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE3 HGNC:11839 ENTREZ:7090 UNIPROT:Q04726 GENECARDS:TLE3 REACTOME:405165 KEGG:7090 ATLASONC:GC_TLE3 WIKI:TLE3 </p> <p>transducin-like enhancer of split 4 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE4 HGNC:11840 ENTREZ:7091 UNIPROT:Q04727 GENECARDS:TLE4 REACTOME:66089 KEGG:7091 WIKI:TLE4 </p> <p>amino-terminal enhancer of split</p> <p>GRG5 TLE5</p> <p>HUGO:AES HGNC:307 ENTREZ:166 UNIPROT:Q08117 GENECARDS:AES KEGG:166 ATLASONC:GC_AES WIKI:AES </p> <p>transducin-like enhancer of split 6 (E(sp1) homolog Drosophila)</p> <p>HUGO:TLE6 HGNC:30788 ENTREZ:79816 UNIPROT:Q9H808 GENECARDS:TLE6 KEGG:79816 ATLASONC:GC_TLE6 WIKI:TLE6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>References:</p> <p>non-DNA binding transcription factor</p> <p>PMID:20925119</p> </body> </html> </notes> <label text="TLE*"/> <bbox w="80.0" h="40.0" x="22089.56" y="21777.5"/> <glyph class="state variable" id="_b886d4af-afdd-4533-8beb-585cf5a912c1"> <state value="" variable="S239"/> <bbox w="30.0" h="10.0" x="22075.053" y="21772.5"/> </glyph> <glyph class="state variable" id="_0dd19769-b04e-48bc-89f2-be37921eeafd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22164.56" y="21772.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa162_wca1_wca3_sa162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="22094.56" y="21860.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa165_wca1_wca3_sa165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="22089.56" y="21736.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa163_wca1_wca3_sa163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> <p>PMID:21285352</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="22089.56" y="21819.5"/> <glyph class="state variable" id="_012397c3-bf93-497b-8f4c-601894b9a546"> <state value="" variable="S166"/> <bbox w="30.0" h="10.0" x="22075.053" y="21814.5"/> </glyph> <glyph class="state variable" id="_6f4da218-a224-448d-8730-e39f2799c839"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22164.56" y="21815.377"/> </glyph> <glyph class="state variable" id="_10a32beb-65bc-4dcf-a451-1c96f8cdf23b"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="22157.06" y="21851.115"/> </glyph> <glyph class="state variable" id="_9b2636d4-1530-4b48-8dd0-5696becf75be"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22164.56" y="21834.5"/> </glyph> <glyph class="state variable" id="_53e88452-f220-44ae-979a-ac5858ffad4f"> <state value="" 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGLN1"/> <bbox w="90.0" h="25.0" x="23492.56" y="16046.5"/> <glyph class="unit of information" id="_e026f400-34ce-499d-a7af-0ab9023085a0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23527.56" y="16041.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa156_akt1_akt1_sa156" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa156_akt1_akt1_sa156"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DEPTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DEPTOR"/> <clone/> <bbox w="80.0" h="40.0" x="12795.561" y="18097.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa156_akt1_akt1_sa155" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa156_akt1_akt1_sa155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DEPTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DEPTOR"/> <clone/> <bbox w="80.0" h="40.0" x="13520.561" y="19759.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa37_akt1_akt2_csa37" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO1</p> <p>References:</p> <p>s_akt2_re119:(MAP:survival) PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa37_akt1_akt2_csa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:FOXO1"/> <bbox w="100.0" h="120.0" x="11877.561" y="21837.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa231_akt1_akt2_sa231"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="11884.061" y="21847.0"/> <glyph class="state variable" id="_5fbcfac3-1b1e-4faf-8a3e-5c3c22456e8e"> <state value="P" variable="T24"/> <bbox w="30.0" h="10.0" x="11869.553" y="21842.0"/> </glyph> <glyph class="state variable" id="_a31cca4f-721f-4379-ad95-33baf158586f"> <state value="P" variable="S319"/> <bbox w="35.0" h="10.0" x="11946.561" y="21842.0"/> </glyph> <glyph class="state variable" id="_ef5ea39d-d02d-4eb4-8907-581957573acb"> <state value="" variable="S322"/> <bbox w="30.0" h="10.0" x="11948.442" y="21882.0"/> </glyph> <glyph class="state variable" id="_2c1685e9-4ff1-406e-bde6-bbef43845154"> <state value="" variable="S325"/> <bbox w="30.0" h="10.0" x="11908.965" y="21882.0"/> </glyph> <glyph class="state variable" id="_b853fa38-825a-4fc2-b602-99cbd1f14c8d"> <state value="" variable="S329"/> <bbox w="30.0" h="10.0" x="11869.061" y="21881.72"/> </glyph> <glyph class="state variable" id="_390c5d72-b7fc-4e4f-8c94-16fd7f9df60c"> <state value="P" variable="S256"/> <bbox w="35.0" h="10.0" x="11906.593" y="21842.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa232_akt1_akt2_sa232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGB1"/> <bbox w="80.0" h="40.0" x="6002.0" y="5965.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2544_emtc_em_sa2544" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2544_emtc_em_sa2544"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD_binding partners*"/> <bbox w="142.0" h="20.0" x="4963.0" y="13654.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa78_rc_csa78" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:TSC1:TSC2</p> </body> </html> </notes> <label text="14-3-3:TSC1:TSC2"/> <bbox w="173.0" h="149.0" x="25676.06" y="12030.0"/> <glyph class="macromolecule" id="s_id_rc_sa3111_rc_sa3111"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 1</p> <p>HUGO:TSC1 HGNC:12362 ENTREZ:7248 UNIPROT:Q92574</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="25682.291" y="12040.9"/> <glyph class="state variable" id="_b00abba5-286c-4a76-a177-26011017470b"> <state value="" variable="S487"/> <bbox w="30.0" h="10.0" x="25690.887" y="12035.9"/> </glyph> <glyph class="state variable" id="_370e6623-1922-410b-bd89-6b4aeecff6d1"> <state value="" variable="S511"/> <bbox w="30.0" h="10.0" x="25724.24" y="12035.9"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1074_rc_sa1074"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="25763.727" y="12041.333"/> <glyph class="state variable" id="_cdfaae69-8057-4735-b9c9-6c2239a4f4a3"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="25812.824" y="12036.333"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1075_rc_sa1075"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="25699.06" y="12099.0"/> <glyph class="state variable" id="_acfe95e6-4226-4166-afba-d6e6c2a52f27"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25694.06" y="12114.0"/> </glyph> <glyph class="state variable" id="_17ba77ac-a763-4c98-b78b-e3e1cceb7d9d"> <state value="" variable="S1337"/> <bbox w="35.0" h="10.0" x="25702.28" y="12134.0"/> </glyph> <glyph class="state variable" id="_19e84dbf-1a27-46c6-82d3-db71a0108757"> <state value="P" variable="S939"/> <bbox w="35.0" h="10.0" x="25705.156" y="12094.0"/> </glyph> <glyph class="state variable" id="_cfd1b599-3e13-4f2b-aee3-bcf40d4cbd9a"> <state value="" variable="S1341"/> <bbox w="35.0" h="10.0" x="25719.236" y="12134.0"/> </glyph> <glyph class="state variable" id="_42c9abba-556a-4dad-861e-596aa6c9e8ac"> <state value="?" variable="M1"/> <bbox w="25.0" h="10.0" x="25686.56" y="12133.721"/> </glyph> <glyph class="state variable" id="_15aaa4cd-c9cb-4325-ad19-e71a30064268"> <state value="" variable="S1345"/> <bbox w="35.0" h="10.0" x="25737.89" y="12134.0"/> </glyph> <glyph class="state variable" id="_12dbc34f-67fd-4892-8c10-e7a18f2d9823"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25774.06" y="12134.0"/> </glyph> <glyph class="state variable" id="_94a7668a-a951-428d-accc-2de86f3e54c1"> <state value="" variable="S664"/> <bbox w="30.0" h="10.0" x="25684.06" y="12094.441"/> </glyph> <glyph class="state variable" id="_0d6e7212-e5e6-4c57-9ca9-a602e5463feb"> <state value="" variable="S1798"/> <bbox w="35.0" h="10.0" x="25761.56" y="12094.579"/> </glyph> <glyph class="state variable" id="_d366cdf1-0ad5-4a76-9667-7bc531a0d14d"> <state value="P" variable="T1462"/> <bbox w="40.0" h="10.0" x="25736.01" y="12094.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa14_shh1_shh3_csa14" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:RAC1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re19(MAP:survival):</p> <p>PMID:12829230</p> <p>PMID:11955434</p> <p>PMID:15967165</p> <p>PMID:15611338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa14_shh1_shh3_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829230"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15967165"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Rac1_GDP"/> <bbox w="100.0" h="120.0" x="27718.06" y="22655.0"/> <glyph class="simple chemical" id="s_id_shh1_shh3_sa78_shh1_shh3_sa78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="30.0" h="30.0" x="27752.06" y="22712.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa71_shh1_shh3_sa71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="27727.06" y="22668.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa149_te_sa149" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa149_te_sa149"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERF2"/> <clone/> <bbox w="80.0" h="40.0" x="2292.06" y="21777.0"/> <glyph class="unit of information" id="_98820f57-cdb6-425a-9556-7f54f414e97f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2322.06" y="21772.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa149_te_sa5" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa149_te_sa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERF2"/> <clone/> <bbox w="80.0" h="40.0" x="2532.06" y="21290.0"/> <glyph class="unit of information" id="_3da4864a-77ff-4a53-b42e-16d56b2d6c08"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2562.06" y="21285.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa4_ca_sa4" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa4_ca_sa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSPG4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSPG4"/> <bbox w="80.0" h="45.0" x="1980.0" y="4537.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa51_wca1_wca1_csa51" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*:CSN1*:CSN2*:CSN3*:CSN4*:CSN5*:CSN6*:CSN7*:CSN8*:CUL1:NEDD8:PKD*:RAD6*:RBX1:SKP*:USP15:_beta_TRCP*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re49:(MAP:survival) PMID:19576224</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa51_wca1_wca1_csa51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19576224"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(CSN_CRL_Destruction_complex)"/> <bbox w="195.0" h="457.0" x="20976.56" y="18832.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa480_wca1_wca1_sa480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>neural precursor cell expressed developmentally down-regulated 8</p> <p>HUGO:NEDD8 HGNC:7732 ENTREZ:4738 UNIPROT:Q15843 GENECARDS:NEDD8 KEGG:4738 ATLASONC:GC_NEDD8 WIKI:NEDD8</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:NER, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15688063</p> </body> </html> </notes> <label text="NEDD8"/> <bbox w="80.0" h="40.0" x="21075.56" y="19215.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa635_wca1_wca1_sa635"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="80.0" h="40.0" x="20992.113" y="18881.264"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa475_wca1_wca1_sa475"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2 HGNC:10901 ENTREZ:6502 UNIPROT:Q13309 GENECARDS:SKP2 REACTOME:405589 KEGG:6502 ATLASONC:GC_SKP2 WIKI:SKP2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15688063</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19131.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa485_wca1_wca1_sa485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 5 (Arabidopsis)</p> <p>HUGO:COPS5 HGNC:2240 ENTREZ:10987 UNIPROT:Q92905 GENECARDS:COPS5 KEGG:10987 ATLASONC:GC_COPS5 WIKI:COPS5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN5*"/> <bbox w="80.0" h="40.0" x="20991.56" y="18963.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa634_wca1_wca1_sa634"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="80.0" h="40.0" x="20994.113" y="18840.578"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa490_wca1_wca1_sa490"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin specific peptidase 15</p> <p>HUGO:USP15 HGNC:12613 ENTREZ:9958 UNIPROT:Q9Y4E8 GENECARDS:USP15 REACTOME:66846 KEGG:9958 ATLASONC:USP15ID44585ch12q14 WIKI:USP15</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19849719</p> </body> </html> </notes> <label text="USP15"/> <bbox w="80.0" h="40.0" x="20991.56" y="18922.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa486_wca1_wca1_sa486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis)</p> <p>HUGO:COPS6 HGNC:21749 ENTREZ:10980 UNIPROT:Q7L5N1 GENECARDS:COPS6 KEGG:10980 ATLASONC:GC_COPS6 WIKI:COPS6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN6*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19005.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa477_wca1_wca1_sa477"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Beta-transducin repeat domain</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 GENECARDS:BTRC REACTOME:55056 KEGG:8945 ATLASONC:BTRCID451ch10q24 WIKI:BTRC </p> <p>F-box and WD repeat domain containing 11</p> <p>BTRC2, BTRCP2, Fbw1b, Fbw11, Hos, KIAA0696</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1 GENECARDS:FBXW11 REACTOME:55058 KEGG:23291 WIKI:FBXW11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19174.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa491_wca1_wca1_sa491"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase D1</p> <p>HUGO:PRKD1 HGNC:9407 ENTREZ:5587 UNIPROT:Q15139 GENECARDS:PRKD1 REACTOME:58211 KEGG:5587 ATLASONC:PRKCMID41860ch14q11 WIKI:PRKD1 </p> <p>protein kinase D2</p> <p>HUGO:PRKD2 HGNC:17293 ENTREZ:25865 UNIPROT:Q9BZL6 GENECARDS:PRKD2 KEGG:25865 ATLASONC:GC_PRKD2 WIKI:PRKD2 </p> <p>protein kinase D3</p> <p>HUGO:PRKD3 HGNC:9408 ENTREZ:23683 UNIPROT:O94806 GENECARDS:PRKD3 KEGG:23683 ATLASONC:GC_PRKD3 WIKI:PRKD3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19576224</p> </body> </html> </notes> <label text="PKD*"/> <bbox w="80.0" h="40.0" x="21074.56" y="18922.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa483_wca1_wca1_sa483"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 3 (Arabidopsis)</p> <p>HUGO:COPS3 HGNC:2239 ENTREZ:8533 UNIPROT:Q9UNS2 GENECARDS:COPS3 KEGG:8533 ATLASONC:GC_COPS3 WIKI:COPS3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN3*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19047.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa481_wca1_wca1_sa481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein </p> <p>HUGO:GPS1 HGNC:4549 ENTREZ:2873 UNIPROT:Q13098 GENECARDS:GPS1 KEGG:2873 ATLASONC:GC_GPS1 WIKI:GPS1 </p> <p>HUGO:GPS2 HGNC:4550 ENTREZ:2874 UNIPROT:Q13227 GENECARDS:GPS2 KEGG:2874 WIKI:GPS2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN1*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19047.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa476_wca1_wca1_sa476"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="20991.56" y="19174.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa482_wca1_wca1_sa482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis)</p> <p>HUGO:COPS2 HGNC:30747 ENTREZ:9318 UNIPROT:P61201 GENECARDS:COPS2 KEGG:9318 ATLASONC:COPS2ID47362ch15q21 WIKI:COPS2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN2*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19089.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa484_wca1_wca1_sa484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 4 (Arabidopsis)</p> <p>HUGO:COPS4 HGNC:16702 ENTREZ:51138 UNIPROT:Q9BT78 GENECARDS:COPS4 KEGG:51138 ATLASONC:GC_COPS4 WIKI:COPS4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN4*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19089.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa478_wca1_wca1_sa478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-conjugating enzyme E2A</p> <p>HUGO:UBE2A HGNC:12472 ENTREZ:7319 UNIPROT:P49459 GENECARDS:UBE2A REACTOME:66747 KEGG:7319 ATLASONC:GC_UBE2A WIKI:UBE2A </p> <p>ubiquitin-conjugating enzyme E2B</p> <p>HUGO:UBE2B HGNC:12473 ENTREZ:7320 UNIPROT:P63146 GENECARDS:UBE2B REACTOME:66729 KEGG:7320 ATLASONC:GC_UBE2B WIKI:UBE2B </p> <p>ubiquitin-conjugating enzyme E2C</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:TLS, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="RAD6*"/> <bbox w="80.0" h="40.0" x="20991.56" y="19217.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa636_wca1_wca1_sa636"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="80.0" h="40.0" x="21074.113" y="18883.264"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa488_wca1_wca1_sa488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 8 (Arabidopsis)</p> <p>HUGO:COPS8 HGNC:24335 ENTREZ:10920 UNIPROT:Q99627 GENECARDS:COPS8 KEGG:10920 ATLASONC:GC_COPS8 WIKI:COPS8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN8*"/> <bbox w="80.0" h="40.0" x="21074.56" y="19005.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa474_wca1_wca1_sa474"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="20991.56" y="19131.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa487_wca1_wca1_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis)</p> <p>HUGO:COPS7A HGNC:16758 ENTREZ:50813 UNIPROT:Q9UBW8 GENECARDS:COPS7A KEGG:50813 ATLASONC:GC_COPS7A WIKI:COPS7A </p> <p>COP9 constitutive photomorphogenic homolog subunit 7B (Arabidopsis)</p> <p>HUGO:COPS7B HGNC:16760 ENTREZ:64708 UNIPROT:Q9H9Q2 GENECARDS:COPS7B KEGG:64708 ATLASONC:GC_COPS7B WIKI:COPS7B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN7*"/> <bbox w="80.0" h="40.0" x="21074.56" y="18963.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa105_shh1_shh2_sa105" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa105_shh1_shh2_sa105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC1"/> <bbox 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text="ITGA5"/> <bbox w="80.0" h="50.0" x="17040.0" y="1355.0"/> <glyph class="unit of information" id="_9d933411-0831-4c60-8c02-8f2fe7a8b8ed"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17057.5" y="1350.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa648_in_sa648"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGB1"/> <bbox w="80.0" h="50.0" x="17040.0" y="1395.0"/> <glyph class="unit of information" id="_9b7a2775-c152-4334-922b-0bfa6ad1382f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17057.5" y="1390.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa43_ca_csa43" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:TNF:TNFR2*:TRAF1:TRAF2</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:8910423</p> <p>both TNFR1 and TNFR2 receptors play role in TNF signal transduction in mouse fibroblasts</p> <p>Tnfr1 is essential in mediating proliferative signals</p> <p>Tnfr1 Exclusively Activates Transcription Factor NF-κB in Mouse Fibroblasts</p> <p>Ap-1 was independently activated through both Tnf receptors, probably via prolonged activation of the c-Jun kinase</p> <p>Tnfr1 and Tnfr2 Control Erk1 and Erk2 Kinase Activity</p> <p>Tnfr1 and Tnfr2 Control activation of RPS6KA1</p> <p>Raf-1, Mek-1, and Mekk responded with enhanced kinase activity to Tnf treatment in all wt, tnfr1o, and tnfr2o fibroblasts, supporting again that both Tnf receptors individually are signaling-competent. The activation factors were about 1.5-4 for Raf-1, Mekk, and Mek-1 in wt, tnfr1o, and tnfr2o fibroblasts (Table II). Interestingly, Raf-B, an isoform of c-Raf-1 reported to be mainly localized to the brain (64, 65, 66), also responded to Tnf treatment of the fibroblasts.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa43_ca_csa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8910423"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFR2"/> <bbox w="190.0" h="120.0" x="1675.0" y="1440.0"/> <glyph class="macromolecule" id="s_id_ca_sa410_ca_sa410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor associated factor 1</p> <p>HUGO:TRAF1 hgnc_id:HGNC:12031 HGNC:12031 ENTREZ:7185 UNIPROT:Q13077</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> </body> </html> </notes> <label text="TRAF1"/> <bbox w="80.0" h="40.0" x="1680.0" y="1450.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa411_ca_sa411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor superfamily member 1B</p> <p>HUGO:TNFRSF1B hgnc_id:HGNC:11917 HGNC:11917 ENTREZ:7133 UNIPROT:P20333</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017; PMID:18641653</p> <p>TNF acts through two transmembrane receptors: TNF receptor 1 (TNFR1), also known as p55 or p60, and TNF receptor 2 (TNFR2), also known as p75 or p80. Macrophages are reported to express both receptors.</p> <p>PMID:8910423</p> <p>both TNFR1 and TNFR2 receptors play role in TNF signal transduction in mouse fibroblasts</p> </body> </html> </notes> <label text="TNFR2*"/> <bbox w="80.0" h="50.0" x="1775.0" y="1495.0"/> <glyph class="unit of information" id="_c1a4ee50-9972-4697-af60-fa30dce31de5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1792.5" y="1490.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa408_ca_sa408"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor</p> <p>HUGO:TNF hgnc_id:HGNC:11892 HGNC:11892 ENTREZ:7124 UNIPROT:P01375</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CYTOKINES_CHEMOKINES_PRODUCTION</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:23769623 </p> <p>TNF is one of key CAF activating agents</p> <p>PMID:17916596 </p> <p>In vitro analyses</p> <p>revealed a striking induction of IL-8 expression in CAFs</p> <p>and LFs by tumor necrosis factor-alpha (TNFA). The effect</p> <p>of TNFA on CAFs is inhibited by the nuclear factor-kB</p> <p>inhibitor parthenolide.</p> <p>PMID:8910423</p> <p>both TNFR1 and TNFR2 receptors play role in TNF signal transduction in mouse fibroblasts</p> <p>Tnfr1 is essential in mediating proliferative signals</p> <p>Tnfr1 Exclusively Activates Transcription Factor NF-κB in Mouse Fibroblasts</p> <p>Ap-1 was independently activated through both Tnf receptors, probably via prolonged activation of the c-Jun kinase</p> <p>Tnfr1 and Tnfr2 Control Erk1 and Erk2 Kinase Activity</p> <p>Tnfr1 and Tnfr2 Control activation of RPS6KA1</p> <p>Raf-1, Mek-1, and Mekk responded with enhanced kinase activity to Tnf treatment in all wt, tnfr1o, and tnfr2o fibroblasts, supporting again that both Tnf receptors individually are signaling-competent. The activation factors were about 1.5-4 for Raf-1, Mekk, and Mek-1 in wt, tnfr1o, and tnfr2o fibroblasts (Table II). Interestingly, Raf-B, an isoform of c-Raf-1 reported to be mainly localized to the brain (64, 65, 66), also responded to Tnf treatment of the fibroblasts.</p> <p>PMID:11112697 </p> <p>TNF-(alpha) substantially promoted activation of pro-MMP-2 in dermal fibroblasts embedded in type-I collagen. In marked contrast, collagen or TNF-(alpha) individually had little influence on the fibroblast-mediated pro-MMP-2 activation. One well-characterized mechanism for pro-MMP-2 activation is through a membrane type matrix metalloproteinase, such as MT1-MMP. We report that TNF-(alpha) significantly induced MT1-MMP at the mRNA and protein levels when the dermal fibroblasts were grown in collagen. Although the intracellular signaling pathway regulating mt1-mmp gene expression is still obscure, both TNF-(alpha) and collagen activate the NF-(kappa)B pathway. In this report we provide three sets of evidence to support a hypothesis that activation of NF-(kappa)B is essential to induce MT1-MMP expression in fibroblasts after TNF-(alpha) exposure. First, SN50, a peptide inhibitor for NF-(kappa)B nuclear translocation, simultaneously blocked the TNF-(alpha) and collagen mediated MT1-MMP induction and pro-MMP-2 activation. </p> <p>PMID:26201938 </p> <p>The expression levels of cytokine genes, including those for IL6, CXCL8, TNF, TGFB1, and VEGFA, were higher in CAFs. T cell proliferation was suppressed more by CAFs or their supernatants than by NFs. </p> <p>PMID:20184663</p> <p>PMID:23567181</p> <p>Tumor necrosis factor (TNF) and IL6 were shown to be a potent mast cell chemoattractant. TNF induced a strong, dose-dependent migratory response of peritoneal mast cells</p> </body> </html> </notes> <label text="TNF"/> <bbox w="80.0" h="40.0" x="1770.0" y="1450.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa409_ca_sa409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor associated factor 2</p> <p>HUGO:TRAF2 hgnc_id:HGNC:12032 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:21232017, PMID:21133840, PMID:18641653</p> <p>TNF induces TRADD-dependent and RIPK1-dependent recruitment of TRAF2 to TNFR1.</p> <p>TNFR2 interacts with TRAF2 and TRAF1.</p> <p>PMID:24378531</p> <p>TNF via TNFR2  induces TRAF2 degradation.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="1680.0" y="1500.0"/> <glyph class="state variable" id="_3eca72d2-9355-42af-bd30-7b3136ecb971"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1755.0" y="1513.6672"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1061_ad_sa1061" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TH1, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. Step 2: once at the</p> <p>membrane, Tec kinases are phosphorylated</p> <p>on a tyrosine in their activation loop by SFKs.</p> <p>Subsequently, the SH3 domain is</p> <p>autophosphorylated.</p> <p> In T cells, mutation of Itk or combined mutation of Itk and Rlk/TXK leads to parallel</p> <p>defects in response to anti-CD3 stimulation, with impaired</p> <p>proliferation and cytokine production .</p> <p>PMID:10523612</p> <p>Txk expression is intimately associated with development of Th1/Th0 cells and is significantly involved in the IFN-gamma production by the cells through Th1 cell-specific positive transcriptional regulation of the IFN-gamma gene.</p> <p>we cotransfected pIFN-γ(-538)-luciferase and pME18S-Txk into Jurkat cells. We found that Txk transfection induced several-fold more luciferase activity in the cells than the mock (pIFN-γ[-538]-luciferase and pME18S)-transfected cells (Fig. 2 e). As control cytokine-promoter plasmids, we used pIL-2(-568)-luciferase and pIL-4(-265)-CAT. We found that Txk transfection did not affect activities of pIL-2 promoter-luciferase– and pIL-4 promoter-CAT–transfected Jurkat cells, regardless of the presence or absence of mitogenic stimulation. The results revealed that Txk acts specifically on IFN-γ promoter/enhancer (-538) and upregulates IFN-γ gene transcription.</p> <p>IL-2 treatment of the CD4+ T cells did not affect Txk expression levels. IL-4 markedly reduced Txk expression of the CD4+ T cells (Fig. 5). In contrast, IL-12 treatment for 4 h was sufficient to enhance Txk expression of the CD4+ T cells (Fig. 5). This further supports an intimate association between Th1 cells and Txk expression. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa170_wca1_wca1_sa211"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:APC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC"/> <clone/> <bbox w="80.0" h="40.0" x="20845.06" y="18612.0"/> <glyph class="state variable" id="_badd0687-0f7a-49f2-8068-18b9ed0f2a09"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20833.053" y="18607.0"/> </glyph> <glyph class="state variable" id="_6da1c193-0bdc-4710-8832-eca9c8b5afd6"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20827.56" y="18646.72"/> </glyph> <glyph class="state 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa127_an_sa127"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9812896"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase9*"/> <bbox w="80.0" h="40.0" x="7290.0" y="6969.0"/> <glyph class="state variable" id="_6632f698-2f38-425c-a593-d9f8add3405f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7339.0684" y="6964.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4540_rc_sa4540" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>poly(ADP-ribose) polymer</p> <p>PMID:17116881</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4540_rc_sa4540"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17116881"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR"/> <bbox w="70.0" h="25.0" x="19534.06" y="15863.37"/> </glyph> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa967_emtc_em_sa968"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="64.0" h="40.0" x="3428.0" y="14290.5"/> <glyph class="state variable" id="_93ccae9c-49f3-4731-a0a5-7d65101993e9"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="3418.0" y="14287.902"/> </glyph> <glyph class="state variable" id="_4a8f4ce2-1b94-47cb-94ab-198754d50c6d"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="3484.2068" y="14285.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa250_rc_csa250" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:DFFA:DFFB</p> </body> </html> </notes> <label text="DFFA:DFFB"/> <bbox w="100.0" h="120.0" x="18421.06" y="15613.0"/> <glyph class="macromolecule" id="s_id_rc_sa1895_rc_sa1895"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA fragmentation factor, 40kDa, beta polypeptide (caspase-activated DNase)</p> <p>HUGO:DFFB HGNC:2773 ENTREZ:1677 UNIPROT:O76075</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>synonym:CAD</p> </body> </html> </notes> <label text="DFFB"/> <bbox w="80.0" h="40.0" x="18428.06" y="15664.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1894_rc_sa1894"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA fragmentation factor, 45kDa, alpha polypeptide</p> <p>HUGO:DFFA HGNC:2772 ENTREZ:1676 UNIPROT:O00273</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>synonym:ICAD</p> </body> </html> </notes> <label text="DFFA"/> <bbox w="80.0" h="40.0" x="18430.06" y="15622.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa154_an_sa154" compartmentRef="s_id_an_ca1_an_ca1"> <label text="DAG"/> <bbox w="80.0" h="30.0" x="4892.0" y="6490.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa811_emtc_em_sa811" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa811_emtc_em_sa811"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAF1"/> <bbox w="103.0" h="46.0" x="6594.0" y="13896.0"/> <glyph class="state variable" id="_deaf118b-894a-4977-b677-f6ddd3bbfebe"> <state value="closed" variable=""/> <bbox w="40.0" h="10.0" x="6625.5" y="13891.0"/> </glyph> <glyph class="state variable" id="_e8287f1c-6893-437b-bb1a-048b0b56d7e8"> <state value="" variable="S259"/> <bbox w="30.0" h="10.0" x="6579.0" y="13891.108"/> </glyph> <glyph class="state variable" id="_55d8d655-23da-4e9d-ac95-40aa47628768"> <state value="" variable="Y340"/> <bbox w="30.0" h="10.0" x="6681.4434" y="13891.0"/> </glyph> <glyph class="state variable" id="_c3154758-75ff-4e1a-b534-4d042a49d978"> <state value="" variable="Y341"/> <bbox w="30.0" h="10.0" x="6680.8853" y="13937.0"/> </glyph> <glyph class="state variable" id="_d660e38a-0673-4873-95fc-2ed0ccc9731f"> <state value="" variable="S338"/> <bbox w="30.0" h="10.0" x="6579.0" y="13913.963"/> </glyph> <glyph class="state variable" id="_64096370-8878-4510-97b2-a7059ee96121"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="6689.5" y="13914.0"/> </glyph> <glyph class="state variable" id="_6a745c5c-c94d-42f4-bfec-90730e816407"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="6579.0" y="13935.791"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa13_ce_csa13" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CUL4*:DDB1:DDB2:RBX1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="CUL4*/DDB1/DDB2/RBX1"/> <bbox w="168.0" h="111.0" x="8748.473" y="15617.356"/> <glyph class="macromolecule" id="s_id_ce_sa453_ce_sa453"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 4A</p> <p>HUGO:CUL4A, HGNC:2554, ENTREZ:8451, UNIPROT:Q13619</p> <p>Cullin 4B</p> <p>HUGO:CUL4B, HGNC:2555, ENTREZ:8450, UNIPROT:Q13620</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="CUL4*"/> <bbox w="80.0" h="40.0" x="8754.973" y="15667.856"/> <glyph class="state variable" id="_dea43fc4-48dc-4e45-acfb-bce6d0a00423"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8749.973" y="15682.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa452_ce_sa452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1</p> <p>HUGO:RBX1, HGNC:9928, ENTREZ:9978, UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:NER, MODULE:FANCONI</p> <p>References:</p> <p>PMID:15459660</p> <p>For NER pathway:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For Fanconi pathway:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="8831.973" y="15627.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa455_ce_sa455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Damage-specific DNA binding protein 2, 48kDa</p> <p>HUGO:DDB2, HGNC:2718, ENTREZ:1643, UNIPROT:Q92466</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="DDB2"/> <bbox w="80.0" h="40.0" x="8753.973" y="15627.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa454_ce_sa454"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Damage-specific DNA binding protein 1, 127kDa, XPE, p48</p> <p>HUGO:DDB1, HGNC:2717, ENTREZ:1642, UNIPROT:Q16531</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG16L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG16L1"/> <bbox w="80.0" h="40.0" x="28781.06" y="11079.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2513_rc_sa2513" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2513_rc_sa2513"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATPAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATPAF2"/> <bbox w="80.0" h="40.0" x="20239.81" y="13872.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2046_em_sa2046" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.</p> <p>PMID:10391247</p> <p>TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2046_em_sa2046"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10391247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB1"/> <bbox w="50.0" h="20.0" x="6036.0" y="14889.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1619_ce_sa1619" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Transcription complex </p> <p>Node_Type:Generic</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="Transcription machine_BR_(RNAPII)*"/> <bbox w="123.0" h="40.0" x="7336.0" y="15419.73"/> <glyph class="state variable" id="_3f0d6df0-37e2-470a-a20e-32b549f8524e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7331.0" y="15435.499"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa872_emtc_em_sa872" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa872_emtc_em_sa872"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FLT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FLT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFR1*"/> <bbox w="80.0" h="20.0" x="5208.0" y="17382.5"/> <glyph class="unit of information" id="_5014a865-ecdd-4135-99b0-0cbd9beba1e4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5238.0" y="17377.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1976_in_sa1976" compartmentRef="s_id_in_ca12_in_ca12"> <label text="RELB"/> <bbox w="90.0" h="40.0" x="21170.0" y="3660.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1305_emtc_em_sa1305" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1305_emtc_em_sa1305"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA5"/> <bbox w="35.0" h="16.0" x="1033.5" y="17851.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1148_in_sa1148" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SLC7A10"/> <bbox w="80.0" h="40.0" x="23580.0" y="7620.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa77_ca_csa77" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB6</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:20075988 </p> <p>the integrins α3β1, αvβ5 and—most notably—αvβ6 control TGF‐β activity or signalling in fibrosis.</p> <p>PMID:23673986 </p> <p>Expression of fibronectin receptro αvβ6 in CAFs is a negative factor for patient survival.</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ6 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa77_ca_csa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20075988"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23673986"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4329"/> <clone/> <bbox w="100.0" h="120.0" x="7670.0" y="3120.0"/> <glyph class="macromolecule" id="s_id_ca_sa649_ca_sa649"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 6</p> <p>HUGO:ITGB6 hgnc_id:HGNC:6161 HGNC:6161 ENTREZ:3694 UNIPROT:P18564</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:23673986 </p> <p>Expression of fibronectin receptro αvβ6 in CAFs is a negative factor for patient survival.</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ6 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC</p> </body> </html> </notes> <label text="ITGB6"/> <clone/> <bbox w="80.0" h="50.0" x="7680.0" y="3165.0"/> <glyph class="unit of information" id="_60092a8a-2a29-4871-82ac-28c54ce68f6b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7697.5" y="3160.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa650_ca_sa650"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha V</p> <p>HUGO:ITGAV hgnc_id:HGNC:6150 HGNC:6150 ENTREZ:3685 UNIPROT:P06756</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785</p> <p>Transforming Growth Factor β1 Induces αvβ3 Integrin Expression in Human Lung Fibroblasts via a β3 Integrin-, c-Src-, and p38 MAPK-dependent Pathway*</p> </body> </html> </notes> <label text="ITGAV"/> <clone/> <bbox w="80.0" h="50.0" x="7680.0" y="3125.0"/> <glyph class="unit of information" id="_62825d79-3fd0-4567-8c30-4f949e73b4d4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7697.5" y="3120.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa77_ca_csa67" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB6</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:20075988 </p> <p>the integrins α3β1, αvβ5 and—most notably—αvβ6 control TGF‐β activity or signalling in fibrosis.</p> <p>PMID:23673986 </p> <p>Expression of fibronectin receptro αvβ6 in CAFs is a negative factor for patient survival.</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ6 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 6</p> <p>HUGO:ITGB6 hgnc_id:HGNC:6161 HGNC:6161 ENTREZ:3694 UNIPROT:P18564</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:23673986 </p> <p>Expression of fibronectin receptro αvβ6 in CAFs is a negative factor for patient survival.</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ6 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC</p> </body> </html> </notes> <label text="ITGB6"/> <clone/> <bbox w="80.0" h="50.0" x="7880.0" y="2995.0"/> <glyph class="unit of information" id="_5db37667-b001-4383-b982-f3f18cdd3c6b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7897.5" y="2990.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa650_ca_sa607"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha V</p> <p>HUGO:ITGAV hgnc_id:HGNC:6150 HGNC:6150 ENTREZ:3685 UNIPROT:P06756</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785</p> <p>Transforming Growth Factor β1 Induces αvβ3 Integrin Expression in Human Lung Fibroblasts via a β3 Integrin-, c-Src-, and p38 MAPK-dependent Pathway*</p> </body> </html> </notes> <label text="ITGAV"/> <clone/> <bbox w="80.0" h="50.0" x="7880.0" y="2945.0"/> <glyph class="unit of information" id="_9d01be3b-48d1-460b-b69a-46903886a906"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7897.5" y="2940.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa932_ad_sa932" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14668329</p> <p>Bcl-3 protein was induced after stimulation of tolerant but not activated T cells.</p> <p>Bcl-3 is interacting with p50-p50 homodimers and possibly cooperates with p50 to inhibit transcriptional activity of the IL-2 gene.</p> <p>p50-p50 homodimers could associate specifically with the nuclear IκB protein Bcl-3 in order to regulate their transcriptional activity.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa932_ad_sa932"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14668329"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL3"/> <bbox w="80.0" h="40.0" x="29096.0" y="7615.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa33_wca1_wca3_csa33" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:CK2_alpha_:CK2_alpha_*:CK2_beta_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>The c-terminus of APC inhibits activity of CK2</p> <p>PMID:11972058</p> <p>s_wca3_re76(MAP:survival):</p> <p>Complex formation of APC and CK2 is cell-cycle dependent</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa33_wca1_wca3_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11972058"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(CK2/APC)"/> <bbox w="95.0" h="157.0" x="20540.06" y="20844.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa227_wca1_wca3_sa227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20545.06" y="20863.0"/> <glyph class="state variable" id="_3719d247-308e-4cf6-9677-faa890f8f87e"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20533.053" y="20858.0"/> </glyph> <glyph class="state variable" id="_163b2788-f0e3-4127-8df0-0510ea38b127"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20527.56" y="20897.72"/> </glyph> <glyph class="state variable" id="_11757850-fea3-40e7-b996-e214c973443c"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20606.941" y="20898.0"/> </glyph> <glyph class="state variable" id="_a3eeb4a7-c731-4e85-9cc7-7cc8f6ce7bc7"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20528.053" y="20858.0"/> </glyph> <glyph class="state variable" id="_38c06286-65b9-4398-9ad7-a5bab50be5cd"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20607.56" y="20858.213"/> </glyph> <glyph class="state variable" id="_16b9e609-9973-4cfd-9748-072acdf4b42a"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20567.465" y="20898.0"/> </glyph> <glyph class="state variable" id="_64d34738-c55e-415a-8afa-c65bd0e4bc89"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20607.56" y="20897.133"/> </glyph> <glyph class="state variable" id="_75fc1b8d-1c9c-4281-abc9-8d443be61690"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20567.592" y="20858.0"/> </glyph> <glyph class="state variable" id="_d34a3df1-bdbf-4da1-a243-ad57ea9a6f4d"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20527.56" y="20897.72"/> </glyph> <glyph class="state variable" id="_d96af5e4-3e55-4588-a962-276c2a4e4bd5"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20528.053" y="20858.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa231_wca1_wca3_sa230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="30.0" h="30.0" x="20547.06" y="20944.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa231_wca1_wca3_sa231"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="30.0" h="30.0" x="20580.06" y="20944.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa229_wca1_wca3_sa229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="30.0" h="30.0" x="20580.06" y="20909.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa228_wca1_wca3_sa228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="30.0" h="30.0" x="20547.06" y="20909.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2292_in_sa2292" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP13"/> <bbox w="80.0" h="40.0" x="11020.0" y="6750.0"/> </glyph> <glyph class="macromolecule" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1232_emtc_em_sa482"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="64.0" h="20.0" x="3965.584" y="14329.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa44_ca_csa44" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IFNG:IFNGR1:IFNGR2:JAK1:JAK2</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>References:</p> <p>17683974</p> <p>IFNG dimer binds to receptor contained two IFNGR1 and two IFNGR2 subunits.</p> <p>19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2. </p> <p>Ligand engagement of the IFNG receptor leads to activation of receptor-associated Jak1 and Jak2 and phosphorylation of a receptor tyrosine residue </p> <p>(Y440) that serves as a docking site for STAT1, which exists in a latent state in the cytoplasm.</p> </body> </html> </notes> <label text="IFNGR"/> <bbox w="200.0" h="207.0" x="2707.0" y="1195.0"/> <glyph class="macromolecule" id="s_id_ca_sa418_ca_sa418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Janus kinase 2</p> <p>HUGO:JAK2 hgnc_id:HGNC:6192 HGNC:6192 ENTREZ:3717 UNIPROT:O60674</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:PLAU, CASCADE:IFNG</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689 </p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation, probably downstream of JAK2. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> <p>PMID:27216177</p> <p>FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.</p> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="2817.0" y="1295.0"/> <glyph class="state variable" id="_c0a9630f-69ff-4452-9c2a-0e81272430ef"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2812.0" y="1310.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa417_ca_sa417"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Janus kinase 1</p> <p>HUGO:JAK1 hgnc_id:HGNC:6190 HGNC:6190 ENTREZ:3716 UNIPROT:P23458</p> <p>References:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:IL6, CASCADE:PLAU, CASCADE:LIF, CASCADE:IFNG</p> <p>PMID:21840487 </p> <p>CAF-dependent matrix remodelling is essential for collective carcinoma cell invasion</p> <p>JAK kinase inhibitor P6 tested blocked remodelling (Hooper et al., 2010). P6 inhibits multiple members of the JAK family (Pedranzini et al., 2006), so we used JAK isoform-specific inhibitors to probe which JAKs are involved; neither JAK2 nor JAK3-specific inhibitors recapitulated the effect of the pan-JAK inhibitor (P6) on matrix remodelling (Figure 1A), suggesting that JAKI is the family member involved. </p> <p>Jak 1 regulates Actomyosin Contractility in CAFs downstream of GP130-IL6ST IL6 and oncostatin M (OSM) and via STAT3</p> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="2819.5" y="1340.0"/> <glyph class="state variable" id="_9bb89b12-4e0b-4734-94d0-d925b36b9db3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2814.5" y="1355.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ca_sa419_ca_sa419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interferon gamma</p> <p>HUGO:IFNG hgnc_id:HGNC:5438 HGNC:5438 ENTREZ:3458 UNIPROT:P01579</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:IFNG</p> <p>References:</p> <p>PMID:17559085</p> <p>The Th1 cytokine interferon-γ (IFN-γ) inhibits collagen gene transcription, and blocks stimulation induced by TGF-β (Varga et al., 1990). Negative regulation of collagen gene by IFN-γ plays an important homeostatic role in preventing excessive scar formation. Transcription factors implicated in mediating IFN-γ-induced inhibition of collagen gene expression include STAT1α (Ghosh et al., 2001), class II transactivator (CIITA) (Zhu and Ting, 2001), the RFX5 complex (Sengupta et al., 2002), YB-1 (Higashi et al., 2003), and C/EBP-β (Ghosh et al., 2006). In our studies focusing on the role of p300 in IFN-γ modulation of collagen synthesis, we found that IFN-γ induced a direct interaction between activated STAT1α and p300 in normal skin fibroblasts (Ghosh et al., 2001). Furthermore, ectopic expression of p300 overcame the inhibition by IFN-γ and rescued stimulation by TGF-β, suggesting that in response to IFN-γ, activated STAT1α and/or downstream factor(s) sequestered p300, preventing its recruitment to the transcriptional machinery and thereby inhibiting collagen gene transcription (Ghosh et al., 2001). Similarly, IFN-γ suppression of COL1A2 promoter activation by YB-1 also appears to involve p300 sequestration (Higashi et al., 2003).</p> </body> </html> </notes> <label text="IFNG"/> <bbox w="86.0" h="46.0" x="2766.5" y="1207.0"/> <glyph class="unit of information" id="_56d9db72-9f45-4531-9c77-a991c76bb00d"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2799.5" y="1202.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa415_ca_sa415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interferon gamma receptor 1</p> <p>HUGO:IFNGR1 hgnc_id:HGNC:5439 HGNC:5439 ENTREZ:3459 UNIPROT:P15260</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:IFNG</p> <p>References:</p> <p>PMID:17683974</p> <p>IFNG dimer binds to receptor contained two IFNGR1 and two IFNGR2 subunits.</p> </body> </html> </notes> <label text="IFNGR1"/> <bbox w="80.0" h="50.0" 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y="10239.845"/> </glyph> <glyph class="state variable" id="_3537541c-7d60-46d8-aa33-de3e4d5472e4"> <state value="P" variable="S279"/> <bbox w="35.0" h="10.0" x="11938.808" y="10257.587"/> </glyph> <glyph class="state variable" id="_bc6e6b32-8820-48a9-8573-fea1435b0f5b"> <state value="P" variable="S293"/> <bbox w="35.0" h="10.0" x="11938.808" y="10266.693"/> </glyph> <glyph class="state variable" id="_05adca54-7e57-4c62-9db8-2fc5129ca584"> <state value="" variable="S18"/> <bbox w="25.0" h="10.0" x="12007.314" y="10233.492"/> </glyph> <glyph class="state variable" id="_3bb8d0e3-7f65-4d75-9357-1ed3de1f943b"> <state value="P" variable="S178"/> <bbox w="35.0" h="10.0" x="11938.808" y="10249.727"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa16_ca_csa16" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EGFR:ERBB*</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> </body> </html> </notes> <label text="ca_s419"/> <bbox w="100.0" h="143.0" x="4940.0" y="1098.0"/> <glyph class="macromolecule" id="s_id_ca_sa278_ca_sa278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>HUGO:EGFR hgnc_id:HGNC:3236 HGNC:3236 ENTREZ:1956 UNIPROT:P00533</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>PMID:25987127; PMID:23010081 </p> <p>Celecoxib (specific COX-2 inhibitor)increases EGF signaling in colon tumor associated fibroblasts, modulating EGFR expression and degradation</p> <p> and increase colon TAFs proliferation in the presence of EGF.</p> <p>Also it induces neo-expression and release of Amphiregulin (AREG), a well known EGFR agonist</p> </body> </html> </notes> <label text="EGFR"/> <bbox w="80.0" h="50.0" x="4950.0" y="1115.5"/> <glyph class="unit of information" id="_27a116a7-68b3-4204-b722-8648ddefacba"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4967.5" y="1110.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa279_ca_sa279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>erb-b2 receptor tyrosine kinase 2</p> <p>HUGO:ERBB2 hgnc_id:HGNC:3430 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>erb-b2 receptor tyrosine kinase 3</p> <p>HUGO:ERBB3 hgnc_id:HGNC:3431 HGNC:3431 ENTREZ:2065 UNIPROT:P21860 </p> <p>erb-b2 receptor tyrosine kinase 4</p> <p>HUGO:ERBB4 hgnc_id:HGNC:3432 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>PMID:10404636</p> <p>EGFR interacts with most members of the c-erbB subfamily of RPTK.</p> </body> </html> </notes> <label text="ERBB*"/> <bbox w="80.0" h="50.0" x="4950.0" y="1165.5"/> <glyph class="unit of information" id="_84780ce2-dcf9-494a-995a-fbe593e50a87"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4967.5" y="1160.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5338_rc_sa5338" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5338_rc_sa5338"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFRC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFRC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFRC"/> <bbox w="90.0" h="25.0" x="25814.06" y="16416.5"/> <glyph class="unit of information" id="_d07ad4b8-9af2-478c-a446-24e735143852"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25849.06" y="16411.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa262_emtc_em_csa262" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:Actinin*:BCAR1:FAK1*:PXN:Talin*:Vinculin*:c-SRC*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:15688067</p> <p>Alpha-actinin servers a link between cytoskeletal actin (in stress fibres) and vinculin at the focal contacts.</p> <p>Phosphorylation of alpha-actinin by FAK1 (PTK2) redues this ability of linking actin to vinculin, thus prevents the maturation of focal contacts.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa262_emtc_em_csa262"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15688067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Focal adhesion complex/Actinin*/Actin*)"/> <bbox w="249.0" h="103.0" x="5994.0" y="18258.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1690_emtc_em_sa1690"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actinin*</p> <p>actinin, alpha 1</p> <p>HUGO:ACTN1 HGNC:163 ENTREZ:87 UNIPROT:P12814 </p> <p>actinin, alpha 2</p> <p>HUGO:ACTN2 HGNC:164 ENTREZ:88 UNIPROT:P35609 </p> <p>actinin, alpha 4</p> <p>"focal segmental glomerulosclerosis 1", FSGS1</p> <p>HUGO:ACTN4 HGNC:166 ENTREZ:81 UNIPROT:O43707</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:15688067</p> <p>Alpha-actinin is a cytoskeletal protein that binds to viculin (VCL).</p> <p>Via this binding, Alpha-actinin crosslinks actin (in actomyosin stress fibres) and tether them to the focal contacts.</p> <p>Phosphorylation of alpha-actinin by FAK1 (PTK2) reduces the crossliking of stress fibres and prevents the maturation of focal contacts.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actinin*"/> <bbox w="62.0" h="18.0" x="6065.0" y="18264.5"/> <glyph class="state variable" id="_ddf5f8cc-3528-499d-8eef-94807523516d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6121.716" y="18259.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1705_emtc_em_sa1705"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>paxillin</p> <p>HUGO:PXN HGNC:9718 ENTREZ:5829 UNIPROT:P49023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:16000375</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>PMID:15308668</p> <p>CRK bound to DOCK1 (so-called DOCK180) forms complex with phosphorylated paxillin.</p> <p>The complex is necessary for collagen-dependent cell migration, mainly through Rac1 activation.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PXN"/> <bbox w="35.0" h="29.0" x="6000.25" y="18281.75"/> <glyph class="state variable" id="_f0589c39-6065-4ef4-857d-ad84397e1aba"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5994.2964" y="18276.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1704_emtc_em_sa1704"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vinculin</p> <p>HUGO:VCL HGNC:12665 ENTREZ:7414 UNIPROT:P18206</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Vinculin*"/> <bbox w="58.0" h="16.0" x="6002.25" y="18264.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1709_emtc_em_sa1709"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer anti-estrogen resistance 1</p> <p>HUGO:BCAR1 HGNC:971 ENTREZ:9564 UNIPROT:P56945</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCAR1"/> <bbox w="50.0" h="19.0" x="6076.25" y="18326.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1708_emtc_em_sa1708"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>c-src tyrosine kinase</p> <p>HUGO:CSK HGNC:2444 ENTREZ:1445 UNIPROT:P41240</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:18829532</p> <p>PMID:9819392</p> <p>PTK6 and CSK both can phosphorylate ARHGAP35 (p190) at Y1105</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by CSK or by PTK6.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="c-SRC*"/> <bbox w="49.0" h="19.0" x="6076.65" y="18305.5"/> <glyph class="state variable" id="_1364b75f-fc6c-4cc0-85d6-227f2b9fb9dd"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="6118.15" y="18301.326"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1706_emtc_em_sa1706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Talin*</p> <p>talin 1</p> <p>HUGO:TLN1 HGNC:11845 ENTREZ:7094 UNIPROT:Q9Y490 </p> <p>talin 2</p> <p>HUGO:TLN2 HGNC:15447 ENTREZ:83660 UNIPROT:Q9Y4G6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Talin*"/> <bbox w="39.0" h="16.0" x="6036.25" y="18289.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1710_emtc_em_sa1710"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="6129.824" y="18274.734"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1707_emtc_em_sa1707"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine kinase 2</p> <p>"PTK2 protein tyrosine kinase 2"</p> <p>HUGO:PTK2 HGNC:9611 ENTREZ:5747 UNIPROT:Q05397</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FAK1*"/> <bbox w="64.0" h="21.0" x="6004.9" y="18315.5"/> <glyph class="state variable" id="_21e7ed21-0a94-41e5-b348-b2c0b6a04288"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="5994.9" y="18310.988"/> </glyph> <glyph class="state variable" id="_08def9da-c7f9-433c-93a6-53ea0de4881e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6058.6655" y="18310.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2337_in_sa2337" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 7521688, 7512720, 19833085 <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <p>Jak1 and Jak2 are activated by the G-CSFR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2337_in_sa2337"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7521688"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7512720"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19833085"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="9750.0" y="4055.0"/> <glyph class="state variable" id="_49e49604-81c4-4806-9503-1dc234a8dbe3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9742.5" y="4070.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa26_wnc1_wnc4_sa26" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc4_re7(MAP:survival):</p> <p>B-catenin phosphorylated at this residues shows increased binding with Bcl9 (mouse homologue Bcl9-2)</p> <p>PMID:15371335</p> <p>Apperently Bcl9 binds b-catenin independently of Y142</p> <p>PMID:17113272</p> <p>s_wnc4_re26(MAP:survival):</p> <p>In airway smooth muscle cells</p> <p>PMID:21908588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa26_wnc1_wnc4_sa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15371335"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17113272"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT canonical pathway nucleus"/> <bbox w="80.0" h="30.0" x="17831.06" y="21034.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1306_ad_sa1306" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1306_ad_sa1306"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL18"/> </rdf:Bag> 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(ZAP-70). These tyrosine kinases lead to the activation of the transcription factor NF-κB and the p38 mitogen-activated protein kinase. NF-κB induces transcription of the Gadd45b gene. The same applies to the cytokines IL-12 and IL-18 as well as stimulation of the Notch receptor and its cytoplasmic effector Deltex. The cytokine IL-2 activates transcription of the Gadd45g gene. 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Is a telomere elongation pathway that is present in 10-15 percent of human cancers. It can be activated with or without telomerase activity. </p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:27760777</p> <p>References_End</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa511_te_sa511"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27760777"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALT Pathway"/> <bbox w="119.0" h="36.0" x="3593.06" y="22496.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa69_ca_csa69" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA11:ITGB1</p> <p>References:</p> <p>20129924</p> <p>Integrin alpha11beta1 is a collagen receptor on fibroblasts</p> <p>Fibroblasts express the α1β1, α2β1 and α11β1 collagen-binding integrins</p> <p>alpha11beta1 can act as a mechanosensor to promote the myofibroblast phenotype</p> <p>human corneal fibroblasts were transfected with small interfering RNA to alpha11, which decreased alpha-smooth muscle actin expression and myofibroblast differentiation.</p> <p>26148229 </p> <p>Integrin α11β1 is a stromal cell-specific receptor for fibrillar collagens and is overexpressed in carcinoma-associated fibroblasts (CAFs)</p> <p>25076207; 26148229 </p> <p>Fibroblast expression of α11β1 integrin stimulates tumor cell growth. </p> <p>19913614 </p> <p>The human alpha11 integrin promoter drives fibroblast-restricted expression in vivo and is regulated by TGF-beta1 in a Smad- and Sp1-dependent manner.</p> <p>17420280 </p> <p>Analysis of matrix metalloproteinase in vitro and in vivo revealed disturbed MMP13 and MMP14 synthesis in alpha11(-/-) cells.</p> </body> </html> </notes> <label text="ca_s4340"/> <clone/> <bbox w="100.0" h="120.0" x="6940.0" y="2310.0"/> <glyph class="macromolecule" id="s_id_ca_sa618_ca_sa618"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="6950.0" y="2360.0"/> <glyph class="unit of information" id="_78c83f09-d6ca-41d8-91a6-54c548d21a92"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6967.5" y="2355.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa619_ca_sa619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 11</p> <p>HUGO:ITGA11 hgnc_id:HGNC:6136 HGNC:6136 ENTREZ:22801 UNIPROT:Q9UKX5</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:TGFB</p> <p>PMID:20129924</p> <p>Integrin alpha11beta1 is a collagen receptor on fibroblasts</p> <p>alpha11beta1 can act as a mechanosensor to promote the myofibroblast phenotype</p> <p>PMID:25076207 </p> <p> fibroblast expression of α11β1 integrin stimulates A549 carcinoma cell growth in a xenograft tumor model.</p> <p>PMID:17600088 </p> <p>IIntegrin alpha 11 regulates IGF2 expression in fibroblasts to enhance tumorigenicity of human non-small-cell lung cancer cells.</p> </body> </html> </notes> <label text="ITGA11"/> <clone/> <bbox w="80.0" h="50.0" x="6950.0" y="2315.0"/> <glyph class="unit of information" id="_c86ecf34-bbfb-42ab-bb35-7daa4b7dc74c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6967.5" y="2310.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa69_ca_csa68" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA11:ITGB1</p> <p>References:</p> <p>20129924</p> <p>Integrin alpha11beta1 is a collagen receptor on fibroblasts</p> <p>Fibroblasts express the α1β1, α2β1 and α11β1 collagen-binding integrins</p> <p>alpha11beta1 can act as a mechanosensor to promote the myofibroblast phenotype</p> <p>human corneal fibroblasts were transfected with small interfering RNA to alpha11, which decreased alpha-smooth muscle actin expression and myofibroblast differentiation.</p> <p>26148229 </p> <p>Integrin α11β1 is a stromal cell-specific receptor for fibrillar collagens and is overexpressed in carcinoma-associated fibroblasts (CAFs)</p> <p>25076207; 26148229 </p> <p>Fibroblast expression of α11β1 integrin stimulates tumor cell growth. </p> <p>19913614 </p> <p>The human alpha11 integrin promoter drives fibroblast-restricted expression in vivo and is regulated by TGF-beta1 in a Smad- and Sp1-dependent manner.</p> <p>17420280 </p> <p>Analysis of matrix metalloproteinase in vitro and in vivo revealed disturbed MMP13 and MMP14 synthesis in alpha11(-/-) cells.</p> </body> </html> </notes> <label text="ca_s4340"/> <clone/> <bbox w="100.0" h="120.0" x="7030.0" y="1930.0"/> <glyph class="macromolecule" id="s_id_ca_sa619_ca_sa617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 11</p> <p>HUGO:ITGA11 hgnc_id:HGNC:6136 HGNC:6136 ENTREZ:22801 UNIPROT:Q9UKX5</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:TGFB</p> <p>PMID:20129924</p> <p>Integrin alpha11beta1 is a collagen receptor on fibroblasts</p> <p>alpha11beta1 can act as a mechanosensor to promote the myofibroblast phenotype</p> <p>PMID:25076207 </p> <p> fibroblast expression of α11β1 integrin stimulates A549 carcinoma cell growth in a xenograft tumor model.</p> <p>PMID:17600088 </p> <p>IIntegrin alpha 11 regulates IGF2 expression in fibroblasts to enhance tumorigenicity of human non-small-cell lung cancer cells.</p> </body> </html> </notes> <label text="ITGA11"/> <clone/> <bbox w="80.0" h="50.0" x="7040.0" y="1935.0"/> <glyph class="unit of information" id="_fb1c0e7f-fe5f-40fb-bfcf-f8a2709b1d2b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7057.5" y="1930.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa618_ca_sa616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="7040.0" y="1980.0"/> <glyph class="unit of information" id="_075603a8-da3c-4633-b7c1-9cf3337e8e9a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7057.5" y="1975.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa13_akt1_akt1_sa13" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-3,4,5-triphosphate</p> <p>CAS:N/A PUBCHEM:8260 CHEBI:16618 KEGGCOMPOUND:C05981</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>s_akt1_re3(MAP:survival):</p> <p>PMID:15534002</p> <p>PMID:9779982</p> <p>PMID:14585353</p> <p>s_akt1_re4(MAP:survival):</p> <p>PMID:12040186</p> <p>PMID:16288286</p> <p>s_akt1_re7(MAP:survival):</p> <p>PMID:18802401</p> <p>PMID:17680028</p> <p>s_akt1_re11(MAP:survival):</p> <p>PMID:15584861</p> <p>PMID:10648629</p> <p>s_akt1_re115(MAP:survival):</p> <p>PMID:12791379</p> <p>PMID:10582334</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa13_akt1_akt1_sa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16288286"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18802401"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17680028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15584861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648629"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12791379"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10582334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="12881.061" y="17615.5"/> </glyph> <glyph class="complex" id="s_id_ad_csa159_ad_csa159" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5798"/> <bbox w="100.0" h="120.0" x="26936.0" y="2440.0"/> <glyph class="macromolecule" id="s_id_ad_sa1353_ad_sa1353"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD274</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:24076050,PMID:12538684</p> <p>PDL1 and PDL2 are expressed in DCs.</p> <p>blockade of PD-L2 on dendritic cells results in enhanced T cell proliferation and cytokine production, including that of IFN-gamma and IL-10, while blockade of PD-L1 results in similar, more modest, effects. 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<rdf:Description rdf:about="#s_id_wnc1_wnc2_sa144_wnc1_wnc2_sa144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNPO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNPO1"/> <bbox w="80.0" h="40.0" x="18844.06" y="18509.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1104_in_sa1104" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17476345, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:IFNGReferences:PMID:17476345NOS2, a heme-containing enzymethat catalyzes the synthesis of NO and citrulline from l-Arg, isexpressed by various cells of the immune system, and its activa-tion is considered a hallmark of classically activated macrophages(also known as M1 macrophages), a macrophage subset that pro-duces proinflammatory cytokines and acts as the effector cell inthe killing of invading pathogens and tumor cells.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23 ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 17476345, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELLMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:IFNGReferences:PMID:17476345NOS2, a heme-containing enzymethat catalyzes the synthesis of NO and citrulline from l-Arg, isexpressed by various cells of the immune system, and its activa-tion is considered a hallmark of classically activated macrophages(also known as M1 macrophages), a macrophage subset that pro-duces proinflammatory cytokines and acts as the effector cell inthe killing of invading pathogens and tumor cells.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1104_in_sa1104"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17476345"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23390297"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOS2"/> <bbox w="126.0" h="53.0" x="14557.594" y="5390.9375"/> <glyph class="unit of information" id="_3db587e4-cd01-446a-aa97-53d7244dd142"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="14610.594" y="5385.9375"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa17_wnc1_wnc1_csa17" compartmentRef="s_id_wnc1_wnc1_ca5_wnc1_wnc1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*:IP3R*</p> <p>References:</p> <p>Ca2+/Wnt MODULE</p> <p>s_wnc1_re29:(MAP:survival) PMID:12747838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa17_wnc1_wnc1_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12747838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gβ*:Gγ*:IP3R*"/> <bbox w="101.0" h="104.0" x="14983.061" y="18525.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa116_wnc1_wnc1_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="14993.561" y="18584.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa114_wnc1_wnc1_sa114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inositol 1,4,5-trisphosphate receptor, type 1</p> <p>SCA15, SCA16, "spinocerebellar ataxia 15", "spinocerebellar ataxia 16"</p> <p>HUGO:ITPR1 HGNC:6180 ENTREZ:3708 UNIPROT:Q14643 GENECARDS:ITPR1 REACTOME:405731 KEGG:3708 ATLASONC:GC_ITPR1 WIKI:ITPR1 </p> <p>inositol 1,4,5-trisphosphate receptor, type 2</p> <p>"inositol 1,4,5-triphosphate receptor, type 2"</p> <p>HUGO:ITPR2 HGNC:6181 ENTREZ:3709 UNIPROT:Q14571 GENECARDS:ITPR2 REACTOME:405722 KEGG:3709 ATLASONC:GC_ITPR2 WIKI:ITPR2 </p> <p>inositol 1,4,5-trisphosphate receptor, type </p> <p>"inositol 1,4,5-triphosphate receptor, type 3"</p> <p>HUGO:ITPR3 HGNC:6182 ENTREZ:3710 UNIPROT:Q14573 GENECARDS:ITPR3 REACTOME:57433 KEGG:3710 ATLASONC:GC_ITPR3 WIKI:ITPR3</p> <p>Map modules:</p> </body> </html> </notes> <label text="IP3R*"/> <bbox w="80.0" h="50.0" x="14994.561" y="18532.0"/> <glyph class="unit of information" id="_6ae6b165-bf5e-42d1-81c4-7f8641d6f607"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15012.061" y="18527.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa115_wnc1_wnc1_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="15032.561" y="18584.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1107_ce_sa1107" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1107_ce_sa1107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC14A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC14A"/> <bbox w="80.0" h="40.0" x="11255.107" y="10379.382"/> <glyph class="state variable" id="_98d847ef-8f19-484d-aba1-598c888761f4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11250.107" y="10394.382"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa4_an_sa4" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3708</p> <p>Previous name : VEGFD</p> <p>PMID:22064427</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa4_an_sa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22064427"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FIGF"/> <bbox w="80.0" h="40.0" x="5062.0" y="5665.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2034_em_sa2034" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS , MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:15263019</p> <p>Endocytosis of E-cadherin regulated by Rac and Cdc42 small G proteins through IQGAP1 and actin filaments.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2034_em_sa2034"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15263019"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IQGAP1"/> <bbox w="80.0" h="40.0" x="2387.0" y="14093.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa14_wca1_wca2_csa14" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cytoskeleton:E-Cadherin*:ECM or cell-cell contact:ITGA3:_alpha_-Catenin*:_beta_-Catenin*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>It has been shown that ITGA3 can interact with adherence junction</p> <p>PMID:22659456 PMID:19171760 PMID:10931041</p> <p>s_wca2_re50:(MAP:survival) PMID:22659456 PMID:22007144 PMID:19171760 PMID:10931041</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa14_wca1_wca2_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22659456"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10931041"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22659456"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22007144"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10931041"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(ECM-Integrin/adherence junction)"/> <bbox w="245.0" h="170.0" x="23084.06" y="18559.0"/> <glyph class="phenotype" id="s_id_wca1_wca2_sa79_wca1_wca2_sa79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ECM or cell-cell contact"/> <bbox w="80.0" h="30.0" x="23087.06" y="18572.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa127_wca1_wca2_sa127"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) alpha 1 102kDa</p> <p>HUGO:CTNNA1 HGNC:2509 ENTREZ:1495 UNIPROT:P35221 GENECARDS:CTNNA1 REACTOME:53044 KEGG:1495 ATLASONC:GC_CTNNA1 WIKI:CTNNA1 </p> <p>catenin (cadherin-associated protein) alpha 2</p> <p>HUGO:CTNNA2 HGNC:2510 ENTREZ:1496 UNIPROT:P26232 GENECARDS:CTNNA2 REACTOME:53046 KEGG:1496 WIKI:CTNNA2 </p> <p>catenin (cadherin-associated protein) alpha 3</p> <p>HUGO:CTNNA3 HGNC:2511 ENTREZ:29119 UNIPROT:Q9UI47 GENECARDS:CTNNA3 KEGG:29119 ATLASONC:GC_CTNNA3 WIKI:CTNNA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="80.0" h="40.0" x="23233.06" y="18616.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa86_wca1_wca2_sa86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23185.06" y="18665.0"/> <glyph class="state variable" id="_7015da7c-93c7-49f5-8f5f-d1e5aeab5fa3"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="23172.56" y="18699.72"/> </glyph> <glyph class="state variable" id="_e85f6f54-c834-4db3-805c-98a5514db476"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23250.06" y="18660.213"/> </glyph> <glyph class="state variable" id="_a98dd46a-3c07-4c64-a408-3ce002ba2671"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23170.553" y="18660.0"/> </glyph> <glyph class="state variable" 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<head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Cytoskeleton"/> <bbox w="80.0" h="30.0" x="23244.06" y="18575.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa83_wca1_wca2_sa83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="23106.06" y="18617.0"/> <glyph class="state variable" id="_4dfc7b4d-3b3a-4fe8-8722-a02d2d3eb312"> <state value="P" variable="S840"/> <bbox w="35.0" h="10.0" x="23088.93" y="18653.0"/> </glyph> <glyph class="state variable" id="_ff70ad9c-ae17-4c88-9592-8d96bda8e4ac"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="23207.08" y="18653.0"/> </glyph> <glyph class="state variable" id="_b8de63c5-2a3d-439b-b4ad-307f4d4a505a"> <state value="P" variable="S849"/> <bbox w="35.0" h="10.0" x="23090.521" y="18612.0"/> </glyph> <glyph class="state variable" id="_1139b3e0-1f5b-4428-a670-8e80d2c4e00d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23224.06" y="18612.0"/> </glyph> <glyph class="state variable" id="_24b7fd4d-c8c7-42d3-9761-17c5b5bb1da6"> <state value="P" variable="S853"/> <bbox w="35.0" h="10.0" x="23211.56" y="18612.219"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa80_wca1_wca2_sa80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin alpha 3 (antigen CD49C alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143" MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006 GENECARDS:ITGA3 REACTOME:57565 KEGG:3675 ATLASONC:GC_ITGA3 WIKI:ITGA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_MATRIX_ADHESIONS</p> </body> </html> </notes> <label text="ITGA3"/> <bbox w="80.0" h="40.0" x="23166.06" y="18571.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa85_wca1_wca2_sa85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="23102.06" y="18665.0"/> <glyph class="state variable" id="_9ce5ff33-eb2f-4a55-8c26-088611f531eb"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="23087.553" y="18660.0"/> </glyph> <glyph class="state variable" id="_ea33fa2a-b0b9-44e8-be48-b7716f6a7521"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="23127.092" y="18660.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2216_in_sa2216" compartmentRef="s_id_in_ca13_in_ca13"> <label text="FcγRII_inhibiting*"/> <bbox w="80.0" h="50.0" x="10495.0" y="1445.0"/> <glyph class="unit of information" id="_fa9856af-cafd-4dd9-929c-e6a487597031"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10512.5" y="1440.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa239_emtc_em_csa239" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ARHGAP1:BNIP2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="ARHGAP1/BNIP2"/> <bbox w="111.0" h="42.0" x="6480.0" y="14932.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1552_emtc_em_sa1552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2/adenovirus E1B 19kDa interacting protein 2</p> <p>"BCL2/adenovirus E1B 19kD-interacting protein 2"</p> <p>HUGO:BNIP2 HGNC:1083 ENTREZ:663 UNIPROT:Q12982</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:10551883</p> <p>FGFR1 regulates activity of CDC42 by binding and phosphorylating thus inactivating BCL2.</p> <p>Phosphorylated BCL2 binds to another CDC42_GAP, ARHGAP1 and neutralize the GAP activity of ARHGAP1 as well.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BNIP2"/> <bbox w="39.0" h="17.0" x="6484.5" y="14936.5"/> <glyph class="state variable" id="_f641fdc5-e3f4-4fd0-920b-60f6f888f63f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6477.0" y="14931.8955"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1553_emtc_em_sa1553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rho GTPase activating protein 1</p> <p>HUGO:ARHGAP1, HGNC:673, ENTREZ:392, GENECARDS:GC11M046698, UNIPROT:Q07960</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9548756</p> <p>RhoGAP1 (so-called ARHGAP1 or p50RhoGAP) is an RhoGTPase activiating protein.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ARHGAP1"/> <bbox w="64.0" h="19.0" x="6526.5" y="14936.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa906_rc_sa906" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16810 KEGGCOMPOUND:C00026 CAS:64-15-3</p> </body> </html> </notes> <label text="2-oxoglutarate"/> <clone/> <bbox w="109.0" h="25.0" x="18734.037" y="11604.735"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa906_rc_sa1973" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16810 KEGGCOMPOUND:C00026 CAS:64-15-3</p> </body> </html> </notes> <label text="2-oxoglutarate"/> <clone/> <bbox w="70.0" h="25.0" x="17834.06" y="13196.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa906_rc_sa5358" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16810 KEGGCOMPOUND:C00026 CAS:64-15-3</p> </body> </html> </notes> <label text="2-oxoglutarate"/> <clone/> <bbox w="95.0" h="25.0" x="25891.56" y="10013.083"/> 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form complexes with TCF3 (E47), and inhibit the process of EMT.</p> <p>PMID:19240756</p> <p>human E-proteins: E47 (TCF3) and E12 (TCF3) from E2A gene, HEB (TCF12) and E2-2 (TCF4) </p> <p>ID proteins: (ID1, 2, 3, 4), bind all E-proteins</p> <p>ID2 binds to APC/C and CDH1</p> <p>PMID:21041997</p> <p>A complex formed by Smad3, Smad4 and ATF3 binds sequences in the ID1 promoter and represses its transcription.</p> <p>The decrease in expression of ID factors then increases activity of E proteins and Twist, resulting in transcriptional repression of the E-Cadherin gene.</p> <p>The transcription factor HMGA2, whose expression increases during TGFB-induced EMT through a Smad3/4-deoendent mechanism, enhances the expression of SNAIL and TWIST and represses the expression of ID2.</p> <p>PMID:17615296</p> <p>Through constitutive association with bHLH E12/E47 proteins, Id proteins maintain epithelial phenotypes by repressing the function of E12/E47, which acts as a repressor of E-cadherin. </p> <p>Down-regulation of ID1 by Smad2/3/ATF3 complex and of ID2 by TGFB thus relieve this inhibition, permitting conversion of epithelial cells to cells with mesenchymal phenotypes</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa293_emtc_em_csa293"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15121845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18832382"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15181457"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19240756"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21041997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17615296"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ID*/E-protein*"/> <bbox w="114.0" h="46.0" x="4714.0" y="16506.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1989_emtc_em_sa1989"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of DNA binding 1, dominant negative helix-loop-helix protein</p> <p>HUGO:ID1, HGNC:5360, ENTREZ:3397 , UNIPROT:P41134 </p> <p>inhibitor of DNA binding 2, dominant negative helix-loop-helix protein</p> <p>HUGO:ID2, HGNC:5361, ENTREZ:3398, UNIPROT:Q02363, GENECARDS:GC02P008818</p> <p>inhibitor of DNA binding 3, dominant negative helix-loop-helix protein</p> <p>HUGO:ID3, HGNC:5362, ENTREZ:3399, UNIPROT:Q02535 , GENECARDS:GC01M023884</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:15252039</p> <p>ID is so-called Inhibitor of differentiation/DNA binding proteins</p> <p>ID proteins is frequently deregulated in advanced human malignancies.</p> <p>ID proteins can participate in blocking differentiation, increasing proliferation, tissue invasiveness, and angiogenesis.</p> <p>PMID:17615296</p> <p>Through constitutive association with bHLH E12/E47 proteins, Id proteins maintain epithelial phenotypes by repressing the function of E12/E47, which acts as a repressor of E-cadherin. </p> <p>Down-regulation of ID1 by Smad2/3/ATF3 complex and of ID2 as well as ID3 by TGFB thus relieve this inhibition, permitting conversion of epithelial cells to cells with mesenchymal phenotypes </p> <p>TGFB induces ETS1 transcriptional expression.</p> <p>TGFB represses ID2 and ID3 transcriptional expression (PMID:15121845 and PMID:15181457)</p> <p>ID2 may regulate the function of Ets1 to modulate the transcription of ZEB1 and ZEB2 without alteration of the transcription of Ets1.</p> <p>Ets1 may act as an inducer of ZEB1 in collaboration with E47 (TCF3)</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ID*"/> <bbox w="25.0" h="22.0" x="4720.416" y="16511.166"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2163_emtc_em_sa2163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E-protein*</p> <p>transcription factor 4</p> <p>HUGO:TCF4, HGNC:11634, ENTREZ:6925, UNIPROT:P15884, GENECARDS:GC18M052889</p> <p>transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47)</p> <p>HUGO:TCF3, HGNC:11633, ENTREZ:6929, UNIPROT:P15923, GENECARDS:GC19M001609 </p> <p>transcription factor 12</p> <p>HUGO:TCF12 HGNC:11623, ENTREZ:6938, UNIPROT:Q99081, GENECARDS:GC15P057210</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19240756</p> <p>4 human E-proteins from 3 genes: E47 (TCF3) and E12 (TCF3) from E2A gene, HEB (TCF12) and E2-2 (TCF4)</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="E-protein*"/> <bbox w="76.0" h="23.0" x="4748.5" y="16510.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa134_rc_csa134" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:APAF1:AVEN</p> </body> </html> </notes> <label text="APAF1:AVEN"/> <bbox w="100.0" h="120.0" x="24579.06" y="15049.0"/> <glyph class="macromolecule" id="s_id_rc_sa1404_rc_sa1404"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24587.81" y="15065.475"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1403_rc_sa1403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptosis, caspase activation inhibitor</p> <p>HUGO:AVEN HGNC:13509 ENTREZ:57099 UNIPROT:Q9NQS1</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="AVEN"/> <bbox w="80.0" h="40.0" x="24587.81" y="15105.475"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa182_emtc_em_csa182" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cingulin*:ZO1_2_3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Cingulin*/ZO1_2_3*"/> <bbox w="131.0" h="43.0" x="1690.0" y="15182.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1240_emtc_em_sa1240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cingulin</p> <p>HUGO:CGN, HGNC:17429, ENTREZ:57530, UNIPROT:Q9P2M7, GENECARDS:GC01P151483  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Cingulin*"/> <bbox w="63.0" h="18.0" x="1691.5" y="15185.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1352_emtc_em_sa1352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ZO1_2_3*</p> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>tight junction protein 2</p> <p>HUGO:TJP2, HGNC:11828, ENTREZ:9414, GENECARDS:GC09P071766, UNIPROT:Q9UDY2 </p> <p>tight junction protein 3</p> <p>HUGO:TJP3, HGNC:11829, ENTREZ:27134, GENECARDS:GC19P003659, UNIPROT:O95049</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1_2_3*"/> <bbox w="60.0" h="20.0" x="1757.0" y="15184.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa55_te_csa55" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAX/MYC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <label text="MAX/MYC"/> <bbox w="100.0" h="120.0" x="6313.06" y="21227.0"/> <glyph class="macromolecule" id="s_id_te_sa338_te_sa338"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc avian myelocytomatosis viral oncogene homolog</p> <p>HUGO:MYC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="6321.06" y="21242.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa374_te_sa374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MYC associated factor X</p> <p>HUGO:MAX</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="MAX"/> <bbox w="80.0" h="40.0" x="6321.56" y="21288.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2453_rc_sa2453" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2453_rc_sa2453"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDHC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDHC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SDHC"/> <bbox w="90.0" h="25.0" x="19510.56" y="16040.5"/> <glyph class="unit of information" id="_c2ca5e16-6fb5-4369-af9a-558f0d5ad59c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19545.56" y="16035.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa72_mpk1_mpk1_csa72" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:TNFRSF1A:TRADD:TRAF2</p> </body> </html> </notes> <label text="TNFRSF1A:TRADD:TRAF2"/> <bbox w="180.0" h="113.0" x="9895.057" y="19018.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa432_mpk1_mpk1_sa432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="9958.057" y="19078.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa431_mpk1_mpk1_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1A</p> <p>TNFR1</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="9951.057" y="19028.0"/> <glyph class="unit of information" id="_07d009eb-23c9-4718-8f71-7bd3c25f1827"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9963.557" y="19023.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa430_mpk1_mpk1_sa430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="55.0" h="25.0" x="9956.057" y="19052.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1855_rc_sa1855" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1855_rc_sa1855"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSPT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~GSPT1*"/> <bbox w="80.0" h="40.0" x="24899.06" y="12159.0"/> <glyph class="unit of information" id="_d85bbfbf-3322-42ee-ad2b-ecae81069e02"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="24914.06" y="12154.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ce_sa1089_ce_sa1089" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="Chromosome segregation"/> <bbox w="199.0" h="25.0" x="10763.77" y="10702.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa165_ca_sa165" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa165_ca_sa165"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IDO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IDO1"/> <bbox w="80.0" h="40.0" x="530.0" y="3620.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2735_in_sa2735" compartmentRef="s_id_in_ca13_in_ca13"> <label text="IL3RA"/> <bbox w="80.0" h="50.0" x="8900.0" y="1960.0"/> <glyph class="unit of information" id="_1c99bec2-0e89-4865-b9f4-5efe7e917e5e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8917.5" y="1955.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa81_ce_sa81" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa81_ce_sa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <bbox w="80.0" h="40.0" x="10464.012" y="11145.0"/> <glyph class="state variable" id="_43b8c2d9-1f81-4ed4-9e0c-b249b208d277"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10459.012" y="11160.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2196_in_sa2196" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD11c*"/> <bbox w="80.0" h="50.0" x="17692.5" y="1495.0"/> <glyph class="unit of information" id="_958fb12a-2916-4cf9-ad98-999573e6a7fb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17710.0" y="1490.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa19_akt1_akt1_csa19" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AKT1:HSP90*</p> <p>References:</p> <p>s_akt1_re41(MAP:survival):</p> <p>PMID:19662498</p> <p>PMID:19387550</p> <p>PMID:18566586</p> <p>s_akt1_re24:(MAP:survival) PMID:18042541 PMID:18077353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa19_akt1_akt1_csa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19662498"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19387550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18566586"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18042541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1:HSP90*"/> <bbox w="101.0" h="107.0" x="13672.061" y="17649.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa111_akt1_akt1_sa111"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-akt murine thymoma viral oncogene homolog 1</p> <p>HUGO:AKT1 HGNC:391 ENTREZ:207 UNIPROT:P31749 GENECARDS:AKT1 REACTOME:58253 KEGG:207 ATLASONC:AKT1ID355ch14q32 WIKI:AKT1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:cellcycle / MODULE:APOPTOSIS_ENTRY, MAP:cellcycle / MODULE:CYCLIND, MAP:cellcycle / MODULE:P21CIP, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20214616</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="13677.561" y="17694.0"/> <glyph class="state variable" id="_6532a10a-cc5b-426b-b97a-c2957f96787c"> <state value="" variable="T450"/> <bbox w="30.0" h="10.0" x="13742.194" y="17689.0"/> </glyph> <glyph class="state variable" id="_b94489be-ceac-4028-8953-1e266911db4c"> <state value="P" variable="S129"/> <bbox w="35.0" h="10.0" x="13660.061" y="17725.12"/> </glyph> <glyph class="state variable" id="_6d19d678-3501-4f45-8e26-59c09aa03720"> <state value="" variable="T308"/> <bbox w="30.0" h="10.0" x="13662.561" y="17692.775"/> </glyph> <glyph class="state variable" id="_45d163e7-63eb-41b9-8e7e-2aca79436be7"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="13742.561" y="17728.133"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa107_akt1_akt1_sa107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Heat shock protein 90 kDa alpha class A member 1</p> <p>HUGO:HSP90AA1 HGNC:5253 ENTREZ:3320 UNIPROT:P07900 GENECARDS:HSP90AA1 REACTOME:56696 KEGG:3320 ATLASONC:GC_HSP90AA1 WIKI:HSP90AA1 </p> <p>Heat shock protein 90 kDa alpha class A member 2</p> <p>HUGO:HSP90AA2 HGNC:5256 ENTREZ:3324 UNIPROT:Q14568 GENECARDS:HSP90AA2 ATLASONC:GC_HSP90AA2 WIKI:HSP90AA2 </p> <p>Heat shock protein 90 kDa alpha class B member 1</p> <p>HUGO:HSP90AB1 HGNC:5258 ENTREZ:3326 UNIPROT:P08238 GENECARDS:HSP90AB1 REACTOME:56698 KEGG:3326 ATLASONC:GC_HSP90AB1 WIKI:HSP90AB1 </p> <p>Heat shock protein 90 kDa beta member 1</p> <p>HUGO:HSP90B1 HGNC:12028 ENTREZ:7184 UNIPROT:P14625 GENECARDS:HSP90B1 REACTOME:54332 KEGG:7184 ATLASONC:GC_HSP90B1 WIKI:HSP90B1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:HR, MAP:dnarepair / MODULE:FANCONI, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19387550</p> <p>PMID:19662498</p> <p>PMID:18566586</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="80.0" h="40.0" x="13678.561" y="17653.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3796_rc_sa3796" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3796_rc_sa3796"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTSB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTSB"/> <bbox 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa407_te_sa407"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERC"/> <bbox w="90.0" h="25.0" x="6423.31" y="22361.0"/> <glyph class="state variable" id="_deeb55d6-9434-4e9d-aea1-a726afebbfca"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="6456.31" y="22356.0"/> </glyph> <glyph class="unit of information" id="_7acda3b4-afd6-4bea-94b0-ee06e50b00b9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6458.31" y="22356.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1080_ca_sa1080" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:METABOLIC MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF </p> <p>References:</p> <p>PMID:22850421; PMID:21358671</p> <p>SIRT3 is involved in the control of HIF1 expression, and redox signaling.</p> <p>A decrease in SIRT3 expression leads to increased superoxide dismutase 2 (SOD2) acetylation/inhibition, thereby causing ROS increase and HIF1 stabilization.</p> <p>SIRT3 is upregulated in normal fibroblasts and downregulated in CAFs.</p> <p>PMID:21150282</p> <p> the tumor promoting effects of Cav-1 deficient fibroblasts could be functionally suppressed (nearly 2-fold) by the recombinant over-expression of SOD2 (superoxide dismutase 2), a known mitochondrial enzyme that de-activates superoxide, thereby reducing mitochondrial oxidative stress. I</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1080_ca_sa1080"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22850421"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21358671"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21150282"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOD2"/> <bbox w="80.0" h="40.0" x="3290.0" y="4510.0"/> <glyph class="state variable" id="_f6fa236a-1d83-4348-ad3a-159e01387533"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="3280.0" y="4525.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2401_in_sa2401" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCL5"/> <bbox w="80.0" h="40.0" x="14200.0" y="2445.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa254_mpk1_mpk1_sa254" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa254_mpk1_mpk1_sa254"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOS"/> <clone/> <bbox w="50.0" h="25.0" x="8569.061" y="20398.0"/> <glyph class="state variable" id="_e1d10f25-5db9-430b-b560-c8d756e29ba1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8564.061" y="20405.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa254_mo_sa176" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa254_mo_sa176"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOS"/> <clone/> <bbox w="80.0" h="40.0" x="3889.0" y="11098.0"/> <glyph class="state variable" id="_f71a1b1c-48df-471d-b419-b16e36045a91"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3884.0" y="11113.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa102_ad_csa102" compartmentRef="s_id_ad_ca8_ad_ca8"> <label text="ad_s5042"/> <bbox w="100.0" h="120.0" x="28776.0" y="2795.0"/> <glyph class="simple chemical" id="s_id_ad_sa880_ad_sa880"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:IFNAB</p> <p>PMID:18784374, PMID:23077238</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="28791.0" y="2862.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa879_ad_sa879"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TREG</p> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>HUGO:PRKCQ</p> <p>CASCADE:TCR</p> <p>PMID:23433459</p> <p>PKCtheta in tregs.</p> <p>PMID:23886063; PMID:9738502 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> <p>PMID:17544292 ; PMID:23433459</p> <p>Protein kinase C theta (PKCtheta): a key player in T cell life and death.</p> <p>Mutation of the PKCθ gene leads to impaired receptor-induced stimulation of the transcription factors AP-1, NF-κB and NFAT, which results in defective T cell activation, and to aberrant expression of apoptosis-related proteins, resulting in poor T cell survival. Furthermore, PKCθ-deficient mice display defects in the differentiation of T helper subsets, particularly in Th2 and Th17-mediated inflammatory responses. </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT). </p> <p>PMID:23474202</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation </p> <p>GCK-like kinase (GLK), a SLP76-regulated kinase, was recently reported to phosphorylate directly PKCθ both in vitro and in primary T cells and T cell lines in response to TCR stimulation</p> <p> PMID:10746729 </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT).</p> <p>PMID:15536066</p> <p>Role for protein kinase Ctheta (PKCtheta) in TCR/CD28-mediated signaling through the canonical but not the non-canonical pathway for NF-kappaB activation.</p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>PMID:10652356</p> <p>The C2-like domain contains a tyrosine residue (Tyr-90), which is phosphorylated by the T cell tyrosine kinase Lck</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> <p>We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TNFR1*"/> <bbox w="80.0" h="50.0" x="23930.0" y="3035.0"/> <glyph class="unit of information" id="_cf4d0ece-d2de-4368-bb4d-f8f40ee84cd4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23947.5" y="3030.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2897_in_sa2897"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER, MAP:MDSC</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL13, CASCADE:IL15, CASCADE:IL21, CASCADE:SCF2, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>PMID:19833085</p> <p>STAT1 is activated downstream of IFNG by phosphorylation of tyrosine 701, translocates to the nucleus, binds to a regulatory DNA element termed gamma-activated sequence (GAS) and stimulates transcription of STAT1 target genes.</p> <p>PMID:17689680</p> <p>STAT1 acetilation inhibits its activity in macrophages.</p> <p>PMID:12811837</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:14607900</p> <p>FNG inhibits IL10 signalind via STAT1.</p> <p>STAT1 overexpression prevents STAT3 homodimerization.</p> <p>PMID:12193701, PMID:11830590</p> <p>CD40 expression is upregulated by STAT1 downstream of INFG</p> <p>and NF-kB downstream of TNF.</p> <p>PMID:12193701</p> <p>INFG upregulates TNFR1 and PIPK1 expression, probably via JAK/STAT1 pathway</p> <p>because this expression is inhibited in presense of SOCS1.</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>PMID:21930765, PMID:8683106, PMID:12967644</p> <p>IFNA and IFNB act via STAT1 pathway in DC and NK cells</p> <p>PMID:25960930</p> <p>Reduced IFNa-induced STAT-1 phosphorylation in Ser727 and CXCL10 secretion in NK cells derived from PKC-t-/- mice</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="STAT1"/> <bbox w="70.0" h="45.0" x="23935.0" y="2987.5"/> <glyph class="state variable" id="_9b349a4c-fb42-45e4-a23b-0339eef148e2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23927.5" y="3003.5513"/> </glyph> <glyph class="state variable" id="_d39af015-bdc5-47b9-936b-a2960e662037"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23999.83" y="3027.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa117_emtc_em_sa117" 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information" id="_f168b7e4-c502-4043-a828-d8cefe99793e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2795.5" y="16626.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5509_rc_sa5509" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17154</p> <p>synonyms:Mediterranean fever, pyrin</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:24919149</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20823910</p> <p>PMID:18309324</p> <p>PMID:28747251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3766_rc_sa3766"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18309324"/> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3512_rc_sa3509"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAM175A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FAM175A"/> <clone/> <bbox w="80.0" h="40.0" x="18911.56" y="16424.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa79_shh1_shh2_sa79" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa79_shh1_shh2_sa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI2"/> <bbox w="70.0" h="25.0" x="26451.06" y="21226.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa109_ca_sa109" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:HHPMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:HHPMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa109_ca_sa109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21674557"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21674557"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FN*"/> <bbox w="70.0" h="25.0" x="5495.0" y="3937.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa14_shh1_shh1_csa14" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HH Ligand:PTCH*</p> <p>References:</p> <p>s_shh1_re111:(MAP:survival) PMID:16647304</p> <p>s_shh1_re112:(MAP:survival) PMID:17848687</p> <p>s_shh1_re25(MAP:survival):</p> <p>PMID:17641202</p> <p>PMID:20889716</p> <p>Tulp3 inhibits MODULE:HEDGEHOG signaling but how exactly is unknown</p> <p>s_shh1_re85:(MAP:survival) PMID:11331587</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa14_shh1_shh1_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16647304"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17848687"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17641202"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20889716"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11331587"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTC_HH_ligand"/> <bbox w="117.0" h="159.0" x="26845.06" y="17569.5"/> <glyph class="simple chemical" id="s_id_shh1_shh1_sa132_shh1_shh1_sa132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="26865.56" y="17585.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa131_shh1_shh1_sa131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="78.0" h="114.0" x="26864.06" y="17595.0"/> <glyph class="unit of information" id="_aa66e6fd-8eca-47b6-aa2e-b9e331abcb4b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26880.56" y="17590.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa95_emtc_em_sa95" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa95_emtc_em_sa95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin4*"/> <bbox w="60.0" h="20.0" x="2938.0" y="15479.512"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa223_ce_sa223" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa223_ce_sa223"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCI"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCI"/> <bbox w="80.0" h="40.0" x="16476.588" y="16436.318"/> <glyph class="state variable" id="_01aef6c0-615b-4bf4-b1c2-5826a9b6a76c"> <state value="Ub" variable="K523"/> <bbox w="40.0" h="10.0" x="16495.291" y="16471.318"/> </glyph> <glyph class="state variable" id="_31c81ede-65ab-454d-af47-667ff2b1e67d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16549.086" y="16471.318"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2451_rc_sa2451" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2451_rc_sa2451"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDHD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDHD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SDHD"/> <bbox w="90.0" h="25.0" x="19518.56" y="15997.5"/> <glyph class="unit of information" id="_163dee32-9b51-48e5-8499-cd0aeb6ff871"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19553.56" y="15992.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa27_wca1_wca1_csa27" compartmentRef="s_id_wca1_wca1_ca4_wca1_wca1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>References:</p> <p>s_wca1_re28(MAP:survival):</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. Activation of CK1 epsilon by unknown factor</p> <p>An acidic environment is required for phosphorylation of DVL and LRP5/6</p> <p>s_wca1_re32:(MAP:survival) PMID:17569865 PMID:20229235</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa27_wca1_wca1_csa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20006983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16965538"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:210606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17569865"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMER1*:CK1ε*:CK1γ*:DVL*:E-Cadherin*:FZD*:Gβ*:Gγ*:LRP5_6*:PRR*:WNT*:β-Arrestin2*:p120*"/> <bbox w="322.0" h="231.0" x="21946.56" y="17574.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa160_wca1_wca1_sa160"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22009.06" y="17685.0"/> <glyph class="unit of information" id="_877589bc-34be-4248-b00a-3840a668f5a9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22026.56" y="17680.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa157_wca1_wca1_sa157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22143.56" y="17670.0"/> <glyph class="state variable" id="_60e4a049-9792-4e81-b9e2-b90d3ca3687e"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="22129.053" y="17665.0"/> </glyph> <glyph class="state variable" id="_e1cd7f4c-0503-4da8-918d-e2097369bfa0"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="22168.592" y="17665.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa408_wca1_wca1_sa408"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22143.56" y="17626.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa548_wca1_wca1_sa548"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22095.81" y="17751.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa604_wca1_wca1_sa604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22025.06" y="17620.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa162_wca1_wca1_sa162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22009.81" y="17733.0"/> <glyph class="state variable" id="_84b3e158-f0de-4fcb-ba5f-92bf7d98a985"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22082.31" y="17728.0"/> </glyph> <glyph class="state variable" id="_e1534725-ddc3-4bfd-ac2c-2c6cbdeefb26"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21992.31" y="17767.72"/> </glyph> <glyph class="state variable" id="_ba709467-adeb-45e7-af4e-e2d0e64b4212"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22004.814" y="17728.0"/> </glyph> <glyph class="state variable" id="_ffe65770-738f-4d8e-8c5f-e3ac0bdd88f8"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22071.691" y="17768.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa582_wca1_wca1_sa582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22165.06" y="17580.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa654_wca1_wca1_sa654"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21957.242" y="17673.182"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa159_wca1_wca1_sa159"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22009.06" y="17641.0"/> <glyph class="state variable" id="_339ac3f5-aa27-4fb8-a89b-c07501c0d424"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="21991.56" y="17660.96"/> </glyph> <glyph class="state variable" id="_39342ecd-7231-4ab4-9deb-b2acca3ff877"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="22071.56" y="17636.266"/> </glyph> <glyph class="state variable" id="_78ca0435-450d-44bc-9e95-d99b8b9e98d4"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="22070.941" y="17686.0"/> </glyph> <glyph class="state variable" id="_485547a6-4d69-4b36-bf59-aa18e8674e2c"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="22030.664" y="17686.0"/> </glyph> <glyph class="state variable" id="_776306e5-563b-4b19-b4c4-d32f4c623ce7"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="21991.8" y="17686.0"/> </glyph> <glyph class="state variable" id="_0892cb3c-eed4-4c2c-8c85-abed30492d91"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="22031.592" y="17636.0"/> </glyph> <glyph class="unit of information" id="_c4a2831b-349a-4043-8559-554f5ee8aa41"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22026.56" y="17636.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa158_wca1_wca1_sa158"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22141.56" y="17710.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa555_wca1_wca1_sa555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22178.56" y="17751.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa549_wca1_wca1_sa549"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22135.81" y="17751.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa156_wca1_wca1_sa156"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22089.56" y="17589.0"/> <glyph class="state variable" id="_80886b19-dc25-4d8c-97ab-2229fcae8de4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22137.56" y="17584.0"/> </glyph> <glyph class="state variable" id="_df44d75f-72eb-49af-ae19-de28416be079"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22127.56" y="17584.652"/> </glyph> <glyph class="state variable" id="_1a9a8944-8786-4deb-9ab9-2c14994011a5"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22125.629" y="17707.0"/> </glyph> <glyph class="state variable" id="_9ffe50c1-73ff-4d1b-80ca-436a2abdaecc"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22075.404" y="17584.0"/> </glyph> <glyph class="state variable" id="_53d34149-1919-43bf-afed-88f5a5bb0385"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22074.719" y="17707.0"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa1_rc_sa1" compartmentRef="s_id_rc_ca4_rc_ca2"> <label text="Mitochondria outer~membrane integrity"/> <bbox w="142.0" h="43.0" x="22288.31" y="15121.569"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1076_ad_sa1076" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:15696170</p> <p>Dynamin 2 regulates T cell activation by controlling actin polymerization at the immunological synapse</p> <p> Dyn2 interacted directly with the Rho family guanine nucleotide exchange factor Vav1, and this interaction was required for T cell activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1076_ad_sa1076"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15696170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNM2"/> <bbox w="80.0" h="40.0" x="26916.0" y="4170.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa417_rc_csa417" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APPL2:Caspase9*:Cleaved DCC*</p> <p>References:</p> <p>DCC*:APPL2:Caspase9*</p> <p>11248093</p> <p>DCC interacts with caspase-9 and drives the activation of caspase-3 through caspase-9</p> </body> </html> </notes> <label text="DCC:NTN1"/> <bbox w="100.0" h="170.0" x="19187.111" y="9148.431"/> <glyph class="macromolecule" id="s_id_rc_sa4124_rc_sa4124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> <p>PMID:12011067</p> <p>DCC interacts with both caspase-3 and caspase-9 and drives the activation of caspase-3 through caspase-9</p> <p>PMID:19465923</p> <p>The Patched dependence receptor triggers apoptosis through a DRAL-caspase-9 complex.</p> <p>PMID:22679284</p> <p>Patched dependence receptor triggers apoptosis through ubiquitination of caspase-9.</p> </body> </html> </notes> <label text="Caspase9*"/> <bbox w="80.0" h="40.0" x="19197.111" y="9258.431"/> <glyph class="state variable" id="_7c0ea167-33bd-4542-a3d9-9eeff97c83b5"> <state value="" variable="S196"/> <bbox w="30.0" h="10.0" x="19239.06" y="9253.431"/> </glyph> <glyph class="state variable" id="_0732b565-8898-4645-b310-3b6407b3445b"> <state value="" variable="S144"/> <bbox w="30.0" h="10.0" x="19205.086" y="9293.431"/> </glyph> <glyph class="state variable" id="_ee5806f1-bfa4-4ba7-af81-268305155705"> <state value="" variable="Y153"/> <bbox w="30.0" h="10.0" x="19238.441" y="9293.431"/> </glyph> <glyph class="state variable" id="_fe82ea7a-ff28-477b-8983-f776fdcd153e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19192.111" y="9273.431"/> </glyph> <glyph class="state variable" id="_c7372a43-65c3-4913-a64b-a6d5b6b05354"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="19264.611" y="9273.431"/> </glyph> <glyph class="state variable" id="_fea22628-ab3a-4743-baf4-e9b463f4365d"> <state value="" variable="T125"/> <bbox w="30.0" h="10.0" x="19205.707" y="9253.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4120_rc_sa4120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2</p> <p>HUGO:APPL2 HGNC:18242 ENTREZ:55198 UNIPROT:Q8NEU8</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:12011067</p> <p>DIP13 alpha is a mediator of the DCC apoptotic pathway</p> <p>PMID:22920895</p> </body> </html> </notes> <label text="APPL2"/> <bbox w="80.0" h="40.0" x="19197.111" y="9208.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4129_rc_sa4129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>deleted in colorectal carcinoma</p> <p>HUGO:DCC HGNC:2701 ENTREZ:1630 UNIPROT:P43146</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:22920895</p> <p>in the absence of his ligand, DCC is cleaved and induce apoptosis</p> </body> </html> </notes> <label text="Cleaved DCC*"/> <bbox w="80.0" h="50.0" x="19197.111" y="9153.431"/> <glyph class="unit of information" id="_ab1d0ed4-e2de-4701-ab3c-d77e1fa42567"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19214.611" y="9148.431"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa82_ca_csa82" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDC42:GTP</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>CASCADE:CAV</p> <p>PMID:18037882 </p> <p>Fibroblast-led collective invasion of carcinoma cells with differing roles for RhoGTPases in leading and following cells</p> <p>PMID:11747822</p> <p>Rac and Cdc42 are capable of inducing phosphorylation of Akt and that PDGF induces phosphorylation of Akt at least in part through Rac in fibroblasts.</p> <p>Expression of Rac V12 or Cdc42 V12 stimulated cell motility Figure 2 and Figure 3[14]. Coexpression of dominant-negative Akt suppressed cell motility stimulated by active Rac and Cdc42 to the basal levels (Figure 2d), suggesting that Akt is an essential downstream effector of Rac and Cdc42 in stimulating cell motility.</p> <p>PMID:10753747</p> <p>Pten regulates PI3K pathway via its phosphatase activity on phosphatidylinositol (PI) 3,4,5-trisphosphate (PI(3,4,5)P3), a product of PI 3-kinase.</p> <p>Pten-deficient fibroblasts migrate faster than wild type.</p> <p> there are marked increases of the GTP-bound forms of Rac1 and Cdc42 in logarithmically growing Pten−/− cells compared to wild-type cells, although the total protein levels are not affected by the Pten status. </p> <p>similar to Akt, Rac1 and Cdc42 activation in Pten−/− cells is downstream of PI 3-kinase.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa82_ca_csa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18037882"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11747822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10753747"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s1700"/> <bbox w="100.0" h="120.0" x="6170.0" y="3034.0"/> <glyph class="simple chemical" id="s_id_ca_sa688_ca_sa688"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="6185.0" y="3101.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa687_ca_sa687"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 42</p> <p>HUGO:CDC42 hgnc_id:HGNC:1736 HGNC:1736 ENTREZ:998 UNIPROT:P60953</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>CASCADE:CAV</p> <p>PMID:17517963 </p> <p>caveolin-deficient MEFs showed a notable decrease in basal Rho activity and a significant increase in Rac and Cdc42 activity</p> <p>PMID:21178402</p> <p>Rac1 and Cdc42 activate ARP2/3 complex;</p> <p>Rac1 and Cdc42 activate Wiskott-Aldrich Syndrome family of proteins including WASP, N-WASP and WAVE1/2.</p> <p>Cdc42 is also involved in Golgi apparatus and MTOC reorientation in wound-edge fibroblasts.</p> <p>PMID:27248291 </p> <p>Cdc42 regulates Cdc42EP3 function in cancer-associated fibroblasts</p> <p>Inhibiting Cdc42 function by transient expression of the dominant negative Cdc42-N17</p> <p>protein resulted in a loss of filamentous Cdc42EP3 structures and reduced F-actin stress fibers and filamentous</p> <p>SEPT2</p> <p>PMID:15882626 </p> <p>Cdc42 and MRCK Activate Nuclear Movement to Reorient the MTOC (The microtubule-organizing center )in fibroblasts</p> </body> </html> </notes> <label text="CDC42"/> <bbox w="80.0" h="40.0" x="6180.0" y="3054.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa948_ca_sa948"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>PMID:26921338 </p> <p>(PEDF, SERPINF1) normal dermal fibroblasts expressing high PEDF levels attenuated melanoma growth and angiogenesis in vivo, whereas PEDF-depleted fibroblasts exerted tumor-promoting effects.</p> <p> melanoma cells produced PDGF-BB and TGFβ, which blocked PEDF production in fibroblasts. 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re64(MAP:survival):</p> <p>PMID:16611981</p> <p>PMID:16651270</p> <p>Gli2 ubi by bTrCP2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa32_shh1_shh1_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16611981"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa15_wca1_wca4_sa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR375"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR375"/> <bbox w="70.0" h="25.0" x="23369.06" y="22695.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1985_rc_sa1985" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1985_rc_sa1985"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC38A5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC38A5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC38A5"/> <bbox w="70.0" h="25.0" x="24680.037" y="16297.798"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa40_in_sa40" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ERAP1"/> <bbox w="80.0" h="40.0" x="22130.0" y="6030.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1528_in_sa1528" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11672593, 12811837., 11964313, 12032143 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:TLR2_4, CASCADE:IFNG</p> <p>References:</p> <p>PMID:11964313, PMID:11672593, PMID:12032143, PMID:12811837.</p> <p>INFG upregulates mRNA level and surface expression of TLR4 and TLR2.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<p>NAME:ATG14:BECN1:PIK3C3:PIK3R4:UVRAG</p> <p>References:</p> <p>17106237</p> <p>18612260</p> <p>23725295</p> <p>23301705</p> <p>UVRAG is a plateform of interaction alowing Beclin1 and PIK3C3 interations</p> <p>24070470</p> <p>22166994</p> <p>23030059</p> <p>22093031</p> </body> </html> </notes> <label text="BECN1:PIK3C3:ATG14"/> <bbox w="194.0" h="184.0" x="28197.31" y="11371.083"/> <glyph class="macromolecule" id="s_id_rc_sa4378_rc_sa4378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol 3-kinase, catalytic subunit type 3</p> <p>HUGO:PIK3C3 HGNC:8974 ENTREZ:5289 UNIPROT:Q8NEB9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> </body> </html> </notes> <label text="PIK3C3"/> <bbox w="80.0" h="40.0" x="28212.31" y="11479.333"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4418_rc_sa4418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>UV radiation resistance associated</p> <p>HUGO:UVRAG HGNC:12640 ENTREZ:7405 UNIPROT:Q9P2Y5</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:17106237</p> <p>PMID:22885520</p> <p>PMID:18612260</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="UVRAG"/> <bbox w="80.0" h="40.0" x="28209.06" y="11384.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4377_rc_sa4377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>beclin 1, autophagy related</p> <p>HUGO:BECN1 HGNC:1034 ENTREZ:8678 UNIPROT:Q14457</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, 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acid feature" id="s_id_rc_sa625_rc_sa625" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa625_rc_sa625"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKFB4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PFKFB4"/> <bbox w="70.0" h="25.0" x="22807.56" y="16271.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa479_in_sa479" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SOS*"/> <clone/> <bbox w="80.0" h="40.0" x="17575.0" y="3380.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa479_in_sa454" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SOS*"/> <clone/> <bbox w="90.0" h="50.0" x="17565.0" y="3290.0"/> </glyph> <glyph class="complex" id="s_id_in_csa150_in_csa150" compartmentRef="s_id_in_ca13_in_ca13"> <label text="IL4_receptor_TYPE1:IL4:JAK1:JAK2:JAK3"/> <bbox w="215.0" h="156.0" x="9172.75" y="5027.25"/> <glyph class="macromolecule" id="s_id_in_sa1019_in_sa1019"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="9289.75" y="5079.75"/> <glyph class="state variable" id="_1ebf08b5-2d9d-47c2-b834-1019fcb11fb7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9282.25" y="5094.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1021_in_sa1021"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4"/> <bbox w="80.0" h="40.0" x="9192.75" y="5042.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1020_in_sa1020"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK3"/> <bbox w="80.0" h="40.0" x="9292.75" y="5042.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1022_in_sa1022"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="9192.75" y="5117.75"/> <glyph class="state variable" id="_cc9e1def-d7ee-4e4c-875f-74c579dd89fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9267.75" y="5152.139"/> </glyph> <glyph class="unit of information" id="_dec483be-e085-4d43-9702-05ab860782ba"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9210.25" y="5112.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1023_in_sa1023"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <bbox w="80.0" h="50.0" x="9192.75" y="5077.75"/> <glyph class="unit of information" id="_d66a1ffc-1b5f-43c3-96ed-dc0b79d2f792"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9210.25" y="5072.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1018_in_sa1018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="9290.0" y="5125.0"/> <glyph class="state variable" id="_cfcdeac8-c961-471f-92ea-4180ec0b1f81"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9285.0" y="5140.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5330_rc_sa5330" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:20506</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5330_rc_sa5330"> <bqbiol:isEncodedBy> 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGF family*"/> <bbox w="95.0" h="33.0" x="3218.0" y="18959.0"/> <glyph class="unit of information" id="_1e3f2064-422b-479d-bc93-e37c6b77aae9"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3255.5" y="18954.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa411_rc_sa411" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15379 KEGGCOMPOUND:C00007 CAS:7782-44-7</p> </body> </html> </notes> <label text="O2"/> <bbox w="70.0" h="25.0" x="19910.81" y="14221.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3184_rc_sa3184" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3184_rc_sa3184"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK12"/> <clone/> <bbox w="80.0" h="40.0" x="23039.06" y="11133.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3184_rc_sa4833" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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rdf:resource="urn:miriam:hgnc.symbol:FOXP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXP3"/> <bbox w="90.0" h="25.0" x="26604.06" y="20866.5"/> <glyph class="unit of information" id="_d838dda8-b2b4-46bc-a0e5-75bb7d8d7f93"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="20861.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa393_ca_sa393" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa393_ca_sa393"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="1240.0" y="1548.0"/> <glyph class="state variable" id="_660e311a-b66e-4aa8-85c6-c19d4dd500bc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1315.0" y="1563.4336"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1149_ad_sa1149" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CXCL12 decreases phosphorylation of the glycogen synthase kinase-3β-targeted residues CRMP2-Thr-509/514; and 3) tyrosine Tyr-479 is a new phosphorylation CRMP2 residue and a target for the Src-family kinase Yes. Moreover, phospho-Tyr-479 increased under CXCL12 signaling while phospho-Thr-509/514 decreased.</p> </body> </html> </notes> <label text="YES1"/> <bbox w="80.0" h="40.0" x="29568.5" y="5860.0"/> </glyph> <glyph class="phenotype" id="s_id_an_sa156_an_sa156" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Ca++ release"/> <bbox w="100.0" h="35.0" x="5642.0" y="7117.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1058_emtc_em_sa1058" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1058_emtc_em_sa1058"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NCK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCK1"/> <bbox w="37.0" h="18.0" x="6394.5" y="14725.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa709_ca_sa709" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa709_ca_sa709"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIFR"/> <bbox w="80.0" h="50.0" x="820.0" y="2475.0"/> <glyph class="unit of information" id="_6cc51aa4-bab6-43d1-b2fc-944fa2af6ddc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="837.5" y="2470.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa320_emtc_em_csa320" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Class I: WNT-1,3a,7,8a,8b activates canonical </p> <p>PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa320_emtc_em_csa320"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14747478"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15265686"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8655584"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017973"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17127310"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Gβ/Gγ)"/> <bbox w="99.0" h="43.0" x="2149.0" y="18313.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2228_emtc_em_sa2228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873</p> <p>guanine nucleotide binding protein (G protein) beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879</p> <p>guanine nucleotide binding protein (G protein) beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520</p> <p>guanine nucleotide binding protein (G protein) beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta polypeptide 5</p> <p>HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21640127</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="2158.0" y="18317.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2229_emtc_em_sa2229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768</p> <p>guanine nucleotide binding protein (G protein) gamma 3</p> <p>HUGO:GNG HGNC:4405 ENTREZ:2785 UNIPROT:P63215</p> <p>guanine nucleotide binding protein (G protein) gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150</p> <p>guanine nucleotide binding protein (G protein) gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218</p> <p>guanine nucleotide binding protein (G protein) gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262</p> <p>guanine nucleotide binding protein (G protein) gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08</p> <p>guanine nucleotide binding protein (G protein) gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151</p> <p>guanine nucleotide binding protein (G protein) gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952</p> <p>guanine nucleotide binding protein (G protein) gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6</p> <p>guanine nucleotide binding protein (G protein) gamma 13</p> <p>HUGO:GNG13 HGNC:14131 ENTREZ:51764 UNIPROT:Q9P2W3</p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21640127</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="2200.5" y="18318.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa192_shh1_shh1_sa192" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2-XL*:BECN1:UVRAG</p> <p>References:</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa239_rc_csa239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17446862"/> </rdf:Bag> </bqbiol:isEncodedBy> 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HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="27108.56" y="11032.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1804_rc_sa1804"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>beclin 1, autophagy related</p> <p>HUGO:BECN1 HGNC:1034 ENTREZ:8678 UNIPROT:Q14457</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23377657</p> <p>PMID:17446862</p> <p>PMID:27754749</p> </body> </html> </notes> <label text="BECN1"/> <bbox w="80.0" h="40.0" x="27108.56" 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<bbox w="45.0" h="10.0" x="24302.5" y="2170.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1381_in_sa1381" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 22461508, 11875494, 22067385, 18776941, 20237412, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:MATRIX_REMODELLINGCASCADE:MIF, CASCADE:IL10, CASCADE:IL4, CASCADE:IFNABReferences:PMID:11875494MMPs plays important in the degradation and remodeling of theextracellular matrix at sites of inflammation. HMOX1 (HO1) mediates IL-10-induced suppressionof MMP9 expression.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis provavly via upregulation of MMP9, VEGF expression.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:18776941Expression of VEGF and bFGF, but also IL-1B, MMP9, CCL2, and CXCL2 is STAT3-dependent in myeloid cells.MIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasionIRF-8 and IRF-1 are the target genes in activated macrophages.The expression levels of CXCL16, H28, IL-17R, LIF, MAP4K4, MMP9, MYC, PCDH7, PML, and SOCS7 were significantly increased in macrophagesextracted form WT mice (black columns) following activationfor 4 h with IFNG and LPS. However, no changes in the expression of these genes were observed in cells extracted from IRF-8,as well as from IRF-1 null mice.PMID:20237412IFN-B regulates expression of homing and angiogenic factors in neutrophils.IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophilsadditionally Stat3 and c-myc are downregulated by IFN-B.(STAT3 is known to be required for full activation of the Cxcr4 gene ) ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 22461508, 11875494, 22067385, 18776941, 20237412, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:MATRIX_REMODELLINGCASCADE:MIF, CASCADE:IL10, CASCADE:IL4, CASCADE:IFNABReferences:PMID:11875494MMPs plays important in the degradation and remodeling of theextracellular matrix at sites of inflammation. HMOX1 (HO1) mediates IL-10-induced suppressionof MMP9 expression.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis provavly via upregulation of MMP9, VEGF expression.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:18776941Expression of VEGF and bFGF, but also IL-1B, MMP9, CCL2, and CXCL2 is STAT3-dependent in myeloid cells.MIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasionIRF-8 and IRF-1 are the target genes in activated macrophages.The expression levels of CXCL16, H28, IL-17R, LIF, MAP4K4, MMP9, MYC, PCDH7, PML, and SOCS7 were significantly increased in macrophagesextracted form WT mice (black columns) following activationfor 4 h with IFNG and LPS. However, no changes in the expression of these genes were observed in cells extracted from IRF-8,as well as from IRF-1 null mice.PMID:20237412IFN-B regulates expression of homing and angiogenic factors in neutrophils.IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophilsadditionally Stat3 and c-myc are downregulated by IFN-B.(STAT3 is known to be required for full activation of the Cxcr4 gene ) </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1381_in_sa1381"> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16284 KEGGCOMPOUND:C00131 CAS:1927-31-7</p> </body> </html> </notes> <label text="dATP"/> <clone/> <bbox w="70.0" h="25.0" x="24028.186" y="14794.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3092_rc_sa2823" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16284 KEGGCOMPOUND:C00131 CAS:1927-31-7</p> </body> </html> </notes> <label text="dATP"/> <clone/> <bbox w="70.0" h="25.0" x="19671.936" y="11744.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa467_rc_csa467" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LC3-I*:SQSTM1</p> <p>References:</p> <p>PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa467_rc_csa467"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SQTM1:LC3-I*"/> <bbox w="137.0" h="108.0" x="29051.56" y="11546.5"/> <glyph class="macromolecule" id="s_id_rc_sa4448_rc_sa4448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microtubule-associated protein 1 light chain 3 alpha</p> <p>HUGO:MAP1LC3A HGNC:6838 ENTREZ:84557 UNIPROT:Q9H492</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:23301705</p> <p>PMID:23377657</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="LC3-I*"/> <bbox w="80.0" h="40.0" x="29057.81" y="11597.5"/> <glyph class="unit of information" id="_d6105268-0c87-4ad2-8355-9090728248f0"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="29072.81" y="11592.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4449_rc_sa4449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sequestosome 1</p> <p>HUGO:SQSTM1 HGNC:11280 ENTREZ:8878 UNIPROT:Q13501</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:26587781</p> <p>Sequestosme 1, p62</p> <p>PMID:20531300</p> <p>PMID:16252010</p> <p>PMID:15340068</p> <p>Sequestosome 1/p62 is a polyubiquitin chain binding protein involved in ubiquitin proteasome degradation.PMID:19450509</p> <p>polyubiquitination of caspase-8, rather than targeting it for proteasomal degradation, is critical for sustaining caspase-8 activity after dissociation from the DISC</p> <p>PMID:28574505</p> </body> </html> </notes> <label text="SQSTM1"/> <bbox w="80.0" h="40.0" x="29094.81" y="11555.5"/> <glyph class="state variable" id="_6e27710d-d4b6-4a87-bb16-a4ca49b9be32"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29146.379" y="11550.5"/> </glyph> <glyph class="state variable" id="_2538cc2f-71f4-4d23-a1b2-3f447635b979"> <state value="" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5494_rc_sa5494"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Clostridium difficile"/> <bbox w="130.0" h="25.0" x="29374.06" y="9026.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa518_rc_csa518" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAX:TMBIM3</p> </body> </html> </notes> <label text="BAX:TMBIM3"/> <bbox w="100.0" h="120.0" x="27422.967" y="13839.0"/> <glyph class="macromolecule" id="s_id_rc_sa5193_rc_sa5193"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="27432.967" y="13849.0"/> <glyph class="state variable" id="_cc6ac10e-0c69-4721-8af6-02d85ffbe42d"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="27479.05" y="13844.0"/> </glyph> <glyph class="state variable" id="_f894dc8a-5fb5-4991-a965-a22a6cd3a531"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="27479.287" y="13884.0"/> </glyph> <glyph class="state variable" id="_47029581-8979-45d5-b0dd-7d321ca2a2ee"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="27434.045" y="13844.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5194_rc_sa5194"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutamate ionotropic receptor NMDA type subunit associated protein 1</p> <p>HUGO:GRINA hgnc_id:HGNC:4589 HGNC:4589 ENTREZ:2907 UNIPROT:Q7Z429</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Binding of Bax and Bak to IRE1 is negatively regulated by Bax Inhibitor 1 (BI-1), a transmembrane protein localized to the ER and nuclear envelope</p> </body> </html> </notes> <label text="TMBIM3"/> <bbox w="80.0" h="50.0" x="27432.967" y="13894.0"/> <glyph class="state variable" id="_9de6c885-6004-479b-9f9d-f1b197e17014"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27484.535" y="13889.0"/> </glyph> <glyph class="unit of information" id="_99a35e4b-873d-486d-99d7-966f80a933a5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27450.467" y="13889.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa58_ce_sa58" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa58_ce_sa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHEK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CHEK1"/> <bbox w="80.0" h="40.0" x="12712.266" y="11681.0"/> <glyph class="state variable" id="_72b8c2fe-d5f6-4ed7-8fea-b8310f991c34"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12707.266" y="11696.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa986_ad_sa986" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p> PMID:26513405</p> <p>in T lymphocytes HIF‐1α protein expression can be robustly induced also by T cell receptor (TCR) stimulation, followed by activation of PI3 kinase/mTOR pathway 28. Alternatively, the pro‐inflammatory cytokine IL‐6 drives HIF‐1α expression by activation of STAT3 transcription factor 29.</p> <p>PMID:16110315 </p> <p>REW</p> <p>Regulation of immune cells by local-tissue oxygen tension: HIF1α and adenosine receptors</p> <p>PMID:22988108 </p> <p>Hypoxia-inducible factor-1 alpha–dependent induction of FoxP3 drives regulatory T-cell abundance and function during inflammatory hypoxia of the mucosa</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Ephrin-B1/EPHB2)"/> <bbox w="123.0" h="106.0" x="3238.5" y="12559.5"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2580_emtc_em_sa2580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>EPH receptor B2</p> <p>"EphB2"</p> <p>HUGO:EPHB2 HGNC:3393 ENTREZ:2048 UNIPROT:P29323</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20179713</p> <p>E-cadherin promotes EPHA2– ephrin-A1 localization at epithelial cell junctions </p> <p>EPHA2 is upregulated in many cancers and its expression has been linked to increased malignancy and a poor clinical prognosis.</p> <p>EPHA2 seems to be preferentially expressed in malignant breast and prostate cancers with a basal phenotype.</p> <p>EPHA1 is downregulated in advanced human skin and colorectal cancers, EphB receptors 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa845_ca_sa845"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAB1"/> <bbox w="80.0" h="40.0" x="4255.0" y="2415.0"/> <glyph class="state variable" id="_6aa07358-e971-4572-a3b1-4dfbc0ec07c4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4250.0" y="2430.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa276_emtc_em_csa276" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Plakoglobin binding partners*:Plakoglobin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa276_emtc_em_csa276"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19955337"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Plakoglobin*/Plakoglobin binding partners)"/> <bbox 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>junction plakoglobin</p> <p>"catenin (cadherin-associated protein), gamma 80kDa", CTNNG</p> <p>HUGO:JUP HGNC:6207 ENTREZ:3728 UNIPROT:P14923 GENECARDS:GC17M039776</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Plakoglobin*"/> <bbox w="80.0" h="21.0" x="1904.5" y="16995.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa138_ce_sa138" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<bbox w="90.0" h="40.0" x="28801.0" y="5990.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa837_ad_sa837"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="28806.0" y="6030.0"/> <glyph class="unit of information" id="_559843e7-080a-43ad-81f6-7168493a9458"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28821.0" y="6025.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2189_rc_sa2189" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2189_rc_sa2189"> <bqbiol:isEncodedBy> 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DDB2"/> <clone/> <bbox w="70.0" h="25.0" x="15097.769" y="10523.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa281_mpk1_mpk1_sa662" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa281_mpk1_mpk1_sa662"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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rdf:about="#s_id_mpk1_mpk1_sa538_mpk1_mpk1_sa538"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF2"/> <bbox w="50.0" h="25.0" x="9898.061" y="20634.5"/> <glyph class="state variable" id="_be793909-bdee-4cdd-9087-bd7e087c39c5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9890.561" y="20642.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa37_gf1_sa37" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:25772309 </p> <p>Downstream of the signaling tyrosine kinase FGFRs, intracellular signaling cascades are also tightly regulated by specialized adaptor proteins such as FGFR substrate 2?? (FRS2??) and regulators of the RAS???MAPK and PI3K???AKT pathways such as Sprouty (SPRY) proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa37_gf1_sa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25772309"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FRS2"/> <bbox w="80.0" h="40.0" x="8416.561" y="18279.5"/> <glyph class="state variable" id="_279da2e5-855d-47f9-8fca-01ac7f966814"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8409.061" y="18294.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa679_wnc1_wnc1_sa679" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa679_wnc1_wnc1_sa679"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DAAM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DAAM1"/> <bbox w="80.0" h="40.0" x="14909.061" y="19495.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa43_wnc1_wnc2_csa43" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:NFAT*</p> <p>References:</p> <p>s_wnc2_re86:(MAP:survival) PMID:10611249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa43_wnc1_wnc2_csa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10611249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:NFAT*"/> <bbox w="107.0" h="135.0" x="18332.06" y="19528.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa246_wnc1_wnc2_sa246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18347.31" y="19586.0"/> <glyph class="state variable" id="_5ccbe716-df49-43fb-a7a0-8b742ddea243"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18398.879" y="19581.0"/> </glyph> <glyph class="state variable" id="_1c6482a8-9d6d-4970-8e1e-40f18eebb84a"> <state value="" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="18346.81" y="19536.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa466_rc_csa466" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RAB5*:UVRAG</p> <p>References:</p> <p>23301705</p> </body> </html> </notes> <label text="RAB*:GTP:UVRAG"/> <bbox w="188.0" h="106.0" x="28306.56" y="12254.5"/> <glyph class="macromolecule" id="s_id_rc_sa4434_rc_sa4434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>UV radiation resistance associated</p> <p>HUGO:UVRAG HGNC:12640 ENTREZ:7405 UNIPROT:Q9P2Y5</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:17106237</p> <p>PMID:22885520</p> <p>PMID:18612260</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="UVRAG"/> <bbox w="80.0" h="40.0" x="28402.06" y="12278.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4433_rc_sa4433"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAB5A, member RAS oncogene family</p> <p>HUGO:RAB5A HGNC:9783 ENTREZ:5868 UNIPROT:P20339</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RAB5*"/> <bbox w="80.0" h="40.0" x="28316.06" y="12262.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4432_rc_sa4432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15996 KEGGCOMPOUND:C00044 CAS:86-01-1</p> <p>Map modules:</p> <p>MODULE:MITOCH_METABOLISM, MODULE:DEATH-RECEPTORS, MODULE:DEPENDANCE_RECEPTORS</p> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="28322.31" y="12308.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa1960_rc_sa1960" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s3332"/> <bbox w="30.0" h="30.0" x="24004.06" y="11994.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa536_in_sa536" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PLA2G4A"/> <bbox w="80.0" h="40.0" x="18440.0" y="4290.0"/> <glyph class="state variable" id="_371b8262-d187-46bf-973e-3f05a46ed9e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18435.0" y="4305.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1640_emtc_em_sa1640" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1640_emtc_em_sa1640"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH14"/> <bbox w="55.0" h="16.0" x="5939.516" y="16119.791"/> </glyph> <glyph class="complex" id="s_id_in_csa313_in_csa313" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa313_in_csa313"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10358772"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10856136"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4_receptor_TYPE1:IL4"/> <bbox w="92.0" h="187.0" x="9024.0" y="4941.75"/> <glyph class="macromolecule" id="s_id_in_sa2350_in_sa2350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4"/> <bbox w="80.0" h="40.0" x="9036.0" y="4961.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2344_in_sa2344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> 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w="80.0" h="50.0" x="9030.0" y="5050.0"/> <glyph class="state variable" id="_3c781222-1fba-4ea3-b648-408730e6d39d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9105.0" y="5084.389"/> </glyph> <glyph class="unit of information" id="_97c96f47-1c0d-4291-a54c-2ddc7340f7c0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9047.5" y="5045.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2345_in_sa2345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>newly synthesized telomeric DNAModules_begin:MODULE:REPLICATIONModules_end ----- content merged by Celldesigner to SBGN-ML translation ------ newly synthesized telomeric DNAModules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="Newly_synthesized_telomeric_DNA*"/> <bbox w="215.0" h="22.0" x="2845.56" y="22359.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4707_rc_sa4707" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4707_rc_sa4707"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF2AK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PERK*"/> <bbox w="80.0" h="40.0" x="28122.967" y="13909.0"/> <glyph class="state variable" id="_b53b1d01-5613-4afa-b3f2-125337647b97"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28197.967" y="13915.715"/> </glyph> <glyph class="state variable" id="_945a40a2-a63e-482e-870c-b135fcb1cf9a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28197.967" y="13932.285"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2071_em_sa2071" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID:24335145β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID:24335145β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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Doubly phosphorylated ITAMs are the docking sites for ZAP70 and other TCR signaling-associated proteins. Lck is often associated with the CD4 or CD8 co-receptors, which might potentiate its activity by bringing it into the proximity of the CD3 chains </p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). 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id="s_id_ca_sa1079_ca_sa1079" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>http://www.fasebj.org/content/23/1_Supplement/894.7.short</p> <p>FIZZ1 binds to B7-H3 on fibroblasts and activates myofibroblast differentiation</p> <p>This FIZZ1-B7-H3 interaction was confirmed by co-immunoprecipitation and FRET assays. B7-H3 expression by fibroblasts was confirmed by immunostaining and real time PCR. Further studies indicated that FIZZ1 induced the phosphorylation of B7-H3. In contrast to wild type fibroblasts, B7-H3 deficient cells from knockout mice failed to undergo myofibroblast differentiation in response to FIZZ1 treatment. </p> <p>PMID: 19544488 </p> <p>B7-H3 is a potent inhibitor of human T-cell activation: No evidence for B7-H3 and TREML2 interaction</p> <p>https://link.springer.com/chapter/10.1007%2F978-4-431-99644-6_60</p> <p>The cell line named H1C1 had abilities to differentiate into adipocytes, osteocytes, and chondrocytes; therefore, we termed H1C1 as the human mesenchymal stem cells. RT-PCR showed that H1C1 constantly expressed mRNA of costimulatory molecules B7-H1, B7-H2, and B7-H3, which are known as immunosuppressive molecules. When human PBMC were cocultured with H1C1, the population of Tregs was increased compared with monoculture of PBMC, and neutralization of B7-H3 suppressed this induction. These results suggest that the human oral mesenchymal stem cells such as H1C1 have the abilities to suppress immunoreactions by costimulatory molecules and increasing Tregs.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1079_ca_sa1079"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD276"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed: 19544488 "/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_sa87_shh1_shh3_sa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TSC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="27681.06" y="22926.0"/> </glyph> <glyph class="complex" id="s_id_em_csa309_em_csa309" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ARF6:DNM2_GTP:NME1</p> <p>Map modules:</p> <p>References:</p> <p>PMID:12447393</p> <p>Activation of (activated) ARF6 is required for dynamin-dependent endocytosis of E-cadherin.</p> <p>Nm23-H1 binds ARF6-GTP and mediates dynamin-dependent vesicle fission.</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>DNM2 induces E-cadherin internalisation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_csa309_em_csa309"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12447393"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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failure and tetraploidy</p> <p>PMID:18470881</p> <p>Nm23-H1 binds Dbl-1(MCF2) and thus interferes with the ability of Dbl-1 to load GTP onto CDC42</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NME1"/> <bbox w="80.0" h="40.0" x="1979.0" y="13125.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa1999_em_sa1999"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS </p> <p>References:</p> <p>PMID:12447393</p> <p>Activation of (activated) ARF6 is required for dynamin-dependent endocytosis of E-cadherin.</p> <p>Nm23-H1 binds ARF6-GTP and mediates dynamin-dependent vesicle fission.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ARF6"/> <bbox w="80.0" h="40.0" x="1979.0" y="13065.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" 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x="26462.06" y="21526.5"/> </glyph> <glyph class="complex" id="s_id_te_csa27_te_csa27" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/GAR1/NHP2/NOP10/TERC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa27_te_csa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/GAR1/NHP2/NOP10/TERC"/> <bbox w="330.0" h="130.0" x="5015.06" y="21988.0"/> <glyph class="nucleic acid feature" id="s_id_te_sa226_te_sa226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <bbox w="90.0" h="25.0" x="5230.06" y="22035.5"/> <glyph class="state variable" id="_4a80e4f7-0f11-44bd-a3f3-dbfd06380cfe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5265.56" y="22030.5"/> </glyph> <glyph class="unit of information" id="_69095ed0-ed83-421b-b7e3-4c4ae242d8e4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5265.06" y="22030.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa223_te_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="5045.06" y="22058.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa227_te_sa227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <bbox w="80.0" h="40.0" x="5135.06" y="22058.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa224_te_sa224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="5045.06" y="22008.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa225_te_sa225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:CTBP*:KLF4:LEF_TCF*:PYGO*:WRE*:β-Catenin*"/> <bbox w="189.0" h="202.0" x="21635.273" y="21280.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa362_wca1_wca3_sa362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21729.273" y="21335.238"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa364_wca1_wca3_sa364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. 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ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21729.273" y="21382.5"/> <glyph class="state variable" id="_ff956a7d-1563-403d-8342-ef6489613906"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21716.773" y="21417.223"/> </glyph> <glyph class="state variable" id="_6984b57b-b32f-464d-8aaa-b5934f625996"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21794.273" y="21377.715"/> </glyph> <glyph class="state variable" id="_a5f00760-606a-4cdf-86cf-b891c786ea93"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21743.49" y="21377.5"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> <p>PMID:21285352</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="21644.936" y="21335.15"/> <glyph class="state variable" id="_fcaf9d88-2e7e-47b2-8a9d-9d7c5201130e"> <state value="" variable="S166"/> <bbox w="30.0" h="10.0" x="21630.428" y="21330.15"/> </glyph> <glyph class="state variable" id="_7014a173-4bcf-4826-9c3a-1db3fb5f5fb6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21719.936" y="21331.027"/> </glyph> <glyph class="state variable" id="_02b9ff03-3ca3-4aa2-87e6-a62b61957021"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="21712.436" y="21366.766"/> </glyph> <glyph class="state variable" id="_c0561eda-4592-4b19-a8cd-baa253252106"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21719.936" y="21350.15"/> </glyph> <glyph class="state variable" id="_1c70f759-5c81-4034-8c43-9a36aa4a2f20"> <state value="" variable="T155"/> <bbox w="30.0" h="10.0" x="21629.936" y="21369.871"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa366_wca1_wca3_sa366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="21645.31" y="21383.0"/> <glyph class="state variable" id="_a887df9c-fbc9-46ea-9a17-11f6bb26c6bf"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="21710.31" y="21378.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa363_wca1_wca3_sa363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21729.273" y="21290.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa367_wca1_wca3_sa367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="21647.06" y="21422.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa361_wca1_wca3_sa361"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kruppel-like factor 4 (gut)</p> <p>HUGO:KLF4 HGNC:6348 ENTREZ:9314 UNIPROT:O43474 GENECARDS:KLF4 REACTOME:58119 KEGG:9314 ATLASONC:KLF4ID44316ch9q31 WIKI:KLF4</p> <p>Map modules:</p> </body> </html> </notes> <label text="KLF4"/> <bbox w="80.0" h="40.0" x="21645.31" y="21291.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa494_ca_sa494" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa494_ca_sa494"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMP4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMP4"/> <bbox w="80.0" h="40.0" x="4160.0" y="4431.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2609_in_sa2609" compartmentRef="s_id_in_ca12_in_ca12"> <label text="E-Cadherin*"/> <bbox w="80.0" h="40.0" x="10780.0" y="3500.0"/> </glyph> <glyph 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<glyph class="state variable" id="_03549f51-d83a-4739-b859-636537c0e490"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22327.492" y="9294.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa62_wca1_wca1_csa62" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:CK1_gamma_*:PtdIns</p> <p>References:</p> <p>s_wca1_re60:(MAP:survival) PMID:21304492</p> <p>s_wca1_re28(MAP:survival):</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. Activation of CK1 epsilon by unknown factor</p> <p>An acidic environment is required for phosphorylation of DVL and LRP5/6</p> <p>s_wca1_re33(MAP:survival):</p> <p>PMID:19561074 PMID:20460648 PMID:19581931 PMID:21304492 PMID:21498506</p> <p>AMER1 recruits axin</p> <p>s_wca1_re37(MAP:survival):</p> <p>PMID:20229235 PMID:18077588 PMID:21304492 PMID:21498506</p> <p>Phosphorylation of the repeat PPSP A allows recruitment of additional GSK/AXIN which phosphorylates LRP5/6 on other PPSP repeats resulting of sequestering of GSK3 and AXIN away from the destruction complex</p> <p>AMER1 recruits axin and GSk3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMER1*:CK1γ*:PtdIns"/> <bbox w="80.0" h="155.0" x="22694.06" y="18388.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa577_wca1_wca1_sa577"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22694.06" y="18463.5"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa581_wca1_wca1_sa581"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="22699.06" y="18392.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa580_wca1_wca1_sa580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22694.06" y="18418.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1255_in_sa1255" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCL2"/> <bbox w="80.0" h="40.0" x="13890.0" y="2445.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2401_rc_sa2401" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2401_rc_sa2401"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GABPA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GABPA"/> <bbox w="80.0" h="40.0" x="19421.56" y="16524.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa691_ad_sa691" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:CD226, CASCADE:TCR</p> <p>PMID:10811803 </p> <p>The linker for activation of T cells (LAT) is a critical adaptor molecule required for T cell antigen receptor (TCR)-mediated signaling and thymocyte development. Upon T cell activation, LAT becomes highly phosphorylated on tyrosine residues, and Grb2, Gads, and phospholipase C (PLC)-γ1 bind LAT via Src homology-2 domains. In LAT-deficient mutant Jurkat cells, TCR engagement fails to induce ERK activation, Ca2+ flux, and activation of AP-1 and NF-AT.</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. Activated Calcineurin dephosphorylates Nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 2 ( NF-AT1(NFATC2) ). </p> <p>PMID:15214048 </p> <p>AP-1 activation by Tec is largely dependent on PLCγ1 function. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa252_emtc_em_sa252"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA9"/> <bbox w="40.0" h="20.0" x="4462.836" y="17647.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa83_mo_sa83" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0integrin subunit beta 3 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0integrin subunit beta 3 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa83_mo_sa83"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB3"/> <clone/> <bbox w="90.0" h="25.0" x="2596.5" y="10260.5"/> <glyph class="unit of information" id="_029f9802-896c-4a8d-bfd7-cda414582a26"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2631.5" y="10255.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa83_emtc_em_sa289" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0integrin subunit beta 3 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0integrin subunit beta 3 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa83_emtc_em_sa289"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB3"/> <clone/> <bbox w="60.0" h="20.0" x="4980.46" y="17722.5"/> <glyph class="unit of information" id="_83f74ce8-bc08-4173-881f-da0a23b83594"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5000.46" y="17717.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1158_ca_sa1158" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>0</p> <p>1</p> <p>2</p> <p>4</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>PMID:22314400</p> <p>Septins: the fourth component of the cytoskeleton (REW)</p> <p>PMID:26711338 </p> <p>Cdc42EP3/BORG2 is required for the matrix remodeling, invasion, angiogenesis, and tumor-growth-promoting abilities of CAFs. Cdc42EP3 functions by coordinating the actin and septin networks. Furthermore, depletion of SEPT2 has similar effects to those of loss of Cdc42EP3, indicating a role for the septin network in the tumor stroma.</p> <p>Altered Septin Networks Are a Feature of CAFs</p> <p>EPT2 and SEPT7 formed more extensive networks in CAFs</p> <p>AFs Require Cdc42EP3 and SEPT2 to Promote Angiogenesis and Tumor Growth</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1158_ca_sa1158"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEPT14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22314400"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26711338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SEPTINS*"/> <bbox w="80.0" h="40.0" x="6120.0" y="3440.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1563_ce_sa1563" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1563_ce_sa1563"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNKS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNKS1*"/> <bbox w="80.0" h="40.0" x="9869.77" y="16576.5"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa237_wca1_wca3_sa237" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18474248</p> <p>s_wca3_re81:(MAP:survival) PMID:18744248</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa237_wca1_wca3_sa237"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18474248"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18744248"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNA replication"/> <bbox w="80.0" h="30.0" x="21000.81" y="21162.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa169_shh1_shh2_sa169" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa169_shh1_shh2_sa169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT11"/> <bbox w="70.0" h="25.0" x="26451.06" y="21930.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1629_emtc_em_sa1629" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1629_emtc_em_sa1629"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH2"/> <bbox w="41.0" h="17.0" x="5399.857" y="16119.791"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4344_rc_sa4344" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16618</p> <p>References:</p> <p>PMID:17604717</p> <p>PMID:23301705</p> <p>PMID:22166994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4344_rc_sa4344"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17604717"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23301705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="28502.31" y="11462.583"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa321_shh1_shh1_sa321" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa321_shh1_shh1_sa321"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TULP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TULP3"/> <bbox w="80.0" h="40.0" x="27348.06" y="19064.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa956_emtc_em_sa956" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa956_emtc_em_sa956"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EZH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EZH2"/> <bbox w="41.0" h="16.0" x="3493.0" y="15781.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1357_in_sa1357" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL4"/> <bbox w="70.0" h="25.0" x="11952.745" y="5523.25"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa24_mo_sa24" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Actin cytoskeleton"/> <bbox w="132.0" h="40.0" x="5335.0" y="8960.0"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa334_mo_sa334" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="MAPK* activation"/> <bbox w="80.0" h="30.0" x="6182.0" y="11612.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3802_rc_sa3802" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16240</p> <p>References:</p> <p>PMID:18955971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3802_rc_sa3802"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18955971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="H2O2"/> <bbox w="125.0" h="23.0" x="20516.56" y="11147.75"/> </glyph> <glyph class="complex" id="s_id_in_csa13_in_csa13" compartmentRef="s_id_in_ca16_in_ca16"> <label text="MHC_class_I*:CANX"/> <bbox w="100.0" h="120.0" x="23090.176" y="6658.972"/> <glyph class="macromolecule" id="s_id_in_sa141_in_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CANX"/> <bbox w="80.0" h="40.0" x="23098.125" y="6667.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa142_in_sa142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MHC_class_I*"/> <bbox w="80.0" h="50.0" x="23100.176" y="6713.972"/> <glyph class="unit of information" id="_b6542f8b-6a04-40e5-acb2-3fba32d89058"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23117.676" y="6708.972"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_ce_sa1495_ce_sa1495" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:MMR, MODULE:FANCONI</p> </body> </html> </notes> <label text="Replication error"/> <bbox w="112.0" h="30.0" x="12954.77" y="14406.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3460_rc_sa3460" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3460_rc_sa3460"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MRE11A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="17903.06" y="16718.0"/> </glyph> <glyph class="complex" id="s_id_in_csa334_in_csa334" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s978"/> <bbox w="100.0" h="140.0" x="12380.0" y="3610.0"/> <glyph class="macromolecule" id="s_id_in_sa2564_in_sa2564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PKA*"/> <bbox w="80.0" h="40.0" x="12390.0" y="3680.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2565_in_sa2565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PKA_R*"/> <bbox w="80.0" h="40.0" x="12390.0" y="3630.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa20_mo_csa20" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="a1b1*"/> <bbox w="100.0" h="120.0" x="3535.0" y="11570.0"/> <glyph class="macromolecule" id="s_id_mo_sa411_mo_sa411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 1</p> </body> </html> </notes> <label text="ITGA1"/> <bbox w="80.0" h="40.0" x="3545.0" y="11580.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa412_mo_sa412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="80.0" h="40.0" x="3545.0" y="11630.0"/> <glyph class="state variable" id="_a1971916-bcd1-4285-99b0-8158d1fe2280"> <state value="P" variable="Y783"/> <bbox w="35.0" h="10.0" x="3584.4492" y="11625.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa56_ad_csa56" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:KIR2DL1</p> <p>MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:LYTIC_GRANULES_EXOCYTOSIS, MODULE:PHAGOCYTOSIS</p> <p>PMID:16606694</p> <p>Protein kinase C-theta mediates phosphorylation of WIPF1 downstream of NK activation. Inhibitory signaling from KIR2DL1 receptor.</p> <p>Phosphorylated WIPF1 provides recruitment of of F-actin and MYH9 (myosin IIA) to multiprotein WASP :WIPF1 complexs.</p> <p> PMID:17890224</p> <p>in macrophages WASP and WASP-interacting protein (WIP) form a complex at the phagocytic cup and that the WASP.WIP complex plays a critical role in the phagocytic cup formation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa56_ad_csa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16606694"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17890224"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASP*:WIPF1"/> <bbox w="110.0" h="140.0" x="30033.5" y="5980.0"/> <glyph class="macromolecule" id="s_id_ad_sa541_ad_sa541"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:WAS</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11520460</p> <p>Cdc42 and WASP are critical regulators of actin polymerization whose function during T cell signaling is poorly understood.</p> <p>WASP also localized to the T cell:APC contact site in an antigen-dependent manner. Surprisingly, WASP localization was independent of the Cdc42 binding domain but required the proline-rich domain.</p> <p>PMID:14707117 </p> </body> </html> </notes> <label text="WASP*"/> <bbox w="80.0" h="40.0" x="30046.0" y="5990.0"/> <glyph class="state variable" id="_bd26fb03-7221-45ef-b49d-5cc0c813bfdb"> <state value="P" variable="Tyr291"/> <bbox w="45.0" h="10.0" x="30023.5" y="5985.3296"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa542_ad_sa542"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:WIPF1</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16606694</p> <p>WIPF1 forms complex with WASP.</p> <p>WIPF1 (WIP) phosphorylation in NK cells is mediated by PRKCQ (PKC theta)</p> <p> PMID:17890224</p> </body> </html> </notes> <label text="WIPF1"/> <bbox w="80.0" h="40.0" x="30046.0" y="6040.0"/> <glyph class="state variable" id="_f2533ff5-4abd-4e85-a77c-c07fcf908ce8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="30038.5" y="6054.9683"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1017_ca_sa1017" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> </body> </html> </notes> <label text="PI4,5-P2"/> <bbox w="70.0" h="25.0" x="5395.0" y="1937.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa403_in_sa403" compartmentRef="s_id_in_ca48_in_ca48"> <label text="MICA"/> <bbox w="80.0" h="40.0" x="20390.0" y="945.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa903_ce_sa903" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa903_ce_sa903"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC7"/> <bbox w="80.0" h="40.0" x="13447.769" y="9766.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa648_wnc1_wnc1_sa648" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa648_wnc1_wnc1_sa648"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SH3RF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POSH*"/> <bbox w="80.0" h="40.0" x="15785.561" y="18980.0"/> <glyph class="state variable" id="_da673dcd-d350-4288-a584-6c047e02f367"> <state value="P" variable="S304"/> <bbox w="35.0" h="10.0" x="15848.061" y="18975.213"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa580_rc_sa580" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa580_rc_sa580"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR18A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR18A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR18A"/> <bbox w="90.0" h="25.0" x="20902.025" y="15629.348"/> <glyph class="unit of information" id="_ea6f32a9-9a00-4c1e-a939-4c0e2cad0431"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20932.025" y="15624.348"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa28_wnc1_wnc2_csa28" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CSE1L:KPNB1:LRRK2:NFAT*:NRON:PPP3CB_sub_trunc_endsub_*:PPP3R*:TNPO1:Tubulin-_alpha_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> <p>s_wnc2_re48:(MAP:survival) PMID:21709260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa28_wnc1_wnc2_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSE1L:KPNB1:LRRK2:NFAT*:NRON:PPP3CBtrunc*:PPP3R*:TNPO1:Tubulin-α*"/> <bbox w="201.0" h="281.0" x="19236.936" y="18730.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa154_wnc1_wnc2_sa154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="19338.936" y="18782.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa146_wnc1_wnc2_sa146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transportin 1</p> <p>"karyopherin (importin) beta 2", KPNB2</p> <p>HUGO:TNPO1 HGNC:6401 ENTREZ:3842 UNIPROT:Q92973 GENECARDS:TNPO1 REACTOME:57345 KEGG:3842 ATLASONC:GC_TNPO1 WIKI:TNPO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="TNPO1"/> <bbox w="80.0" h="40.0" x="19250.31" y="18814.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc2_sa147_wnc1_wnc2_sa147"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>non-protein coding RNA, repressor of NFAT</p> <p>HUGO:NRON HGNC:37079 ENTREZ:641373 GENECARDS:NRON KEGG:641373 WIKI:NRON</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>non-protein coding RNA, repressor of NFAT</p> <p>HUGO:NRON HGNC:37079 ENTREZ:641373 GENECARDS:NRON KEGG:641373 WIKI:NRON</p> <p>Map modules:</p> </body> </html> </notes> <label text="NRON"/> <bbox w="90.0" h="25.0" x="19245.56" y="18742.0"/> <glyph class="unit of information" id="_18bf2c49-328b-48b0-8650-6b493e95c42c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19280.56" y="18737.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa158_wnc1_wnc2_sa158"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>leucine-rich repeat kinase 2</p> <p>HUGO:LRRK2 HGNC:18618 ENTREZ:120892 UNIPROT:Q5S007 GENECARDS:LRRK2 KEGG:120892 ATLASONC:GC_LRRK2 WIKI:LRRK2</p> <p>Map modules:</p> </body> </html> </notes> <label text="LRRK2"/> <bbox w="80.0" h="40.0" x="19249.56" y="18860.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa153_wnc1_wnc2_sa153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="19338.936" y="18739.0"/> <glyph class="unit of information" id="_44437021-91fe-4fff-8692-5b4a32d44910"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="19353.936" y="18734.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa157_wnc1_wnc2_sa157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a </p> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt: Q71U36</p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt: P68363</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt: Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>tubulin, alpha 3d </p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt: Q6PEY2</p> <p>tubulin, alpha 4a </p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>tubulin, alpha 8 </p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt: Q9NY65</p> <p>Map modules:</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="19342.686" y="18925.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa155_wnc1_wnc2_sa155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="19339.936" y="18835.0"/> <glyph class="state variable" id="_e9aac50a-55ae-4f6e-b2d5-e22702d022a0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19414.936" y="18850.0"/> </glyph> <glyph class="state variable" id="_a978a84e-d099-4c2c-b810-d6dc96dbac39"> <state value="" 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variable="S289"/> <bbox w="30.0" h="10.0" x="19338.592" y="18870.0"/> </glyph> <glyph class="state variable" id="_f36f89c9-d914-4dcd-964d-90b4183aafa1"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="19358.793" y="18870.0"/> </glyph> <glyph class="state variable" id="_d178770b-7bef-4f30-af43-080df6ec2319"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19374.936" y="18870.0"/> </glyph> <glyph class="state variable" id="_5821ef2f-dbd4-4c8f-bf96-e5a533272a8b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19358.367" y="18870.0"/> </glyph> <glyph class="state variable" id="_1a24b922-f95a-4c84-8043-b9c5b4f1b1d0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19334.94" y="18870.0"/> </glyph> <glyph class="state variable" id="_edc1b9eb-da92-4b89-a7e9-be37c5fe25cf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19334.936" y="18850.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa145_wnc1_wnc2_sa145"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CSE1 chromosome segregation 1-like (yeast)</p> <p>"chromosome segregation 1 (yeast homolog)-like"</p> <p>HUGO:CSE1L HGNC:2431 ENTREZ:1434 UNIPROT:P55060 GENECARDS:CSE1L KEGG:1434 ATLASONC:CSE1LID40159ch20q13 WIKI:CSE1L</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:CASPASES</p> </body> </html> </notes> <label text="CSE1L"/> <bbox w="80.0" h="40.0" x="19250.31" y="18770.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa156_wnc1_wnc2_sa156"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>karyopherin (importin) beta 1</p> <p>HUGO:KPNB1 HGNC:6400 ENTREZ:3837 UNIPROT:Q14974 GENECARDS:KPNB1 REACTOME:57343 KEGG:3837 ATLASONC:GC_KPNB1 WIKI:KPNB1</p> <p>Map modules:</p> </body> </html> </notes> <label text="KPNB1"/> <bbox w="80.0" h="40.0" x="19342.686" y="18883.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa148_mo_sa148"> <label text="Microvascular vessel formation"/> <bbox w="110.0" h="58.0" x="6903.0" y="11817.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa848_emtc_em_sa848" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa848_emtc_em_sa848"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MKNK2"/> </rdf:Bag> </bqbiol:isEncodedBy> 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class="macromolecule" id="s_id_in_sa1055_in_sa1055"> <label text="LGALS3"/> <bbox w="80.0" h="40.0" x="8460.0" y="3690.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa506_rc_csa506" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EIF2S3:NDUFC1</p> <p>References:</p> <p>PMID:16246152</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1458_rc_sa1458"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1α*"/> <clone/> <bbox w="80.0" h="40.0" x="24068.06" y="11462.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1458_emtc_em_sa982" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1458_emtc_em_sa982"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1α*"/> <clone/> <bbox w="60.0" h="20.0" x="1677.0" y="16014.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa190_emtc_em_csa190" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cingulin*:Occludin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Cingulin*/Occludin*"/> <bbox w="126.0" h="37.0" x="1383.0" y="15024.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1259_emtc_em_sa1259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cingulin</p> <p>HUGO:CGN, HGNC:17429, ENTREZ:57530, UNIPROT:Q9P2M7, GENECARDS:GC01P151483  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Cingulin*"/> <bbox w="63.0" h="18.0" x="1384.5" y="15026.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1258_emtc_em_sa1258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="59.0" h="16.0" x="1446.5" y="15027.5"/> <glyph class="state variable" id="_e9a50739-2cdc-4b71-91d4-c921007198c3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1500.5" y="15030.525"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1398_ad_sa1398" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:8995379; PMID:9489702</p> <p>The Grb2‐like adaptor Grap is specifically expressed in lymphocytes. GRAP itreacts with LAT.</p> <p>T cell activation effects an increase in Grap association with p36/38, Shc, Sos, and dynamin.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1398_ad_sa1398"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRAP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8995379"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9489702"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRAP"/> <bbox w="80.0" h="40.0" x="28728.0" y="3576.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa23_ce_csa23" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ERCC1:MLH1:PMS2:XPF*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> </body> </html> </notes> <label text="ERCC1/PMS2/MLH1/XPF*"/> <bbox w="191.0" h="114.0" x="15898.473" y="15824.356"/> <glyph class="macromolecule" id="s_id_ce_sa480_ce_sa480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 4</p> <p>HUGO:ERCC4, HGNC:3436, ENTREZ:2072, UNIPROT:Q92889</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:22101340, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XPF*"/> <bbox w="80.0" h="40.0" x="15992.473" y="15870.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa479_ce_sa479"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 1 (includes overlapping antisense sequence)</p> <p>HUGO:ERCC1, HGNC:3433, ENTREZ:2067, UNIPROT:P07992</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G, PMID:11900249</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="ERCC1"/> <bbox w="80.0" h="40.0" x="15992.473" y="15831.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa482_ce_sa482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMS1 postmeiotic segregation increased 2 (S. cerevisiae)</p> <p>HUGO:PMS2, HGNC:9122, ENTREZ:5395, UNIPROT:P54278</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="PMS2"/> <bbox w="80.0" h="40.0" x="15909.973" y="15873.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa481_ce_sa481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)</p> <p>HUGO:MLH1, HGNC:7127, ENTREZ:4292, UNIPROT:P40692</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MLH1"/> <bbox w="80.0" h="40.0" x="15909.973" y="15831.356"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa654_rc_sa654" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa654_rc_sa654"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDK3"/> <bbox w="70.0" h="25.0" x="23133.393" y="16269.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1330_emtc_em_sa1330" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1330_emtc_em_sa1330"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCB"/> <bbox w="46.0" h="16.0" x="1238.0" y="17444.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1933_rc_sa1933" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1933_rc_sa1933"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC2"/> <clone/> <bbox w="80.0" h="40.0" x="22984.314" y="9286.748"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1933_ca_sa550" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1933_ca_sa550"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC2"/> <clone/> <bbox w="80.0" h="40.0" x="1220.0" y="1710.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa1_wca1_wca4_csa1" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Kindlin2*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca4_re1:(MAP:survival) PMID:22699938</p> <p>s_wca4_re2(MAP:survival):</p> <p>NLS has been found in KINDLIN2</p> <p>PMID:22699938</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa1_wca1_wca4_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Kindlin2*:β-Catenin*"/> <bbox w="100.0" h="120.0" x="23290.06" y="20721.0"/> <glyph class="macromolecule" id="s_id_wca1_wca4_sa4_wca1_wca4_sa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fermitin family member 2</p> <p>KIND2 "kindlin-2" mig-2 UNC112B</p> <p>HUGO:FERMT2 HGNC:15767 ENTREZ:10979 UNIPROT:Q96AC1 GENECARDS:FERMT2 REACTOME:98372 KEGG:10979 ATLASONC:GC_FERMT2 WIKI:FERMT2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Kindlin2*"/> <bbox w="80.0" h="40.0" x="23299.06" y="20775.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca4_sa3_wca1_wca4_sa3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23299.06" y="20733.5"/> <glyph class="state variable" id="_9a817015-1bbc-4867-b7a5-d9289858df27"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23364.06" y="20728.713"/> </glyph> <glyph class="state variable" id="_b8b80820-6054-44e8-8baa-8e2d7e6cc751"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23313.277" y="20728.5"/> </glyph> <glyph class="state variable" id="_c1e48b99-0a9e-4a9c-9788-28702dcab569"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23284.553" y="20728.5"/> </glyph> <glyph class="state variable" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1881_rc_sa1881"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSE1L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSE1L"/> <bbox w="80.0" h="40.0" x="24120.06" y="14958.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa28_wca1_wca1_csa28" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD*:GDP:G_alpha_o*:G_beta_*:G_gamma_*</p> <p>References:</p> <p>s_wca1_re25:(MAP:survival) PMID:21606194 PMID:19705439</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa28_wca1_wca1_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19705439"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD*:GDP:Gαo*:Gβ*:Gγ*"/> <bbox w="161.0" h="113.0" x="20965.56" y="17629.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa167_wca1_wca1_sa167"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21028.06" y="17696.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa168_wca1_wca1_sa168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21069.56" y="17696.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa138_wca1_wca1_sa138"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21008.56" y="17644.5"/> <glyph class="unit of information" id="_ec50c6e7-e186-4dd1-972d-51954909da5e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21026.06" y="17639.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa172_wca1_wca1_sa172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="25.0" h="25.0" x="20977.56" y="17669.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa166_wca1_wca1_sa166"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="20986.56" y="17696.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa310_emtc_em_sa310" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa310_emtc_em_sa310"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGAM"/> <bbox w="40.0" h="20.0" x="4753.285" y="17842.5"/> </glyph> <glyph class="phenotype" id="s_id_akt1_akt1_sa373_akt1_akt1_sa373" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <label text="Prosurvival"/> <bbox w="80.0" h="30.0" x="13901.061" y="18177.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4537_rc_sa4537" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>ChEBI:16300</p> </body> </html> </notes> <label text="Ribose-1-P"/> <bbox w="94.0" h="24.0" x="19221.56" y="17001.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa39_shh1_shh2_csa39" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR19A:TNF-_alpha_*</p> <p>References:</p> <p>s_shh2_re156:(MAP:survival) PMID:21271217</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa39_shh1_shh2_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21271217"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-19a_TNF"/> <bbox w="100.0" h="120.0" x="27881.06" y="21504.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa275_shh1_shh2_sa275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF-alpha</p> <p>HUGO:TNF HGNC:11892 ENTREZ:7124 UNIPROT:P01375 GENECARDS:TNF REACTOME:66221 KEGG:7124 ATLASONC:TNFaID319 WIKI:TNF</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21555371</p> <p>TNF-alpha</p> <p>HUGO:TNF HGNC:11892 ENTREZ:7124 UNIPROT:P01375 GENECARDS:TNF REACTOME:66221 KEGG:7124 ATLASONC:TNFaID319 WIKI:TNF</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="TNF-α*"/> <bbox w="90.0" h="25.0" x="27886.06" y="21546.0"/> <glyph class="unit of information" id="_d352ca3c-b186-434c-876a-ee11ea5231df"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27921.06" y="21541.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa276_shh1_shh2_sa276"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 19a</p> <p>HUGO:MIR19A HGNC:31574 ENTREZ:406979 GENECARDS:MIR19A KEGG:406979 ATLASONC:GC_MIR19A WIKI:MIR19A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 19a</p> <p>HUGO:MIR19A HGNC:31574 ENTREZ:406979 GENECARDS:MIR19A KEGG:406979 ATLASONC:GC_MIR19A WIKI:MIR19A</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR19A"/> <bbox w="90.0" h="25.0" x="27886.06" y="21516.0"/> <glyph class="unit of information" id="_d9b9efc1-0acf-4e6e-bb94-44324cd02852"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27916.06" y="21511.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa536_wnc1_wnc1_sa536" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="15538.061" y="19306.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa536_wnc1_wnc1_sa659" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="15859.811" y="19788.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa536_wnc1_wnc1_sa537" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <label text="H+"/> <clone/> <bbox w="25.0" h="25.0" x="15539.061" y="19417.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1357_rc_sa1357" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1357_rc_sa1357"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STRADA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STRADA"/> <bbox w="80.0" h="40.0" x="18991.56" y="15984.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa17_emtc_em_sa17" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa17_emtc_em_sa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TWIST2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TWIST2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TWIST2"/> <bbox w="60.0" h="20.0" x="4168.0" y="16142.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa82_akt1_akt1_csa82" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase3*:p21CIP1*</p> <p>References:</p> <p>s_akt1_re189:(MAP:survival) PMID:19440234</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa82_akt1_akt1_csa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase3*:p21CIP1*"/> <bbox w="100.0" h="120.0" x="13126.061" y="19768.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa503_akt1_akt1_sa503"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (P21 Cip1)</p> <p>CDKN1</p> <p>HUGO:CDKN1A HGNC:1784 ENTREZ:1026 UNIPROT:P38936 GENECARDS:CDKN1A REACTOME:87048 KEGG:1026 ATLASONC:CDKN1AID139 WIKI:CDKN1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:P21CIP, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <label text="p21CIP1*"/> <bbox w="80.0" h="40.0" x="13134.561" y="19828.0"/> <glyph class="state variable" id="_b05fa072-1d78-46b9-8b54-7edf17eac7ae"> <state value="P" variable="T145"/> <bbox w="35.0" h="10.0" x="13117.553" y="19823.0"/> </glyph> <glyph class="state variable" id="_0a13e99b-6190-42cf-9ccf-9ca260f5dfed"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13129.561" y="19831.508"/> </glyph> <glyph class="state variable" id="_82fb001c-aacd-4c86-afb4-e80ae2fc216c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13129.561" y="19836.338"/> </glyph> <glyph class="state variable" id="_2ff2c32a-0e28-4c72-84ef-b88ecd002481"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13129.561" y="19862.72"/> </glyph> <glyph class="state variable" id="_fc7d1219-ccab-4e54-a15d-5e0915f16d39"> <state value="" variable="T146"/> <bbox w="30.0" h="10.0" x="13159.593" y="19823.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa504_akt1_akt1_sa504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CASP3 HGNC:1504 ENTREZ:836 UNIPROT:P42574 GENECARDS:CASP3 REACTOME:57022 KEGG:836 ATLASONC:GC_CASP3 WIKI:CASP3 </p> <p> HGNC:1504 ENTREZ:836 UNIPROT:P42574</p> <p>caspase 3 apoptosis-related cysteine peptidase</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY, MAP:apoptosis / MODULE:CASPASES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>CASPASE3 cleaves KSR1 in apoptotic cells. Thus MEK is sequestered in the cytosol and its interaction with Raf and ERK is prevented.</p> <p>PMID:17613518</p> </body> </html> </notes> <label text="Caspase3*"/> <bbox w="80.0" h="40.0" x="13135.561" y="19781.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ce_sa48_ce_sa48" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:NER , MODULE:BER</p> </body> </html> </notes> <label text="dNTPs"/> <clone/> <bbox w="70.0" h="25.0" x="9068.27" y="16540.0"/> </glyph> <glyph class="simple chemical" id="s_id_ce_sa48_ce_sa15" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:NER , MODULE:BER</p> </body> </html> </notes> <label text="dNTPs"/> <clone/> <bbox w="70.0" h="25.0" x="10156.27" y="16132.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa265_akt1_akt1_sa265" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa265_akt1_akt1_sa265"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF4G1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF4G2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF4G3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF4G*"/> <bbox w="80.0" h="40.0" x="12317.061" y="19426.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3718_rc_sa3718" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3718_rc_sa3718"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GUCY1B3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GUCY1B3"/> <bbox w="80.0" h="40.0" x="19669.06" y="10639.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa169_wca1_wca2_sa169" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa169_wca1_wca2_sa169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UBE2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UBE2B"/> <bbox w="80.0" h="40.0" x="23576.06" y="18637.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa248_emtc_em_csa248" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Laminin1*:a2b1*_a3b1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa248_emtc_em_csa248"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a2b1*_a3b1*/Laminin 1*"/> <bbox w="151.0" h="40.0" x="4716.0" y="18926.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1575_emtc_em_sa1575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>a2b1*_a3b1*</p> <p>NAME:a2b1*</p> <p>ITGA2/ITGB1</p> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>NAME:a3b1*</p> <p>ITGA3/ITGB1</p> <p>integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143", MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrin a2b1 predominantly binds to fibrillar collagen</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="a2b1*_a3b1*"/> <bbox w="84.0" h="19.0" x="4716.5" y="18927.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1596_emtc_em_sa1596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Laminin 1*</p> <p>laminin, alpha 1</p> <p>HUGO:LAMA1 HGNC:6481 ENTREZ:284217 UNIPROT:P25391</p> <p>laminin, beta 1</p> <p>CLM, "cutis laxa with marfanoid phenotype"</p> <p>HUGO:LAMB1 HGNC:6486 ENTREZ:3912 UNIPROT:P07942</p> <p>laminin, gamma 1</p> <p>HUGO:LAMC1 HGNC:6492 ENTREZ:3915 UNIPROT:P11047</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:114518</p> <p>Laminin-1: LAMA1, LAMB1, LAMC1</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Laminin1*"/> <bbox w="74.0" h="18.0" x="4790.666" y="18928.666"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa130_emtc_em_sa130" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa130_emtc_em_sa130"> <bqbiol:isEncodedBy> 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KIT"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF1R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MET"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RTK*"/> <clone/> <bbox w="80.0" h="50.0" x="1106.5" y="12731.5"/> <glyph class="unit of information" id="_0cfe6908-5310-4a3d-8be8-727bba8f9d8d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1124.0" y="12726.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2242_in_sa2242" compartmentRef="s_id_in_ca12_in_ca12"> <label text="WASL"/> <bbox w="80.0" h="40.0" x="18900.0" y="6750.0"/> <glyph class="state variable" id="_1b599151-dc27-46af-ba7e-4f7621ca4064"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18895.0" y="6765.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa10_an_sa10" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> <p>The coreceptor neuropilin (NRP)1 is expressed by BECs and boosts the affinity of VEGF-A165a for VEGFR-2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa10_an_sa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24217602"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRP1"/> <clone/> <bbox w="80.0" h="40.0" x="4412.0" y="5725.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa10_an_sa80" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> <p>The coreceptor neuropilin (NRP)1 is expressed by BECs and boosts the affinity of VEGF-A165a for VEGFR-2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa10_an_sa80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24217602"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRP1"/> <clone/> <bbox w="80.0" h="40.0" x="4022.0" y="5925.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa10_an_sa6" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> <p>The coreceptor neuropilin (NRP)1 is expressed by BECs and boosts the affinity of VEGF-A165a for VEGFR-2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa10_an_sa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24217602"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRP1"/> <clone/> <bbox w="80.0" h="40.0" x="4812.0" y="5785.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa72_ce_csa72" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PCNA:POLZ*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:19258535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa72_ce_csa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19258535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCNA/POLZ*"/> <bbox w="100.0" h="114.0" x="16897.473" y="16065.356"/> <glyph class="macromolecule" id="s_id_ce_sa674_ce_sa674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="16910.508" y="16072.43"/> <glyph class="state variable" id="_549c94fe-85ab-4983-9479-7169a7354359"> <state value="Ub" variable="K164"/> <bbox w="40.0" h="10.0" x="16890.508" y="16087.43"/> </glyph> <glyph class="state variable" id="_30fad917-69f7-4b77-a1bd-8129458ac260"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16905.508" y="16107.43"/> </glyph> <glyph class="state variable" id="_1d3f6f07-7f03-4a97-9468-65d6ac05361c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16928.94" y="16107.43"/> </glyph> <glyph class="state variable" id="_7db063ce-a105-49e7-ad9c-a935846fa9e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16945.508" y="16107.43"/> </glyph> <glyph class="state variable" id="_5ceacb66-d9c7-4349-bb2f-254303d56b76"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="16899.492" y="16067.43"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa673_ce_sa673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>REV3-like, catalytic subunit of DNA polymerase zeta (yeast)</p> <p>HUGO:REV3L, HGNC:9968, ENTREZ:5980, UNIPROT:O60673</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>Related to the B-family polymerases. The first subunit of the Pol zeta complex (the second subunit is REV7)</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>PMID:23065650</p> </body> </html> </notes> <label text="POLZ*"/> <bbox w="80.0" h="40.0" x="16907.988" y="16113.837"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3535_rc_sa3535" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3535_rc_sa3535"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DEPTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DEPDC6"/> <bbox w="80.0" h="40.0" x="27094.06" y="11454.0"/> <glyph class="state variable" id="_e3abcfbe-43de-4903-bc19-61f0c002258e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27143.129" y="11449.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2074_in_sa2074" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="GATA1"/> <bbox w="70.0" h="25.0" x="12506.0" y="4344.375"/> </glyph> <glyph class="complex" id="s_id_mo_csa27_mo_csa27" compartmentRef="s_id_mo_ca8_mo_ca8"> <label text="ARF1_GTP/PTP4A3"/> <bbox w="109.0" h="164.0" x="5731.5" y="12014.0"/> <glyph class="macromolecule" id="s_id_mo_sa430_mo_sa430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ADP ribosylation factor 1 </p> </body> </html> </notes> <label text="ARF1"/> <bbox w="80.0" h="40.0" x="5746.8335" y="12084.333"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa429_mo_sa429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTP4A3</p> </body> </html> </notes> <label text="PTP4A3"/> <bbox w="80.0" h="40.0" x="5746.5835" y="12040.333"/> <glyph class="state variable" id="_f422f40e-39b9-48ae-ae25-c70683423ab7"> <state value="Pr" variable=""/> <bbox w="20.0" h="10.0" x="5736.5835" y="12047.049"/> </glyph> <glyph class="state variable" id="_ea0bec03-6795-4bc4-860a-393107dbaf66"> <state value="" variable="Y53"/> <bbox w="25.0" h="10.0" x="5790.6523" y="12035.333"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_mo_sa431_mo_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="5751.8335" y="12124.333"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa61_emtc_em_csa61" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK4/Cyclin D1*"/> <bbox w="126.0" h="39.0" x="3671.0" y="13862.25"/> <glyph class="macromolecule" id="s_id_emtc_em_sa491_emtc_em_sa491"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, GENECARDS:GC11P069455, UNIPROT:P24385</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:19238148</p> <p>CDK activity requires binding of regulatory subunits known as cyclins. </p> <p>Cyclins are synthesized and destroyed at specific times during the cell cycle, thus regulating kinase activity in a timely manner. </p> <p>Only several CDK–cyclin complexes are directly involved in driving the cell cycle: </p> <p>-3 interphase CDKs (CDK2, CDK4 and CDK6), 1 mitotic CDK (CDK1)</p> <p>-10 cyclins that belong to 4 different classes (the A-, B-, D- and E-type cyclins). </p> <p>PMID:9832503</p> <p>D-type cyclins are labile proteins guarantees</p> <p>Phosphorylation of cyclin D1 on T286 by GSK3B leads to the rapid ubiquitination and proteasomal degradation of cyclin D1</p> <p>cyclin D1 accumulates in the nucleus during G1 phase and exits into the cytoplasm during S phase</p> <p>GSK3B is predominantly cytoplasmic during G1 phase, but a significant fraction enters the nucleus during S phase.</p> <p>Phosphorylation and proteolytic turnover of cyclin D1 and its subcellular localization during the cell division cycle are linked through the action of GSK3B.</p> <p>PMID:10331086</p> <p>CDK inhibitors are classified into 2 families: Cip/Kip family and INK4 family</p> <p>INK4 family consists of p16INK4a, p15INK4B, p18INK4c, p19INK4d</p> <p>INK4 family spcially interacts with Cdk4 and Cdk6 but not other Cdks</p> <p>INK4 binding prevents the association of Cdk4 and Cdk6 with the D-type cyclins (D1, D2, D3)</p> <p>The vast majority of INK4 proteins are not found in complexes containing cyclins D. </p> <p>PMID:22943793</p> <p>TGFB induces expression of p15INK4B and represses expression of c-Myc</p> <p>p15INK4B is able to prevent cyclin D-CDK4/6 complex formation</p> <p>p15INK4B displaces p21CIP and p27KIP1 from cyclin D-CDK4/6 complexes. </p> <p>These CIP/KIP inhibitors are subsequently able to inactivate other complexes of G1 and S phase and therby inhibit cell cycle.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CyclinD1*"/> <bbox w="63.0" h="19.0" x="3733.5" y="13863.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2071_emtc_em_sa2071"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDK4_6*</p> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, GENECARDS:GC12M058142, UNIPROT:P11802 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, GENECARDS:GC07M092234, UNIPROT:Q00534  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="60.0" h="19.0" x="3675.0" y="13863.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2097_em_sa2097" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:17533374HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expressionConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:17533374HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expressionConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2097_em_sa2097"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17533374"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17533374"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCR1"/> <bbox w="60.0" h="19.0" x="3203.0" y="15121.5"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2317_emtc_em_sa2317" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-3,4,5-triphosphate</p> <p>CAS:N/A PUBCHEM:8260 CHEBI:16618 KEGGCOMPOUND:C05981</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="PI(3,4,5)P3"/> <bbox w="70.0" h="25.0" x="5406.0" y="13278.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa126_ce_csa126" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK4,6*/CycD*"/> <bbox w="100.0" h="111.0" x="11128.473" y="9567.356"/> <glyph class="macromolecule" id="s_id_ce_sa805_ce_sa805"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, UNIPROT:P11802</p> <p>Cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, UNIPROT:Q00534</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="11138.473" y="9618.856"/> <glyph class="state variable" id="_ee7d6181-d9e7-45e8-b758-b620f7bd0485"> <state value="" variable="T172"/> <bbox w="30.0" h="10.0" x="11123.473" y="9633.856"/> </glyph> <glyph class="state variable" id="_6534c909-e61f-4ef6-830b-090a00d00a45"> <state value="" variable="Y14"/> <bbox w="25.0" h="10.0" x="11147.406" y="9613.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa806_ce_sa806"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin D1</p> <p>HUGO:CCND1, HGNC:1582, ENTREZ:595, UNIPROT:P24385</p> <p>Cyclin D2</p> <p>HUGO:CCND2, HGNC:1583, ENTREZ:894, UNIPROT:P30279</p> <p>Cyclin D3</p> <p>HUGO:CCND3, HGNC:1585, ENTREZ:896, UNIPROT:P30281</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="11134.473" y="9571.856"/> <glyph class="state variable" id="_e05cdcee-58d5-4bf4-b3dd-bcf587d190a2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11129.473" y="9586.856"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa762_rc_sa762" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa762_rc_sa762"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAPDH"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAPDH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAPDH"/> <bbox w="90.0" h="25.0" x="24541.56" y="16023.5"/> <glyph class="unit of information" id="_020cc466-d155-4c10-b9f1-ff674d7064c4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24576.56" y="16018.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa1_ca_sa1"> <label text="MARKERS_OF_FIBROBLAST_ACTIVATION"/> <bbox w="335.0" h="75.0" x="2002.75" y="5012.75"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa302_emtc_em_csa302" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:I-SMAD*:SMURF*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22921829</p> <p>SMAD7 binds to SMURF1 and SMURF2. The binding involves a PY motif in SMAD7.</p> <p>PMID:11163210</p> <p>SMAD7 binds to SMURF2 to form a complex that targets the TGFBR1 for degradation.</p> <p>PMID:12151385</p> <p>Smurf1 regulates the inhibitory activity of Smad7 by targeting Smad7 to the plasma membrane.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>PMID:21897371</p> <p>SMAD6 binds to SMURF1 and SMURF2</p> <p>PMID:15761153</p> <p>SMAD7, SMURF1, SMURF2, SMAD2, SMAD3 all bind to TGFBR1</p> <p>Inhibitory Smads (I-Smads) represented by Smad6 and Smad7, negatively regulates TGFB signaling by interacting with the activated TGFBR1</p> <p>PMID:9335507</p> <p>Smad7 associates stably with the TGFB receptor complex, but is not phosphorylated upon TGFB stimulation</p> <p>PMID:9335505</p> <p>Smad6 is quite different in structure from the other SMAD proteins, and forms stable associations with TGFBR1.</p> <p>Smad6 interferes with the phosphorylation of Smad2 and the subsequent heteromerization with Smad4, but does not inhibit the activity of Smad3. </p> <p>Smad6 also inhibits the phosphorylation of Smad1 that is induced by the BMP type IB receptor</p> <p>PMID:9215638</p> <p>Smad7 prevents TGFB-dependent formation of Smad2/Smad4 complexes and inhibits the nuclear accumulation of Smad2. </p> <p>Smad7 interacts stably with the activated TGFBR1, thereby blocking the association, phosphorylation, and activation of Smad2</p> <p>TGFB rapidly induces expression of Smad7 mRNA, suggesting that Smad7 may participate in a negative feedback loop to control TGFB responses.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa302_emtc_em_csa302"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22921829"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11163210"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12151385"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11278251"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21897371"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761153"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9335507"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9335505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9215638"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="I-SMAD*/SMURF*"/> <bbox w="127.0" h="43.0" x="5381.5" y="16872.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2035_emtc_em_sa2035"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 6</p> <p>"MAD, mothers against decapentaplegic homolog 6 (Drosophila)", MADH6, MADH7, "SMAD, mothers against DPP homolog 6 (Drosophila)"</p> <p>HUGO:SMAD6 HGNC:6772 ENTREZ:4091 UNIPROT:O43541</p> <p>SMAD family member 7</p> <p>"MAD, mothers against decapentaplegic homolog 7 (Drosophila)", MADH7, MADH8, "SMAD, mothers against DPP homolog 7 (Drosophila)"</p> <p>HUGO:SMAD7 HGNC:6773 ENTREZ:4092 UNIPROT:O15105</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22921829</p> <p>SMAD7 binds to SMURF1 and SMURF2. The binding involves a PY motif in SMAD7.</p> <p>PMID:11163210</p> <p>SMAD7 binds to SMURF2 to form a complex that targets the TGFBR1 for degradation.</p> <p>PMID:12151385</p> <p>Smurf1 regulates the inhibitory activity of Smad7 by targeting Smad7 to the plasma membrane.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>PMID:21897371</p> <p>SMAD6 binds to SMURF1 and SMURF2</p> <p>PMID:15761153</p> <p>SMAD7, SMURF1, SMURF2, SMAD2, SMAD3 all bind to TGFBR1</p> <p>Inhibitory Smads (I-Smads) represented by Smad6 and Smad7, negatively regulates TGFB signaling by interacting with the activated TGFBR1</p> <p>PMID:9335507</p> <p>Smad7 associates stably with the TGFB receptor complex, but is not phosphorylated upon TGFB stimulation</p> <p>PMID:9335505</p> <p>Smad6 is quite different in structure from the other SMAD proteins, and forms stable associations with TGFBR1.</p> <p>Smad6 interferes with the phosphorylation of Smad2 and the subsequent heteromerization with Smad4, but does not inhibit the activity of Smad3. </p> <p>Smad6 also inhibits the phosphorylation of Smad1 that is induced by the BMP type IB receptor</p> <p>PMID:9215638</p> <p>Smad7 prevents TGFB-dependent formation of Smad2/Smad4 complexes and inhibits the nuclear accumulation of Smad2. </p> <p>Smad7 interacts stably with the activated TGFBR1, thereby blocking the association, phosphorylation, and activation of Smad2</p> <p>TGFB rapidly induces expression of Smad7 mRNA, suggesting that Smad7 may participate in a negative feedback loop to control TGFB responses.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="I-SMAD*"/> <bbox w="60.0" h="17.0" x="5446.0" y="16875.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2034_emtc_em_sa2034"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD specific E3 ubiquitin protein ligase 1</p> <p>HUGO:SMURF1, HGNC:16807, ENTREZ:57154, GENECARDS:GC07M098627, UNIPROT:Q9HCE7</p> <p>SMAD specific E3 ubiquitin protein ligase 2</p> <p>HUGO:SMURF2, HGNC:16809, ENTREZ:64750, GENECARDS:GC17M062540, UNIPROT:Q9HAU4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:22921829</p> <p>SMAD7 binds to SMURF1 and SMURF2. The binding involves a PY motif in SMAD7.</p> <p>PMID:11163210</p> <p>SMAD7 binds to SMURF2 to form a complex that targets the TGFBR1 for degradation.</p> <p>PMID:12151385</p> <p>Smurf1 regulates the inhibitory activity of Smad7 by targeting Smad7 to the plasma membrane.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>PMID:21897371</p> <p>SMAD6 binds to SMURF1 and SMURF2</p> <p>PMID:15761153</p> <p>SMAD7, SMURF1, SMURF2, SMAD2, SMAD3 all bind to TGFBR1</p> <p>Inhibitory Smads (I-Smads) represented by Smad6 and Smad7, negatively regulates TGFB signaling by interacting with the activated TGFBR1</p> <p>PMID:9335507</p> <p>Smad7 associates stably with the TGFB receptor complex, but is not phosphorylated upon TGFB stimulation</p> <p>PMID:9335505</p> <p>Smad6 is quite different in structure from the other SMAD proteins, and forms stable associations with TGFBR1.</p> <p>Smad6 interferes with the phosphorylation of Smad2 and the subsequent heteromerization with Smad4, but does not inhibit the activity of Smad3. </p> <p>Smad6 also inhibits the phosphorylation of Smad1 that is induced by the BMP type IB receptor</p> <p>PMID:9215638</p> <p>Smad7 prevents TGFB-dependent formation of Smad2/Smad4 complexes and inhibits the nuclear accumulation of Smad2. </p> <p>Smad7 interacts stably with the activated TGFBR1, thereby blocking the association, phosphorylation, and activation of Smad2</p> <p>TGFB rapidly induces expression of Smad7 mRNA, suggesting that Smad7 may participate in a negative feedback loop to control TGFB responses.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMURF*"/> <bbox w="59.0" h="16.0" x="5384.5" y="16875.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_wnc1_wnc2_sa216_wnc1_wnc2_sa216" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="proteosome"/> <bbox w="30.0" h="30.0" x="17865.06" y="19510.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2794_in_sa2794" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CXCL16"/> <bbox w="90.0" h="25.0" x="13405.0" y="2512.5"/> <glyph class="unit of information" id="_3894cf01-efb4-43aa-858f-b123b2a362dd"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="13440.0" y="2507.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa123_ce_csa123" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATR:ATRIP:CLSPN:RAD17:TOPBP1</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="ATR/ATRIP/TOPBP1"/> <bbox w="112.0" h="236.0" x="12869.473" y="12112.356"/> <glyph class="macromolecule" id="s_id_ce_sa798_ce_sa798"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia and Rad3 related</p> <p>HUGO:ATR, HGNC:882, ENTREZ:545, UNIPROT:Q13535</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="ATR"/> <bbox w="80.0" h="40.0" x="12885.773" y="12285.093"/> <glyph class="state variable" id="_4b9b64c0-62af-4248-a1cf-db0218ffcc2e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12878.273" y="12300.093"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa797_ce_sa797"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATR interacting protein</p> <p>HUGO:ATRIP, HGNC:33499, ENTREZ:84126, UNIPROT:Q9HA30</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:15798197, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="ATRIP"/> <bbox w="80.0" h="40.0" x="12884.773" y="12243.412"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa800_ce_sa800"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD17 homolog (S. pombe)</p> <p>HUGO:RAD17, HGNC:9807, ENTREZ:5884, UNIPROT:O75943</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:16885023, PMID:17303408</p> </body> </html> </notes> <label text="RAD17"/> <bbox w="80.0" h="40.0" x="12884.847" y="12119.263"/> <glyph class="state variable" id="_ee35125d-c9f5-4e7e-b9a1-d9fe2fca7197"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12877.347" y="12134.263"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa796_ce_sa796"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>topoisomerase (DNA) II binding protein 1</p> <p>HUGO:TOPBP1, HGNC:17008, ENTREZ:11073, UNIPROT:Q92547</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:17303408, PMID:16530042</p> </body> </html> </notes> <label text="TOPBP1"/> <bbox w="80.0" h="40.0" x="12886.773" y="12199.912"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1359_ce_sa1359"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claspin</p> <p>HUGO:CLSPN, HGNC:19715, ENTREZ:63967, UNIPROT:Q9HAW4</p> <p>PMID:17303408, PMID:16880517, PMID:16934469</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:19793801, PMID:17582221, PMID:18677104, PMID:17384638, PMID:12766152</p> </body> </html> </notes> <label text="CLSPN"/> <bbox w="80.0" h="40.0" x="12886.893" y="12159.356"/> <glyph class="state variable" id="_a52505cf-4a07-4158-bc68-e4d0f0369964"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12959.393" y="12166.071"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa302_mo_sa302" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transferrin receptor </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa302_mo_sa302"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFRC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFRC"/> <clone/> <bbox w="80.0" h="50.0" x="6732.0" y="12058.0"/> <glyph 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<p>MODULE:TCR_SIGNALING</p> <p>PMID:20634814</p> <p>Following antigen recognition and proximal signalling events, cytotoxic granules are polarized towards the cytotoxic T lymphocyte (CTL)–target cell contact site where the immunological synapse forms. 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id="s_id_ce_sa183_ce_sa183" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HR:DNA:st6DNA after branches migration (non-cross-over mechanism)or DNA after sister chromatid exchange (SCE)-cross-over mechanismNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR ----- content merged by Celldesigner to SBGN-ML translation ------ HR:DNA:st6DNA after branches migration (non-cross-over mechanism)or DNA after sister chromatid exchange (SCE)-cross-over mechanismNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR </body> </html> </notes> <label text="HR_DNA_st6*"/> <bbox w="120.0" h="26.0" x="14074.832" y="17137.986"/> </glyph> <glyph class="complex" id="s_id_rc_csa252_rc_csa252" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HIP1:IFT57</p> </body> </html> </notes> <label text="HIP1:IFT57"/> <bbox w="100.0" h="120.0" x="24936.06" y="12852.0"/> <glyph class="macromolecule" id="s_id_rc_sa1911_rc_sa1911"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>huntingtin interacting protein 1</p> <p>HUGO:HIP1 HGNC:4913 ENTREZ:3092 UNIPROT:O00291</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="HIP1"/> <bbox w="80.0" h="40.0" x="24947.06" y="12860.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1910_rc_sa1910"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>intraflagellar transport 57 homolog (Chlamydomonas)</p> <p>HUGO:IFT57 HGNC:17367 ENTREZ:55081 UNIPROT:Q9NWB7</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="IFT57"/> <bbox w="80.0" h="40.0" x="24946.06" y="12904.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa238_wnc1_wnc2_sa238" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa238_wnc1_wnc2_sa238"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ASK1*"/> <bbox w="80.0" h="40.0" x="17453.06" y="18551.0"/> <glyph class="state variable" id="_1f377a5b-820c-44ec-8e2f-9b9918f140c0"> <state value="P" variable="S967"/> <bbox w="35.0" h="10.0" x="17441.234" y="18546.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa234_in_sa234" compartmentRef="s_id_in_ca12_in_ca12"> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="15845.0" y="7665.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa164_emtc_em_csa164" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BCL2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:9872359</p> <p>A oncogene-derived protein, Bcl2, confers negative control in the pathway of cellular suicide machinery. </p> <p>A Bcl2-homologous protein, Bax, promotes cell death by competing with Bcl2. </p> <p>While Bax–Bax homodimers act as apoptosis inducers, Bcl2– Bax heterodimer formation evokes a survival signal for the cells. </p> <p>Both Bcl2 and Bax are transcriptional targets for the tumour suppressor protein, p53, which induces cell cycle arrest or apoptosis in response to DNA damage.</p> <p>PMID:8358790</p> <p>Bax homodimerizes and forms heterodimers with BCL2 in vivo.</p> <p>Overexpressed Bax accelerates apoptotic death induced by cytokine deprivation in an IL-3-dependent cell line. </p> <p>Overexpressed Bax also counters the death repressor activity of BCL2.</p> <p>These data suggest a model in which the ratio of BCL2 to Bax determines survival or death following an apoptotic stimulus.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa164_emtc_em_csa164"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22039431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9872359"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8358790"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX/BCL2"/> <bbox w="82.0" h="44.0" x="5192.5" y="13789.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa918_emtc_em_sa918"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein </p> <p>HUGO:BAX, HGNC:959, ENTREZ:581, UNIPROT:Q07812, GENECARDS:GC19P049458</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:8358790</p> <p>Bax homodimerizes and forms heterodimers with BCL2 in vivo.</p> <p>Overexpressed Bax accelerates apoptotic death induced by cytokine deprivation in an IL-3-dependent cell line. </p> <p>Overexpressed Bax also counters the death repressor activity of BCL2.</p> <p>These data suggest a model in which the ratio of BCL2 to Bax determines survival or death following an apoptotic stimulus.</p> <p>PMID:7644501</p> <p>The susceptibility to apoptosis is determined by multiple competing dimerizations in which Bax may be a common partner.</p> <p>Multiple BCL2 family members demonstrate selective dimerizations with Bax</p> <p>PMID:21641962</p> <p>The pro-apoptototic protein Bax plays a central role in the mitochondria- dependent apoptotic pathway. </p> <p>In healthy mammalian cells, Bax is essentially cytosolic and inactive. </p> <p>Following a death signal, the protein is translocated to the outer mitochondrial membrane, where it promotes a permeabilization that favors the release of different apoptogenic factors, such as cytochrome c.</p> <p>PMID:23064052</p> <p>Inactive Bax can be directly converted into an active conformation following the interaction with activator Bid , Bim (BCL2L11) or Puma (BBC3)</p> <p>The interaction of Bax with BCL2 or BCL2L1 drives the translocation of Bax to the outer mitochondrial membrane</p> <p>Under this condition, active Bax can be liberated from its interaction with BCL2L1 by a derepressor BH3-only protein, such as Bad. </p> <p>Other experiments have shown that Bax can be translocated to the outer mitochondrial membrane and further activated by different proteins such as Myc or p38MapK</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAX"/> <bbox w="32.0" h="16.0" x="5196.0" y="13792.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa919_emtc_em_sa919"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2, HGNC:990, ENTREZ:596, UNIPROT:P10415, GENECARDS:GC18M060763</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:23064052</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers.</p> <p>PMID:11704864</p> <p>Transcriptional regulation of bcl-2 by nuclear factor kappa B and its significance in prostate cancer.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="35.0" h="18.0" x="5230.0" y="13793.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa11_shh1_shh2_csa11" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:REN*</p> </body> </html> </notes> <label text="CUL3_REN"/> <bbox w="100.0" h="120.0" x="26199.06" y="21529.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa109_shh1_shh2_sa109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618 GENECARDS:CUL3 REACTOME:53166 KEGG:8452 ATLASONC:GC_CUL3 WIKI:CUL3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17312394</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="26207.56" y="21540.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa110_shh1_shh2_sa110"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Potassium channel tetramerisation domain 11</p> <p>HUGO:KCTD11 HGNC:21302 ENTREZ:147040 UNIPROT:Q693B1 GENECARDS:KCTD11 KEGG:147040 ATLASONC:GC_KCTD11 WIKI:KCTD11</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="REN*"/> <bbox w="80.0" h="40.0" x="26207.56" y="21584.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2799_rc_sa2799" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:37038</p> </body> </html> </notes> <label text="purine ribonucleoside 5'-diphosphate"/> <bbox w="233.0" h="29.0" x="19232.686" y="11544.625"/> </glyph> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa66_ca_sa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL14"/> <bbox w="80.0" h="40.0" x="1060.0" y="4080.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2433_rc_sa2433" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2433_rc_sa2433"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX7A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX7A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX7A2L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX7A*"/> <bbox w="80.0" h="40.0" x="19505.81" y="13764.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4643_rc_sa4643" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TRAIL_RESPONSE ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TRAIL_RESPONSE </body> </html> </notes> <label text="Caspase10*"/> <bbox w="70.0" h="25.0" x="22119.56" y="16222.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa441_emtc_em_sa441" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa441_emtc_em_sa441"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXADR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXADR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CAR*"/> <bbox w="65.0" h="20.0" x="2716.0" y="14948.5"/> <glyph class="unit of information" id="_33f7bd37-08b5-4126-889c-a88434e72df0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2738.5" y="14943.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa259_ce_csa259" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TIM1*:TIPIN</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>Role of TIM/TIPIN complex in DNA replication</p> <p>PMID:17141802, PMID:12875843</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa259_ce_csa259"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17141802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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w="80.0" h="40.0" x="13264.416" y="9407.322"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1357_ce_sa1357"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>timeless homolog (Drosophila)</p> <p>HUGO:TIMELESS, HGNC:11813, ENTREZ:8914, UNIPROT:Q9UNS1</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17102137, PMID:17116885, PMID:12875843, PMID:17296725, PMID:15798197</p> <p>Role of TIM/TIPIN complex in DNA replication</p> <p>PMID:17141802, PMID:12875843</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="TIM1*"/> <bbox w="80.0" h="40.0" x="13265.416" y="9362.322"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa600_ca_sa600" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa600_ca_sa600"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTK2"/> <bbox w="80.0" h="40.0" x="6440.0" y="2250.0"/> <glyph class="state variable" id="_02a7c6d6-94d8-4e34-8cf8-e3805950d5c6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6435.0" y="2265.0"/> </glyph> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1112_in_sa1112"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12645005"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19372727"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18809714"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="O2"/> <clone/> <bbox w="70.0" h="25.0" x="14178.594" y="6883.4375"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa1112_in_sa1099" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1112_in_sa1099"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12645005"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19372727"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18809714"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="O2"/> <clone/> <bbox w="70.0" h="25.0" x="14479.219" y="5884.6875"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1668_emtc_em_sa1668" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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id="_fe35cb47-a8b7-44cc-9c5a-438026455dc8"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="5649.5" y="18065.035"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2733_in_sa2733" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRF9"/> <bbox w="90.0" h="25.0" x="18240.0" y="4582.5"/> <glyph class="unit of information" id="_a2d4cfe2-fe52-47da-ab98-dde4a8bce6ef"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="18275.0" y="4577.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa172_wnc1_wnc1_sa172" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="ATP"/> <bbox w="70.0" h="25.0" x="16670.06" y="18074.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa103_ca_csa103" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IGF2R:MIR211</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> </body> </html> </notes> <label text="ca_s4600"/> <bbox w="100.0" h="120.0" x="5510.0" y="1230.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa914_ca_sa914"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:IGF2RMap modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:27548915 One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. Therefore, reduction in IGF2R following treatment with miR-211 or melanosomes may increase IGF2 levels, promoting its binding to IGF1R, and thus leading to hyperactivation of this pathway and increased proliferation. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:27548915 One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. Therefore, reduction in IGF2R following treatment with miR-211 or melanosomes may increase IGF2 levels, promoting its binding to IGF1R, and thus leading to hyperactivation of this pathway and increased proliferation. </body> </html> </notes> <label text="IGF2R"/> <bbox w="90.0" h="25.0" x="5515.0" y="1247.5"/> <glyph class="unit of information" id="_a17f1f52-1d78-4354-9019-fa3e897de08f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5550.0" y="1242.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa913_ca_sa913"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR211Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:27548915 melanosomal miR-211 induces primary fibroblast reprogramming as demonstrated by elevation of the pro-inflammatory gene signature, cell proliferation and migration. Finally, we demonstrate that melanosomal miR-211 directly targets IGF2R and thus induces MAPK signalling. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:27548915 melanosomal miR-211 induces primary fibroblast reprogramming as demonstrated by elevation of the pro-inflammatory gene signature, cell proliferation and migration. 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</annotation> </extension> <label text="IKK complex"/> <bbox w="100.0" h="164.0" x="21155.0" y="3318.0"/> <glyph class="macromolecule" id="s_id_in_sa2026_in_sa2026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:IMMUNOSTIMULATORY_CORE_PATHWAYS</p> <p>CASCADE:STING, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17485448</p> <p>TNIP3 (ABIN3) inhibits IKK complex trough direct binding to IKBKG.</p> <p> It results in inhibition of FNKBIA phosphorylation and</p> <p>proteasomal degradation and prevents activation</p> <p>of downstream NFkB signaling downstream of IL10.</p> <p>PMID:22435554, PMID:15485931, PMID:21217011, PMID:15199157</p> <p>Agonist stimulation induces IKK2, a catalytic subunit of the IKK complex, to phosphorylate p105. 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This signaling is important for DC maturation and T-cell activation (). NIK signaling is required in DCs to deliver co-stimulatory signals to CD4+ T cells</p> <p>PMID:23086447</p> <p>Alternative NFkB pathway induces via phosphorylation of IkB-specific kinase a (IKK-a) the cleavage of p100-RelB to p52-RelB, which then translocates as heterodimer into the nucleus.</p> <p>Both complete p100 degradation and p100 processing to p52 may occur in Dcs and expression of IKKa, the kinase determining the activity of noncanonical NF-kB pathway, gradually increased during DC differentiation with concomitant p100 processing to p52</p> <p>PMID:2649237</p> <p>In macrophages RELB /p52 pathway is associated with M1 polarization</p> <p>PMID:23422957</p> <p>IKKa could regulate IRF3 activity and IRF3-dependent IFNB and IL-12 production by DC. TAK1 (MAP3K7)-mediated IKKa/B activation is required for IRF3-dependent IFNB expression in DC. At the same time IKKa regulates IRF3-mediated transcription downstream of IKKe/TBK1mediated IRF3 phosphorylation. IKKa increases the association of IRF3 with the transcriptional co-activator CBP. The increased recruitment of CBP after overexpression of IKKa was also associated with increased transcription of endogenous IFNB mRNA.</p> <p>PMID:17254973</p> <p>NfkB heterodiners could be also bloked by p52 precursor, protein p100. 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tumour-promoting effects of deleting Rb, Pten or p53 in fibroblasts that converts them from normal fibroblasts to carcinoma associated fibroblasts (CAFs).</p> <p>PMID:19836055 </p> <p>P53 expression in tumor-stromal fibroblasts is closely associated with the nodal metastasis and outcome of patients with invasive ductal carcinoma who received neoadjuvant therapy</p> </body> </html> </notes> <label text="TP53"/> <bbox w="80.0" h="40.0" x="2620.0" y="2750.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1044_ca_sa1044"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RBPJ</p> <p>Map modules:</p> <p>MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>PMID:26302407</p> <p>CSL (RBPJ) as a common repressor of fibroblast senescence and CAF activation</p> <p>CSL may affect p53 activity through physical interaction. </p> <p> Levels of CSL, p53 and CDKN1A expression were all 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<glyph class="macromolecule" id="s_id_ad_sa481_ad_sa481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. 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y="8210.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5320_rc_sa5320" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29152</p> <p>L-Cysteinyl-tRNA(Cys)</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>PMID:26184909</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5320_rc_sa5320"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26184909"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cys-tRNA(Cys)"/> <bbox w="115.0" h="23.0" x="26751.56" y="10117.75"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa269_emtc_em_csa269" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN1:_beta_-Catenin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:16288291Maps_Modules_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa269_emtc_em_csa269"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16288291Maps_Modules_end"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC/AXIN1/CTNNB1"/> <bbox w="128.0" h="80.0" x="1911.734" y="16035.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1760_emtc_em_sa1760"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1, HGNC:903, ENTREZ:8312, UNIPROT:O15169 , GENECARDS:GC16M000338</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding (right panel), DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="40.0" h="20.0" x="1993.797" y="16075.5"/> <glyph class="state variable" id="_249b3850-72a4-43f1-9f68-e0f39eae88ad"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2006.713" y="16070.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1761_emtc_em_sa1761"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC, HGNC:583, ENTREZ:324, UNIPROT:P25054 , GENECARDS:GC05P112101</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding (right panel), DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="APC"/> <bbox w="40.0" h="20.0" x="1917.797" y="16074.5"/> <glyph class="state variable" id="_60870ca3-c5f4-48ef-9ed3-26b824c7f581"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="1930.713" y="16069.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1762_emtc_em_sa1762"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> 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CASCADE:IL15References:PMID:11964313INFG upregulates expression components of TLR signaling: MD2 (LY96) and MYD88.PMID:12244150IL-15 up-regulates MyD88 gene expression in NK cells. Both IL-15 induces STAT binding to MyD88 GAS. Anti-STAT5 and anti-STAT1 Abs supershifted both of the IL-15-induced MyD88 GAS complexes. () ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 12244150, 11964313 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYSCASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15References:PMID:11964313INFG upregulates expression components of TLR signaling: MD2 (LY96) and MYD88.PMID:12244150IL-15 up-regulates MyD88 gene expression in NK cells. Both IL-15 induces STAT binding to MyD88 GAS. Anti-STAT5 and anti-STAT1 Abs supershifted both of the IL-15-induced MyD88 GAS complexes. 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<p>NAME:CDK8:Core_promoter*:CyclinC*:MED12:MED13:Mediator*</p> <p>References:</p> <p>s_shh2_re51(MAP:survival):</p> <p>PMID:9216996 PMID:16413481 PMID:17000779 </p> <p>ANNOTATION: it was shown that Med12 binds to Gli1 promoter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa21_shh1_shh2_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9216996"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mediator complex subunit 12</p> <p>HUGO:MED12 HGNC:11957 ENTREZ:9968 UNIPROT:Q93074 GENECARDS:MED12 REACTOME:65526 KEGG:9968 ATLASONC:GC_MED12 WIKI:MED12</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17000779</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="MED12"/> <bbox w="80.0" h="40.0" x="27109.06" y="20952.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa189_shh1_shh2_sa189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin-dependent kinase 8</p> <p>HUGO:CDK8 HGNC:1779 ENTREZ:1024 UNIPROT:P49336 GENECARDS:CDK8 REACTOME:69456 KEGG:1024 ATLASONC:GC_CDK8 WIKI:CDK8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21327159</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="CDK8"/> <bbox w="80.0" h="40.0" x="27193.06" y="20952.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa191_shh1_shh2_sa191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mediator complex subunit 13</p> <p>HUGO:MED13 HGNC:22474 ENTREZ:9969 UNIPROT:Q9UHV7 GENECARDS:MED13 REACTOME:65530 KEGG:9969 WIKI:MED13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17000779</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="MED13"/> <bbox w="80.0" h="40.0" x="27109.06" y="20997.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa187_shh1_shh2_sa187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21330129</p> </body> </html> </notes> <label text="Mediator*"/> <bbox w="80.0" h="40.0" x="27025.06" y="20997.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa186_shh1_shh2_sa186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Core_promoter*"/> <bbox w="70.0" h="25.0" x="27121.06" y="21050.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa752_ca_sa752" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa752_ca_sa752"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPN6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTPN6"/> <bbox w="80.0" h="40.0" x="1430.0" y="2760.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2707_rc_sa2707" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2707_rc_sa2707"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TWNK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TWNK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-DNA*"/> <bbox w="70.0" h="25.0" x="21028.31" y="14691.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa974_ad_sa974" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:21411734 </p> <p>T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doses</p> <p>when cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.</p> <p>NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells.</p> <p>PMID:17449799 </p> <p>In mice, the enzyme is present on virtually all CD4(+)CD25(+) cells. CD39 expression is driven by the Treg-specific transcription factor Foxp3 and its catalytic activity is strongly enhanced by T-cell receptor (TCR) ligation.</p> <p> PMID:16873067</p> <p>NFAT, interfere in a graded manner with the ability of FOXP3 to repress expression of the cytokine IL2, upregulate expression of the Treg markers CTLA4 and CD25</p> <p>Chromatin immunoprecipitation (ChIP) experiments confirmed that NFAT1 and FOXP3 could each occupy the Il2, Ctla4, and Cd25 promoters, both in T cells retrovirally transduced with FOXP3 and in “natural” CD4+CD25+ T regulatory cells that had been expanded with IL-2 </p> <p>PMID:12522256</p> <p>Foxp3 is known to drive the expression of Treg-associated markers such as CD25, CTLA-4, and GITR</p> <p>PMID:17237765 </p> <p>Foxp3 occupancy and regulation of key target genes during T-cell stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa974_ad_sa974"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17449799"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16873067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12522256"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17237765"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXP3"/> <bbox w="80.0" h="40.0" x="26016.0" y="3240.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa239_mo_sa239" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Ragulator*"/> <bbox w="100.0" h="60.0" x="4978.0" y="9115.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4526_rc_sa4526" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4526_rc_sa4526"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NUDT5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NUDT5"/> <bbox w="80.0" h="40.0" x="19010.56" y="16885.0"/> </glyph> <glyph class="complex" id="s_id_te_csa72_te_csa72" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPA Homotrimer: RPA1/RPA2/RPA3</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:14624239</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa72_te_csa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14624239"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RPA homotrimer"/> <bbox w="221.0" h="140.0" x="3984.06" y="22851.0"/> <glyph class="macromolecule" id="s_id_te_sa470_te_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1</p> <p>HUGO:RPA1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="4007.06" y="22876.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa471_te_sa471"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2</p> <p>HUGO:RPA2</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="4096.06" y="22875.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa472_te_sa472"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3</p> <p>HUGO:RPA3</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="4007.06" y="22925.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa317_emtc_em_sa317" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa317_emtc_em_sa317"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB5"/> <bbox w="40.0" h="20.0" x="5086.043" y="17842.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa305_te_sa305" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>STIP1 homology and U-box containing protin 1, E3 ubiquitin protein ligase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453, PMID:25487024</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa305_te_sa305"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STUB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20959453"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25487024"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STUB1"/> <clone/> <bbox w="80.0" h="40.0" x="6487.06" y="19822.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa305_te_sa297" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>STIP1 homology and U-box containing protin 1, E3 ubiquitin protein ligase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453, PMID:25487024</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa305_te_sa297"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STUB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20959453"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25487024"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STUB1"/> <clone/> <bbox w="80.0" h="40.0" x="5933.06" y="20202.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa718_emtc_em_sa718" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa718_emtc_em_sa718"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR449A"/> <bbox w="60.0" h="20.0" x="3474.5" y="17289.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa141_ad_csa141" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5605"/> <bbox w="100.0" h="120.0" x="30236.0" y="7405.0"/> <glyph class="simple chemical" id="s_id_ad_sa1195_ad_sa1195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17552, KEGGCOMPOUND:C00035</p> <p>CHEBI:17552, KEGGCOMPOUND:C00035</p> <p>CHEBI:17552, KEGGCOMPOUND:C00035</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> </body> </html> </notes> <label text="GDP"/> <bbox w="63.0" h="27.0" x="30254.75" y="7461.875"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1191_ad_sa1191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>HUGO:CDC42</p> <p>PMID:7761442</p> <p>Regulation of the polarization of T cells toward antigen-presenting cells by Ras-related GTPase CDC42.</p> <p>Overexpression of dominant negative forms of Cdc42 prevents centrosome polarization, but actin polymerization is unaffected</p> <p>PMID:22821962 </p> </body> </html> </notes> <label text="CDC42"/> <bbox w="80.0" h="40.0" x="30246.0" y="7415.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa54_emtc_em_csa54" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD2_3*:SMAD4:ZEB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:12743038</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa54_emtc_em_csa54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20519943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12743038"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2_3*/SMAD4/ZEB1"/> <bbox w="147.0" h="66.0" x="3928.5" y="16379.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa455_emtc_em_sa455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="3998.5" y="16381.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa458_emtc_em_sa458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger E-box binding homeobox 1</p> <p>HUGO:ZEB1, HGNC:11642, ENTREZ:6935, UNIPROT:P37275, GENECARDS:GC10P031648</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19839049</p> <p>ZEB1 inhibits MIR200</p> <p>PMID:21224848</p> <p>Feedback loops</p> <p>PMID:225147423</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZEB1"/> <bbox w="40.0" h="20.0" x="3948.5" y="16381.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2002_emtc_em_sa2002"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2_3*"/> <bbox w="67.0" h="19.0" x="3966.5" y="16404.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa875_emtc_em_sa875" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa875_emtc_em_sa875"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PROK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PROK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EG-VEGF*"/> <bbox w="80.0" h="20.0" x="5208.0" y="17342.5"/> <glyph class="unit of information" id="_da201a51-a291-4fdd-bf81-d8192fe2d363"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5238.0" y="17337.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1589_emtc_em_sa1589" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2760_rc_sa2760"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACACA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACACA"/> <bbox w="80.0" h="40.0" x="18018.303" y="11979.125"/> <glyph class="state variable" id="_dc117e4b-ced5-4a0c-9428-ced349cd3908"> <state value="" variable="S79"/> <bbox w="25.0" h="10.0" x="18062.752" y="11974.125"/> </glyph> <glyph class="state variable" 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text="H2AFZ"/> <bbox w="80.0" h="40.0" x="27971.326" y="16394.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa87_shh1_shh2_sa87" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa87_shh1_shh2_sa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGFBP6"/> <bbox w="90.0" h="25.0" x="26604.06" y="21438.5"/> <glyph class="unit of information" id="_d17b5907-3595-4b03-8991-60fddebf98c0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21433.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca2_sa135_wca1_wca2_sa135" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re52:(MAP:survival) PMID:19244247</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa135_wca1_wca2_sa135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19244247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT5-signaling"/> <bbox w="80.0" h="30.0" x="23585.06" y="18533.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1483_ce_sa1483" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1483_ce_sa1483"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALKBH3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ABH3*"/> <bbox w="80.0" h="40.0" x="17441.77" y="15537.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa229_shh1_shh2_sa229" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa229_shh1_shh2_sa229"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMF"/> <clone/> <bbox w="90.0" h="25.0" x="27320.06" y="21687.5"/> <glyph class="unit of information" id="_4ea4b5b6-86ed-4f10-b491-d98051c54ddd"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27355.06" y="21682.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa229_rc_sa1140" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa229_rc_sa1140"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMF"/> <clone/> <bbox w="90.0" h="25.0" x="20527.06" y="16038.75"/> <glyph class="unit of information" id="_8fd1e9f2-f46c-46f0-8dee-717afb8ba0cf"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20562.06" y="16033.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa525_rc_csa525" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:SEC61A1:SEC61A2:SEC61B:SEC61G</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>Complex</p> <p>PMID:19509052</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa525_rc_csa525"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19509052"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Sec61 Complex"/> <bbox w="180.0" h="110.0" x="26589.06" y="14094.0"/> <glyph class="macromolecule" id="s_id_rc_sa5212_rc_sa5212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sec61 translocon alpha 2 subunit</p> <p>HUGO:SEC61A2 hgnc_id:HGNC:17702 HGNC:17702 ENTREZ:55176 UNIPROT:Q9H9S3</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:19509052</p> </body> </html> </notes> <label text="SEC61A2"/> <bbox w="80.0" h="40.0" x="26599.06" y="14144.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5210_rc_sa5210"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sec61 translocon gamma subunit</p> <p>HUGO:SEC61G hgnc_id:HGNC:18277 HGNC:18277 ENTREZ:23480 UNIPROT:P60059</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:19509052</p> </body> </html> </notes> <label text="SEC61G"/> <bbox w="80.0" h="40.0" x="26679.06" y="14144.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5211_rc_sa5211"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sec61 translocon beta subunit</p> <p>HUGO:SEC61B hgnc_id:HGNC:16993 HGNC:16993 ENTREZ:10952 UNIPROT:P60468</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:19509052</p> </body> </html> </notes> <label text="SEC61B"/> <bbox w="80.0" h="40.0" x="26679.06" y="14104.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5213_rc_sa5213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sec61 translocon alpha 1 subunit</p> <p>HUGO:SEC61A1 hgnc_id:HGNC:18276 HGNC:18276 ENTREZ:29927 UNIPROT:P61619</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:19509052</p> </body> </html> </notes> <label text="SEC61A1"/> <bbox w="80.0" h="40.0" x="26599.06" y="14104.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2808_in_sa2808" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCL22"/> <bbox w="80.0" h="40.0" x="13470.0" y="2195.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa669_rc_sa669" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa669_rc_sa669"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DDIT4"/> <bbox w="80.0" h="40.0" x="26024.06" y="12194.0"/> <glyph class="state variable" id="_ba554386-fa9b-4c5e-a05d-706c3e3b1efd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26075.629" y="12189.0"/> </glyph> <glyph class="state variable" id="_8ce15e56-ff50-40c0-8708-2beee7b04ca1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26042.492" y="12189.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1236_in_sa1236" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 12598651, 18633355, 17942936, 21826665, 17043764, 24727385, 18977329, 15099563 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL, MAP:MAST_CELL</p> <p>MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>CASCADE:P2RX7, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:17043764</p> <p>IL1 signaling has both antitumor effect (low dose of IL B and menbran associated IL1A) and protumor effect (high dose of IL1) in tumor microevironment,</p> <p>PMID:12598651</p> <p>Microenvironmental IL-1 beta and, to a lesser extent, IL-1 alpha are required for in vivo angiogenesis and invasiveness of different tumor cells.</p> <p>PMID:24727385</p> <p>Tumor-derived IL-1B secreted into the tumor microenvironment has been shown to induce the accumulation of MDSC that promotes tumor growth.</p> <p>PMID:18977329</p> <p>IL-1B activates MDSC in vitro and in vivo through an IL-1RI/NF-kB pathway.</p> <p> mRNA expression of several NF-kB target genes such is IL6, IL1B,TNF are IL1B/NFkB dependent in MSDC</p> <p>PMID:17942936</p> <p>IL-1R-deficient mice have a delayed accumulation of MDSC and reduced primary and metastatic tumor progression. Accumulation of MDSC and tumor progression are partially restored by IL-6, indicating that IL-6 is a downstream mediator of the IL-1B-induced expansion of MDSC. IL-1Ra (IL-1R antagonis) -/- MDSC are more suppressive than BALB/c MDSC.</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as VEGF, basic fibroblast growth factor (bFGF, also known as FGF2), tumour necrosis factor (TNF), interleukin 1 (IL1), chemokine (C-X-C motif) ligand 8 (CXCL8; also known as IL8), cyclooxygenase 2 (COX2, also known as PTGS2), plasminogen activator, urokinase (uPA, also known as PLAU), platelet derived growth factor beta.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:21826665</p> <p>TANs produce TNF and IL1B, probably downstream of TLR4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1236_in_sa1236"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12598651"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17942936"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21826665"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17043764"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24727385"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18977329"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15099563"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL1B"/> <bbox w="80.0" h="40.0" x="12926.25" y="6555.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa252_emtc_em_csa252" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA5:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa252_emtc_em_csa252"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19487819"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a5b1*"/> <bbox w="40.0" h="60.0" x="5135.5" y="19062.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1608_emtc_em_sa1608"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 5 (fibronectin receptor, alpha polypeptide)</p> <p>HUGO:ITGA5, HGNC:6141, ENTREZ:3678, UNIPROT:P08648, GENECARDS:GC12M054789</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA5"/> <bbox w="40.0" h="20.0" x="5135.5" y="19065.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1607_emtc_em_sa1607"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="5134.5" y="19083.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa479_ad_sa479"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa479_ad_sa479"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMK"/> <clone/> <bbox w="80.0" h="40.0" x="28696.0" y="8615.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa479_in_sa317"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa479_in_sa317"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMK"/> <clone/> <bbox w="80.0" h="40.0" x="16590.0" y="8220.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa249_ce_csa249" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATR:ATRIP:CLSPN:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:17303408</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa249_ce_csa249"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATR/ATRIP/CLSPN/RPA1/RPA2/RPA3"/> <bbox w="191.0" h="161.0" x="12856.473" y="12418.356"/> <glyph class="macromolecule" id="s_id_ce_sa1310_ce_sa1310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="12866.522" y="12509.275"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1313_ce_sa1313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia and Rad3 related</p> <p>HUGO:ATR, HGNC:882, ENTREZ:545, UNIPROT:Q13535</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="ATR"/> <bbox w="80.0" h="40.0" x="12952.156" y="12509.267"/> <glyph class="state variable" id="_70d97773-61c8-4d8b-be03-2f20fb81f639"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12944.656" y="12524.267"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1308_ce_sa1308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="12868.522" y="12425.275"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1312_ce_sa1312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATR interacting protein</p> <p>HUGO:ATRIP, HGNC:33499, ENTREZ:84126, UNIPROT:Q9HA30</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:15798197, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="ATRIP"/> <bbox w="80.0" h="40.0" x="12952.156" y="12467.267"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1309_ce_sa1309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="12866.522" y="12467.275"/> <glyph class="state variable" id="_5b78de94-6e03-4ad8-8822-0870bf296cc6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12861.522" y="12482.275"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1360_ce_sa1360"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claspin</p> <p>HUGO:CLSPN, HGNC:19715, ENTREZ:63967, UNIPROT:Q9HAW4</p> <p>PMID:17303408, PMID:16880517, PMID:16934469</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:19793801, PMID:17582221, PMID:18677104, PMID:17384638, PMID:12766152</p> </body> </html> </notes> <label text="CLSPN"/> <bbox w="80.0" h="40.0" x="12949.143" y="12425.356"/> <glyph class="state variable" id="_b6ae2e5a-6bad-4510-9b0c-77e5c7bdf180"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13021.643" y="12432.071"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1992_emtc_em_sa1992" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1992_emtc_em_sa1992"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF3"/> <clone/> <bbox w="32.0" h="19.0" x="4808.0" y="16740.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1992_rc_sa4885" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1992_rc_sa4885"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF3"/> <clone/> <bbox w="80.0" h="40.0" x="28141.326" y="16414.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4712_rc_sa4712" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4712_rc_sa4712"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="expression of ER chaperones"/> <bbox w="300.0" h="25.0" x="27639.06" y="13097.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2107_em_sa2107" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:18555778In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.PMID:18555777There is a positive feedback loop between IL6 and CEBP that help maintain the senescence stateConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:18555778In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.PMID:18555777There is a positive feedback loop between IL6 and CEBP that help maintain the senescence stateConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2107_em_sa2107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555777"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD51"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD51L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD51C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD51L3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD51"/> <bbox w="80.0" h="40.0" x="15159.369" y="16220.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa1152_in_sa1152"> <label text="Cysteine"/> <bbox w="70.0" h="25.0" x="23505.0" y="8407.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa701_mpk1_mpk1_sa701" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa701_mpk1_mpk1_sa701"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <bbox w="50.0" h="25.0" x="7598.06" y="20254.5"/> <glyph class="state variable" id="_e64cf9aa-c5b6-4410-9ab6-13dc484ff66f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7640.56" y="20262.252"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1017_emtc_em_sa1017" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1017_emtc_em_sa1024"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR3*"/> <clone/> <bbox w="38.0" h="19.0" x="1133.0" y="14843.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa95_ce_csa95" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:EME1:MUS81:SLX4*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa95_ce_csa95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19473888"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12947387"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19595721"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596236"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EME1/MUS81/SLX4*"/> <bbox w="119.0" h="162.0" x="12184.473" y="16588.355"/> <glyph class="macromolecule" id="s_id_ce_sa732_ce_sa732"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB (POZ) domain containing 12</p> <p>Structure-specific endonuclease subunit SLX4</p> <p>HUGO:BTBD12, HGNC:23845, ENTREZ:84464, UNIPROT:Q8IY92</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236, PMID:22101340</p> </body> </html> </notes> <label text="SLX4*"/> <bbox w="80.0" h="40.0" x="12204.9" y="16685.355"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa730_ce_sa730"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MUS81 endonuclease homolog (S. cerevisiae)</p> <p>HUGO:MUS81, HGNC:29814, ENTREZ:80198, UNIPROT:Q96NY9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258, PMID:22101340</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MUS81"/> <bbox w="80.0" h="40.0" x="12203.329" y="16598.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa731_ce_sa731"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>essential meiotic endonuclease 1 homolog 1 (S. pombe)</p> <p>HUGO:EME1, HGNC:24965, ENTREZ:146956, UNIPROT:Q96AY2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="EME1"/> <bbox w="80.0" h="40.0" x="12204.329" y="16642.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa234_ad_sa234" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:25869386; PMID:23784006 </p> <p>HHLA2 is a newly identified B7 family member that modulates T-cell functions through interaction with TMIGD2 and possibly a second receptor, with coinhibition in two studies and costimulation in one study. HHLA2 is expressed on a variety of human cancers, and its coinhibitory function makes it a candidate for cancer immunotherapy.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa234_ad_sa234"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HHLA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25869386"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKAA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKAA*"/> <bbox w="80.0" h="40.0" x="25448.291" y="11033.4"/> <glyph class="state variable" id="_4f66607f-672b-4d86-9093-427cd5ad318a"> <state value="" variable="T172"/> <bbox w="30.0" h="10.0" x="25490.24" y="11028.4"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3315_rc_sa3315" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3315_rc_sa3315"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMF"/> <bbox w="80.0" h="40.0" x="21061.56" y="11910.25"/> <glyph class="state variable" id="_c077c379-5484-4c78-b811-6d6fe811cddd"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="21110.629" y="11905.25"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1431_emtc_em_sa1431" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL_MATRIX_ADHESIONS</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>Laminin-8 interacts with integrins.</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell-matrix adhesions"/> <bbox w="142.0" h="27.0" x="4865.0" y="19221.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4771_rc_sa4771" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" 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<label text="HRK"/> <clone/> <bbox w="90.0" h="25.0" x="22089.06" y="16011.5"/> <glyph class="unit of information" id="_373f0e6f-f340-4f0e-80db-245aafa39001"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22124.06" y="16006.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa770_ca_sa770" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CORE References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CORE References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. 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class="macromolecule" id="s_id_rc_sa5007_rc_sa5007" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5007_rc_sa5007"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HERPUD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HERP*"/> <bbox w="80.0" h="40.0" x="28559.06" y="15809.0"/> </glyph> <glyph class="unspecified entity" id="s_id_wca1_wca2_sa207_wca1_wca2_sa207" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="Unknown enzyme"/> <bbox w="70.0" h="25.0" x="25147.06" y="19381.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa126_emtc_em_csa126" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MIR21:TIAM1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MIR21/TIAM1"/> <bbox w="80.0" h="60.0" x="3597.5" y="17901.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa745_emtc_em_sa745"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>T-cell lymphoma invasion and metastasis 1</p> <p>HUGO:TIAM1, HGNC:11805, ENTREZ:7074, GENECARDS:GC21M032361</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TIAM1"/> <bbox w="60.0" h="20.0" x="3616.5" y="17922.0"/> <glyph class="unit of information" id="_ff75da11-9fd8-407c-9fab-91ed15d8eb0e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3636.5" y="17917.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa746_emtc_em_sa746"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 21</p> <p>HUGO:MIR21, HGNC:31586, ENTREZ:406991, GENECARDS:GC17P057918</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR21"/> <bbox w="73.0" h="20.0" x="3603.5" y="17902.0"/> <glyph class="unit of information" id="_5586c2a4-9253-4b14-96e1-d620e7e810aa"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3625.0" y="17897.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa384_an_sa384" compartmentRef="s_id_an_ca1_an_ca1"> <label text="ATF1"/> <bbox w="80.0" h="40.0" x="5137.5" y="6879.0"/> <glyph class="state variable" id="_14f48f9a-575e-43b7-86e0-1dfbe9dcff58"> <state value="" variable="Ser63"/> <bbox w="35.0" h="10.0" x="5180.8647" y="6874.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa719_emtc_em_sa719" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="MIR203A"/> <bbox w="80.0" h="20.0" x="3757.5" y="16982.334"/> <glyph class="unit of information" id="_66349a03-4d19-4560-8147-d9aefb7bb7dc"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.5" y="16977.334"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3376_rc_sa3376" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3376_rc_sa3376"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKL"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PFKM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PFK*"/> <bbox w="86.0" h="46.0" x="18995.06" y="10050.189"/> <glyph class="unit of information" id="_9bac59b6-d976-4aa3-a453-9661ac82a37d"> <label text="N:4"/> <bbox w="20.0" h="10.0" x="19028.06" y="10045.189"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa85_ca_csa85" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:M20*:PPP1C*:PPP1R12A</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:10953004 </p> <p>ROCK not only inhibits myosin phosphatase but also phosphorylates MLC directly in the center of cells (fibroblasts).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa85_ca_csa85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10953004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Myosin_Phosphatase"/> <bbox w="120.0" h="180.0" x="7030.0" y="3860.0"/> <glyph class="macromolecule" id="s_id_ca_sa703_ca_sa703"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 regulatory subunit 12A</p> <p>HUGO:PPP1R12A hgnc_id:HGNC:7618 HGNC:7618 ENTREZ:4659 UNIPROT:O14974</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>PMID:10953004 </p> <p>ROCK not only inhibits myosin phosphatase but also phosphorylates MLC directly in the center of cells (fibroblasts).</p> </body> </html> </notes> <label text="PPP1R12A"/> <bbox w="80.0" h="40.0" x="7040.0" y="3960.0"/> <glyph class="state variable" id="_b35ee2fd-4bd5-40ea-93a8-9b82dc52b27e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7032.5" y="3975.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa704_ca_sa704"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 catalytic subunit alpha</p> <p>HUGO:PPP1CA hgnc_id:HGNC:9281 HGNC:9281 ENTREZ:5499 UNIPROT:P62136 </p> <p>protein phosphatase 1 catalytic subunit beta</p> <p>HUGO:PPP1CB hgnc_id:HGNC:9282 HGNC:9282 ENTREZ:5500 UNIPROT:P62140 </p> <p>protein phosphatase 1 catalytic subunit gamma</p> <p>HUGO:PPP1CC hgnc_id:HGNC:9283 HGNC:9283 ENTREZ:5501 UNIPROT:P36873</p> <p>Map modules:</p> <p>MODULE:MOTILITY </p> </body> </html> </notes> <label text="PPP1C*"/> <bbox w="80.0" h="40.0" x="7037.1484" y="3880.1072"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa706_ca_sa706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 1 regulatory subunit 12B</p> <p>HUGO:PPP1R12B hgnc_id:HGNC:7619 HGNC:7619 ENTREZ:4660 UNIPROT:O60237</p> <p>Map modules:</p> <p>MODULE:MOTILITY </p> <p>References:</p> <p>PMID:15124925</p> <p>Phosphorylation of myosin II plays an important role in many cell functions, including smooth muscle contraction. The level of myosin II phosphorylation is determined by activities of myosin light chain kinase and myosin phosphatase (MP). MP is composed of 3 subunits: a catalytic subunit of type 1 phosphatase, PPlc; a targeting subunit, termed myosin phosphatase target subunit, MYPT; and a smaller subunit, M20, of unknown function. </p> <p>Myosin phosphatase is a protein complex comprised of three subunits: a catalytic subunit (PP1c-delta, protein phosphatase 1, catalytic subunit delta), a large regulatory subunit (MYPT, myosin phosphatase target) and small regulatory subunit (sm-M20). Two isoforms of MYPT have been isolated--MYPT1 and MYPT2, the first of which is widely expressed, and the second of which may be specific to heart, skeletal muscle, and brain. Each of the MYPT isoforms functions to bind PP1c-delta and increase phosphatase activity. This locus (PPP1R12B)encodes both MYTP2 and M20.</p> </body> </html> </notes> <label text="M20*"/> <bbox w="80.0" h="40.0" x="7037.1484" y="3920.1072"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa15_an_csa15" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="HIF-1 alpha-beta"/> <bbox w="100.0" h="120.0" x="6911.0" y="7720.5"/> <glyph class="macromolecule" id="s_id_an_sa115_an_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:SETD2</p> <p>HGNC:18420</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="80.0" h="40.0" x="6921.0" y="7770.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa116_an_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARNT</p> <p>HGNC:700</p> </body> </html> </notes> <label text="HIF1B*"/> <bbox w="80.0" h="40.0" x="6921.0" y="7730.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1288_ad_sa1288" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19406987 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1288_ad_sa1288"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19406987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDKN1B"/> <bbox w="80.0" h="40.0" x="27176.0" y="8355.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1053_emtc_em_sa1053" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1053_emtc_em_sa1053"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYFIP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CYFIP2"/> <bbox w="50.0" h="16.0" x="6393.0" y="14805.5"/> </glyph> <glyph class="source and sink" id="s_id_in_sa1978_in_sa1978" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_sa122_degraded"/> <bbox w="30.0" h="30.0" x="20810.0" y="4075.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3052_rc_sa3052" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3052_rc_sa3052"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AK1"/> <bbox w="80.0" h="40.0" x="23649.06" y="14719.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1006_in_sa1006" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL13RA2"/> <bbox w="90.0" h="25.0" x="9575.0" y="4352.5"/> <glyph class="unit of information" id="_c8efbecc-9765-4b18-9fd2-34f48c67857e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="9610.0" y="4347.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa59_wca1_wca1_csa59" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*</p> <p>References:</p> <p>s_wca3_re77(MAP:survival):</p> <p>The C-terminus of APC inhibits activity of the CK2 enzyme </p> <p>PMID:11972058</p> <p>s_wca3_re96(MAP:survival):</p> <p>Allosteric effect</p> <p>PMID:10747897</p> <p>s_wca1_re26(MAP:survival):</p> <p>PMID:16707567 PMID:21285348</p> <p>DVL is primed by CK2 and/or MARK2</p> <p>s_wca2_re53:(MAP:survival) PMID:10671551 PMID:10837139</p> <p>s_wca3_re78(MAP:survival):</p> <p>Site is adjacent to the NLS2 in APC</p> <p>PMID:11689703</p> <p>s_wnc1_re1(MAP:survival):</p> <p>PMID:21506126</p> <p>PAR1 can induce AKT phosphorylation; exact mechanism unknown also wich residues are unknown</p> <p>PMID:17374729</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa59_wca1_wca1_csa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11972058"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10747897"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16707567"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285348"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10671551"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10837139"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21506126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17374729"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK2α:CK2α*:CK2β*"/> <bbox w="102.0" h="157.0" x="20996.06" y="18122.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa627_wca1_wca1_sa627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="80.0" h="40.0" x="21006.06" y="18176.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa550_wca1_wca1_sa550"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="80.0" h="40.0" x="21006.06" y="18133.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa551_wca1_wca1_sa551"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="80.0" h="40.0" x="21006.06" y="18217.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4238_rc_sa4238" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> 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class="nucleic acid feature" id="s_id_te_sa10_te_sa10" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 ----- content merged by Celldesigner to SBGN-ML translation ------ Telomeric DNATelomeric DNA under t-loop conformationTelomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_endReferences:PMID:24993696, PMID:21209389, PMID:18680434 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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</extension> <label text="Telomeric_DNA*"/> <bbox w="104.0" h="24.0" x="2517.56" y="21628.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa656_rc_sa656" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa656_rc_sa656"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK3"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa18_rc_sa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AK2"/> <bbox w="80.0" h="40.0" x="22929.06" y="15349.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa976_ad_sa976" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTSPMID:21411734 T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doseswhen cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTSPMID:21411734 T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doseswhen cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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during mTOR inhibition</p> <p>This phenotype was not observed in moDCs, in which surface expression of CD80 and CD86 was inhibited by rapamycin.</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p>FLT3L induces Ag-presenting ability of Dcs. Probably via induction of surface expression of class II MHC and CD86.</p> <p>PMID:22076556, PMID:21220452 , PMID:24218453</p> <p>CD83 increases MHC II and CD86 on dendritic cells by opposing IL-10-driven MARCH1-mediated ubiquitination and degradation.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> PMID:15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:9359474</p> <p>DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p> PMID:11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II )</p> <p>PMID:25384214</p> <p>the stimulatory effect of TANs was partially abrogated in the presence of anti-CD54 and -CD86 blocking Abs</p> </body> </html> </notes> <label text="CD86"/> <bbox w="80.0" h="40.0" x="22300.0" y="7965.0"/> <glyph class="state variable" id="_ed37476e-cfd8-468a-bf46-87878cd3632d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22295.0" y="7980.0"/> </glyph> <glyph class="unit of information" id="_467cd8fa-c6dd-4906-b03e-f35f005f85fc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22317.5" y="7960.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa478_akt1_akt1_sa478" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa478_akt1_akt1_sa478"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CBL"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CBLB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CBLC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CBL*"/> <bbox w="80.0" h="40.0" x="13552.061" y="18035.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1100_ce_sa1100" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1100_ce_sa1100"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BUB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BUB1"/> <bbox w="80.0" h="40.0" x="11293.009" y="13652.317"/> <glyph class="state variable" id="_58f7433b-1e93-4bdb-8f90-08c14d4fb0bb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11301.561" y="13647.317"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa232_ad_sa232" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:16651447 </p> <p>Agonist Anti-GITR Antibody Enhances Vaccine-Induced CD8+ T-Cell Responses and Tumor Immunity in mouse model</p> <p>PMID:24484736 </p> <p>In Tregs, Foxp3 modulates GITR expression: ectopic expression of Foxp3 in initially GITRlo CD4+CD25− cells confers both suppressive activity and high-level GITR expression [17]. In conventional T cells, GITR is reciprocally regulated by classical nuclear factor κB (NF-κB; RelA most critical, but cRel and p50 are also important) and nuclear factor of activated T cells (NFAT), with NF-κB inducing and NFAT repressing GITR expression downstream of TCR signals</p> <p>GITR positively modulates Erk, JNK and p38 mitogen activated protein kinase (MAPK) as well as NF-κB signaling [24,25] to augment cell survival and cytokine production </p> <p>GITR recruits signaling adaptors, TNFR associated factors (TRAFs), of which there are six in mammals, TRAF1-6 (reviewed in [26]). TRAFs 2 and 5 are required downstream of GITR for maximal activation of the MAPK and canonical NF-κB pathways and up-regulation of the anti-apoptotic molecule Bcl-xL</p> <p>PMID:23758787 </p> <p>GITR - TRAF1, 2, 3, 4, 5</p> <p>PMID:27591414 </p> <p>Rationale for anti-GITR cancer immunotherapy</p> <p>In syngeneic mouse tumour models, GITR modulation shows compelling antitumour activity which is attributed to both its costimulatory role on CD4+ and CD8+ T cells as well as inhibition or depletion of intratumoural Tregs</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa232_ad_sa232"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16651447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24484736"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23758787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27591414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF18"/> <clone/> <bbox w="80.0" h="50.0" x="30786.0" y="2485.0"/> <glyph class="unit of information" id="_2737f1b2-59dd-4878-be79-3593ebf8e3e2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30803.5" y="2480.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa232_ad_sa233" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:16651447 </p> <p>Agonist Anti-GITR Antibody Enhances Vaccine-Induced CD8+ T-Cell Responses and Tumor Immunity in mouse model</p> <p>PMID:24484736 </p> <p>In Tregs, Foxp3 modulates GITR expression: ectopic expression of Foxp3 in initially GITRlo CD4+CD25− cells confers both suppressive activity and high-level GITR expression [17]. In conventional T cells, GITR is reciprocally regulated by classical nuclear factor κB (NF-κB; RelA most critical, but cRel and p50 are also important) and nuclear factor of activated T cells (NFAT), with NF-κB inducing and NFAT repressing GITR expression downstream of TCR signals</p> <p>GITR positively modulates Erk, JNK and p38 mitogen activated protein kinase (MAPK) as well as NF-κB signaling [24,25] to augment cell survival and cytokine production </p> <p>GITR recruits signaling adaptors, TNFR associated factors (TRAFs), of which there are six in mammals, TRAF1-6 (reviewed in [26]). TRAFs 2 and 5 are required downstream of GITR for maximal activation of the MAPK and canonical NF-κB pathways and up-regulation of the anti-apoptotic molecule Bcl-xL</p> <p>PMID:23758787 </p> <p>GITR - TRAF1, 2, 3, 4, 5</p> <p>PMID:27591414 </p> <p>Rationale for anti-GITR cancer immunotherapy</p> <p>In syngeneic mouse tumour models, GITR modulation shows compelling antitumour activity which is attributed to both its costimulatory role on CD4+ and CD8+ T cells as well as inhibition or depletion of intratumoural Tregs</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa232_ad_sa233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16651447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24484736"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23758787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27591414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF18"/> <clone/> <bbox w="80.0" h="50.0" x="30787.0" y="2585.0"/> <glyph class="unit of information" id="_0698d538-01fd-45c8-a606-1b5408c54b44"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30804.5" y="2580.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa262_rc_csa262" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:XIAP:cleaved~Caspase9*</p> </body> </html> </notes> <label text="cleaved_CAPSP9:XIAP"/> <bbox w="105.0" h="128.0" x="24846.936" y="14315.125"/> <glyph class="macromolecule" id="s_id_rc_sa1970_rc_sa1970"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24861.186" y="14372.875"/> <glyph class="state variable" id="_d48df12f-c6c2-4030-a70a-2f503962128c"> <state value="?" variable="S87"/> <bbox w="30.0" h="10.0" x="24903.135" y="14367.875"/> </glyph> <glyph class="state variable" id="_b2182bff-5db5-4cf7-89ec-7afdec272e4b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24879.617" y="14367.875"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1971_rc_sa1971"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> </body> </html> </notes> <label text="cleaved~Caspase9*"/> <bbox w="80.0" h="40.0" x="24856.936" y="14325.125"/> <glyph class="unit of information" id="_419e79e7-2d42-474e-839d-91d062e4ac39"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="24871.936" y="14320.125"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa472_emtc_em_sa472" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Early to mid-G1 phase"/> <bbox w="140.0" h="20.0" x="3325.0" y="13617.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2391_emtc_em_sa2391" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2391_emtc_em_sa2391"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT family*"/> <bbox w="79.0" h="21.0" x="5697.5" y="13897.0"/> <glyph class="state variable" id="_d1b720e8-09d3-408a-b8c0-a4283fd05dc6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5769.0" y="13892.112"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5476_rc_sa5476" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5476_rc_sa5476"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Flagellin*"/> <bbox w="70.0" h="25.0" x="27904.06" y="9216.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa106_emtc_em_sa106" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa106_emtc_em_sa106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="N-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="2584.0" y="16292.5"/> <glyph class="state variable" id="_e1d33917-138a-4c5b-bda5-30d0f3100591"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2659.0" y="16307.065"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa106_emtc_em_sa935" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa106_emtc_em_sa935"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="N-Cadherin*"/> <clone/> <bbox w="80.0" h="20.0" x="1125.0" y="16288.5"/> <glyph class="state variable" id="_ddab3ecd-8ae6-4cf8-8981-1734dfcb2c40"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1200.0" y="16303.065"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1044_ce_sa1044" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1044_ce_sa1044"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AURKB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AURKB"/> <bbox w="80.0" h="40.0" x="10570.77" y="13798.5"/> <glyph class="state variable" id="_a98153a1-ed3a-4223-a097-dc558fc15548"> <state value="P" variable="T232"/> <bbox w="35.0" h="10.0" x="10553.27" y="13813.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa259_rc_csa259" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BIRC5:DIABLO</p> </body> </html> </notes> <label text="BIRC5:DIABLO"/> <bbox w="100.0" h="120.0" x="24979.06" y="12489.0"/> <glyph class="macromolecule" id="s_id_rc_sa1963_rc_sa1963"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>diablo, IAP-binding mitochondrial protein</p> <p>HUGO:DIABLO HGNC:21528 ENTREZ:56616 UNIPROT:Q9NR28</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="DIABLO"/> <bbox w="80.0" h="40.0" x="24989.06" y="12545.0"/> <glyph class="state variable" id="_a329ddaf-f266-437f-b8ac-a2f50d784ecd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25040.629" y="12540.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3597_rc_sa3597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>baculoviral IAP repeat containing 5</p> <p>HUGO:BIRC5 HGNC:593 ENTREZ:332 UNIPROT:O15392</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>synonym:survivin</p> <p>Maps/Modules_begin:</p> <p>Maps/Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="BIRC5"/> <bbox w="80.0" h="40.0" x="24992.297" y="12501.07"/> <glyph class="state variable" id="_eaed1500-9725-4527-8a41-f3c0a0fdde69"> <state value="P" variable="T34"/> <bbox w="30.0" h="10.0" x="25034.246" y="12496.07"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_akt1_akt1_sa393_akt1_akt1_sa393" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_akt1_re136(MAP:survival):</p> <p>PMID:10514377</p> <p>PMID:17635922</p> <p>s_akt1_re180:(MAP:survival) PMID:18308511</p> <p>s_akt1_re181:(MAP:survival) PMID:18298802</p> <p>s_akt1_re182:(MAP:survival) PMID:18381890</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa393_akt1_akt1_sa393"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10514377"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17635922"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18308511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18298802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18381890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ubiquitination"/> <bbox w="80.0" h="30.0" x="13759.061" y="18240.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1399_emtc_em_sa1399" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1399_emtc_em_sa1399"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD3*"/> <bbox w="60.0" h="20.0" x="3173.0" y="14968.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2957_rc_sa2957" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:32816 KEGGCOMPOUND:C00022 CAS:127-17-3</p> </body> </html> </notes> <label text="pyruvate"/> <clone/> <bbox w="70.0" h="25.0" x="18564.06" y="14986.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2957_rc_sa211" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:32816 KEGGCOMPOUND:C00022 CAS:127-17-3</p> </body> </html> </notes> <label text="pyruvate"/> <clone/> <bbox w="70.0" h="25.0" x="19455.783" y="14748.056"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2957_rc_sa4286" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:32816 KEGGCOMPOUND:C00022 CAS:127-17-3</p> </body> </html> </notes> <label text="pyruvate"/> <clone/> <bbox w="70.0" h="25.0" x="18708.31" y="14621.5"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa56_gf1_sa56" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:8621421</p> <p>Grb2- and Shc-SH2 domain binding to phosphopeptides from rat IRS-1</p> <p>PMID:12175651; PMID:10086337 </p> <p>Upon IGF-IR autophosphorylation the protein Shc is recruited to the receptor and becomes phosphorylated on tyrosine residues.36 Activated Shc then binds the adaptor Grb2 in an IRS-1-independent manner, leading to activation of the Ras-ERK pathway.36 This pathway of IGF-IR signaling has been most closely associated with cell differentiation and migration, but in some cases also can regulate the machinery of apoptosis, for example, in detachment-induced death, or anoikis, in fibroblasts.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa56_gf1_sa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUN"/> <bbox w="90.0" h="25.0" x="26604.06" y="21647.5"/> <glyph class="unit of information" id="_0fcf7203-33ff-447d-9c5c-0f4b76a8c07d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21642.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2126_em_sa2126" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. 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MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID : PMID:17055429</p> <p>MYC stimulate P53 and ARF</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2126_te_sa390"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa24_an_csa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s271"/> <bbox w="190.0" h="120.0" x="7612.0" y="6615.0"/> <glyph class="macromolecule" id="s_id_an_sa242_an_sa242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8803</p> </body> </html> </notes> <label text="PDGFRA"/> <bbox w="80.0" h="50.0" x="7622.0" y="6620.0"/> <glyph class="unit of information" id="_e63ea898-589e-4661-864f-ee084236bd6a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7639.5" y="6615.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa241_an_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8804</p> </body> </html> </notes> <label text="PDGFRB"/> <bbox w="80.0" h="50.0" x="7624.5" y="6667.5"/> <glyph class="unit of information" id="_e81559f8-8b6b-4a35-ac0d-a7c10318e44b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7642.0" y="6662.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa240_an_sa240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8800</p> </body> </html> </notes> <label text="PDGFB"/> <bbox w="80.0" h="40.0" x="7712.0" y="6645.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa36_wca1_wca3_csa36" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re86:(MAP:survival) PMID:10980707 PMID:12606575</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa36_wca1_wca3_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10980707"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12606575"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:β-Catenin*"/> <bbox w="100.0" h="120.0" x="20555.06" y="21501.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa247_wca1_wca3_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, 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GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20566.81" y="21553.0"/> <glyph class="state variable" id="_63ab1fb8-5b59-4625-a021-2b107d9e4fc4"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20631.81" y="21548.213"/> </glyph> <glyph class="state variable" id="_c19b1160-c4a7-40a2-89f0-318c2fb57bd1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20581.027" y="21548.0"/> </glyph> <glyph class="state variable" id="_6424f95b-35ed-43b0-8236-053394bfc20a"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20552.303" y="21548.0"/> </glyph> <glyph class="state variable" 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text="ACACA"/> <clone/> <bbox w="80.0" h="40.0" x="17788.303" y="11977.125"/> <glyph class="state variable" id="_fb1fb924-af11-496e-9f95-9fdf00af8443"> <state value="P" variable="S79"/> <bbox w="30.0" h="10.0" x="17830.252" y="11972.125"/> </glyph> <glyph class="state variable" id="_ed089c34-ca74-4ee9-a7c0-d8416265fc01"> <state value="" variable="S1263"/> <bbox w="35.0" h="10.0" x="17794.398" y="11972.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa96_an_sa96" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4567</p> <p>PMID:19449109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3264_rc_sa3264"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOX5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOX5"/> <bbox w="80.0" h="40.0" x="23989.06" y="10939.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2681_in_sa2681" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL18RAP"/> <bbox w="90.0" h="25.0" x="23530.0" y="2747.5"/> <glyph class="unit of information" id="_fab8c05b-5e40-4400-93b3-5cd24a15d836"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23565.0" y="2742.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa39_ce_csa39" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Ku70*:Ku80*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>The complex presents in double amount to cover both ends of broken DNA double helix</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa39_ce_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17088286"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ku70*/Ku80*"/> <bbox w="105.0" h="103.0" x="12964.473" y="15582.356"/> <glyph class="macromolecule" id="s_id_ce_sa556_ce_sa556"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 6</p> <p>HUGO:XRCC6, HGNC:4055, ENTREZ:2547, UNIPROT:P12956</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, </p> <p>PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku70*"/> <bbox w="80.0" h="40.0" x="12976.691" y="15586.815"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa555_ce_sa555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 5 (double-strand-break rejoining)</p> <p>HUGO:XRCC5, HGNC:12833,ENTREZ:7520, UNIPROT:P13010</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, </p> <p>PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, </p> <p>PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku80*"/> <bbox w="80.0" h="40.0" x="12978.691" y="15627.322"/> <glyph class="state variable" id="_0e7856e2-9aa1-4083-b641-0d16a80a2cd2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12997.123" y="15622.322"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa698_rc_sa698" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa698_rc_sa698"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YY1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="YY1"/> <bbox w="70.0" h="25.0" x="23678.537" y="16299.798"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5280_rc_sa5280" compartmentRef="s_id_rc_ca49_rc_ca49"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5280_rc_sa5280"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SQSTM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SQSTM1"/> <bbox w="80.0" h="40.0" x="27154.06" y="10169.0"/> <glyph class="state variable" id="_4f83435b-4d0b-4331-8e50-5f02ab2206c5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27203.129" y="10164.0"/> </glyph> <glyph class="state variable" id="_835656f2-42e7-4670-a666-2544698dea45"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27172.492" y="10164.0"/> </glyph> <glyph class="state variable" id="_b310ee4a-3612-4bc1-a231-a5ab14faabaf"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="27184.06" y="10204.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2749_rc_sa2749" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2749_rc_sa2749"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND4L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ND4L"/> <bbox w="80.0" h="40.0" x="18041.81" y="13921.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1428_ce_sa1428" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1428_ce_sa1428"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SFPQ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SFPQ"/> <bbox w="80.0" h="40.0" x="14892.106" y="15784.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1814_in_sa1814" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MICB"/> <bbox w="80.0" h="40.0" x="22093.75" y="5395.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa227_rc_csa227" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BCL2</p> </body> </html> </notes> <label text="BAX:BCL2"/> <bbox w="100.0" h="120.0" x="21889.06" y="14789.0"/> <glyph class="macromolecule" id="s_id_rc_sa1702_rc_sa1702"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="21897.002" y="14846.421"/> <glyph class="state variable" id="_aada0432-5047-4c1d-8fe1-f63c5bf6f38c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21948.57" y="14841.421"/> </glyph> <glyph class="state variable" id="_d244b141-f3b1-4ea4-88c5-a39ae7c4fe59"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21892.002" y="14861.421"/> </glyph> <glyph class="state variable" id="_1d402838-1a9b-4b6c-ab64-37a1f3b8854c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21915.434" y="14841.421"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1701_rc_sa1701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="21899.002" y="14798.504"/> <glyph class="state variable" id="_121ded76-778c-41ee-b58c-09836837226c"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="21942.586" y="14793.504"/> </glyph> <glyph class="state variable" id="_b73a258c-3325-4bda-b328-065dc2032382"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="21945.322" y="14833.504"/> </glyph> <glyph class="state variable" id="_34979450-9444-4234-96d3-61c4e8633278"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="21897.578" y="14793.504"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa840_emtc_em_sa840" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa840_emtc_em_sa840"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK2*"/> <bbox w="48.0" h="44.0" x="6429.0" y="13590.25"/> <glyph class="state variable" id="_5c7b8c05-54db-4efc-8d70-0b34a53b136b"> <state value="P" variable="T"/> <bbox w="20.0" h="10.0" x="6419.0" y="13586.942"/> </glyph> <glyph class="state variable" id="_08ff894e-53e4-441f-936a-b5368ad4580a"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="6467.0" y="13585.536"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa487_rc_sa487" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa487_rc_sa487"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase6*"/> <bbox w="80.0" h="40.0" x="25149.06" y="13149.0"/> <glyph class="unit of information" id="_aa7684db-e433-441c-8aeb-8d668e408407"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="25164.06" y="13144.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa502_ca_sa502" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa502_ca_sa502"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL5"/> <bbox w="80.0" h="40.0" x="1370.0" y="3584.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa332_mo_sa332" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Kinase insert domain receptor</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa332_mo_sa332"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFR2"/> <bbox w="80.0" h="50.0" x="6733.0" y="11414.0"/> <glyph class="state variable" id="_b0ed4e83-9a0c-405f-9562-de83d8fd480f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6728.0" y="11423.645"/> </glyph> <glyph class="unit of information" id="_67584fde-67fb-46ed-9ff9-b9e504261d90"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6750.5" y="11409.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa444_rc_csa444" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:GTP binding protein*</p> <p>References:</p> <p>binding protein*</p> </body> </html> </notes> <label text="GDP:GTP binding protein*"/> <bbox w="150.0" h="100.0" x="20629.06" y="9669.0"/> <glyph class="macromolecule" id="s_id_rc_sa4270_rc_sa4270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> </body> </html> </notes> <label text="GTP binding protein*"/> <bbox w="130.0" h="40.0" x="20639.06" y="9709.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4265_rc_sa4265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17552 KEGGCOMPOUND:C00035</p> <p>Map modules:</p> <p>MODULE:MITOCH_METABOLISM, MODULE:DEATH-RECEPTORS MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>146-91-8</p> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="20694.06" y="9676.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1164_in_sa1164" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CXCR4"/> <bbox w="80.0" h="50.0" x="13360.0" y="1540.0"/> <glyph class="unit of information" id="_bf1bf072-68b3-4d2e-b0ac-fc284af568f6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13377.5" y="1535.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2275_in_sa2275" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP25"/> <bbox w="80.0" h="40.0" x="11020.0" y="7010.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa47_rc_csa47" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FBP*:Mg2+</p> <p>References:</p> <p>stoechiometry: tetramer of FBP, FBP1 known to bind 3 Mg_super_2+_endsuper_ per subunit</p> </body> </html> </notes> <label text="FBP"/> <bbox w="118.0" h="96.0" x="19082.56" y="9870.189"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3395_rc_sa3395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fructose-1,6-bisphosphatase 1</p> <p>HUGO:FBP1 HGNC:3606 ENTREZ:2203 UNIPROT:P09467 </p> <p>fructose-1,6-bisphosphatase 2</p> <p>HUGO:FBP2 HGNC:3607 ENTREZ:8789 UNIPROT:O00757</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="FBP*"/> <bbox w="86.0" h="46.0" x="19089.06" y="9898.0"/> <glyph class="unit of information" id="_94ea9b8e-ae78-49c0-b0ff-b58101c0b7ae"> <label text="N:4"/> <bbox w="20.0" h="10.0" x="19122.06" y="9893.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa845_rc_sa845"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="19168.56" y="9873.189"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa470_in_sa470" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ZAP70"/> <bbox w="80.0" h="40.0" x="20265.0" y="2420.0"/> <glyph class="state variable" id="_aee276a3-e7dc-4f15-8f32-62ee2316ceba"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="20257.5" y="2435.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa231_ad_sa231" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22029729 </p> <p>Glucocorticoid-induced TNFR-related (gitr) is a gene coding for a member of the TNF receptor superfamily. 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Inhibition of mTORC1 in mDCs activated with TLR-dependent or -independent stimuli increased proinflammatory cytokines and NF-κB, whereas IL-10 and STAT3 were blocked. Rapamycin regulated the costimulatory/surface molecules CD86, programmed death ligand-1, and CD25 on mDCs and significantly increased the T cell allostimulatory potential of mDCs. In contrast, rapamycin suppressed immunostimulatory molecules and the allostimulatory potential of LPS-stimulated moDCs by an inability to augment NF-κB signaling. In differentiating moDCs, the PI3K/Akt-dependent mTOR pathway was constitutively activated by GM-CSF to induce DC differentiation in an mTORC1-dependent manner.</p> </body> </html> </notes> <label text="mTORC1*"/> <bbox w="210.0" h="210.0" x="3905.0" y="2995.0"/> <glyph class="macromolecule" id="s_id_ca_sa1147_ca_sa1147"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RPTOR</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="3920.0" y="3070.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1146_ca_sa1146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MTOR</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:21981924</p> <p>p62 is a key regulator of nutrient sensing in the mTORC1 pathway (data is not from fibroblasts).</p> <p>PMID:25002027 </p> <p>SQSTM1 (p62) p62 is a suppressor of inflammation and the CAF phenotype in the tumor microenvironment</p> <p>p62 KO cells displayed reduced mTORC1 activity.</p> <p>p62 regulates Myc expression via mTOR activation.</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="3920.0" y="3130.0"/> <glyph class="state variable" id="_9417a002-1132-4432-ba77-164578bd4aba"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3915.0" y="3145.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1148_ca_sa1148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MLST8</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="4010.0" y="3070.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1149_ca_sa1149"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:DEPTOR</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4981_rc_sa4981"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RYR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RYR2"/> <bbox w="80.0" h="40.0" x="26715.154" y="13079.0"/> <glyph class="unit of information" id="_aa9ff59e-cd80-4dd1-a8f7-5aaaf3f9a8ee"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26732.654" y="13074.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa193_emtc_em_csa193" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Afadin*:Nectin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Afain*/Nectin*"/> <bbox w="103.0" h="44.0" x="2235.5" y="14718.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1266_emtc_em_sa1266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poliovirus receptor-related 1 (herpesvirus entry mediator C)</p> <p>HUGO:PVRL1, HGNC:9706, ENTREZ:5818, UNIPROT:Q15223, GENECARDS:GC11M119542  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:12354099</p> <p>Interactions between Nectin, Afadin and Occludin suggest a role of the nectin-afadin system in the organization of TJs in epithelial cells</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Nectin*"/> <bbox w="46.0" h="18.0" x="2238.0" y="14724.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1265_emtc_em_sa1265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4</p> <p>HUGO:MLLT4, HGNC:7137, ENTREZ:4301, UNIPROT:P55196, GENECARDS:GC06P168227  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:9334353</p> <p>MLLT4 is so-called Afadin or AF-6</p> <p>Afadin serves as a linker of the Actin cytoskeleton to the plasma membrane at the TJ sites</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Afadin*"/> <bbox w="47.0" h="19.0" x="2285.0" y="14724.5"/> </glyph> </glyph> 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22. 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id="s_id_rc_csa400_rc_csa400" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase3*:XIAP</p> </body> </html> </notes> <label text="Caspase3*:XIAP"/> <bbox w="98.0" h="110.0" x="24541.56" y="13079.0"/> <glyph class="macromolecule" id="s_id_rc_sa3954_rc_sa3954"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 3, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP3 HGNC:1504 ENTREZ:836 UNIPROT:P42574</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> </body> </html> </notes> <label text="Caspase3*"/> <bbox w="80.0" h="40.0" x="24551.56" y="13129.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3947_rc_sa3947"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24551.56" y="13089.0"/> <glyph class="state variable" id="_ed860e70-8ef4-4f5f-b020-21ffc127f503"> <state value="?" variable="S87"/> <bbox w="30.0" h="10.0" x="24593.51" y="13084.0"/> </glyph> <glyph class="state variable" id="_94a2d511-1f83-496e-a971-2b8e91dd640d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24569.992" y="13084.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa30_shh1_shh1_csa30" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI2-185*:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re60:(MAP:survival) PMID:16611981</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa30_shh1_shh1_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="s_id_shh1_shh1_sa219_shh1_shh1_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 2</p> <p>HUGO:GLI2 HGNC:4318 ENTREZ:2736 UNIPROT:P10070 GENECARDS:GLI2 KEGG:2736 ATLASONC:GC_GLI2 WIKI:GLI2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Glioma-associated oncogene family zinc finger</p> </body> </html> </notes> <label text="GLI2-185*"/> <bbox w="167.0" h="53.0" x="26061.81" y="18525.0"/> <glyph class="state variable" id="_50f5f1d6-50d1-437b-8531-d90018d8e4be"> <state value="" variable="S820"/> <bbox w="30.0" h="10.0" x="26176.756" y="18573.0"/> </glyph> <glyph class="state variable" id="_5c27aae8-293b-49de-8340-5d9c286c3671"> <state value="" variable="S850"/> <bbox w="30.0" h="10.0" x="26046.81" y="18571.605"/> </glyph> <glyph class="state variable" id="_dd56ac90-23b9-474b-8e5c-dcb87c7999b6"> <state value="" 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x="26146.56" y="18478.0"/> <glyph class="state variable" id="_d88d6129-7409-42ba-8f13-9b50160792dd"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26132.053" y="18473.0"/> </glyph> <glyph class="state variable" id="_beff5527-cf47-4d1c-b489-e5022a725664"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26210.941" y="18513.0"/> </glyph> <glyph class="state variable" id="_ea0f1177-f259-46f0-b960-64432b44c9a3"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="26131.56" y="18512.72"/> </glyph> <glyph class="state variable" id="_73a658a9-55b3-49f9-9d96-e8b9385e5757"> <state value="" variable="S350"/> <bbox w="30.0" h="10.0" x="26211.56" y="18473.213"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa68_akt1_akt1_sa68" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa68_akt1_akt1_sa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="13427.811" y="17956.0"/> <glyph class="state variable" id="_ceb3b7cb-6aab-4779-af32-9c4b0df99503"> <state value="P" variable="T450"/> <bbox w="35.0" h="10.0" x="13489.944" y="17951.0"/> </glyph> <glyph class="state variable" id="_3c26d741-1234-45bf-b166-d0202e0cfd52"> <state value="" variable="T308"/> <bbox w="30.0" h="10.0" x="13412.811" y="17954.775"/> </glyph> <glyph class="state variable" id="_12d63a88-5bf1-4f8a-bf53-2b3ff2265410"> <state value="" variable="S129"/> <bbox w="30.0" h="10.0" x="13412.811" y="17987.12"/> </glyph> <glyph class="state variable" id="_6505ea2e-0f56-4ccd-963c-061da15f3f3f"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="13492.811" y="17990.133"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa21_ad_csa21" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21059766</p> <p>TCR (T cell receptor) is a cell-surface heterodimer that recognizes antigen peptides bound to major histocompatibility complex proteins (pMHCs) on antigen-presenting cells (APCs). TCR heterodimers associate constitutively with multiple CD3 proteins [γ, δ, ε and ζ] in the T cell membrane for signal transduction. The term ‘TCR’ is sometimes applied to this larger complex. All CD3 subunits in the complex contain immunoreceptor tyrosine-based activation motifs (ITAMs) in their cytoplasmic domains, whose phosphorylation leads to signaling downstream of TCR triggering</p> <p>The TCR of αβ T cells is composed of the ligand-binding subunits TCRα and TCRβ, which form the disulfide-linked TCRαβ heterodimer, non-covalently bound to the signal transducing CD3 subunits [CD3γ, CD3δ, CD3ε and CD3ζ (CD247)].</p> <p>PMID:23886063 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa21_ad_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21059766"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s4356"/> <bbox w="115.0" h="188.0" x="28408.5" y="2551.25"/> <glyph class="macromolecule" id="s_id_ad_sa606_ad_sa606"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TRA</p> <p>HUGO:TRB</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> <p>TCR–CD3 complex is localized in the central part of immunological synapse.</p> <p>PMID:21059766</p> </body> </html> </notes> <label text="alpha_/beta_TCR*"/> <bbox w="80.0" h="50.0" x="28426.0" y="2560.0"/> <glyph class="unit of information" id="_396966af-db49-4b62-8b8a-7dea69f9ee86"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28443.5" y="2555.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa248_ad_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD247</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> <p>TCR–CD3 complex is lolalized in the central part of immunological synapse.</p> <p>PMID:21059766</p> <p>The TCR of αβ T cells is composed of the ligand-binding subunits TCRα and TCRβ, which form the disulfide-linked TCRαβ heterodimer, non-covalently bound to the signal transducing CD3 subunits [CD3γ, CD3δ, CD3ε and CD3ζ (CD247)].</p> <p>PMID:11353765 </p> </body> </html> </notes> <label text="CD247"/> <bbox w="80.0" h="50.0" x="28426.0" y="2620.0"/> <glyph class="state variable" id="_97e7c863-a3df-4609-a900-ce0404bb363e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28421.0" y="2640.0"/> </glyph> <glyph class="state variable" id="_c1bc8b4b-8a09-44b3-a816-a06990ace2a3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28501.0" y="2641.469"/> </glyph> <glyph class="unit of information" id="_c9c3ba5e-a548-4b2d-bdd9-af42a42eef06"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28443.5" y="2615.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa752_ad_sa752"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD3E</p> <p>HUGO:CD3G</p> <p>HUGO:CD3D</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> </body> </html> </notes> <label text="CD3*"/> <bbox w="80.0" h="50.0" x="28426.0" y="2670.0"/> <glyph class="state variable" id="_e312547a-8664-4822-8021-f787453a6b47"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28421.0" y="2690.0"/> </glyph> <glyph class="unit of information" id="_3b22ab86-57e8-4554-a6d3-fd4c02418e06"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28443.5" y="2665.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1880_emtc_em_sa1880" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1880_emtc_em_sa1880"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZEB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZEB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZEB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZEB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCE_ZEB1_ZEB2*"/> <bbox w="154.0" h="22.0" x="4207.0" y="17359.0"/> <glyph class="unit of information" id="_3ca27ed4-9ee0-4807-b439-5457f4ea2c76"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4274.0" y="17354.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa392_rc_csa392" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:Caspase8,10*:DR4/5*:FADD:RBX1:TRAIL*</p> <p>References:</p> <p>Caspase8,10*:FADD:TRAIL*:DR4/5*:RBX1:CUL3</p> <p>20531300</p> <p>caspase-8 is polyubiquitylated at the DISC in response to Apo2L/TRAIL</p> <p>19090789</p> <p>23845861</p> </body> </html> </notes> <label text="Caspase8,10*:FADD:TRAIL*:DR4/5*"/> <bbox w="305.0" h="210.0" x="24896.56" y="9054.3125"/> <glyph class="macromolecule" id="s_id_rc_sa3882_rc_sa3888"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="25101.56" y="9081.8125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3882_rc_sa3882"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="25081.56" y="9061.8125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3891_rc_sa3893"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25016.56" y="9191.8125"/> <glyph class="state variable" id="_16858f95-5d74-4f87-b414-07aa71b50cf0"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25006.56" y="9198.528"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3891_rc_sa3891"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24996.56" y="9171.8125"/> <glyph class="state variable" id="_69565e5d-2af3-4704-8973-66cd1de61df5"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24986.56" y="9178.528"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3883_rc_sa3889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="25101.56" y="9126.8125"/> <glyph class="state variable" id="_d6c58672-d2ca-40ff-b97e-f3f38fc23c24"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="25174.06" y="9146.8125"/> </glyph> <glyph class="state variable" id="_1a7da8c1-58de-453f-a0de-3eec1351e7da"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25131.56" y="9171.8125"/> </glyph> <glyph class="unit of information" id="_d2ecff43-a1a9-4f1b-8bbc-629bedaab1ea"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25119.06" y="9121.8125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3891_rc_sa3892"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25006.56" y="9181.8125"/> <glyph class="state variable" id="_80b8ffaf-2e2b-4ed6-9e96-5f122ca42bfc"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="24996.56" y="9188.528"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3882_rc_sa3885"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="25091.56" y="9071.8125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3883_rc_sa3886"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="25091.56" y="9116.8125"/> <glyph class="state variable" id="_e2063bf1-a86f-439f-8af7-15d62d1cb84d"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="25164.06" y="9136.8125"/> </glyph> <glyph class="state variable" id="_856fb333-4011-4d5a-98af-d43a20b64112"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25121.56" y="9161.8125"/> </glyph> <glyph class="unit of information" id="_67614def-c77a-4333-baa1-8e532df27e72"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25109.06" y="9111.8125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3884_rc_sa3884"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25001.56" y="9106.8125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3898_rc_sa3898"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="24906.56" y="9143.6875"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3884_rc_sa3890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25021.56" y="9126.8125"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3899_rc_sa3899"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="24906.56" y="9183.6875"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3883_rc_sa3883"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="25081.56" y="9106.8125"/> <glyph class="state variable" id="_9b7ed2a7-0678-4a56-b98f-cdd45af6750c"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="25154.06" y="9126.8125"/> </glyph> <glyph class="state variable" id="_c191243a-9086-4167-a57d-e650968a7845"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25111.56" y="9151.8125"/> </glyph> <glyph class="unit of information" id="_45b750f2-3437-4295-9066-4c5661650b2e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25099.06" y="9101.8125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3884_rc_sa3887"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25011.56" y="9116.8125"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa289_emtc_em_csa289" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MDM2:p53*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:15140942</p> <p>Phosphorylations on p53 prevent its binding to MDM2.</p> <p>PMID:15574337</p> <p>S186 phosphorylation of MDM2 by AKT favors the binding of MDM2 to p53 and its following degradation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa289_emtc_em_csa289"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140942"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15574337"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2/p53*"/> <bbox w="80.0" h="97.0" x="4676.0" y="14528.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1935_emtc_em_sa1935"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mdm2 p53 binding protein homolog (mouse)</p> <p>HUGO:MDM2, HGNC:6973, ENTREZ:4193, UNIPROT:Q00987</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>MDM2 = ubiquitin-ligase, regulates p53 stability: induce its degradation via the proteasome.</p> <p>PMID:15024084</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MDM2"/> <bbox w="50.0" h="48.0" x="4693.0" y="14554.5"/> <glyph class="state variable" id="_07b204f3-2977-4845-8e16-165db1c4c3d8"> <state value="P" variable="S186"/> <bbox w="35.0" h="10.0" x="4675.5" y="14594.482"/> </glyph> <glyph class="state variable" id="_a334bff4-82e1-4312-a096-d2c25c04b780"> <state value="" variable="S395"/> <bbox w="30.0" h="10.0" x="4678.0" y="14552.383"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1934_emtc_em_sa1934"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53 </p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:P04637, GENECARDS:GC17M007565</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21518799</p> <p>p53 activates MIR200C</p> <p>PMID:21483453</p> <p>p53 activates microRNAs</p> <p>PMID:21336307</p> <p>p53 activates MIR34</p> <p>PMID:17823410</p> <p>Confidence_begin:</p> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MYH9"/> <bbox w="86.0" h="46.0" x="18908.0" y="6257.0"/> <glyph class="unit of information" id="_98d253ca-d8f1-41fa-acc6-7fc891b4d8cf"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18941.0" y="6252.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa463_in_sa463" compartmentRef="s_id_in_ca12_in_ca12"> <label text="GAB2"/> <bbox w="80.0" h="40.0" x="17430.0" y="3155.0"/> <glyph class="state variable" id="_a2f2e7b2-f62c-4eaa-a89b-6a3f139433b5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17425.0" y="3170.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa46_akt1_akt2_csa46" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:CyclinD*</p> <p>References:</p> <p>s_akt2_re138:(MAP:survival) PMID:11124803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa46_akt1_akt2_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11124803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:CyclinD*"/> <bbox w="100.0" h="120.0" x="13957.061" y="20564.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa269_akt1_akt2_sa269"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="13962.561" y="20619.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa268_akt1_akt2_sa268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="13964.061" y="20576.0"/> <glyph class="state variable" id="_1c09e470-3f28-4a6a-a189-87523948bf6b"> <state value="P" variable="T286"/> <bbox w="35.0" h="10.0" x="14026.561" y="20571.213"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4840_rc_sa4840" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4840_rc_sa4840"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12847084"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19509052"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Unfolded protein*"/> <clone/> <bbox w="160.0" h="30.0" x="26652.967" y="13704.0"/> <glyph class="state variable" id="_746a7536-1f6f-43d0-9830-3e956582062c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26647.967" y="13707.787"/> </glyph> <glyph class="state variable" id="_73f58b9b-a556-45ba-916a-2ea965aaec34"> <state value="" variable="disulphide bond"/> <bbox w="85.0" 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4840_rc_sa4710"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12847084"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19509052"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Unfolded protein*"/> <clone/> <bbox w="160.0" h="30.0" x="27832.967" y="13379.0"/> <glyph 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<p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4840_rc_sa4906"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12847084"/> </rdf:Bag> 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class="macromolecule" id="s_id_rc_sa4840_rc_sa4930" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LDHC"/> <bbox w="80.0" h="40.0" x="19031.777" y="11377.898"/> </glyph> <glyph class="simple chemical" id="s_id_te_sa434_te_sa434" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>2'-Deoxycytidine 5'-triphosphate</p> <p>CHEBI:16311</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="dCTP"/> <bbox w="70.0" h="25.0" x="3898.06" y="22209.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa49_ce_sa49" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa44_ce_sa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CUL4A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CUL4B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL4*"/> <bbox w="80.0" h="40.0" x="7647.2847" y="15457.312"/> <glyph class="state variable" id="_6a753798-a5ae-4f28-94d6-7f6bb278a69b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7642.2847" y="15472.312"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa204_ad_sa204" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22437870</p> <p>OX40L</p> <p>PMID:9378971, PMID:10626891</p> <p>OX40L is expressed on DCs surface after CD40 stimulation.</p> <p>Ox40L-deficient dendritic cells are defective in costimulating T cell cytokine production.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa204_ad_sa204"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFSF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9378971"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10626891"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFSF4"/> <bbox w="80.0" h="40.0" x="30606.0" y="2220.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa225_ce_csa225" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:CDK1:CyclinB1*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CDC2*/CycB*/14-3-3*"/> <bbox w="143.0" h="150.0" x="13414.473" y="10656.356"/> <glyph class="macromolecule" id="s_id_ce_sa1270_ce_sa1270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="13443.459" y="10702.081"/> <glyph class="state variable" id="_01c66fca-a598-4135-9036-70fd4b179887"> <state value="P" variable="T161"/> <bbox w="35.0" h="10.0" x="13505.959" y="10716.681"/> </glyph> <glyph class="state variable" id="_ba5eded5-7792-46f0-a2b4-9003d6e5742c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13438.459" y="10717.049"/> </glyph> <glyph class="state variable" id="_43aaaff7-6595-459b-bdd3-7beda6e29464"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="13480.408" y="10697.081"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1137_ce_sa1137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB, HGNC:12849, ENTREZ:7529, UNIPROT:P31946</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG, HGNC:12852, ENTREZ:7532, UNIPROT:P61981</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH, HGNC:12853, ENTREZ:7533, UNIPROT:Q04917</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE, HGNC:12851, ENTREZ:7531, UNIPROT:P62258</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ, HGNC:12854, ENTREZ:10971, UNIPROT:P27348</p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ, HGNC:12855, ENTREZ:7534, UNIPROT:Q6NUR9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:21708191, PMID:21621563, PMID:21533173, PMID:16678438, PMID:16556040</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="13446.311" y="10741.13"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1135_ce_sa1135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin B1</p> <p>HUGO:CCNB1, HGNC:1579, ENTREZ:891, UNIPROT:P14635</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in responce to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> </body> </html> </notes> <label text="CyclinB1*"/> <bbox w="80.0" h="40.0" x="13441.502" y="10660.315"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa39_te_csa39" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HSP70*/HSP90*/STUB1/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa39_te_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20959453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP70*/HSP90*/STUB1/TERT"/> <bbox w="265.0" h="175.0" x="6180.56" y="19834.5"/> <glyph class="macromolecule multimer" id="s_id_te_sa301_te_sa301"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="6287.56" y="19851.5"/> <glyph class="unit of information" id="_01f97cb4-616b-4ff8-8efe-058706ffb4ef"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6320.56" y="19846.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa304_te_sa304"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>STIP1 homology and U-box containing protin 1, E3 ubiquitin protein ligase</p> <p>HUGO:STUB1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453, PMID:25487024</p> </body> </html> </notes> <label text="STUB1"/> <bbox w="80.0" h="40.0" x="6193.06" y="19912.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa300_te_sa300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="6190.56" y="19854.5"/> <glyph class="state variable" id="_bac5d622-e652-4b15-b91f-db5c55fc6e50"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="6213.189" y="19849.5"/> </glyph> <glyph class="state variable" id="_c69b6c74-902a-446b-a1ae-b5d39814f1a9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6185.56" y="19869.469"/> </glyph> <glyph class="state variable" id="_2d94cb86-b641-41ed-aa4e-0f3a42896041"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6223.061" y="19889.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa303_te_sa303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 70kDa protein 1A</p> <p>HUGO:HSPA1A</p> <p>heat shock 70kDa protein 1B</p> <p>HUGO:HSP1B</p> <p>heat shock 70kDa protein 1-like</p> <p>HUGO:HSPA1L</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453</p> </body> </html> </notes> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="6295.56" y="19909.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2571_in_sa2571" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 11438547, 11477091, 9743347, 24378531, 9064320, 23681101, 16327802, 16713974</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2571_in_sa2571"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11438547"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11477091"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9743347"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9064320"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23681101"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16327802"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AP1*"/> <bbox w="80.0" h="40.0" x="18965.0" y="3900.0"/> <glyph class="state variable" id="_23a28eaa-9d8f-45da-a5cf-e4679366bfed"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18960.0" y="3915.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2603_rc_sa2603" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2603_rc_sa2603"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXNRD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXNRD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TXNRD1"/> <bbox w="70.0" h="25.0" x="24923.037" y="16262.798"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3803_rc_sa3803" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18955971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3803_rc_sa3803"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18955971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Hydroxyl radical"/> <bbox w="125.0" h="20.0" x="20516.56" y="11080.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3791_rc_sa3791" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="DNA alkylating agents"/> <bbox w="143.0" h="30.0" x="19317.81" y="16594.0"/> <glyph class="unit of information" id="_c93a1844-6812-4ed4-b510-664a8eb89d91"> <label text="drug"/> <bbox w="25.0" h="10.0" x="19376.81" y="16589.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa327_ce_sa327" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa327_ce_sa327"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RBL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p107*"/> <bbox w="80.0" h="40.0" x="12126.52" y="9705.375"/> <glyph class="state variable" id="_a9482c83-1e79-4287-a68f-3d1e94059b0f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12201.52" y="9716.789"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1954_emtc_em_sa1954" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1954_emtc_em_sa1954"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ID1"/> <bbox w="26.0" h="19.0" x="4814.0" y="16786.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa4_wnc1_wnc4_csa4" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:_alpha_-Catenin*:cytoskeleton:p120*</p> <p>References:</p> <p>s_wnc4_re5:(MAP:survival) PMID:16099633</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa4_wnc1_wnc4_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16099633"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Adhesion-complex)"/> <bbox w="293.0" h="159.0" x="17337.06" y="21096.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa22_wnc1_wnc4_sa22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) alpha 1 102kDa</p> <p>HUGO:CTNNA1 HGNC:2509 ENTREZ:1495 UNIPROT:P35221 GENECARDS:CTNNA1 REACTOME:53044 KEGG:1495 ATLASONC:GC_CTNNA1 WIKI:CTNNA1 </p> <p>catenin (cadherin-associated protein) alpha 2</p> <p>HUGO:CTNNA2 HGNC:2510 ENTREZ:1496 UNIPROT:P26232 GENECARDS:CTNNA2 REACTOME:53046 KEGG:1496 WIKI:CTNNA2 </p> <p>catenin (cadherin-associated protein) alpha 3</p> <p>HUGO:CTNNA3 HGNC:2511 ENTREZ:29119 UNIPROT:Q9UI47 GENECARDS:CTNNA3 KEGG:29119 ATLASONC:GC_CTNNA3 WIKI:CTNNA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="75.0" h="85.0" x="17530.06" y="21107.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa21_wnc1_wnc4_sa21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="17365.06" y="21152.5"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa23_wnc1_wnc4_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cytoskeleton"/> <bbox w="80.0" h="30.0" x="17526.06" y="21196.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa20_wnc1_wnc4_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="154.0" h="40.0" x="17373.06" y="21108.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa260_mpk1_mpk1_sa260" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa260_mpk1_mpk1_sa260"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK*"/> <bbox w="66.0" h="26.0" x="8202.227" y="20401.5"/> <glyph class="state variable" id="_40f59275-b4f5-4c6a-92ba-ddb996eb2234"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8194.727" y="20414.031"/> </glyph> <glyph class="state variable" id="_12ff7f67-a256-4414-a6ba-86c37ac814e3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8194.727" y="20404.352"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa501_emtc_em_sa501" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa501_emtc_em_sa501"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p15INK4B*"/> <bbox w="80.0" h="20.0" x="4060.666" y="14329.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa175_ce_sa175" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa175_ce_sa175"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMC6"/> <bbox w="80.0" h="40.0" x="14682.606" y="14284.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa62_akt1_akt1_csa62" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD:BCL2-XL*</p> <p>References:</p> <p>s_akt1_re126:(MAP:survival) PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa62_akt1_akt1_csa62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:BAD:BCL2-XL*"/> <bbox w="109.0" h="166.0" x="13991.561" y="18365.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa363_akt1_akt1_sa363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="14006.061" y="18376.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa362_akt1_akt1_sa362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1BCL2-associated agonist of cell death</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817 GENECARDS:BCL2L1 REACTOME:50772 KEGG:598 ATLASONC:BCL2L1ID129ch20q11 WIKI:BCL2L1 </p> <p>BCL2-like 1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="14005.061" y="18462.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa361_akt1_akt1_sa361"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="14004.811" y="18420.5"/> <glyph class="state variable" id="_41ba4e19-d19d-40da-9aed-789052b259f5"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="13987.803" y="18415.5"/> </glyph> <glyph class="state variable" id="_47f660fd-08fc-4b97-b6ea-02edad48e143"> <state value="P" variable="S155"/> <bbox w="35.0" h="10.0" x="14066.692" y="18455.5"/> </glyph> <glyph class="state variable" id="_472608f6-727b-43dc-b71d-b4d4acbf982f"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="14067.311" y="18415.713"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa496_rc_sa496" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa496_rc_sa496"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase9*"/> <clone/> <bbox w="80.0" h="40.0" x="24579.06" y="14359.0"/> <glyph class="unit of information" id="_27dad87a-28b9-49bc-83c8-47a1edaffd57"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="24594.06" y="14354.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa496_rc_sa5067" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa496_rc_sa5067"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase9*"/> <clone/> <bbox w="80.0" h="40.0" x="25719.06" y="12859.0"/> <glyph class="unit of information" id="_93be2f25-fb6d-4e17-afde-730b9fa8f95c"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="25734.06" y="12854.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1285_ad_sa1285" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19406987 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>3-phosphoinositide dependent protein kinase-1</p> <p>HUGO:PDPK1 HGNC:8816 ENTREZ:5170 UNIPROT:O15530</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:18802401</p> <p>PMID:17680028</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PDPK1"/> <bbox w="58.0" h="17.0" x="5329.5" y="13375.0"/> <glyph class="state variable" id="_a270ff56-a740-481a-8ebb-96379de0e10a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5324.5" y="13378.486"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2339_emtc_em_sa2339"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatidylinositol-3,4,5-triphosphate</p> <p>CAS:N/A PUBCHEM:8260 CHEBI:16618 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID : PMID:17055429</p> <p>MYC stimulate P53 and ARF</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2156_em_sa2156"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERT"/> <bbox w="56.0" h="25.0" x="4147.0" y="14849.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2499_in_sa2499" compartmentRef="s_id_in_ca12_in_ca12"> <label text="H3*"/> <bbox w="100.0" h="50.0" x="10830.0" y="4795.0"/> <glyph class="state variable" id="_fa33a4c0-b263-4d97-b013-d368a8eb8d35"> <state value="" variable="K27"/> <bbox w="25.0" h="10.0" x="10864.377" y="4840.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1215_ad_sa1215" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:PD1, CASCADE:TCRMODULE:INHIBITING_CHECKPOINTSPMID:23732914 Because our studies showed that T cells displayed a low steady-state level of CK2 protein, which was upregulated by stimulation via TCR/CD3 and CD28, we examined whether CK2 expression was regulated at the level of mRNA. Real-time quantitative PCR showed that CK2 mRNA was increased after T cell activation. ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:PD1, CASCADE:TCRMODULE:INHIBITING_CHECKPOINTSPMID:23732914 Because our studies showed that T cells displayed a low steady-state level of CK2 protein, which was upregulated by stimulation via TCR/CD3 and CD28, we examined whether CK2 expression was regulated at the level of mRNA. Real-time quantitative PCR showed that CK2 mRNA was increased after T cell activation. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1215_ad_sa1215"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2B"/> 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id="s_id_emtc_em_csa247_emtc_em_csa247" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Fibronectin*:a5b1*_aVb3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>PMID:15866889</p> <p>Fibronectin binds to alphaV/beta3 integrins supports persistent migration( directional cell migration)</p> <p>Fibronectin binds to alpha5/beta1 integrins supports random migration.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa247_emtc_em_csa247"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a2b1*_a3b1*/Fibronectin*"/> <bbox w="160.0" h="41.0" x="4871.0" y="18926.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1579_emtc_em_sa1579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>a5b1*_aVb3*</p> <p>NAME:a5b1*</p> <p>ITGA5/ITGB1</p> <p>integrin, alpha 5 (fibronectin receptor, alpha polypeptide)</p> <p>HUGO:ITGA5, HGNC:6141, ENTREZ:3678, UNIPROT:P08648, GENECARDS:GC12M054789</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>NAME:aVb3*</p> <p>ITGAV/ITGB3</p> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fibronectin 1</p> <p>HUGO:FN1, HGNC:3778, ENTREZ:2335, UNIPROT:P02751, GENECARDS:GC02M216225</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS, MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:2409071</p> <p>Fibronectin is located on the apical and basal cell surfaces.</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> </body> </html> </notes> <label text="Fibronectin*"/> <bbox w="72.0" h="20.0" x="4956.5" y="18927.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa675_ca_sa675" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3422_rc_sa3422"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDHX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDHX"/> <bbox w="80.0" h="40.0" x="19409.06" y="14969.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa79_mpk1_mpk1_csa79" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IL1R1:IRAK1:MYD88</p> </body> </html> </notes> <label text="IL1R1:IRAK1:MYD88"/> <bbox w="145.0" h="84.0" x="10512.057" y="19069.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa452_mpk1_mpk1_sa452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin-1 receptor-associated kinase 1</p> <p>HUGO:IRAK1 HGNC:6112 ENTREZ:3654 UNIPROT:P51617</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Similar to RIP recruitment by TRADD the death domain of receptor-bound MyD88 binds IRAK1.</p> </body> </html> </notes> <label text="IRAK1"/> <bbox w="50.0" h="25.0" x="10588.557" y="19100.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa595_mpk1_mpk1_sa595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 1 receptor type I</p> <p>IL1R IL1RA</p> <p>HUGO:IL1R1 HGNC:5993 ENTREZ:3554 UNIPROT:P14778</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>IL-1 likely requires TRAF6 to signal to the SAPKs. IL-1 binding to its receptor (IL-1R) triggers heterodimerisation of IL-1R with IL-1RAcP (not modelled) a transmembrane protein necessary for IL-1 signal transduction. The IL-1R/IL-1RAcP heterodimer then recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="IL1R1"/> <bbox w="50.0" h="25.0" x="10533.515" y="19078.0"/> <glyph class="unit of information" id="_b81ec407-b6f0-4402-89a1-b5fd99d234e7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10536.015" y="19073.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa451_mpk1_mpk1_sa451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid differentiation primary response 88</p> <p>"myeloid differentiation primary response gene (88)"</p> <p>HUGO:MYD88 HGNC:7562 ENTREZ:4615 UNIPROT:Q99836</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>The IL-1R/IL-1RAcP heterodimer recruits the death domain adapter protein MyD88.</p> </body> </html> </notes> <label text="MYD88"/> <bbox w="59.0" h="25.0" x="10529.557" y="19100.0"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa134_mo_sa134"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEF2C"/> <bbox w="90.0" h="25.0" x="5181.0" y="10685.5"/> <glyph class="unit of information" id="_519b2b0c-615d-4260-b26d-06f24ac56feb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5216.0" y="10680.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2205_in_sa2205" compartmentRef="s_id_in_ca13_in_ca13"> <label text="FcγRI*"/> <bbox w="80.0" h="50.0" x="18347.5" y="1475.0"/> <glyph class="unit of information" id="_a0b149f4-294d-4143-b970-717f24a95ed0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18365.0" y="1470.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa859_emtc_em_sa859" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa859_emtc_em_sa859"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT18"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT18"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT18"/> <bbox w="80.0" h="20.0" x="5188.0" y="15535.5"/> <glyph class="unit of information" id="_adacdd38-fd07-4377-bfb5-281f5f4d2652"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5218.0" y="15530.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2817_in_sa2817" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 21278795, 20644162, 19109155, 7594497, 22703233 Charge: 0 <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>CASCADE:TGFB, CASCADE:STING</p> <p>References:</p> <p>PMID:22703233</p> <p>TGFB1 participates in M2 activation.</p> <p>PMID:7594497</p> <p>TGFB1 upregulates IL10 expression in macrophages.</p> <p>TGFB1 and IL10 dowregulate expression of TNF.</p> <p>PMID:21278795</p> <p>TGFB-induced IRAK3 (IRAK-M) expression in tumor-associated macrophages</p> <p>and inhibit TLR-dependent signaling</p> <p>PMID:20644162</p> <p>Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.</p> <p>PMID:19109155</p> <p>MDSC inhibit cytotoxicity, NKG2D expression, and IFN-gamma production of NK cells both in vitro and in vivo.</p> <p>Membrane-bound TGF-beta1 on MDSC is responsible for MDSC-mediated suppression of NK cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2155_emtc_em_sa2155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NICD*"/> <bbox w="49.0" h="21.0" x="2863.5" y="14389.0"/> <glyph class="state variable" id="_7c8ee16f-9bdd-4829-aca3-6e284bd0ef2e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="2853.5" y="14384.0"/> </glyph> <glyph class="state variable" id="_08c3ed39-dd0b-4305-9ab6-a7d1ac48bd5a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2907.5" y="14384.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1645_emtc_em_sa1645" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1645_emtc_em_sa1645"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYL2"/> <bbox w="44.0" h="18.0" x="5407.0" y="16197.791"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa31_wca1_wca2_csa31" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGA9</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re69:(MAP:survival) PMID:22370635</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa31_wca1_wca2_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370635"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:ITGA9"/> <bbox w="229.0" h="135.0" x="23605.06" y="19455.5"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa190_wca1_wca2_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin alpha 9</p> <p>HUGO:ITGA9 HGNC:6145 ENTREZ:3680 UNIPROT:Q13797 GENECARDS:ITGA9 REACTOME:57577 KEGG:3680 ATLASONC:GC_ITGA9 WIKI:ITGA9</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_MATRIX_ADHESIONS</p> </body> </html> </notes> <label text="ITGA9"/> <bbox w="80.0" h="40.0" x="23644.06" y="19470.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa191_wca1_wca2_sa191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="23647.81" y="19524.0"/> <glyph class="state variable" id="_48cd04d2-ce28-40ef-8dec-b42a714bcd08"> <state value="P" variable="S840"/> <bbox w="35.0" h="10.0" x="23630.68" y="19560.0"/> </glyph> <glyph class="state variable" id="_335c3d98-9010-4ba1-ac63-9ebeb701d502"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="23748.83" y="19560.0"/> </glyph> <glyph class="state variable" id="_f0e6f5a0-359d-4939-a323-fb8714575840"> <state value="P" variable="S849"/> <bbox w="35.0" h="10.0" x="23632.271" y="19519.0"/> </glyph> <glyph class="state variable" id="_1b545f1b-a9c7-4715-8f73-2aa418abde33"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23765.81" y="19519.0"/> </glyph> <glyph class="state variable" id="_00fac492-84ee-47d8-9359-2ca302c2bb80"> <state value="P" variable="S853"/> <bbox w="35.0" h="10.0" x="23753.31" y="19519.219"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa256_ce_sa256" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa256_ce_sa256"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NBN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="14989.769" y="14502.5"/> <glyph class="state variable" id="_eea3b2ee-24dd-4d19-91d8-e6f608473bf5"> <state value="" variable="S343"/> <bbox w="30.0" h="10.0" x="14974.769" y="14525.684"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa349_emtc_em_csa349" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FGFR family*:FRS2:GRB2:SOS*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(FRS2/GRB2/SOS/FGFR family)"/> <bbox w="250.0" h="112.0" x="6573.0" y="15652.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2463_emtc_em_sa2463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fibroblas growth factors FGF</p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="FGFR family*"/> <bbox w="80.0" h="50.0" x="6684.285" y="15662.785"/> <glyph class="unit of information" id="_37c917d6-57e0-4874-9252-13a7e32d8189"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6701.785" y="15657.785"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2462_emtc_em_sa2462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2, HGNC:4566, ENTREZ:2885, UNIPROT:P62993, GENECARDS:GC17M073313</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>GRB2 is an adaptator for Ras</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="38.0" h="17.0" x="6619.75" y="15679.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2460_emtc_em_sa2460"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fibroblast growth factor receptor substrate 2</p> <p>HUGO:FRS2, HGNC:16971, ENTREZ:10818, UNIPROT:Q8WU20</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17673906</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 association with Grb2 and Sos</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="FRS2"/> <bbox w="51.0" h="19.0" x="6624.5" y="15659.0"/> <glyph class="state variable" id="_06a36bff-9cad-4f30-a53d-ad46a1777f0b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6617.0" y="15663.485"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2461_emtc_em_sa2461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>HUGO:SOS1, HGNC:11187, ENTREZ:6654, UNIPROT:Q07889 , GENECARDS:GC02M039208</p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>HUGO:SOS2, HGNC:11188, ENTREZ:6655, UNIPROT:Q07890, GENECARDS:GC14M050583</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>SOS is an GTP-exchange factor for Ras</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="35.0" h="17.0" x="6580.75" y="15678.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2436_rc_sa2436" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2436_rc_sa2436"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX5B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX5B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX5B"/> <bbox w="70.0" h="25.0" x="19777.06" y="16317.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa17_ca_csa17" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CD74:MIF</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:MIF</p> <p>PMID:12782713 </p> <p>MIF signal transduction initiated by binding to CD74.</p> <p>CD74 mediates MIF stimulation of ERK-1/2 (p44/p42) phosphorylation and proliferation of CCL210 human lung fibroblasts..</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa17_ca_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12782713"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s3581"/> <bbox w="110.0" h="140.0" x="4225.0" y="1150.0"/> <glyph class="macromolecule" id="s_id_ca_sa287_ca_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CD74 molecule</p> <p>HUGO:CD74 hgnc_id:HGNC:1697 HGNC:1697 ENTREZ:972 UNIPROT:P04233</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:MIF</p> <p>PMID:12782713 </p> <p>MIF signal transduction initiated by binding to CD74.</p> <p>CD74 Mediates MIF Induction of ERK-1/2 Phosphorylation, PGE2 Production, and Proliferation.</p> </body> </html> </notes> <label text="CD74"/> <bbox w="80.0" h="40.0" x="4240.0" y="1210.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa286_ca_sa286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>macrophage migration inhibitory factor</p> <p>HUGO:MIF hgnc_id:HGNC:7097 HGNC:7097 ENTREZ:4282 UNIPROT:P14174</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:MIF</p> <p>PMID:12782713 </p> <p>CD74 mediates MIF stimulation of ERK-1/2 (p44/p42) phosphorylation and proliferation of CCL210 human lung fibroblasts.</p> <p>PMID:20861157 </p> <p>MIF inhibits in CXCR2/CD74-dependent manner recruitment of CAFs to the growing tumor.</p> </body> </html> </notes> <label text="MIF"/> <bbox w="80.0" h="40.0" x="4240.0" y="1160.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa206_in_csa206" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa206_in_csa206"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20547845"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23508573"/> </rdf:Bag> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD14"/> <bbox w="80.0" h="40.0" x="23699.375" y="1375.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1605_in_sa1605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="s_id_in_sa1603_in_sa1603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>CASCADE:IL18, CASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>References:</p> <p>PMID:14660645, PMID:16878026, PMID:23681101</p> <p>The adaptor proteins MyD88 and TIRAP associate with TLR 2 and TLR 4 after receptor engagement.</p> <p>PMID:23811849</p> <p>HMGB1 is a nuclear nonhistone chromatin-binding protein. It is secreted at the late stages of cellular demise and iactivates TLR4/MyD88 pathway in dendritic cells (DCs) to accelerate the processing of phagocytic cargo in the DC and to facilitate antigen presentation by DC to T cells.</p> <p>PMID:17704786</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MYD88"/> <bbox w="80.0" h="40.0" x="23699.375" y="1425.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1604_in_sa1604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:TLR2_4, CASCADE:IFNG</p> <p>References:</p> <p>PMID:11964313</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="LY96"/> <bbox w="80.0" h="40.0" x="23699.375" y="1325.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa50_wca1_wca4_sa50" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa50_wca1_wca4_sa50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD4"/> <bbox w="70.0" h="25.0" x="23531.06" y="21465.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa504_rc_sa504" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa504_rc_sa504"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR15A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR15A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR15A"/> <bbox w="90.0" h="25.0" x="19810.41" y="15603.234"/> <glyph class="unit of information" id="_bc4d0421-0b37-488f-a3df-61799044dce8"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="19840.41" y="15598.234"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa772_ca_sa772" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor.PMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor.PMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa772_ca_sa772"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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text="KDM6B"/> <bbox w="90.0" h="25.0" x="10755.0" y="4647.5"/> <glyph class="unit of information" id="_fc27357e-7e5a-40ff-a5e0-09ee2d6db969"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10790.0" y="4642.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4478_rc_sa4478" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4478_rc_sa4478"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG4D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cleaved ATG4D*"/> <bbox w="80.0" h="40.0" x="27970.56" y="11820.5"/> <glyph class="unit of information" id="_4be991c6-096a-49f0-87f0-c7695734d29d"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="27985.56" y="11815.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1234_ad_sa1234" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:NKT</p> <p>CELL:TCD4</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22285893 </p> <p>Immunoglobulin receptors that bind nectin and nectin-like proteins include CD226, TIGIT, CRTAM and CD96</p> <p>All of these receptors are expressed on both NK cells and CD8 T cells</p> <p> CD226 and CRTAM promote NK and CD8 T cell function, where as TIGIT has an inhibitory function. </p> <p>PMID:26694968</p> <p>CRTAM determines the CD4+ cytotoxic T lymphocyte lineage</p> <p>CRTAM+ CD4+ T cells secrete IFN-γ, express CTL-related genes, such as eomesodermin (Eomes), Granzyme B, and perforin, after cultivation, and exhibit cytotoxic function, suggesting that CRTAM+ T cells are the precursor of CD4+CTL. </p> <p>http://www.jidonline.org/article/S0022-202X(17)30474-8/fulltext</p> <p>CRTAM (class I restricted T cell associated molecule), a CADM1 ligand, is expressed on activated CD8+ T cells</p> <p>Tumor cells suppress CRTAM expression on CD8+ T cells to evade host immunity in adult T cell leukemia/lymphoma</p> <p>PMID:15811952</p> <p>The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell responses through the cell-surface receptor CRTAM</p> <p>Stimulation of a human polyclonal T-cell line with PMA/ionomycin induced expression of CRTAM on CD8+ T cells after 4 hours of stimulation</p> <p>CRTAM expression on NK cells and CD8+ T cells is tightly regulated by NK cell–activating receptors and T-cell receptor (TCR) triggering, respectively.</p> <p>Necl-2–CRTAM interaction leads to strong IFN-γ secretion by CD8+ T cells.</p> <p>NK cells play a crucial role in clearing Necl-2–expressing tumors in vivo.</p> <p>Crtam Assembles a Scrib-Containing Complex that</p> <p>Controls T Cell Polarity 12 hr after TCR Activation</p> <p>Crtam interacts with</p> <p>Scrib to provide a scaffolding to colocalize Cdc42 and PKCz</p> <p>Knockdown of Scrib protein resulted in loss of Talin and Crtam polarization 8 hr following</p> <p>anti-CD3/28 mAb crosslinking (Figure 6B) as well as inhibition of</p> <p>TCR-mediated IFNgand IL22, but not IL2, production</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1234_ad_sa1234"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRTAM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22285893"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26694968"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15811952"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRTAM"/> <bbox w="80.0" h="50.0" x="30116.0" y="2615.0"/> <glyph class="unit of information" id="_8a3dfc46-0f0b-46ef-8a7e-2cb6709d23e3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30133.5" y="2610.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa746_ca_sa746" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa746_ca_sa746"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF7"/> <bbox w="80.0" h="40.0" x="3700.0" y="4431.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa198_ce_csa198" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MCM2:MCM3:MCM4:MCM5:MCM6:MCM7</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="MCM2/MCM3/MCM4/MCM5/MCM6/MCM7"/> <bbox w="182.0" h="156.0" x="12729.473" y="9758.356"/> <glyph class="macromolecule" id="s_id_ce_sa875_ce_sa875"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 5</p> <p>HUGO:MCM5, HGNC:6948, ENTREZ:4174, UNIPROT:P33992</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM5"/> <bbox w="80.0" h="40.0" x="12816.094" y="9764.484"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa870_ce_sa870"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 2</p> <p>HUGO:MCM2, HGNC:6944, ENTREZ:4171, UNIPROT:P49736</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM2"/> <bbox w="80.0" h="40.0" x="12735.094" y="9765.484"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa873_ce_sa873"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 7</p> <p>HUGO:MCM7, HGNC:6950, ENTREZ:4176, UNIPROT:P33993</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM7"/> <bbox w="80.0" h="40.0" x="12817.094" y="9850.484"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa874_ce_sa874"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 6</p> <p>HUGO:MCM6, HGNC:6949, ENTREZ:4175, UNIPROT:Q14566</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM6"/> <bbox w="80.0" h="40.0" x="12819.094" y="9808.484"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa872_ce_sa872"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 4</p> <p>HUGO:MCM4, HGNC:6947, ENTREZ:4173, UNIPROT:P33991</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM4"/> <bbox w="80.0" h="40.0" x="12734.094" y="9851.484"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa871_ce_sa871"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 3</p> <p>HUGO:MCM3, HGNC:6945, ENTREZ:4172, UNIPROT:P25205</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM3"/> <bbox w="80.0" h="40.0" x="12734.094" y="9808.484"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa30_akt1_akt2_csa30" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:FOXO4</p> <p>References:</p> <p>s_akt2_re108:(MAP:survival) PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa30_akt1_akt2_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:FOXO4"/> <bbox w="100.0" h="120.0" x="12152.061" y="21226.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa208_akt1_akt2_sa208"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O4</p> <p>HUGO:FOXO4 HGNC:7139 ENTREZ:4303 UNIPROT:P98177 GENECARDS:FOXO4 REACTOME:404982 KEGG:4303 ATLASONC:AFX1ID57 WIKI:FOXO4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="12163.561" y="21273.0"/> <glyph class="state variable" id="_4c81ed97-56cc-4fa9-8dbc-8ed3e57c9667"> <state value="" variable="T28"/> <bbox w="25.0" h="10.0" x="12151.553" y="21268.0"/> </glyph> <glyph class="state variable" id="_6956d648-244b-4d07-aed2-79f0260fa88b"> <state value="" variable="S258"/> <bbox w="30.0" h="10.0" x="12227.942" y="21308.0"/> </glyph> <glyph class="state variable" id="_2bd0ca0a-23b1-4a6c-a26e-f1856303e61e"> <state value="" variable="S193"/> <bbox w="30.0" h="10.0" x="12228.561" y="21268.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa207_akt1_akt2_sa207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> 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text="p70α*"/> <bbox w="50.0" h="25.0" x="7947.06" y="20314.5"/> <glyph class="state variable" id="_d80862c2-0c2d-41b4-b954-fadece16653e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7942.06" y="20322.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3231_rc_sa3231" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3231_rc_sa3231"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RIPK3"/> </rdf:Bag> 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rdf:about="#s_id_wca1_wca3_sa438_wca1_wca3_sa438"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TCF4"/> <bbox w="70.0" h="25.0" x="21673.06" y="22668.5"/> </glyph> <glyph class="complex" id="s_id_in_csa211_in_csa211" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa211_in_csa211"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11438547"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17301840"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21232017"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFR1"/> <bbox w="210.0" h="180.0" x="23810.0" y="3230.0"/> <glyph class="macromolecule" id="s_id_in_sa1619_in_sa1619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="23925.0" y="3340.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1621_in_sa1621"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL, MAP:MDSC, MAP:NEUTROPHIL, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:EXOCYTOSIS_AND_PHAGOCYTOSIS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSION</p> <p>CASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:KLRG1, CASCADE:FCAR, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:IL15, CASCADE:CSF2, CASCADE:CSF1, CASCADE:TNF, CASCADE:IFNG</p> <p>PMID:19732719</p> <p>Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)</p> <p>References:</p> <p>PMID:21133840</p> <p>TNF is a pleiotropic cytokine produced by many different types of cells in the body. However, cells of the monocytic lineage-such as macrophages, astroglia, microglia, Langerhans cells, Kupffer cells, and alveolar macrophages-are the primary synthesizers of TNF</p> <p>PMID:1431106</p> <p>TNF induced tumoricidal activity of macrophages.</p> <p>PMID:14607933, 14625680</p> <p>TNF and IFNG cooperate in the activation of macrophages.</p> <p>PMID:18633355</p> <p>TNF is pro-angiogenic facror.</p> <p>PMID:23510023, PMID:23170255</p> <p>TRAIL, FASL and TNF provides Dendritic cell tumor killing activity.()</p> <p>L10 stimulates HO1 expression via MAPK p38 stimulation. HO-1 mediates IL-10-induced suppression of TNF- production and IL-10-induced suppression of MMP9 and INOS expression</p> <p>PMID:22955274</p> <p>SHIP inhibit MAPKp38 activation and prevent MNK1 phosphorylation by inhibiting the p38 MAPK pathway downstream of IL10. MNK1 regulates TNFa mRNA polysome assembly and upregulates TNFa translation.IL-10 Inhibits TNF Translation through SHIP1-mediated Inhibition of Mnk1</p> <p>PMID:15699106, PMID:12646658</p> <p>Phosphorylated STAT1 binds to TNF promoter end induces TNF expression downstream of IFNG.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> <p>PMID:24092389</p> <p>TANs from early tumors are more cytotoxic toward tumor cells and produce higher levels of TNF-a, NO, and H2O2 and, in established tumors, these functions are downregulated and TAN acquire a more protumorigenic phenotype</p> <p>PMID:21826665</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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<title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="23820.0" y="3290.0"/> <glyph class="state variable" id="_41f18893-a530-40c3-9a57-2ebdc5581b3f"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="23890.0" y="3305.4336"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1622_in_sa1622"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TNFR1*"/> <bbox w="80.0" h="50.0" x="23925.0" y="3285.0"/> <glyph class="unit of information" id="_3c26831b-b0b6-4d94-a260-1e6da7bd07ed"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23942.5" y="3280.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1620_in_sa1620"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="23830.0" y="3340.0"/> <glyph class="state variable" id="_1b004523-649c-42be-8d20-0fcf5ce82cf5"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="23900.0" y="3353.6672"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa175_ca_sa175" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa175_ca_sa175"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL1"/> <bbox w="80.0" h="40.0" x="970.0" y="3584.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa80_shh1_shh2_sa80" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa80_shh1_shh2_sa80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI2"/> <bbox w="90.0" h="25.0" x="26604.06" y="21226.5"/> <glyph class="unit of information" id="_eb22a93e-cbe1-46b2-85fa-d634c1195a9f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21221.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1798_rc_sa1798" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1798_rc_sa1798"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ELK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ELK1"/> <bbox w="80.0" h="40.0" x="20881.56" y="16434.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2437_emtc_em_sa2437" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2437_emtc_em_sa2437"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF16"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF16"/> <bbox w="41.0" h="20.0" x="3461.0" y="19164.0"/> </glyph> <glyph class="complex" id="s_id_te_csa49_te_csa49" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HSP70*/HSP90*/STUB1/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa49_te_csa49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20959453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP70*/HSP90*/STUB1/TERT"/> <bbox w="265.0" h="175.0" x="6606.81" y="19834.0"/> <glyph class="macromolecule" id="s_id_te_sa355_te_sa355"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>STIP1 homology and U-box containing protin 1, E3 ubiquitin protein ligase</p> <p>HUGO:STUB1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453, PMID:25487024</p> </body> </html> </notes> <label text="STUB1"/> <bbox w="80.0" h="40.0" x="6619.31" y="19911.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa352_te_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="6616.81" y="19854.0"/> <glyph class="state variable" id="_b0ff7e55-2135-4035-b713-0891f9a794e9"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="6644.311" y="19889.0"/> </glyph> <glyph class="state variable" id="_007bb26a-afcc-4782-9c03-535ac0c643c7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6611.81" y="19868.969"/> </glyph> <glyph class="state variable" id="_abf9b6a3-b585-4b79-8038-6a00eda4aa97"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="6639.439" y="19849.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa353_te_sa353"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="6713.81" y="19851.0"/> <glyph class="unit of information" id="_7fd2570e-3a58-4cc3-b4bc-32c43a6df1b4"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6746.81" y="19846.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa354_te_sa354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 70kDa protein 1A</p> <p>HUGO:HSPA1A</p> <p>heat shock 70kDa protein 1B</p> <p>HUGO:HSP1B</p> <p>heat shock 70kDa protein 1-like</p> <p>HUGO:HSPA1L</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453</p> </body> </html> </notes> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="6721.81" y="19909.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa170_shh1_shh2_sa170" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa170_shh1_shh2_sa170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT11"/> <bbox w="90.0" h="25.0" x="26604.06" y="21930.5"/> <glyph class="unit of information" id="_10e71302-210d-4278-9c23-cf21fb38559f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21925.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa320_emtc_em_sa320" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa320_emtc_em_sa320"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB8"/> <bbox w="40.0" h="20.0" x="5228.262" y="17842.5"/> </glyph> <glyph class="complex" id="s_id_in_csa343_in_csa343" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s4091"/> <bbox w="100.0" h="120.0" x="13690.0" y="1405.0"/> <glyph class="macromolecule" id="s_id_in_sa2622_in_sa2622"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CXCR2"/> <bbox w="80.0" h="50.0" x="13700.0" y="1460.0"/> <glyph class="unit of information" id="_13fa5536-4e5c-44cb-aadb-0b37922002d9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13717.5" y="1455.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2625_in_sa2625"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>CASCADE:TNF, CASCADE:CSF2, CASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:IL8, CASCADE:TLR2_4</p> <p>MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>References:</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as VEGF, basic fibroblast growth factor (bFGF, also known as FGF2), tumour necrosis factor (TNF), interleukin 1 (IL1), chemokine (C-X-C motif) ligand 8 (CXCL8; also known as IL8), cyclooxygenase 2 (COX2, also known as PTGS2), plasminogen activator, urokinase (uPA, also known as PLAU), platelet derived growth factor beta.</p> <p>Release of the pro-angiogenic chemokines CXCL8 and CXCL1 by neutrophils is also triggered by TNF, and by granulocyte-macrophage colony-stimulating factor (GM-CSF, CSF2), platelet-activating factor and CXCL8 itself</p> <p> iDC in ovarian cancer ascites promote angiogenesis in vivo through production of TNF and CXCL8</p> <p> PMID:18980965</p> <p> Interleukin 8-stimulated phosphatidylinositol-3-kinase activity regulates the migration of human</p> <p>neutrophils</p> <p>PMID:15099563</p> <p>Mast cells produce heparin, interleukin-8 (IL-8) and vascular</p> <p>endothelial cell growth factor (VEGF), which induce</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL8*"/> <bbox w="80.0" h="40.0" x="13700.0" y="1415.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa4_mpk1_mpk1_csa4" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRAF:GRB2:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="BRAF:GRB2:RAS*:RTK*:SOS*"/> <bbox w="189.0" h="103.0" x="8873.061" y="18954.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa49_mpk1_mpk1_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf murine sarcoma viral oncogene homolog B1</p> <p>HUGO:BRAF HGNC:1097 ENTREZ:673 UNIPROT:P15056</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>B-Raf is the MAPKKK for ERK cascade on plasma membrane. It is phosphorylated by RasGTP and phosphorylates MEK1/2 on plasma membrane.</p> </body> </html> </notes> <label text="BRAF"/> <bbox w="66.0" h="26.0" x="8889.561" y="19010.5"/> <glyph class="state variable" id="_bc9cece5-9c4b-4bfc-baa6-fefe794e6aec"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8882.061" y="19018.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa618_mpk1_mpk1_sa618"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="8951.436" y="19010.0"/> <glyph class="state variable" id="_28def0fb-297a-46a4-9c8a-233b73b98452"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8943.936" y="19017.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa39_mpk1_mpk1_sa39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="8998.561" y="19010.75"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa38_mpk1_mpk1_sa38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8998.561" y="18986.75"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa586_mpk1_mpk1_sa586"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="9000.061" y="18965.0"/> <glyph class="unit of information" id="_6c2a66eb-206b-4634-900e-a6816d4cdded"> <label text="receptor"/> <bbox w="45.0" h="10.0" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa553_rc_sa553"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BID"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BID"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BID"/> <bbox w="70.0" h="25.0" x="21355.215" y="16288.558"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3033_rc_sa3033" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3033_rc_sa3033"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB*"/> <bbox w="80.0" h="40.0" x="23262.06" y="9534.75"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa59_wnc1_wnc1_csa59" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DACT1:DVL*</p> <p>References:</p> <p>s_wnc1_re95:(MAP:survival) PMID:16446366</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa59_wnc1_wnc1_csa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16446366"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DACT1:DVL*"/> <bbox w="100.0" h="120.0" x="16324.061" y="19020.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa470_wnc1_wnc1_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dapper antagonist of beta-catenin homolog 1 (Xenopus laevis)</p> <p>"dapper homolog 1 antagonist of beta-catenin (xenopus)"</p> <p>HUGO:DACT1 HGNC:17748 ENTREZ:51339 UNIPROT:Q9NYF0 GENECARDS:DACT1 KEGG:51339 ATLASONC:GC_DACT1 WIKI:DACT1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="DACT1"/> <bbox w="80.0" h="40.0" x="16335.811" y="19031.0"/> <glyph class="state variable" id="_097ee460-6021-4b29-ac41-9cce4b06ee17"> <state value="" variable="S237"/> <bbox w="30.0" h="10.0" x="16321.303" y="19026.0"/> </glyph> <glyph class="state variable" id="_6a97f30f-c303-4f05-93c1-86b0b31955ab"> <state value="" variable="S827"/> <bbox w="30.0" h="10.0" x="16400.191" y="19066.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa469_wnc1_wnc1_sa469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16335.811" y="19073.0"/> <glyph class="state variable" id="_7a750f36-ae87-4865-ae3a-dec9d014d0ee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16330.814" y="19108.0"/> </glyph> <glyph class="state variable" id="_6bc8ff33-89ed-4a4b-b3e5-1a1fb43b4b58"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16410.443" y="19068.0"/> </glyph> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCR7"/> <bbox w="70.0" h="25.0" x="14235.0" y="2092.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2740_rc_sa2740" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2740_rc_sa2740"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TA"/> <bbox w="90.0" h="25.0" x="21388.31" y="14729.5"/> <glyph class="unit of information" id="_d3a76ed8-16cc-496c-b57a-ce4d156edaf5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21423.31" y="14724.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa147_te_sa147" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Telomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_end ----- content merged by Celldesigner to SBGN-ML translation ------ Telomeric DNA with G-quadruplexesModules_begin:MODULE:SHELTERINModules_end </body> </html> </notes> <label text="Telomeric_DNA_G-quadruplex*"/> <bbox w="197.0" h="23.0" x="2657.56" y="21688.75"/> </glyph> <glyph class="source and sink" id="s_id_ca_sa795_ca_sa795" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ca_sa275_degraded"/> <bbox w="30.0" h="30.0" x="5125.0" y="1075.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2437_rc_sa2437" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2437_rc_sa2437"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX5B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX5B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX5B"/> <bbox w="90.0" h="25.0" x="19689.06" y="16011.5"/> <glyph class="unit of information" id="_7d7dfb4b-2b1a-4e30-9389-abecd4f94132"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19724.06" y="16006.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2409_emtc_em_sa2409" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2409_emtc_em_sa2409"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP3"/> <bbox w="39.0" h="17.0" x="1991.5" y="18663.75"/> </glyph> <glyph class="complex" id="s_id_rc_csa384_rc_csa384" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TNFRSF10C:TRAIL*</p> <p>References:</p> <p>9242611</p> <p>DcR1 acted as a decoy receptor that inhibited TRAIL signaling</p> </body> </html> </notes> <label text="TRAIL*:TNFRSF10C"/> <bbox w="100.0" h="120.0" x="23529.06" y="9099.0"/> <glyph class="macromolecule" id="s_id_rc_sa3817_rc_sa3817"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily, member 10c, decoy without an intracellular domain</p> <p>HUGO:TNFRSF10C HGNC:11906 ENTREZ:8794 UNIPROT:O14798</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242611</p> <p>DcR1 acted as a decoy receptor that inhibited TRAIL signaling</p> </body> </html> </notes> <label text="TNFRSF10C"/> <bbox w="80.0" h="50.0" x="23539.06" y="9154.0"/> <glyph class="unit of information" id="_d0c9442a-33b3-4df1-8c73-e4a45ab673d5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23556.56" y="9149.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3819_rc_sa3819"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="23539.06" y="9109.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2023_rc_sa2023" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2023_rc_sa2023"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLUD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLUD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLUD*"/> <bbox w="80.0" h="40.0" x="18145.06" y="14983.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4313_rc_sa4313" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4313_rc_sa4313"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WISP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WISP1"/> <bbox w="80.0" h="40.0" x="26259.06" y="11129.0"/> </glyph> <glyph class="phenotype" id="s_id_akt1_akt1_sa353_akt1_akt1_sa353" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc2_re80:(MAP:survival) PMID:16648474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa353_akt1_akt1_sa353"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16648474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Apoptosis"/> <clone/> <bbox w="80.0" h="30.0" x="14029.061" y="18320.0"/> </glyph> <glyph class="phenotype" id="s_id_akt1_akt1_sa353_wnc1_wnc2_sa45" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc2_re80:(MAP:survival) PMID:16648474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa353_wnc1_wnc2_sa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16648474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Apoptosis"/> <clone/> <bbox w="80.0" h="30.0" x="17504.06" y="18808.0"/> </glyph> <glyph class="complex" id="s_id_in_csa167_in_csa167" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa167_in_csa167"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11698286"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15573129"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL3R*:IL3"/> <bbox w="118.0" h="203.0" x="9331.25" y="1883.75"/> <glyph class="macromolecule" id="s_id_in_sa1085_in_sa1085"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL3"/> <bbox w="80.0" h="40.0" x="9341.25" y="1896.25"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1084_in_sa1084"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>CASCADE:CSF2, CASCADE:IL3</p> <p>References:</p> <p>PMID:12393492, PMID:22323450</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits anf use JAK2 kinase</p> <p>PMID:23046136</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF2RB"/> <bbox w="80.0" h="50.0" x="9341.25" y="1951.25"/> <glyph class="unit of information" id="_42f069e4-be6a-4604-8009-74d083a02993"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9358.75" y="1946.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1083_in_sa1083"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL3RA"/> <bbox w="80.0" h="50.0" x="9341.25" y="2011.25"/> <glyph class="unit of information" id="_e9a9bc33-de66-46b0-bc5e-0d2c3e809b7a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9358.75" y="2006.25"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1245_ad_sa1245" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:ACTIVATING_CHECKPOINTSPMID:15811952The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell responses through the cell-surface receptor CRTAMStimulation of a human polyclonal T-cell line with PMA/ionomycin induced expression of CRTAM on CD8+ T cells after 4 hours of stimulationCRTAM expression on NK cells and CD8+ T cells is tightly regulated by NK cell–activating receptors and T-cell receptor (TCR) triggering, respectively. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:ACTIVATING_CHECKPOINTSPMID:15811952The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell responses through the cell-surface receptor CRTAMStimulation of a human polyclonal T-cell line with PMA/ionomycin induced expression of CRTAM on CD8+ T cells after 4 hours of stimulationCRTAM expression on NK cells and CD8+ T cells is tightly regulated by NK cell–activating receptors and T-cell receptor (TCR) triggering, respectively. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1245_ad_sa1245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRTAM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15811952"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa345_an_sa345"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16076871"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK2*"/> <bbox w="80.0" h="40.0" x="5932.0" y="6585.0"/> <glyph class="state variable" id="_7b9901a1-2327-4359-b294-1b8c9e5b44e1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5983.5684" y="6580.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1040_ad_sa1040" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:INHIBITING_CHECKPOINTS, MODULE:TCR_SIGNALING</p> <p>PMID:11572860</p> <p>Gab2 is phosphorylated by ZAP-70, is associated with the TCR signaling complex, and acts as an inhibitory adaptor molecule via recruitment of SHP-2 upon TCR engagement</p> <p>Gab2 Is Associated with LAT in a Tyrosine Phosphorylation-dependent Manner</p> <p>PMID:12640133 </p> <p>Gads/Grb2-Mediated Association with LAT Is Critical for the Inhibitory Function of Gab2 in T Cells</p> <p>LAT is required for Gab2 phosphorylation upon TCR engagement.</p> <p>Competitive function of Gab2 with SLP-76 for Gads/Grb2 binding.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1040_ad_sa1040"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11572860"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12640133"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAB2"/> <bbox w="80.0" h="40.0" x="28246.0" y="3360.0"/> <glyph class="state variable" id="_eb5638da-522d-4bf7-ba06-6c89aa884b90"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28241.0" y="3375.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa216_emtc_em_csa216" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJD2:ZO1_2_3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:19418635</p> <p>GJD2 is widely expressed in neurons and was previously shown to interact with the PDZ domain-containing protein ZO-1.</p> <p>Direct association of connexin36 (GJD2) with ZO-2 and ZO-3 was also demonstrated.</p> <p>PMID:15558297</p> <p>Association of connexin36 with ZO-1 in HeLa cells, betaTC-3 cells, pancreas, and adrenal gland.</p> <p>The functional significance of Cx36/ZO-1 interaction remains to be established</p> <p>Interestingly, ZO-1 was not associated with Cx36 intracellularly, suggesting that functions of its interaction with at least Cx36 may be restricted to intact gap junctions at plasma membranes.</p> <p>PMID:16650609</p> <p>Association of connexin36 and ZO-1 with ZO-2 and the transcription factor ZO-1-associated nucleic acid-binding protein at neuronal gap junctions in rodent retina.</p> <p>PMID:17681699</p> <p>In the outer plexiform layer of mouse retina, ZO-1 interacts with connexin36 but not with Cx57, and there is an absence of connexin57/connexin36 heterotypic gap junctional coupling in mouse retina</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa216_emtc_em_csa216"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19418635"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15558297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16650609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17681699"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJD2/ZO1_2_3*"/> <bbox w="100.0" h="40.0" x="1799.0" y="18074.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1393_emtc_em_sa1393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ZO1_2_3*</p> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>tight junction protein 2</p> <p>HUGO:TJP2, HGNC:11828, ENTREZ:9414, GENECARDS:GC09P071766, UNIPROT:Q9UDY2 </p> <p>tight junction protein 3</p> <p>HUGO:TJP3, HGNC:11829, ENTREZ:27134, GENECARDS:GC19P003659, UNIPROT:O95049</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1_2_3*"/> <bbox w="60.0" h="20.0" x="1837.0" y="18076.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1392_emtc_em_sa1392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, delta 2, 36kDa</p> <p>HUGO:GJD2, HGNC:19154, ENTREZ:57369, UNIPROT:Q9UKL4, GENECARDS:GC15M035043  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJD2 is so-called Connexin 36</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJD2"/> <bbox w="34.0" h="16.0" x="1802.0" y="18076.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa707_emtc_em_sa707" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa707_emtc_em_sa707"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR192"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR192"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR192"/> <bbox w="60.0" h="20.0" x="3474.5" y="17165.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa43_ce_csa43" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CTBP*:CTIP*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> </body> </html> </notes> <label text="CtBP*/CtIP*"/> <bbox w="105.0" h="123.0" x="13772.473" y="15563.356"/> <glyph class="macromolecule" id="s_id_ce_sa1410_ce_sa1410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma binding protein 8 (RIM)</p> <p>CTBP-interacting protein (CtIP)</p> <p>HUGO:RBBP8, HGNC:9891, ENTREZ:5932, UNIPROT:Q99708</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:17965729, PMID:9721205, PMID:19202191, PMID:18171986, PMID:20723763</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="CTIP*"/> <bbox w="80.0" h="40.0" x="13786.992" y="15574.219"/> <glyph class="state variable" id="_4d7e6ed2-62b5-44d5-a5f6-5dc7c10f8f8d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13781.992" y="15589.219"/> </glyph> <glyph class="state variable" id="_212637c3-aa18-4b92-ac8d-25441b1b197b"> <state value="P" variable="T847"/> <bbox w="35.0" h="10.0" x="13769.492" y="15576.069"/> </glyph> <glyph class="state variable" id="_48757ba7-6c4f-4947-a77b-fc8b6a6fb21f"> <state value="P" variable="S267"/> <bbox w="35.0" h="10.0" x="13769.492" y="15599.591"/> </glyph> <glyph class="state variable" id="_707d0330-0af9-40f7-b728-f7ec9ca11d81"> <state value="" variable="BRCA1-dep"/> <bbox w="55.0" h="10.0" x="13790.861" y="15609.219"/> </glyph> <glyph class="state variable" id="_54e3a5f9-4939-41c6-90d8-e0ead2b9d924"> <state value="P" variable="S372"/> <bbox w="35.0" h="10.0" x="13793.088" y="15569.219"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1411_ce_sa1411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1, HGNC:2494, ENTREZ:1487, UNIPROT:Q13363</p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2, HGNC:2495, ENTREZ:1488, UNIPROT:P56545</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:21681822, PMID:20964627, PMID:19506021, PMID:19216735</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="13786.124" y="15624.219"/> <glyph class="state variable" id="_a15b3f0a-4e7c-4369-b717-ad41b22a95d9"> <state value="P" variable="S181"/> <bbox w="35.0" h="10.0" x="13819.593" y="15619.219"/> </glyph> <glyph class="state variable" id="_5cf48b70-bff9-4514-a3b4-8993398969fc"> <state value="P" variable="S185"/> <bbox w="35.0" h="10.0" x="13802.489" y="15619.219"/> </glyph> <glyph class="state variable" id="_972e2306-2443-4adb-aae0-e1ee8933a257"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="13847.482" y="15619.219"/> </glyph> <glyph class="state variable" id="_18688231-a988-4072-a480-7572b6b21799"> <state value="P" variable="T179"/> <bbox w="35.0" h="10.0" x="13787.272" y="15619.219"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa323_rc_csa323" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CFLAR:FADD:RIPK1:TRADD</p> </body> </html> </notes> <label text="CFLAR@complex II"/> <bbox w="198.0" h="129.0" x="21820.06" y="10234.5"/> <glyph class="macromolecule" id="s_id_rc_sa2907_rc_sa2907"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASP8 and FADD-like apoptosis regulator</p> <p>HUGO:CFLAR HGNC:1876 ENTREZ:8837 UNIPROT:O15519</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:15760909</p> <p>PMID:19838173</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce </p> </body> </html> </notes> <label text="CFLAR"/> <bbox w="80.0" h="40.0" x="21922.06" y="10294.5"/> <glyph class="state variable" id="_877e8943-6f8f-4b6b-b16d-ffccd0cc3563"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21973.629" y="10289.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3595_rc_sa3595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="21832.06" y="10294.5"/> <glyph class="state variable" id="_60cd83be-fe8f-4307-aa0c-8d216d541f97"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="21897.06" y="10300.75"/> </glyph> <glyph class="state variable" id="_0f0f4c34-4fce-4b1a-b8be-d77465d4ecb5"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="21873.39" y="10329.5"/> </glyph> <glyph class="state variable" id="_5dce600e-e26a-4abd-b452-d1b6684cdc2a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21869.896" y="10289.5"/> </glyph> <glyph class="state variable" id="_422e5fb5-da3e-424d-aa5d-34c857c645d5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21827.06" y="10300.671"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3224_rc_sa3224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="21829.06" y="10242.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3223_rc_sa3223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="21919.06" y="10242.75"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa33_wca1_wca4_sa33" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa33_wca1_wca4_sa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD7"/> <bbox w="90.0" h="25.0" x="23659.06" y="21177.5"/> <glyph class="unit of information" id="_031dcfc6-37f1-4b21-99b9-b7ab91872abb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23694.06" y="21172.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3359_rc_sa3359" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3359_rc_sa3359"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NR4A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NR4A1"/> <bbox w="80.0" h="40.0" x="22379.06" y="15379.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5309_rc_sa5309" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16680</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5309_rc_sa5309"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S-Adénosylhomocystéine"/> <bbox w="155.0" h="33.0" x="26461.56" y="9952.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa65_emtc_em_sa65" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa77_akt1_akt1_sa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="13427.811" y="18024.5"/> <glyph class="state variable" id="_29a88b5e-e9fb-4c52-9ddc-1235fe6f90cf"> <state value="" variable="T450"/> <bbox w="30.0" h="10.0" x="13492.444" y="18019.5"/> </glyph> <glyph class="state variable" id="_f49caf6a-e2ea-4d11-9f1a-b5244403e996"> <state value="" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15996 KEGGCOMPOUND:C00044 CAS:86-01-1</p> <p>Map modules:</p> <p>MODULE:MITOCH_METABOLISM, MODULE:DEATH-RECEPTORS MODULE:DEPENDANCE_RECEPTORS</p> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="20954.06" y="9676.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4298_rc_sa4298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> </body> </html> </notes> <label text="GTP binding protein*"/> <bbox w="130.0" h="40.0" x="20904.06" y="9709.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa18_shh1_shh1_csa18" compartmentRef="s_id_shh1_shh1_ca5_shh1_shh1_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KIF3A:KIF3B:SMO:_beta_-Arrestin2*</p> <p>References:</p> <p>s_shh1_re33:(MAP:survival) PMID:18497258</p> <p>s_shh1_re35(MAP:survival):</p> <p>PMID:18497258</p> <p>PMID:11449277</p> <p>PMID:20375059</p> <p>Rad23 negatively regulates SHH signaling but how exactly is unknown. Recently it was shown to be associated with Smo trafficing into cilium</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa18_shh1_shh1_csa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11449277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20375059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="b-arrestin_SMO_ KIF3A"/> <bbox w="111.0" h="205.0" x="26622.06" y="17690.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa150_shh1_shh1_sa150"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="26637.56" y="17698.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa312_shh1_shh1_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3B</p> <p>HUGO:KIF3B HGNC:6320 ENTREZ:9371 UNIPROT:O15066 GENECARDS:KIF3B REACTOME:58021 KEGG:9371 ATLASONC:GC_KIF3B WIKI:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3B"/> <bbox w="80.0" h="40.0" x="26641.56" y="17829.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa153_shh1_shh1_sa153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3A</p> <p>HUGO:KIF3A HGNC:6319 ENTREZ:11127 UNIPROT:Q9Y496 GENECARDS:KIF3A REACTOME:58019 KEGG:11127 WIKI:KIF3A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3A"/> <bbox w="80.0" h="40.0" x="26639.56" y="17787.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa151_shh1_shh1_sa151"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Smoothened</p> <p>HUGO:SMO HGNC:11119 ENTREZ:6608 UNIPROT:Q99835 GENECARDS:SMO REACTOME:64670 KEGG:6608 ATLASONC:GC_SMO WIKI:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18820483</p> <p>PMID:17641202</p> </body> </html> </notes> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26637.56" y="17742.0"/> <glyph class="state variable" id="_d6204e97-b66c-4402-a687-8175e6ecb162"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26710.06" y="17737.0"/> </glyph> <glyph class="state variable" id="_0684b67d-302e-431a-969f-0d59ed10fd1d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26712.56" y="17737.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1056_emtc_em_sa1056" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa53_ca_sa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SERPINE1"/> <bbox w="70.0" h="25.0" x="2945.0" y="2297.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2750_rc_sa2750" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2750_rc_sa2750"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ND3"/> <bbox w="80.0" h="40.0" x="18041.81" y="13964.274"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5498_rc_sa5498" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5498_rc_sa5498"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHO*"/> <bbox w="80.0" h="40.0" x="29239.06" y="9489.0"/> <glyph class="state variable" id="_d662f433-477b-429b-a581-13629c2a4ba6"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="29271.56" y="9484.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa640_rc_sa640" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa640_rc_sa640"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TPI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TPI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TPI1"/> <bbox w="70.0" h="25.0" x="23055.393" y="16307.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa504_ca_sa504" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa504_ca_sa504"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPBP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPBP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL7"/> <bbox w="90.0" h="25.0" x="1225.0" y="3517.0"/> <glyph class="unit of information" id="_62784aa1-5171-45f8-bca6-df92cd52533f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1260.0" y="3512.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa412_rc_csa412" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CFLAR:Caspase8,10*:FADD:FAF1:FAS:FASLG:FLASH*:MLKL:RIPK1:RIPK3</p> <p>References:</p> <p>10*:RIPK3:CFLAR:FLASH*:RIPK1:FAF1:FADD:MLKL:FASLG:FAS</p> <p>Fas Ligation can lead to Programmed necrosis</p> <p>23069999</p> <p>9217161</p> <p>FLIPs and FLIP(L) interact with the adaptor protein FADD and the protease FLICE, and potently inhibit apoptosis induced by all known human death receptors</p> <p>22427918</p> <p>FLASH (FLICE-associated huge protein or CASP8AP2) is a large multifunctional protein that is involved in many cellular processes associated with cell death and survival</p> <p>15592525</p> <p>endogenous caspase-8 mediates TNF-alpha-induced activation of NF-kappaB via FLASH</p> </body> </html> </notes> <label text="FAS:FASLG:FADD:DAXX:ASK1"/> <bbox w="415.0" h="177.0" x="25184.81" y="10116.125"/> <glyph class="macromolecule" id="s_id_rc_sa4024_rc_sa4024"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8 associated protein 2</p> <p>HUGO:CASP8AP2 HGNC:1510 ENTREZ:9994 UNIPROT:Q9UKL3</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE</p> <p>References:</p> <p>PMID:22427918</p> <p>FLASH (FLICE-associated huge protein or CASP8AP2) is a large multifunctional protein that is involved in many cellular processes associated with cell death and survival</p> <p>PMID:12702723</p> <p>PMID:15592525</p> <p>PMID:1134007</p> </body> </html> </notes> <label text="FLASH*"/> <bbox w="80.0" h="40.0" x="25324.81" y="10168.625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4026_rc_sa4026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6) associated factor 1</p> <p>HUGO:FAF1 HGNC:3578 ENTREZ:11124 UNIPROT:Q9UNN5</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12702723</p> <p>FAF1 is a member of Fas-DISC acting upstream of caspase-8</p> <p>PMID:19597341</p> <p>FAF1 downregulation may contribute to multiple aspects of tumorigenesis</p> </body> </html> </notes> <label text="FAF1"/> <bbox w="80.0" h="40.0" x="25404.81" y="10126.625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4080_rc_sa4084"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25511.56" y="10200.75"/> <glyph class="state variable" id="_e0fcc5e6-e6d6-4f3d-9e70-11284dfdc139"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25581.56" y="10210.394"/> </glyph> <glyph class="unit of information" id="_6d72d349-3c3e-4a67-8c3b-36080c290dea"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25529.06" y="10195.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4041_rc_sa4041"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mixed lineage kinase domain-like</p> <p>HUGO:MLKL HGNC:26617 ENTREZ:197259 UNIPROT:Q8NB16</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> <p>PMID:24366341</p> <p>PMID:26024392</p> <p>PMID:26853145</p> <p>Sequential Engagement of Distinct MLKL Phosphatidylinositol-Binding Sites Executes Necroptosis.</p> <p>PMID:28498367</p> </body> </html> </notes> <label text="MLKL"/> <bbox w="80.0" h="40.0" x="25397.81" y="10224.375"/> <glyph class="state variable" id="_b4a8617d-c0d6-4133-90f1-743559f14e5a"> <state value="" variable="S358"/> <bbox w="30.0" h="10.0" x="25406.406" y="10219.375"/> </glyph> <glyph class="state variable" id="_8673130c-6ebe-4361-aa29-6be616ef5fa6"> <state value="" variable="T357"/> <bbox w="30.0" h="10.0" x="25382.81" y="10230.882"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4079_rc_sa4083"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25508.56" y="10155.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4040_rc_sa4040"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor-interacting serine-threonine kinase 3</p> <p>HUGO:RIPK3 HGNC:10021 ENTREZ:11035 UNIPROT:Q9Y572</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:23010170</p> <p>PMID:27558815</p> <p>PMID:23073834</p> <p>PMID:19524512</p> <p>PMID:19632174</p> <p>PMID:19498109</p> <p>PMID:19524513</p> <p>The kinase activity of RIP3 is essential for necrosis execution.</p> <p>PMID:26024392</p> <p>The phosphorylation of Ser345 is not required for the interaction between RIPK3 and MLKL in the necrosome, but is essential for MLKL translocation, accumulation in the plasma membrane, and consequent necroptosis.</p> <p>PMID:26900751</p> <p>CHIP controls necroptosis through ubiquitylation- and lysosome-dependent degradation of RIPK3.</p> </body> </html> </notes> <label text="RIPK3"/> <bbox w="80.0" h="40.0" x="25207.81" y="10224.375"/> <glyph class="state variable" id="_919c4057-6159-4d03-b60a-2978c1a573e8"> <state value="P" variable="S199"/> <bbox w="35.0" h="10.0" x="25247.26" y="10219.375"/> </glyph> <glyph class="state variable" id="_3597f3d8-147a-4c10-8394-499cf02e796c"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="25193.303" y="10219.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4080_rc_sa4082"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25501.56" y="10190.75"/> <glyph class="state variable" id="_ae1647c1-b526-4806-88c7-e28c703f729f"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25571.56" y="10200.394"/> </glyph> <glyph class="unit of information" id="_cb2c1d7c-65af-467f-bd73-1a7ed856cca2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25519.06" y="10185.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4079_rc_sa4081"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25498.56" y="10145.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4079_rc_sa4079"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25488.56" y="10135.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4025_rc_sa4025"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25209.81" y="10168.625"/> <glyph class="state variable" id="_eaf73079-30fb-48f4-a2ae-a33edbb15bb8"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25199.81" y="10175.341"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4018_rc_sa4018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASP8 and FADD-like apoptosis regulator</p> <p>HUGO:CFLAR HGNC:1876 ENTREZ:8837 UNIPROT:O15519</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:15760909</p> <p>PMID:19838173</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce </p> </body> </html> </notes> <label text="CFLAR"/> <bbox w="80.0" h="40.0" x="25322.81" y="10128.625"/> <glyph class="state variable" id="_1c2a1fe3-712d-4403-9d78-3e01a074a739"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25374.379" y="10123.625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4014_rc_sa4014"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25404.81" y="10168.625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4080_rc_sa4080"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25491.56" y="10180.75"/> <glyph class="state variable" id="_29c504cb-1824-4fb0-8e16-bcce16a5830f"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25561.56" y="10190.394"/> </glyph> <glyph class="unit of information" id="_8baa453a-9ec8-4f8a-bf42-72080bf5a1e6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25509.06" y="10175.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4011_rc_sa4011"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="25302.81" y="10220.625"/> <glyph class="state variable" id="_dff747d4-e701-410a-a799-c8be5ff600a9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25340.646" y="10215.625"/> </glyph> <glyph class="state variable" id="_93900c87-c693-45c9-9c18-ea71a202c535"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="25367.81" y="10226.874"/> </glyph> <glyph class="state variable" id="_a2d65bbb-36ee-4ac8-b661-f53f308ebfe5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25297.81" y="10226.797"/> </glyph> <glyph class="state variable" id="_b4173dcc-3901-4441-8ae3-5fa207efb2e5"> <state value="P" variable="S161"/> <bbox w="35.0" h="10.0" x="25341.64" y="10255.625"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1819_in_sa1819" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17404308, 12598651, 18633355, 16410834, 17043764, 15099563 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MAST_CELL</p> <p>MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>CASCADE:TLR2_4, CASCADE:IL15</p> <p>References:</p> <p>PMID:17043764</p> <p>IL1 signaling has both antitumor effect (low dose of IL B and menbran associated IL1A) and protumor effect (high dose of IL1) in tumor microevironment,</p> <p>PMID:12598651</p> <p>Microenvironmental IL-1 beta and, to a lesser extent, IL-1 alpha are required for in vivo angiogenesis and invasiveness of different tumor cells.</p> <p>PMID:17404308</p> <p>CSF1 downregulates TNF, IL-23p19, IL-12p40 expression probably via induction of acomulation of p50 homodimer and inhibition of p65/p50 NF-kB signaling.</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as VEGF, basic fibroblast growth factor (bFGF, also known as FGF2), tumour necrosis factor (TNF), interleukin 1 (IL1), chemokine (C-X-C motif) ligand 8 (CXCL8; also known as IL8), cyclooxygenase 2 (COX2, also known as PTGS2), plasminogen activator, urokinase (uPA, also known as PLAU), platelet derived growth factor beta.</p> <p>PMID:16410834</p> <p>T-bet upregulates the production of proinflammatory cytokine IL-1a and chemokines macrophage inflammatory protein-1a (MIP-1a) and downregulatesthymus- and activation-related chemokine (TARC) by DCs.</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1819_in_sa1819"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17404308"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12598651"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16410834"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17043764"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15099563"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL1A"/> <bbox w="80.0" h="40.0" x="12650.0" y="6750.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa2952_rc_sa2952" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s3929"/> <bbox w="30.0" h="30.0" x="19561.06" y="9802.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa66_mpk1_mpk1_csa66" compartmentRef="s_id_mpk1_mpk1_ca9_mpk1_mpk1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:MEK*:_beta_-Arrestin2*</p> </body> </html> </notes> <label text="ERK*:MEK*:β-Arrestin2*"/> <bbox w="146.0" h="119.0" x="9742.061" y="19639.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa319_mpk1_mpk1_sa319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin beta 2</p> <p>ARR2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="49.0" h="77.0" x="9818.561" y="19649.334"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa320_mpk1_mpk1_sa320"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9769.561" y="19678.334"/> <glyph class="state variable" id="_a96c120d-f936-4db5-8b7d-e264e868cc27"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9762.061" y="19690.0"/> </glyph> <glyph class="state variable" id="_374fc82c-e94d-4558-8bf7-63b92ddfff8b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9762.061" y="19681.46"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa321_mpk1_mpk1_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="9769.561" y="19703.334"/> <glyph class="state variable" id="_a414b5a5-48af-4338-8f47-45375e865c70"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9762.061" y="19715.19"/> </glyph> <glyph class="state variable" id="_3eb22508-5aa4-4630-9dc8-75e38518ccb5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9762.061" y="19705.885"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa99_mpk1_mpk1_csa99" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:RAC1:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:RAC1:RTK*:SOS*"/> <bbox w="152.0" h="103.0" x="8612.057" y="18910.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa523_mpk1_mpk1_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="8691.557" y="18962.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa522_mpk1_mpk1_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8691.557" y="18938.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa587_mpk1_mpk1_sa587"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="8692.061" y="18918.0"/> <glyph class="unit of information" id="_f1d71b7f-98cd-422a-b833-06a60d88ad25"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8694.561" y="18913.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa524_mpk1_mpk1_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="60.0" h="25.0" x="8637.557" y="18962.0"/> <glyph class="state variable" id="_2f6b33ca-1270-4180-963d-c607a8929be0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8630.057" y="18969.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa100_mpk1_mpk1_csa100" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:MAP3K2_3*:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:MAP3K2_3*:RAS*:RTK*:SOS*"/> <bbox w="227.0" h="103.0" x="10604.057" y="19479.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa529_mpk1_mpk1_sa529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 2</p> <p>MEKK2</p> <p>HUGO:MAP3K2 HGNC:6854 ENTREZ:10746 UNIPROT:Q9Y2U5 </p> <p>mitogen-activated protein kinase kinase kinase 3</p> <p>MEKK3</p> <p>HUGO:MAP3K3 HGNC:6855 ENTREZ:4215 UNIPROT:Q99759</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways</p> </body> </html> </notes> <label text="MAP3K2_3*"/> <bbox w="76.0" h="25.0" x="10621.557" y="19533.334"/> <glyph class="state variable" id="_dc0c86de-bcd5-4dc7-b083-c0ca42b7a5b2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10614.057" y="19540.834"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa644_mpk1_mpk1_sa644"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="10762.186" y="19532.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa645_mpk1_mpk1_sa645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="10713.686" y="19532.75"/> <glyph class="state variable" id="_ed38883a-68d6-4223-b82e-a60f91001970"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10706.186" y="19540.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa643_mpk1_mpk1_sa643"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="10762.186" y="19507.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa642_mpk1_mpk1_sa642"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa251_mpk1_mpk1_sa251"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ELK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ELK1"/> <bbox w="55.0" h="25.0" x="8818.561" y="20583.0"/> <glyph class="state variable" id="_1f0969f3-6617-4c00-a3ae-54d1a3fc912c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8811.061" y="20590.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa230_an_sa230" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22975327</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa230_an_sa230"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S1PR3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22975327"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S1PR3"/> <bbox w="80.0" h="50.0" x="4888.0" y="8216.0"/> <glyph class="unit of information" id="_e86a0207-37e8-4274-a42c-6fab91a043ac"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4905.5" y="8211.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa109_ce_sa109" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa109_ce_sa109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5516_rc_sa5516"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VopS*"/> <bbox w="70.0" h="25.0" x="29284.06" y="9216.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1196_ad_sa1196" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19349987</p> <p>Both ROCK and MLCK phosphorylate and activate MLC and both ML7 and Y27632 inhibited phosphorylation of MLC during T cell stimulation with soluble TCR antibody</p> <p>PMID:27785353 </p> <p>RhoA-ROCK pathway is activated downstream of chemokine receptors such as CXCL12 in T cells</p> <p>PMID:11698448</p> <p>A Role for a RhoA/ROCK/LIM-Kinase Pathway in the Regulation of Cytotoxic Lymphocytes</p> <p>ROCK inhibition in a a human CD8+ cytotoxic T cell line showed a similar dose-dependent inhibition of cell-mediated killing of anti-CD3-coated P815 (data not shown)</p> <p>Probably via LiMK.</p> <p>PMID:10652353</p> <p>Rho-associated kinase ROCK activates LIM-kinase 1 by phosphorylation at threonine 508 within the activation loop</p> <p>(in vitro assay)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1196_ad_sa1196"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19349987"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27785353"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11698448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10652353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROCK1"/> <bbox w="80.0" h="40.0" x="30116.0" y="5755.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa32_rc_csa32" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:COX4I1:COX5A:COX5B:COX6A*:COX6B*:COX6C:COX7A*:COX7B*:COX7C:COX8*:Cu2+:MT-CO1:MT-CO2:MT-CO3:heme a</p> <p>References:</p> <p>stoechiometry:FALSE</p> </body> </html> </notes> <label text="cytochrome c oxidase"/> <bbox w="420.0" h="150.0" x="19555.81" y="13579.0"/> <glyph class="macromolecule" id="s_id_rc_sa419_rc_sa419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit Va</p> <p>HUGO:COX5A HGNC:2267 ENTREZ:9377 UNIPROT:P20674</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX5A"/> <bbox w="80.0" h="40.0" x="19643.81" y="13621.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa415_rc_sa415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome c oxidase I</p> <p>HUGO:MT-CO1 HGNC:7419 ENTREZ:4512 UNIPROT:P00395</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CO1"/> <bbox w="80.0" h="40.0" x="19561.81" y="13581.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa420_rc_sa420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit Vb</p> <p>HUGO:COX5B HGNC:2269 ENTREZ:1329 UNIPROT:P10606</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX5B"/> <bbox w="80.0" h="40.0" x="19643.81" y="13663.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa424_rc_sa424"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIb polypeptide 1 (ubiquitous)</p> <p>HUGO:COX6B1 HGNC:2280 ENTREZ:1340 UNIPROT:P14854 </p> <p>cytochrome c oxidase subunit VIb polypeptide 2 (testis)</p> <p>HUGO:COX6B2 HGNC:24380 ENTREZ:125965 UNIPROT:Q6YFQ2</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX6B*"/> <bbox w="80.0" h="40.0" x="19725.81" y="13621.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa421_rc_sa421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIc</p> <p>HUGO:COX6C HGNC:2285 ENTREZ:1345 UNIPROT:P09669</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX6C"/> <bbox w="80.0" h="40.0" x="19725.81" y="13663.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa428_rc_sa429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29036</p> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="19897.31" y="13632.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa417_rc_sa417"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome c oxidase III</p> <p>HUGO:MT-CO3 HGNC:7422 ENTREZ:4514 UNIPROT:P00414</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CO3"/> <bbox w="80.0" h="40.0" x="19561.81" y="13665.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa423_rc_sa423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIa polypeptide 1</p> <p>HUGO:COX6A1 HGNC:2277 ENTREZ:1337 UNIPROT:P12074 </p> <p>cytochrome c oxidase subunit VIa polypeptide 2</p> <p>HUGO:COX6A2 HGNC:2279 ENTREZ:1339 UNIPROT:Q02221</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX6A*"/> <bbox w="80.0" h="40.0" x="19725.81" y="13579.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa430_rc_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:24479</p> <p>KEGGCOMPOUND:C15670 </p> </body> </html> </notes> <label text="heme a"/> <bbox w="70.0" h="25.0" x="19894.81" y="13694.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa427_rc_sa427"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIIA (ubiquitous)</p> <p>HUGO:COX8A HGNC:2294 ENTREZ:1351 UNIPROT:P10176 </p> <p>cytochrome c oxidase subunit VIIIC</p> <p>HUGO:COX8C HGNC:24382 ENTREZ:341947 UNIPROT:Q7Z4L0</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX8*"/> <bbox w="80.0" h="40.0" x="19889.81" y="13579.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa425_rc_sa425"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIa polypeptide 1 (muscle)</p> <p>HUGO:COX7A1 HGNC:2287 ENTREZ:1346 UNIPROT:P24310 </p> <p>cytochrome c oxidase subunit VIIa polypeptide 2 (liver)</p> <p>HUGO:COX7A2 HGNC:2288 ENTREZ:1347 UNIPROT:P14406 </p> <p>cytochrome c oxidase subunit VIIa polypeptide 2 like</p> <p>HUGO:COX7A2L HGNC:2289 ENTREZ:9167 UNIPROT:O14548</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX7A*"/> <bbox w="80.0" h="40.0" x="19807.81" y="13579.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa430_rc_sa430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:24479</p> <p>KEGGCOMPOUND:C15670 </p> </body> </html> </notes> <label text="heme a"/> <bbox w="70.0" h="25.0" x="19894.81" y="13660.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa422_rc_sa422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIc</p> <p>HUGO:COX7C HGNC:2292 ENTREZ:1350 UNIPROT:P15954</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX7C"/> <bbox w="80.0" h="40.0" x="19807.81" y="13663.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa418_rc_sa418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit IV isoform 1</p> <p>HUGO:COX4I1 HGNC:2265 ENTREZ:1327 UNIPROT:P13073</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX4I1"/> <bbox w="80.0" h="40.0" x="19643.81" y="13579.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa426_rc_sa426"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIb</p> <p>HUGO:COX7B HGNC:2291 ENTREZ:1349 UNIPROT:P24311 </p> <p>cytochrome c oxidase subunit VIIb2</p> <p>HUGO:COX7B2 HGNC:24381 ENTREZ:170712 UNIPROT:Q8TF08</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX7B*"/> <bbox w="80.0" h="40.0" x="19807.81" y="13621.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa428_rc_sa428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29036</p> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="19938.81" y="13632.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa416_rc_sa416"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome c oxidase II</p> <p>HUGO:MT-CO2 HGNC:7421 ENTREZ:4513 UNIPROT:P00403</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CO2"/> <bbox w="80.0" h="40.0" x="19561.81" y="13625.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3086_rc_sa3086" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16761 KEGGCOMPOUND:C00008 CAS:58-64-0</p> </body> </html> </notes> <label text="ADP"/> <bbox w="70.0" h="25.0" x="20554.06" y="13306.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1417_rc_sa1417" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1417_rc_sa1417"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XIAP"/> <bbox w="80.0" h="40.0" x="24829.06" y="12019.0"/> <glyph class="state variable" id="_9f123709-f1ab-4685-a8cf-758e0e600092"> <state value="P" variable="S87"/> <bbox w="30.0" h="10.0" x="24871.01" y="12014.0"/> </glyph> <glyph class="state variable" id="_e67eda4b-6795-48e9-91df-dda5adf84c67"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24847.492" y="12014.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa904_rc_sa904" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa904_rc_sa904"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LDHB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LDHB"/> <bbox w="80.0" h="40.0" x="19031.777" y="11333.898"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa187_emtc_em_csa187" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin1_5_8*:MPDZ</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Claudin1_5_8*/MPDZ"/> <bbox w="158.0" h="43.0" x="1425.0" y="15424.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1252_emtc_em_sa1252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>multiple PDZ domain protein</p> <p>HUGO:MPDZ HGNC:7208 ENTREZ:8777 UNIPROT:O75970</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:11689568</p> <p>MPDZ accumulates at the TJ in epithelial cells through its binding to Claudins and JAMs. </p> <p>MPDZ is believed to function as a multivalent scaffold protein that recruits various proteins to TJ</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MPDZ"/> <bbox w="39.0" h="18.0" x="1532.5" y="15428.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1351_emtc_em_sa1351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claudin1_5_8*</p> <p>claudin 1</p> <p>HUGO:CLDN1, HGNC:2032, ENTREZ:9076, UNIPROT:O95832, GENECARDS:GC03M190023 </p> <p>claudin 5</p> <p>HUGO:CLDN5, HGNC:2047, ENTREZ:7122, UNIPROT:O00501, GENECARDS:GC22M019510 </p> <p>claudin 8</p> <p>HUGO:CLDN8, HGNC:2050, ENTREZ:9073, UNIPROT:P56748, GENECARDS:GC21M031586 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin1_5_8*"/> <bbox w="100.0" h="20.0" x="1429.0" y="15427.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa3_rc_csa3" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAK1:VDAC2</p> </body> </html> </notes> <label text="BAK1:VDAC2"/> <bbox w="100.0" h="120.0" x="22879.06" y="14619.0"/> <glyph class="macromolecule" id="s_id_rc_sa41_rc_sa41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22888.06" y="14627.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa40_rc_sa40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>voltage-dependent anion channel 2</p> <p>HUGO:VDAC2 HGNC:12672 ENTREZ:7417 UNIPROT:P45880</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>Voltage-dependent anion-selective channel protein 2</p> </body> </html> </notes> <label text="VDAC2"/> <bbox w="80.0" h="40.0" x="22888.06" y="14671.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa29_an_csa29" compartmentRef="s_id_an_ca1_an_ca1"> <label text="an_s316"/> <bbox w="100.0" h="120.0" x="4602.0" y="6115.0"/> <glyph class="macromolecule" id="s_id_an_sa267_an_sa267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="4612.0" y="6125.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa268_an_sa268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TNFRSF10A, HUGO:TNFRSF10A</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="4612.0" y="6170.0"/> <glyph class="unit of information" id="_aa2f69b1-715f-4f16-864c-eb23f9acefec"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4629.5" y="6165.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa164_in_csa164" compartmentRef="s_id_in_ca13_in_ca13"> <label text="IL6R*:IL6"/> <bbox w="110.0" h="186.0" x="8920.0" y="3017.1484"/> <glyph class="macromolecule" id="s_id_in_sa1073_in_sa1073"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL6R"/> <bbox w="80.0" h="50.0" x="8930.0" y="3073.5547"/> <glyph class="unit of information" id="_baca4cd3-c480-4249-b168-d2f4756052a7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8947.5" y="3068.5547"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1072_in_sa1072"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="8930.0" y="3123.5547"/> <glyph class="state variable" id="_fa265d9b-9202-4bf2-8aea-2a27914e563d"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="8992.5" y="3121.0957"/> </glyph> <glyph class="unit of information" id="_363e179e-4e8b-4d59-b890-0eca879a2c8e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8947.5" y="3118.5547"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1074_in_sa1074"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL6"/> <bbox w="80.0" h="40.0" x="8930.0" y="3028.5547"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa548_in_sa548" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa548_in_sa548"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20189481"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18287025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IP3"/> <bbox w="70.0" h="25.0" x="13665.0" y="3417.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4275_rc_sa4275" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4275_rc_sa4275"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K7"/> <bbox w="80.0" h="40.0" x="22506.56" y="10817.0"/> <glyph class="state variable" id="_643b4165-fc52-40ba-adaf-0b9c846c1547"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22558.129" y="10812.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa73_ce_csa73" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:PCNA:POLK:REV1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:19258535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa73_ce_csa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19258535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCNA/POLK"/> <bbox w="108.0" h="153.0" x="16899.473" y="15725.356"/> <glyph class="macromolecule" id="s_id_ce_sa678_ce_sa678"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>REV1 homolog (S. cerevisiae)</p> <p>HUGO:REV1, HGNC:14060, ENTREZ:51455, UNIPROT:Q9UBZ9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:23065650</p> <p>Related to Y-family polymerases. For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For hiperphosphotyration of REV1 in cell cycle and DNA danage-dependent manner. </p> <p>Hyperphosphorylation makes REV1 regulatory molecule for activating TLS pathway</p> <p>PMID:17035102, PMID:19258535</p> </body> </html> </notes> <label text="REV1"/> <bbox w="80.0" h="40.0" x="16911.33" y="15732.07"/> <glyph class="state variable" id="_ab9c6240-0b55-468e-a535-c522bac65052"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16986.33" y="15747.07"/> </glyph> <glyph class="state variable" id="_5b4ea05d-90c5-4e7f-955e-2d7bc66553ba"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16986.328" y="15727.07"/> </glyph> <glyph class="state variable" id="_a5122e03-f500-42b8-be14-45136d888658"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16986.328" y="15767.07"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa676_ce_sa676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="16912.508" y="15778.43"/> <glyph class="state variable" id="_72530bc4-3932-4937-8983-1925ea8aebbc"> <state value="Ub" variable="K164"/> <bbox w="40.0" h="10.0" x="16892.508" y="15793.43"/> </glyph> <glyph class="state variable" id="_113469d1-4f70-4cc4-983f-1c8737b840f6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16907.508" y="15813.43"/> </glyph> <glyph class="state variable" id="_eb882360-a058-4be2-bf02-25250106d982"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16930.94" y="15813.43"/> </glyph> <glyph class="state variable" id="_611a58f9-de05-4f8d-a327-2c083da4ab22"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16947.508" y="15813.43"/> </glyph> <glyph class="state variable" id="_0904cd8c-7fe2-4934-bbb8-9cf263ed9747"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="16901.492" y="15773.43"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa677_ce_sa677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed) kappa</p> <p>HUGO:POLK, HGNC:9183, ENTREZ:51426, UNIPROT:Q96Q87</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS, MODULE:NER</p> <p>References:</p> <p>PMID:18196958, PMID:17652783</p> <p>Related to Y-family polymerases</p> <p>PMID:19258535</p> <p>Bypasses benzo(a)pyrene (B(a)P) adducts on guanine (dG-n2-BPDE adducts)</p> <p>PMID:15189466</p> <p>For NER pathway</p> <p>PMID:20227374</p> </body> </html> </notes> <label text="POLK"/> <bbox w="80.0" h="40.0" x="16910.473" y="15817.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa221_ad_sa221" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22285893</p> <p>CD112</p> <p>PMID:12913096 </p> <p>Identification of PVR (CD155) and Nectin-2 (CD112) as cell surface ligands for the human DNAM-1 (CD226) activating molecule (NK model).</p> <p>PMID:19098271</p> <p>The ligands which are able to trigger CD226-mediated cytotoxicity are two necl and nectin ligands which are CD155 (necl-5) and CD112 (PVRL2, nectin-2), respectively . These ligands have frequently been found to be upregulated on tumour cells. Interestingly, expression of CD155 and CD112 is reportedly regulated through the DNA damage response pathway in response to chemotherapy (NK model).</p> <p>PMID:26755705</p> <p>CD112 is the ligand for CD112R</p> <p>CD112R, Identification of CD112R as a novel checkpoint for human T cells</p> <p>DCs and the majority of human cancer lines express a putative ligand for CD112R</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa221_ad_sa221"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NECTIN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22285893"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12913096"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19098271"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26755705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NECTIN2"/> <bbox w="80.0" h="40.0" x="25526.0" y="2180.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa10_wca1_wca4_csa10" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD3:MIR31</p> <p>References:</p> <p>s_wca4_re24:(MAP:survival) PMID:22833265</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa10_wca1_wca4_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22833265"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD3:MIR31"/> <bbox w="100.0" h="81.0" x="23822.06" y="21365.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa48_wca1_wca4_sa48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 3</p> <p>"frizzled (Drosophila) homolog 3" "frizzled 3 seven transmembrane spanning receptor" "frizzled homolog 3 (Drosophila)"</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>frizzled family receptor 3</p> <p>"frizzled (Drosophila) homolog 3" "frizzled 3 seven transmembrane spanning receptor" "frizzled homolog 3 (Drosophila)"</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3</p> <p>Map modules:</p> </body> </html> </notes> <label text="FZD3"/> <bbox w="90.0" h="25.0" x="23825.06" y="21375.5"/> <glyph class="unit of information" id="_356dd83c-9a3d-4bde-9947-02a4a945b8d1"> <label text="RNA"/> <bbox w="20.0" h="10.0" 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOXO*"/> <bbox w="80.0" h="40.0" x="23811.06" y="10706.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa22_akt1_akt1_csa22" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HERC1:TSC2</p> <p>References:</p> <p>s_akt1_re44:(MAP:survival) PMID:16464865</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa22_akt1_akt1_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16464865"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HERC1:TSC2"/> <bbox w="103.0" h="119.0" x="13110.061" y="18581.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa117_akt1_akt1_sa117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="13121.061" y="18636.0"/> <glyph class="state variable" id="_b3edc3e8-147d-4856-9353-365e57fa8cd7"> <state value="" variable="S1086"/> <bbox w="35.0" h="10.0" x="13183.561" y="18652.467"/> </glyph> <glyph class="state variable" id="_173e57bd-7903-43c2-948f-c2aba9601935"> <state value="" variable="S981"/> <bbox w="30.0" h="10.0" x="13182.643" y="18631.0"/> </glyph> <glyph class="state variable" id="_f5c23674-4c4d-44b2-be94-ee771dcef5fb"> <state value="" variable="T1462"/> <bbox w="35.0" h="10.0" x="13104.053" y="18631.0"/> </glyph> <glyph class="state variable" id="_95d0e22a-70ca-4916-aca6-6c537003f93b"> <state value="" variable="S1132"/> <bbox w="35.0" h="10.0" x="13103.561" y="18669.947"/> </glyph> <glyph class="state variable" id="_86c3fe58-5eb5-4a03-bf75-16d1dcadc91a"> <state value="" variable="S939"/> <bbox w="30.0" h="10.0" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa184_in_csa184"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10679398"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1260"/> <bbox w="188.0" h="173.0" x="14536.25" y="1448.75"/> <glyph class="macromolecule" id="s_id_in_sa1231_in_sa1231"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL18R1"/> <bbox w="80.0" h="50.0" x="14543.75" y="1506.25"/> <glyph class="unit of information" id="_ed1a4a61-6b32-4975-8e1d-14d8587c63d1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14561.25" y="1501.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1232_in_sa1232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL18RAP"/> <bbox w="80.0" h="50.0" x="14633.75" y="1506.25"/> <glyph class="unit of information" id="_fcba9ed5-dd09-47e1-a87a-8fe41f319127"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14651.25" y="1501.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1234_in_sa1234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>CASCADE:IL18, CASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>References:</p> <p>PMID:14660645, PMID:16878026, PMID:23681101</p> <p>The adaptor proteins MyD88 and TIRAP associate with TLR 2 and TLR 4 after receptor engagement.</p> <p>PMID:23811849</p> <p>HMGB1 is a nuclear nonhistone chromatin-binding protein. It is secreted at the late stages of cellular demise and iactivates TLR4/MyD88 pathway in dendritic cells (DCs) to accelerate the processing of phagocytic cargo in the DC and to facilitate antigen presentation by DC to T cells.</p> <p>PMID:17704786</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MYD88"/> <bbox w="80.0" h="40.0" x="14543.75" y="1561.25"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1233_in_sa1233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL18"/> <bbox w="80.0" h="40.0" x="14543.75" y="1461.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1189_ad_sa1189" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:17306570 </p> <p>Diaphanous-1 (DIA1) and Formin-like-1 (FMNL1), did not affect TCR-stimulated F-actin-rich structures, but instead displayed unique patterns of centrosome colocalization and controlled TCR-mediated centrosome polarization. Depletion of FMNL1 or DIA1 in cytotoxic lymphocytes abrogated cell-mediated killing.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1189_ad_sa1189"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DIAPH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17306570"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DIAPH1"/> <bbox w="80.0" h="40.0" x="29726.0" y="8180.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa135_emtc_em_csa135" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MIR34*:MYC</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MIR34/MYC"/> <bbox w="80.0" h="60.0" x="3020.2" y="18178.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa763_emtc_em_sa763"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34b</p> <p>HUGO:MIR34B, HGNC:31636, ENTREZ:407041, GENECARDS:GC11P111383</p> <p>microRNA 34c</p> <p>HUGO:MIR34C, HGNC:31637, ENTREZ:407042, GENECARDS:GC11P111384</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>PMID:21909380</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR34*"/> <bbox w="75.0" h="20.0" x="3024.2" y="18179.0"/> <glyph class="unit of information" id="_5e7e64c3-f7bf-4a60-a05f-15790a7b0d0d"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3046.7" y="18174.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa764_emtc_em_sa764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog </p> <p>HUGO:MYC, HGNC:7553, ENTREZ:4609, GENECARDS:GC08P128748</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MYC"/> <bbox w="60.0" h="20.0" x="3039.2" y="18199.0"/> <glyph class="unit of information" id="_58dbb943-6fb9-4315-9a54-a8d57d028720"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3059.2" y="18194.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa30_in_sa30" compartmentRef="s_id_in_ca16_in_ca16"> <label text="B2M"/> <bbox w="80.0" h="40.0" x="22781.176" y="6658.972"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1133_ad_sa1133" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12670391</p> <p>PI3K in T cells</p> <p>Ligation of the T cell receptor for antigen (TCR) and/or costimulatory receptor CD28 results in rapid activation of phosphoinositide-3 kinase (PI-3 kinase).</p> <p>The primary mechanism for class IA PI-3 kinase activation by tyrosine kinase-coupled receptors is recruitment of the p85/p110 heterodimer to phosphorylated tyrosine kinase receptors via interaction of p85 Src homology 2 (SH2) domain(s) with phosphotyrosine moieties on the receptors</p> <p>PMID:11526404</p> <p>Proteolysis-independent regulation of PI3K by Cbl-b-mediated ubiquitination in T cells.</p> <p>The p85 regulatory subunit of phosphatidylinositol 3 kinase (PI3K) was identified as a substrate for Cbl-b. We have shown that Cbl-b negatively regulated p85 recruitment of p85 to CD28 and T cell antigen receptor through its E3 ubiquitin ligase activity. The enhanced activation of Cbl-b-/- T cells was suppressed by the inhibition of PI3K.</p> <p>PMID:23087689</p> <p> PI3K signaling results in the activation of both mTOR-dependent and independent pathways in T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1133_ad_sa1133"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3R1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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(TAK1)-binding protein 1 (TAB1) and dephosphorylated TAB1 at Ser(438), leading to TAB1-TAK1 complex inactivation in T cells.</p> <p>The enhanced JNK and IκB kinase activation in DUSP14-deficient T cells was attenuated by TAB1 short hairpin RNA knockdown.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1120_ad_sa1120"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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y="3365.0"/> <glyph class="unit of information" id="_c34c646d-148a-4cb5-a679-bf1bd860b984"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24452.5" y="3360.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa371_an_sa371" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11532940</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LRP6:MI34*</p> <p>References:</p> <p>s_wca3_re58:(MAP:survival) PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa23_wca1_wca3_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRP6:MI34*"/> <bbox w="100.0" h="120.0" x="21046.06" y="22405.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa178_wca1_wca3_sa178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL, MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="90.0" h="25.0" x="21053.56" y="22439.5"/> <glyph class="unit of information" id="_0fffe392-eb08-484a-b122-75c3f4c7b46c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21088.56" y="22434.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa183_wca1_wca3_sa183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Its the miR34 family depcited here</p> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MI34*"/> <bbox w="90.0" h="25.0" x="21053.56" y="22467.0"/> <glyph class="unit of information" id="_b2186df3-54d4-460d-b5a4-729136679559"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21083.56" y="22462.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa591_rc_sa591" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa591_rc_sa591"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR106B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR106B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR106B"/> <bbox w="90.0" h="25.0" x="21626.32" y="15642.098"/> <glyph class="unit of information" id="_de726350-7281-4ab1-ab0f-0cf293f7917b"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21656.32" y="15637.098"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa450_rc_csa450" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger, FYVE domain containing 1</p> <p>HUGO:ZFYVE1 HGNC:13180 ENTREZ:53349 UNIPROT:Q9HBF4</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="DCFP1*"/> <bbox w="80.0" h="40.0" x="28780.31" y="11375.083"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa158_in_csa158" compartmentRef="s_id_in_ca13_in_ca13"> <label text="IL13/Receptor-TYPE_2:IL113:JAK1:TYK2:JAK2"/> <bbox w="216.0" h="165.0" x="9212.375" y="4482.5"/> <glyph class="macromolecule" id="s_id_in_sa1049_in_sa1049"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:MDSC, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:IL13</p> <p>References:</p> <p>PMID:12401408</p> <p>IL13 is assosiated with M2 phenotype of macrophages</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:14610620</p> <p>Other receptor of IL13 is IL13RA2</p> <p>PMID:18451175, PMID:14657224</p> <p>IL13 signaling via IL13RA2 induces TGFB production in MDSC.</p> <p>PMID:18250477</p> <p>IL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:21097505</p> <p>IL-13 upregulates expression of SOCS1</p> <p>PMID:9535722</p> <p>IL13 induces phosporylation of IRS2 and PLCG1 which is probably a PLC responsible for downstream IL13 dependent Ca2+ mobilization signaling and assosiation of IRS2 and PLCG1</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13"/> <bbox w="80.0" h="40.0" x="9222.375" y="4487.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1048_in_sa1048"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13RA1"/> <bbox w="80.0" h="50.0" x="9232.375" y="4582.5"/> <glyph class="state variable" id="_cbc64491-0e57-4bc4-b10c-e7e996f28272"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9304.875" y="4616.257"/> </glyph> <glyph class="unit of information" id="_e74e2c12-2d47-471d-999c-64e0f8e08af7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9249.875" y="4577.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1047_in_sa1047"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="9232.375" y="4532.5"/> <glyph class="state variable" id="_01ce6607-cfe9-41ba-b610-ce6bbd80909a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9304.875" y="4566.889"/> </glyph> <glyph class="unit of information" id="_db845919-f15d-453d-84dc-50c04e65bc2f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9249.875" y="4527.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1046_in_sa1046"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TYK2"/> <bbox w="80.0" h="40.0" x="9327.625" y="4542.5"/> <glyph class="state variable" id="_1e1a3f6a-a70e-4b1a-87d4-6437f44ead71"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9320.125" y="4557.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1050_in_sa1050"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="9327.625" y="4502.5"/> <glyph class="state variable" id="_f3f4d277-563b-429d-8e74-c36476c228af"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9322.625" y="4517.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1045_in_sa1045"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="9327.625" y="4582.5"/> <glyph class="state variable" 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modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa120_ca_sa120"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAGLN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAGLN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAGLN2"/> <bbox w="90.0" h="25.0" x="1995.0" y="4297.5"/> <glyph class="unit of information" id="_df090e17-5358-4794-8712-81049e725288"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2030.0" y="4292.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_in_sa1435_in_sa1435" compartmentRef="s_id_in_ca47_in_ca47"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1435_in_sa1435"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437871"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EAT_ME"/> <bbox w="223.0" h="99.0" x="15851.25" y="575.625"/> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa9_shh1_shh3_csa9" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:p101*:p110_beta__gamma_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re10(MAP:survival):</p> <p>PMID:12297047</p> <p>PMID:16847462</p> <p>s_wnc1_re31:(MAP:survival) PMID:21736902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa9_shh1_shh3_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297047"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16847462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21736902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Class_IB_PI3K)"/> <bbox w="100.0" h="120.0" x="26060.06" y="23022.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa49_shh1_shh3_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Phosphoinositide-3-kinase, regulatory subunit 5, p101</p> <p>HUGO:PIK3R5 HGNC:30035 ENTREZ:23533 UNIPROT:Q8WYR1 GENECARDS:PIK3R5 REACTOME:242723 KEGG:23533 ATLASONC:GC_PIK3R5 WIKI:PIK3R5 </p> <p>phosphoinositide-3-kinase, regulatory subunit 5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p101*"/> <bbox w="80.0" h="40.0" x="26067.56" y="23033.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa50_shh1_shh3_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta</p> <p>"phosphoinositide-3-kinase, catalytic, beta polypeptide", PIK3C1</p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma</p> <p>"phosphoinositide-3-kinase, catalytic, gamma polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p110βγ*"/> <bbox w="80.0" h="40.0" x="26067.56" y="23076.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa314_ce_sa314" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa314_ce_sa314"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RB1"/> <bbox w="80.0" h="40.0" x="11949.645" y="9939.375"/> <glyph class="state variable" id="_87955b23-72b4-4a8b-875f-597512c42505"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12024.645" y="9954.375"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ce_sa1278_ce_sa1278" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_s2883"/> <bbox w="30.0" h="30.0" x="12650.0" y="11825.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa11_wnc1_wnc3_csa11" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HDAC*:NFAT1*</p> <p>References:</p> <p>s_wnc3_re26:(MAP:survival) PMID:12453415</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa11_wnc1_wnc3_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12453415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC*:NFAT1*"/> <bbox w="99.0" h="133.0" x="16490.06" y="20965.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa79_wnc1_wnc3_sa79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1 </p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>histone deacetylase 2</p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2 </p> <p>histone deacetylase 3</p> <p>HUGO:HDAC3 HGNC:4854 ENTREZ:8841 UNIPROT:O15379 GENECARDS:HDAC3 REACTOME:401336 KEGG:8841 ATLASONC:HDAC3ID40804ch5q31 WIKI:HDAC3 </p> <p>histone deacetylase 4</p> <p>HUGO:HDAC4 HGNC:14063 ENTREZ:9759 UNIPROT:P56524 GENECARDS:HDAC4 REACTOME:56414 KEGG:9759 ATLASONC:GC_HDAC4 WIKI:HDAC4 </p> <p>histone deacetylase 5</p> <p>HUGO:HDAC5 HGNC:14068 ENTREZ:10014 UNIPROT:Q9UQL6 GENECARDS:HDAC5 REACTOME:415622 KEGG:10014 ATLASONC:GC_HDAC5 WIKI:HDAC5 </p> <p>histone deacetylase 6</p> <p>HUGO:HDAC6 HGNC:14064 ENTREZ:10013 UNIPROT:Q9UBN7 GENECARDS:HDAC6 REACTOME:56418 KEGG:10013 ATLASONC:GC_HDAC6 WIKI:HDAC6 </p> <p>histone deacetylase 7</p> <p>HUGO:HDAC7 HGNC:14067 ENTREZ:51564 UNIPROT:Q8WUI4 GENECARDS:HDAC7 REACTOME:412089 KEGG:9734 ATLASONC:GC_HDAC7 WIKI:HDAC7 </p> <p>histone deacetylase 8</p> <p>HUGO:HDAC8 HGNC:13315 ENTREZ:55869 UNIPROT:Q9BY41 GENECARDS:HDAC8 REACTOME:148335 KEGG:55869 ATLASONC:GC_HDAC8 WIKI:HDAC8 </p> <p>histone deacetylase 10</p> <p>HUGO:HDAC10 HGNC:18128 ENTREZ:83933 UNIPROT:Q969S8 GENECARDS:HDAC10 REACTOME:412605 KEGG:83933 ATLASONC:GC_HDAC10 WIKI:HDAC10 </p> <p>histone deacetylase 11</p> <p>HUGO:HDAC11 HGNC:19086 ENTREZ:79885 UNIPROT:Q96DB2 GENECARDS:HDAC11 REACTOME:56406 KEGG:79885 ATLASONC:GC_HDAC11 WIKI:HDAC11</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC*"/> <bbox w="80.0" h="40.0" x="16499.31" y="20977.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa80_wnc1_wnc3_sa80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family; 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT1*"/> <bbox w="80.0" h="40.0" x="16500.06" y="21024.0"/> <glyph class="state variable" id="_65d23930-2adb-4222-8caf-2de96c59be9f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16575.06" y="21047.285"/> </glyph> <glyph class="state variable" id="_87f899b4-24b1-4448-8d7b-bff3fe9a40d4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16575.06" y="21059.0"/> </glyph> <glyph class="state variable" id="_c7dc72a4-f25e-47ed-8c4a-0831f28dcb06"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16575.06" y="21039.0"/> </glyph> <glyph class="state variable" id="_ee6e68de-8eee-4260-88c0-2f0645f76dff"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16535.06" y="21019.0"/> </glyph> <glyph class="state variable" id="_57b74ac1-c0ea-41b1-bea0-6a987f9b095d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16551.629" y="21019.0"/> </glyph> <glyph class="state variable" id="_43bbd923-0743-4be3-aa00-f19c52808b55"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16551.629" y="21059.0"/> </glyph> <glyph class="state variable" id="_e8591ecb-33ce-47d5-96ef-b4db8f4c86bf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16575.06" y="21019.0"/> </glyph> <glyph class="state variable" id="_0538c1d4-ca1e-4af6-86ca-f46623cbda06"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16575.06" y="21030.715"/> </glyph> <glyph class="state variable" id="_3890e139-4bc2-4cee-9d0f-477a1df5f095"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16518.492" y="21019.0"/> </glyph> <glyph class="state variable" id="_09e2e899-2c31-40ce-871c-ef8d66bddc10"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16495.064" y="21019.0"/> </glyph> <glyph class="state variable" id="_39ff7038-08db-4478-96d8-1d16c68a5023"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16495.06" y="21039.0"/> </glyph> <glyph class="state variable" id="_2c4b7a6e-5946-4290-9d6c-8fbf287fb427"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16495.06" y="21030.717"/> </glyph> <glyph class="state variable" id="_d445f647-0308-4132-9c33-a92af39dd94a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16535.06" y="21059.0"/> </glyph> <glyph class="state variable" id="_b0d61ec8-7f04-4cb8-944d-755d322c07e8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16518.492" y="21059.0"/> </glyph> <glyph class="state variable" id="_75538ef1-1c4f-4a37-bf12-35b7bee77425"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16495.064" y="21059.0"/> </glyph> <glyph class="state variable" id="_58003f8f-4e64-4466-880e-877f67e4f26a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16495.06" y="21047.283"/> </glyph> <glyph class="unit of information" id="_97762e19-86c7-444f-b2d9-7efbb39730c8"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="16515.06" y="21019.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa426_rc_csa426" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NTN1:UNC5A</p> <p>References:</p> <p>19543238</p> <p>Netrin-1 triggers the multimerization of UNC5H2 receptors, and that multimerization of the intracellular domain of UNC5H2 is the critical step to inhibit proapoptotic effects</p> </body> </html> </notes> <label text="multimerize UNC5H1:NTN1"/> <bbox w="110.0" h="125.0" x="19997.111" y="9088.431"/> <glyph class="macromolecule" id="s_id_rc_sa4164_rc_sa4166"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>unc-5 homolog A (C. elegans)</p> <p>HUGO:UNC5A HGNC:12567 ENTREZ:90249 UNIPROT:Q6ZN44</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:18582460</p> <p>PMID:20173780</p> <p>PMID:16829956</p> <p>UNC5A promotes neuronal apoptosis</p> </body> </html> </notes> <label text="UNC5A"/> <bbox w="80.0" h="50.0" x="20017.111" y="9148.431"/> <glyph class="unit of information" id="_56c1de32-29b1-4b3d-b115-db553cbc62bb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20034.611" y="9143.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4163_rc_sa4165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>netrin 1</p> <p>HUGO:NTN1 HGNC:8029 ENTREZ:9423 UNIPROT:O95631</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:19543238</p> <p>PMID:22920895</p> <p>Netrin-1 was recently proposed to control tumorigenesis by inhibiting apoptosis induced by the dependence receptors DCC (Deleted in colorectal cancer) and UNC5H</p> </body> </html> </notes> <label text="NTN1"/> <bbox w="80.0" h="40.0" x="20017.111" y="9103.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4164_rc_sa4164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>unc-5 homolog A (C. elegans)</p> <p>HUGO:UNC5A HGNC:12567 ENTREZ:90249 UNIPROT:Q6ZN44</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:18582460</p> <p>PMID:20173780</p> <p>PMID:16829956</p> <p>UNC5A promotes neuronal apoptosis</p> </body> </html> </notes> <label text="UNC5A"/> <bbox w="80.0" h="50.0" x="20007.111" y="9138.431"/> <glyph class="unit of information" id="_f477e93c-e896-4d89-aef3-145553cc2f7f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20024.611" y="9133.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4163_rc_sa4163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>netrin 1</p> <p>HUGO:NTN1 HGNC:8029 ENTREZ:9423 UNIPROT:O95631</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:19543238</p> <p>PMID:22920895</p> <p>Netrin-1 was recently proposed to control tumorigenesis by inhibiting apoptosis induced by the dependence receptors DCC (Deleted in colorectal cancer) and UNC5H</p> </body> </html> </notes> <label text="NTN1"/> <bbox w="80.0" h="40.0" x="20007.111" y="9093.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa900_in_sa900" compartmentRef="s_id_in_ca13_in_ca13"> <label text="TGFBR1"/> <bbox w="80.0" h="50.0" x="9750.0" y="1365.0"/> <glyph class="unit of information" id="_c5b274c9-b960-44c6-a4cf-af67c3991d7e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9767.5" y="1360.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa18_shh1_shh2_csa18" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI3-83_sub_TRUNC_endsub_*:_beta_-Catenin*</p> </body> </html> </notes> <label text="GLI3-83 _beta-catenin"/> <bbox w="100.0" h="120.0" x="26768.06" y="21887.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa176_shh1_shh2_sa176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 3</p> <p>HUGO:GLI3 HGNC:4319 ENTREZ:2737 UNIPROT:P10071 GENECARDS:GLI3 KEGG:2737 ATLASONC:GC_GLI3 WIKI:GLI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI3-83TRUNC*"/> <bbox w="80.0" h="40.0" x="26778.56" y="21943.0"/> <glyph class="unit of information" id="_743d5b81-5506-4af8-b709-f80f754e5f76"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="26793.56" y="21938.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa175_shh1_shh2_sa175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="26778.56" y="21900.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2424_emtc_em_sa2424" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2424_emtc_em_sa2424"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFB"/> <bbox w="57.0" h="19.0" x="3022.0" y="19073.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2631_rc_sa2631" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2631_rc_sa2631"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GCLM"/> <bbox w="90.0" h="25.0" x="25214.56" y="16073.5"/> <glyph class="unit of information" id="_352d03d0-0ab8-4208-a525-177221492e53"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25249.56" y="16068.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4850_rc_sa4850" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4850_rc_sa4850"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XIAP"/> <clone/> <bbox w="90.0" h="25.0" x="27346.326" y="16042.5"/> <glyph class="unit of information" id="_e08fd408-8892-40b3-af32-dc4de82ff58b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27381.326" y="16037.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4850_rc_sa966" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4850_rc_sa966"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XIAP"/> <clone/> <bbox w="90.0" h="25.0" x="24282.56" y="16056.5"/> <glyph class="unit of information" id="_5ff38d39-4a31-46ab-a35b-1bba2fbdc466"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24317.56" y="16051.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1216_ad_sa1216" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:PD1, CASCADE:TCRMODULE:INHIBITING_CHECKPOINTSPMID:23732914 Because our studies showed that T cells displayed a low steady-state level of CK2 protein, which was upregulated by stimulation via TCR/CD3 and CD28, we examined whether CK2 expression was regulated at the level of mRNA. Real-time quantitative PCR showed that CK2 mRNA was increased after T cell activation.However, at all time intervals of culture, CK2 mRNA levels were significantly lower in T cells receiving PD-1 signals than in T cells stimulated by TCR/CD3 and CD28 without PD-1 ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:PD1, CASCADE:TCRMODULE:INHIBITING_CHECKPOINTSPMID:23732914 Because our studies showed that T cells displayed a low steady-state level of CK2 protein, which was upregulated by stimulation via TCR/CD3 and CD28, we examined whether CK2 expression was regulated at the level of mRNA. Real-time quantitative PCR showed that CK2 mRNA was increased after T cell activation.However, at all time intervals of culture, CK2 mRNA levels were significantly lower in T cells receiving PD-1 signals than in T cells stimulated by TCR/CD3 and CD28 without PD-1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1216_ad_sa1216"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23732914"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23732914"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK2"/> <bbox w="70.0" h="25.0" x="27111.0" y="3297.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa36_shh1_shh2_csa36" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR20A:STAT3</p> <p>References:</p> <p>s_shh2_re153:(MAP:survival) PMID:21383238</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa36_shh1_shh2_csa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21383238"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-20a_STAT3"/> <bbox w="100.0" h="120.0" x="27451.06" y="22083.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa267_shh1_shh2_sa267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>signal transducer and activator of transcription 3</p> <p>HUGO:STAT3 HGNC:11364 ENTREZ:6774 UNIPROT:P40763 GENECARDS:STAT3 REACTOME:403956 KEGG:6774 ATLASONC:STAT3ID444 WIKI:STAT3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19424782</p> <p>signal transducer and activator of transcription 3</p> <p>HUGO:STAT3 HGNC:11364 ENTREZ:6774 UNIPROT:P40763 GENECARDS:STAT3 REACTOME:403956 KEGG:6774 ATLASONC:STAT3ID444 WIKI:STAT3</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="STAT3"/> <bbox w="90.0" h="25.0" x="27458.06" y="22124.0"/> <glyph class="unit of information" id="_a94110fc-a481-4dac-a824-cbd4ed1cf989"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27493.06" y="22119.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa266_shh1_shh2_sa266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 20a</p> <p>HUGO:MIR20A HGNC:31577 ENTREZ:406982 GENECARDS:MIR20A KEGG:406982 ATLASONC:GC_MIR20A WIKI:MIR20A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 20a</p> <p>HUGO:MIR20A HGNC:31577 ENTREZ:406982 GENECARDS:MIR20A KEGG:406982 ATLASONC:GC_MIR20A WIKI:MIR20A</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR20A"/> <bbox w="90.0" h="25.0" x="27458.06" y="22097.0"/> <glyph class="unit of information" id="_ede78ee2-81e5-4ca0-a6f0-32c1e5ae5c04"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27488.06" y="22092.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa743_rc_sa743" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa743_rc_sa743"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BECN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BECN1"/> <bbox w="80.0" h="40.0" x="27721.56" y="11421.5"/> <glyph class="state variable" id="_7c2e395f-6e9d-4b8a-9d6a-7f2c85c46bb5"> <state value="?" variable="T119"/> <bbox w="35.0" h="10.0" x="27761.01" y="11416.5"/> </glyph> <glyph class="state variable" id="_0f3ee79a-384e-43b5-8844-f43565ee804c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27716.564" y="11416.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1145_rc_sa1145" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15741</p> </body> </html> </notes> <label text="succinate"/> <bbox w="70.0" h="25.0" x="18034.06" y="13246.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa208_rc_csa208" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BBC3:BCL2-XL*</p> </body> </html> </notes> <label text="BBC3:BCL2L1"/> <bbox w="100.0" h="118.0" x="22199.31" y="13271.0"/> <glyph class="macromolecule" id="s_id_rc_sa1660_rc_sa1660"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="22209.06" y="13279.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1661_rc_sa1661"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3</p> <p>HUGO:BBC3 HGNC:17868 ENTREZ:27113 UNIPROT:Q96PG8</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>synonym:PUMA</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="80.0" h="40.0" x="22209.06" y="13329.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa34_shh1_shh2_sa34" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa34_shh1_shh2_sa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SFRP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SFRP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SFRP1"/> <bbox w="90.0" h="25.0" x="26603.06" y="20545.5"/> <glyph class="unit of information" id="_13c010ff-5c04-4534-8c06-7ef8e45afa47"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26638.06" y="20540.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3386_rc_sa3386" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3386_rc_sa3386"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACLY"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACLY"/> <bbox w="86.0" h="46.0" x="18295.303" y="11754.125"/> <glyph class="unit of information" id="_aebe1b41-157c-4c77-99dd-6cb4a71a56d7"> <label text="N:4"/> <bbox w="20.0" h="10.0" x="18328.303" y="11749.125"/> </glyph> <glyph class="state variable" id="_d2a77ced-9b98-45a5-a191-8eccf34046c6"> <state value="*" variable="S454"/> <bbox w="35.0" h="10.0" x="18339.023" y="11749.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4979_rc_sa4979" compartmentRef="s_id_rc_ca38_rc_ca38"> <label text="Ryanodine receptor*"/> <bbox w="80.0" h="40.0" x="26715.154" y="12999.0"/> <glyph class="unit of information" id="_a78a3b6f-d1e3-4a94-938c-bc705c6a8939"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26732.654" y="12994.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2086_em_sa2086" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:p16INK4a activates the pRB tumor suppressor, which silences certain proproliferative genes by heterochromatinization, thereby instituting a stringent arrest of cell proliferationConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:p16INK4a activates the pRB tumor suppressor, which silences certain proproliferative genes by heterochromatinization, thereby instituting a stringent arrest of cell proliferationConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="RB1"/> <bbox w="45.0" h="22.0" x="3148.5" y="14477.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3968_rc_sa3968" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3968_rc_sa3968"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved BAX*"/> <bbox w="80.0" h="40.0" x="23359.06" y="11629.0"/> <glyph class="unit of information" id="_51b17c90-1604-4531-9622-c4a125febae4"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23374.06" y="11624.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa465_in_sa465" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CBL"/> <bbox w="80.0" h="40.0" x="15390.0" y="2955.0"/> <glyph class="state variable" id="_a09078a3-3919-48ed-a7ee-42dd79e6d1d8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15385.0" y="2970.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa1_shh1_shh2_csa1" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:Spop</p> <p>References:</p> <p>s_shh2_re1:(MAP:survival) PMID:20360384 PMID:16740475</p> <p>s_shh2_re115:(MAP:survival) PMID:20463034</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa1_shh1_shh2_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20360384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16740475"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20463034"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SPOP_CUL3_E3_ligase"/> <bbox w="100.0" h="120.0" x="27496.56" y="20783.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa4_shh1_shh2_sa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Speckle-type POZ protein</p> <p>HUGO:SPOP HGNC:11254 ENTREZ:8405 UNIPROT:O43791 GENECARDS:SPOP KEGG:8405 ATLASONC:GC_SPOP WIKI:SPOP</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="SPOP"/> <bbox w="80.0" h="40.0" x="27506.06" y="20794.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa5_shh1_shh2_sa5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618 GENECARDS:CUL3 REACTOME:53166 KEGG:8452 ATLASONC:GC_CUL3 WIKI:CUL3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17312394</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="27506.06" y="20837.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5319_rc_sa5319" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29167</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>PMID:26184909</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5319_rc_sa5319"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26184909"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="tRNACys"/> <bbox w="70.0" h="25.0" x="26554.06" y="10156.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2724_rc_sa2724" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2724_rc_sa2724"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ATP8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ATP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ATP8"/> <bbox w="90.0" h="25.0" x="20712.06" y="15076.5"/> <glyph class="unit of information" id="_58838101-ede0-481c-bc5f-8854740f55ea"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20747.06" y="15071.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa470_ad_sa470" compartmentRef="s_id_ad_ca15_ad_ca15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>CELL:TCD8</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. The orphan granzymes include H, K and M in the human</p> <p>PMID:8432729 </p> <p>Granzymes A and B are targeted to the lytic granules of lymphocytes by the mannose-6-phosphate receptor.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa470_ad_sa470"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14499263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8432729"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMB"/> <bbox w="80.0" h="40.0" x="28806.0" y="8137.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa258_wca1_wca3_sa258" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa258_wca1_wca3_sa258"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP2R5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="B56α*"/> <bbox w="80.0" h="40.0" x="21084.06" y="21239.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa266_ce_csa266" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRIT1*:E2F1</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>BRIT1*/E2F1 complex activates BRCA1 and CHEK1 transcription during S-phase and G2/M checkpoints</p> <p>PMID:15220350, PMID:18660752</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa266_ce_csa266"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15220350"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18660752"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E2F1/BRIT1*"/> <bbox w="100.0" h="120.0" x="13743.473" y="11126.356"/> <glyph class="macromolecule" id="s_id_ce_sa1423_ce_sa1423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCT-repeat inhibitor of TERT expression 1 (BRIT1), Microcephalin(MCPH1)</p> <p>HUGO:MCPH1, HGNC:6954, ENTREZ:79648, UNIPROT:Q8NEM0</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR</p> <p>References:</p> <p>PMID:20376879, PMID:15220350, PMID:19525936, PMID:18660752</p> </body> </html> </notes> <label text="BRIT1*"/> <bbox w="80.0" h="40.0" x="13751.473" y="11181.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1420_ce_sa1420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E2F transcription factor 1</p> <p>HUGO:E2F1, HGNC:3113, ENTREZ:1869, UNIPROT:Q01094</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E2F1"/> <bbox w="80.0" h="40.0" x="13752.473" y="11135.356"/> <glyph class="state variable" id="_8c1299cf-1f09-4765-af74-fdd00c44d06b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13827.473" y="11150.356"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4201_rc_sa4201" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4201_rc_sa4201"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NGF"/> <clone/> <bbox w="80.0" h="40.0" x="21159.06" y="9099.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4201_rc_sa4221" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4201_rc_sa4221"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NGF"/> <clone/> <bbox w="80.0" h="40.0" x="21269.06" y="9099.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa366_in_sa366" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="UDLP3"/> <bbox w="90.0" h="25.0" x="20815.0" y="567.5"/> <glyph class="unit of information" id="_6c0e740d-7cae-4e54-8857-e27badbe881d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20850.0" y="562.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5243_rc_sa5243" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>(3Z)-6-oxo-3-[[4-(pyridin-2-ylsulfamoyl)phenyl]hydrazinylidene]cyclohexa-1,4-diene-1-carboxylic acidPUBCHEM:5359476</p> <p>Sulfasalazine</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5243_rc_sa5243"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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x="3740.5" y="17899.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa744_emtc_em_sa744"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 31</p> <p>HUGO:MIR31, HGNC:31630, ENTREZ:407035, GENECARDS:GC09M021507</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR31"/> <bbox w="75.0" h="20.0" x="3744.5" y="17900.0"/> <glyph class="unit of information" id="_6132b925-14e0-40e9-a188-8f891e802444"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3767.0" y="17895.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa743_emtc_em_sa743"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>T-cell lymphoma invasion and metastasis 1</p> <p>HUGO:TIAM1, HGNC:11805, ENTREZ:7074, 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<rdf:Description rdf:about="#s_id_rc_sa535_rc_sa535"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SESN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SESN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SESN2"/> <bbox w="70.0" h="25.0" x="20932.941" y="16294.367"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa908_ad_sa908" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:22323537 </p> <p>The “Death” Adaptor CRADD/RAIDD Targets BCL10 and Suppresses Agonist-Induced Cytokine Expression in T Lymphocytes</p> <p>Cradd-deficient spleen cells, CD4(+) T cells, and mice respond to T cell agonists with strikingly higher production of proinflammatory 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x="10440.0" y="326.25"/> <glyph class="unit of information" id="_73a43dcc-613d-4f8d-8289-b47a75140948"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10457.5" y="321.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa554_mpk1_mpk1_sa554" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa554_mpk1_mpk1_sa554"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9428.001" y="20180.191"/> <glyph class="state variable" id="_7bdcb475-d8e0-4f86-8c80-3fbb9682761a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9420.501" y="20191.857"/> </glyph> <glyph class="state variable" id="_055db0db-41d1-4412-bcc4-a32266e21838"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9420.501" y="20183.316"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa312_akt1_akt1_sa312" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa312_akt1_akt1_sa312"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="13207.061" y="18504.402"/> <glyph class="state variable" id="_3345dbd5-963e-4b84-9380-43167ccd1cce"> <state value="" variable="T286"/> <bbox w="30.0" h="10.0" x="13272.061" y="18499.615"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa857_ca_sa857" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa857_ca_sa857"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK1/2*"/> <bbox w="80.0" h="40.0" x="4980.0" y="2980.0"/> <glyph class="state variable" id="_f87f44f5-5179-4c8f-9f53-0e008dc6cada"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4975.0" y="2995.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2509_in_sa2509" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRF4"/> <bbox w="80.0" h="40.0" x="11090.0" y="4820.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3944_rc_sa3944" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3944_rc_sa3944"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XAF1"/> <bbox w="80.0" h="40.0" x="24729.06" y="11929.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa45_emtc_em_csa45" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD2_3*:SMAD4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11792802</p> <p>-Unphosphorylated Smad proteins exist primarily as monomers</p> <p>-Upon phosphorylation, R-Smads form homo-oligomers, which quickly convert to hetero-oligomers containing Smad4</p> <p>PMID:11170475</p> <p>Phosphorylated C-ter tail of R-Smads interacts specifically with the L3 loop of another Smad, which is sufficient to cause their oligomerization</p> <p>PMID:9865696</p> <p>Phosphorylation of Smad2 induces dissociation from SARA </p> <p>with concomitant formation of Smad2/ Smad4 complexes </p> <p>and nuclear translocation.</p> <p>PMID:8893010</p> <p>All mammalian R-Smads and Smad4 reside in the cytoplasm</p> <p>Phosphorylated R-Smads quickly form complexes with Smad4 and possibly prior to nuclear translocation</p> <p>PMID:9389648</p> <p>Nuclear translocation of R-Smads is independent of Smad4</p> <p>Whereas translocation of Smad4 after TGFB siglaing seems to require the presence of an activated R-SmadPMID:20731704</p> <p>PMID:21317430</p> <p>In NMuMG cells treated with TGFB1 Snail1 RNA and protein are induced 1 h after addition of the cytokine preceding Zeb1 up-regulation that requires 6–8 h. </p> <p>Zeb1 gene expression is caused by increased RNA levels but also by enhanced protein stability and is markedly dependent on Snail1 because depletion of this protein prevents Zeb1 protein and RNA up-regulation</p> <p>PMID:22406545</p> <p>TGFB can activate both SNAI1 and SNAI2 and thus promote EMT via both SMAD-dependent and -independent pathways</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa45_emtc_em_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11170475"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9865696"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8893010"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9389648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="R-Smadurn:miriam:pubmed:20731704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21317430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22406545"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2_3*/SMAD4"/> <bbox w="148.0" h="46.0" x="3931.5" y="16254.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1998_emtc_em_sa1998"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2_3*"/> <bbox w="67.0" h="19.0" x="3936.0" y="16259.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa414_emtc_em_sa414"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="4012.5" y="16259.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa12_akt1_akt2_csa12" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*</p> <p>References:</p> <p>s_akt2_re38(MAP:survival):</p> <p>PMID:18636226</p> <p>PMID:15147722</p> <p>PMID:14536078</p> <p>PMID:12459251</p> <p>s_akt2_re39:(MAP:survival) PMID:15147722 PMID:18006823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa12_akt1_akt2_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12459251"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18006823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK2:CyclinE*"/> <bbox w="100.0" h="120.0" x="13198.061" y="20686.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa87_akt1_akt2_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1 HGNC:1589 ENTREZ:898 UNIPROT:P24864 GENECARDS:CCNE1 REACTOME:87225 KEGG:898 ATLASONC:GC_CCNE1 WIKI:CCNE1 </p> <p>cyclin E2</p> <p>HUGO:CCNE2 HGNC:1590 ENTREZ:9134 UNIPROT:O96020 GENECARDS:CCNE2 REACTOME:87228 KEGG:9134 ATLASONC:GC_CCNE2 WIKI:CCNE2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="13206.561" y="20692.0"/> <glyph class="state variable" id="_f8f1e3d1-bd7b-4b70-a3e2-2ef26ed120b7"> <state value="" variable="T380"/> <bbox w="30.0" h="10.0" x="13191.564" y="20687.0"/> </glyph> <glyph class="state variable" id="_b00659a9-6865-4959-9f50-20157f1e80c0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13201.564" y="20727.0"/> </glyph> <glyph class="state variable" id="_4ce2ce1c-ef9d-4743-96e5-46e64a0b2b7c"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="13271.561" y="20687.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa88_akt1_akt2_sa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2 HGNC:1771 ENTREZ:1017 UNIPROT:P24941 GENECARDS:CDK2 REACTOME:87018 KEGG:1017 ATLASONC:GC_CDK2 WIKI:CDK2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:dnarepair / MODULE:S_CC_PHASE, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="13208.561" y="20734.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa752_rc_sa752" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa752_rc_sa752"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOD1"/> <bbox w="80.0" h="40.0" x="25879.06" y="15429.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa49_akt1_akt1_csa49" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DEK:REF*:RNPS1:SKAR*:SRM160*:Y14*:p70_alpha_*</p> <p>References:</p> <p>s_akt1_re79(MAP:survival):</p> <p>PMID:18423201</p> <p>PMID:19339977</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa49_akt1_akt1_csa49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18423201"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DEK:REF*:RNPS1:SKAR*:SRM160*:Y14*:p70α*"/> <bbox w="202.0" h="194.0" x="12305.061" y="19670.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa470_akt1_akt1_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RNA binding motif protein 8A</p> <p>HUGO:RBM8A HGNC:9905 ENTREZ:9939 UNIPROT:Q9Y5S9 GENECARDS:RBM8A REACTOME:72303 KEGG:9939 ATLASONC:GC_RBM8A WIKI:RBM8A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="Y14*"/> <bbox w="80.0" h="40.0" x="12402.561" y="19754.598"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa469_akt1_akt1_sa469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Aly/REF export factor</p> <p>HUGO:ALYREF HGNC:19071 ENTREZ:10189 UNIPROT:Q86V81 GENECARDS:ALYREF REACTOME:103403 KEGG:10189 ATLASONC:GC_ALYREF WIKI:ALYREF</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="REF*"/> <bbox w="80.0" h="40.0" x="12402.561" y="19714.193"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa276_akt1_akt1_sa276"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ribosomal protein S6 kinase 70kDa polypeptide 1</p> <p>"ribosomal protein S6 kinase 70kD polypeptide 1" STK14A</p> <p>HUGO:RPS6KB1 HGNC:10436 ENTREZ:6198 UNIPROT:P23443 GENECARDS:RPS6KB1 REACTOME:57803 KEGG:6198 ATLASONC:GC_RPS6KB1 WIKI:RPS6KB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> <p>PMID:20647036</p> </body> </html> </notes> <label text="p70α*"/> <bbox w="80.0" h="40.0" x="12317.061" y="19673.0"/> <glyph class="state variable" id="_6d1552a1-f40f-460c-90ea-bef56838843e"> <state value="P" variable="T389"/> <bbox w="35.0" h="10.0" x="12379.561" y="19705.656"/> </glyph> <glyph class="state variable" id="_c2b03132-b0c8-4ad6-be0c-44f1c4270f4d"> <state value="P" variable="T229"/> <bbox w="35.0" h="10.0" x="12299.561" y="19670.404"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa274_akt1_akt1_sa274"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DEK oncogene</p> <p>HUGO:DEK HGNC:2768 ENTREZ:7913 UNIPROT:P35659 GENECARDS:DEK KEGG:7913 ATLASONC:DEK_23 WIKI:DEK</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="DEK"/> <bbox w="80.0" h="40.0" x="12319.061" y="19797.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa275_akt1_akt1_sa275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PolymeRASe (DNA-directed) delta interacting protein 3</p> <p>HUGO:POLDIP3 HGNC:23782 ENTREZ:84271 UNIPROT:Q9BY77 GENECARDS:POLDIP3 KEGG:84271 WIKI:POLDIP3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="SKAR*"/> <bbox w="80.0" h="40.0" x="12319.061" y="19714.193"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa468_akt1_akt1_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RNA binding protein S1 serine-rich domain</p> <p>HUGO:RNPS1 HGNC:10080 ENTREZ:10921 UNIPROT:Q15287 GENECARDS:RNPS1 REACTOME:156734 KEGG:10921 WIKI:RNPS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RNPS1"/> <bbox w="80.0" h="40.0" x="12402.561" y="19673.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa273_akt1_akt1_sa273"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>serine/arginine repetitive matrix 1</p> <p>HUGO:SRRM1 HGNC:16638 ENTREZ:10250 UNIPROT:Q8IYB3 GENECARDS:SRRM1 REACTOME:249492 KEGG:10250 WIKI:SRRM1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11532962</p> </body> </html> </notes> <label text="SRM160*"/> <bbox w="80.0" h="40.0" x="12319.061" y="19754.598"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa16_an_csa16" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19449109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa16_an_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s142"/> <bbox w="200.0" h="115.0" x="7122.0" y="6447.5"/> <glyph class="macromolecule" id="s_id_an_sa366_an_sa366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PIK3R2"/> <bbox w="80.0" h="40.0" x="7142.0" y="6455.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa119_an_sa119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4567</p> </body> </html> </notes> <label text="GRB7"/> <bbox w="80.0" h="40.0" x="7232.0" y="6455.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa118_an_sa118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:p110D</p> </body> </html> </notes> <label text="PIK3CD"/> <bbox w="80.0" h="40.0" x="7232.0" y="6497.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa332_an_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PIK3R1 HGNC:8979</p> <p>synonyms:phosphoinositide-3-kinase, regulatory subunit 1 (alpha),GRB1, p85, p85-ALPHA</p> <p>PMID:19449109</p> </body> </html> </notes> <label text="PIK3R1"/> <bbox w="80.0" h="40.0" x="7142.0" y="6497.5"/> <glyph class="state variable" id="_36c8e416-7e71-4e01-ad0e-09f216ce3d65"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7191.0684" y="6532.5"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_in_sa2501_in_sa2501" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s543"/> <bbox w="30.0" h="30.0" x="11275.0" y="4925.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2192_rc_sa2192" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:5809 KEGGCOMPOUND:C01024 CAS:73023-76-4</p> <p>References:</p> <p>synonym:preuroporphyrinogen</p> </body> </html> </notes> <label text="hydroxymethylbilane"/> <bbox w="136.0" h="28.0" x="17771.06" y="12955.25"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa547_in_sa547" compartmentRef="s_id_in_ca13_in_ca13"> <label text="DNAM1*"/> <bbox w="80.0" h="50.0" x="17272.5" y="1305.0"/> <glyph class="state variable" id="_163c2d20-ee3b-4e70-a1d4-a0237f27da8d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17265.0" y="1333.554"/> </glyph> <glyph class="state variable" id="_49a6a997-ace5-448c-ba9b-db2171f2edbf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17267.5" y="1307.2045"/> </glyph> <glyph class="unit of information" id="_3cb7e8e8-2d6f-4ac8-9671-cbbbfacd0107"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17290.0" y="1300.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2315_emtc_em_sa2315" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1-Phosphatidyl-D-myo-inositol 4,5-bisphosphate</p> <p>CAS:N/A PUBCHEM:7726, CHEBI:18348, KEGGCOMPOUND:C04637</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="PI(4,5)P2"/> <bbox w="70.0" h="25.0" x="5396.0" y="13589.0"/> </glyph> <glyph class="macromolecule" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2453_emtc_em_sa2453"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR3"/> <bbox w="86.0" h="56.0" x="3862.0" y="18491.5"/> <glyph class="unit of information" id="_f13dbcca-e5ae-47ff-96e1-e9d5f06e4237"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3895.0" y="18486.5"/> </glyph> <glyph class="unit of information" id="_16856777-7db6-4393-81c9-b9f943102a98"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3882.5" y="18486.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa206_emtc_em_csa206" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA8</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA8 is so-called Connexin 50</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="GJA8/GJA8"/> <bbox w="120.0" h="38.0" x="1041.0" y="17973.75"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1311_emtc_em_sa1311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 8, 50kDa</p> <p>HUGO:GJA8, HGNC:4281, ENTREZ:2703, UNIPROT:P48165, GENECARDS:GC01P147374  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA8 is so-called Connexin 50</p> <p>PMID:19646399</p> <p>Connexins 46 and 50 combine to form the gap junctions in ocular lens fiber cells</p> <p>18 phosphorylation sites on connexin 50 (GJA8) and 9 phosphorylation sites on connexin 46 (GJA3) were identified, all on serine or threonine residues.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA8"/> <bbox w="35.0" h="16.0" x="1060.3" y="17974.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1311_emtc_em_sa1312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 8, 50kDa</p> <p>HUGO:GJA8, HGNC:4281, ENTREZ:2703, UNIPROT:P48165, GENECARDS:GC01P147374  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA8 is so-called Connexin 50</p> <p>PMID:19646399</p> <p>Connexins 46 and 50 combine to form the gap junctions in ocular lens fiber cells</p> <p>18 phosphorylation sites on connexin 50 (GJA8) and 9 phosphorylation sites on connexin 46 (GJA3) were identified, all on serine or threonine residues.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA8"/> <bbox w="36.0" h="16.0" x="1104.1" y="17974.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1154_emtc_em_sa1154" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1154_emtc_em_sa1154"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN16"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin16*"/> <bbox w="71.0" h="16.0" x="1131.0" y="15756.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2525_in_sa2525" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SUMO*"/> <bbox w="80.0" h="40.0" x="11082.25" y="3850.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa486_rc_sa486" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa486_rc_sa486"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase6*"/> <bbox w="80.0" h="40.0" x="24929.06" y="13149.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2516_in_sa2516" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MIR125B1"/> <bbox w="90.0" h="25.0" x="20270.0" y="4531.25"/> <glyph class="unit of information" id="_560bd37e-8a63-4be7-a997-daac32ea1762"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20300.0" y="4526.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa233_ce_sa233" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa233_ce_sa233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLI"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POLI"/> <bbox w="80.0" h="40.0" x="14427.286" y="14163.073"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa343_te_sa343" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ets variant 1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa343_te_sa343"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ETV1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ETV1"/> <bbox w="80.0" h="40.0" x="6698.06" y="21328.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa427_in_sa427" compartmentRef="s_id_in_ca13_in_ca13"> <label text="NKp30*"/> <bbox w="80.0" h="50.0" x="18865.0" y="1835.0"/> <glyph class="unit of information" id="_463372be-d0cb-4c5a-a905-06fc1d1604be"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18882.5" y="1830.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3354_rc_sa3354" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3354_rc_sa3354"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="22949.06" y="12979.0"/> <glyph 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4922_rc_sa4922"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DERL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DERL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Derlin*"/> <bbox w="80.0" h="40.0" x="29129.06" y="13009.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa690_ad_sa690" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa690_ad_sa690"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITPR1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITPR2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITPR3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IP3R*"/> <bbox w="80.0" h="50.0" x="27666.0" y="4655.0"/> <glyph class="unit of information" id="_bc0d4d57-376d-4c56-9cb5-aedfd4e7e34a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27683.5" y="4650.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa40_shh1_shh2_csa40" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ER_alpha_*:MIR18A</p> <p>References:</p> <p>s_shh2_re157:(MAP:survival) PMID:19684618</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa40_shh1_shh2_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19684618"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-18a_ER"/> <bbox w="100.0" h="120.0" x="27882.06" y="21646.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa279_shh1_shh2_sa279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 18a</p> <p>HUGO:MIR18A HGNC:31548 ENTREZ:406953 GENECARDS:MIR18A KEGG:406953 ATLASONC:GC_MIR18A WIKI:MIR18A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 18a</p> <p>HUGO:MIR18A HGNC:31548 ENTREZ:406953 GENECARDS:MIR18A KEGG:406953 ATLASONC:GC_MIR18A WIKI:MIR18A</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR18A"/> <bbox w="90.0" h="25.0" x="27886.56" y="21660.0"/> <glyph class="unit of information" id="_4956ee70-fd64-4586-b5f0-b378f891001e"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27916.56" y="21655.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa278_shh1_shh2_sa278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>estrogen receptor 1</p> <p>HUGO:ESR1 HGNC:3467 ENTREZ:2099 UNIPROT:P03372 GENECARDS:ESR1 REACTOME:69672 KEGG:2099 ATLASONC:GC_ESR1 WIKI:ESR1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21267694</p> <p>estrogen receptor 1</p> <p>HUGO:ESR1 HGNC:3467 ENTREZ:2099 UNIPROT:P03372 GENECARDS:ESR1 REACTOME:69672 KEGG:2099 ATLASONC:GC_ESR1 WIKI:ESR1</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="ERα*"/> <bbox w="90.0" h="25.0" x="27886.56" y="21687.0"/> <glyph class="unit of information" id="_1d7d9fc3-5bdd-4300-bcc4-0b0580a28695"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27921.56" y="21682.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1549_emtc_em_sa1549" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1549_emtc_em_sa1549"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ECT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DEF6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGD4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DOCK6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DOCK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DOCK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SPATA13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC42_GEFs*"/> <bbox w="86.0" h="21.0" x="6485.0" y="14353.5"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa145_shh1_shh2_sa145" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re143(MAP:survival):</p> <p>Activated Daam1 is responisble for the inhibition</p> <p>PMID:20351293</p> <p>Referenes_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa145_shh1_shh2_sa145"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20351293"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Angiogenesis"/> <clone/> <bbox w="80.0" h="30.0" x="26898.06" y="21116.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa145_emtc_em_sa787" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re143(MAP:survival):</p> <p>Activated Daam1 is responisble for the inhibition</p> <p>PMID:20351293</p> <p>Referenes_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa145_emtc_em_sa787"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20351293"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Angiogenesis"/> <clone/> <bbox w="85.0" h="20.0" x="5130.5" y="14833.5"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa145_wnc1_wnc1_sa686" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re143(MAP:survival):</p> <p>Activated Daam1 is responisble for the inhibition</p> <p>PMID:20351293</p> <p>Referenes_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa145_wnc1_wnc1_sa686"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20351293"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Angiogenesis"/> <clone/> <bbox w="80.0" h="30.0" x="16042.061" y="18376.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa48_shh1_shh1_csa48" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AKT*:PI3,4,5-P3</p> <p>References:</p> <p>s_shh1_re101:(MAP:survival) PMID:17688959</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa48_shh1_shh1_csa48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17688959"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PIP3_AKT)"/> <bbox w="100.0" h="120.0" x="25899.56" y="17591.0"/> <glyph class="simple chemical" id="s_id_shh1_shh1_sa299_shh1_shh1_sa299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="25911.56" y="17604.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa300_shh1_shh1_sa300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-akt murine thymoma viral oncogene homolog 1</p> <p>HUGO:AKT1 HGNC:391 ENTREZ:207 UNIPROT:P31749 GENECARDS:AKT1 REACTOME:58253 KEGG:207 ATLASONC:AKT1ID355ch14q32 WIKI:AKT1 </p> <p>v-akt murine thymoma viral oncogene homolog 2</p> <p>HUGO:AKT2 HGNC:392 ENTREZ:208 UNIPROT:P31751 GENECARDS:AKT2 REACTOME:49860 KEGG:208 ATLASONC:AKT2ID517ch19q13 WIKI:AKT2 </p> <p>v-akt murine thymoma viral oncogene homolog 3 (protein kinase B gamma)</p> <p>HUGO:AKT3 HGNC:393 ENTREZ:10000 UNIPROT:Q9Y243 GENECARDS:AKT3 REACTOME:415917 KEGG:10000 ATLASONC:AKT3ID615ch1q44 WIKI:AKT3 </p> <p>HUGO:AKT3 HGNC:393 ENTREZ:10000 UNIPROT:Q9Y243 GENECARDS:AKT3 REACTOME:415917 KEGG:10000 ATLASONC:AKT3ID615ch1q44 WIKI:AKT3 HUGO:CDH2 HGNC:1759 ENTREZ:1000 UNIPROT:P19022 GENECARDS:CDH2 REACTOME:51212 KEGG:1000 ATLASONC:GC_CDH2 WIKI:CDH2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20214616</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="AKT*"/> <bbox w="80.0" h="40.0" x="25909.56" y="17643.0"/> <glyph class="state variable" id="_f6f2fd8e-c5b6-46ac-8c41-091f17b2c60d"> <state value="P" variable="T308"/> <bbox w="35.0" h="10.0" x="25892.553" y="17638.0"/> </glyph> <glyph class="state variable" id="_2ba4fbd7-eff4-46e0-891f-a371a626e273"> <state value="P" variable="S473"/> <bbox w="35.0" h="10.0" x="25971.441" y="17678.0"/> </glyph> <glyph class="state variable" id="_86292cc6-8dd1-4463-bffb-55912aa96cbd"> <state value="" variable="S129"/> <bbox w="30.0" h="10.0" x="25894.56" y="17677.72"/> </glyph> <glyph class="state variable" id="_9f989996-fa1e-4f9e-ae0a-39922f1f39c7"> <state value="P" variable="T450"/> <bbox w="35.0" h="10.0" x="25972.06" y="17638.213"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa1_rc_csa1" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAK1</p> </body> </html> </notes> <label text="BAK1_oligomer"/> <bbox w="157.0" h="114.0" x="22430.81" y="14897.25"/> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3554"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22471.123" y="14943.036"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3544"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22483.123" y="14923.036"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3551"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22441.123" y="14913.036"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22451.123" y="14923.036"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3543"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22473.123" y="14913.036"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3545"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22493.123" y="14933.036"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22461.123" y="14933.036"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3543_rc_sa3546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="22503.123" y="14943.036"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa465_ad_sa465" compartmentRef="s_id_ad_ca15_ad_ca15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p> PMID:19380804</p> <p>Activated CD8+ T cells rapidly up-regulate perforin.</p> <p> Following Ag-specific activation, newly synthesized perforin rapidly 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(provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_PRODUCTION MODULE:CAF References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMP4"/> <bbox w="90.0" h="25.0" x="4155.0" y="4342.5"/> <glyph class="unit of information" id="_9b399677-4aa9-42e4-96b8-7d79d2250f73"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4190.0" y="4337.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa630_rc_sa630" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa630_rc_sa630"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALDOA"/> <bbox w="90.0" h="25.0" x="22958.06" y="16053.5"/> <glyph class="unit of information" id="_d83ecc02-0159-4d6f-9bdf-48b1ce292c1f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22993.06" y="16048.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1859_in_sa1859"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 9834059, 18250477, 11870632, 12496409, 20856220, 23124025, 12401408 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <p>NK cells stimuletad by IL4 have NK2 subtype ()</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1859_in_sa1859"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li 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<bbox w="80.0" h="40.0" x="24830.0" y="5220.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1859_in_sa961"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 9834059, 18250477, 11870632, 12496409, 20856220, 23124025, 12401408 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <p>NK cells stimuletad by IL4 have NK2 subtype ()</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12401408"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4"/> <clone/> <bbox w="80.0" h="40.0" x="8468.5" y="5115.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa817_ca_sa817"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa817_ca_sa817"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGFBP4"/> <bbox w="80.0" h="40.0" x="5390.0" y="510.0"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa145_gf1_sa145" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:23792360 </p> <p>Both in vitro and in vivo evidence has revealed that MSP???RON signalling is important for the invasive growth of different types of cancers.</p> <p>RON activation results in the autophosphorylation of Tyr1238 and Tyr1239 at the A-loop (Phe1227???Pro1250) in the kinase domain93,95,98. Phosphorylation of these regulatory residues then activates the kinase activity, leading to further phosphorylation of Tyr1353 and Tyr1360 in the C-terminal docking site. 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa128_shh1_shh2_sa128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STK36"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FU*"/> <bbox w="80.0" h="40.0" x="25862.06" y="21882.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa270_mo_sa270" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0protein tyrosine phosphatase, non-receptor type 1 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0protein tyrosine phosphatase, non-receptor type 1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa270_mo_sa270"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP1B*"/> <bbox w="70.0" h="25.0" x="5659.0" y="11138.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1864_rc_sa1864" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1864_rc_sa1864"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase3_cl_uncl*"/> <bbox w="80.0" h="40.0" x="24819.06" y="13399.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa268_ce_csa268" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MCM8*:MCM9*</p> </body> </html> </notes> <label text="MCM8*/MCM9*"/> <bbox w="100.0" h="120.0" x="14723.473" y="16519.355"/> <glyph class="macromolecule" id="s_id_ce_sa1536_ce_sa1536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 8 </p> <p>HUGO:C20orf154, HGNC:16147, ENTREZ:84515, UNIPROT:Q9UJA3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>MCM8*/MCM9* colocolize at RAD51 filament and reqired for interstrand crosslinks repair</p> <p>PMID:22771115</p> </body> </html> </notes> <label text="MCM9*"/> <bbox w="80.0" h="40.0" x="14735.473" y="16575.355"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1537_ce_sa1537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 9</p> <p>HUGO:C6orf61, HGNC:21484, ENTREZ:254394, UNIPROT:Q9NXL9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>MCM8*/MCM9* colocolize at RAD51 filament and reqired for interstrand crosslinks repair</p> <p>PMID:22771115</p> </body> </html> </notes> <label text="MCM8*"/> <bbox w="80.0" h="40.0" x="14731.473" y="16526.355"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa13_an_csa13" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19449109</p> <p>SHC1 is the adaptator protein of GRB2 which can it self recruit RAS</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa13_an_csa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s99"/> <bbox w="208.0" h="216.0" x="7404.8125" y="5911.375"/> <glyph class="macromolecule" id="s_id_an_sa87_an_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: Ang1</p> <p>HGNC:484</p> </body> </html> </notes> <label text="ANGPT1"/> <bbox w="80.0" h="40.0" x="7417.8125" y="5919.375"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa86_an_sa86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: CD202b, TIE-2, TIE2, VMCM1</p> <p>HGNC:11724</p> </body> </html> </notes> <label text="TEK"/> <bbox w="80.0" h="50.0" x="7424.8125" y="5966.375"/> <glyph class="state variable" id="_532874b4-17c9-4b34-9366-89e045dffe22"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7440.7583" y="6011.375"/> </glyph> <glyph class="state variable" id="_d09d3b19-4eec-4882-b5a1-b36ed10165a6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7497.3125" y="5986.375"/> </glyph> <glyph class="state variable" id="_b7a285a6-8847-458f-b71b-85775173670e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7473.881" y="6011.375"/> </glyph> <glyph class="unit of information" id="_7f1d265f-8c0a-403d-8878-fd0909b63911"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7442.3125" y="5961.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa511_an_sa512"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. Although Ang2 is a weaker agonist than Ang1, endogenous Ang2 maintains a level of Tie2 activation that is critical to a spectrum of EC functions</p> <p>Ang-2 levels are upregulated by hypoxia</p> <p> Davis S, Aldrich TH, Jones PF et al (1996) Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap</p> </body> </html> </notes> <label text="ANGPT2"/> <bbox w="80.0" h="40.0" x="7502.4287" y="5930.2856"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa92_an_sa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: SHC, p66, ShcA</p> <p>HGNC:10840</p> <p>PMID:19449109</p> </body> </html> </notes> <label text="SHC1"/> <bbox w="80.0" h="40.0" x="7422.0" y="6027.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa90_an_sa90"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4566</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="7422.0" y="6077.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa511_an_sa511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. Although Ang2 is a weaker agonist than Ang1, endogenous Ang2 maintains a level of Tie2 activation that is critical to a spectrum of EC functions</p> <p>Ang-2 levels are upregulated by hypoxia</p> <p> Davis S, Aldrich TH, Jones PF et al (1996) Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap</p> </body> </html> </notes> <label text="ANGPT2"/> <bbox w="80.0" h="40.0" x="7502.4287" y="5921.2856"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa93_an_sa93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:9644</p> <p>HUGO:PTPN11</p> </body> </html> </notes> <label text="SHP2*"/> <bbox w="80.0" h="40.0" x="7512.0" y="6027.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa85_an_sa85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: CD202b, TIE-2, TIE2, VMCM1</p> <p>HGNC:11724</p> </body> </html> </notes> <label text="TEK"/> <bbox w="80.0" h="50.0" x="7414.8125" y="5956.375"/> <glyph class="state variable" id="_4115cb39-7fba-44c0-bcfb-be5ba32051b6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7433.2583" y="6001.375"/> </glyph> <glyph class="state variable" id="_1d178998-2190-4c93-a84b-fcd7e50aaba7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7489.8125" y="5976.375"/> </glyph> <glyph class="state variable" id="_24ec350f-fdf6-43d2-8f6e-8a3afd369888"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7466.381" y="6001.375"/> </glyph> <glyph class="unit of information" id="_5a42d0a9-1b40-40c0-a080-ccc10ca518ac"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7432.3125" y="5951.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa91_an_sa91"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4567</p> </body> </html> </notes> <label text="GRB7"/> <bbox w="80.0" h="40.0" x="7522.0" y="5977.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa87_an_sa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: Ang1</p> <p>HGNC:484</p> </body> </html> </notes> <label text="ANGPT1"/> <bbox w="80.0" h="40.0" x="7420.8125" y="5932.375"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa100_an_sa100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:2991</p> <p>Dok-2, p56dok-2</p> <p>HUGO:DOK2</p> </body> </html> </notes> <label text="Dok-R*"/> <bbox w="80.0" h="40.0" x="7512.0" y="6077.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1532_emtc_em_sa1532" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation 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class="macromolecule" id="s_id_emtc_em_sa2505_emtc_em_sa2505" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2505_emtc_em_sa2505"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP13*"/> <bbox w="64.0" h="17.0" x="1814.0" y="18859.0"/> <glyph class="unit of information" id="_fb716200-d021-47dd-beba-8fa4d373a7cd"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1821.0" y="18854.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2376_rc_sa2376" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2376_rc_sa2376"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IDH3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IDH3B"/> <bbox w="80.0" h="40.0" x="18799.06" y="15099.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa245_emtc_em_csa245" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:COL4A1:a2b1*_a3b1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa245_emtc_em_csa245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a2b1*_a3b1*/COL4A1"/> <bbox w="137.0" h="41.0" x="4574.0" y="18925.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1572_emtc_em_sa1572"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>a2b1*_a3b1*</p> <p>NAME:a2b1*</p> <p>ITGA2/ITGB1</p> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>NAME:a3b1*</p> <p>ITGA3/ITGB1</p> <p>integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143", MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrin a2b1 predominantly binds to fibrillar collagen</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="a2b1*_a3b1*"/> <bbox w="83.0" h="19.0" x="4576.5" y="18926.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1573_emtc_em_sa1573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen, type IV, alpha 1</p> <p>HUGO:COL4A1 HGNC:2202 ENTREZ:1282 UNIPROT:P02462</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="COL4A1"/> <bbox w="49.0" h="19.0" x="4658.5" y="18926.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1535_in_sa1535" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="LY96"/> <bbox w="90.0" h="25.0" x="23510.0" y="1967.5"/> <glyph class="unit of information" id="_4e088bd7-b48f-4355-8029-169c354ac581"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23545.0" y="1962.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3060_rc_sa3060" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3060_rc_sa3060"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC2A4"/> <bbox w="90.0" h="25.0" x="22379.06" y="16049.5"/> <glyph class="unit of information" id="_ea7b7719-a6c0-4fc2-a094-6d597045e37b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22414.06" y="16044.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1089_emtc_em_sa1089" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1089_emtc_em_sa1089"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGGT1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGGT1B"/> <bbox w="53.0" h="19.0" x="5779.5" y="15174.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1391_ad_sa1391" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:29180896</p> <p>http://www.jimmunol.org.gate2.inist.fr/content/198/1_Supplement/154.1</p> <p>VSIG-3/IGSF11 is a ligand of VISTA/PD-1H and inhibits human T cell function</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1391_ad_sa1391"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGSF11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29180896"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGSF11"/> <bbox w="80.0" h="40.0" x="26606.0" y="2180.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa326_wca1_wca3_sa326" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa326_wca1_wca3_sa326"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KLF8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KLF8"/> <bbox w="80.0" h="40.0" x="21053.06" y="21374.0"/> <glyph class="state variable" id="_b49847a7-ffe6-44eb-a6bf-f6a90306c613"> <state value="" variable="K67"/> <bbox w="25.0" h="10.0" x="21040.56" y="21369.932"/> </glyph> <glyph class="state variable" id="_ef0c4200-b233-4111-8df3-10031048f881"> <state value="" variable="K95"/> <bbox w="25.0" h="10.0" x="21120.56" y="21407.38"/> </glyph> <glyph class="state variable" id="_9c814302-febd-4789-9059-5e0dafbd1e84"> <state value="" variable="K93"/> <bbox w="25.0" h="10.0" x="21119.408" y="21369.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5391_rc_sa5391" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5391_rc_sa5391"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SCAF11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase11*"/> <bbox w="80.0" h="40.0" x="28359.06" y="10069.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa503_rc_csa503" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAX:EIF2S2:EIF2S3:Met-tRNA*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:16246152</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa503_rc_csa503"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16246152"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ternary Complex"/> <bbox w="100.0" h="234.0" x="27919.06" y="15409.0"/> <glyph class="macromolecule" id="s_id_rc_sa5145_rc_sa5145"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>HUGO:EIF2S1 hgnc_id:HGNC:3265 HGNC:3265 ENTREZ:1965 UNIPROT:P05198</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>PMID:12667446</p> <p>PMID:16246152</p> <p>PMID:12601012</p> </body> </html> </notes> <label text="EIF2S1"/> <bbox w="80.0" h="40.0" x="27929.06" y="15464.0"/> <glyph class="state variable" id="_01a3d91b-5b09-4a4d-8657-eae3da3e986f"> <state value="" variable="Ser51"/> <bbox w="35.0" h="10.0" x="27968.51" y="15459.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5149_rc_sa5149"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MACC1, MET transcriptional regulator</p> <p>HUGO:MACC1 hgnc_id:HGNC:30215 HGNC:30215 ENTREZ:346389 UNIPROT:Q6ZN28</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12667446</p> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>HUGO:EIF2S2 hgnc_id:HGNC:3266 HGNC:3266 ENTREZ:8894 UNIPROT:P20042</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="EIF2S2"/> <bbox w="80.0" h="40.0" x="27928.291" y="15504.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5147_rc_sa5147"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 subunit gamma</p> <p>HUGO:EIF2S3 hgnc_id:HGNC:3267 HGNC:3267 ENTREZ:1968 UNIPROT:P41091</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>eukaryotic translation initiation factor 2 subunit 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compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1906_emtc_em_sa1906"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMI1"/> <bbox w="37.0" h="17.0" x="2933.0" y="16551.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa1826_rc_sa1826" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s3213"/> <bbox w="30.0" h="30.0" x="23886.686" y="14093.875"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2400_rc_sa2400" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2400_rc_sa2400"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFB1M"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves.</p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:12218089</p> <p>Fyn is essential for tyrosine phosphorylation of Csk-binding protein/phosphoprotein associated with glycolipid-enriched microdomains in lipid rafts in resting T cells</p> <p>PMID:10648627 </p> <p>Fyn was able to induce tyrosine phosphorylation of the TCR and recruitment of the ZAP-70 kinase, but the pattern of TCR phosphorylation was altered and activation of ZAP-70 was defective.</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> <p>Fyn might trigger the switch of Tim-3 function from being permissive to TCR signaling to inhibition of upstream TCR signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1394_ad_sa1394"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FYN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19290918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12218089"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648627"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192565"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22863785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21807895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FYN"/> <clone/> <bbox w="80.0" h="40.0" x="25826.0" y="2620.0"/> <glyph class="state variable" id="_3b148e7f-29d4-41fd-925e-1ec0d1c91968"> <state value="" variable="Y528"/> <bbox w="30.0" h="10.0" x="25814.445" y="2615.0"/> </glyph> <glyph class="state variable" id="_af4b3faf-75b9-41e9-8c51-9a5d8e86a6db"> <state value="" variable="Y417"/> <bbox w="30.0" h="10.0" x="25891.0" y="2653.2295"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1394_ad_sa249" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:SMAC, MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves.</p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:12218089</p> <p>Fyn is essential for tyrosine phosphorylation of Csk-binding protein/phosphoprotein associated with glycolipid-enriched microdomains in lipid rafts in resting T cells</p> <p>PMID:10648627 </p> <p>Fyn was able to induce tyrosine phosphorylation of the TCR and recruitment of the ZAP-70 kinase, but the pattern of TCR phosphorylation was altered and activation of ZAP-70 was defective.</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> <p>Fyn might trigger the switch of Tim-3 function from being permissive to TCR signaling to inhibition of upstream TCR signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1394_ad_sa249"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FYN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19290918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12218089"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648627"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192565"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22863785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21807895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FYN"/> <clone/> <bbox w="80.0" h="40.0" x="26271.0" y="2737.5"/> <glyph class="state variable" id="_a96b824f-9180-46ce-bc62-6b709111df4d"> <state value="" variable="Y528"/> <bbox w="30.0" h="10.0" x="26259.445" y="2732.5"/> </glyph> <glyph class="state variable" id="_fb6537df-3d36-44d4-baaa-1ff7977e19f5"> <state value="" variable="Y417"/> <bbox w="30.0" h="10.0" x="26336.0" y="2770.7295"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3095_rc_sa3095" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3095_rc_sa3095"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NAA10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NAA10"/> <bbox w="80.0" h="40.0" x="25438.541" y="11739.4"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa19_wnc1_wnc2_csa19" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NFAT*:PPP3CB_sub_trunc_endsub_*:PPP3R*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> <p>s_wnc2_re45(MAP:survival):</p> <p>Tubulin-alpha binds both NFAT and KPNB1 after dephosphorylation of NFAT.</p> <p>PMID:21278340</p> <p>TNPO1 is a transport protein that helps in the import of proteins into the nucleus. Although it has been described with associated with NRON, it is most likely that it binds first to NFAT complex, making this complex ready for import, then NRON can bind to this complex to hinder the import of the complex</p> <p>PMID:21709260</p> <p>s_wnc2_re82(MAP:survival):</p> <p>Most likely, the complex will dissociates </p> <p>PMID:16648474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa19_wnc1_wnc2_csa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21278340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16648474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFAT*:PPP3CBtrunc*:PPP3R*"/> <bbox w="103.0" h="175.0" x="18490.56" y="18393.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa86_wnc1_wnc2_sa86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18500.56" y="18445.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa88_wnc1_wnc2_sa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18501.56" y="18498.0"/> <glyph class="state variable" id="_5586d71b-b71b-4545-8288-59a78c6e996c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18576.56" y="18513.0"/> </glyph> <glyph class="state variable" id="_3d27a348-141a-4a1e-90bb-86c73175b3f8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18576.56" y="18521.285"/> </glyph> <glyph class="state variable" id="_31cd29fe-9ac2-4d5b-9a96-94ac0728a202"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18576.56" y="18533.0"/> </glyph> <glyph class="state variable" id="_8737e346-9827-417a-862d-d6a3f6eac130"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18536.56" y="18493.0"/> </glyph> <glyph class="state variable" id="_14216974-1338-44bc-b477-96a649d8084f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18553.129" y="18493.0"/> </glyph> <glyph class="state variable" id="_3103d5c2-13ff-44a6-b0c7-0b1efaa09bb7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18553.129" y="18533.0"/> </glyph> <glyph class="state variable" id="_3a0556ec-ab28-4ff2-8673-6c63a5fe8be8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18576.56" y="18493.0"/> </glyph> <glyph class="state variable" id="_a43a533d-daf1-4ccc-ad01-5a0d17db6fb0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18576.56" y="18504.715"/> </glyph> <glyph class="state variable" id="_10bae417-ca2e-490e-8287-6cffba638add"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18519.992" y="18493.0"/> </glyph> <glyph class="state variable" id="_9d6336c4-5142-49c3-a4cf-dc0872ff7ac3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18496.564" y="18493.0"/> </glyph> <glyph class="state variable" id="_ff0c7404-d64e-4364-adc8-0f8d25ebf333"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18496.564" y="18493.0"/> </glyph> <glyph class="state variable" id="_2681fd76-cad3-4cdb-b22a-79775e1cb8c5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18496.56" y="18504.717"/> </glyph> <glyph class="state variable" id="_9b94eff9-c913-42d8-b209-173b76d35732"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18496.56" y="18521.283"/> </glyph> <glyph class="state variable" id="_ecb84baf-523c-4ec3-b74c-702f3628fb99"> <state value="" variable="S289"/> <bbox w="30.0" h="10.0" x="18500.217" y="18533.0"/> </glyph> <glyph class="state variable" id="_421a610e-1f1e-4d6e-b64d-d7a12c6a881c"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="18520.418" y="18533.0"/> </glyph> <glyph class="state variable" id="_5eeb7e54-327f-4e32-a963-ad6e8773c7cb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18536.56" y="18533.0"/> </glyph> <glyph class="state variable" id="_dd79df1c-4d0b-436f-bb5b-569774263cf3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18519.992" y="18533.0"/> </glyph> <glyph class="state variable" id="_135a63f9-369d-47c0-9514-b0786d565cb1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18496.564" y="18533.0"/> </glyph> <glyph class="state variable" id="_8f7c0ef5-a962-48c0-a71a-07ad6041f048"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18496.56" y="18513.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa85_wnc1_wnc2_sa85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="18500.56" y="18402.0"/> <glyph class="unit of information" id="_7f4516b8-d665-48e3-ae2f-d82e88cf96e8"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18515.56" y="18397.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa244_ce_csa244" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SCC1*:SMC1*:SMC3:STAG*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_M_CHECKPOINT, MODULE:M_CC_PHASE</p> <p>References:</p> <p>Phosphorylated by ATM</p> <p>PMID:11076961, PMID:12200439</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa244_ce_csa244"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11076961"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12200439"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SCC1*/SMC1*/SMC3/STAG*"/> <bbox w="184.0" h="139.0" x="12623.473" y="13404.356"/> <glyph class="macromolecule" id="s_id_ce_sa1293_ce_sa1293"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>structural maintenance of chromosomes 1A</p> <p>HUGO:SMC1A , HGNC:11111, ENTREZ:8243, UNIPROT:Q14683</p> <p>structural maintenance of chromosomes 1B</p> <p>HUGO:SMC1B , HGNC:11112, ENTREZ:27127 UNIPROT:Q8NDV3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:HR, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <label text="SMC1*"/> <bbox w="80.0" h="40.0" x="12631.942" y="13421.677"/> <glyph class="state variable" id="_453a57d2-d158-4ce1-abf0-b3ff013b9d6e"> <state value="P" variable="S957"/> <bbox w="35.0" h="10.0" x="12665.957" y="13416.677"/> </glyph> <glyph class="state variable" id="_498f6379-5f2b-4e29-b2fa-00f9057f2756"> <state value="" variable="S966"/> <bbox w="30.0" h="10.0" x="12639.188" y="13416.677"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1295_ce_sa1295"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>stromal antigen 1</p> <p>HUGO:STAG1, HGNC:11354, ENTREZ:10274, UNIPROT:Q8WVM7</p> <p>stromal antigen 2</p> <p>HUGO:STAG2, HGNC:11355, ENTREZ:10735, UNIPROT:Q8N3U4</p> <p>stromal antigen 3</p> <p>HUGO:STAG3, HGNC:11356, ENTREZ:10734, UNIPROT:Q9UJ98</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:CELL_CYCLE, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:11076961</p> </body> </html> </notes> <label text="STAG*"/> <bbox w="80.0" h="40.0" x="12718.481" y="13478.39"/> <glyph class="state variable" id="_bd9f9655-a527-469f-95d2-ca2d960ba760"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12793.481" y="13493.39"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1296_ce_sa1296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD21 homolog (S. pombe), hHR21, SCC1</p> <p>HUGO:RAD21, HGNC:9811, ENTREZ:5885, UNIPROT:O60216</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:1159013</p> </body> </html> </notes> <label text="SCC1*"/> <bbox w="80.0" h="40.0" x="12718.481" y="13434.39"/> <glyph class="state variable" id="_2a6f361b-17be-4575-9377-1be1c3c3e04e"> <state value="P" variable="ATM-dep."/> <bbox w="55.0" h="10.0" x="12690.981" y="13449.357"/> </glyph> <glyph class="state variable" id="_8df0ec85-981b-47bb-89cc-7f2e6dc1322b"> <state value="" variable="PLK1-dep."/> <bbox w="55.0" h="10.0" x="12770.981" y="13449.39"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1294_ce_sa1294"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Structural maintenance of chromosomes 3</p> <p>HUGO:SMC3, HGNC:2468, ENTREZ:9126, UNIPROT:Q9UQE7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:HR, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <label text="SMC3"/> <bbox w="80.0" h="40.0" x="12632.942" y="13476.677"/> <glyph class="state variable" id="_c97b2d7d-93e7-4aeb-b94b-b103de127a92"> <state value="P" variable="S1083"/> <bbox w="40.0" h="10.0" x="12665.837" y="13471.677"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa494_rc_csa494" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2L11:IRE1-alpha*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa494_rc_csa494"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAK1:IRE1*"/> <bbox w="95.0" h="125.0" x="27067.967" y="12966.5"/> <glyph class="macromolecule" id="s_id_rc_sa5119_rc_sa5119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="27077.967" y="12976.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5120_rc_sa5120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="55.0" x="27077.967" y="13019.0"/> <glyph class="state variable" id="_68f6b5b3-c131-4652-a3f7-4605d3f05c8a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27129.535" y="13014.0"/> </glyph> <glyph class="unit of information" id="_6ce65696-fc9b-4fe1-88e2-f5214ca2472e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27095.467" y="13014.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4656_rc_sa4656" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4656_rc_sa4656"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDKN2A"/> <bbox w="80.0" h="40.0" x="21516.06" y="15855.87"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2755_rc_sa2755" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2755_rc_sa2755"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ATP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ATP8"/> <bbox w="80.0" h="40.0" x="20168.676" y="13658.468"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa87_akt1_akt1_csa87" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:RICTOR</p> <p>References:</p> <p>s_akt1_re200:(MAP:survival) PMID:20832730</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa87_akt1_akt1_csa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20832730"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:RICTOR"/> <bbox w="100.0" h="120.0" x="12030.061" y="18214.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa544_akt1_akt1_sa544"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12040.311" y="18269.5"/> <glyph class="state variable" id="_690f8df6-c6c1-49ae-bfb2-a74d11eb8eff"> <state value="P" variable="T1135"/> <bbox w="40.0" h="10.0" x="12039.871" y="18304.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa543_akt1_akt1_sa543"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="12041.561" y="18224.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2618_in_sa2618" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CXCR1"/> <bbox w="80.0" h="50.0" x="13590.0" y="1320.0"/> <glyph class="unit of information" id="_7ca5dba2-9f24-4af2-a34e-bf0a9ba4afaf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13607.5" y="1315.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2740_in_sa2740" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="RELA"/> <bbox w="90.0" h="25.0" x="21530.0" y="3587.5"/> <glyph class="unit of information" id="_183c64c5-c8e0-4719-957d-8c95686a8af5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21565.0" y="3582.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa123_rc_csa123" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BimEL*:DYNLL1</p> </body> </html> </notes> <label text="BimEL:dynein motor complex"/> <bbox w="100.0" h="120.0" x="22038.06" y="11714.0"/> <glyph class="macromolecule" id="s_id_rc_sa1306_rc_sa1306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521 </p> <p>BCL2-like 12 (proline rich)</p> <p>HUGO:BCL2L12 HGNC:13787 ENTREZ:83596 UNIPROT:Q9HB09</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>BCL2L11 splice variant</p> </body> </html> </notes> <label text="BimEL*"/> <bbox w="80.0" h="40.0" x="22050.06" y="11725.0"/> <glyph class="state variable" id="_14dc59f5-1f2e-4501-854d-8258ef3d56fa"> <state value="" variable="S69"/> <bbox w="25.0" h="10.0" x="22117.559" y="11720.0"/> </glyph> <glyph class="state variable" id="_9b5e6218-3752-4ed3-8ea9-a2380f920e28"> <state value="" variable="S94"/> <bbox w="25.0" h="10.0" x="22077.465" y="11760.0"/> </glyph> <glyph class="state variable" id="_0237a37e-2de9-4788-8ca5-5db7d45fac86"> <state value="" variable="S93"/> <bbox w="25.0" h="10.0" x="22037.56" y="11759.724"/> </glyph> <glyph class="state variable" id="_7c4752e6-9378-4a65-bae4-73ec2fea7373"> <state value="" variable="S87"/> <bbox w="25.0" h="10.0" x="22038.053" y="11720.0"/> </glyph> <glyph class="state variable" id="_f2d39e6f-b82d-4101-a105-b2f1a3409de3"> <state value="" variable=""/> <bbox w="10.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO*</p> </body> </html> </notes> <label text="14-3-3:FOXO"/> <bbox w="98.0" h="120.0" x="26029.436" y="10592.0"/> <glyph class="macromolecule" id="s_id_rc_sa1009_rc_sa1009"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="26039.186" y="10602.5"/> <glyph class="state variable" id="_5d98a365-7946-4d28-90a0-b6779fae6237"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="26088.283" y="10597.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1012_rc_sa1012"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 </p> <p>forkhead box O3</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23301705</p> </body> </html> </notes> <label text="FOXO*"/> <bbox w="80.0" h="40.0" x="26039.793" y="10654.363"/> <glyph class="state variable" id="_ae930da7-01c6-4100-a0f4-64943d53b385"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26088.982" y="10649.363"/> </glyph> <glyph class="state variable" 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SEL1L"/> <bbox w="70.0" h="25.0" x="28646.326" y="16111.5"/> </glyph> <glyph class="phenotype" id="s_id_ad_sa937_ad_sa937" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="induction_of_apoptosis"/> <bbox w="190.0" h="35.0" x="28921.0" y="6837.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1227_ad_sa1227" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection. ----- 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</glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa16_wca1_wca3_csa16" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD*:ROR2:WNT1_3*</p> <p>References:</p> <p>s_wca3_re24(MAP:survival):</p> <p>WNT1 induces autophosphorylation of TAK1</p> <p>PMID:14960582</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa16_wca1_wca3_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14960582"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD*:ROR2:WNT1_3*"/> <bbox w="102.0" h="152.0" x="20989.06" y="20709.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa116_wca1_wca3_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="20999.56" y="20739.5"/> <glyph class="unit of information" id="_15b665cb-00c8-4c9e-addf-cd9e06de8bd7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21017.06" y="20734.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa117_wca1_wca3_sa117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="20999.56" y="20781.5"/> <glyph class="unit of information" id="_edffcfff-66ef-4559-941d-26f2dc699a81"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21017.06" y="20776.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa115_wca1_wca3_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3</p> <p>Map modules:</p> </body> </html> </notes> <label text="WNT1_3*"/> <bbox w="50.0" h="25.0" x="21017.56" y="20718.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa794_ca_sa794" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa794_ca_sa794"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR"/> <bbox w="90.0" h="25.0" x="5185.0" y="1277.5"/> <glyph class="unit of information" id="_ad9ac85c-ccd5-4b60-91ee-012f8a25766f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5220.0" y="1272.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa314_emtc_em_csa314" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CBF1*:HDAC1:NCOR1:NCOR2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(CBF1* repressor complex 1)"/> <bbox w="191.0" h="47.0" x="2821.0" y="14545.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2179_emtc_em_sa2179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>recombination signal binding protein for immunoglobulin kappa J region</p> <p>HUGO:RBPJ, HGNC:5724, ENTREZ:3516, UNIPROT:Q06330 , GENECARDS:GC04P026165</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CBF1*"/> <bbox w="39.0" h="18.0" x="2825.25" y="14551.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2178_emtc_em_sa2178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear receptor corepressor 2</p> <p>HUGO:NCOR2, HGNC:7673, ENTREZ:9612, UNIPROT:Q9Y618, GENECARDS:GC12M124808</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NCOR2"/> <bbox w="47.0" h="18.0" x="2911.25" y="14553.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2181_emtc_em_sa2181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>RPD3L1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22796940</p> <p>The silencing of E-cadherin expression by hypermethylation is a common event in cancer.</p> <p>DNMTs target cytosine residues in CpG dinucleotides for methylation and have been identified in the repression of E-cadherin in normal and pathological contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that inhibit gene expression through chromatin remodeling. </p> <p>The polycomb repressive complex 2 (PRC2) recruits PRC1 after chromatin methylation at H3K27 through enhancer of EZH2, a histone H3 lysine-27-specific methyltransferase.</p> <p>Both, PRC1 and PRC2 have been shown to interact with SNAI1 and TWIST1 to promote EMT.</p> <p>SNAI1 is stabilized through its interaction with the PRC1 component BMI1 and interacts with EZH2 and Suz12 to repress CDH1 expression.</p> <p>Interestingly, EZH2 also participates in TGFb1 signaling, a potent inducer of EMT.</p> <p>BMI-1 can also interact with TWIST to induce EMT.</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>The intricate interactions of EMT-inducing transcription factors and chromatin remodeling complexes PRC1 and PRC2 may offer novel approaches to control EMT and thus cell adhesion in cancer cells via a plethora of new drug, such as HDACs and DNMT inhibitors.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HDAC1"/> <bbox w="50.0" h="16.0" x="2960.5" y="14552.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2177_emtc_em_sa2177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear receptor corepressor 1</p> <p>HUGO:NCOR1, HGNC:7672, ENTREZ:9611, UNIPROT:O75376, GENECARDS:GC17M015933</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NCOR1"/> <bbox w="44.0" h="18.0" x="2866.25" y="14552.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa6_wca1_wca4_csa6" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR374A:WNT5A</p> <p>References:</p> <p>s_wca4_re12:(MAP:survival) PMID:23321667</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa6_wca1_wca4_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23321667"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR374A:WNT5A"/> <bbox w="100.0" h="84.0" x="23851.06" y="22458.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa25_wca1_wca4_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FTX transcript XIST regulator (non-protein coding)</p> <p>"mir-374a-545 cluster host gene (non-protein coding)" MIR374AHG NCRNA00182 "non-protein coding RNA 182"</p> <p>HUGO:FTX HGNC:37190 ENTREZ:100302692 GENECARDS:FTX KEGG:100302692 WIKI:FTX</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>FTX transcript XIST regulator (non-protein coding)</p> <p>"mir-374a-545 cluster host gene (non-protein coding)" MIR374AHG NCRNA00182 "non-protein coding RNA 182"</p> <p>HUGO:FTX HGNC:37190 ENTREZ:100302692 GENECARDS:FTX KEGG:100302692 WIKI:FTX</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR374A"/> <bbox w="90.0" h="25.0" x="23859.06" y="22465.0"/> <glyph class="unit of information" id="_ff0529c9-54f7-4096-9eb9-79f1720b48ba"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23889.06" y="22460.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa26_wca1_wca4_sa26"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A</p> <p>Map modules:</p> </body> </html> </notes> <label text="WNT5A"/> <bbox w="90.0" h="25.0" x="23859.06" y="22493.0"/> <glyph class="unit of information" id="_994e440c-1b54-49b9-bdaf-614ef5cd4b69"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23894.06" y="22488.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa508_akt1_akt1_sa508" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa508_akt1_akt1_sa508"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KB2"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="s_id_in_sa673_in_sa673"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HRAS"/> <bbox w="80.0" h="40.0" x="17695.0" y="3569.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa674_in_sa674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="17700.0" y="3616.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa541_rc_csa541" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PYCARD:Pyrin*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa541_rc_csa541"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Pyrin*:Pyrin*:PYCARD"/> <bbox w="108.0" h="143.0" x="28966.56" y="9602.75"/> <glyph class="macromolecule" id="s_id_rc_sa5410_rc_sa5415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MEFV</p> <p>synonyms:Mediterranean fever, pyrin</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:24919149</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="Pyrin*"/> <bbox w="80.0" h="50.0" x="28986.56" y="9627.75"/> <glyph class="unit of information" id="_b5bcc797-1d68-4d9c-91b9-71fbbc8e7c00"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29004.06" y="9622.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5421_rc_sa5421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="28986.56" y="9682.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5410_rc_sa5410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MEFV</p> <p>synonyms:Mediterranean fever, pyrin</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:24919149</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="Pyrin*"/> <bbox w="80.0" h="50.0" x="28976.56" y="9617.75"/> <glyph class="unit of information" id="_1507d551-b2dd-4eda-af32-f1cfe36c7140"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28994.06" y="9612.75"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1212_ad_sa1212" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:PD1</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16982858</p> <p>An additional level of regulation is provided by phosphatase and tensin homolog deleted on chromosome 10 (PTEN) (13), which does not act on PI3K directly, but rather dephosphorylates PIP3 on the 3′ position to regenerate PIP2, thus limiting the amount of available PI3K product</p> <p>PTEN-deficient CD4+ T cells are hyperresponsive to TCR stimulation.</p> <p>Augmented response of PTENΔT T cells is correlated with enhanced activation of the PI3K pathway </p> <p>PTEN regulates anergy induction in vitro and in vivo</p> <p>PMID:23732914 </p> <p>during T cell receptor (TCR)/CD3- and CD28-mediated stimulation, PTEN is phosphorylated by casein kinase 2 (CK2) in the Ser380-Thr382-Thr383 cluster within the C-terminal regulatory domain, which stabilizes PTEN, resulting in increased protein abundance but suppressed PTEN phosphatase activity. 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa186_shh1_shh1_sa186"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="27203.977" y="18262.668"/> <glyph class="state variable" id="_561dbd12-1ce5-4f8d-b289-2be0f303ac42"> <state value="P" variable="S300"/> <bbox w="35.0" h="10.0" x="27186.969" y="18257.668"/> </glyph> <glyph class="state variable" id="_8f9a11a9-2e40-4854-aa7e-707debea05ad"> <state value="P" variable="S384"/> <bbox w="35.0" h="10.0" x="27265.86" y="18297.668"/> </glyph> <glyph class="state variable" id="_cdd47179-f47c-4ab1-bb4b-ffa48bd045df"> <state value="P" variable="S464"/> <bbox w="35.0" h="10.0" x="27186.477" y="18297.39"/> </glyph> <glyph class="state variable" id="_7cc9fb0a-71f8-4581-8176-1613bf8fdb68"> <state value="P" variable="S350"/> <bbox w="35.0" h="10.0" x="27266.477" y="18257.883"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa233_rc_csa233" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Ca2+:PPP3CB:PPP3R1</p> <p>References:</p> <p>PMID:7593193 over-expression plasmid DeltaCnA/CnB</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa233_rc_csa233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7593193"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="calcineurin"/> <bbox w="100.0" h="120.0" x="20439.06" y="11919.0"/> <glyph class="simple chemical" id="s_id_rc_sa1761_rc_sa1761"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="20510.414" y="11959.852"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1760_rc_sa1760"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3R1"/> <bbox w="80.0" h="40.0" x="20449.06" y="11975.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1759_rc_sa1759"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="20449.06" y="11930.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa267_in_csa267" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s35"/> <bbox w="110.0" h="150.0" x="20935.0" y="3755.0"/> <glyph class="macromolecule" id="s_id_in_sa2029_in_sa2029"> <notes> <html 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cREL*"/> <bbox w="80.0" h="40.0" x="20945.0" y="3805.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2031_in_sa2031"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="20945.0" y="3765.0"/> <glyph class="state variable" id="_f3e63057-49c2-415b-a8ac-022715ed2d96"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20940.0" y="3780.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa110_emtc_em_csa110" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Occludin*:PARD6A:TGFBR1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Occludin*/PAR6*/TGFBR1"/> <bbox w="161.0" h="90.0" x="1088.5" y="14637.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa667_emtc_em_sa667"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> <p>PMID:</p> <p>PMID:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="60.0" h="20.0" x="1120.5" y="14685.5"/> <glyph class="state variable" id="_7e9d7cf4-d7b5-430a-9edc-3b0a44d9045e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1175.5" y="14690.532"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa666_emtc_em_sa666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="54.0" h="42.0" x="1126.5" y="14643.5"/> <glyph class="unit of information" id="_437ab891-9ef5-425d-93a1-8d4dc8a37bf0"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1143.5" y="14638.5"/> </glyph> <glyph class="state variable" id="_26db55d0-4bcc-4354-903c-2c915754e958"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="1114.0" y="14639.477"/> </glyph> <glyph class="state variable" id="_b203400e-fd8a-44ab-9943-ebeebd7887e0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1175.5" y="14638.726"/> </glyph> <glyph class="unit of information" id="_1fa9e2dc-b6f8-4ecd-87f5-d6641a25ced0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1131.0" y="14638.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa665_emtc_em_sa665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>HUGO:PARD6A, HGNC:15943, ENTREZ:50855, GENECARDS:GC16P067696, UNIPROT:Q9NPB6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15761148</p> <p>PARD6A is a regulator of epithelial cell polarity and tight-junction assembly</p> <p>TGFBRI is localized to tight junctions where PARD6A is also found. 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ubiquitylation and the dissolution of junctions.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PARD6A"/> <bbox w="57.0" h="40.0" x="1186.5" y="14648.5"/> <glyph class="state variable" id="_7286db72-80d6-4978-a083-43ff8b619448"> <state value="" variable="S345"/> <bbox w="30.0" h="10.0" x="1193.9492" y="14643.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4519_rc_sa4519" compartmentRef="s_id_rc_ca5_rc_ca5"> <label text="Mitochondrial damage"/> <bbox w="80.0" h="30.0" x="21119.06" y="14884.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4365_rc_sa4365" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>References:</p> <p>PMID:23846383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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id="s_id_mo_sa7_mo_sa7" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Ezrin</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa7_mo_sa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EZR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4758_rc_sa4758"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90B1"/> <clone/> <bbox w="70.0" h="25.0" x="26946.326" y="16131.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4758_rc_sa4578" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4758_rc_sa4578"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90B1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90B1"/> <clone/> <bbox w="70.0" h="25.0" x="20770.56" y="16222.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2426_rc_sa2426" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" 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id="s_id_em_csa329_em_csa329" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin2*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2506"/> <bbox w="97.0" h="45.0" x="1059.0" y="15247.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1211_emtc_em_sa1211"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 2</p> <p>HUGO:CLDN2, HGNC:2041, ENTREZ:9075, UNIPROT:P57739, GENECARDS:GC0XP106163</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cIAP*"/> <bbox w="80.0" h="40.0" x="23039.06" y="9413.5"/> <glyph class="state variable" id="_2c60cc3b-5e75-4701-b929-fc11a34753e7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23090.629" y="9408.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa2_wca1_wca4_csa2" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Kindlin2*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca4_re2(MAP:survival):</p> <p>NLS has been found in KINDLIN2</p> <p>PMID:22699938</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa2_wca1_wca4_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Kindlin2*:β-Catenin*"/> <bbox w="100.0" h="120.0" x="23344.06" y="20929.0"/> <glyph class="macromolecule" id="s_id_wca1_wca4_sa5_wca1_wca4_sa5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23353.06" y="20941.5"/> <glyph class="state variable" id="_5ae20826-cc00-462f-afcf-fba9245b2a99"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23418.06" y="20936.713"/> </glyph> <glyph class="state variable" id="_faf2caf6-cbe2-4f6c-8b8e-87ce1f6aa915"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23367.277" y="20936.5"/> </glyph> <glyph class="state variable" id="_8d6eae61-d889-45d1-8298-fc7badacbe57"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23338.553" y="20936.5"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fermitin family member 2</p> <p>KIND2 "kindlin-2" mig-2 UNC112B</p> <p>HUGO:FERMT2 HGNC:15767 ENTREZ:10979 UNIPROT:Q96AC1 GENECARDS:FERMT2 REACTOME:98372 KEGG:10979 ATLASONC:GC_FERMT2 WIKI:FERMT2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Kindlin2*"/> <bbox w="80.0" h="40.0" x="23353.06" y="20983.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa342_mpk1_mpk1_sa342" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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</extension> <label text="LEF_TCF*"/> <clone/> <bbox w="80.0" h="40.0" x="26980.56" y="21692.0"/> </glyph> <glyph class="phenotype" id="s_id_ce_sa1566_ce_sa1566" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mitochondria is important for metabolism</p> <p>Map modules:</p> <p>MODULE:REGULATORS</p> <p>References:</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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rdf:about="#s_id_rc_sa3301_rc_sa3301"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIN1"/> <bbox w="80.0" h="40.0" x="22869.06" y="10689.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa96_wnc1_wnc1_sa96" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa96_wnc1_wnc1_sa96"> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa311_emtc_em_sa311"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGAX"/> <bbox w="40.0" h="20.0" x="4801.066" y="17842.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa948_emtc_em_sa948" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa948_emtc_em_sa948"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="86.0" h="26.0" x="996.0" y="15889.0"/> <glyph class="unit of information" id="_8c8f321f-93f5-4af8-9045-c078512ae581"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1029.0" y="15884.0"/> </glyph> <glyph class="state variable" id="_093fd335-83f8-4276-a4f6-ddc2f2ad9549"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1074.5" y="15885.598"/> </glyph> <glyph class="state variable" id="_ce135bc2-1b00-408e-9431-84e07827b18c"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="988.5" y="15885.092"/> </glyph> <glyph class="state variable" id="_e502108e-2c23-42d9-936a-b52a97edad6c"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1073.8354" y="15910.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2773_rc_sa2773" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:30089</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2773_rc_sa2773"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="acetate"/> <bbox w="70.0" h="25.0" x="19134.06" y="14906.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa53_wca1_wca1_csa53" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:DVL*:KLHL*:RBX1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:16547521</p> <p>s_wca1_re51(MAP:survival):</p> <p>In the presence of WNT3a DVL-3 forms complex with KLHL12/CUL3/RBX1-complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa53_wca1_wca1_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547521"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL3:DVL*:KLHL*:RBX1"/> <bbox w="187.0" h="129.0" x="20368.56" y="18455.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa525_wca1_wca1_sa525"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kelch-like 1 (Drosophila)</p> <p>HUGO:KLHL1 HGNC:6352 ENTREZ:57626 UNIPROT:Q9NR64 GENECARDS:KLHL1 KEGG:57626 ATLASONC:GC_KLHL1 WIKI:KLHL1 </p> <p>kelch-like 2 Mayven (Drosophila)</p> <p>HUGO:KLHL2 HGNC:6353 ENTREZ:11275 UNIPROT:O95198 GENECARDS:KLHL2 KEGG:11275 ATLASONC:GC_KLHL2 WIKI:KLHL2 </p> <p>kelch-like 3 (Drosophila)</p> <p>HUGO:KLHL3 HGNC:6354 ENTREZ:26249 UNIPROT:Q9UH77 GENECARDS:KLHL3 KEGG:26249 WIKI:KLHL3 </p> <p>kelch-like 4 (Drosophila)</p> <p>HUGO:KLHL4 HGNC:6355 ENTREZ:56062 UNIPROT:Q9C0H6 GENECARDS:KLHL4 KEGG:56062 WIKI:KLHL4 </p> <p>kelch-like 5 (Drosophila)</p> <p>HUGO:KLHL5 HGNC:6356 ENTREZ:51088 UNIPROT:Q96PQ7 GENECARDS:KLHL5 WIKI:KLHL5 </p> <p>kelch-like 6 (Drosophila)</p> <p>HUGO:KLHL6 HGNC:18653 ENTREZ:89857 UNIPROT:Q8WZ60 GENECARDS:KLHL6 KEGG:55975 WIKI:KLHL6 </p> <p>kelch-like 7 (Drosophila)</p> <p>HUGO:KLHL7 HGNC:15646 ENTREZ:55975 UNIPROT:Q8IXQ5 GENECARDS:KLHL7 KEGG:55975 ATLASONC:GC_KLHL7 WIKI:KLHL7 </p> <p>kelch-like 8 (Drosophila)</p> <p>HUGO:KLHL8 HGNC:18644 ENTREZ:57563 UNIPROT:Q9P2G9 GENECARDS:KLHL8 WIKI:KLHL8 </p> <p>kelch-like 9 (Drosophila)</p> <p>HUGO:KLHL9 HGNC:18732 ENTREZ:55958 UNIPROT:Q9P2J3 GENECARDS:KLHL9 REACTOME:67738 WIKI:KLHL9 </p> <p>kelch-like 10 (Drosophila)</p> <p>HUGO:KLHL10 HGNC:18829 ENTREZ:317719 UNIPROT:Q6JEL2 GENECARDS:KLHL10 KEGG:317719 WIKI:KLHL10 </p> <p>kelch-like 11 (Drosophila)</p> <p>HUGO:KLHL11 HGNC:19008 ENTREZ:55175 UNIPROT:Q9NVR0 GENECARDS:KLHL11 WIKI:KLHL11 </p> <p>kelch-like 12 (Drosophila)</p> <p>HUGO:KLHL12 HGNC:19360 ENTREZ:59349 UNIPROT:Q53G59 GENECARDS:KLHL12 KEGG:59349 WIKI:KLHL12 </p> <p>kelch-like 13 (Drosophila)</p> <p>HUGO:KLHL13 HGNC:22931 ENTREZ:90293 UNIPROT:Q9P2N7 GENECARDS:KLHL13 REACTOME:67732 KEGG:90293 WIKI:KLHL13 </p> <p>kelch-like 14 (Drosophila)</p> <p>HUGO:KLHL14 HGNC:29266 ENTREZ:57565 UNIPROT:Q9P2G3 GENECARDS:KLHL14 WIKI:KLHL14 </p> <p>kelch-like 15 (Drosophila)</p> <p>HUGO:KLHL15 HGNC:29347 ENTREZ:80311 UNIPROT:Q96M94 GENECARDS:KLHL15 WIKI:KLHL15 </p> <p>kelch-like 17 (Drosophila)</p> <p>HUGO:KLHL17 HGNC:24023 ENTREZ:339451 UNIPROT:Q6TDP4 GENECARDS:KLHL17 KEGG:339451 WIKI:KLHL17 </p> <p>kelch-like 18 (Drosophila)</p> <p>HUGO:KLHL18 HGNC:29120 ENTREZ:23276 UNIPROT:O94889 GENECARDS:KLHL18 WIKI:KLHL18 </p> <p>kelch-like 20 (Drosophila)</p> <p>HUGO:KLHL20 HGNC:25056 ENTREZ:27252 UNIPROT:Q9Y2M5 GENECARDS:KLHL20 REACTOME:58067 KEGG:27252 ATLASONC:GC_KLHL20 WIKI:KLHL20 </p> <p>kelch-like 21 (Drosophila)</p> <p>HUGO:KLHL21 HGNC:29041 ENTREZ:9903 UNIPROT:Q9UJP4 GENECARDS:KLHL21 REACTOME:67612 ATLASONC:GC_KLHL21 WIKI:KLHL21 </p> <p>kelch-like 22 (Drosophila)</p> <p>HUGO:KLHL22 HGNC:25888 ENTREZ:84861 UNIPROT:Q53GT1 GENECARDS:KLHL22 KEGG:84861 WIKI:KLHL22 </p> <p>kelch-like 23 (Drosophila)</p> <p>HUGO:KLHL23 HGNC:27506 ENTREZ:151230 UNIPROT:Q8NBE8 GENECARDS:KLHL23 KEGG:151230 WIKI:KLHL23 </p> <p>kelch-like 24 (Drosophila)</p> <p>HUGO:KLHL24 HGNC:25947 ENTREZ:54800 UNIPROT:Q6TFL4 GENECARDS:KLHL24 KEGG:54800 WIKI:KLHL24 </p> <p>kelch-like 25 (Drosophila)</p> <p>HUGO:KLHL25 HGNC:25732 ENTREZ:64410 UNIPROT:Q9H0H3 GENECARDS:KLHL25 KEGG:64410 WIKI:KLHL25 </p> <p>kelch-like 26 (Drosophila)</p> <p>HUGO:KLHL26 HGNC:25623 ENTREZ:55295 UNIPROT:Q53HC5 GENECARDS:KLHL26 WIKI:KLHL26 </p> <p>kelch-like 28 (Drosophila)</p> <p>HUGO:KLHL28 HGNC:19741 ENTREZ:54813 UNIPROT:Q9NXS3 GENECARDS:KLHL28 KEGG:54813 WIKI:KLHL28 </p> <p>kelch-like 29 (Drosophila)</p> <p>HUGO:KLHL29 HGNC:29404 ENTREZ:114818 UNIPROT:Q96CT2 GENECARDS:KLHL29 KEGG:114818 WIKI:KLHL29 </p> <p>kelch-like 30 (Drosophila)</p> <p>HUGO:KLHL30 HGNC:24770 ENTREZ:377007 UNIPROT:Q0D2K2 GENECARDS:KLHL30 WIKI:KLHL30 </p> <p>kelch-like 31 (Drosophila)</p> <p>HUGO:KLHL31 HGNC:21353 ENTREZ:401265 UNIPROT:Q9H511 GENECARDS:KLHL31 KEGG:401265 WIKI:KLHL31 </p> <p>kelch-like 32 (Drosophila)</p> <p>HUGO:KLHL32 HGNC:21221 ENTREZ:114792 UNIPROT:Q96NJ5 GENECARDS:KLHL32 KEGG:114792 WIKI:KLHL32 </p> <p>kelch-like 33 (Drosophila)</p> <p>HUGO:KLHL33 HGNC:31952 ENTREZ:123103 UNIPROT:A6NCF5 GENECARDS:KLHL33 WIKI:KLHL33 </p> <p>kelch-like 34 (Drosophila)</p> <p>HUGO:KLHL34 HGNC:26634 ENTREZ:257240 UNIPROT:Q8N239 GENECARDS:KLHL34 WIKI:KLHL34 </p> <p>kelch-like 35 (Drosophila)</p> <p>HUGO:KLHL35 HGNC:26597 ENTREZ:283212 UNIPROT:Q6PF15 GENECARDS:KLHL35 KEGG:8507 WIKI:KLHL35 </p> <p>kelch-like 36 (Drosophila)</p> <p>HUGO:KLHL36 HGNC:17844 ENTREZ:79786 UNIPROT:Q8N4N3 GENECARDS:KLHL36 KEGG:79786 WIKI:KLHL36 </p> <p>kelch-like 38 (Drosophila)</p> <p>HUGO:KLHL38 HGNC:34435 ENTREZ:340359 UNIPROT:Q2WGJ6 GENECARDS:KLHL38 KEGG:340359 WIKI:KLHL38</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="KLHL*"/> <bbox w="80.0" h="40.0" x="20377.81" y="18471.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa526_wca1_wca1_sa526"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618 GENECARDS:CUL3 REACTOME:53166 KEGG:8452 ATLASONC:GC_CUL3 WIKI:CUL3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17312394</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="20377.81" y="18513.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa529_wca1_wca1_sa529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="20459.81" y="18471.0"/> <glyph class="state variable" id="_f7fa754d-558e-4828-8d2f-68d6e355460d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20534.81" y="18466.0"/> </glyph> <glyph class="state variable" id="_66c8e02e-255e-4e8d-b73e-b4ae84d8a00f"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="20444.81" y="18505.72"/> </glyph> <glyph class="state variable" id="_b4979632-bab7-4c70-857c-595934f9844b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20454.814" y="18466.0"/> </glyph> <glyph class="state variable" id="_0caec06b-31a4-4851-885a-064dfebb8a94"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="20524.191" y="18506.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa527_wca1_wca1_sa527"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="20460.81" y="18512.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa91_mpk1_mpk1_csa91" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K5:RIPK1:TNFRSF1A:TRADD:TRAF2</p> </body> </html> </notes> <label text="MAP3K5:RIPK1:TNFRSF1A:TRADD:TRAF2"/> <bbox w="271.0" h="87.0" x="11347.057" y="19492.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa493_mpk1_mpk1_sa493"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="50.0" h="25.0" x="11470.224" y="19501.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa651_mpk1_mpk1_sa651"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1A</p> <p>TNFR1</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="11400.061" y="19502.334"/> <glyph class="unit of information" id="_d62fec4c-04f3-439c-9992-d477019c1621"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11412.561" y="19497.334"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa496_mpk1_mpk1_sa496"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TNF treatment is thought to result in the formation of a TRADD-RIP-TRAF2 complex at the membrane.</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="50.0" h="25.0" x="11457.224" y="19526.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa495_mpk1_mpk1_sa495"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="11408.224" y="19527.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa497_mpk1_mpk1_sa497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 5</p> <p>MEKK5</p> <p>HUGO:MAP3K5 HGNC:6857 ENTREZ:4217 UNIPROT:Q99683</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1 and the consequently liberalised ASK1 binds to TRAF2. Finally TRAF2 appears to activate ASK1 (by phosphorylation) by enhancing and stabilising the oligomerisation of ASK1.</p> </body> </html> </notes> <label text="MAP3K5"/> <bbox w="76.0" h="25.0" x="11508.224" y="19526.0"/> <glyph class="state variable" id="_7574e583-8eac-4317-ada0-f367a162ec05"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11500.724" y="19533.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1834_in_sa1834" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IFNG"/> <bbox w="78.0" h="37.0" x="19616.25" y="5225.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa50_wnc1_wnc1_csa50" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC2*:CK1_epsilon_*:CTHRC1:DVL*:FZD*:GSK3*:PAR6*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re77(MAP:survival):</p> <p>CK1 delta phosphorylates residues in cluster I: S84, S82, S79, T71 and in cluster II: S5, S8, S11, S14, S17, S20. Note: Experiments were performed in Xenopus</p> <p>PMID:21316585</p> <p>s_wnc1_re140(MAP:survival):</p> <p>PMID:11779461</p> <p>PMID:18256687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa50_wnc1_wnc1_csa50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11779461"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18256687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="381.0" h="196.0" x="14869.561" y="19600.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa344_wnc1_wnc1_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="14972.311" y="19621.5"/> <glyph class="unit of information" id="_0ec88ef0-8809-429f-a2af-f142b61f78c3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14989.811" y="19616.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa339_wnc1_wnc1_sa338"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15058.811" y="19677.5"/> <glyph class="state variable" id="_ae29b01d-5cb7-4cda-a8c3-863bc74e7377"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15053.814" y="19712.5"/> </glyph> <glyph class="state variable" id="_1610be36-362d-4535-94cf-8f5a4718459d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15130.944" y="19672.5"/> </glyph> <glyph class="state variable" id="_019887c2-9b9c-4702-8e6d-f1c8deb2953e"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15120.692" y="19712.5"/> </glyph> <glyph class="state variable" id="_378a464b-3464-455d-8784-a5dca6433ab1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15053.814" y="19672.5"/> </glyph> <glyph class="state variable" id="_7e7b8a53-3f20-42d5-b2ea-6b2e5095bf08"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15133.811" y="19672.5"/> </glyph> <glyph class="state variable" id="_91b79048-811a-4fca-86f2-e4bf73f009fe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15133.811" y="19712.5"/> </glyph> <glyph class="state variable" id="_41385a81-3d70-4959-9130-cabef67ded06"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15041.311" y="19712.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa335_wnc1_wnc1_sa335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15070.061" y="19628.0"/> <glyph class="unit of information" id="_011ac086-82b6-4ad3-882f-5b1bb70d570a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15087.561" y="19623.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa409_wnc1_wnc1_sa409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="14881.561" y="19725.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa342_wnc1_wnc1_sa342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="15157.561" y="19727.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa346_wnc1_wnc1_sa346"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="14887.311" y="19621.5"/> <glyph class="state variable" id="_54c1e60b-9151-46ea-bf81-6ad48a1193a6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14879.814" y="19616.5"/> </glyph> <glyph class="state variable" id="_1c1624ed-507c-4d88-af45-d037dd55a264"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14959.811" y="19616.5"/> </glyph> <glyph class="state variable" id="_3a131f73-b55f-4bb4-8c73-e416fc58261c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14959.811" y="19641.5"/> </glyph> <glyph class="state variable" id="_17ac6d87-98e1-4d45-8d0b-131404b1ebb1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14879.811" y="19641.5"/> </glyph> <glyph class="unit of information" id="_c257af6f-94f0-493a-8a99-d364e11f8914"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14904.811" y="19616.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa336_wnc1_wnc1_sa336"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15058.061" y="19605.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa663_wnc1_wnc1_sa663"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15173.561" y="19756.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa345_wnc1_wnc1_sa345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="14966.311" y="19727.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa343_wnc1_wnc1_sa343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15101.311" y="19606.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa341_wnc1_wnc1_sa341"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6 GENECARDS:ANAPC2 REACTOME:84976 KEGG:29882 ATLASONC:GC_ANAPC2 WIKI:ANAPC2 </p> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="15157.561" y="19685.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa339_wnc1_wnc1_sa339"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15058.811" y="19723.5"/> <glyph class="state variable" id="_d4081cb3-294f-4751-89c2-8c62db4f24ad"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15053.814" y="19758.5"/> </glyph> <glyph class="state variable" id="_5a4f2767-83b7-45a6-9632-3ec085c5e852"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15130.944" y="19718.5"/> </glyph> <glyph class="state variable" id="_9aa26612-ae1b-458f-89d8-d5fd31244efc"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15120.692" y="19758.5"/> </glyph> <glyph class="state variable" id="_415f7071-1aea-4032-a5de-56972b0bb21f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15053.814" y="19718.5"/> </glyph> <glyph class="state variable" id="_f14f92ac-513c-49c7-8a52-4fc727f19d62"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15133.811" y="19718.5"/> </glyph> <glyph class="state variable" id="_a42793f3-c59d-42e3-8156-ad3ca02894d2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15133.811" y="19758.5"/> </glyph> <glyph class="state variable" id="_a8b89ab9-2cad-4fe4-ad89-4825df9e43d3"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15041.311" y="19758.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa337_wnc1_wnc1_sa337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="14963.561" y="19679.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa347_wnc1_wnc1_sa347"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="14877.311" y="19675.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa348_wnc1_wnc1_sa348"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15154.061" y="19632.0"/> <glyph class="state variable" id="_d3868795-de13-4532-bb28-f48ba0dc1641"> <state value="P" variable="S864"/> <bbox w="35.0" h="10.0" x="15216.561" y="19627.266"/> </glyph> <glyph class="state variable" id="_6e3b70b8-8f7d-4453-add3-452ac3bea9cb"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15186.561" y="19677.0"/> </glyph> <glyph class="state variable" id="_02d656cc-8197-4183-9eda-7628cf2fd1b9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15149.064" y="19627.0"/> </glyph> <glyph class="state variable" id="_d5195696-77f8-4664-b790-3e73b9363709"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15226.561" y="19677.0"/> </glyph> <glyph class="unit of information" id="_f1f5052c-0209-47e5-b64e-9092a2e1c0f7"> <label text="receptor"/> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:17440449</p> <p>rew</p> <p>PMID:26885856</p> <p> GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa203_ad_sa203"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23758787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21074068"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF4"/> <clone/> <bbox w="80.0" h="50.0" x="30596.0" y="2485.0"/> <glyph class="unit of information" id="_7c3d1b0d-956d-41f4-9179-c3578455d107"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30613.5" y="2480.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa203_ad_sa205" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22437870</p> <p>OX40</p> <p>PMID:23758787 </p> <p>OX40 - TRAF1, 2, 3, 5, 6</p> <p>PMID:21074068</p> <p>Signaling Through OX40 Enhances Antitumor Immunity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa203_ad_sa205"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23758787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21074068"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF4"/> <clone/> <bbox w="80.0" h="50.0" x="30596.0" y="2585.0"/> <glyph class="unit of information" id="_1df3fa7e-39e4-4089-9694-81a84f3c42dc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30613.5" y="2580.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa330_in_sa330" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CFL1"/> <bbox w="80.0" h="40.0" x="17968.125" y="6555.0"/> <glyph class="state variable" id="_af1f0d25-6656-4711-affc-29e54d8d1f39"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17960.625" y="6570.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa795_rc_sa795" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:24267</p> </body> </html> </notes> <label text="gluconolactone-6P"/> <bbox w="123.0" h="28.0" x="18247.81" y="9995.25"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa355_emtc_em_csa355" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:COL2A1:Collagen2 partners*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Collagen1/Collagen1 partners)"/> <bbox w="189.0" h="64.0" x="5559.0" y="18901.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2498_emtc_em_sa2498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME: a2b1*</p> <p>ITGA2/ITGB1</p> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>fibronectin 1</p> <p>HUGO:FN1, HGNC:3778, ENTREZ:2335, UNIPROT:P02751, GENECARDS:GC02M216225</p> <p>NAME:a10b1*</p> <p>ITGA10/ITGB1</p> <p>integrin, alpha 10</p> <p>HUGO:ITGA10 HGNC:6135 ENTREZ:8515 UNIPROT:O75578</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Collagen2 partners*"/> <bbox w="120.0" h="20.0" x="5594.375" y="18926.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2497_emtc_em_sa2497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen, type II, alpha 1</p> <p>"collagen, type II, alpha 1 (primary osteoarthritis, spondyloepiphyseal dysplasia, congenital)", SEDC</p> <p>HUGO:COL2A1 HGNC:2200 ENTREZ:1280 UNIPROT:P02458</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="COL2A1"/> <bbox w="46.0" h="18.0" x="5630.125" y="18905.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa45_wca1_wca3_csa45" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:CTBP*:HDAC1_2*</p> <p>References:</p> <p>s_wca3_re106:(MAP:survival) PMID:12681518 PMID:16510874</p> <p>s_wca3_re107:(MAP:survival) PMID:15327769</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa45_wca1_wca3_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12681518"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327769"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:CTBP*:HDAC1_2*"/> <bbox w="98.0" h="161.0" x="21468.06" y="21722.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa285_wca1_wca3_sa285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="21475.06" y="21824.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa284_wca1_wca3_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> 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value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="21499.465" y="21767.0"/> </glyph> <glyph class="state variable" id="_88af1134-e9c3-4fcb-8050-44635f4a69a0"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="21539.56" y="21766.133"/> </glyph> <glyph class="state variable" id="_e6563431-e827-4128-a83a-4748d7adfb11"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="21499.592" y="21727.0"/> </glyph> <glyph class="state variable" id="_7229d69b-a21f-4c6d-af1b-5ed49568f530"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="21459.56" y="21766.72"/> </glyph> <glyph class="state variable" id="_161c783a-3384-4a56-b850-ad9182b079b0"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="21460.053" y="21727.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_wca1_wca3_sa290_wca1_wca3_sa290"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="86.0" h="46.0" x="21476.56" y="21779.5"/> <glyph class="unit of information" id="_d945cd07-98a9-4bec-8f67-74d83cfd09ea"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="21509.56" y="21774.5"/> </glyph> <glyph class="state variable" id="_867b82a2-0838-4b1c-9fe8-f35ee26cd628"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="21547.56" y="21774.744"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa12_wca1_wca1_csa12" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re19:(MAP:survival) PMID:17318175</p> <p>s_wca1_re34(MAP:survival):</p> <p>PMID:21498506 </p> <p>Membrane-bound AMER1 acts as scaffold and brings APC to the membrane</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa12_wca1_wca1_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="163.0" x="20484.56" y="17694.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa692_wca1_wca1_sa692"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20583.06" y="17782.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa57_wca1_wca1_sa57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20495.56" y="17792.5"/> <glyph class="state variable" id="_8768bdad-60fe-4edb-9cc4-eadbec99c9c4"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20483.553" y="17787.5"/> </glyph> <glyph class="state variable" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20591.06" y="17753.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa56_wca1_wca1_sa56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20495.56" y="17748.5"/> <glyph class="state variable" id="_ffddcd34-4eef-446d-92bc-266840959316"> 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variable" id="_5c866df3-6145-404a-b169-4a8660e143db"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20570.56" y="17743.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa427_wca1_wca1_sa427"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20495.56" y="17707.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa58_wca1_wca1_sa58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20579.56" y="17704.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2354_rc_sa2354" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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class="nucleic acid feature" id="s_id_wca1_wca4_sa22_wca1_wca4_sa22" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa22_wca1_wca4_sa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT5A"/> 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</rdf:RDF> </annotation> </extension> <label text="RAP1A"/> <bbox w="80.0" h="40.0" x="2535.06" y="21370.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa425_rc_csa425" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAPK1:UNC5B-DD*</p> </body> </html> </notes> <label text="DAPK1:UNC5B-DD*"/> <bbox w="100.0" h="120.0" x="19889.06" y="9239.0"/> <glyph class="macromolecule" id="s_id_rc_sa4155_rc_sa4155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>unc-5 homolog B (C. elegans)</p> <p>HUGO:UNC5B HGNC:12568 ENTREZ:219699 UNIPROT:Q8IZJ1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:21172648</p> <p>conformational changes of UNC5B death-domain enables binding of the PR65b subunit of PP2A</p> </body> </html> </notes> <label text="UNC5B-DD*"/> <bbox w="80.0" h="40.0" x="19899.06" y="9299.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4151_rc_sa4151"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-associated protein kinase 1</p> <p>HUGO:DAPK1 HGNC:2674 ENTREZ:1612 UNIPROT:P53355</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17703233</p> <p>DAP kinase regulates JNK signaling by binding and activating protein kinase D</p> </body> </html> </notes> <label text="DAPK1"/> <bbox w="80.0" h="40.0" x="19899.06" y="9249.0"/> <glyph class="state variable" id="_26e0100e-f387-41ad-bf2c-024ab3581962"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19917.492" y="9244.0"/> </glyph> <glyph class="state variable" 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<p>PMID:11395409</p> <p>PMID:19359428</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa8_wnc1_wnc1_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20223821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11395409"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19359428"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="15392.561" y="17874.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa19_wnc1_wnc1_sa19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα13q*"/> <bbox w="50.0" h="20.0" x="15343.061" y="17883.0"/> </glyph> </glyph> 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<rdf:Description rdf:about="#s_id_rc_sa2978_rc_sa2978"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TKTL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TKTL2"/> <bbox w="80.0" h="40.0" x="17979.06" y="10379.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa279_emtc_em_csa279" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cadherin*:_alpha_-Catenin*:_beta_-Catenin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:15609097</p> <p>CTNNB1 (beta-catenin) binds with high affinity to the distal Cadherin cytoplasmic tail.</p> <p>Cadherin recruits CTNNA1 (alpha-catenin) to the complex.</p> <p>CTNNA1 (alpha-catenin) binds to Actin filaments directly</p> <p>CTNNA1 (alpha-catenin) and can also associate with other actin-binding proteins (MLLT4 or Formin)</p> <p>CTNND1 (delta-catenin or p120) binds directly to Cadherin independently of the other catenins.</p> <p>Catenins/Cadherin complex can further interact with a range of singaling molecules which participate in either cellular signaling or control of cytoskeletal dynamics.</p> <p>Stability of Cadherin/Catenins complex and thereby the integrity of adherens junctions is controlled by phosphorylation/dephosphorylation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa279_emtc_em_csa279"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15609097"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(β-Catenin*/Cadherin*/α-Catenin*)"/> <bbox w="236.0" h="55.0" x="1464.0" y="15837.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1823_emtc_em_sa1823"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> <p>HUGO:CDH1, HGNC:1748, ENTREZ:999, GENECARDS:GC16P068771, UNIPROT:P12830</p> <p>cadherin 2, type 1, N-cadherin (neuronal)</p> <p>HUGO:CDH2, HGNC:1759, ENTREZ:1000, UNIPROT:P19022, GENECARDS:GC18M025465  </p> <p>cadherin 3, type 1, P-cadherin (placental)</p> <p>HUGO:CDH3, HGNC:1762, ENTREZ:1001, UNIPROT:P22223, GENECARDS:GC16P068679   </p> <p>cadherin 4, type 1, R-cadherin (retinal)</p> <p>HUGO:CDH4, HGNC:1763, ENTREZ:1002, UNIPROT:P55283, GENECARDS:GC20P059827 </p> <p>cadherin 5, type 2 (vascular endothelium)</p> <p>HUGO:CDH5, HGNC:1764, ENTREZ:1003, UNIPROT:P33151, GENECARDS:GC16P066400  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Cadherin*"/> <bbox w="75.0" h="20.0" x="1544.5" y="15842.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1774_emtc_em_sa1774"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="66.0" h="28.0" x="1470.75" y="15843.5"/> <glyph class="state variable" id="_9f8376fb-d581-4573-b5c2-a04d15048cec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1531.75" y="15838.5"/> </glyph> <glyph class="state variable" id="_bffb647b-4986-42ed-9134-bb8869b8effa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1465.75" y="15840.182"/> </glyph> <glyph class="state variable" id="_22b3f4cc-f8c6-4101-9d6f-81b446b2b5be"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1498.7762" y="15838.5"/> </glyph> <glyph class="state variable" id="_daf892aa-7f88-4840-b39b-363e6d30ba77"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1484.8287" y="15838.5"/> </glyph> <glyph class="state variable" id="_3d90c07d-fe98-48a9-a0e9-9992c0e4ba08"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1531.75" y="15864.858"/> </glyph> <glyph class="state variable" id="_59f5d98b-05c8-4150-8df6-66b1e9cf42e1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1511.961" y="15838.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1772_emtc_em_sa1772"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), alpha 1, 102kDa</p> <p>HUGO:CTNNA1 HGNC:2509 ENTREZ:1495 UNIPROT:P35221</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:16325583</p> <p>Monomeric CTNNA1 binds more strongly to E-cadherin/CTNNB1, whereas the dimer preferentially binds actin filaments</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="66.0" h="20.0" x="1626.75" y="15848.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa64_mpk1_mpk1_csa64" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GPCR*:GRK*</p> </body> </html> </notes> <label text="GPCR*:GRK*"/> <bbox w="81.0" h="81.0" x="9640.061" y="18931.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa316_mpk1_mpk1_sa316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adrenergic beta receptor kinase 1</p> <p>HUGO:ADRBK1 HGNC:289 ENTREZ:156 UNIPROT:P25098</p> <p>adrenergic beta receptor kinase 2</p> <p>HUGO:ADRBK2 HGNC:290 ENTREZ:157 UNIPROT:P35626</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> </body> </html> </notes> <label text="GRK*"/> <bbox w="50.0" h="25.0" x="9658.061" y="18964.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa590_mpk1_mpk1_sa590"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein-coupled receptor 1</p> <p>HUGO:GPR1 HGNC:4463 ENTREZ:2825 UNIPROT:P46091 </p> <p>G protein-coupled receptor 3</p> <p>HUGO:GPR3 HGNC:4484 ENTREZ:2827 UNIPROT:P46089 </p> <p>G protein-coupled receptor 4</p> <p>HUGO:GPR4 HGNC:4497 ENTREZ:2828 UNIPROT:P46093 </p> <p>G protein-coupled receptor 6</p> <p>HUGO:GPR6 HGNC:4515 ENTREZ:2830 UNIPROT:P46095 </p> <p>G protein-coupled receptor 12</p> <p>HUGO:GPR12 HGNC:4466 ENTREZ:2835 UNIPROT:P47775 </p> <p>G protein-coupled receptor 15</p> <p>HUGO:GPR15 HGNC:4469 ENTREZ:2838 UNIPROT:P49685 </p> <p>G protein-coupled receptor 17</p> <p>HUGO:GPR17 HGNC:4471 ENTREZ:2840 UNIPROT:Q13304 </p> <p>G protein-coupled receptor 18</p> <p>HUGO:GPR18 HGNC:4472 ENTREZ:2841 UNIPROT:Q14330 </p> <p>G protein-coupled receptor 19</p> <p>HUGO:GPR19 HGNC:4473 ENTREZ:2842 UNIPROT:Q15760 </p> <p>G protein-coupled receptor 20</p> <p>HUGO:GPR20 HGNC:4475 ENTREZ:2843 UNIPROT:Q99678</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylation of GPCR (by GRK) induces the activation of ERK cascade on eary endosomes.</p> </body> </html> </notes> <label text="GPCR*"/> <bbox w="66.0" h="26.0" x="9650.061" y="18943.0"/> <glyph class="state variable" id="_628eb06f-c973-4537-997b-ad49580cbd33"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9642.561" y="18951.0"/> </glyph> <glyph class="unit of information" id="_80168c7b-0850-419b-80df-3293e17018a3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9660.561" y="18938.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1375_ad_sa1375" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALING PMID:22017440 TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulationof Bcl-xL and Bfl-1 and down modulation of BIM protein ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALING PMID:22017440 TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulationof Bcl-xL and Bfl-1 and down modulation of BIM protein </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1375_ad_sa1375"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017440"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017440"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L11"/> <bbox w="70.0" h="25.0" x="28551.0" y="7442.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2664_rc_sa2664" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2664_rc_sa2664"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOS1"/> <bbox w="80.0" h="40.0" x="28179.06" y="10379.0"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa111_wca1_wca3_sa111" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca3_re19:(MAP:survival) PMID:16491118</p> <p>s_wca3_re38:(MAP:survival) PMID:18519670</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa111_wca1_wca3_sa111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16491118"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18519670"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CpG hyper-methylation"/> <bbox w="80.0" h="30.0" x="20960.06" y="22730.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa474_rc_csa474" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATG3:CFLAR</p> <p>References:</p> <p>PMID:19838173</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa474_rc_csa474"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19838173"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CFLAR:ATG3"/> <bbox w="100.0" h="120.0" x="29154.56" y="12219.5"/> <glyph class="macromolecule" id="s_id_rc_sa4472_rc_sa4472"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASP8 and FADD-like apoptosis regulator</p> <p>HUGO:CFLAR HGNC:1876 ENTREZ:8837 UNIPROT:O15519</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:15760909</p> <p>PMID:19838173</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce </p> </body> </html> </notes> <label text="CFLAR"/> <bbox w="80.0" 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molecule for efficient T cell priming, is enhanced in activated MDSC during mTOR inhibition</p> <p>This phenotype was not observed in moDCs, in which surface expression of CD80 and CD86 was inhibited by rapamycin.</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p>FLT3L induces Ag-presenting ability of Dcs. Probably via induction of surface expression of class II MHC and CD86.</p> <p>PMID:22076556, PMID:21220452 , PMID:24218453</p> <p>CD83 increases MHC II and CD86 on dendritic cells by opposing IL-10-driven MARCH1-mediated ubiquitination and degradation.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> PMID:15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:9359474</p> <p>DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.(DC derived from progressing metastases do not express CD86, probably its expression is inhibited by IL10 released by melanoma cells, such cells induce T-cell anergy.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>PMID:10477595, PMID:8920882, PMID:25215878</p> <p> PMID:11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II )</p> <p>PMID:25384214</p> <p>the stimulatory effect of TANs was partially abrogated in the presence of anti-CD54 and -CD86 blocking Abs</p> </body> </html> </notes> <label text="CD86"/> <bbox w="80.0" h="40.0" x="22310.0" y="8075.0"/> <glyph class="state variable" id="_198fd3c9-b6e1-4d99-aa1c-07b09ea49c97"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="22300.0" y="8090.0"/> </glyph> <glyph class="unit of information" id="_82397709-8153-4c85-8742-aed636a473c7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22327.5" y="8070.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3051_rc_sa3051" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3051_rc_sa3051"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENDOG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ENDOG"/> <bbox w="80.0" h="40.0" x="18975.06" y="16190.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2973_rc_sa2973" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2973_rc_sa2973"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FBP*"/> <bbox w="80.0" h="40.0" x="19259.06" y="9899.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1538_in_sa1538" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IRAK3"/> <bbox w="90.0" h="25.0" x="18830.0" y="2847.5"/> <glyph class="unit of information" id="_bab728ea-8929-44f5-8e8a-08eb86f1c2e4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="18865.0" y="2842.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa130_mo_sa130" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0There are 2 Smad binding element sites (SBE: E1 and E4) in PRL-3 promoter ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0There are 2 Smad binding element sites (SBE: E1 and E4) in PRL-3 promoter </body> </html> </notes> <label text="SBE promoter*"/> <bbox w="117.0" h="22.0" x="5110.5" y="10453.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa622_ad_sa622" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TREG</p> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:23433459</p> <p>PKCtheta in tregs.</p> <p>PMID:23886063; PMID:9738502 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> <p>PMID:17544292 ; PMID:23433459</p> <p>Protein kinase C theta (PKCtheta): a key player in T cell life and death.</p> <p>Mutation of the PKCθ gene leads to impaired receptor-induced stimulation of the transcription factors AP-1, NF-κB and NFAT, which results in defective T cell activation, and to aberrant expression of apoptosis-related proteins, resulting in poor T cell survival. Furthermore, PKCθ-deficient mice display defects in the differentiation of T helper subsets, particularly in Th2 and Th17-mediated inflammatory responses. </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT). </p> <p>PMID:23474202</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation </p> <p>GCK-like kinase (GLK), a SLP76-regulated kinase, was recently reported to phosphorylate directly PKCθ both in vitro and in primary T cells and T cell lines in response to TCR stimulation</p> <p> PMID:10746729 </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT).</p> <p>PMID:15536066</p> <p>Role for protein kinase Ctheta (PKCtheta) in TCR/CD28-mediated signaling through the canonical but not the non-canonical pathway for NF-kappaB activation.</p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>PMID:10652356</p> <p>The C2-like domain contains a tyrosine residue (Tyr-90), which is phosphorylated by the T cell tyrosine kinase Lck</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> <p>We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manner</p> <p>PKCθ was required for the survival of both activated CD4 and CD8+ T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa622_ad_sa622"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCQ"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23433459"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738502 "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17544292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23433459"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23474202"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10746729"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536066"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10652356"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17544292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15214048"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10652356"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536066"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCQ"/> <clone/> <bbox w="80.0" h="40.0" x="28726.0" y="3985.0"/> <glyph class="state variable" id="_78be2b2b-6f91-4eb5-8a5f-4d6ba3fed67f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28721.0" y="4000.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa622_ad_sa924" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TREG</p> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:23433459</p> <p>PKCtheta in tregs.</p> <p>PMID:23886063; PMID:9738502 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> <p>PMID:17544292 ; PMID:23433459</p> <p>Protein kinase C theta (PKCtheta): a key player in T cell life and death.</p> <p>Mutation of the PKCθ gene leads to impaired receptor-induced stimulation of the transcription factors AP-1, NF-κB and NFAT, which results in defective T cell activation, and to aberrant expression of apoptosis-related proteins, resulting in poor T cell survival. Furthermore, PKCθ-deficient mice display defects in the differentiation of T helper subsets, particularly in Th2 and Th17-mediated inflammatory responses. </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT). </p> <p>PMID:23474202</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation </p> <p>GCK-like kinase (GLK), a SLP76-regulated kinase, was recently reported to phosphorylate directly PKCθ both in vitro and in primary T cells and T cell lines in response to TCR stimulation</p> <p> PMID:10746729 </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT).</p> <p>PMID:15536066</p> <p>Role for protein kinase Ctheta (PKCtheta) in TCR/CD28-mediated signaling through the canonical but not the non-canonical pathway for NF-kappaB activation.</p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>PMID:10652356</p> <p>The C2-like domain contains a tyrosine residue (Tyr-90), which is phosphorylated by the T cell tyrosine kinase Lck</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> <p>We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. 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<body> <p>NAME:DVL1:FZD*:LRP5_6*:WNT*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Class I: WNT-1,3a,7,8a,8b activates canonical </p> <p>PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa321_emtc_em_csa321"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14747478"/> </rdf:Bag> 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integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544</p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097</p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703</p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704</p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705</p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221</p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7</p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9</p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755</p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706</p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5</p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098</p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904</p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905</p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5</p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744</p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014</p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC/16267 ENTREZ:51384 UNIPROT:Q9UBV4</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 </p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Class I: WNT-1,3a,7,8a,8b activates canonical </p> <p>PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="1250.5" y="18471.625"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2232_emtc_em_sa2232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38</p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332</p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1</p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1</p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467</p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353</p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084</p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461</p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144</p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="1189.0" y="18493.375"/> <glyph class="unit of information" id="_947d0fa3-919a-4338-9145-da8624567016"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1206.5" y="18488.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2233_emtc_em_sa2233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197</p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:075581</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> <p>PMID:19072724</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="63.0" h="49.0" x="1276.5" y="18493.875"/> <glyph class="unit of information" id="_0586cabd-1bdb-4857-a913-9f0366b81d54"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1285.5" y="18488.875"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa984_emtc_em_sa984"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled, dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1, HGNC:3084, ENTREZ:1855, UNIPROT:O14640 , GENECARDS:GC01M001262</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding, DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="DVL1"/> <bbox w="37.0" h="21.0" x="1186.0" y="18465.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa97_mpk1_mpk1_csa97" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K1:TNFRSF1B:TRAF2</p> </body> </html> </notes> <label text="MAP3K1:TNFRSF1B:TRAF2"/> <bbox w="180.0" h="86.0" x="10611.057" y="19757.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa517_mpk1_mpk1_sa517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 1 E3 ubiquitin protein ligase</p> <p>MEKK1 "mitogen-activated protein kinase kinase kinase 1"</p> <p>HUGO:MAP3K1 HGNC:6848 ENTREZ:4214 UNIPROT:Q13233</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MEKK1 (MAP3K1) is a key MAP3K.</p> <p>MEKK1 is significantly activated by TNF. Oligomerisation of TRAFs is sufficient to trigger MEKK1 binding. MEKK1 associates selectively with oligomerised TRAF2 in vivo in a TNF-dependent manner. MEKK1 can interact with Ras in a GTP-dependent manner. The GTP-dependent coupling of MEKK1 to Ras indicates that MEKK1 may be an effector for those agonists that recruit JNK through Ras-dependent mechanisms. MEKK1 selectively activates the endogenous JNK pathway. MEKK1 can activate MEK4 and MEK7 in vivo.</p> </body> </html> </notes> <label text="MAP3K1"/> <bbox w="73.0" h="26.0" x="10698.057" y="19789.615"/> <glyph class="state variable" id="_feec8ece-71e1-42cc-931f-723bd14ec313"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10690.557" y="19797.615"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa565_mpk1_mpk1_sa565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1B</p> <p>TNFR2</p> <p>HUGO:TNFRSF1B HGNC:11917 ENTREZ:7133 UNIPROT:P20333</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. 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h="25.0" x="4436.125" y="9425.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa442_mo_sa442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RPTOR</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="4341.125" y="9417.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa438_mo_sa438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rag guanine nucleotide exchange factor</p> </body> </html> </notes> <label text="Rag A/B*"/> <bbox w="80.0" h="40.0" x="4431.125" y="9317.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa440_mo_sa440"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MLST8</p> </body> </html> </notes> <label text="MLST8"/> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="4436.125" y="9355.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa291_mo_sa291" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="LEO1_binding partners*"/> <bbox w="160.0" h="20.0" x="3371.0" y="10838.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa54_ce_sa54" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2562_emtc_em_sa2562"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Plakoglobin*"/> <bbox w="103.0" h="18.0" x="2744.0" y="16818.0"/> <glyph class="unit of information" id="_45e93e88-f61a-4419-9282-e0bd884cb43d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2785.5" y="16813.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa82_ce_csa82" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BRCA1:FANCJ*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:15242590</p> <p>Phosphorylated FANCJ bound to BRCA1 activates HR. Dephosphorylated FANCJ bound to MLH1 activates TLS via POLH. 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Dephosphorylated FANCJ bound to MLH1 activates TLS via POLH. 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MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:IL13</p> <p>References:</p> <p>PMID:12401408</p> <p>IL13 is assosiated with M2 phenotype of macrophages</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:14610620</p> <p>Other receptor of IL13 is IL13RA2</p> <p>PMID:18451175, PMID:14657224</p> <p>IL13 signaling via IL13RA2 induces TGFB production in MDSC.</p> <p>PMID:18250477</p> <p>IL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:21097505</p> <p>IL-13 upregulates expression of SOCS1</p> <p>PMID:9535722</p> <p>IL13 induces phosporylation of IRS2 and PLCG1 which is probably a PLC responsible for downstream IL13 dependent Ca2+ mobilization signaling and assosiation of IRS2 and PLCG1</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <p>IL-13, IL-16, IL-18</p> 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Surprisingly, WASP localization was independent of the Cdc42 binding domain but required the proline-rich domain.</p> <p>PMID:14707117 </p> <p>mutation of tyrosine residue Y291, identified here as the major site of TCR-induced WASp tyrosine phosphorylation, abrogated induction of WASp tyrosine phosphorylation and its effector activities, including nuclear factor of activated T cell transcriptional activity, actin polymerization, and immunological synapse formation. TCR-induced WASp tyrosine phosphorylation was also disrupted in T cells lacking Fyn, a kinase shown here to bind, colocalize with, and phosphorylate WASp. By contrast, WASp was tyrosine dephosphorylated by protein tyrosine phosphatase (PTP)-PEST, a tyrosine phosphatase shown here to interact with WASp via proline, serine, threonine phosphatase interacting protein (PSTPIP)1 binding. Although Fyn enhanced WASp-mediated Arp2/3 activation and was required for synapse formation, PTP-PEST combined with PSTPIP1 inhibited WASp-driven actin polymerization and synapse formation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa457_ad_sa457"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11520460"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14707117"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WASP*"/> <bbox w="80.0" h="40.0" x="29626.0" y="5655.0"/> <glyph class="state variable" id="_32c1b4a9-775f-4df4-bbdc-0360909949a4"> <state value="P" variable="Tyr291"/> <bbox w="45.0" h="10.0" x="29603.5" y="5650.3296"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2788_rc_sa2788" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2788_rc_sa2788"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACSS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACSS2"/> <bbox w="80.0" h="40.0" x="18581.06" y="11911.0"/> <glyph class="state variable" id="_438b3de7-4206-41e6-bff1-98d8bd8b1643"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18632.629" y="11906.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa54_ca_csa54" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD2:SMAD7</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>PMID:23784029</p> <p>Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa54_ca_csa54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4216"/> <bbox w="100.0" h="120.0" x="3430.0" y="1340.0"/> <glyph class="macromolecule" id="s_id_ca_sa484_ca_sa484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 7</p> <p>HUGO:SMAD7 hgnc_id:HGNC:6773 HGNC:6773 ENTREZ:4092 UNIPROT:O15105</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>_INHIBITION_ANTITUMOR</p> <p>PMID:15265520,PMID:14722617</p> <p>SMAD7 has been shown to interact with the E3 ubiquitin ligases Smurf 1 and Smurf 2, recruiting them to TβR complexes and inducing the degradation of activated TβRI [20] and [21].</p> <p>PMID:11279127 </p> <p>Dominant-Negative Smad3 and Inhibitory Smad7 Expression Block TGF-β-induced ECM Promoter Activation in fibroblasts</p> <p>PMID:23784029</p> <p>mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation.</p> </body> </html> </notes> <label text="SMAD7"/> <bbox w="80.0" h="40.0" x="3440.0" y="1400.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa487_ca_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2 hgnc_id:HGNC:6768 HGNC:6768 ENTREZ:4087 UNIPROT:Q15796</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling in fibroblasts.</p> <p>For the TGF-β pathway, the Smad proteins, Smad2 and Smad3, are ligand-responsive</p> <p>PMID:16179589 </p> <p>NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.</p> <p>On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.</p> <p>Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylation</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="80.0" h="40.0" x="3440.0" y="1350.0"/> <glyph class="state variable" id="_78f2532f-25ab-4f08-bc38-26203a27c5d0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3435.0" y="1364.9681"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa197_ad_sa197" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22437870, PMID:20007250 </p> <p>REW</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa197_ad_sa197"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20007250"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD160"/> <clone/> <bbox w="80.0" h="50.0" x="26266.0" y="2565.0"/> <glyph class="unit of information" id="_21b8e9aa-8658-4275-8ba3-2200246d744b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26283.5" y="2560.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa197_ad_sa196" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22437870, PMID:20007250 </p> <p>REW</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa197_ad_sa196"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20007250"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD160"/> <clone/> <bbox w="80.0" h="50.0" x="26266.0" y="2465.0"/> <glyph class="unit of information" id="_9af50433-f5ce-4b65-9468-bfd1c37e5d2c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26283.5" y="2460.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa161_an_sa161" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Lymphangiogenesis"/> <bbox w="150.0" h="35.0" x="6087.0" y="6947.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_ad_sa919_ad_sa919" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa919_ad_sa919"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CHUK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKKα*"/> <bbox w="86.0" h="46.0" x="28153.0" y="5672.0"/> <glyph class="unit of information" id="_16d07f0a-3391-4ce0-b1f6-ac3693522c73"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="28186.0" y="5667.0"/> </glyph> <glyph class="state variable" id="_cb9caf2b-63d9-4011-8a1c-91000ac3e168"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28145.5" y="5690.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa291_emtc_em_sa291" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa291_emtc_em_sa291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB5"/> <bbox w="60.0" h="20.0" x="5075.059" y="17722.5"/> <glyph class="unit of information" id="_3eb82e5b-6e51-4223-8518-c735b0683d6b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5095.059" y="17717.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa233_ce_csa233" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AURKA:BRCA1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> </body> </html> </notes> <label text="AURCA/BRCA1"/> <bbox w="113.0" h="120.0" x="15473.473" y="15776.356"/> <glyph class="macromolecule" id="s_id_ce_sa1184_ce_sa1184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aurora kinase A</p> <p>HUGO:AURKA, HGNC:11393, ENTREZ:6790, UNIPROT:O14965</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>AURKA phosphorylates and activates CDC25B on Ser339 to allow G2/M transition </p> <p>PMID:19075565, PMID:20011137</p> </body> </html> </notes> <label text="AURKA"/> <bbox w="80.0" h="40.0" x="15490.807" y="15833.544"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1183_ce_sa1183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="15489.557" y="15788.544"/> <glyph class="state variable" id="_2d396a5c-ea79-47db-9d41-940851779551"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15561.643" y="15823.544"/> </glyph> <glyph class="state variable" id="_792ff156-65c2-4af4-8785-e175ff2e4056"> <state value="P" variable="S308"/> <bbox w="35.0" h="10.0" x="15472.057" y="15819.015"/> </glyph> <glyph class="state variable" id="_144f74f2-2fea-463d-bf24-59a5b7dd0636"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="15552.057" y="15788.782"/> </glyph> <glyph class="state variable" id="_2a446b56-a4e4-48d8-b706-fb068ac1be7c"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="15491.184" y="15783.544"/> </glyph> <glyph class="state variable" id="_bededd11-04ca-4424-874b-96f806f71d06"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="15509.309" y="15783.544"/> </glyph> <glyph class="state variable" id="_b8afbe44-12a5-4237-96c1-4c75440110bb"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="15472.057" y="15803.512"/> </glyph> <glyph class="state variable" id="_e3008dad-bd5b-4c01-8cb8-45d3c938e0d3"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="15529.418" y="15783.544"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa548_rc_sa548" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa548_rc_sa548"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PMAIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PMAIP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PMAIP1"/> <bbox w="90.0" h="25.0" x="21001.06" y="16044.5"/> <glyph class="unit of information" id="_7e67b4d5-83eb-455b-8f63-60321200010b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21036.06" y="16039.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa3644_rc_sa3644" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PYGL catalyzes the degradation of glycogen by releasing glucose-1-phosphate and so plays a key role in utilizing glycogen reserves as an energy source</p> </body> </html> </notes> <label text="Glycogen breakdown"/> <bbox w="140.0" h="25.0" x="20006.56" y="10156.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa70_in_sa70" compartmentRef="s_id_in_ca13_in_ca13"> <label text="TNFSF9"/> <bbox w="80.0" h="40.0" x="22920.0" y="8050.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2215_rc_sa2215" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:3880 KEGGCOMPOUND:C03263 CAS:2624-63-7</p> </body> </html> </notes> <label text="coproporphyrinogen III"/> <bbox w="70.0" h="25.0" x="18626.762" y="12991.081"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2521_rc_sa2521" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2521_rc_sa2521"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATPIF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATPIF1"/> <bbox w="80.0" h="40.0" x="21149.06" y="13869.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa72_ca_sa72" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa72_ca_sa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VIM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VIM"/> <bbox w="80.0" h="40.0" x="2240.0" y="4620.0"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa133_gf1_sa133" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:20430953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa133_gf1_sa133"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EREG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20430953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EREG"/> <bbox w="80.0" h="40.0" x="9285.561" y="17629.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa50_emtc_em_csa50" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD3:SMAD4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SMAD3 homodimer/SMAD4"/> <bbox w="126.0" h="104.0" x="5963.0" y="16682.875"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa431_emtc_em_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD3"/> 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overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> 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id="_73a96e57-796a-47c2-9795-48c662bcebac"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18992.5" y="1620.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa3_akt1_akt2_csa3" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO3:promoter_region</p> </body> </html> </notes> <label text="(FOXO_gene)"/> <bbox w="100.0" h="110.0" x="12197.561" y="20436.25"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa16_akt1_akt2_sa16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 ATLASONC:AF6q21ID125 WIKI:FOXO3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16288288</p> </body> </html> </notes> <label text="FOXO3"/> <bbox w="80.0" h="40.0" x="12205.061" y="20447.75"/> <glyph class="state variable" id="_6ef67202-c833-4499-a0dd-9328b68d2914"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12240.093" y="20442.75"/> </glyph> <glyph class="state variable" id="_775d14df-bbaf-4f44-96c9-c6ed9cfa7146"> <state value="" variable="S644"/> <bbox w="30.0" h="10.0" x="12190.061" y="20482.47"/> </glyph> <glyph class="state variable" id="_32e2788c-4872-488d-a21d-95eb8b066f36"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12197.561" y="20451.258"/> </glyph> <glyph class="state variable" id="_10dd93de-e659-4936-a98a-5b1a0e049aab"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12197.561" y="20460.307"/> </glyph> <glyph class="state variable" id="_f44d0382-be34-4cd3-a111-e14f9511004d"> <state value="" variable="T32"/> <bbox 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="12211.561" y="20496.75"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2803_rc_sa2803" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:37039</p> </body> </html> </notes> <label text="pyrimidine ribonucleoside 5'-diphosphate"/> <bbox w="263.0" h="33.0" x="19227.56" y="11852.75"/> </glyph> <glyph class="phenotype" id="s_id_em_sa1995_em_sa1995" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Chromosome stability"/> <bbox w="150.0" h="25.0" x="4850.0" y="14788.5"/> </glyph> <glyph class="complex" id="s_id_mo_csa1_mo_csa1" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>PMID:18078820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa159_in_csa159"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21097505"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL13RA1:MIR155"/> <bbox w="114.0" h="102.0" x="9833.0" y="3504.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa1052_in_sa1052"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13RA1"/> <bbox w="90.0" h="25.0" x="9849.375" y="3547.25"/> <glyph class="unit of information" id="_497ceaa9-f5e1-4f04-b9aa-cf8bddbe405a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="9884.375" y="3542.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1051_in_sa1051"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR155"/> <bbox w="90.0" h="25.0" x="9849.375" y="3523.25"/> <glyph class="unit of information" id="_90d2b397-6b78-4a44-9e3a-1701a1e09e2c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="9879.375" y="3518.25"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa43_wca1_wca3_csa43" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*</p> <p>References:</p> <p>s_wca3_re35(MAP:survival):</p> <p>CK2 phosphorylates TLE</p> <p>PMID:15367661</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa43_wca1_wca3_csa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15367661"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(CK2)"/> <bbox w="80.0" h="107.0" x="21941.06" y="21467.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa272_wca1_wca3_sa271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="30.0" h="30.0" x="21948.06" y="21517.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa272_wca1_wca3_sa272"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="30.0" h="30.0" x="21981.06" y="21517.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa269_wca1_wca3_sa269"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="30.0" h="30.0" x="21948.06" y="21482.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa270_wca1_wca3_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="30.0" h="30.0" x="21981.06" y="21482.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa231_in_sa231" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="GZMA "/> <bbox w="70.0" h="25.0" x="16495.0" y="6487.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa209_rc_csa209" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2-XL*:cleaved_BID*</p> </body> </html> </notes> <label text="BCL2L1:tBID"/> <bbox w="106.0" h="120.0" x="21933.31" y="13299.0"/> <glyph class="macromolecule" id="s_id_rc_sa1677_rc_sa1677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BH3 interacting domain death agonist</p> <p>HUGO:BID HGNC:1050 ENTREZ:637 UNIPROT:P55957</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="cleaved_BID*"/> <bbox w="80.0" h="40.0" x="21949.06" y="13349.0"/> <glyph class="state variable" id="_c5bc1910-daec-4847-94e6-a8fab07266e0"> <state value="My" variable=""/> <bbox w="20.0" h="10.0" x="21963.277" y="13384.0"/> </glyph> <glyph class="unit of information" id="_f718b0e9-5ad8-4c42-b99f-ce80d3f1aae2"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21964.06" y="13344.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1662_rc_sa1662"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa326_in_csa326"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16127449"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPARG/SUMO"/> <bbox w="100.0" h="120.0" x="11400.0" y="4190.0"/> <glyph class="macromolecule" id="s_id_in_sa2529_in_sa2529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PPARG"/> <bbox w="80.0" h="40.0" x="11410.0" y="4200.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2530_in_sa2530"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SUMO*"/> <bbox w="80.0" h="40.0" x="11410.0" y="4250.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2454_emtc_em_sa2454" 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGD1"/> <bbox w="39.0" h="16.0" x="6547.5" y="14304.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa151_ad_csa151" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5704"/> <bbox w="100.0" h="170.0" x="25926.0" y="2610.0"/> <glyph class="macromolecule" id="s_id_ad_sa1280_ad_sa1280"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:INPP5D</p> <p>CASCADE:TCR</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22483603</p> <p>SH2-domain containing inositol-5-phosphatase (SHIP) de-phosphorylates PI(3,4,5)P3 at the D5 position of the inositol ring to create PI(3,4)P2.</p> <p>PMID:12421919</p> <p>SHIP is tyrosine phosphorylated in response to CD28 and CD3 ligation in CEM and MOLT-4 cells</p> <p>(The human leukemic T cell lines Jurkat, CEM, MOLT-4, and HUT78)</p> <p>Differential expression of lipid phosphatases correlates with PKB phosphorylation levels</p> </body> </html> </notes> <label text="SHIP1*"/> <bbox w="80.0" h="40.0" x="25936.0" y="2675.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1279_ad_sa1279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>HUGO:KLRG1</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:27557510</p> <p>KLRG1 expression on T cells significantly increased in tumor microenvironment. KLRG1+ T cells exhibited poor proliferative capacity with decreased effector cytokine production.</p> <p>PMID:17307799</p> <p>KLRG1 contains one ITIM motif in its cytoplasmic domain, which mediates its effects through the recruitment of SHIP-1 and SHP-2 phosphatases and a tyrosine residue at position 7 in the ITIM</p> <p>KLRG1 recruits both SHIP-1 and SHP-2 but not SHP-1 in T cell hybridoma DO11</p> <p>KLRG1 ligation partially inhibits T cell activation.</p> <p> partial inhibition of IL-2 production and TGFB production</p> <p>PMID:19406987; PMID:19479342 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1</p> <p>senescence-associated receptor KLRG1</p> <p> PMID:27557510</p> <p>KLRG1 expression on T cells significantly increased in tumor microenvironment. KLRG1+ T cells exhibited poor proliferative capacity with decreased effector cytokine production. Meanwhile, KLRG1+ T cells expressed abundant pro-inflammatory cytokines and demonstrated high level of Foxp3 expression. KLRG1+ T cells showed decreased expression of miRNA-101 and higher expression of CtBP2.</p> <p>We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts </p> </body> </html> </notes> <label text="KLRG1"/> <bbox w="80.0" h="50.0" x="25936.0" y="2620.0"/> <glyph class="unit of information" id="_beb24aa4-a172-42d0-9187-1a106c9b0965"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25953.5" y="2615.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1281_ad_sa1281"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:PD1</p> <p>HUGO:PTPN11</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:11572860</p> <p>Gab2 is phosphorylated by ZAP-70, is associated with the TCR signaling complex, and acts as an inhibitory adaptor molecule via recruitment of SHP-2 upon TCR engagement</p> <p> CD247 chain has been reported to be a substrate of SHP-2 in T cells (12), we examined the phosphorylation levels of CD267 in these lines after TCR engagement by immunoprecipitation with anti-CD247 mAb,followed by blotting with anti-PY mAb. As shown in Fig. 3 D, the phosphorylation levels of theCD247 chain were attenuated by Gab2(WT) expression but not by Gab2(Y614F). Therefore, the inhibitory function of Gab2 is mediated, at least in part, through SHP-2-dependent dephosphorylation of the CD247 chain.</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> </body> </html> </notes> <label text="PTPN11"/> <bbox w="80.0" h="40.0" x="25936.0" y="2720.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa102_in_csa102" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s1861"/> <bbox w="100.0" h="120.0" x="16995.0" y="2970.0"/> <glyph class="macromolecule" id="s_id_in_sa694_in_sa694"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ARF6"/> <bbox w="80.0" h="40.0" x="17005.0" y="2980.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa695_in_sa695"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="63.0" h="27.0" x="17013.75" y="3026.875"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa147_ad_csa147" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5672"/> <bbox w="200.0" h="150.0" x="25346.0" y="2755.0"/> <glyph class="macromolecule" id="s_id_ad_sa1252_ad_sa1252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:PD1</p> <p>HUGO:PTPN11</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:11572860</p> <p>Gab2 is phosphorylated by ZAP-70, is associated with the TCR signaling complex, and acts as an inhibitory adaptor molecule via recruitment of SHP-2 upon TCR engagement</p> <p> CD247 chain has been reported to be a substrate of SHP-2 in T cells (12), we examined the phosphorylation levels of CD267 in these lines after TCR engagement by immunoprecipitation with anti-CD247 mAb,followed by blotting with anti-PY mAb. As shown in Fig. 3 D, the phosphorylation levels of theCD247 chain were attenuated by Gab2(WT) expression but not by Gab2(Y614F). Therefore, the inhibitory function of Gab2 is mediated, at least in part, through SHP-2-dependent dephosphorylation of the CD247 chain.</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> </body> </html> </notes> <label text="PTPN11"/> <bbox w="80.0" h="40.0" x="25456.0" y="2815.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1253_ad_sa1253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:INPP5D</p> <p>CASCADE:TCR</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22483603</p> <p>SH2-domain containing inositol-5-phosphatase (SHIP) de-phosphorylates PI(3,4,5)P3 at the D5 position of the inositol ring to create PI(3,4)P2.</p> <p>PMID:12421919</p> <p>SHIP is tyrosine phosphorylated in response to CD28 and CD3 ligation in CEM and MOLT-4 cells</p> <p>(The human leukemic T cell lines Jurkat, CEM, MOLT-4, and HUT78)</p> <p>Differential expression of lipid phosphatases correlates with PKB phosphorylation levels</p> </body> </html> </notes> <label text="SHIP1*"/> <bbox w="80.0" h="40.0" x="25356.0" y="2815.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa223_ad_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:26755705</p> <p>CD112R, Identification of CD112R as a novel checkpoint for human T cells</p> <p>Signal through CD112R inhibits TCR-mediated signal</p> <p>SHIP was strongly associated with CD112R in untreated Molt4 cells, and pervanadate treatment further increased this interaction (Fig. 2 J). SHP-1 and SHP-2 weakly associated with CD112R in untreated Molt4 cells, but these associations were enhanced greatly upon pervanadate treatment</p> <p>when CD112R was used as a competitor, the CD112–CD226 interaction was significantly inhibited even in a relatively low concentration. Thus, our competition studies indicate that CD112R and CD226 share a common binding site on CD112.</p> <p>CD112 interacts with CD112R to suppress T cell response </p> </body> </html> </notes> <label text="PVRIG"/> <bbox w="80.0" h="50.0" x="25356.0" y="2760.0"/> <glyph class="state variable" id="_e1ee003b-cdc4-405a-b8c1-2573c8a68dec"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="25348.5" y="2780.0"/> </glyph> <glyph class="unit of information" id="_8177484b-8bd5-46b8-ae55-6f6f0af59711"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25373.5" y="2755.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1251_ad_sa1251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:PD1</p> <p>HUGO:PTPN6</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> </body> </html> </notes> <label text="PTPN6"/> <bbox w="80.0" h="40.0" x="25456.0" y="2765.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa40_wnc1_wnc2_csa40" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ROR2:TAB1:TAB2:TAK1*</p> <p>References:</p> <p>s_wnc2_re74:(MAP:survival) PMID:18762249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa40_wnc1_wnc2_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18762249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROR2/TAK1/TAB1/TAB2"/> <bbox w="287.0" h="145.0" x="17338.186" y="19943.0"/> <glyph class="macromolecule" id="s_id_wnc1_sa1010_wnc1_sa1010"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family, member 3</p> <p>INT4</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3</p> <p>Map modules:</p> </body> </html> </notes> <label text="WNT3"/> <bbox w="40.0" h="22.0" x="17372.06" y="19953.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_sa1009_wnc1_sa1009"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17352.06" y="19973.0"/> <glyph class="unit of information" id="_a114cadb-9f06-44da-afae-1f11ced03d1e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17369.56" y="19968.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa226_wnc1_wnc2_sa226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 GENECARDS:TAB1 REACTOME:65612 KEGG:10454 ATLASONC:GC_TAB1 WIKI:TAB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB1"/> <bbox w="80.0" h="40.0" x="17448.186" y="20012.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa225_wnc1_wnc2_sa225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="17448.186" y="19971.0"/> <glyph class="state variable" id="_6ba93e6f-218e-4165-be06-53e427d681f8"> <state value="P" variable="T187"/> <bbox w="35.0" h="10.0" x="17431.178" y="19966.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa227_wnc1_wnc2_sa227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>MAP3K7IP2 "mitogen-activated protein kinase kinase kinase 7 interacting protein 2"</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 GENECARDS:TAB2 REACTOME:168084 KEGG:23118 ATLASONC:GC_TAB2 WIKI:TAB2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB2"/> <bbox w="80.0" h="40.0" x="17532.186" y="19971.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa228_wnc1_wnc2_sa228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="17353.06" y="20016.5"/> <glyph class="state variable" id="_6705fd31-bbe7-4e73-9283-999ebf3b21a8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17345.564" y="20011.5"/> </glyph> <glyph class="state variable" id="_b83245a0-0a8f-4223-8a2d-32df19f5d8be"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17428.06" y="20061.5"/> </glyph> <glyph class="state variable" id="_c3771d9c-1971-4fcc-9c26-021aa90de71a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17388.06" y="20061.5"/> </glyph> <glyph class="state variable" id="_26244e76-52d1-4fe1-ac72-f33ab26bfc14"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="17418.06" y="20011.766"/> </glyph> <glyph class="unit of information" id="_cd50effb-86ab-4680-9a96-e9fa32eb3d4b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17370.56" y="20011.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4903_rc_sa4903" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4903_rc_sa4903"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSD17B8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RING2"/> <bbox w="80.0" h="40.0" x="28201.326" y="16204.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa4_emtc_em_sa4" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa4_emtc_em_sa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZEB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZEB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZEB1"/> <bbox w="40.0" h="20.0" x="4298.0" y="16322.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa840_in_sa840" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="KLRB1"/> <bbox w="70.0" h="25.0" x="10600.0" y="2007.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa168_emtc_em_csa168" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAK1:p53*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:15077116</p> <p>p53 has a direct signalling role at mitochondria in the induction of apoptosis</p> <p>p53 interacts with the pro- apoptotic mitochondrial membrane protein Bak. Interaction of p53 with Bak causes oligomerization and thus activation of Bak and release of cytochrome c from mitochondria.</p> <p>Formation of the p53–Bak complex coincides with loss of an interaction between Bak and the anti-apoptotic Bcl2-family member Mcl1. </p> <p>These results are consistent with a model in which p53 and Mcl1 have opposing effects on mitochondrial apoptosis by interacting with, and modulating the activity of, the death effector Bak.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa168_emtc_em_csa168"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15077116"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAK1/TP53"/> <bbox w="70.0" h="65.0" x="4626.0" y="13621.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa929_emtc_em_sa929"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1, HGNC:949, ENTREZ:578, UNIPROT:Q16611, GENECARDS:GC06M033489</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="39.0" h="19.0" x="4635.5" y="13624.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa928_emtc_em_sa928"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53 </p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:P04637, GENECARDS:GC17M007565</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21518799</p> <p>p53 activates MIR200C</p> <p>PMID:21483453</p> <p>p53 activates microRNAs</p> <p>PMID:21336307</p> <p>p53 activates MIR34</p> <p>PMID:17823410</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="p53*"/> <bbox w="37.0" h="20.0" x="4636.5" y="13645.5"/> <glyph class="state variable" id="_5e2b87f0-4647-482f-9cd8-7adbb846f600"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4668.5" y="13646.357"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1148_emtc_em_sa1148" 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y="4855.0"/> <glyph class="macromolecule" id="s_id_ad_sa1122_ad_sa1122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MAP3K7 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>CELL:TREG</p> <p>References:</p> <p> PMID:15125833</p> <p>The TRAF6 ubiquitin ligase and TAK1 kinase mediate IKK activation by BCL10 and MALT1 in T lymphocytes.</p> <p>PMID:24403530 </p> <p>the activation of MKK4 and IKK is inhibited by DUSP14; thus, DUSP14 may function upstream of both MKK4 and IKK upon T cell activation</p> <p>The phosphorylation levels of the TAB1–TAK1 complex and its downstream molecules, including JNK and IκB kinase, were enhanced in DUSP14-deficient T cells upon stimulation. </p> <p>The enhanced JNK and IKK, but not ERK, activation of DUSP14-deficient T cells was attenuated by TAB1 shRNA knockdown</p> <p>PMID:17363905 </p> <p>PKC-θ regulates TGF-β–activated kinase 1 (TAK1), a member of the MAPKK kinase family, leading to activation of IKK and NF-κB in a CARMA1-independent manner in the TCR pathway</p> <p>TAK1 activation was significantly inhibited with the pretreatment of the PKC inhibitor in both Jurkat and JPM50.6 cells (Figure 6A, lower panels). Together, these results suggest that PKC functions upstream of TAK1 and TAK1 regulates IKKα/β phosphorylation in the TCR signaling pathway.</p> <p>PKCθ, TAK1, and IKK assemble into a complex in a signal‐dependent but CARMA1‐independent manner, whereas BCL10 and MALT1 require CARMA1 to associate with the PKCθ–TAK1–IKK complex. Together, our results suggest a model in which TAK1 functions downstream of PKC and phosphorylates IKKα/β in a CARMA1‐independent manner, and, together with CARMA1‐dependent ubiquitination of NEMO, leads to activation of the IKK complex and NF‐κB in antigen receptor signaling pathways</p> <p>PMID:22941947</p> <p>TAK1 can also activate MKK4/7 and MKK3/6, resulting in the activation of JNK and p38, respectively. </p> <p>PMID:16799562 </p> <p>Thymic generation of Treg cells requires TAK1</p> <p>Foxp3 and Cd25 mRNA was also much lower in TAK1-deficient CD4 SP thymocytes, indicating that the reduced Foxp3 and CD25 were a result of decreased expression of their mRNA</p> <p>IL-7-mediated T cell survival depends on TAK1</p> <p>TAK1 is required for TCR-mediated cellular responses and NF-B and Jnk activation in mature thymocytes.</p> <p>TCR-induced Jnk but not NF-B in effector T cells requires TAK1</p> <p>TAK1 is essential for IL-2-, IL-7- and IL-15-mediated p38 activation in effector T cells.</p> <p>PMID:17363905</p> <p>TAK1 is essential for JNK and NF-κB activation during TCR signaling in primary T cells</p> <p>PMID:20164171</p> <p>a novel site in ADAP that is critical for association with the TAK1 kinase. ADAP is critical for recruitment of TAK1 and the CBM complex, but not IKK, to protein kinase C-theta. ADAP is not required for TAK1 activation. Although both the TAK1 and the CARMA1 binding sites in ADAP are essential for IkappaB alpha phosphorylation and degradation and NF-kappaB nuclear translocation, only the TAK1 binding site in ADAP is necessary for IKK phosphorylation. In contrast, only the CARMA1 binding site in ADAP is required for ubiquitination of IKKgamma. Thus, distinct sites within ADAP control two key activation responses that are required for NF-kappaB activation in T cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MAP3K7"/> <bbox w="80.0" h="40.0" x="26446.0" y="4865.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1121_ad_sa1121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TAB1</p> <p>HUGO:TAB2</p> <p>HUGO:TAB3</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16200688; PMID:15282297 </p> <p>TAB1 activates p38 in T-cells</p> <p>PMID:24403530</p> <p>DUSP14 directly interacted with TGF-β-activated kinase 1 (TAK1)-binding protein 1 (TAB1) and dephosphorylated TAB1 at Ser(438), leading to TAB1-TAK1 complex inactivation in T cells.</p> </body> </html> </notes> <label text="TAB*"/> <bbox w="80.0" h="40.0" x="26446.0" y="4905.0"/> <glyph class="state variable" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD11b*"/> <bbox w="80.0" h="50.0" x="17797.5" y="1330.0"/> <glyph class="unit of information" id="_978a14ff-5e49-49c9-89ae-89022f58dff4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17815.0" y="1325.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa676_in_sa676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD18*"/> <bbox w="80.0" h="50.0" x="17792.5" y="1375.0"/> <glyph class="unit of information" id="_5e700042-cf4d-489e-bb6e-1e0941027a50"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17810.0" y="1370.0"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa2853_rc_sa2853" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="Cell cycle"/> <bbox w="80.0" h="30.0" x="22201.56" y="16409.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa74_mo_sa74" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>poly(rC) binding protein 1 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa74_mo_sa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PCBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCBP1"/> <bbox w="80.0" h="40.0" x="5880.0" y="10307.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1205_emtc_em_sa1205" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1205_emtc_em_sa1205"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:THBS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="THBS2"/> <bbox w="42.0" h="17.0" x="1369.969" y="19237.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3801_rc_sa3801" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <label text="Fe2+"/> <bbox w="25.0" h="25.0" x="20516.56" y="11106.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa879_rc_sa879" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:18021 KEGGCOMPOUND:C00074 CAS:73-89-2</p> </body> </html> </notes> <label text="phosphoenolpyruvate"/> <bbox w="138.0" h="26.0" x="18670.201" y="11046.199"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa553_in_sa553" compartmentRef="s_id_in_ca13_in_ca13"> <label text="DNAM1*"/> <bbox w="80.0" h="50.0" x="17452.5" y="1305.0"/> <glyph class="state variable" id="_862f0fa8-4de0-4e40-be4e-3f69da22b832"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17447.5" y="1333.554"/> </glyph> <glyph class="state variable" id="_655d8b1c-9b14-41a0-a623-cdb2b2cb099f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17447.5" y="1307.2045"/> </glyph> <glyph class="unit of information" id="_38320ba6-1ba5-4cfd-b318-0191985417c6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17470.0" y="1300.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa49_wnc1_wnc1_csa49" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC2*:CK1_epsilon_*:CTHRC1:DVL*:FZD*:GSK3*:PAR6*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re76(MAP:survival):</p> <p>PMID:21078818</p> <p>PMID:15375164</p> <p>s_wnc1_re77(MAP:survival):</p> <p>CK1 delta phosphorylates residues in cluster I: S84, S82, S79, T71 and in cluster II: S5, S8, S11, S14, S17, S20. Note: Experiments were performed in Xenopus</p> <p>PMID:21316585</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa49_wnc1_wnc1_csa49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21078818"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15375164"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="384.0" h="202.0" x="14870.561" y="19869.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa321_wnc1_wnc1_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15071.061" y="19897.0"/> <glyph class="unit of information" id="_2e9c780f-666d-4235-bd28-490ca13a2e39"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15088.561" y="19892.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa324_wnc1_wnc1_sa324"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="14964.561" y="19948.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa328_wnc1_wnc1_sa328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6 GENECARDS:ANAPC2 REACTOME:84976 KEGG:29882 ATLASONC:GC_ANAPC2 WIKI:ANAPC2 </p> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="15158.561" y="19954.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa326_wnc1_wnc1_sa326"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15059.811" y="19992.5"/> <glyph class="state variable" id="_b4f2fc1b-cd24-4879-abcc-5170fc5c6f0e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15054.814" y="20027.5"/> </glyph> <glyph class="state variable" id="_834c3e60-1c5c-446e-8488-d100d03d9169"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15131.944" y="19987.5"/> </glyph> <glyph class="state variable" id="_0d06d5ac-a1ed-4358-91d7-29db6279b0cc"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15121.692" y="20027.5"/> </glyph> <glyph class="state variable" id="_d3913ebd-44eb-4fa6-a967-6d10d2baefa4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15054.814" y="19987.5"/> </glyph> <glyph class="state variable" id="_83e1df12-5cd7-4dc8-af3a-41b53462ccff"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15134.811" y="19987.5"/> </glyph> <glyph class="state variable" id="_cf1f9164-a41a-4327-80d7-7588cb28ca6c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15134.811" y="20027.5"/> </glyph> <glyph class="state variable" id="_f1dd946a-a577-4315-aff9-00c7f7181556"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15042.311" y="20027.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa410_wnc1_wnc1_sa410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="14876.561" y="19997.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa662_wnc1_wnc1_sa662"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15180.561" y="20024.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa329_wnc1_wnc1_sa329"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="15158.561" y="19996.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa323_wnc1_wnc1_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15059.061" y="19874.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa331_wnc1_wnc1_sa331"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="14973.311" y="19890.5"/> <glyph class="unit of information" id="_4698b5d1-8915-4233-a3fc-a40c06e71b2a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14990.811" y="19885.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa326_wnc1_wnc1_sa325"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15061.811" y="19946.5"/> <glyph class="state variable" id="_d30984cb-8d7f-4d5d-8b1e-c451ae00eef7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15056.814" y="19981.5"/> </glyph> <glyph class="state variable" id="_4ef38be2-8efe-4a3f-91a2-454cc7c50718"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15133.944" y="19941.5"/> </glyph> <glyph class="state variable" id="_8815c0c0-d995-4876-b171-5e077aa5466a"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15123.692" y="19981.5"/> </glyph> <glyph class="state variable" id="_b0d26b75-a9fc-4cf6-ba56-aaf989b054e3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15056.814" y="19941.5"/> </glyph> <glyph class="state variable" id="_2c9fe383-6cb3-4c9a-a0a1-b3e16314aea6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15136.811" y="19941.5"/> </glyph> <glyph class="state variable" id="_e0e8f974-f87d-4b9a-8735-43d3456a9f3d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15136.811" y="19981.5"/> </glyph> <glyph class="state variable" id="_e3be4db6-07f5-4b5d-9e6a-9b19b94a2397"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15044.311" y="19981.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa333_wnc1_wnc1_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="14888.311" y="19890.5"/> <glyph class="state variable" id="_8c50462f-2273-4520-bba5-33ee6c2215b8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14883.314" y="19885.5"/> </glyph> <glyph class="state variable" id="_34db08f1-9eed-4b83-b03f-0e60729e7b39"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14963.311" y="19885.5"/> </glyph> <glyph class="state variable" id="_8cdd6b5e-7e9c-4c55-802d-fc569dff0d54"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14963.311" y="19910.5"/> </glyph> <glyph class="state variable" id="_63a05986-14bd-4bff-ad79-c4ef03f58043"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14883.311" y="19910.5"/> </glyph> <glyph class="unit of information" id="_03d68ccb-32af-4d6a-ba37-26082c2add00"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14905.811" y="19885.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa322_wnc1_wnc1_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15155.061" y="19901.0"/> <glyph class="state variable" id="_bf4b234a-f28d-4088-ba52-9d1ba21aeae8"> <state value="P" variable="S864"/> <bbox w="35.0" h="10.0" x="15217.561" y="19896.266"/> </glyph> <glyph class="state variable" id="_429146e7-937b-4bc1-b5b5-cf7ad374fe40"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15187.561" y="19946.0"/> </glyph> <glyph class="state variable" id="_3a3f69cf-59f7-4651-ae31-656b52c92dfd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15150.064" y="19896.0"/> </glyph> <glyph class="state variable" id="_ca95f448-246c-42a7-bdf1-9a86b1b57ff6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15227.561" y="19946.0"/> </glyph> <glyph class="unit of information" id="_3a27feb2-e6cc-47f1-b23b-e4170cfcbfbf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15172.561" y="19896.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa332_wnc1_wnc1_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="14964.311" y="19999.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa330_wnc1_wnc1_sa330"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15102.311" y="19875.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa334_wnc1_wnc1_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="14878.311" y="19944.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3378_rc_sa3378" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3378_rc_sa3378"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAPDH"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAPDHS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label 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<p>IL10 expression in macrophages is assosiated</p> <p>with TAM (M2) phenotype.</p> <p>PMID:10542212</p> <p>IL10 promotes M2 phenotype of macrophages</p> <p> trough suppression of NFkB signaling</p> <p>and inhibition of synthesis of pro-inflammatory cytokines.</p> <p>PMID:11875494</p> <p>IL10 stimulates HO1 expression via MAPK p38 stimulation.</p> <p>PMID:16713974, PMID:14607900</p> <p>IL10 and Stat3 mediate feedback inhibition of TLR signaling. TLR2/TLR4 induces</p> <p>IL10 expression. IL10 inhibits exppression of TNF downstream of TLR.</p> <p>PMID:16713974</p> <p>Production of IL10 is partially ERK dependent.</p> <p>PMID:21191065</p> <p> regulatory effect of galectin-1 is mediated, in part, through its ability to induce, in an Id3 (inhibitor of DNA binding 3)-dependent manner, the expression of IL-10 in monocytes and MdDCs.</p> <p>At the same tyme IL10 siglaning also participates in ID3 upregulation via PI3K/AKT pathway</p> <p>PMID:17404308</p> <p>CSF1 induces IL10 and CCL2 mRNA expression in macrophages</p> <p>PMID:9834059</p> <p>NK cells stimulated by IL12 induces IL10 production.</p> <p>PMID:11207245</p> <p>IFNA induces IL10 production in Dcs (negative loop)</p> <p>PMID:21220452</p> <p>that IL-10 increased March1 mRNA by approximately six fold</p> <p>PMID:15579430</p> <p>Metastatic Melanoma Secreted IL-10 Down-Regulates CD1(CD1a, CD1b, CD1c, and CD1d) protein Molecules on Dendritic Cells in Metastatic Tumor Lesions (</p> <p>PMID:16424049</p> <p>IFNG induces INOS 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa370_akt1_akt1_sa370"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ENOS*"/> <bbox w="80.0" h="40.0" x="13646.061" y="17850.5"/> <glyph class="state variable" id="_d2247789-b96c-4820-8d86-e3a9d895dfc5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13721.061" y="17845.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa151_emtc_em_csa151" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:HRAS:RAF1:YWHAB</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa151_emtc_em_csa151"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9069260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HRAS_GTP/RAF1/YWHAB"/> <bbox w="129.0" h="114.0" x="6287.0" y="13234.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa821_emtc_em_sa821"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf-1 murine leukemia viral oncogene homolog 1</p> <p>HUGO:RAF1, HGNC:9829, ENTREZ:5894 , GENECARDS:GC03M012625, UNIPROT:P04049</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:9069260</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB.</p> <p>YWHAB binds to RAF1 via the Ser259 phosphorylation site.</p> <p>This interaction stabilises the inactive conformation of RAF1, in which the RAS-binding Cysteine-rich doomain (CRD) is obscured.</p> <p>RAF1 contains an additional RAS-binding domain (RBD).</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RAF1"/> <bbox w="99.0" h="43.0" x="6307.0" y="13266.5"/> <glyph class="state variable" id="_3a3c6241-9f8d-4733-83e9-060d2e986fb3"> <state value="open" variable=""/> <bbox w="30.0" h="10.0" x="6341.5" y="13261.5"/> </glyph> <glyph class="state variable" id="_51faac3d-b5d9-4e5f-8fe0-8947639506fc"> <state value="P" variable="S259"/> <bbox w="35.0" h="10.0" x="6289.5" y="13261.602"/> </glyph> <glyph class="state variable" id="_17f2ba4d-e74d-4803-8064-63f3adda408f"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="6396.0" y="13283.0"/> </glyph> <glyph class="state variable" id="_25486311-14fe-4534-b951-bcba4267818f"> <state value="" variable="Y340"/> <bbox w="30.0" h="10.0" x="6390.465" y="13261.5"/> </glyph> <glyph class="state variable" id="_47e90368-ef9d-4a58-bbf6-2a4e2b308e29"> <state value="" variable="Y341"/> <bbox w="30.0" h="10.0" x="6389.928" y="13304.5"/> </glyph> <glyph class="state variable" id="_98bb7334-a388-4699-95f6-87f93157dc5c"> <state value="" variable="S338"/> <bbox w="30.0" h="10.0" x="6292.0" y="13282.966"/> </glyph> <glyph class="state variable" id="_ebcdac13-57a2-415f-ab56-09a473782559"> <state value="P" variable="S621"/> <bbox w="35.0" h="10.0" x="6289.5" y="13303.37"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa820_emtc_em_sa820"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6355.0" y="13237.5"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2174_em_sa2174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HUGO:HRAS, HGNC:5173, ENTREZ:3265, GENECARDS:GC11M000522, UNIPROT:P01112</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HRAS"/> <bbox w="40.0" h="18.0" x="6297.3335" y="13239.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa822_emtc_em_sa822"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB, HGNC:12849, ENTREZ:7529, GENECARDS:GC20P043515, UNIPROT:P31946 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>YWHAB is so-called 14-3-3 alpha/beta</p> <p>PMID:9069260</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="YWHAB"/> <bbox w="60.0" h="20.0" x="6324.0" y="13311.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa217_rc_csa217" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2A1:BCL2L11</p> </body> </html> </notes> <label text="BCL2A1:BCL2L11"/> <bbox w="104.0" h="120.0" x="21715.31" y="13569.0"/> <glyph class="macromolecule" id="s_id_rc_sa1696_rc_sa1696"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>synonym:BIM</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="80.0" h="40.0" x="21729.06" y="13629.0"/> <glyph class="state variable" id="_af2c4ce5-64da-4834-827f-fa30a9173f60"> <state value="" 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text="BCL2A1"/> <bbox w="80.0" h="40.0" x="21725.31" y="13582.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1272_in_sa1272" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL12p35*"/> <bbox w="90.0" h="25.0" x="20651.25" y="5312.5"/> <glyph class="unit of information" id="_7602a6be-7a62-48d0-9786-ad829ea57919"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20686.25" y="5307.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2570_emtc_em_sa2570" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2570_emtc_em_sa2570"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MET"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="c-MET*"/> <clone/> <bbox w="80.0" h="50.0" x="1566.5" y="12607.5"/> <glyph class="unit of information" id="_9d2e648e-8231-44e0-bd06-b8ccf2a79764"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1584.0" y="12602.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2570_emtc_em_sa2567" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2570_emtc_em_sa2567"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MET"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="c-MET*"/> <clone/> <bbox w="80.0" h="50.0" x="1482.5" y="12607.5"/> <glyph class="unit of information" id="_2fc54cac-8826-4312-96ee-4026a0b1fa37"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1500.0" y="12602.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa218_ce_sa218" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4775_rc_sa4775"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF4"/> <bbox w="80.0" h="40.0" x="27449.06" y="15799.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa496_rc_csa496" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2L11:DYNLL1</p> </body> </html> </notes> <label text="IRE1*:BIP*"/> <bbox w="100.0" h="130.0" x="26472.967" y="13849.0"/> <glyph class="macromolecule" id="s_id_rc_sa5123_rc_sa5123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="55.0" x="26482.967" y="13901.5"/> <glyph class="state variable" id="_8cff2a79-f349-4fd3-b257-ba6b192bf143"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26534.535" y="13896.5"/> </glyph> <glyph class="unit of information" id="_7c1bdab3-c0bd-4af7-a30e-b1de856b6438"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26500.467" y="13896.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5124_rc_sa5124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family A (Hsp70) member 5</p> <p>HUGO:HSPA5 hgnc_id:HGNC:5238 HGNC:5238 ENTREZ:3309 UNIPROT:P11021</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>GRP78</p> </body> </html> </notes> <label text="BiP*"/> <bbox w="80.0" h="40.0" x="26482.967" y="13856.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa26_wnc1_wnc3_sa26" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for NF-kB transcription factor ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for NF-kB transcription factor </body> </html> </notes> <label text="NF-κB"/> <bbox w="164.0" h="22.0" x="15170.561" y="21121.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa17_akt1_akt1_csa17" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PP2A_A*:PP2A_B55_alpha_*:PP2A_C*</p> </body> </html> </notes> <label text="(PP2A)"/> <bbox w="105.0" h="150.0" x="13407.061" y="17603.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa90_akt1_akt1_sa90"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha isozyme</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A </p> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>P63151</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:19556239</p> <p>PMID:10995457</p> </body> </html> </notes> <label text="PP2A_B55α*"/> <bbox w="80.0" h="40.0" x="13420.061" y="17691.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa88_akt1_akt1_sa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A </p> <p>protein phosphatase 2 regulatory subunit B beta</p> <p>HUGO:PPP2R1B HGNC:9303 ENTREZ:5519 UNIPROT:P30154 GENECARDS:PPP2R1B REACTOME:49127 KEGG:5519 ATLASONC:GC_PPP2R1B WIKI:PPP2R1B </p> <p>PP2A-Aalpha, PR65A, "protein phosphatase 2, 65kDa regulatory subunit A", "protein phosphatase 2A, regulatory subunit A, alpha isoform"</p> <p>protein phosphatase 2, regulatory subunit A, beta</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18559511</p> <p>PMID:10026142</p> </body> </html> </notes> <label text="PP2A_A*"/> <bbox w="80.0" h="40.0" x="13421.061" y="17608.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa89_akt1_akt1_sa89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label text="PP2A_C*"/> <bbox w="80.0" h="40.0" x="13420.061" y="17650.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa246_ce_sa246" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa246_ce_sa246"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCG"/> <bbox w="80.0" h="40.0" x="14876.455" y="14870.266"/> <glyph class="state variable" id="_f60f1126-bcd6-40c4-8c3f-97c3f416ad85"> <state value="" variable="S7"/> <bbox w="20.0" h="10.0" x="14890.05" y="14865.266"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa75_shh1_shh2_sa75" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa75_shh1_shh2_sa75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIX1"/> <bbox w="70.0" h="25.0" x="26451.06" y="21141.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa12_ca_csa12" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:SMAD3:SMAD4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>11013125 ; 11376132 </p> <p>CTGF expression is induced by TGF- beta in fibroblasts via SMAD3 and SMAD4 pathway</p> <p>11792802, 12809600</p> <p>The canonical TGFB signalling pathway involves phosphorylation of the carboxy-terminal serine residue of the internal modulator SMAD proteins, SMAD2 or SMAD3, by the activated receptors. This phosphorylation induces oligomerization of SMAD2 or SMAD3 with SMAD4, which is necessary for nuclear translocatio </p> <p>12702545, 8515656</p> <p>Smad3 mediates transforming growth factor-beta-induced alpha-smooth muscle actin expression.</p> <p>23784029</p> <p>Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. </p> <p>21098712; 22652804; 25374926 </p> <p>TGFB induces FGF2 expression and secretion in fibroblasts via SMAD3 and MAPK pathways (erk,jnk,p38)</p> </body> </html> </notes> <label text="ca_s1332"/> <bbox w="100.0" h="120.0" x="4050.0" y="1810.0"/> <glyph class="macromolecule" id="s_id_ca_sa263_ca_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4 hgnc_id:HGNC:6770 HGNC:6770 ENTREZ:4089 UNIPROT:Q13485</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:11792802, PMID:12809600</p> <p>The canonical TGFB signalling pathway involves phosphorylation of the carboxy-terminal serine residue of the internal modulator SMAD proteins, SMAD2 or SMAD3, by the activated receptors. This phosphorylation induces oligomerization of SMAD2 or SMAD3 with SMAD4, which is necessary for nuclear translocation.</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling in fibroblasts</p> <p>PMID:12702545</p> <p>Protein level of SMAD3 and SMAD4 is upregulated after TGFB treatment</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="80.0" h="40.0" x="4060.0" y="1870.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa262_ca_sa262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3 hgnc_id:HGNC:6769 HGNC:6769 ENTREZ:4088 UNIPROT:P84022</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:11792802, PMID:12809600</p> <p>The canonical TGFB signalling pathway involves phosphorylation of the carboxy-terminal serine residue of the internal modulator SMAD proteins, SMAD2 or SMAD3, by the activated receptors. This phosphorylation induces oligomerization of SMAD2 or SMAD3 with SMAD4, which is necessary for nuclear translocation. </p> <p>PMID:11279127 </p> <p>Dominant-Negative Smad3 and Inhibitory Smad7 Expression Block TGF-β-induced ECM Promoter Activation in fibroblasts</p> <p> COL1A2, COL3A1, COL6A1, COL6A3, and TIMP-1</p> <p>PMID:12702545, PMID:8515656</p> <p>Smad3 mediates transforming growth factor-beta-induced alpha-smooth muscle actin expression.</p> <p>Protein level of SMAD3 and SMAD4 is upregulated after TGFB treatment</p> <p>PMID:16179589 </p> <p>NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.</p> <p>On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.</p> <p>Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylation</p> </body> </html> </notes> <label text="SMAD3"/> <bbox w="80.0" h="40.0" x="4060.0" y="1820.0"/> <glyph class="state variable" id="_f261406c-bf9b-4700-9f11-d124d409eb3c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4052.5" y="1835.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1924_rc_sa1924" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1924_rc_sa1924"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ABL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~ABL1*"/> <bbox w="80.0" h="40.0" x="23811.56" y="16444.0"/> <glyph class="unit of information" id="_f2abea35-5997-4e26-97fd-91007b42212b"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23826.56" y="16439.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3009_rc_sa3009" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3009_rc_sa3009"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CIAPIN1"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa285_emtc_em_sa285"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAX"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGAX"/> <bbox w="60.0" h="20.0" x="4791.27" y="17722.5"/> <glyph class="unit of information" id="_d1576530-85f3-4787-9a56-90c5442feb26"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4811.27" y="17717.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa717_emtc_em_sa717" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa717_emtc_em_sa717"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR449A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR449A"/> <bbox w="80.0" h="20.0" x="3757.5" y="17289.166"/> <glyph class="unit of information" id="_d762882d-711d-45b6-acbe-0720bfb80e22"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.5" y="17284.166"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4408_rc_sa4408" compartmentRef="s_id_rc_ca31_rc_ca31"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4408_rc_sa4408"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAP29"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SNAP29"/> <bbox w="80.0" h="40.0" x="29126.56" y="11839.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa379_rc_csa379" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FADD:RIPK1:TRADD</p> <p>References:</p> <p>23010170</p> <p>TRADD recruits FADD and caspase-8, forming complex IIA, where caspase-8 is activated and apoptosis is initiated</p> </body> </html> </notes> <label text="TNF complex II"/> <clone/> <bbox w="97.0" h="148.0" x="23981.31" y="10062.5"/> <glyph class="macromolecule" id="s_id_rc_sa3669_rc_sa3669"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <clone/> <bbox w="80.0" h="40.0" x="23986.31" y="10068.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3668_rc_sa3668"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> </body> </html> </notes> <label text="TRADD"/> <clone/> <bbox w="80.0" h="40.0" x="23988.31" y="10112.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3670_rc_sa3670"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <clone/> <bbox w="80.0" h="40.0" x="23988.186" y="10153.838"/> <glyph class="state variable" id="_29172b12-27a7-48ae-be5d-f66e984588a1"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="24053.186" y="10160.088"/> </glyph> <glyph class="state variable" id="_d4ac0cb8-d7b5-45fc-b132-f9f77892c167"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="24029.516" y="10188.838"/> </glyph> <glyph class="state variable" id="_1e79f59d-7231-4e35-9962-7c65e19235b5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24026.021" y="10148.838"/> </glyph> <glyph class="state variable" id="_05c5a4f8-7913-4066-bb04-d2add7fe304a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23983.186" y="10160.009"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa379_rc_csa346" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FADD:RIPK1:TRADD</p> <p>References:</p> <p>23010170</p> <p>TRADD recruits FADD and caspase-8, forming complex IIA, where caspase-8 is activated and apoptosis is initiated</p> </body> </html> </notes> <label text="TNF complex II"/> <clone/> <bbox w="96.0" h="158.0" x="22092.06" y="10109.25"/> <glyph class="macromolecule" id="s_id_rc_sa3670_rc_sa3594"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <clone/> <bbox w="80.0" h="40.0" x="22098.936" y="10200.588"/> <glyph class="state variable" id="_80b02c79-8311-4304-b84f-b7832484ba01"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="22163.936" y="10206.838"/> </glyph> <glyph class="state variable" id="_60665c10-87f7-4185-a2a0-45b621bc8f84"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="22140.266" y="10235.588"/> </glyph> <glyph class="state variable" id="_ae36b688-4168-44cc-9e06-67b6c6026017"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22136.771" y="10195.588"/> </glyph> <glyph class="state variable" id="_7471586e-8c12-4a60-beab-0a37a52dc5b4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22093.936" y="10206.759"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3669_rc_sa3221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <clone/> <bbox w="80.0" h="40.0" x="22097.06" y="10115.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3668_rc_sa3220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> </body> </html> </notes> <label text="TRADD"/> <clone/> <bbox w="80.0" h="40.0" x="22099.06" y="10159.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mpk1_mpk1_sa659_mpk1_mpk1_sa659" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BID:HSP90B1</p> </body> </html> </notes> <label text="BID:HSP90B1"/> <bbox w="100.0" h="120.0" x="24068.988" y="11621.057"/> <glyph class="macromolecule" id="s_id_rc_sa1471_rc_sa1471"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BH3 interacting domain death agonist</p> <p>HUGO:BID HGNC:1050 ENTREZ:637 UNIPROT:P55957</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="BID"/> <bbox w="80.0" h="40.0" x="24079.488" y="11631.057"/> <glyph class="state variable" id="_8a240f68-ef17-4cf3-995c-ef12b704fe54"> <state 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id="s_id_in_sa1879_in_sa1879"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RB"/> <bbox w="80.0" h="50.0" x="24336.875" y="4560.0"/> <glyph class="state variable" id="_d4ab298b-809c-4c74-926f-e18cbc57377c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24331.875" y="4580.0"/> </glyph> <glyph class="unit of information" id="_801f62b9-5f38-4ebb-88a7-27c62572d55b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24354.375" y="4555.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1880_in_sa1880"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <bbox w="80.0" h="50.0" x="24330.625" y="4490.0"/> <glyph class="unit of information" id="_3873ea71-b203-422a-9c73-deef84c6bf73"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24348.125" y="4485.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1878_in_sa1878"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RA"/> <bbox w="80.0" h="50.0" x="24328.125" y="4440.0"/> <glyph class="unit of information" id="_82e4f9a4-3f4f-4c28-a3f2-a9867d0a5eea"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24345.625" y="4435.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2266_rc_sa2266" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2266_rc_sa2266"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRDX*"/> <bbox w="80.0" h="40.0" x="29009.06" y="10543.0"/> <glyph class="state variable" id="_18ee3795-8511-455a-8882-a6491e632bb6"> <state value="-S-S-" variable=""/> <bbox w="35.0" h="10.0" x="29031.56" y="10538.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_te_sa150_te_sa150" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="te_s154"/> <bbox w="30.0" h="30.0" x="2337.06" y="21016.0"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa152_gf1_sa152" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:25772309 </p> <p>The Fgf15/19 subfamily members encode endocrine FGFs, which bind to and activate FGFRs with the Klotho family protein as a cofactor.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa152_gf1_sa152"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KLB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25772309"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KLB"/> <bbox w="80.0" h="40.0" x="8575.561" y="17969.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4749_rc_sa4749" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4749_rc_sa4749"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF6"/> <bbox w="80.0" h="40.0" x="27571.326" y="16474.0"/> <glyph class="unit of information" id="_634a1c02-556a-42b8-8c57-e1350b522703"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27588.826" y="16469.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa144_gf1_sa144" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:23792360 </p> <p>Both in vitro and in vivo evidence has revealed that MSP???RON signalling is important for the invasive growth of different types of cancers.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa144_gf1_sa144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MST1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23792360"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MST1"/> <bbox w="80.0" h="40.0" x="10345.561" y="17629.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa157_shh1_shh1_sa157" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa157_shh1_shh1_sa157"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARRB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="27136.186" y="17956.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_in_sa2246_in_sa2246" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MYH9"/> <bbox w="86.0" h="46.0" x="18847.0" y="6107.0"/> <glyph class="unit of information" id="_1fbbd9d4-226c-489c-8a16-046773136489"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18880.0" y="6102.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa34_wnc1_wnc1_csa34" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*:PLC-_beta_*</p> <p>References:</p> <p>Ca2+/Wnt MODULE</p> <p>s_wnc1_re57(MAP:survival):</p> <p>PLC-beta_2 and 3 are activated by the beta-and gamma subunit of the G-protein class q</p> <p>PMID:20553968</p> <p>s_wnc1_re26:(MAP:survival) PMID:16054198</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa34_wnc1_wnc1_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20553968"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054198"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gβ*:Gγ*:PLC-β*"/> <bbox w="95.0" h="95.0" x="14715.061" y="18329.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa215_wnc1_wnc1_sa215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="14760.061" y="18385.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa217_wnc1_wnc1_sa217"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phospholipase C, beta 1 (phosphoinositide-specific) </p> <p>HUGO:PLCB1 HGNC:15917 ENTREZ:23236 UNIPROT:Q9NQ66 GENECARDS:PLCB1 REACTOME:61694 KEGG:23236 ATLASONC:PLCB1ID41742ch20p12 WIKI:PLCB1 </p> <p>phospholipase C, beta 2 (phosphoinositide-specific) </p> <p>HUGO:PLCB2 HGNC:9055 ENTREZ:5330 UNIPROT:Q00722 GENECARDS:PLCB2 REACTOME:61696 ATLASONC:PLCB2ID41743ch15q15 WIKI:PLCB2 </p> <p>phospholipase C, beta 3 (phosphoinositide-specific) </p> <p>HUGO:PLCB3 HGNC:9056 ENTREZ:5331 UNIPROT:Q01970 GENECARDS:PLCB3 REACTOME:61748 ATLASONC:GC_PLCB3 WIKI:PLCB3 </p> <p>phospholipase C, beta 4 (phosphoinositide-specific) </p> <p>HUGO:PLCB4 HGNC:9059 ENTREZ:5332 UNIPROT:Q15147 GENECARDS:PLCB4 REACTOME:61698 KEGG:5332 ATLASONC:GC_PLCB4 WIKI:PLCB4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>PLC-beta3 can be activated by G-alpha and G-beta/gamma subunits</p> </body> </html> </notes> <label text="PLC-β*"/> <bbox w="80.0" h="40.0" x="14720.061" y="18339.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa214_wnc1_wnc1_sa214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="14719.061" y="18385.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1298_in_sa1298" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_ACTIVATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:STING, CASCADE:TLR2_4, CASCADE:TNFReferences:PMID:18345002TNF induced IFNB expression through IRF1. TNF-induced Ifnb1 expression was completely abrogated in IRF1-deficient macrophages.PMID:22331441Smad2/3 inhibited IFN-B production by suppressing IRF3 transcriptional activity.Smad2/3 somehow suppresses IRF3 phosphorylation.PMID:16394015 , PMID:19667062, PMID:15067049Fos inhibits the expression of IL-12 p40 and IFNB and upregulates IL10 production downstream of FOS in macrophages andPMID:25517615, PMID:25517609, PMID:24766893IRF3 induces IFNB expression in DC downsteam of STING signalingPMID:17114424, PMID:16306937Myeloid dendritic cells, but not plasmacytoid dendritic cells, express IL-10 and probably IFNB in response to TRIF-dependent TLR signals via TRAF3 probably downstream of HMGB1. ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0 Map modules:MAP:MACROPHAGE, MAP:DENDRITIC_CELLMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_ACTIVATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:STING, CASCADE:TLR2_4, CASCADE:TNFReferences:PMID:18345002TNF induced IFNB expression through IRF1. 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IL-1α Expression Levels in prostate cancer Tissue Correlated to ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFsPMID:21847358IL-1α was established as the initiator of the enhanced production of inflammatory factors through the binding of IL-1α to IL-1 receptor 1 (IL-1R1) expressed predominantly by CAFs.IL1A upregulates expression of IL6, CCL20, CXCL8, COX2 in CAFs. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cingulin</p> <p>HUGO:CGN, HGNC:17429, ENTREZ:57530, UNIPROT:Q9P2M7, GENECARDS:GC01P151483  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Cingulin*"/> <bbox w="63.0" h="18.0" x="1773.75" y="14706.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1246_emtc_em_sa1246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4</p> <p>HUGO:MLLT4, HGNC:7137, ENTREZ:4301, UNIPROT:P55196, GENECARDS:GC06P168227  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:9334353</p> <p>MLLT4 is so-called Afadin or AF-6</p> <p>Afadin serves as a linker of the Actin cytoskeleton to the plasma membrane at the TJ sites</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Afadin*"/> <bbox w="47.0" h="19.0" x="1835.75" y="14705.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa982_ca_sa982" compartmentRef="s_id_ca_ca6_ca_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa51_shh1_shh1_sa51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC34"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC34"/> <bbox w="80.0" h="40.0" x="26587.06" y="18590.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1116_ca_sa1116" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:METABOLIC MODULE:CAF References:CASCADE:TGFBPMID:25732824CAFs from tumor samples exhibit low levels of IDH3α, and overexpression of IDH3α prevents transformation of fibroblasts into CAFs.DH3α downregulation occurred mainly through transcriptional regulation downstream of TGFB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:METABOLIC MODULE:CAF References:CASCADE:TGFBPMID:25732824CAFs from tumor samples exhibit low levels of IDH3α, and overexpression of IDH3α prevents transformation of fibroblasts into CAFs.DH3α downregulation occurred mainly through transcriptional regulation downstream of TGFB </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2162_em_sa2162"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO*"/> <bbox w="70.0" h="16.0" x="3684.0" y="14673.5"/> <glyph class="unit of information" id="_756238c0-752a-40f2-aa30-906cad279374"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3709.0" y="14668.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa267_ce_csa267" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LIG4:PNK*:XRCC4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:15385968</p> <p>PMID:12032095</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa267_ce_csa267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15385968"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12032095"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIG4/PNK*/XRCC4"/> <bbox w="107.0" h="158.0" x="12986.473" y="15984.356"/> <glyph class="macromolecule" id="s_id_ce_sa1471_ce_sa1471"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ligase IV, DNA, ATP-dependent</p> <p>HUGO:LIG4, HGNC:6601, ENTREZ:3981, UNIPROT:P49917</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:12471202, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869</p> </body> </html> </notes> <label text="LIG4"/> <bbox w="80.0" h="40.0" x="13001.241" y="16074.434"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1467_ce_sa1467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Polynucleotide kinase 3'-phosphatase</p> <p>HUGO:PNKP, HGNC:9154, ENTREZ:11284, UNIPROT:Q96T60</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ, MODULE:BER</p> <p>References:</p> <p>PMID:20691907</p> <p>For C_NHEJ</p> <p>PMID:17638872, PMID:15385968, PMID:12032095 </p> <p>For BER</p> <p>PMID:11163244, PMID:19546231</p> </body> </html> </notes> <label text="PNK*"/> <bbox w="80.0" h="40.0" x="12997.473" y="15993.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1470_ce_sa1470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 4</p> <p>HUGO:XRCC4, HGNC:12831, ENTREZ:7518, UNIPROT:Q13426</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869</p> </body> </html> </notes> <label text="XRCC4"/> <bbox w="74.0" h="34.0" x="13000.164" y="16035.434"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1588_emtc_em_sa1588" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> 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x="25228.56" y="15198.25"/> <glyph class="state variable" id="_b01351e6-98ed-489d-9776-40acd34968f3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25280.129" y="15193.25"/> </glyph> <glyph class="state variable" id="_267614d8-c2be-4973-86c4-c869d8495639"> <state value="" variable="N803"/> <bbox w="30.0" h="10.0" x="25236.062" y="15233.25"/> </glyph> <glyph class="state variable" id="_46f18508-ae7e-4b69-b401-ce97d0281e0d"> <state value="" variable="P564"/> <bbox w="30.0" h="10.0" x="25237.156" y="15193.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2835_in_sa2835" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD1A"/> <bbox w="80.0" h="50.0" x="9893.75" y="217.5"/> <glyph class="unit of information" id="_0812f610-f014-4876-b0f2-55620ad1867a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9911.25" y="212.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1868_rc_sa1868" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1868_rc_sa1868"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACHE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACHE"/> <bbox w="80.0" h="40.0" x="23898.81" y="14915.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa131_emtc_em_sa131" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa131_emtc_em_sa131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fibronectin*"/> <bbox w="72.0" h="20.0" x="2573.0" y="17546.969"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa121_shh1_shh2_sa121" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa121_shh1_shh2_sa121"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SAP18"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SAP18"/> <bbox w="80.0" h="40.0" x="26100.06" y="21875.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa288_mo_sa288" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0LEO1 homolog, Paf1/RNA polymerase II complex component ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0LEO1 homolog, Paf1/RNA polymerase II complex component </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa288_mo_sa288"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LEO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LEO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LEO1"/> <bbox w="70.0" h="25.0" x="3261.0" y="10615.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa385_rc_csa385" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TNFRSF10D:TRAIL*</p> <p>References:</p> <p>9603945</p> <p>Osteoprotegerin is a receptor for the cytotoxic ligand TRAIL</p> <p>9382840</p> </body> </html> </notes> <label text="TRAIL*:TNFRSF10D"/> <bbox w="100.0" h="130.0" x="23829.06" y="9084.0"/> <glyph class="macromolecule" id="s_id_rc_sa3818_rc_sa3818"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="23839.06" y="9094.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3813_rc_sa3813"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily, member 10d, decoy with truncated death domain</p> <p>HUGO:TNFRSF10D HGNC:11907 ENTREZ:8793 UNIPROT:Q9UBN6</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9603945</p> <p>Osteoprotegerin is a receptor for the cytotoxic ligand TRAIL</p> <p>Also known as DcR2 (for Decoy Receptor 2)</p> <p>PMID:9382840</p> </body> </html> </notes> <label text="TNFRSF10D"/> <bbox w="80.0" h="50.0" x="23839.06" y="9139.0"/> <glyph class="unit of information" id="_3b50fa75-f0a0-4046-9c24-4aa874fbd269"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23856.56" y="9134.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa373_rc_csa373" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RHEB</p> </body> </html> </notes> <label text="RHEB*"/> <bbox w="99.0" h="91.0" x="26466.06" y="12102.0"/> <glyph class="macromolecule" id="s_id_rc_sa2569_rc_sa2569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras homolog enriched in brain</p> <p>HUGO:RHEB HGNC:10011 ENTREZ:6009 UNIPROT:Q15382</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="26477.06" y="12119.0"/> <glyph class="state variable" id="_ec11e653-0a34-48ad-84ec-8fbf75fe7219"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26495.492" y="12114.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa358_rc_csa358" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BCL2-XL*</p> </body> </html> </notes> <label text="BAX:BCL2L1"/> <bbox w="100.0" h="130.0" x="21759.06" y="14644.0"/> <glyph class="macromolecule" id="s_id_rc_sa3349_rc_sa3349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="21769.99" y="14702.152"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3350_rc_sa3350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="21770.29" y="14658.152"/> <glyph class="state variable" id="_6fcbb341-d347-4cd4-bca9-8b95d2d78e9f"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="21813.873" y="14653.152"/> </glyph> <glyph class="state variable" id="_592fd469-56bc-4840-b91c-e10738d361de"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="21816.61" y="14693.152"/> </glyph> <glyph class="state variable" id="_1213c4be-c55c-41c3-9a8f-6da94e2b25e1"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="21768.865" y="14653.152"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa8_an_sa8" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3763</p> <p>synonyms : VEGFR1</p> <p>PMID:16076871</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa8_an_sa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16076871"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FLT1"/> <bbox w="80.0" h="50.0" x="4382.0" y="5960.0"/> <glyph class="unit of information" id="_ef57b8fd-add9-4366-9b52-635fefa0fd98"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4399.5" y="5955.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa246_emtc_em_csa246" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Collagen1*:a1b1*_a2b1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa246_emtc_em_csa246"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a1b1*_a2b1*/Collagen 1*"/> <bbox w="166.0" h="42.0" x="4400.0" y="18923.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1570_emtc_em_sa1570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Collagen 1*</p> <p>collagen, type I, alpha 1</p> <p>HUGO:COL1A1 HGNC:2197 ENTREZ:1277 UNIPROT:P02452</p> <p>collagen, type I, alpha 2</p> <p>HUGO:COL1A2, HGNC:2198, ENTREZ:1278, GENECARDS:GC07P094023, UNIPROT:P08123 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:18375391</p> <p>Type I procollagen is a heterotrimer composed of 2 proalpha1(I) chains (encoded by COL1A1) and 1 proalpha2(I) chain (encoded by COL1A2 genes)</p> <p>proalpha2(I) C-propeptide and proalpha1(I) C-propeptide, is essential for efficient assembly of type I procollagen heterotrimers.</p> <p>PMID:17217948</p> <p>Inhibition of RhoA/Rho-kinase pathway suppresses the expression of type I collagen induced by TGFB2 in human retinal pigment epithelial cells</p> <p>PMID:11114293</p> <p>Sp1 and Smad proteins form complexes and their synergy plays an important role in mediating TGFB1-induced 2(I) collagen expression in human mesangial cells.</p> <p>Involvement of Sp1 binding in Smad3-mediated TGFB1 induction of COL1A2</p> <p>Sp1 and Smad proteins bind to the COL1A2 promoter</p> <p>TGFB1 increases association between Sp1 and Smad proteins</p> <p>Sp1 and Smad3 cooperate to regulate COL1A2 expression</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Collagen1*"/> <bbox w="74.0" h="19.0" x="4491.5" y="18926.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1569_emtc_em_sa1569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>a1b1*_a2b1*</p> <p>NAME:a1b1*</p> <p>ITGA1/ITGB1</p> <p>integrin, alpha 1</p> <p>HUGO:ITGA1 HGNC:6134 ENTREZ:3672 UNIPROT:P56199</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>NAME: a2b1*</p> <p>ITGA2/ITGB1</p> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="a1b1*_a2b1*"/> <bbox w="88.0" h="19.0" x="4401.5" y="18926.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa871_rc_sa871" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa871_rc_sa871"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGAM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGAM1"/> <bbox w="80.0" h="40.0" x="18913.777" y="10757.898"/> </glyph> <glyph class="complex" id="s_id_rc_csa551_rc_csa551" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NAIP:T3SS*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa551_rc_csa551"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NAIP:T3SS*"/> <bbox w="100.0" h="120.0" x="28119.06" y="9279.0"/> <glyph class="simple chemical" id="s_id_rc_sa5477_rc_sa5477"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>bacterial type III secretion systems (T3SS)</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:23940371</p> <p>plays an important role in host defense against</p> <p>Salmonella entericaserovar Typhimurium (S.Typhimurium), </p> <p>Legionella pneumophila, Pseudomonas aeruginosa,</p> <p>Shigella flexneri, and Burkholderia thailandensis</p> </body> </html> </notes> <label text="T3SS*"/> <bbox w="70.0" h="25.0" x="28134.06" y="9346.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5470_rc_sa5470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NLR family, apoptosis inhibitory protein</p> <p>HUGO:NAIP HGNC:7634 ENTREZ:4671 UNIPROT:Q13075</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23940371</p> <p>humans express different isoforms from a single NAIP</p> <p>gene that detect flagellin and T3SS components, respectively</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NAIP"/> <bbox w="80.0" h="40.0" x="28129.06" y="9289.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa490_ad_sa490" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>2</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:19349987</p> <p>Both ROCK and MLCK phosphorylate and activate MLC and both ML7 and Y27632 inhibited phosphorylation of MLC during T cell stimulation with soluble TCR antibody</p> <p>PMID:27241914</p> <p> Ca2+-dependent calmodulin signaling leads to MLCK activation and, subsequently, pulling forces. Indeed, loss of calmodulin leads to unresponsiveness in T cells (Lin et al., 2005). Our experiments perturbing Ca2+ entry showed that at low Ca2+ levels, the magnitude of the pull force became more dependent on integrated Ca2+ concentration. The etiology of this Ca2+ threshold is as yet unknown, and could be caused by calmodulin.</p> <p>Probably via CAMK </p> <p>PMID:19349987 </p> <p>Ca2+ signaling requires myosin IIA activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa490_ad_sa490"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYLK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYLK2"/> </rdf:Bag> 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLPP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLPP5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLPP6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLPP7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LPP*"/> <clone/> <bbox w="80.0" h="40.0" x="5948.75" y="7120.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa917_rc_sa917" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15351 KEGGCOMPOUND:C00024 CAS:72-89-9</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa917_rc_sa917"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> 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<rdf:Description rdf:about="#s_id_em_sa2014_em_sa2014"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p120*"/> <bbox w="52.0" h="16.0" x="1470.25" y="13522.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa477_ca_sa477" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:23784029mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:PMID:23784029mature miR-21 increases after TGF-β1 treatment, whereas the Smad 7 protein level decreases. MiR-21 binds to the 3' UTR of Smad7 mRNA and inhibits its translation, rather than causing its degradation. Most importantly, Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation. The depletion of miR-21 or the overexpression of Smad 7 blocks TGF-β1-induced CAF formation, whereas the overexpression of miR-21 or the depletion of Smad 7 promotes CAF formation, even without TGF-β1 stimulation. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa477_ca_sa477"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD7"/> <bbox w="90.0" h="25.0" x="3424.0" y="1107.5"/> <glyph class="unit of information" id="_012110eb-a69c-42f8-8245-f7c4420f001e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3459.0" y="1102.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa5_in_csa5" compartmentRef="s_id_in_ca12_in_ca12"> <label text="RHOB:GDP"/> <bbox w="100.0" h="120.0" x="20670.0" y="7075.0"/> <glyph class="simple chemical" id="s_id_in_sa115_in_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="20685.0" y="7132.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa114_in_sa114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RHOB"/> <bbox w="80.0" h="40.0" x="20680.0" y="7085.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa816_in_sa816" compartmentRef="s_id_in_ca13_in_ca13"> <label text="LILRB1"/> <bbox w="80.0" h="50.0" x="12195.0" y="1355.0"/> <glyph class="unit of information" id="_248266ca-43ac-457b-8907-a94aad381e75"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12212.5" y="1350.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1087_in_sa1087" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24030977, 20644162, 25043024, 12496409, 23454751, 21670502, 12193690, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MDSCMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:LACTIC, CASCADE:TGFB, CASCADE:MIF, CASCADE:IL4References:PMID:12193690Up-regulation of IL4RA by IL10 correlates with increased IL4-dependent expression of arginase-1 (ARG1).PMID:21670502KLF4 together with STAT6 upregulates expression of PPARG and ARG1 downstream of IL4 in macrophages.PMID:23454751MDSC showed high phosphorylated STAT3 levels that correlated with arginase-I expression levels and activity.phosphorylated STAT3 binds to multiple sites in the arginase-I promoter. Rescue of arginase-I activity after STAT3 blockade restored MDSC's suppressive function.Taken together, these results demonstrate that the suppressive function of arginase-I in both infiltrating and circulating MDSC is a downstream target of activated STAT3.PMID:20644162Human MDSC express AGR1PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-aARG1, TGFB, COX2 expression is downregulated in IL4R-/- MDSC (probably via STAT3 and MYC).PMID:12496409Arg1 is up-regulated in MDSC by IL-4.Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.PMID:25043024Lactic acid is sufficient to induce Vegf and Arg1 via HIF1a.Lactic acid, probably via HIF1A polarizes macrophages to an M2-Iike state that is critical for tumour growth19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)PMID:23390297MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23 ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 24030977, 20644162, 25043024, 12496409, 23454751, 21670502, 12193690, 23390297 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MDSCMODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTIONCASCADE:LACTIC, CASCADE:TGFB, CASCADE:MIF, CASCADE:IL4References:PMID:12193690Up-regulation of IL4RA by IL10 correlates with increased IL4-dependent expression of arginase-1 (ARG1).PMID:21670502KLF4 together with STAT6 upregulates expression of PPARG and ARG1 downstream of IL4 in macrophages.PMID:23454751MDSC showed high phosphorylated STAT3 levels that correlated with arginase-I expression levels and activity.phosphorylated STAT3 binds to multiple sites in the arginase-I promoter. Rescue of arginase-I activity after STAT3 blockade restored MDSC's suppressive function.Taken together, these results demonstrate that the suppressive function of arginase-I in both infiltrating and circulating MDSC is a downstream target of activated STAT3.PMID:20644162Human MDSC express AGR1PMID:24030977SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-aARG1, TGFB, COX2 expression is downregulated in IL4R-/- MDSC (probably via STAT3 and MYC).PMID:12496409Arg1 is up-regulated in MDSC by IL-4.Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.PMID:25043024Lactic acid is sufficient to induce Vegf and Arg1 via HIF1a.Lactic acid, probably via HIF1A polarizes macrophages to an M2-Iike state that is critical for tumour growth19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)PMID:23390297MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1087_in_sa1087"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030977"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20644162"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25043024"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12496409"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23454751"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21670502"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12193690"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23390297"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARG1"/> <bbox w="116.0" h="59.0" x="13755.844" y="5275.9375"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa182_wca1_wca1_sa182" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re30(MAP:survival):</p> <p>PMID:19561074</p> <p>PI4KIIalpha and PIP5KIbeta are in complex together with DVL. To keep complex clear the enzymes are left outside of this complex</p> <p>s_wca1_re31(MAP:survival):</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa182_wca1_wca1_sa182"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PtdIns(4)-P"/> <bbox w="70.0" h="25.0" x="22694.06" y="18050.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa232_emtc_em_csa232" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NCK1:NCKAP1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="NCK1/NCKAP1"/> <bbox w="90.0" h="60.0" x="6495.0" y="14736.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1503_emtc_em_sa1503"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NCK adaptor protein 1</p> <p>HUGO:NCK1 HGNC:7664 ENTREZ:4690 UNIPROT:P16333</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NCK1"/> <bbox w="37.0" h="18.0" x="6526.5" y="14738.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1504_emtc_em_sa1504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NCK-associated protein 1</p> <p>HUGO:NCKAP1 HGNC:7666 ENTREZ:10787 UNIPROT:Q9Y2A7</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NCKAP1"/> <bbox w="52.0" h="18.0" x="6519.0" y="14760.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa487_in_sa487" compartmentRef="s_id_in_ca13_in_ca13"> <label text="ITGB1"/> <bbox w="80.0" h="50.0" x="16727.5" y="1665.0"/> <glyph class="unit of information" id="_e699d8e3-dcf9-46e0-98e7-c60d85c2f0d2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16745.0" y="1660.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa86_emtc_em_csa86" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Latency-associated protein*:TGFB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>Each TGFB gene encodes a preproprotein sequence consisting of a signal peptide, a propeptide (LAP) and the mature TGFB</p> <p>After translocation into the endoplamic reticulum, TGFB proprotein monomers form homomdimers liked by disulfide bonds, forming pro-TGFB</p> <p>In the Golgi, the prodomains undergo glycosylation.</p> <p>Also in the Golgi, FURIN hydolyzes the leavage site from LAP, creating TGFB and LAP-derived homodimers</p> <p>The 2 homodimers remain noncovalently associated and are secreted.</p> <p>The LAP-derived homodimer prevents TGFB from binding TGFB receptors.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa86_emtc_em_csa86"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20519943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16474430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14557817"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Pro-TGFB1 complex)"/> <bbox w="181.0" h="66.0" x="968.0" y="18733.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa586_emtc_em_sa586"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="46.0" h="26.0" x="1041.25" y="18755.75"/> <glyph class="unit of information" id="_9c70a244-2155-4309-88b2-f17d53671d2d"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1054.25" y="18750.75"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa585_emtc_em_sa585"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="180.0" h="20.0" x="971.25" y="18737.75"/> <glyph class="unit of information" id="_bc141fb9-1f64-4d89-b6ef-94294ab53b6c"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1051.25" y="18732.75"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3096_rc_sa3096" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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maintain</p> <p>TPL-2 protein stability, while TPL-2 association with p105 also inhibits TPL-2 phosphorylation of its substrates MEK-1⁄2</p> <p>PMID:22435554, PMID:15485931, PMID:21217011, PMID:15199157</p> <p>Agonist stimulation induces IKK2, a catalytic subunit of the IKK complex, to phosphorylate p105. These phosphorylations</p> <p> create a binding site for the ubiquitin E3 ligase complex SCF-bTrCP which catalyzes K48-linked polyubiquitination of p105, followed by its proteasomal</p> <p> degradatio. 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5020_rc_sa5020"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRELD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRELD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRELD2"/> <bbox w="90.0" h="25.0" x="28906.326" y="16041.5"/> <glyph class="unit of information" id="_ef01651d-74ed-4008-83c9-9ef4a5fd90e1"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28941.326" y="16036.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2708_in_sa2708" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="SOCS2"/> <bbox w="90.0" h="25.0" x="23010.0" y="2507.5"/> <glyph class="unit of information" id="_c04eea30-a7fa-4b01-b015-8c2de66c8f97"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23045.0" y="2502.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2717_rc_sa2717" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2717_rc_sa2717"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ND4"/> <bbox w="90.0" h="25.0" x="21050.06" y="15036.5"/> <glyph class="unit of information" id="_5b7d503a-188b-4218-a30d-bd56aa05e178"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21085.06" y="15031.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa390_rc_csa390" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase8,10*:DR4/5*:FADD:TRAIL*</p> <p>References:</p> <p>TRAIL*:FADD:DR4/5*:Caspase8,10*</p> <p>20531300</p> <p>19090789</p> </body> </html> </notes> <label text="Caspase8,10*:FADD:TRAIL*:DR4/5*"/> <bbox w="220.0" h="198.0" x="24599.06" y="9060.25"/> <glyph class="macromolecule" id="s_id_rc_sa3869_rc_sa3869"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24614.06" y="9177.75"/> <glyph class="state variable" id="_c5b5d57d-a3c5-422b-9f6e-2dd8d97c7f08"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24609.06" y="9184.466"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3860_rc_sa3863"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="24709.06" y="9122.75"/> <glyph class="state variable" id="_f1948258-59ac-454d-b3d5-17c210da39c3"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="24781.56" y="9142.75"/> </glyph> <glyph class="state variable" id="_490986d4-d9e5-44aa-91ed-c3d74b1f1bbe"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="24739.06" y="9167.75"/> </glyph> <glyph class="unit of information" id="_39789f1e-737f-4d75-9782-fa2caae635a0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24726.56" y="9117.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3859_rc_sa3859"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="24699.06" y="9067.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3861_rc_sa3861"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24619.06" y="9112.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3869_rc_sa3871"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24634.06" y="9197.75"/> <glyph class="state variable" id="_8899f1e1-f87e-4b3e-a60e-c48e370d4c34"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24629.06" y="9204.466"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3860_rc_sa3860"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="24699.06" y="9112.75"/> <glyph class="state variable" id="_343ac170-91ae-44a5-b4e7-203f5eacadc3"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="24771.56" y="9132.75"/> </glyph> <glyph class="state variable" id="_4cf05ffa-2199-422d-9fd5-ee5feb10d33f"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="24729.06" y="9157.75"/> </glyph> <glyph class="unit of information" id="_fab271da-0ded-4f78-97c2-a7ede201d657"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24716.56" y="9107.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3860_rc_sa3866"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="24719.06" y="9132.75"/> <glyph class="state variable" id="_0363a601-f8e2-4531-b14b-2ab68b9ccfb2"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="24791.56" y="9152.75"/> </glyph> <glyph class="state variable" id="_5bfb4ef4-0234-4c05-be01-86f0df67138c"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="24749.06" y="9177.75"/> </glyph> <glyph class="unit of information" id="_b2883551-732b-4b38-b98c-53def00c19c0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24736.56" y="9127.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3861_rc_sa3867"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24639.06" y="9132.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3859_rc_sa3865"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="24719.06" y="9087.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3859_rc_sa3862"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="24709.06" y="9077.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3869_rc_sa3870"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="24624.06" y="9187.75"/> <glyph class="state variable" id="_9ee99b9b-2996-4800-a2a0-b75a7b73d149"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24619.06" y="9194.466"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3861_rc_sa3864"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="24629.06" y="9122.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1343_rc_sa1343" compartmentRef="s_id_rc_ca8_rc_ca8"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1343_rc_sa1343"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC2A4"/> <bbox w="80.0" h="40.0" x="18099.06" y="9299.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1092_rc_sa1092" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1092_rc_sa1092"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MLST8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="26885.559" y="10588.326"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa169_ad_sa169" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:24076050,PMID:12538684</p> <p>PDL1 and PDL2 are expressed in DCs.</p> <p>blockade of PD-L2 on dendritic cells results in enhanced T cell proliferation and cytokine production, including that of IFN-gamma and IL-10, while blockade of PD-L1 results in similar, more modest, effects. Blockade of both PD-L1 and PD-L2 showed an additive effect. Both whole mAb and Fab enhanced T cell activation, showing that PD-L1 and PD-L2 function to inhibit T cell activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa169_ad_sa169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD1LG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24076050"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12538684"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDL2*"/> <bbox w="80.0" h="40.0" x="26756.0" y="2180.0"/> </glyph> <glyph class="complex" id="s_id_em_csa330_em_csa330" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin5*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2507"/> <bbox w="104.0" h="46.0" x="1061.0" y="15539.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1216_emtc_em_sa1216"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 5</p> <p>HUGO:CLDN5, HGNC:2047, ENTREZ:7122, UNIPROT:O00501, GENECARDS:GC22M019510</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Claudin5*"/> <bbox w="67.0" h="22.0" x="1079.0" y="15544.5"/> <glyph class="unit of information" id="_0b45c826-f417-4f0e-8923-923378439a01"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1102.5" y="15539.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa949_ca_sa949" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa949_ca_sa949"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGF*"/> <bbox w="70.0" h="25.0" x="4205.0" y="4593.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa336_akt1_akt1_sa336" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa336_akt1_akt1_sa336"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="80.0" h="40.0" x="13437.061" y="17828.0"/> <glyph class="state variable" id="_a4a0454b-8575-45d8-9084-0371046f66eb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13432.061" y="17843.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa336_mpk1_mpk1_sa343" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa336_mpk1_mpk1_sa343"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <clone/> <bbox w="63.0" h="27.0" x="8192.061" y="20204.0"/> <glyph class="state variable" id="_c1356c45-77cd-4c96-81b6-748df0e65228"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8187.0605" y="20212.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa61_akt1_akt1_csa61" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:BAD:BCL2-XL*</p> <p>References:</p> <p>s_akt1_re125:(MAP:survival) PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa61_akt1_akt1_csa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:BAD:BCL2-XL*"/> <bbox w="106.0" h="174.0" x="14123.061" y="18357.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa359_akt1_akt1_sa359"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1BCL2-associated agonist of cell death</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817 GENECARDS:BCL2L1 REACTOME:50772 KEGG:598 ATLASONC:BCL2L1ID129ch20q11 WIKI:BCL2L1 </p> <p>BCL2-like 1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="14131.561" y="18461.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa358_akt1_akt1_sa358"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="14131.311" y="18415.0"/> <glyph class="state variable" id="_074a7375-3657-4b84-a27a-9a6be0655483"> <state value="P" variable="S112"/> <bbox w="35.0" h="10.0" x="14114.303" y="18410.0"/> </glyph> <glyph class="state variable" id="_1723bace-0e56-4074-9992-460e2cab70a5"> <state value="" variable="S155"/> <bbox w="30.0" h="10.0" x="14195.692" y="18450.0"/> </glyph> <glyph class="state variable" id="_8b6086d6-f338-4f6f-8da8-a79de54af708"> <state value="P" variable="S136"/> <bbox w="35.0" h="10.0" x="14193.811" y="18410.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa360_akt1_akt1_sa360"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="14130.561" y="18368.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2715_in_sa2715" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD11c*"/> <bbox w="90.0" h="25.0" x="10278.75" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. Although Ang2 is a weaker agonist than Ang1, endogenous Ang2 maintains a level of Tie2 activation that is critical to a spectrum of EC functions</p> <p>Ang-2 levels are upregulated by hypoxia</p> <p> Davis S, Aldrich TH, Jones PF et al (1996) Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap</p> <p>expression cloning. Cell 87:1161–1169. doi:10.1016/S0092-8674(00)81812-7</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa335_an_sa335"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19223473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ANGPT2"/> <bbox w="80.0" h="40.0" x="7122.0" y="7505.0"/> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa285_in_csa285"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12782713"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIF:CD74"/> <bbox w="110.0" h="140.0" x="9275.0" y="3815.0"/> <glyph class="macromolecule" id="s_id_in_sa2095_in_sa2095"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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class="macromolecule" id="s_id_an_sa18_an_sa18" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:5465</p> <p>PMID:17145802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa18_an_sa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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<title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="DUSP1"/> <bbox w="70.0" h="25.0" x="11205.0" y="3359.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4398_rc_sa4398" compartmentRef="s_id_rc_ca31_rc_ca31"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4398_rc_sa4398"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG16L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG16*"/> <bbox w="80.0" h="40.0" x="28657.56" y="11884.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa45_wca1_wca1_csa45" compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN*:CK1_alpha_*:GSK3*:G_alpha_o*:_beta_-Arrestin2*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21606194</p> <p>s_wca1_re43(MAP:survival):</p> <p>PMID:21606194 PMID:21285348 </p> <p>DVL is again phosphorylated to form PS-DVL. This isoform of DVL leads to depolimerisation of DVL and even distribution in the cell. Which CK1 isoform catalyses this reaction is unknown</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa45_wca1_wca1_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285348"/> </rdf:Bag> </bqbiol:isEncodedBy> 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protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="22374.81" y="19895.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa394_wca1_wca1_sa394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22270.31" y="19921.0"/> <glyph class="state variable" id="_38484b24-7716-4859-ae0a-1bac17759215"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22263.303" y="19916.0"/> </glyph> <glyph class="state variable" id="_2e60db23-2d9f-47c8-9c6c-582878878785"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22342.81" y="19916.213"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22269.81" y="19969.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa571_wca1_wca1_sa571"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22354.56" y="19967.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa395_wca1_wca1_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="22357.31" y="19923.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2066_em_sa2066" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groupsConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa103_emtc_em_sa103"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Plakophilin3*"/> <bbox w="94.0" h="17.0" x="2457.0" y="16871.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa219_rc_csa219" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2:BMF</p> </body> </html> </notes> <label text="BCL2:BMF"/> <bbox w="102.0" h="122.0" x="22467.31" y="13137.0"/> <glyph class="macromolecule" id="s_id_rc_sa1682_rc_sa1682"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="22476.56" y="13148.0"/> <glyph class="state variable" id="_304548e2-c163-43d9-b57f-5e4a686fd2f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22528.129" y="13143.0"/> </glyph> <glyph class="state variable" id="_a0739d72-56dd-48f8-bfcd-08bef282cc78"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22471.56" y="13163.0"/> </glyph> <glyph class="state variable" id="_0c649d70-4d0b-4346-af6e-11b58aefc0c8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22494.992" y="13143.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1683_rc_sa1683"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bcl2 modifying factor</p> <p>HUGO:BMF HGNC:24132 ENTREZ:90427 UNIPROT:Q96LC9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="BMF"/> <bbox w="80.0" h="40.0" x="22479.31" y="13196.0"/> <glyph class="state variable" id="_742b2fcf-df4e-4906-b488-d179800822c8"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22528.379" y="13191.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4693_rc_sa4693" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4693_rc_sa4693"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG9A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG9A"/> <bbox w="80.0" h="40.0" x="19874.06" y="15855.87"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2154_emtc_em_sa2154" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2154_emtc_em_sa2154"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOTCH1"/> <bbox w="62.0" h="30.0" x="2057.75" y="13835.0"/> <glyph class="unit of information" id="_b170e491-e3ae-4f26-a53c-82a8fd87066c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2066.25" y="13830.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa260_rc_sa260" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa371_te_sa371"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MXD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MXD1"/> <bbox w="80.0" h="40.0" x="6169.56" y="21051.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa360_in_sa360" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 18676862</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa360_in_sa360"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18676862"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ADAM17"/> <bbox w="80.0" h="40.0" x="20130.0" y="320.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1181_emtc_em_sa1181" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1181_emtc_em_sa1181"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP15"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP15"/> <bbox w="46.0" h="17.0" x="1577.0" y="18913.5"/> </glyph> <glyph class="complex" id="s_id_ad_csa142_ad_csa142" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5611"/> <bbox w="100.0" h="120.0" x="29753.5" y="5440.0"/> <glyph class="macromolecule" id="s_id_ad_sa1199_ad_sa1199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>HUGO:PSTPIP1</p> <p>PMID:14707117 </p> </body> </html> </notes> <label text="PSTPIP1"/> <bbox w="80.0" h="40.0" x="29763.5" y="5500.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1198_ad_sa1198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>HUGO:PTPN12</p> <p>PMID:14707117 </p> </body> </html> </notes> <label text="PTPN12"/> <bbox w="80.0" h="40.0" x="29763.5" y="5460.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa84_mpk1_mpk1_csa84" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:MAP3K10_11*:RAC1:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:MAP3K10_11*:RAC1:RTK*:SOS*"/> <bbox w="240.0" h="108.0" x="10299.057" y="19478.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa470_mpk1_mpk1_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 10</p> <p>MLK2</p> <p>HUGO:MAP3K10 HGNC:6849 ENTREZ:4294 UNIPROT:Q02779 </p> <p>mitogen-activated protein kinase kinase kinase 11</p> <p>MLK3 PTK1</p> <p>HUGO:MAP3K11 HGNC:6850 ENTREZ:4296 UNIPROT:Q16584</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MLK3 and MLK2 two MAP3Ks of JNK pathway can interact with RAC1 in a GTP-dependent manner.</p> <p>MLK3 has the potential to positively regulate the ERK/MODULE:MAPK pathway by directly phosphorylating and activating MEK.</p> </body> </html> </notes> <label text="MAP3K10_11*"/> <bbox w="102.0" h="26.0" x="10316.557" y="19533.0"/> <glyph class="state variable" id="_305b8d53-8423-4320-8ee8-4e5c715e5afc"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10309.057" y="19541.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa650_mpk1_mpk1_sa650"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="60.0" h="25.0" x="10415.686" y="19533.25"/> <glyph class="state variable" id="_706a8b76-cbfd-49df-9042-b53504387f75"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10408.186" y="19540.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa648_mpk1_mpk1_sa648"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="10473.186" y="19534.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa646_mpk1_mpk1_sa646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="10474.186" y="19487.75"/> <glyph class="unit of information" id="_35cadb40-8df1-4d06-b37b-2dee398f8a8b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10476.686" y="19482.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa647_mpk1_mpk1_sa647"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. 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PhosphoStat6 molecules dimerize and migrate to the nucleus to</p> <p>bind to certain promoters.</p> <p>PMID:10485906</p> <p>SOCS1 inhibits STAT6 activation downstream of IFNG and downregulates IL4 signaling pathway.</p> <p>PMID:15634881</p> <p>STAT6-deficient mice produce M1 macrophages.</p> <p>STAT6 deficiency prevents signaling through the type 2 IL-4Ralpha, thereby blocking the production of arginase and promoting the synthesis of NO in MDSC.</p> <p>PMID:12244147</p> <p>GM-CSF can activate STAT6 in murine BM-DC</p> <p>PMID:12244147, PMID:24204259</p> <p>Additionally IL4 via IL-4R type I JAK3 and STAT6 (but not IL13) upregulates production of IL12p70</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa989_in_sa989"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10485906"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12244147"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24204259"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15634881"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT6"/> <clone/> <bbox w="80.0" h="40.0" x="10100.0" y="3915.0"/> <glyph class="state variable" id="_043471b2-edbb-4da6-9082-1b4efe48776d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10092.5" y="3930.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa989_in_sa1850" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10485906, 14610620, 12244147, 12223527, 24204259, 15634881, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:CSF2, CASCADE:IFNG</p> <p>References:</p> <p>PMID:12223527</p> <p>Stat proteins 1 alpha, 3, 5A, 5B, and 6 are phosphorylated in response to IL-13.</p> <p>IL-4, in contrast to IL-13, induced very low levels of phosphorylation of Stats 1 and 5 and a more robust phosphorylation of Stat3 and Stat6.</p> <p>PMID:23124025</p> <p>Jak1 is required for Stat6 (TYR641) activation in monocytes stimulated with IL-4</p> <p>PMID:14610620</p> <p>When the type I</p> <p>or type II IL-4R is dimerized, JAKs associated with</p> <p>the receptor components phosphorylate the second,</p> <p>third, or fourth tyrosine residues of the IL-4Ra cytoplasmic domain [50]. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB5</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:24309651;PMID:24639195 </p> <p>It has to be the αv: myofibroblast integrins activate latent TGF-β1.</p> <p>Integrins αvβ5 and αvβ3 promote latent TGF-β1 activation by human cardiac fibroblast contraction</p> <p>PMID:22470492 </p> <p> treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa66_ca_csa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24309651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24639195"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4314"/> <clone/> <bbox w="100.0" h="120.0" x="7550.0" y="2940.0"/> <glyph class="macromolecule" id="s_id_ca_sa604_ca_sa604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 5</p> <p>HUGO:ITGB5 hgnc_id:HGNC:6160 HGNC:6160 ENTREZ:3693 UNIPROT:P18084</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:22470492 </p> <p>Degradation of internalized αvβ5 integrin is controlled by uPAR bound uPA: effect on β1 integrin activity and α-SMA stress fiber assembly.</p> <p>uPA (PLAU) signaling has a negative influence on myofibroblast differentiation;</p> </body> </html> </notes> <label text="ITGB5"/> <clone/> <bbox w="80.0" h="50.0" x="7560.0" y="2985.0"/> <glyph class="state variable" id="_7aa7da4e-fc33-4ddf-b49f-d681ab222e9b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7555.0" y="3004.9602"/> </glyph> <glyph class="unit of information" id="_cc9bdc11-113b-48b3-a382-2b69c213c0c4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7577.5" y="2980.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa603_ca_sa603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha V</p> <p>HUGO:ITGAV hgnc_id:HGNC:6150 HGNC:6150 ENTREZ:3685 UNIPROT:P06756</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785</p> <p>Transforming Growth Factor β1 Induces αvβ3 Integrin Expression in Human Lung Fibroblasts via a β3 Integrin-, c-Src-, and p38 MAPK-dependent Pathway*</p> </body> </html> </notes> <label text="ITGAV"/> <clone/> <bbox w="80.0" h="50.0" x="7560.0" y="2945.0"/> <glyph class="unit of information" id="_56ce126d-0565-4939-b6a9-a6b05386547f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7577.5" y="2940.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa66_ca_csa64" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB5</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:24309651;PMID:24639195 </p> <p>It has to be the αv: myofibroblast integrins activate latent TGF-β1.</p> <p>Integrins αvβ5 and αvβ3 promote latent TGF-β1 activation by human cardiac fibroblast contraction</p> <p>PMID:22470492 </p> <p> treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> <p>PMID:26519775 </p> <p>The αv-containing integrins αvβ1, αvβ3, αvβ5, and αvβ8 in a variety of fibroblasts and pericytes are reported to activate latent TGF-β by binding to the RGD motif of the latency-associated protein (LAP) that is bound to TGF-β and the latent TGF-β binding protein (LTBP) forming the large latent complex (LLC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa66_ca_csa64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24309651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24639195"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4314"/> <clone/> <bbox w="100.0" h="120.0" x="7750.0" y="2750.0"/> <glyph class="macromolecule" id="s_id_ca_sa603_ca_sa584"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha V</p> <p>HUGO:ITGAV hgnc_id:HGNC:6150 HGNC:6150 ENTREZ:3685 UNIPROT:P06756</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:18353785</p> <p>Transforming Growth Factor β1 Induces αvβ3 Integrin Expression in Human Lung Fibroblasts via a β3 Integrin-, c-Src-, and p38 MAPK-dependent Pathway*</p> </body> </html> </notes> <label text="ITGAV"/> <clone/> <bbox w="80.0" h="50.0" x="7760.0" y="2755.0"/> <glyph class="unit of information" id="_a0de33e5-c596-4289-8b83-83546849df70"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7777.5" y="2750.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa604_ca_sa585"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 5</p> <p>HUGO:ITGB5 hgnc_id:HGNC:6160 HGNC:6160 ENTREZ:3693 UNIPROT:P18084</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:22470492 </p> <p>Degradation of internalized αvβ5 integrin is controlled by uPAR bound uPA: effect on β1 integrin activity and α-SMA stress fiber assembly.</p> <p>uPA (PLAU) signaling has a negative influence on myofibroblast differentiation;</p> </body> </html> </notes> <label text="ITGB5"/> <clone/> <bbox w="80.0" h="50.0" x="7760.0" y="2805.0"/> <glyph class="state variable" id="_3dd6704d-a25a-4efe-aa17-a3e80ab2dc81"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7755.0" y="2824.9602"/> </glyph> <glyph class="unit of information" id="_3e1e30d2-a67c-4f2b-96f7-0e68ee735d8f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7777.5" y="2800.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa83_emtc_em_sa83" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa83_emtc_em_sa83"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:F11R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:F11R"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAM1*"/> <bbox w="40.0" h="20.0" x="2958.0" y="14870.9"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2145_in_sa2145" compartmentRef="s_id_in_ca12_in_ca12"> <label text="TUMOR_DNA"/> <bbox w="115.0" h="23.0" x="15190.0" y="1908.75"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa67_akt1_akt1_csa67" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GAB1:GF:GRB2:PI3,4,5-P3:RAS*:RTK*:SOS*:p110*:p85*</p> <p>References:</p> <p>s_akt1_re136(MAP:survival):</p> <p>PMID:10514377</p> <p>PMID:17635922</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa67_akt1_akt1_csa67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10514377"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17635922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAB1:GF:GRB2:PI3,4,5-P3:RAS*:RTK*:SOS*:p110*:p85*"/> <bbox w="282.0" h="232.0" x="13963.561" y="17826.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa392_akt1_akt1_sa392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS p21 protein activator (GTPase activating protein) 1</p> <p>HUGO:RASA1 HGNC:9871 ENTREZ:5921 UNIPROT:P20936 GENECARDS:RASA1 REACTOME:63760 KEGG:5921 ATLASONC:GC_RASA1 WIKI:RASA1 </p> <p>RAS p21 protein activator 2</p> <p>HUGO:RASA2 HGNC:9872 ENTREZ:5922 UNIPROT:Q15283 GENECARDS:RASA2 KEGG:5922 ATLASONC:GC_RASA2 WIKI:RASA2 </p> <p>RAS p21 protein activator 3</p> <p>HUGO:RASA3 HGNC:20331 ENTREZ:22821 UNIPROT:Q14644 GENECARDS:RASA3 KEGG:22821 ATLASONC:GC_RASA3 WIKI:RASA3 </p> <p>RAS p21 protein activator 4</p> <p>HUGO:RASA4 HGNC:23181 ENTREZ:10156 UNIPROT:O43374 GENECARDS:RASA4 KEGG:10156 WIKI:RASA4 </p> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 GENECARDS:HRAS REACTOME:62718 KEGG:3265 ATLASONC:HRASID108 WIKI:HRAS </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 GENECARDS:KRAS REACTOME:62720 KEGG:3845 ATLASONC:KRASID91 WIKI:KRAS </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111 GENECARDS:NRAS REACTOME:62726 KEGG:4893 ATLASONC:NRASID92 WIKI:NRAS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:21102635</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="80.0" h="40.0" x="14072.061" y="17998.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_akt1_akt1_sa395_akt1_akt1_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 GENECARDS:EGFR REACTOME:54208 KEGG:1956 ATLASONC:GC_EGFR WIKI:EGFR </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 GENECARDS:ERBB2 REACTOME:54422 KEGG:2064 ATLASONC:ERBB2ID162ch17q11 WIKI:ERBB2 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860 GENECARDS:ERBB3 REACTOME:403310 KEGG:2065 ATLASONC:ERBB3ID40479ch12q13 WIKI:ERBB3 </p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 GENECARDS:ERBB4 REACTOME:54426 KEGG:2066 ATLASONC:GC_ERBB4 WIKI:ERBB4 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 GENECARDS:FGFR1 REACTOME:402793 KEGG:2260 ATLASONC:FGFR1113 WIKI:FGFR1 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 GENECARDS:FGFR2 REACTOME:403305 KEGG:2263 ATLASONC:FGFR2ID40570ch10q26 WIKI:FGFR2 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 GENECARDS:FGFR3 REACTOME:403340 KEGG:2261 ATLASONC:FGFR99 WIKI:FGFR3 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 GENECARDS:FGFR4 REACTOME:54820 KEGG:2264 ATLASONC:FGFR4ID512ch5q35 WIKI:FGFR4 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 GENECARDS:FLT1 REACTOME:403120 KEGG:2321 ATLASONC:GC_FLT1 WIKI:FLT1 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 GENECARDS:FLT3 KEGG:2322 ATLASONC:FLT3ID144 WIKI:FLT3 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 GENECARDS:FLT4 REACTOME:67176 KEGG:2324 ATLASONC:GC_FLT4 WIKI:FLT4 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 GENECARDS:PDGFRA REACTOME:61602 KEGG:5156 ATLASONC:GC_PDGFRA WIKI:PDGFRA </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619 GENECARDS:PDGFRB REACTOME:61600 KEGG:5159 ATLASONC:PDGFRBID21ch5q32 WIKI:PDGFRB </p> <p>A generic name for this family of receptors that contain a tyrosine kinase activity.</p> <p>rhotekin</p> <p>HUGO:RTKN HGNC:10466 ENTREZ:6242 UNIPROT:Q9BST9 GENECARDS:RTKN ATLASONC:GC_RTKN WIKI:RTKN</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="90.0" h="139.0" x="13979.105" y="17858.455"/> <glyph class="unit of information" id="_c6a265ac-d56c-4eb7-b44d-8f5ee991d77f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="14014.105" y="17853.455"/> </glyph> <glyph class="state variable" id="_2a384019-1ada-4a91-8edc-ab5645b6bc62"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14061.605" y="17951.746"/> </glyph> <glyph class="state variable" id="_cad4aea0-5aab-4785-87f1-27c7fa3106cd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14064.105" y="17951.746"/> </glyph> <glyph class="state variable" id="_6d0d93d3-786b-4c74-a855-e284af995f96"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14061.605" y="17922.955"/> </glyph> <glyph class="unit of information" id="_eb25e87c-2242-4958-a5f3-2f5581c17c4e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14001.605" y="17853.455"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa386_akt1_akt1_sa386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PI3,4,5-P3"/> <bbox w="70.0" h="25.0" x="14156.061" y="17887.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa390_akt1_akt1_sa390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GRB2-associated binding protein 1</p> <p>HUGO:GAB1 HGNC:4066 ENTREZ:2549 UNIPROT:Q13480 GENECARDS:GAB1 REACTOME:147726 ATLASONC:GC_GAB1 WIKI:GAB1 </p> <p>GRB2-associated binding protein 2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313945</p> </body> </html> </notes> <label text="GAB1"/> <bbox w="80.0" h="40.0" x="14153.061" y="17913.5"/> <glyph class="state variable" id="_c70d7973-fdc1-48f4-83b1-38a5d63c1fad"> <state value="" variable="Y977"/> <bbox w="30.0" h="10.0" x="14138.553" y="17908.5"/> </glyph> <glyph class="state variable" id="_817e68ca-d9d1-4b80-b186-b23625bc5f88"> <state value="" variable="Y989"/> <bbox w="30.0" h="10.0" x="14218.061" y="17908.713"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa387_akt1_akt1_sa387"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993 GENECARDS:GRB2 REACTOME:404631 KEGG:2885 ATLASONC:GRB2ID386ch17q25 WIKI:GRB2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> <p>PMID:17496910</p> <p>PMID:15574420</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="14071.561" y="17913.5"/> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa384_akt1_akt1_sa384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GF"/> <bbox w="70.0" h="25.0" x="13987.061" y="17844.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa391_akt1_akt1_sa391"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 GENECARDS:SOS1 REACTOME:64848 KEGG:6654 ATLASONC:GC_SOS1 WIKI:SOS1 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890 GENECARDS:SOS2 REACTOME:64850 ATLASONC:GC_SOS2 WIKI:SOS2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> <p>PMID:17496910</p> <p>PMID:15574420</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="80.0" h="40.0" x="14071.061" y="17955.75"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa389_akt1_akt1_sa389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>Phosphoinositide-3-kinase catalytic subunit p110</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329</p> <p>Map modules:</p> <p>MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>Three genes ??? PIK3CA, PIK3CB and PIK3CD ??? encode the highly homologous p110 catalytic subunit isoforms p110??, p110?? and p110??, respectively101. They possess an N-terminal p85-binding domain that interacts with the</p> <p>p85 regulatory subunit, a Ras-binding domain (RBD) that mediates activation by the small GTPase Ras, a C2 domain, a phosphatidylinositol kinase homology (PIK) domain and a C-terminal catalytic domain. The PIK and catalytic domains of p110 are homologous to domains found in a family of protein kinases that includes mTOR (mammalian target of rapamycin), ATM (ataxia telangiectasia mutated), ATR (ataxia telangiectasia Rad3 related) and DNA-PK (DNA-dependent serine/threonine protein kinase), indicating that these proteins share an ancient evolutionary origin.</p> <p>PMID:19568798</p> <p>The 110-kDa catalytic subunit consists of a catalytic lipid kinase domain, a Ras binding domain (RasB), a C2 phospholipid binding domain (protein kinase C homology domain), a helical PI kinase (PIK) domain and an N-terminal domain, which forms a tight association with the regulatory subunit.</p> <p>PMID:12040186</p> </body> </html> </notes> <label text="p110*"/> <bbox w="80.0" h="40.0" x="14153.061" y="17998.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa388_akt1_akt1_sa388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <bbox w="80.0" h="40.0" x="14153.061" y="17955.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa839_ca_sa839" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa528_ca_sa528"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1/2*"/> <bbox w="80.0" h="40.0" x="4860.0" y="3186.0"/> <glyph class="state variable" id="_3145dffc-443a-4a11-89c9-b6a9cca7d72d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4855.0" y="3201.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4233_rc_sa4233" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4233_rc_sa4233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AATF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AATF"/> <bbox w="80.0" h="40.0" x="21359.06" y="9419.0"/> </glyph> <glyph class="complex" id="s_id_te_csa58_te_csa58" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:shelterin complex with uncoiled DNA</p> <p>ALT_NAME:POT1/RAP1A/TERF1/TERF2/TINF2/TPP1/Uncoiled_telomeric_DNA</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="shelterin_complex_with_uncoiled_DNA"/> <bbox w="368.0" h="226.0" x="2871.06" y="21886.0"/> <glyph class="macromolecule" id="s_id_te_sa394_te_sa394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TERF1 (TRF1-)interacting nuclear factor 2</p> <p>HUGO:TINF2, HGNC:11824, ENTREZ:26277, UNIPROT:Q9BSI4, GENECARDS:TINF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of TINF2</p> <p>PMID:10581025</p> </body> </html> </notes> <label text="TINF2"/> <bbox w="80.0" h="40.0" x="3034.2366" y="21913.705"/> <glyph class="state variable" id="_3141b833-0dc9-4ccb-94f8-608f809b2ae1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3029.2366" y="21928.674"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa395_te_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor (NIMA-interacting) 1</p> <p>HUGO:TERF1, HGNC:11728, ENTREZ:7013, UNIPROT:P54274, GENECARDS:TERF1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF1</p> <p>PMID:7502076</p> </body> </html> </notes> <label text="TERF1*"/> <bbox w="86.0" h="46.0" x="2985.2366" y="21963.955"/> <glyph class="unit of information" id="_f73013c7-bab7-47c8-baf0-fd2b684eaa6e"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3018.2366" y="21958.955"/> </glyph> <glyph class="state variable" id="_ab246b6b-db38-4cba-88ff-cd13ec158dbb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2980.2366" y="21981.955"/> </glyph> <glyph class="state variable" id="_324da6a4-6600-4584-9a7f-d39022b3908b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3066.2366" y="21981.955"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa393_te_sa393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tripeptidyl peptidase I</p> <p>HUGO:TPP1, HGNC:2073, ENTREZ:1200, UNIPROT:O14773, GENECARDS:TPP1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504</p> <p>Identification of TPP1</p> <p>PMID:15231715</p> </body> </html> </notes> <label text="TPP1"/> <bbox w="80.0" h="40.0" x="2891.2366" y="21960.705"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa396_te_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protection of telomere 1</p> <p>HUGO:POT1, HGNC:17284, ENTREZ:25913, UNIPROT:Q9NUX5, GENECARDS:POT1 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of POT1</p> <p>PMID:11349150</p> </body> </html> </notes> <label text="POT1"/> <bbox w="80.0" h="40.0" x="2894.2366" y="22019.705"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa399_te_sa399"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAP1A, member of RAS oncogene family</p> <p>HUGO:RAP1A, HGNC:9855, ENTREZ:5906, UNIPROT:P62834, GENECARDS:RAP1A </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID;16166375, PMID:19965504</p> <p>Identification of RAP1A</p> <p>PMID:10850490</p> </body> </html> </notes> <label text="RAP1A"/> <bbox w="80.0" h="40.0" x="3143.2366" y="22038.705"/> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa397_te_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomeric repeat binding factor 2</p> <p>HUGO:TERF2, HGNC:11728, ENTREZ:7014, UNIPROT:Q15554, GENECARDS:TERF2 </p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN, MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>Reviews</p> <p>PMID:18680434, PMID:16166375, PMID:19965504, PMID:22634377</p> <p>Identification of TERF2</p> <p>PMID:9326951</p> </body> </html> </notes> <label text="TERF2"/> <bbox w="86.0" h="46.0" x="3138.2366" y="21986.705"/> <glyph class="unit of information" id="_cb0e99ee-a934-4da1-b83b-90c59acb299c"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3171.2366" y="21981.705"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa400_te_sa400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>uncoiled telomeric DNAMODULE:REPLICATION ----- content merged by Celldesigner to SBGN-ML translation ------ uncoiled telomeric DNAMODULE:REPLICATIONPMID: </body> </html> </notes> <label text="Uncoiled_telomeric_DNA*"/> <bbox w="156.0" h="28.0" x="2978.06" y="22023.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa86_ce_sa86" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa86_ce_sa86"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIAH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIAH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIAH*"/> <bbox w="80.0" h="40.0" x="11033.795" y="11500.377"/> <glyph class="state variable" id="_e94f4822-0636-45b9-a682-2cb15aec75a3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11082.863" y="11495.377"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1548_ce_sa1548" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1548_ce_sa1548"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP2"/> <bbox w="80.0" h="40.0" x="9594.77" y="16572.5"/> <glyph class="state variable" id="_b8abfacb-a289-4c1c-9d91-18b971b620e5"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="9624.679" y="16567.5"/> </glyph> <glyph class="state variable" id="_4adc7275-2e77-41a2-9bfe-31bf0686291b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9667.27" y="16586.78"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa245_emtc_em_sa245" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa245_emtc_em_sa245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA2B"/> <bbox w="40.0" h="20.0" x="4129.02" y="17647.5"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa31_mpk1_mpk1_csa31" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RTK*:SRC</p> </body> </html> </notes> <label text="RTK*:SRC"/> <bbox w="72.0" h="88.0" x="7641.06" y="18920.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa582_mpk1_mpk1_sa582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="7651.333" y="18934.0"/> <glyph class="unit of information" id="_9f9100d8-aac0-453a-b33f-42ba3d37d5e9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7653.833" y="18929.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa164_mpk1_mpk1_sa164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian)</p> <p>SRC1 "v-src avian sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog"</p> <p>HUGO:SRC HGNC:11283 ENTREZ:6714 UNIPROT:P12931</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Many activated RTKs induce the Src-dependent activation of PLCG</p> </body> </html> </notes> <label text="SRC"/> <bbox w="50.0" h="25.0" x="7650.06" y="18955.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2391_in_sa2391" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="HLX"/> <bbox w="90.0" h="25.0" x="19740.0" y="4882.5"/> <glyph class="unit of information" id="_6a81fd40-cc6d-4136-ae25-d3a6dcdc6d99"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19775.0" y="4877.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa260_emtc_em_csa260" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCAR1:FAK1*:PXN:Talin*:Vinculin*:c-SRC*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:15688067</p> <p>The integrin-binding protein talin recruits FAK1 and vinculin to focal contacts.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa260_emtc_em_csa260"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15688067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Focal adhesion complex)"/> <bbox w="158.0" h="108.0" x="5745.0" y="18257.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1694_emtc_em_sa1694"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Talin*</p> <p>talin 1</p> <p>HUGO:TLN1 HGNC:11845 ENTREZ:7094 UNIPROT:Q9Y490 </p> <p>talin 2</p> <p>HUGO:TLN2 HGNC:15447 ENTREZ:83660 UNIPROT:Q9Y4G6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Talin*"/> <bbox w="39.0" h="16.0" x="5803.25" y="18287.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1691_emtc_em_sa1691"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine kinase 2</p> <p>"PTK2 protein tyrosine kinase 2"</p> <p>HUGO:PTK2 HGNC:9611 ENTREZ:5747 UNIPROT:Q05397</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FAK1*"/> <bbox w="64.0" h="21.0" x="5771.9" y="18313.5"/> <glyph class="state variable" id="_fea46d4e-737a-4442-b3cc-fffa7164c7fd"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="5761.9" y="18308.988"/> </glyph> <glyph class="state variable" id="_deebfd9b-2976-4156-99a8-7667b86ce2eb"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5825.6655" y="18308.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1696_emtc_em_sa1696"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer anti-estrogen resistance 1</p> <p>HUGO:BCAR1 HGNC:971 ENTREZ:9564 UNIPROT:P56945</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCAR1"/> <bbox w="50.0" h="19.0" x="5839.25" y="18327.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1693_emtc_em_sa1693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vinculin</p> <p>HUGO:VCL HGNC:12665 ENTREZ:7414 UNIPROT:P18206</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Vinculin*"/> <bbox w="61.0" h="17.0" x="5781.25" y="18262.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1695_emtc_em_sa1695"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>paxillin</p> <p>HUGO:PXN HGNC:9718 ENTREZ:5829 UNIPROT:P49023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:16000375</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>PMID:15308668</p> <p>CRK bound to DOCK1 (so-called DOCK180) forms complex with phosphorylated paxillin.</p> <p>The complex is necessary for collagen-dependent cell migration, mainly through Rac1 activation.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PXN"/> <bbox w="35.0" h="29.0" x="5767.25" y="18279.75"/> <glyph class="state variable" id="_7703a642-2ebc-4945-bd0e-1ebddb715bc0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5761.2964" y="18274.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1692_emtc_em_sa1692"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>c-src tyrosine kinase</p> <p>HUGO:CSK HGNC:2444 ENTREZ:1445 UNIPROT:P41240</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:18829532</p> <p>PMID:9819392</p> <p>PTK6 and CSK both can phosphorylate ARHGAP35 (p190) at Y1105</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by CSK or by PTK6.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="c-SRC*"/> <bbox w="45.0" h="18.0" x="5842.65" y="18306.5"/> <glyph class="state variable" id="_8fb03f6b-93fd-4231-b15a-524347df02ea"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="5880.15" y="18302.283"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa19_rc_csa19" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FAD:SDHA</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="SDHA"/> <bbox w="94.0" h="84.0" x="18380.31" y="14142.375"/> <glyph class="simple chemical" id="s_id_rc_sa263_rc_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="18389.31" y="14179.875"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa262_rc_sa262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>succinate dehydrogenase complex, subunit A, flavoprotein (Fp)</p> <p>HUGO:SDHA HGNC:10680 ENTREZ:6389 UNIPROT:P31040</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>FAD cofactor binding</p> </body> </html> </notes> <label text="SDHA"/> <bbox w="80.0" h="40.0" x="18386.31" y="14146.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa951_ca_sa951" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:TGFB</p> <p>PMID:20096135</p> <p>Gene expression profiling of cholangiocarcinoma-derived fibroblast reveals alterations related to tumor progression and indicates periostin as a poor prognostic marker.</p> <p>PN promotes proliferation and invasion of CCA cells</p> <p>Knockdown of ITGα5 attenuates PN-induced proliferation and invasion</p> <p>PMID:22158103 </p> <p>Postn expression in fibroblast is activated by TGFB signaling, probably via SMAD.</p> <p> Infiltrating tumour cells need to induce stromal POSTN expression in the secondary target organ (in this case lung) to initiate colonization. POSTN is required to allow cancer stem cell maintenance, and blocking its function prevents metastasis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa951_ca_sa951"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POSTN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20096135"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC5"/> <bbox w="70.0" h="25.0" x="21436.441" y="16257.367"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3601_rc_sa3601" compartmentRef="s_id_rc_ca14_rc_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CID PMID:2828334</p> <p>Necrostatin-1 (Nec-1; 5-((1H-indol-3-yl)methyl)-3-methyl-2-thioxoimidazolidin-4-one)</p> <p>PMID:18408713</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>calcium/calmodulin-dependent protein kinase II alpha</p> <p> </p> <p>calcium/calmodulin-dependent protein kinase II beta</p> <p>calcium/calmodulin-dependent protein kinase II delta</p> <p>calcium/calmodulin-dependent protein kinase II gamma</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa259_mo_sa259"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="_4b8f26b0-ddeb-47b5-8c56-03b03d95ff22"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11840.5" y="4397.625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1825_in_sa1825" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL15RA"/> <bbox w="80.0" h="50.0" x="23505.0" y="3495.0"/> <glyph class="unit of information" id="_0b3e52ca-7bba-4467-a829-697efe1b01c5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23522.5" y="3490.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1322_emtc_em_sa1322" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1322_emtc_em_sa1322"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCG"/> <bbox w="45.0" h="16.0" x="1338.5" y="17444.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2379_emtc_em_sa2379" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2379_emtc_em_sa2379"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JNK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JNK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TYK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK family*"/> <bbox w="79.0" h="21.0" x="5878.0" y="13705.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa726_ad_sa726" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa726_ad_sa726"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFAT5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="27176.0" y="7015.0"/> <glyph class="state variable" id="_82818b24-261b-4768-8bc8-3644a6cf8438"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27168.5" y="7030.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa866_ce_sa866" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa866_ce_sa866"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCM4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MCM4"/> <bbox w="80.0" h="40.0" x="12490.27" y="9787.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa229_in_sa229" compartmentRef="s_id_in_ca37_in_ca37"> <label text="GZMB"/> <bbox w="80.0" h="40.0" x="16930.0" y="7510.0"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa652_wca1_wca1_sa652" compartmentRef="s_id_wca1_wca1_ca4_wca1_wca1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re28(MAP:survival):</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. Activation of CK1 epsilon by unknown factor</p> <p>An acidic environment is required for phosphorylation of DVL and LRP5/6</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa652_wca1_wca1_sa652"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20006983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16965538"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:210606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="H+"/> <bbox w="25.0" h="25.0" x="21755.06" y="17858.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2194_rc_sa2194" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:471593 CAS:51568-18-4</p> </body> </html> </notes> <label text="succinylacetone"/> <bbox w="125.0" h="23.0" x="17846.56" y="12777.75"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa41_wca1_wca3_csa41" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:B56_alpha_*</p> <p>References:</p> <p>s_wca3_re79(MAP:survival):</p> <p>This transport is enhanced upon phosphorylation however it is not necessary for import of APC into nucleus</p> <p>PMID:11689703 PMID:15649893 PMID:11050185 PMID:12223464</p> <p>s_wca3_re93:(MAP:survival) Not known if this dissociation occurs (here or later)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa41_wca1_wca3_csa41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15649893"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11050185"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223464"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:B56α*"/> <bbox w="100.0" h="120.0" x="20842.06" y="21243.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa259_wca1_wca3_sa259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20854.06" y="21254.0"/> <glyph class="state variable" id="_fe6f6a97-1563-4639-957f-b26220126f17"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20836.56" y="21288.72"/> </glyph> <glyph class="state variable" id="_49ef815c-b80d-4302-bae3-bb9517fbdbb1"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20842.053" y="21249.0"/> </glyph> <glyph class="state variable" id="_a932ca4d-758d-484f-8fa8-00f4d04a5901"> <state value="P" variable="S2034"/> <bbox w="40.0" h="10.0" x="20834.06" y="21288.72"/> </glyph> <glyph class="state variable" id="_1d411390-4356-464d-8b6a-a91849c64d5d"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20837.053" y="21249.0"/> </glyph> <glyph class="state variable" id="_e1761969-b77d-436f-8508-e324f298da42"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20837.053" y="21249.0"/> </glyph> <glyph class="state variable" id="_5fce9699-c044-4462-9d74-73fb29f56141"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20916.56" y="21249.213"/> </glyph> <glyph class="state variable" id="_57b918d8-5092-48b4-b853-856d5f93289b"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20916.56" y="21288.133"/> </glyph> <glyph class="state variable" id="_1b3f3702-b318-4210-b452-28d2c0a0c6b5"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20876.465" y="21289.0"/> </glyph> <glyph class="state variable" id="_a6b69e64-241a-46fd-945b-d320e2d78b0b"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20876.592" y="21249.0"/> </glyph> <glyph class="state variable" id="_af0335dd-4af4-4a62-b7b4-b614b0d70cb9"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20915.941" y="21289.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa260_wca1_wca3_sa260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B' alpha</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A</p> <p>Map modules:</p> </body> </html> </notes> <label text="B56α*"/> <bbox w="80.0" h="40.0" x="20854.06" y="21300.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1378_rc_sa1378" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1378_rc_sa1378"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90AB1"/> <bbox w="80.0" h="40.0" x="25246.81" y="14357.75"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa55_wnc1_wnc1_csa55" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRICKLE1:PRR*:RACK1*:ROR2:SMURF1:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re88(MAP:survival):</p> <p>Smurf associates upon binding of Wnt5 to frizzled</p> <p>PMID:19379695</p> <p>s_wnc1_re89(MAP:survival):</p> <p>Ubiquitination of Prickle by Smurf</p> <p>PMID:20930545</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa55_wnc1_wnc1_csa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20930545"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl"/> <bbox w="371.0" h="214.0" x="16850.56" y="19808.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa615_wnc1_wnc1_sa615"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="17037.56" y="19894.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa458_wnc1_wnc1_sa458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD specific E3 ubiquitin protein ligase 1</p> <p>HUGO:SMURF1 HGNC:16807 ENTREZ:57154 UNIPROT:Q9HCE7 GENECARDS:SMURF1 REACTOME:414424 ATLASONC:GC_SMURF1 WIKI:SMURF1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="SMURF1"/> <bbox w="80.0" h="40.0" x="16949.56" y="19933.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa432_wnc1_wnc1_sa432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16954.56" y="19888.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa437_wnc1_wnc1_sa437"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16935.56" y="19830.5"/> <glyph class="unit of information" id="_6c6e4019-8853-43b6-8003-9ba05c313bd1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16953.06" y="19825.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa430_wnc1_wnc1_sa430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="17099.06" y="19837.0"/> <glyph class="state variable" id="_f88c00e5-7a98-4d1a-8192-2d65354950b5"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="17164.06" y="19832.266"/> </glyph> <glyph class="state variable" id="_a6fe631e-9a14-4c79-8aa9-a35ffabfa471"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17134.06" y="19882.0"/> </glyph> <glyph class="state variable" id="_5ae569fb-0f92-48e7-868f-1c171dcbfee9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17094.064" y="19832.0"/> </glyph> <glyph class="state variable" id="_f592c253-33b9-4a90-b486-85b4e4d6eb14"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17174.06" y="19882.0"/> </glyph> <glyph class="unit of information" id="_202acc00-6f63-4dfd-a49c-74626d1cda1e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17116.56" y="19832.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa542_wnc1_wnc1_sa542"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="17126.31" y="19938.5"/> <glyph class="state variable" id="_d8aa6bb3-3d93-4b1a-989e-15d59e217a3c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17121.314" y="19973.5"/> </glyph> <glyph class="state variable" id="_96a82efa-4bda-4d87-91bf-55ba45fa8047"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17198.443" y="19933.5"/> </glyph> <glyph class="state variable" id="_45cff6af-2a7b-43a5-986b-6c72f4fdf012"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="17190.691" y="19973.5"/> </glyph> <glyph class="state variable" id="_e0449c40-3106-4479-9f06-59e07307364e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17121.314" y="19933.5"/> </glyph> <glyph class="state variable" id="_356e76b8-24a2-4434-997c-4418c00f389d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17201.31" y="19933.5"/> </glyph> <glyph class="state variable" id="_78b1fd8f-cbf4-4f9c-820d-fbb4c62a6539"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17201.31" y="19973.5"/> </glyph> <glyph class="state variable" id="_2334e09d-e349-4d0e-b6b5-ba91def04bbc"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="17111.31" y="19973.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa440_wnc1_wnc1_sa440"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16861.56" y="19878.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa439_wnc1_wnc1_sa439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16854.56" y="19825.5"/> <glyph class="state variable" id="_bc4810f0-7859-42c4-ae0f-158a894f399f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16849.564" y="19820.5"/> </glyph> <glyph class="state variable" id="_a76142a4-61d3-4785-aa05-7b03158d7e05"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16929.56" y="19820.5"/> </glyph> <glyph class="state variable" id="_d6d8d932-3c61-4a1f-a5e3-58638e92368d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16929.56" y="19845.5"/> </glyph> <glyph class="state variable" id="_75c5a0b0-ebea-497b-8c7b-dc885d5e9a5d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16849.56" y="19845.5"/> </glyph> <glyph class="unit of information" id="_630ec4b0-b4ee-485a-8f1a-82e6612d676a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16872.06" y="19820.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa441_wnc1_wnc1_sa441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16863.56" y="19922.5"/> <glyph class="state variable" id="_ea6d7dfb-c504-4da8-b195-b7905783c703"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16936.06" y="19917.5"/> </glyph> <glyph class="state variable" id="_a6137aef-ec0b-41bd-8b63-4e841d9cd618"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16858.564" y="19917.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa436_wnc1_wnc1_sa436"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="17122.56" y="19812.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa442_wnc1_wnc1_sa442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16865.56" y="19962.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa429_wnc1_wnc1_sa429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17018.06" y="19837.0"/> <glyph class="unit of information" id="_f5cd40a3-d65b-4adb-a1b6-c4e854033588"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17035.56" y="19832.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa542_wnc1_wnc1_sa543"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="17129.31" y="19891.5"/> <glyph class="state variable" id="_4357788f-fa99-4e61-a9d7-76c07c71a360"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17124.314" y="19926.5"/> </glyph> <glyph class="state variable" id="_abdb411e-e111-441c-86c0-3fbd01d0a8b1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17201.443" y="19886.5"/> </glyph> <glyph class="state variable" id="_7fd48c2a-c8bf-4b21-bd0c-3d44f0868f58"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="17193.691" y="19926.5"/> </glyph> <glyph class="state variable" id="_565507e7-5a20-4ded-b8eb-dbc14ab49518"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17124.314" y="19886.5"/> </glyph> <glyph class="state variable" id="_84aa7940-b364-4299-8378-5c636672a250"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17204.31" y="19886.5"/> </glyph> <glyph class="state variable" id="_4ee1263e-c0a5-4f2c-9581-52d6d307851b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17204.31" y="19926.5"/> </glyph> <glyph class="state variable" id="_39544498-771d-4262-8e86-584054df1d51"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="17114.31" y="19926.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa431_wnc1_wnc1_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="17080.06" y="19813.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa438_wnc1_wnc1_sa438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="17039.56" y="19938.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa68_ad_csa68" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:IL15, CASCADE:IL21, CASCADE:CSF2, CASCADE:IFNG</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> </body> </html> </notes> <label text="ad_s1115"/> <bbox w="100.0" h="120.0" x="30086.0" y="3605.0"/> <glyph class="simple chemical" id="s_id_ad_sa659_ad_sa659"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="30101.0" y="3672.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa658_ad_sa658"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PDK1</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12670391</p> <p>PI3K in T cells</p> <p>PMID:19122654 ;PMID:15802604 </p> <p>TCR-CD28–mediated NF-κB activation requires PDK1</p> <p>PDK1 and PKC-θ also localized together at the immunological synapse following stimulation of primary CD4+ T cells</p> <p> recruitment of PDK1 and PKC-θ can occur independently; that is, treatment with anti-CD3 alone led to PKC-θ recruitment, whereas treatment with anti-CD28 alone led to PDK1 recruitment</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation as PDK1-deficient Jurkat and primary CD4 T cells show a defect in PKCθ phosphorylation and NF-κB activation.</p> </body> </html> </notes> <label text="PDPK1"/> <bbox w="80.0" h="40.0" x="30096.0" y="3615.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2483_emtc_em_sa2483" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2483_emtc_em_sa2483"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP1*"/> <bbox w="54.0" h="18.0" x="1814.0" y="18667.0"/> <glyph class="unit of information" id="_00616fbc-2f9a-43a2-b9b6-fed23e9cdbbe"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1816.0" y="18662.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3102_rc_sa3102" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3102_rc_sa3102"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YWHAZ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="YWHAZ"/> <bbox w="80.0" h="40.0" x="25019.06" y="14003.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa139_ca_sa139" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa139_ca_sa139"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL7"/> <bbox w="80.0" h="40.0" x="920.0" y="4230.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa52_ca_sa52" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa52_ca_sa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SERPINE1"/> <bbox w="90.0" h="25.0" x="2945.0" y="2367.5"/> <glyph class="unit of information" id="_ac9cd786-4064-457e-9530-5b623e778ede"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2980.0" y="2362.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1081_ca_sa1081" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:METABOLIC MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF </p> <p>References:</p> <p>PMID:22850421; PMID:21358671</p> <p>SIRT3 is involved in the control of HIF1 expression, and redox signaling.</p> <p>A decrease in SIRT3 expression leads to increased superoxide dismutase 2 (SOD2) acetylation/inhibition, thereby causing ROS increase and HIF1 stabilization.</p> <p>SIRT3 is upregulated in normal fibroblasts and downregulated in CAFs.</p> <p>PMID:21150282</p> <p> the tumor promoting effects of Cav-1 deficient fibroblasts could be functionally suppressed (nearly 2-fold) by the recombinant over-expression of SOD2 (superoxide dismutase 2), a known mitochondrial enzyme that de-activates superoxide, thereby reducing mitochondrial oxidative stress. I</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1081_ca_sa1081"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SOD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22850421"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21358671"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21150282"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SOD2"/> <bbox w="80.0" h="40.0" x="3140.0" y="4510.0"/> <glyph class="state variable" id="_57fdab6b-9813-4f07-a476-a985ff675c76"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3135.0" y="4525.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1455_emtc_em_sa1455" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1455_emtc_em_sa1455"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DIAPH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DIAPH3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHPN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoB_cytoskeletal_effectors*"/> <bbox w="160.0" h="20.0" x="5881.0" y="15002.5"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca2_sa166_wca1_wca2_sa166" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re59:(MAP:survival) PMID:23371553</p> <p>s_wca2_re60(MAP:survival):</p> <p>Without RIPK4 upon wnt3 stimulation 25% of HeLa cells show DVL2 in puncta. 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CARS"/> <bbox w="80.0" h="40.0" x="26629.06" y="10029.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa93_ca_csa93" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EMILIN2</p> </body> </html> </notes> <label text="ca_s4493"/> <bbox w="105.0" h="89.0" x="4695.0" y="4351.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa786_ca_sa786"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:EMILIN2Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:PMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:PMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences </body> </html> </notes> <label text="EMILIN2"/> <bbox w="90.0" h="25.0" x="4705.0" y="4397.5"/> <glyph class="unit of information" id="_d1fbe625-9ceb-4d7e-bd6e-019317064b6d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4740.0" y="4392.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa787_ca_sa787"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR320AMap modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CAF_INHIBITION_ANTITUMOR References:_INHIBITION_ANTITUMORPMID:22179046 MiR-320 is a Pten target in fibroblasts that suppresses tumor growthEts2 is a direct target of miR-320 in fibroblastsMmp9 and Emilin2 are directly regulated by miR-320 via their 3′ UTR target sequences </body> </html> </notes> <label text="MIR320A"/> <bbox w="90.0" h="25.0" x="4705.0" y="4367.5"/> <glyph class="unit of information" id="_e231d8f2-cdcc-4f58-8387-c8befb20cf11"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="4735.0" y="4362.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1493_rc_sa1493" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1493_rc_sa1493"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP73"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p73*"/> <bbox w="80.0" h="40.0" x="21051.56" y="16534.0"/> <glyph class="state variable" id="_cbf0ebc5-d4f5-46be-bd07-319469e597d4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21103.129" y="16529.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa460_ca_sa460" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa460_ca_sa460"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <bbox w="80.0" h="40.0" x="5320.0" y="3186.0"/> <glyph class="state variable" id="_f5fa8760-e313-41f3-8988-f41406756915"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5315.0" y="3200.9683"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa335_rc_csa335" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAG4:TNFRSF1A</p> </body> </html> </notes> <label text="BAG4:TNFRSF1A"/> <bbox w="100.0" h="130.0" x="22009.06" y="9164.0"/> <glyph class="macromolecule" id="s_id_rc_sa3115_rc_sa3115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily, member 1A</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:28765050</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="80.0" h="50.0" x="22020.06" y="9172.5"/> <glyph class="unit of information" id="_67748452-6c37-4191-a2e2-9aa38c314fd5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22037.56" y="9167.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3114_rc_sa3114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated athanogene 4</p> <p>HUGO:BAG4 HGNC:940 ENTREZ:9530 UNIPROT:O95429</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>synonym:SODD</p> </body> </html> </notes> <label text="BAG4"/> <bbox w="80.0" h="40.0" x="22019.06" y="9224.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa113_ce_csa113" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*:E-Cadherin*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC1*/APC2*/APC3*/APC4*/APC5*/APC6*/APC7*/APC8*/APC9*/APC10*/APC11*/APC12/CDH1"/> <bbox w="259.0" h="238.0" x="11520.473" y="10490.356"/> <glyph class="macromolecule" id="s_id_ce_sa774_ce_sa774"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> <p>HUGO:CDH1, HGNC:1748, ENTREZ:999, UNIPROT:P12830</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="80.0" h="40.0" x="11526.994" y="10493.356"/> <glyph class="state variable" id="_a09b5fd7-cf4d-417a-8c67-aca209eb877a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11519.494" y="10508.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1011_ce_sa1011"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10, HGNC:24077, ENTREZ:10393, UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="11691.994" y="10576.504"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1006_ce_sa1006"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16 homolog (S. cerevisiae)</p> <p>HUGO:CDC16, HGNC:1720, ENTREZ:8881, UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="11610.994" y="10576.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1007_ce_sa1007"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7, HGNC:17380, ENTREZ:51434, UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="11610.994" y="10619.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1008_ce_sa1008"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23 homolog (S. cerevisiae)</p> <p>HUGO:CDC23, HGNC:1724, ENTREZ:8697, UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="11610.994" y="10661.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1002_ce_sa1002"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC1, HGNC:19988, ENTREZ:64682, UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="11526.994" y="10535.216"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1004_ce_sa1004"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4, HGNC:19990, ENTREZ:29945, UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="11526.994" y="10661.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1003_ce_sa1003"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27 homolog (S. cerevisiae)</p> <p>HUGO:CDC27, HGNC:1728, ENTREZ:996, UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="11526.994" y="10621.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1005_ce_sa1005"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5, HGNC:15713, ENTREZ:51433, UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="11610.994" y="10534.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1009_ce_sa1009"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26 homolog (S. cerevisiae)</p> <p>HUGO:CDC26, HGNC:17839, ENTREZ:246184, UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="11691.994" y="10661.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1001_ce_sa1001"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2, HGNC:19989, ENTREZ:29882, UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="11526.994" y="10577.837"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1010_ce_sa1010"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11, HGNC:14452, ENTREZ:51529, UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="11691.994" y="10619.171"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa55_wca1_wca3_csa55" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:KLF8:PYGO*:_beta_-Catenin*:p300*</p> <p>References:</p> <p>s_wca3_re115:(MAP:survival) PMID:21416054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa55_wca1_wca3_csa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21416054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:KLF8:PYGO*:β-Catenin*:p300*"/> <bbox w="108.0" h="267.0" x="21035.686" y="21845.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa333_wca1_wca3_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21050.748" y="21944.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa335_wca1_wca3_sa335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="21050.31" y="21903.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa334_wca1_wca3_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21050.248" y="22024.5"/> <glyph class="state variable" id="_eef79170-3960-4561-be83-c69e7b37c148"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21038.24" y="22019.5"/> </glyph> <glyph class="state variable" id="_17631086-dfb7-459d-9c70-3e15850dabfc"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21037.748" y="22059.22"/> </glyph> <glyph class="state variable" id="_66a4ae07-6f70-49d0-9000-67b51a6b13a8"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21115.248" y="22019.713"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kruppel-like factor 8</p> <p>HUGO:KLF8 HGNC:6351 ENTREZ:11279 UNIPROT:O95600 GENECARDS:KLF8 KEGG:11279 ATLASONC:GC_KLF8 WIKI:KLF8</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES</p> </body> </html> </notes> <label text="KLF8"/> <bbox w="80.0" h="40.0" x="21051.436" y="21859.0"/> <glyph class="state variable" id="_ad647aac-e69f-4697-8cbb-ba3851120358"> <state value="Ac" variable="K67"/> <bbox w="35.0" h="10.0" x="21033.936" y="21854.932"/> </glyph> <glyph class="state variable" id="_95110405-1068-4da9-82c8-cfd3bd666a40"> <state value="Ac" variable="K95"/> <bbox w="35.0" h="10.0" x="21113.936" y="21892.38"/> </glyph> <glyph class="state variable" id="_14a2ea55-3be8-49a0-9efe-ad335ae25279"> <state value="Ac" variable="K93"/> <bbox w="35.0" h="10.0" x="21112.783" y="21854.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa332_wca1_wca3_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21050.748" y="21984.25"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3740_rc_sa3740" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15843</p> </body> </html> </notes> <label text="Arachidonic acid"/> <bbox w="115.0" h="23.0" x="20801.56" y="10837.75"/> </glyph> <glyph class="complex" id="s_id_in_csa145_in_csa145" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SMAD2:SMAD4"/> <bbox w="100.0" h="120.0" x="9930.0" y="2405.0"/> <glyph class="macromolecule" id="s_id_in_sa955_in_sa955"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SMAD4"/> <bbox w="80.0" h="40.0" x="9940.0" y="2455.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa956_in_sa956"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SMAD2"/> <bbox w="80.0" h="40.0" x="9940.0" y="2415.0"/> <glyph class="state variable" id="_221cc8f9-b5c5-42fa-8db6-896187d5d0ea"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9932.5" y="2429.9683"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa718_mpk1_mpk1_sa718" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa718_mpk1_mpk1_sa718"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAB1"/> <bbox w="50.0" h="25.0" x="8069.56" y="19543.0"/> <glyph class="state variable" id="_eadb1f96-bfa8-4059-a3de-5f1647ca46c6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8064.56" y="19550.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_an_sa190_an_sa190" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11324699</p> <p>PMID:15258919</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa190_an_sa190"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11324699"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15258919"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="phosphatidic acid"/> <bbox w="125.0" h="33.0" x="4416.5" y="6763.75"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1046_ad_sa1046" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:27896837 </p> <p>CD6 and Linker of Activated T cells are potential interaction </p> <p>partners for T cell Specific Adaptor protein</p> <p>TSAd co-immunoprecipitates with CD6 and LAT in Jurkat cells</p> <p>PMID:10975797</p> <p>T Cell-Specific Adapter Protein Inhibits T Cell Activation by Modulating Lck Activity</p> <p>Overexpression of TSAd in Jurkat T cells interfered with TCR-mediated signaling by down-modulating anti-CD3/PMA-induced IL-2 promoter activity and anti-CD3 induced Ca2+ mobilization. The TCR-induced tyrosine phosphorylation of phospholipase C-gamma1, SH2-domain-containing leukocyte-specific phosphoprotein of 76kDa, and linker for activation of T cells was also reduced. Furthermore, TSAd inhibited Zap-70 recruitment to the CD3zeta-chains in a dose-dependent manner. Consistent with this, Lck kinase activity was reduced 3- to 4-fold in COS-7 cells transfected with both TSAd and Lck, indicating a regulatory effect of TSAd on Lck. In conclusion, our data strongly suggest an inhibitory role for TSAd in proximal T cell activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1046_ad_sa1046"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SH2D2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27896837"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<bbox w="80.0" h="40.0" x="27779.06" y="10129.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa82_shh1_shh2_sa82" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa82_shh1_shh2_sa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAX6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAX6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAX6"/> <bbox w="70.0" h="25.0" x="26451.06" y="21317.5"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca4_sa72_wca1_wca4_sa72" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="BMP pathway"/> <bbox w="80.0" h="30.0" x="23812.06" y="21917.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3742_rc_sa3742" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>PMID:23110147</p> <p>PMID:17116881</p> <p>PARP1 one is able to trigger necroptosis, autophagy or apoptosis depending of cell type and state</p> <p>PMID:24684389</p> <p>PMID:27048819</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3742_rc_sa3742"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23110147"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17116881"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24684389"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048819"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP1 overactivation"/> <bbox w="168.0" h="30.0" x="19265.31" y="16684.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa552_wca1_wca1_sa552" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa552_wca1_wca1_sa552"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MARK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MARK2"/> <bbox w="80.0" h="40.0" x="21005.06" y="17971.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa445_ad_sa445" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa445_ad_sa445"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTG1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Actin cytoskeletal*"/> <bbox w="130.0" h="50.0" x="30141.0" y="8090.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa552_rc_csa552" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ADP-ribose*:RHO*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa552_rc_csa552"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHO*:ADP-ribose*"/> <bbox w="100.0" h="120.0" x="29359.06" y="9579.0"/> <glyph class="simple chemical" id="s_id_rc_sa5512_rc_sa5512"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:48584</p> <p>synonyms:Mediterranean fever, pyrin</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:24919149</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="ADP-ribose*"/> <bbox w="70.0" h="25.0" x="29374.06" y="9646.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5511_rc_sa5511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>HUGO:RHOA hgnc_id:HGNC:667 HGNC:667 ENTREZ:387 UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:24919149</p> <p>Pyrin does not directly recognize Rho</p> <p>modification, but probably senses an event downstream of Rho modification in the actin cytoskeleton pathway</p> </body> </html> </notes> <label text="RHO*"/> <bbox w="80.0" h="40.0" x="29369.06" y="9599.0"/> <glyph class="state variable" id="_94f37ca8-646e-42ab-9097-7a8fff61d857"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29404.06" y="9594.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa22_rc_csa22" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ACAD9:ECSIT:NDUFAF1</p> </body> </html> </notes> <label text="ECSIT:NDUFAF1"/> <bbox w="97.0" h="167.0" x="18224.81" y="13590.5"/> <glyph class="macromolecule" id="s_id_rc_sa280_rc_sa280"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) complex I, assembly factor 1</p> <p>HUGO:NDUFAF1 HGNC:18828 ENTREZ:51103 UNIPROT:Q9Y375</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFAF1"/> <bbox w="80.0" h="40.0" x="18232.81" y="13691.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3434_rc_sa3434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>acyl-CoA dehydrogenase family, member 9</p> <p>HUGO:ACAD9 HGNC:21497 ENTREZ:28976 UNIPROT:Q9H845</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>PMID:26989860</p> </body> </html> </notes> <label text="ACAD9"/> <bbox w="80.0" h="40.0" x="18233.62" y="13599.726"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa281_rc_sa281"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ECSIT homolog (Drosophila)</p> <p>HUGO:ECSIT HGNC:29548 ENTREZ:51295 UNIPROT:Q9BQ95</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="ECSIT"/> <bbox w="80.0" h="40.0" x="18232.81" y="13647.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1047_ce_sa1047" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1047_ce_sa1047"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BUB1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BUBR1*"/> <bbox w="80.0" h="40.0" x="11400.77" y="13499.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa979_emtc_em_sa979" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa979_emtc_em_sa979"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <bbox w="75.0" h="29.0" x="1589.0" y="16344.5"/> <glyph class="state variable" id="_f4d9cc04-75b3-4a63-96b9-2734d7f8b051"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1659.0" y="16339.5"/> </glyph> <glyph class="state variable" id="_dba0a25a-931c-4db5-9e32-fb1090648686"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1584.0" y="16341.241"/> </glyph> <glyph class="state variable" id="_7a3fd208-580f-4eb8-b195-e833b0ef616e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1621.5299" y="16339.5"/> </glyph> <glyph class="state variable" id="_05e635ad-9268-4475-a338-c013d7b2c6ab"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1605.6804" y="16339.5"/> </glyph> <glyph class="state variable" id="_329d2505-cac4-4249-875f-211b0170c4c5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1659.0" y="16366.8"/> </glyph> <glyph class="state variable" id="_5be26302-7aa8-412f-8ca8-cf72e65511f4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1636.5126" y="16339.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa23_shh1_shh2_csa23" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:KCASH2*</p> </body> </html> </notes> <label text="CUL3_KCASH2"/> <bbox w="100.0" h="120.0" x="25988.06" y="21529.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa208_shh1_shh2_sa208"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>KCASH2</p> <p>HUGO:KCTD21 HGNC:27452 ENTREZ:283219 UNIPROT:Q4G0X4 GENECARDS:KCTD21 KEGG:283219 ATLASONC:GC_KCTD21 WIKI:KCTD21</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21472142</p> </body> </html> </notes> <label text="KCASH2*"/> <bbox w="80.0" h="40.0" x="25997.06" y="21580.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa206_shh1_shh2_sa206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618 GENECARDS:CUL3 REACTOME:53166 KEGG:8452 ATLASONC:GC_CUL3 WIKI:CUL3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17312394</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="25997.06" y="21537.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4678_rc_sa4678" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4678_rc_sa4678"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULK2"/> <bbox w="90.0" h="25.0" x="24501.56" y="16121.5"/> <glyph class="unit of information" id="_20585939-bee4-401b-bc92-c9a5ab79b337"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24536.56" y="16116.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1036_ca_sa1036" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PDGFPMID:23243022Quantitative real-time PCR (qRT-PCR) analyses of STC1 expression confirmed a 15-fold STC1-induction upon PDGF stimulation of fibroblastsSTC1 expression by cancer-associated fibroblasts drives metastasis of colorectal cancerSTC1-deficient fibroblasts displayed reduced intravasation of tumor cells along with fewer and smaller distant metastases formed. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PDGFPMID:23243022Quantitative real-time PCR (qRT-PCR) analyses of STC1 expression confirmed a 15-fold STC1-induction upon PDGF stimulation of fibroblastsSTC1 expression by cancer-associated fibroblasts drives metastasis of colorectal cancerSTC1-deficient fibroblasts displayed reduced intravasation of tumor cells along with fewer and smaller distant metastases formed. </body> </html> </notes> <extension> <annotation xmlns="" 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class="macromolecule" id="s_id_in_sa1644_in_sa1644"> <label text="CSF2"/> <bbox w="80.0" h="40.0" x="24830.0" y="5470.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa80_mo_sa80" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="target genes*"/> <bbox w="97.0" h="25.0" x="4003.0" y="10560.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa121_wca1_wca2_sa121" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa121_wca1_wca2_sa121"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2"/> <bbox w="80.0" h="40.0" x="23662.06" y="19377.0"/> <glyph class="state variable" id="_60805d66-cd95-44bd-99f6-612c99aba281"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23734.56" y="19372.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa118_ce_sa118" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa118_ce_sa118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NTHL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NTH1*"/> <bbox w="80.0" h="40.0" x="9593.855" y="15526.105"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa38_wca1_wca4_sa38" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa38_wca1_wca4_sa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD1"/> <bbox w="70.0" h="25.0" x="23531.06" y="21268.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1344_ad_sa1344" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CELL:CD4CELL:TREGMODULE:INHIBITING_CHECKPOINTSPMID:17449799 In mice, the enzyme is present on virtually all CD4(+)CD25(+) cells. CD39 expression is driven by the Treg-specific transcription factor Foxp3 and its catalytic activity is strongly enhanced by T-cell receptor (TCR) ligation. ----- content merged by Celldesigner to SBGN-ML translation ------ CELL:CD4CELL:TREGMODULE:INHIBITING_CHECKPOINTSPMID:17449799 In mice, the enzyme is present on virtually all CD4(+)CD25(+) cells. CD39 expression is driven by the Treg-specific transcription factor Foxp3 and its catalytic activity is strongly enhanced by T-cell receptor (TCR) ligation. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1344_ad_sa1344"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENTPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17449799"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENTPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17449799"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD39*"/> <bbox w="70.0" h="25.0" x="27111.0" y="2567.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5329_rc_sa5329" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:20612</p> <p>synonyms:5-methyltetrahydrofolate</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5329_rc_sa5329"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Levomefolic acid"/> <bbox w="105.0" h="23.0" x="26199.06" y="9936.5"/> </glyph> <glyph class="complex" id="s_id_in_csa304_in_csa304" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s3748"/> <bbox w="100.0" h="180.0" x="18337.5" y="1590.0"/> <glyph class="macromolecule" id="s_id_in_sa2236_in_sa2236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FCER1G"/> <bbox w="80.0" h="50.0" x="18347.5" y="1695.0"/> <glyph class="state variable" id="_a299b306-06a2-471d-b442-b947ac4f5e9e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18340.0" y="1715.0"/> </glyph> <glyph class="unit of information" id="_7b448ba6-8d35-4296-86a0-21a1093ddf4e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18365.0" y="1690.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2219_in_sa2219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FcγRI*"/> <bbox w="80.0" h="50.0" x="18347.5" y="1635.0"/> <glyph class="unit of information" id="_50419142-9560-4135-ac61-c9ad42f03aa2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18365.0" y="1630.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2221_in_sa2221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Immunoglobulins*"/> <bbox w="80.0" h="40.0" x="18352.5" y="1600.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa326_emtc_em_csa326" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha_*:PLC_beta_*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Gα/PLCβ)"/> <bbox w="62.0" h="100.0" x="2389.0" y="18285.5"/> <glyph class="simple chemical" id="s_id_emtc_em_sa2257_emtc_em_sa2257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="28.0" h="27.0" x="2406.5" y="18287.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2256_emtc_em_sa2256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992</p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113</p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344</p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837</p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679</p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096</p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899</p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754</p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405</p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471</p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21640127</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="2402.0" y="18316.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2259_emtc_em_sa2259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phospholipase C, beta 1 (phosphoinositide-specific)</p> <p>HUGO:PLCB1, HGNC:15917, ENTREZ:23236, GENECARDS:GC20P008061, UNIPROT:Q9NQ66 </p> <p>phospholipase C, beta 2</p> <p>HUGO:PLCB2, HGNC:9055, ENTREZ:5330, GENECARDS:GC15M040580, UNIPROT:Q00722 </p> <p>phospholipase C, beta 3 (phosphatidylinositol-specific)</p> <p>HUGO:PLCB3, HGNC:9056, ENTREZ:5331, GENECARDS:GC11P064019, UNIPROT:Q01970 </p> <p>phospholipase C, beta 4</p> <p>HUGO:PLCB4, HGNC:9059, ENTREZ:5332, GENECARDS:GC20P009024, UNIPROT:Q15147</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PLCβ*"/> <bbox w="41.0" h="18.0" x="2401.5" y="18344.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa109_wnc1_wnc1_sa109" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Ca2+/Wnt MODULE</p> <p>s_wnc1_re26:(MAP:survival) PMID:16054198</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa109_wnc1_wnc1_sa109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054198"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IP3"/> <bbox w="70.0" h="25.0" x="14990.061" y="18304.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa486_te_sa486" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Modules_begin:MODULE:REPLICATIONModules_end ----- content merged by Celldesigner to SBGN-ML translation ------ Modules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="Telomeric C-Strand"/> <bbox w="171.0" h="31.0" x="3175.06" y="22494.5"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa14_wnc1_wnc2_sa14" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18497.56" y="17844.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa292_emtc_em_sa292" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa292_emtc_em_sa292"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB6"/> <bbox w="60.0" h="20.0" x="5122.355" y="17722.5"/> <glyph class="unit of information" id="_81c5d515-6568-4da3-87e7-608c2119b717"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5142.355" y="17717.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa47_akt1_akt2_csa47" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:CyclinD*</p> <p>References:</p> <p>s_akt2_re139:(MAP:survival) PMID:11124803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa47_akt1_akt2_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11124803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:CyclinD*"/> <bbox w="100.0" h="120.0" x="14197.561" y="20341.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa270_akt1_akt2_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="14204.561" y="20353.0"/> <glyph class="state variable" id="_5955a798-421b-42f7-8c1a-f99e9d112429"> <state value="P" variable="T286"/> <bbox w="35.0" h="10.0" x="14267.061" y="20348.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa271_akt1_akt2_sa271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="14203.061" y="20396.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1289_ad_sa1289" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:19406987 Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cellsKLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expressionKLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:19406987 Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cellsKLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expressionKLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1289_ad_sa1289"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19406987"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19406987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDKN1B"/> <bbox w="90.0" h="25.0" x="27171.0" y="8302.5"/> <glyph class="unit of information" id="_68bfdd4b-333c-4d67-b304-90b94ba0c2be"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27206.0" y="8297.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa18_wca1_wca2_csa18" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGA3:TGFB1:TGFBR*:_beta_-Catenin*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re45(MAP:survival):</p> <p>Src phosphorylates Y654 residue on b-catenin</p> <p>PMID:16099633</p> <p>s_wca2_re46:(MAP:survival) PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa18_wca1_wca2_csa18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16099633"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*:ITGA3:TGFB1:TGFBR*:β-Catenin*:p120*"/> <bbox w="202.0" h="249.0" x="23927.06" y="18834.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa112_wca1_wca2_sa112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="24027.06" y="18935.0"/> <glyph class="state variable" id="_852430a4-a428-4929-8a79-e95f23f62f47"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="24015.053" y="18930.0"/> </glyph> <glyph class="state variable" id="_2acac659-0874-4d17-bff2-a240660df068"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="24014.56" y="18969.72"/> </glyph> <glyph class="state variable" id="_0b57d17f-ac30-4196-bfd0-21e6cdcff553"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="24012.553" y="18930.0"/> </glyph> <glyph class="state variable" id="_d8a95e30-44b6-462c-ac42-9419161fe40d"> <state value="" variable="S45"/> <bbox w="25.0" h="10.0" x="24054.465" y="18970.0"/> </glyph> <glyph class="state variable" id="_b8cc718e-d1b8-4244-8621-f266a8f8586b"> <state value="" variable="T41"/> <bbox w="25.0" h="10.0" x="24093.941" y="18970.0"/> </glyph> <glyph class="state variable" id="_188e4d4c-397a-452f-9e34-8dada4047d9b"> <state value="" variable="K345"/> <bbox w="30.0" h="10.0" x="24092.06" y="18930.213"/> </glyph> <glyph class="state variable" id="_b7926fa1-968c-4699-8bac-1c944f916e04"> <state value="" variable="S37"/> <bbox w="25.0" h="10.0" x="24094.56" y="18930.213"/> </glyph> <glyph class="state variable" id="_042fb4c8-c691-45be-9e25-1a774b33fe71"> <state value="" variable="S33"/> <bbox w="25.0" h="10.0" x="24054.592" y="18930.0"/> </glyph> <glyph class="state variable" id="_5bccc250-e0a8-4d8d-a317-e617fcedcfdc"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="24038.777" y="18930.0"/> </glyph> <glyph class="state variable" id="_096e66d8-7c7b-4ac3-bc37-f07da8587346"> <state value="P" variable="Y654"/> <bbox w="35.0" h="10.0" x="24089.56" y="18930.213"/> </glyph> <glyph class="state variable" id="_c7144284-9d39-424c-843d-61cbc9b7e1ed"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24022.06" y="18936.271"/> </glyph> <glyph class="state variable" id="_a9b3a1be-6a67-4fde-9a25-2dc7a9f614f2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24022.06" y="18947.96"/> </glyph> <glyph class="state variable" id="_feaf45cd-d781-4820-a01b-816b4bc55b07"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24022.06" y="18941.508"/> </glyph> <glyph class="state variable" id="_a9a1e20f-9ca9-461b-8511-6c301d831d79"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24022.06" y="18949.969"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa109_wca1_wca2_sa109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin alpha 3 (antigen CD49C alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143" MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006 GENECARDS:ITGA3 REACTOME:57565 KEGG:3675 ATLASONC:GC_ITGA3 WIKI:ITGA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_MATRIX_ADHESIONS</p> </body> </html> </notes> <label text="ITGA3"/> <bbox w="80.0" h="40.0" x="24009.06" y="18846.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa110_wca1_wca2_sa110"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="123.0" h="41.0" x="23949.06" y="18892.0"/> <glyph class="state variable" id="_f649e611-a661-407a-b556-b74232f46411"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24067.06" y="18887.0"/> </glyph> <glyph class="state variable" id="_aed1f714-1158-4757-b4a0-802a2c6d018d"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="24057.06" y="18887.219"/> </glyph> <glyph class="state variable" id="_a58921b7-8504-4c41-a224-4b615c71986a"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="24052.58" y="18928.0"/> </glyph> <glyph class="state variable" id="_856ba44d-a1a1-4f3a-a033-d2c8ab7a249a"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="23936.021" y="18887.0"/> </glyph> <glyph class="state variable" id="_ee45ec88-b497-4dd0-9615-0c3743bbe093"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="23934.43" y="18928.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa111_wca1_wca2_sa111"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="23945.06" y="18940.0"/> <glyph class="state variable" id="_6a5a5a4c-28c3-4730-85d8-150d6a3c4deb"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="23930.553" y="18935.0"/> </glyph> <glyph class="state variable" id="_9525b8c1-c6e0-4f92-bc77-ec61e457894e"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="23970.092" y="18935.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa113_wca1_wca2_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta 1</p> <p>HUGO:TGFB1 HGNC:11766 ENTREZ:7040 UNIPROT:P01137 GENECARDS:TGFB1 REACTOME:65937 KEGG:7040 ATLASONC:GC_TGFB1 WIKI:TGFB1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:emtcellmotility / MODULE:ECM</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="52.0" h="29.0" x="24002.06" y="18972.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa114_wca1_wca2_sa114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897 GENECARDS:TGFBR1 REACTOME:65969 KEGG:7046 ATLASONC:GC_TGFBR1 WIKI:TGFBR1 </p> <p>transforming growth factor beta receptor 2</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173 GENECARDS:TGFBR2 REACTOME:65971 KEGG:7048 ATLASONC:GC_TGFBR2 WIKI:TGFBR2 </p> <p>transforming growth factor beta receptor 3</p> <p>HUGO:TGFBR3 HGNC:11774 ENTREZ:7049 UNIPROT:Q03167 GENECARDS:TGFBR3 KEGG:7049 ATLASONC:TGFBR3ID42541ch1p33 WIKI:TGFBR3</p> <p>Map modules:</p> </body> </html> </notes> <label text="TGFBR*"/> <bbox w="80.0" h="50.0" x="23989.06" y="18996.0"/> <glyph class="unit of information" id="_000aa92a-1338-4db5-952d-aebf60d7ec62"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24006.56" y="18991.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa157_ad_csa157" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5766"/> <bbox w="100.0" h="150.0" x="27006.0" y="2870.0"/> <glyph class="macromolecule" id="s_id_ad_sa1335_ad_sa1335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ADCY1</p> <p>HUGO:ADCY2</p> <p>HUGO:ADCY3</p> <p>HUGO:ADCY4</p> <p>HUGO:ADCY5</p> <p>HUGO:ADCY6</p> <p>HUGO:ADCY7</p> <p>HUGO:ADCY8</p> <p>HUGO:ADCY9</p> <p>HUGO:ADCY10</p> <p>CASCADE:AR2A</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:18758473</p> </body> </html> </notes> <label text="Adenylil_cyclase*"/> <bbox w="80.0" h="40.0" x="27016.0" y="2875.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1334_ad_sa1334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>HUGO:GNAS</p> <p>PMID:18758473</p> </body> </html> </notes> <label text="GNAS"/> <bbox w="80.0" h="40.0" x="27016.0" y="2920.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa1333_ad_sa1333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>MODULE:DC, MODULE:CROSS_ACTIVATION_OF_IMMUNE_CELLS, MODULE:ANTIGEN_PRESENTATION_AND_ACTIVATING_CHEKPOINTS</p> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="27021.0" y="2962.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa105_in_csa105" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s94"/> <bbox w="100.0" h="110.0" x="16220.0" y="3935.0"/> <glyph class="simple chemical" id="s_id_in_sa701_in_sa701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="63.0" h="27.0" x="16238.75" y="3991.875"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2240_in_sa2240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="16230.0" y="3940.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2090_emtc_em_sa2090" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2090_emtc_em_sa2090"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DTX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DTX1"/> <bbox w="42.0" h="17.0" x="1425.0" y="14264.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1321_in_sa1321" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL18"/> <bbox w="80.0" h="40.0" x="21636.25" y="5395.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa532_rc_csa532" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Deferoxamine:Fe2+</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa532_rc_csa532"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Deferoxamine:Fe2+"/> <bbox w="100.0" h="100.0" x="27529.06" y="9289.0"/> <glyph class="simple chemical" id="s_id_rc_sa5274_rc_sa5274"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Fe2+"/> <bbox w="25.0" h="25.0" x="27556.56" y="9336.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5275_rc_sa5275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PUBCHEM:2973</p> <p>Map modules:</p> <p>References:</p> <p>CID 2973</p> <p>PMID:23788428</p> <p>iron chelator</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <label text="Deferoxamine"/> <bbox w="80.0" h="30.0" x="27539.06" y="9304.0"/> <glyph class="unit of information" id="_ad8152a5-75ea-4a8f-9eb9-5cbb0df58d2f"> <label text="drug"/> <bbox w="25.0" h="10.0" x="27566.56" y="9299.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5019_rc_sa5019" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5019_rc_sa5019"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRELD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRELD2"/> <bbox w="80.0" h="40.0" x="28919.06" y="15809.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa302_ce_sa302" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa302_ce_sa302"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PMS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PMS1"/> <bbox w="80.0" h="40.0" x="11851.005" y="16004.985"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa381_in_sa381" compartmentRef="s_id_in_ca47_in_ca47"> <label text="MICB"/> <bbox w="80.0" h="40.0" x="20520.0" y="670.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa34_wnc1_wnc3_sa34" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa34_wnc1_wnc3_sa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ESR1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ESR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERα*"/> <bbox w="80.0" h="50.0" x="15828.061" y="20701.0"/> <glyph class="unit of information" id="_d2f61757-d423-4093-aa8b-0f4020e80552"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15845.561" y="20696.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2144_in_sa2144" compartmentRef="s_id_in_ca48_in_ca48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TUMOR_DNA"/> <bbox w="115.0" h="23.0" x="15435.0" y="923.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa483_in_sa483" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PTK2B"/> <bbox w="80.0" h="40.0" x="16777.5" y="2175.0"/> <glyph class="state variable" id="_c0c67aa5-e3ff-4f64-8fbd-15e7e12d652b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16772.5" y="2190.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa3_ca_sa3" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa3_ca_sa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNC"/> <bbox w="80.0" h="40.0" x="1770.0" y="4330.0"/> </glyph> <glyph class="source and sink" id="s_id_te_sa480_te_sa480" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="te_sa479_degraded"/> <bbox w="32.0" h="33.0" x="3651.778" y="22941.055"/> </glyph> <glyph class="complex" id="s_id_ce_csa207_ce_csa207" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*:BUB1:BUB3:BUBR1*:CDC20:MAD1*:MAD2*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> </body> </html> </notes> <label text="APC1*/APC2*/APC3*/APC4*/APC5*/APC6*/APC7*/APC8*/APC9*/APC10*/APC11*/APC12/BUB1/BUB3/BUBR1*/CDC20/MAD1/MAD2"/> <bbox w="285.0" h="338.0" x="11597.473" y="13457.356"/> <glyph class="macromolecule" id="s_id_ce_sa1195_ce_sa1195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2, HGNC:19989, ENTREZ:29882, UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="11618.896" y="13636.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1204_ce_sa1204"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11, HGNC:14452, ENTREZ:51529, UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="11782.896" y="13676.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1202_ce_sa1202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23 homolog (S. cerevisiae)</p> <p>HUGO:CDC23, HGNC:1724, ENTREZ:8697, UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="11699.896" y="13717.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa926_ce_sa1160"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 20 homolog (S. cerevisiae)</p> <p>HUGO:CDC20, HGNC:1723, ENTREZ:991, UNIPROT:Q12834</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC20"/> <bbox w="80.0" h="40.0" x="11782.491" y="13548.64"/> <glyph class="state variable" id="_bf747b1d-7879-44b9-87af-76988727ded9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11777.491" y="13563.64"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1203_ce_sa1203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26 homolog (S. cerevisiae)</p> <p>HUGO:CDC26, HGNC:17839, ENTREZ:246184, UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="11781.896" y="13716.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1199_ce_sa1199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5, HGNC:15713, ENTREZ:51433, UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="11703.896" y="13592.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1099_ce_sa1099"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MAD1 mitotic arrest deficient-like 1 (yeast)</p> <p>HUGO:MAD1L1, HGNC:6762, ENTREZ:8379, UNIPROT:Q9Y6D9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>Interacts with CPC complex</p> <p>PMID:11402067, PMID:12640463</p> </body> </html> </notes> <label text="MAD1*"/> <bbox w="80.0" h="40.0" x="11619.945" y="13508.252"/> <glyph class="state variable" id="_1b308d9f-58ce-4833-849b-1977ff321ef8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11622.832" y="13503.252"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1201_ce_sa1201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7, HGNC:17380, ENTREZ:51434, UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="11701.896" y="13675.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa928_ce_sa928"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MAD2 mitotic arrest deficient-like 1 (yeast)</p> <p>HUGO:MAD2L1, HGNC:6763, ENTREZ:4085, UNIPROT:13257</p> <p>MAD2 mitotic arrest deficient-like 2 (yeast)</p> <p>HUGO:MAD2L2, HGNC:6764, ENTREZ:10459, UNIPROT:Q9UI95</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:8824189, PMID:17498870, PMID:15024386, PMID:18022367</p> </body> </html> </notes> <label text="MAD2*"/> <bbox w="80.0" h="40.0" x="11784.473" y="13507.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1205_ce_sa1205"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10, HGNC:24077, ENTREZ:10393, UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="11782.896" y="13635.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1197_ce_sa1197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27 homolog (S. cerevisiae)</p> <p>HUGO:CDC27, HGNC:1728, ENTREZ:996, UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="11616.896" y="13675.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa926_ce_sa926"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 20 homolog (S. cerevisiae)</p> <p>HUGO:CDC20, HGNC:1723, ENTREZ:991, UNIPROT:Q12834</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC20"/> <bbox w="80.0" h="40.0" x="11828.767" y="13916.922"/> <glyph class="state variable" id="_c967a52a-f0e0-4fba-b237-d9792139250f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11823.767" y="13931.922"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1093_ce_sa1093"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>budding uninhibited by benzimidazoles 1 homolog beta (yeast)</p> <p>HUGO:BUB1B, HGNC:1149, ENTREZ:701, UNIPROT:Q59HH6</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>Interacts with CENPE, CENPF, mitosin, PLK1 and BUB3</p> <p>PMID:17376779, PMID:10477750, PMID:19503101, PMID:11535616, PMID:15592459</p> <p>As a part of MCC complex, act as pseudo-substrate of APC complex</p> <p>PMID:19154723</p> </body> </html> </notes> <label text="BUBR1*"/> <bbox w="80.0" h="40.0" x="11700.213" y="13507.056"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1092_ce_sa1092"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>budding uninhibited by benzimidazoles 3 homolog (yeast)</p> <p>HUGO:BUB3, HGNC:1151, ENTREZ:9184, UNIPROT:O43684</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>Interacts with BUB1 and BUBR1*</p> <p>PMID:19182530, PMID:11535616</p> </body> </html> </notes> <label text="BUB3"/> <bbox w="80.0" h="40.0" x="11702.213" y="13464.056"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1198_ce_sa1198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4, HGNC:19990, ENTREZ:29945, UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="11615.896" y="13716.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1101_ce_sa1101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>budding uninhibited by benzimidazoles 1 homolog (yeast)</p> <p>HUGO:BUB1, HGNC:1148, ENTREZ:699, UNIPROT:O43683</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:9790499</p> </body> </html> </notes> <label text="BUB1"/> <bbox w="80.0" h="40.0" x="11618.945" y="13464.252"/> <glyph class="state variable" id="_ca740c5d-314f-4889-b079-80f21fb1ef3c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11624.998" y="13459.252"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1200_ce_sa1200"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16 homolog (S. cerevisiae)</p> <p>HUGO:CDC16, HGNC:1720, ENTREZ:8881, UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="11699.896" y="13634.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1196_ce_sa1196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC1, HGNC:19988, ENTREZ:64682, UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="11619.982" y="13592.994"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa39_mo_csa39" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="RagGTPases"/> <bbox w="120.0" h="165.0" x="4823.0" y="9132.5"/> <glyph class="simple chemical" id="s_id_mo_sa462_mo_sa466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="4826.0" y="9178.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa463_mo_sa463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rag guanine nucleotide exchange factor</p> </body> </html> </notes> <label text="Rag A/B*"/> <bbox w="80.0" h="40.0" x="4843.0" y="9137.5"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa464_mo_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="4848.0" y="9175.0"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa462_mo_sa462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="4848.0" y="9245.0"/> </glyph> <glyph class="simple chemical" id="s_id_mo_sa462_mo_sa465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="4826.0" y="9248.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa461_mo_sa461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rag guanine nucleotide exchange factor</p> </body> </html> </notes> <label text="Rag C/D*"/> <bbox w="80.0" h="40.0" x="4843.0" y="9207.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa148_ca_sa148" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa148_ca_sa148"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL12"/> <bbox w="80.0" h="40.0" x="1020.0" y="3851.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa190_ce_sa190" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa190_ce_sa190"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD52"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD52"/> <bbox w="80.0" h="40.0" x="14901.269" y="15672.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2278_in_sa2278" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MMP8"/> <bbox w="80.0" h="40.0" x="11320.0" y="6740.0"/> </glyph> <glyph class="phenotype" id="s_id_ca_sa75_ca_sa75" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="formation of basement membrane"/> <bbox w="275.0" h="58.0" x="5442.5" y="4481.25"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1827_in_sa1827" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL15"/> <bbox w="90.0" h="25.0" x="22201.25" y="5312.5"/> <glyph class="unit of information" id="_863fdcd6-ea39-456e-92d7-bd767849ba1e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22236.25" y="5307.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1113_ce_sa1113" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1113_ce_sa1113"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SKP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SKP2"/> <bbox w="80.0" h="40.0" x="10366.269" y="9686.375"/> </glyph> <glyph class="complex" id="s_id_te_csa38_te_csa38" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HSP70*/HSP90*/PTGES3/STUB1/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa38_te_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20959453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP70*/HSP90*/PTGES3/STUB1/TERT"/> <bbox w="265.0" h="175.0" x="5840.56" y="19974.5"/> <glyph class="macromolecule" id="s_id_te_sa294_te_sa294"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <bbox w="80.0" h="40.0" x="5855.56" y="20040.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa298_te_sa298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>STIP1 homology and U-box containing protin 1, E3 ubiquitin protein ligase</p> <p>HUGO:STUB1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453, PMID:25487024</p> </body> </html> </notes> <label text="STUB1"/> <bbox w="80.0" h="40.0" x="5855.56" y="20087.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa293_te_sa293"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="5850.56" y="19988.5"/> <glyph class="state variable" id="_d3c88b17-cf1f-4717-b29c-e3c8118c8444"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="5873.189" y="19983.5"/> </glyph> <glyph class="state variable" id="_5f20c72c-6400-401b-8911-5484e7e819fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5845.56" y="20003.469"/> </glyph> <glyph class="state variable" id="_c2877217-c97a-41a8-84b4-53483ebf2104"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5883.061" y="20023.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa295_te_sa295"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="5947.56" y="19991.5"/> <glyph class="unit of information" id="_39f5eddf-6d2e-4657-8d46-85b1e2ef706f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="5980.56" y="19986.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa299_te_sa299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 70kDa protein 1A</p> <p>HUGO:HSPA1A</p> <p>heat shock 70kDa protein 1B</p> <p>HUGO:HSP1B</p> <p>heat shock 70kDa protein 1-like</p> <p>HUGO:HSPA1L</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:20959453</p> </body> </html> </notes> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="5955.56" y="20049.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4555_rc_sa4555" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4555_rc_sa4555"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR29A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR29B2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR29C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR29A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR29B2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR29C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR29*"/> <bbox w="90.0" h="25.0" x="19502.06" y="15632.5"/> <glyph class="unit of information" id="_e567014c-c106-43c7-9b53-11236d2c535b"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="19532.06" y="15627.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa3734_rc_sa3734" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12531547</p> <p>The generation of a high receptor density might be required for initiation of receptor-specific signaling and explain the function of the ASM and ceramide in multiple signaling pathways.</p> <p>PMID:11279185</p> <p>CD95-mediated clustering by ceramide is prerequisite for signaling and death</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3734_rc_sa3734"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12531547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11279185"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFR Cluster Formation"/> <bbox w="190.0" h="25.0" x="23104.06" y="9166.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa133_ce_csa133" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycA*"/> <bbox w="95.0" h="106.0" x="12888.473" y="8995.356"/> <glyph class="macromolecule" id="s_id_ce_sa819_ce_sa819"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="12895.973" y="9044.356"/> <glyph class="state variable" id="_410cfb8f-74e5-49bb-a757-0b66e57da59e"> <state value="P" variable="T160"/> <bbox w="35.0" h="10.0" x="12878.473" y="9059.324"/> </glyph> <glyph class="state variable" id="_a886f783-fcb9-4a72-af0b-f1aa23840dd2"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="12893.298" y="9039.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa820_ce_sa820"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="12895.973" y="9000.856"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa107_rc_csa107" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CUL3:KEAP1:RBX1</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="KEAP1_E3_ligase_complex"/> <bbox w="189.0" h="123.0" x="26324.56" y="10267.5"/> <glyph class="macromolecule" id="s_id_rc_sa1228_rc_sa1228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kelch-like ECH-associated protein 1</p> <p>HUGO:KEAP1 HGNC:23177 ENTREZ:9817 UNIPROT:Q14145</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="KEAP1"/> <bbox w="80.0" h="40.0" x="26339.06" y="10287.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1228_rc_sa1229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kelch-like ECH-associated protein 1</p> <p>HUGO:KEAP1 HGNC:23177 ENTREZ:9817 UNIPROT:Q14145</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="KEAP1"/> <bbox w="80.0" h="40.0" x="26349.06" y="10299.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1230_rc_sa1230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="26429.06" y="10279.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1231_rc_sa1231"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1, E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="26429.06" y="10319.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa350_mo_sa350" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="BCR-ABL signalling"/> <bbox w="174.0" h="28.0" x="2849.0" y="9043.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa3733_rc_sa3733" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18955971</p> <p>PMID:23788428</p> <p>Lysosomal membrane permeabilization in cell death.</p> <p>Lysosomal membrane permeabilization (LMP) causes the release of cathepsins and other hydrolases from the lysosomal lumen to the cytosol</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3733_rc_sa3733"> <bqbiol:isEncodedBy> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="17350.0" y="3940.0"/> <glyph class="state variable" id="_4c831b6c-29e3-44f7-a5cd-6980413470e6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17342.5" y="3955.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa707_in_sa707"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="17350.0" y="3890.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1745_rc_sa1745" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1745_rc_sa1745"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIM3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIM*"/> <bbox w="80.0" h="40.0" x="20476.31" y="11694.608"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa766_in_sa766" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KIR3DS1"/> <bbox w="80.0" h="50.0" x="20505.0" y="1305.0"/> <glyph class="unit of information" id="_015707b2-e31f-468a-be86-aa6162359386"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20522.5" y="1300.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa720_emtc_em_sa720" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="MIR203A"/> <bbox w="60.0" h="20.0" x="3474.5" y="16982.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa47_wca1_wca1_csa47" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*:CSN1*:CSN2*:CSN3*:CSN4*:CSN5*:CSN6*:CSN7*:CSN8*:PKD*:USP15</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19849719</p> <p>s_wca1_re47(MAP:survival):</p> <p>PMID:19576224 PMID:17143292 PMID:10023660 PMID:21411632 PMID:22730322 PMID:22682247 </p> <p>FAF1 enhances poly-ubiquitination of beta-catenin by acting as scaffold protein</p> <p>Intact destruction complex in the proteosome complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa47_wca1_wca1_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19849719"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19576224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10023660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411632"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22730322"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22682247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(COP9_signalosome)"/> <bbox w="585.0" h="119.0" x="20347.06" y="19308.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa447_wca1_wca1_sa447"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase D1</p> <p>HUGO:PRKD1 HGNC:9407 ENTREZ:5587 UNIPROT:Q15139 GENECARDS:PRKD1 REACTOME:58211 KEGG:5587 ATLASONC:PRKCMID41860ch14q11 WIKI:PRKD1 </p> <p>protein kinase D2</p> <p>HUGO:PRKD2 HGNC:17293 ENTREZ:25865 UNIPROT:Q9BZL6 GENECARDS:PRKD2 KEGG:25865 ATLASONC:GC_PRKD2 WIKI:PRKD2 </p> <p>protein kinase D3</p> <p>HUGO:PRKD3 HGNC:9408 ENTREZ:23683 UNIPROT:O94806 GENECARDS:PRKD3 KEGG:23683 ATLASONC:GC_PRKD3 WIKI:PRKD3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19576224</p> </body> </html> </notes> <label text="PKD*"/> <bbox w="80.0" h="40.0" x="20843.06" y="19329.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa445_wca1_wca1_sa445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="80.0" h="40.0" x="20679.06" y="19329.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa437_wca1_wca1_sa437"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein </p> <p>HUGO:GPS1 HGNC:4549 ENTREZ:2873 UNIPROT:Q13098 GENECARDS:GPS1 KEGG:2873 ATLASONC:GC_GPS1 WIKI:GPS1 </p> <p>HUGO:GPS2 HGNC:4550 ENTREZ:2874 UNIPROT:Q13227 GENECARDS:GPS2 KEGG:2874 WIKI:GPS2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN1*"/> <bbox w="80.0" h="40.0" x="20358.06" y="19329.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa442_wca1_wca1_sa442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis)</p> <p>HUGO:COPS6 HGNC:21749 ENTREZ:10980 UNIPROT:Q7L5N1 GENECARDS:COPS6 KEGG:10980 ATLASONC:GC_COPS6 WIKI:COPS6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN6*"/> <bbox w="80.0" h="40.0" x="20522.06" y="19369.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa439_wca1_wca1_sa439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 3 (Arabidopsis)</p> <p>HUGO:COPS3 HGNC:2239 ENTREZ:8533 UNIPROT:Q9UNS2 GENECARDS:COPS3 KEGG:8533 ATLASONC:GC_COPS3 WIKI:COPS3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN3*"/> <bbox w="80.0" h="40.0" x="20439.06" y="19331.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa441_wca1_wca1_sa441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 5 (Arabidopsis)</p> <p>HUGO:COPS5 HGNC:2240 ENTREZ:10987 UNIPROT:Q92905 GENECARDS:COPS5 KEGG:10987 ATLASONC:GC_COPS5 WIKI:COPS5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN5*"/> <bbox w="80.0" h="40.0" x="20520.06" y="19331.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa633_wca1_wca1_sa633"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="80.0" h="40.0" x="20762.113" y="19332.053"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa628_wca1_wca1_sa628"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="80.0" h="40.0" x="20681.113" y="19368.947"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa438_wca1_wca1_sa438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis)</p> <p>HUGO:COPS2 HGNC:30747 ENTREZ:9318 UNIPROT:P61201 GENECARDS:COPS2 KEGG:9318 ATLASONC:COPS2ID47362ch15q21 WIKI:COPS2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN2*"/> <bbox w="80.0" h="40.0" x="20359.06" y="19370.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa446_wca1_wca1_sa446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin specific peptidase 15</p> <p>HUGO:USP15 HGNC:12613 ENTREZ:9958 UNIPROT:Q9Y4E8 GENECARDS:USP15 REACTOME:66846 KEGG:9958 ATLASONC:USP15ID44585ch12q14 WIKI:USP15</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19849719</p> </body> </html> </notes> <label text="USP15"/> <bbox w="80.0" h="40.0" x="20763.06" y="19370.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa444_wca1_wca1_sa444"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 8 (Arabidopsis)</p> <p>HUGO:COPS8 HGNC:24335 ENTREZ:10920 UNIPROT:Q99627 GENECARDS:COPS8 KEGG:10920 ATLASONC:GC_COPS8 WIKI:COPS8</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN8*"/> <bbox w="80.0" h="40.0" x="20600.06" y="19368.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa440_wca1_wca1_sa440"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 4 (Arabidopsis)</p> <p>HUGO:COPS4 HGNC:16702 ENTREZ:51138 UNIPROT:Q9BT78 GENECARDS:COPS4 KEGG:51138 ATLASONC:GC_COPS4 WIKI:COPS4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN4*"/> <bbox w="80.0" h="40.0" x="20440.06" y="19370.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa443_wca1_wca1_sa443"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis)</p> <p>HUGO:COPS7A HGNC:16758 ENTREZ:50813 UNIPROT:Q9UBW8 GENECARDS:COPS7A KEGG:50813 ATLASONC:GC_COPS7A WIKI:COPS7A </p> <p>COP9 constitutive photomorphogenic homolog subunit 7B (Arabidopsis)</p> <p>HUGO:COPS7B HGNC:16760 ENTREZ:64708 UNIPROT:Q9H9Q2 GENECARDS:COPS7B KEGG:64708 ATLASONC:GC_COPS7B WIKI:COPS7B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CSN7*"/> <bbox w="80.0" h="40.0" x="20598.06" y="19330.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa192_wca1_wca2_sa192" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa192_wca1_wca2_sa192"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TDGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRIPTO-1*"/> <bbox w="80.0" h="40.0" x="25283.06" y="18550.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2469_in_sa2469" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MAOA"/> <bbox w="90.0" h="25.0" x="14528.594" y="7132.9424"/> <glyph class="unit of information" id="_a784ef6d-d45e-4311-875a-25ac20d9ddf2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="14563.594" y="7127.9424"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_akt1_akt1_sa557_akt1_akt1_sa557" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Autophagy"/> <bbox w="80.0" h="30.0" x="13585.061" y="19875.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa24_mpk1_mpk1_csa24" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRAF:GRB2:KSR1-NTER*:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="BRAF:GRB2:KSR1-NTER*:RAS*:RTK*:SOS*"/> <bbox w="257.0" h="135.0" x="9273.061" y="19131.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa588_mpk1_mpk1_sa588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="9450.242" y="19141.0"/> <glyph class="unit of information" id="_501a00f5-d564-4a42-983c-d63932ac0595"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9452.742" y="19136.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa632_mpk1_mpk1_sa632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="9400.186" y="19186.5"/> <glyph class="state variable" id="_c28ca42b-3201-47f8-a00a-04f42c83b082"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9392.686" y="19194.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa125_mpk1_mpk1_sa125"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="9449.561" y="19162.125"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa128_mpk1_mpk1_sa128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf murine sarcoma viral oncogene homolog B1</p> <p>HUGO:BRAF HGNC:1097 ENTREZ:673 UNIPROT:P15056</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>B-Raf is the MAPKKK for ERK cascade on plasma membrane. It is phosphorylated by RasGTP and phosphorylates MEK1/2 on plasma membrane.</p> </body> </html> </notes> <label text="BRAF"/> <bbox w="66.0" h="26.0" x="9336.561" y="19186.875"/> <glyph class="state variable" id="_279e4982-a2b3-4752-acdc-971c8f789e22"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9329.061" y="19194.875"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa130_mpk1_mpk1_sa130"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is cleaved by CASPASE3 in two regions: the C-ter region which mediates MEK binding and the N-ter region which contains the ERK binding site and the C1 domain required for plasma membrane localisation</p> </body> </html> </notes> <label text="KSR1-NTER*"/> <bbox w="116.0" h="25.0" x="9328.061" y="19212.0"/> <glyph class="unit of information" id="_e7946278-4b83-49eb-9e28-183537367c25"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="9361.061" y="19207.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa126_mpk1_mpk1_sa126"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> </body> </html> </notes> <label text="SOS*"/> <bbox w="50.0" h="25.0" x="9448.561" y="19186.125"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa87_ce_csa87" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATM:SNM1B*</p> <p>Map modules:</p> <p>MODULE:REGULATORS</p> </body> </html> </notes> <label text="ATM/SNM1B*"/> <bbox w="100.0" h="120.0" x="12463.473" y="12808.356"/> <glyph class="macromolecule" id="s_id_ce_sa1403_ce_sa1403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia mutated</p> <p>HUGO:ATM, HGNC:795, ENTREZ:472, UNIPROT:Q13315</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>DDR by ATM</p> <p>PMID:23847781</p> <p>PMID:17303408, PMID:16163361, PMID:15964794</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003, PMID:11877377</p> </body> </html> </notes> <label text="ATM"/> <bbox w="80.0" h="40.0" x="12474.337" y="12819.111"/> <glyph class="state variable" id="_df966198-39c7-460e-869c-4ffd5e3fbf27"> <state value="P" variable="S1981"/> <bbox w="40.0" h="10.0" x="12454.337" y="12834.079"/> </glyph> <glyph class="state variable" id="_143e6226-4e54-4cb1-9cc0-1e62def03ec0"> <state value="P" variable="S1893"/> <bbox w="40.0" h="10.0" x="12454.337" y="12849.642"/> </glyph> <glyph class="state variable" id="_6b11ab10-0640-446d-8351-4f15a1f85369"> <state value="P" variable="S367"/> <bbox w="35.0" h="10.0" x="12470.985" y="12814.111"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa710_ce_sa710"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA cross-link repair 1B (PSO2 homolog, S. cerevisiae)</p> <p>HUGO:DCLRE1B, HGNC:17641, ENTREZ:64858, UNIPROT:Q9H816</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:20655466, PMID:18469862</p> </body> </html> </notes> <label text="SNM1B*"/> <bbox w="80.0" h="40.0" x="12472.473" y="12867.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1344_rc_sa1344" compartmentRef="s_id_rc_ca8_rc_ca8"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1344_rc_sa1344"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC2A1"/> <bbox w="80.0" h="40.0" x="18399.06" y="9299.0"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2320_emtc_em_sa2320" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>1-Phosphatidyl-D-myo-inositol</p> <p>CAS:N/A PUBCHEM:4419 CHEBI:16749 KEGGCOMPOUND:C01194</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="PI"/> <bbox w="70.0" h="25.0" x="5868.0" y="13278.0"/> </glyph> <glyph class="complex" id="s_id_in_csa23_in_csa23" compartmentRef="s_id_in_ca15_in_ca15"> <label text="CD74:MHC_class_II*"/> <bbox 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binding protein 2 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa107_mo_sa107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULBP2"/> <bbox w="80.0" h="40.0" x="6101.0" y="9775.0"/> <glyph class="state variable" id="_453c0a95-fd5c-405b-a089-0455f2e0b5fe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6152.5684" y="9770.0"/> </glyph> <glyph class="state variable" id="_908b0be2-e4c6-40f2-a777-de778b2754fe"> <state value="" variable="GPI"/> <bbox w="25.0" h="10.0" x="6112.095" y="9770.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa198_ad_sa198" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TREG</p> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22437870; PMID:28900677</p> <p>LAG3 was cloned over 20 years ago as a CD4 homologue100, but its function in the immune checkpoint was only defined in 2005 when it was shown to have a role in enhancing the function of TReg cells99,101. LAG3 also inhibits CD8+ effector T cell functions independently of its role on TReg cells</p> <p>The LAG-3 protein (CD223) is expressed on activated T and NK cells 1, 2 and binds to MHC class II molecules with a much higher avidity than CD4 3. On T cells, LAG-3 associates with the TCR/CD3 complex and, like CTLA-4, negatively regulates signal transduction</p> <p>http://www.jimmunol.org/content/198/1_Supplement/150.1</p> <p>AG-3−/− OT.II cells demonstrated significantly increased basal respiration, spare respiratory capacity, and aerobic glycolysis, as compared to wildtype OT.IIs, indicating an enhanced metabolic profile. </p> <p>PMID:7589152, PMID:15586367; PMID:27192565</p> <p>The LAG-3 protein (CD223) is expressed on activated T and NK cells 1, 2 and binds to MHC class II molecules with a much higher avidity than CD4 3. On T cells, LAG-3 associates with the TCR/CD3 complex and, like CTLA-4, negatively regulates signal transduction </p> <p>The signaling pathway downstream of Lag-3 responsible</p> <p>for these effects is still not clear. In fact, the cytoplasmic tail of</p> <p>Lag-3 is unique among all known immune receptors. The Lag-</p> <p>3 cytoplasmic tail has three regions that are conserved between</p> <p>human and mouse. The first region contains a serine-phosphorylation site, the second region contains a unique KIEELE motif,</p> <p>and the third region contains glutamic acid-proline (EP) repeats</p> <p>(Workman et al., 2002). Of these three regions, the KIEELE motif</p> <p>has been shown to be essential for the inhibitory function of Lag-</p> <p>3 in effector CD4+</p> <p>T cells (Workman et al., 2002); however, the</p> <p>intracellular proteins that bind to this motif have not been identi-</p> <p>fied. Moreover, whether this motif is required for the effects of</p> <p>Lag-3 in Treg cells is not known.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa198_ad_sa198"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAG3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28900677"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7589152"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15586367"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192565"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAG3"/> <clone/> <bbox w="80.0" h="50.0" x="25596.0" y="2495.0"/> <glyph class="unit of information" id="_6b9ba580-6af7-4295-94aa-73f3debc5e95"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25613.5" y="2490.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa198_ad_sa1264" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TREG</p> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22437870; PMID:28900677</p> <p>LAG3 was cloned over 20 years ago as a CD4 homologue100, but its function in the immune checkpoint was only defined in 2005 when it was shown to have a role in enhancing the function of TReg cells99,101. LAG3 also inhibits CD8+ effector T cell functions independently of its role on TReg cells</p> <p>The LAG-3 protein (CD223) is expressed on activated T and NK cells 1, 2 and binds to MHC class II molecules with a much higher avidity than CD4 3. On T cells, LAG-3 associates with the TCR/CD3 complex and, like CTLA-4, negatively regulates signal transduction</p> <p>http://www.jimmunol.org/content/198/1_Supplement/150.1</p> <p>AG-3−/− OT.II cells demonstrated significantly increased basal respiration, spare respiratory capacity, and aerobic glycolysis, as compared to wildtype OT.IIs, indicating an enhanced metabolic profile. </p> <p>PMID:7589152, PMID:15586367; PMID:27192565</p> <p>The LAG-3 protein (CD223) is expressed on activated T and NK cells 1, 2 and binds to MHC class II molecules with a much higher avidity than CD4 3. On T cells, LAG-3 associates with the TCR/CD3 complex and, like CTLA-4, negatively regulates signal transduction </p> <p>The signaling pathway downstream of Lag-3 responsible</p> <p>for these effects is still not clear. In fact, the cytoplasmic tail of</p> <p>Lag-3 is unique among all known immune receptors. The Lag-</p> <p>3 cytoplasmic tail has three regions that are conserved between</p> <p>human and mouse. The first region contains a serine-phosphorylation site, the second region contains a unique KIEELE motif,</p> <p>and the third region contains glutamic acid-proline (EP) repeats</p> <p>(Workman et al., 2002). Of these three regions, the KIEELE motif</p> <p>has been shown to be essential for the inhibitory function of Lag-</p> <p>3 in effector CD4+</p> <p>T cells (Workman et al., 2002); however, the</p> <p>intracellular proteins that bind to this motif have not been identi-</p> <p>fied. Moreover, whether this motif is required for the effects of</p> <p>Lag-3 in Treg cells is not known.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa198_ad_sa1264"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAG3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22437870"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28900677"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7589152"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15586367"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192565"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAG3"/> <clone/> <bbox w="80.0" h="50.0" x="25596.0" y="2595.0"/> <glyph class="unit of information" id="_70cfd6f7-f51b-44ef-82d9-dfba55bb3ce2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25613.5" y="2590.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4830_rc_sa4830" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4830_rc_sa4830"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR221"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR221"/> <bbox w="90.0" h="25.0" x="27526.326" y="16251.5"/> <glyph class="unit of information" id="_49e3485f-7d97-43b6-a3e8-d68fe5646ba1"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27556.326" y="16246.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa28_mpk1_mpk1_sa28" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa28_mpk1_mpk1_sa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRAS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="8168.06" y="19251.0"/> <glyph class="state variable" id="_aaa1d353-e9a9-4396-b763-cee5a91927f1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8163.06" y="19258.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa225_emtc_em_csa225" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RHOA:RhoA_cytoskeletal_effectors*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Once activated, the GTPases bind to a spectrum of effectors to stimulate downstream signaling pathways.</p> <p>Binding of RhoA to TOCK, DIAPH1, THPN1 leads to actin polymerization and cytoskeleton rearrangements.</p> <p>PRK1 is a RhoA effector involved in endosomal trafficking</p> <p>RhoA can directly bind and activate PLD1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="RhoA/RhoA_cytoskeletal_effectors*"/> <bbox w="210.0" h="60.0" x="5516.0" y="15062.5"/> <glyph class="simple chemical" id="s_id_emtc_em_sa1459_emtc_em_sa1459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="5606.0" y="15064.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1457_emtc_em_sa1457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RhoA_cytoskeletal_effectors*</p> <p>diaphanous homolog 1 (Drosophila)</p> <p>HUGO:DIAPH1, HGNC:2876, ENTREZ:1729, GENECARDS:GC05M140875, UNIPROT:O60610</p> <p>Rho-associated, coiled-coil containing protein kinase 1</p> <p>HUGO:ROCK1, HGNC:10251, ENTREZ:6093, UNIPROT:Q13464, GENECARDS:GC18M018529</p> <p>rhophilin, Rho GTPase binding protein 1</p> <p>HUGO:RHPN1, HGNC:19973, ENTREZ:114822, GENECARDS:GC08P144451, UNIPROT:114822</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RhoA_cytoskeletal_effectors*"/> <bbox w="160.0" h="20.0" x="5539.0" y="15083.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1458_emtc_em_sa1458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>HUGO:RHOA, HGNC:667, ENTREZ:387, GENECARDS:GC03M049371, UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>RhoA is an important modulator of cell junction formation and stability:</p> <p>PMID:7479854</p> <p>Rho protein regulates tight junctions and perjunctional actin organization in polarized epithelia</p> <p>PMID:9362522</p> <p>Rho subfamily is necessary for the formation of both the cadherin-based cell–cell adhesion and the tight junction</p> <p>PMID:9660866</p> <p>RhoA and Rac1 regulate gate and fence functions of the TJ, and play a role in the spatial organization of TJ proteins at the apex of the lateral membrane</p> <p>PMID:12361600</p> <p>PMID:11992112</p> <p>RhoA functions to maintain apical-basal polarity and cell junctions. </p> <p>PMID:11739775</p> <p>PMID:11729192</p> <p>RhoA can stabilize tight junctions and increase transepithelial resistance</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="52.0" h="20.0" x="5560.0" y="15065.5"/> <glyph class="state variable" id="_f7d84277-c604-4457-ad78-e722eac31ebf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5555.0" y="15070.484"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa708_emtc_em_sa708" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa708_emtc_em_sa708"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34*"/> <bbox w="60.0" h="20.0" x="3474.5" y="17594.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1750_rc_sa1750" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1750_rc_sa1750"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD"/> <bbox w="80.0" h="40.0" x="20585.81" y="11888.858"/> <glyph class="state variable" id="_c9bb5c91-2ddb-4b6f-9960-fabfc4206eaa"> <state value="" variable="S91"/> <bbox w="25.0" h="10.0" x="20630.26" y="11883.858"/> </glyph> <glyph class="state variable" id="_73ad64a7-8034-4df0-8ead-85bc2aaedd02"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20604.406" y="11883.858"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa4_shh1_shh3_csa4" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha__sub_i_endsub_*:G_beta_*:G_gamma_*:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re2(MAP:survival):</p> <p>PMID:16885213</p> <p>PMID:18815277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa4_shh1_shh3_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Smo_Gi_protein)"/> <bbox w="258.0" h="135.0" x="26780.06" y="22380.0"/> <glyph class="simple chemical" id="s_id_shh1_shh3_sa73_shh1_shh3_sa73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="30.0" h="30.0" x="26810.56" y="22471.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa20_shh1_shh3_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gαi*"/> <bbox w="80.0" h="40.0" x="26784.06" y="22431.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa21_shh1_shh3_sa21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="80.0" h="40.0" x="26866.06" y="22431.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa1_shh1_shh3_sa1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Smoothened</p> <p>HUGO:SMO HGNC:11119 ENTREZ:6608 UNIPROT:Q99835 GENECARDS:SMO REACTOME:64670 KEGG:6608 ATLASONC:GC_SMO WIKI:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18820483</p> <p>PMID:17641202</p> </body> </html> </notes> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26866.06" y="22387.0"/> <glyph class="state variable" id="_a655595a-9ee1-4a7a-ade4-2c881b7bb605"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26941.06" y="22382.0"/> </glyph> <glyph class="state variable" id="_2301c36b-3fea-4097-b3ae-dcca92d5abae"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26941.06" y="22382.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa22_shh1_shh3_sa22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="80.0" h="40.0" x="26949.06" y="22431.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa78_ce_csa78" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATR:FAAP24*:FANCM:HCLK2*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa78_ce_csa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19282663"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATR/FAAP24*/FANCM/HCLK2*"/> <bbox w="183.0" h="132.0" x="13048.473" y="12800.356"/> <glyph class="macromolecule" id="s_id_ce_sa693_ce_sa693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia and Rad3 related</p> <p>HUGO:ATR, HGNC:882, ENTREZ:545, UNIPROT:Q13535</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="ATR"/> <bbox w="80.0" h="40.0" x="13061.615" y="12859.07"/> <glyph class="state variable" id="_4926f46a-b706-4b18-8d70-6e7a94267ca6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13054.115" y="12874.07"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa690_ce_sa690"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TEL2, telomere maintenance 2, homolog (S. cerevisiae) </p> <p>Protein clk-2 homolog , HCLK2</p> <p>HUGO:TELO2, HGNC:29099, ENTREZ:9894, UNIPROT:Q9Y4R8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For regulation of Fanconi pathway via cell cycle</p> <p>PMID:18995830, PMID:17384638</p> <p>For S-phase checkpoint</p> <p>PMID:17384638, PMID:19793801</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> </body> </html> </notes> <label text="HCLK2*"/> <bbox w="80.0" h="40.0" x="13057.329" y="12810.785"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa692_ce_sa692"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group M</p> <p>HUGO:FANCM, HGNC:23168, ENTREZ:57697, UNIPROT:Q8IYD8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:FANCONI, MODULE:NER, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:23444773</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex</p> <p>PMID:19622404</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>Link between Fanconi and NER</p> <p>PMID:22615860</p> <p>Fanconi and cross-linking agents</p> <p>PMID:21948210</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCM"/> <bbox w="80.0" h="40.0" x="13142.329" y="12860.785"/> <glyph class="state variable" id="_321aa72e-8d1e-4f85-aa02-7fe1a38afb96"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13177.329" y="12855.785"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa691_ce_sa691"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 19 open reading frame 40, "Fanconi anemia-associated protein, 24 kDa"</p> <p>HUGO:C19orf40, HGNC:28467, ENTREZ:91442, UNIPROT:Q9BTP7</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex</p> <p>PMID:19622404</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP24*"/> <bbox w="80.0" h="40.0" x="13140.329" y="12810.785"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa29_wca1_wca1_csa29" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:G_beta_*:G_gamma_*:_beta_-Arrestin2*</p> <p>References:</p> <p>s_wca1_re29(MAP:survival):</p> <p>PMID:19705439 PMID:17426148</p> <p>Beta-ARRESTIN binds to phosphorylated DVL</p> <p>s_wca1_re28(MAP:survival):</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. Activation of CK1 epsilon by unknown factor</p> <p>An acidic environment is required for phosphorylation of DVL and LRP5/6</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa29_wca1_wca1_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19705439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17426148"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21254.56" y="18201.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa216_wca1_wca1_sa216"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21251.56" y="18179.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa176_wca1_wca1_sa176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21254.81" y="18128.0"/> <glyph class="state variable" id="_1fc1940f-a88c-412d-91a8-e6179bb627ba"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21327.31" y="18123.0"/> </glyph> <glyph class="state variable" id="_2b036cd8-f39c-48b9-8178-2523b2a62708"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="21239.81" y="18162.72"/> </glyph> <glyph class="state variable" id="_2cee0420-34b2-4337-984a-7f9dde25c5e7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21249.814" y="18123.0"/> </glyph> <glyph class="state variable" id="_7c682a27-73f7-4cde-851d-0d7ee5353af7"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="21319.191" y="18163.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa215_wca1_wca1_sa215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21291.56" y="18179.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa242_wnc1_wnc2_sa242" 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGFBP3"/> <bbox w="90.0" h="25.0" x="20771.06" y="16003.75"/> <glyph class="unit of information" id="_c83b8dd7-cefe-4a3c-bcd8-0848bb8b370d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20806.06" y="15998.75"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa2797_in_sa2797" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation.PMID:11371360GADD45B was also highly expressed in TH1 versus TH2 cellsthe expression of this gene is both upregulated by TCR signaling and IL-12 but repressed by IL-4.PMID:11175814GADD45 beta, which activates mitogen-activated protein kinase (MAPK)-extracellular signal-regulated kinase kinase 4 (MEKK4), was induced by IL-18 and augmented by IL-12. GADD45 beta expression in naïve CD4+ T cells activated p38 MAPK and selectively increased cytokine-induced, but not TCR-induced, IFN-gamma production. Kinase-inactive MEKK4 and inhibition of the p38 MAPK pathway both selectively inhibit cytokine-induced, but not TCR-induced, IFN-gamma production. Thus, the synergy between IL-12 and IL-18 may involve GADD45 beta induction, which can maintain the MEKK4 and p38 MAPK activation that is necessary for cytokine-induced, but not TCR-induced, IFN-gamma production.PMID:11175814 IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.GADD45B significantly increased phosphorylated p38 MAPK compared to the controlMEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNG ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TH1, MODULE:TCR_SIGNALINGCASCADE:TCRPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation.PMID:11371360GADD45B was also highly expressed in TH1 versus TH2 cellsthe expression of this gene is both upregulated by TCR signaling and IL-12 but repressed by IL-4.PMID:11175814GADD45 beta, which activates mitogen-activated protein kinase (MAPK)-extracellular signal-regulated kinase kinase 4 (MEKK4), was induced by IL-18 and augmented by IL-12. GADD45 beta expression in naïve CD4+ T cells activated p38 MAPK and selectively increased cytokine-induced, but not TCR-induced, IFN-gamma production. Kinase-inactive MEKK4 and inhibition of the p38 MAPK pathway both selectively inhibit cytokine-induced, but not TCR-induced, IFN-gamma production. Thus, the synergy between IL-12 and IL-18 may involve GADD45 beta induction, which can maintain the MEKK4 and p38 MAPK activation that is necessary for cytokine-induced, but not TCR-induced, IFN-gamma production.PMID:11175814 IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.GADD45B significantly increased phosphorylated p38 MAPK compared to the controlMEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNG </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0HR:DNA:st1DNA with double strand break or interstrand crosslink (ICL)Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HRReferences:PMID:22258607, PMID:22918414, PMID:20723763PMID:22920291, PMID:23897299, PMID:23892398, HR in dividing and non-dividing cellsPMID:23684800Double strand break trigers MRN complex association:first step in DNA damage recognition and initiation of G2/M checkpointPMID:17303408Interstrand crosslinking agents activate HRPMID:21701511Ends resectionPMID:21910633HR as part of stalled replication fork resolutionPMID:23637285 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0HR:DNA:st1DNA with double strand break or interstrand crosslink (ICL)Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HRReferences:PMID:22258607, PMID:22918414, PMID:20723763PMID:22920291, PMID:23897299, PMID:23892398, HR in dividing and non-dividing cellsPMID:23684800Double strand break trigers MRN complex association:first step in DNA damage recognition and initiation of G2/M checkpointPMID:17303408Interstrand crosslinking agents activate HRPMID:21701511Ends resectionPMID:21910633HR as part of stalled replication fork resolutionPMID:23637285 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa152_ce_sa152"> <bqbiol:isEncodedBy> <rdf:Bag> 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rdf:resource="urn:miriam:pubmed:23684800"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21910633"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23637285"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HR_DNA_st1*"/> <bbox w="120.0" h="26.0" x="14074.832" y="14153.8"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1988_in_sa1988" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="NFKBID"/> <bbox w="90.0" h="25.0" x="20273.0" y="3270.5"/> <glyph class="unit of information" id="_087c7c4c-68bd-4602-86c6-9d3572f0cae6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20308.0" y="3265.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1884_rc_sa1884" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1884_rc_sa1884"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NDUFS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~NDUFS1*"/> <bbox w="80.0" h="40.0" x="18533.31" y="13294.0"/> <glyph class="unit of information" id="_0c2b8691-90c5-4ecf-b30d-9ff954fcbbd6"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18548.31" y="13289.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa36_ca_sa36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19937793</p> <p> Microarray and real-time PCR analysis identified marked upregulation of the chemokine (C-C motif) ligand 7 (CCL7) in cocultured CAF. ELISA showed an elevated level of CCL7 secretion from CAF stimulated by coculture with OSCC cells. CCL7 promoted the invasion and migration of OSCC cells, and the invasiveness was inhibited by treatment with CCL7 neutralizing antibody. OSCC cells were shown to express CCR1, CCR2 and CCR3, receptors for CCL7, by RT-PCR. In addition, treatment with anti-CCR1 or anti-CCR3 antibody inhibited CCL7-induced OSCC cell migration, implicating that CCL7 promotes cancer cell migration through CCR1 and CCR3 on OSCC cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa36_ca_sa36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19937793"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TUMOR_INVASION"/> <bbox w="168.0" 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rdf:resource="urn:miriam:hgnc.symbol:CDKN2C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="INK4*"/> <bbox w="90.0" h="25.0" x="15233.016" y="9239.786"/> <glyph class="unit of information" id="_dc6ded48-6c93-4515-92d1-6dbb38864bea"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15268.016" y="9234.786"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa139_rc_csa139" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Caspase9*:XIAP</p> </body> </html> </notes> <label text="CASP9:XIAP"/> <bbox w="100.0" h="120.0" x="24349.06" y="14039.0"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3402_rc_sa3402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-linked inhibitor of apoptosis</p> <p>HUGO:XIAP HGNC:592 ENTREZ:331 UNIPROT:P98170</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XIAP"/> <bbox w="86.0" h="46.0" x="24355.56" y="14096.0"/> <glyph class="unit of information" id="_92f7e462-df73-4154-aac0-8dbaa72253f4"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="24388.56" y="14091.0"/> </glyph> <glyph class="state variable" id="_92aef1eb-f26e-422b-a664-062fc2ce4985"> <state value="?" variable="S87"/> <bbox w="30.0" h="10.0" x="24401.781" y="14091.0"/> </glyph> <glyph class="state variable" id="_ebe0fc19-ecb1-4393-95b5-d4e1a698e2b0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24375.75" y="14091.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1443_rc_sa1443"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> <p>PMID:12011067</p> <p>DCC interacts with both caspase-3 and caspase-9 and drives the activation of caspase-3 through caspase-9</p> <p>PMID:19465923</p> <p>The Patched dependence receptor triggers apoptosis through a DRAL-caspase-9 complex.</p> <p>PMID:22679284</p> <p>Patched dependence receptor triggers apoptosis through ubiquitination of caspase-9.</p> </body> </html> </notes> <label text="Caspase9*"/> <bbox w="80.0" h="40.0" x="24356.06" y="14047.0"/> <glyph class="state variable" id="_379a41de-a694-4dad-926b-e0a6a8424484"> <state value="?" variable="S196"/> <bbox w="35.0" h="10.0" x="24395.51" y="14042.0"/> </glyph> <glyph class="state variable" id="_c937920e-11db-4c3a-ae24-87db00d1e1f8"> <state value="?" variable="S144"/> <bbox w="35.0" h="10.0" x="24361.535" y="14082.0"/> </glyph> <glyph class="state variable" id="_66c5d072-ad82-4cac-a9e5-2543d8371b3a"> <state value="?" variable="Y153"/> <bbox w="35.0" h="10.0" x="24394.89" y="14082.0"/> </glyph> <glyph class="state variable" id="_247be0f4-b0e0-4979-ae1b-ae118fb58671"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24351.06" y="14062.0"/> </glyph> <glyph class="state variable" id="_abc6b31a-f090-496f-a675-a48478acd446"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="24423.56" y="14062.0"/> </glyph> <glyph class="state variable" id="_705a84ad-0c2b-438f-9813-3ab975041d1e"> <state value="?" variable="T125"/> <bbox w="35.0" h="10.0" x="24362.156" y="14042.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa459_rc_csa459" compartmentRef="s_id_rc_ca31_rc_ca31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATG12:ATG16*:ATG5</p> <p>References:</p> <p>PMID:23725295</p> <p>23301705</p> <p>PMID:24070470</p> <p>PMID:24257061</p> <p>PMID:22166994</p> <p>PMID:23030059</p> <p>PMID:22093031</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa459_rc_csa459"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24257061"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22093031"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG5:ATG12"/> <bbox w="118.0" h="169.0" x="28431.06" y="11811.0"/> <glyph class="macromolecule" id="s_id_rc_sa4401_rc_sa4502"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 16-like 1 (S. cerevisiae)</p> <p>HUGO:ATG16L1 HGNC:21498 ENTREZ:55054 UNIPROT:Q676U5</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:24070470</p> <p>PMID:24257061</p> </body> </html> </notes> <label text="ATG16*"/> <bbox w="80.0" h="40.0" x="28453.06" y="11925.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4400_rc_sa4400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 12</p> <p>HUGO:ATG12 HGNC:588 ENTREZ:9140 UNIPROT:O94817</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="ATG12"/> <bbox w="80.0" h="40.0" x="28444.56" y="11870.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4400_rc_sa4501"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 12</p> <p>HUGO:ATG12 HGNC:588 ENTREZ:9140 UNIPROT:O94817</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="ATG12"/> <bbox w="80.0" h="40.0" x="28455.56" y="11878.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4399_rc_sa4399"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 5</p> <p>HUGO:ATG5 HGNC:589 ENTREZ:9474 UNIPROT:Q9H1Y0</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <label text="ATG5"/> <bbox w="80.0" h="40.0" x="28441.56" y="11821.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4401_rc_sa4401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 16-like 1 (S. cerevisiae)</p> <p>HUGO:ATG16L1 HGNC:21498 ENTREZ:55054 UNIPROT:Q676U5</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:24070470</p> <p>PMID:24257061</p> </body> </html> </notes> <label text="ATG16*"/> <bbox w="80.0" h="40.0" x="28442.06" y="11918.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4399_rc_sa4500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 5</p> <p>HUGO:ATG5 HGNC:589 ENTREZ:9474 UNIPROT:Q9H1Y0</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <label text="ATG5"/> <bbox w="80.0" h="40.0" x="28452.56" y="11829.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa702_rc_sa702" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa702_rc_sa702"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YY1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="YY1"/> <bbox w="90.0" h="25.0" x="23716.56" y="16047.5"/> <glyph class="unit of information" id="_f1e9e1dc-85e8-4dc0-86ff-bf1c64a94687"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23751.56" y="16042.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa565_ca_sa565" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:CASCADE:TNF, CASCADE:INTEGRINPMID:11112697 TNF-α upregulates MT1-MMP mRNA in organ-cultured human skin and dermal fibroblasts in a collagen environmentNF-κB inhibitor, SN50, blocks TNF-α and collagen mediated MT1-MMP expression and pro-MMP-2 activation. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:CASCADE:TNF, CASCADE:INTEGRINPMID:11112697 TNF-α upregulates MT1-MMP mRNA in organ-cultured human skin and dermal fibroblasts in a collagen environmentNF-κB inhibitor, SN50, blocks TNF-α and collagen mediated MT1-MMP expression and pro-MMP-2 activation. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa565_ca_sa565"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14"/> <bbox w="90.0" h="25.0" x="5095.0" y="4507.5"/> <glyph class="unit of information" id="_2eba70cc-1da9-4837-8fde-319e60fa654b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5130.0" y="4502.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa24_wca1_wca3_csa24" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MI34*:WNT3</p> <p>References:</p> <p>s_wca3_re55:(MAP:survival) PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa24_wca1_wca3_csa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MI34*:WNT3"/> <bbox w="100.0" h="120.0" x="21167.06" y="22272.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa177_wca1_wca3_sa177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 3</p> <p>INT4</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:survival / MODULE:WNT_CANONICAL, MAP:emtcellmotility / MODULE:EMT_REGULATORS</p> <p>wingless-type MMTV integration site family member 3</p> <p>INT4</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3</p> <p>Map modules:</p> </body> </html> </notes> <label text="WNT3"/> <bbox w="90.0" h="25.0" x="21172.06" y="22298.5"/> <glyph class="unit of information" id="_4a13721b-56fe-4fbd-beaf-1beaa39c2dc6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21207.06" y="22293.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa182_wca1_wca3_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Its the miR34 family depcited here</p> <p>microRNA 34a</p> <p>HUGO:MIR34A HGNC:31635 ENTREZ:407040 GENECARDS:MIR34A KEGG:407040 ATLASONC:GC_MIR34A WIKI:MIR34A </p> <p>microRNA 34b</p> <p>HUGO:MIR34B HGNC:31636 ENTREZ:407041 GENECARDS:MIR34B KEGG:407041 ATLASONC:GC_MIR34B WIKI:MIR34B </p> <p>microRNA 34c</p> <p>HUGO:MIR34C HGNC:31637 ENTREZ:407042 GENECARDS:MIR34C KEGG:407042 ATLASONC:GC_MIR34C WIKI:MIR34C</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MI34*"/> <bbox w="90.0" h="25.0" x="21172.06" y="22325.0"/> <glyph class="unit of information" id="_7810c044-fd99-440f-935e-7d5a5cebdce8"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21202.06" y="22320.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa175_wca1_wca1_sa175" compartmentRef="s_id_wca1_wca1_ca4_wca1_wca1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re25:(MAP:survival) PMID:21606194 PMID:19705439</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa175_wca1_wca1_sa175"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19705439"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GDP"/> <bbox w="25.0" h="25.0" x="21403.56" y="17798.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1001_ca_sa1001" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:CXCL12</p> <p>PMID:20535745 </p> <p>CXCR4 receptor and CXCL12 both are expressed in fibroblasts and probably provides positive loop in fibroblast activation</p> <p>and promotes RhoA-activation aand actin polymerisation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1001_ca_sa1001"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCR4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20535745"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCR4"/> <bbox w="80.0" h="50.0" x="1120.0" y="1515.0"/> <glyph class="unit of information" id="_b268c3db-8efa-46e2-968b-09887ba02fd5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1137.5" y="1510.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa7_an_sa7" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8005</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa7_an_sa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24217602"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRP2"/> <bbox w="80.0" h="40.0" x="5532.0" y="5745.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa80_ce_sa80" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa80_ce_sa80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIPK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIPK2"/> <bbox w="80.0" h="40.0" x="10940.6875" y="11418.377"/> <glyph class="state variable" id="_7aa86116-f744-45d8-9575-ce5f219389a4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10933.1875" y="11433.377"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2424_rc_sa2424" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2424_rc_sa2424"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SURF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SURF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SURF1"/> <bbox w="90.0" h="25.0" x="19819.06" y="16039.5"/> <glyph class="unit of information" id="_a8db91bc-a3d3-4f38-be1d-9b4239473b37"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19854.06" y="16034.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa27_wnc1_wnc2_csa27" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:DYRK*:GSK3*:IQGAP*:NFAT*:NRON</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21709260</p> <p>s_wnc2_re46(MAP:survival):</p> <p>Upon Ca2+ activation the NRON-NFAT complex dissociates.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa27_wnc1_wnc2_csa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:DYRK*:GSK3*:IQGAP*:NFAT*:NRON"/> <bbox w="200.0" h="176.0" x="19080.06" y="17964.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa135_wnc1_wnc2_sa135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="19183.56" y="17974.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa136_wnc1_wnc2_sa136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="19183.56" y="18073.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa137_wnc1_wnc2_sa137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1A</p> <p>HUGO:DYRK1A HGNC:3091 ENTREZ:1859 UNIPROT:Q13627 GENECARDS:DYRK1A REACTOME:54046 KEGG:1859 ATLASONC:DYRK1AID43234ch21q22 WIKI:DYRK1A </p> <p>1859</p> <p>dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1B</p> <p>HUGO:DYRK1B HGNC:3092 ENTREZ:9149 UNIPROT:Q9Y463 GENECARDS:DYRK1B KEGG:9149 ATLASONC:DYRK1BID43235ch19q13 WIKI:DYRK1B </p> <p>9149</p> <p>dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2</p> <p>HUGO:DYRK2 HGNC:3093 ENTREZ:8445 UNIPROT:Q92630 GENECARDS:DYRK2 ATLASONC:GC_DYRK2 WIKI:DYRK2 </p> <p>8445</p> <p>dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 3</p> <p>HUGO:DYRK3 HGNC:3094 ENTREZ:8444 UNIPROT:O43781 GENECARDS:DYRK3 KEGG:8444 ATLASONC:GC_DYRK3 WIKI:DYRK3 </p> <p>8444</p> <p>dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 4</p> <p>HUGO:DYRK4 HGNC:3095 ENTREZ:8798 UNIPROT:Q9NR20 GENECARDS:DYRK4 ATLASONC:GC_DYRK4 WIKI:DYRK4 </p> <p>8798</p> <p>DYRK, DYRK1, MNBH</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:9932450</p> </body> </html> </notes> <label text="DYRK*"/> <bbox w="80.0" h="40.0" x="19089.06" y="18025.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa107_wnc1_wnc2_sa107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>IQ motif containing GTPase activating protein 1</p> <p>HUGO:IQGAP1 HGNC:6110 ENTREZ:8826 UNIPROT:P46940 GENECARDS:IQGAP1 REACTOME:381664 KEGG:8826 ATLASONC:GC_IQGAP1 WIKI:IQGAP1 </p> <p>IQ motif containing GTPase activating protein 2</p> <p>HUGO:IQGAP2 HGNC:6111 ENTREZ:10788 UNIPROT:Q13576 GENECARDS:IQGAP2 ATLASONC:GC_IQGAP2 WIKI:IQGAP2 </p> <p>IQ motif containing GTPase activating protein 3</p> <p>HUGO:IQGAP3 HGNC:20669 ENTREZ:128239 UNIPROT:Q86VI3 GENECARDS:IQGAP3 WIKI:IQGAP3</p> <p>Map modules:</p> </body> </html> </notes> <label text="IQGAP*"/> <bbox w="80.0" h="40.0" x="19089.06" y="18072.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc2_sa106_wnc1_wnc2_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>non-protein coding RNA, repressor of NFAT</p> <p>HUGO:NRON HGNC:37079 ENTREZ:641373 GENECARDS:NRON KEGG:641373 WIKI:NRON</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>non-protein coding RNA, repressor of NFAT</p> <p>HUGO:NRON HGNC:37079 ENTREZ:641373 GENECARDS:NRON KEGG:641373 WIKI:NRON</p> <p>Map modules:</p> </body> </html> </notes> <label text="NRON"/> <bbox w="90.0" h="25.0" x="19089.06" y="17990.5"/> <glyph class="unit of information" id="_4ce6ec32-e4bd-4f17-bb46-1710bb3fba51"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19124.06" y="17985.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa138_wnc1_wnc2_sa138"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. 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id="s_id_mo_sa470_mo_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rag guanine nucleotide exchange factor</p> </body> </html> </notes> <label text="Rag C/D*"/> <bbox w="80.0" h="40.0" x="4457.375" y="9665.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2678_rc_sa2678" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2678_rc_sa2678"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa212_ce_sa212"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:REV3L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POLZ*"/> <bbox w="80.0" h="40.0" x="16895.268" y="15416.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5345_rc_sa5345" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18110</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS, MODULE:GLUCOSE_METABOLISM</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5345_rc_sa5345"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="3-phosphonooxypyruvate"/> <bbox w="175.0" h="23.0" x="25964.06" y="10116.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4638_rc_sa4638" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4638_rc_sa4638"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFLAR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFLAR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CFLAR"/> <clone/> <bbox w="90.0" h="25.0" x="24317.56" y="16113.5"/> <glyph class="unit of information" id="_20141b47-7475-411f-b45a-fe726c039a71"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24352.56" y="16108.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4638_rc_sa2895" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4638_rc_sa2895"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFLAR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFLAR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CFLAR"/> <clone/> <bbox w="90.0" h="25.0" x="24377.56" y="16027.5"/> <glyph class="unit of information" id="_fab5ff00-b534-40ad-a56d-40ed8929e63e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24412.56" y="16022.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4938_rc_sa4938" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>References:</p> <p>PMID:23430059</p> <p>IRE1a signaling is attenuated in cells undergoing prolonged ER stress</p> <p>PMID:17991856</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4938_rc_sa4938"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23430059"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17991856"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="adaptative response"/> <bbox w="150.0" h="25.0" x="27374.06" y="13996.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa132_wnc1_wnc1_sa132" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa132_wnc1_wnc1_sa132"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR"/> <bbox w="80.0" h="50.0" x="14725.061" y="18842.0"/> <glyph class="unit of information" id="_fec9c21d-6741-4e09-8ac5-b334ac535f8b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14742.561" y="18837.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa39_akt1_akt2_csa39" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:FOXO1</p> <p>References:</p> <p>s_akt2_re124:(MAP:survival) PMID:11980723 PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa39_akt1_akt2_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11980723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:FOXO1"/> <bbox w="100.0" h="120.0" x="12536.061" y="22296.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa240_akt1_akt2_sa240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="12544.311" y="22306.0"/> <glyph class="state variable" id="_832e2872-b310-434f-859f-96cd917336c9"> <state value="P" variable="T24"/> <bbox w="30.0" h="10.0" x="12529.803" y="22301.0"/> </glyph> <glyph class="state variable" id="_68001c6f-56d5-414d-86ea-f7fc26820214"> <state value="P" variable="S256"/> <bbox w="35.0" h="10.0" x="12566.843" y="22301.0"/> </glyph> <glyph class="state variable" id="_ea280fb9-1d59-4db8-8c80-3e4771c891c0"> <state value="P" variable="S319"/> <bbox w="35.0" h="10.0" x="12606.811" y="22301.0"/> </glyph> <glyph class="state variable" id="_53856736-3a37-431b-88f7-b36f8965a7be"> <state value="P" variable="S325"/> <bbox w="35.0" h="10.0" x="12566.715" y="22341.0"/> </glyph> <glyph class="state variable" id="_b2366327-079b-4117-928c-392f1ab7cfde"> <state value="P" variable="S329"/> <bbox w="35.0" h="10.0" x="12526.811" y="22340.72"/> </glyph> <glyph class="state variable" id="_2fa656c7-2894-453a-b538-f1985075db5d"> <state value="P" variable="S322"/> <bbox w="35.0" h="10.0" x="12606.192" y="22341.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa239_akt1_akt2_sa239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="12544.311" y="22354.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4880_rc_sa4880" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Heme deficiency"/> <bbox w="150.0" h="35.0" x="27514.06" y="15191.5"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa196_an_sa196" compartmentRef="s_id_an_ca1_an_ca1"> <label text="monoacylglycerol"/> <bbox w="135.0" h="33.0" x="4411.5" y="7243.75"/> </glyph> <glyph class="complex" id="s_id_ad_csa78_ad_csa78" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. Activated Calcineurin dephosphorylates Nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 2 ( NF-AT1(NFATC2) ). </p> <p>PMID:9510155</p> <p>calcineurin inhibitor FK506 also reduced CD3/CD28-induced production of IL-3, IL-4, IL-10, TNF-α, and IL-6 but augmented that of GM-CSF, IL-5, IFN-γ, and IL-13. </p> <p>PMID:11262396</p> <p>Vav2 activates c-fos serum response element and CD69 expression but negatively regulates nuclear factor of activated T cells and interleukin-2 gene activation in T lymphocyte.</p> <p>either Vav1 or Vav2 further increased ERK2 activation following TCR stimulation</p> <p>Vav2 Functions Upstream of Cn to Inhibit TCR-induced NF-AT Activation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa78_ad_csa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10089876"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7650486"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9973469"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9510155"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11262396"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s1823"/> <bbox w="180.0" h="140.0" x="27096.0" y="6325.0"/> <glyph class="macromolecule" id="s_id_ad_sa707_ad_sa707"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, alpha isozyme</p> <p>CALN, CALNA, "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform (calcineurin A alpha)"</p> <p>HUGO:PPP3CA HGNC:9314 ENTREZ:5530 UNIPROT:Q08209 GENECARDS:PPP3CA REACTOME:61110 KEGG:5530 ATLASONC:GC_PPP3CA WIKI:PPP3CA </p> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB </p> <p>protein phosphatase 3, catalytic subunit, gamma isozyme</p> <p>"protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform (calcineurin A gamma)"</p> <p>HUGO:PPP3CC HGNC:9316 ENTREZ:5533 UNIPROT:P48454 GENECARDS:PPP3CC REACTOME:61114 KEGG:5533 ATLASONC:GC_PPP3CC WIKI:PPP3CC</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. Activated Calcineurin dephosphorylates Nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 2 ( NF-AT1(NFATC2) ). </p> <p> </p> <p>PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="27106.0" y="6345.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa706_ad_sa706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="27196.0" y="6345.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa708_ad_sa708"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10089876, PMID:7650486, PMID:9973469</p> <p> Ca('2+) activates Calmodulin 2 ( Calmodulin )/ Protein phosphatase 3 (Calcineurin ) signal. Activated Calcineurin dephosphorylates Nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 2 ( NF-AT1(NFATC2) ). </p> <p> PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="27106.0" y="6395.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa705_ad_sa705"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:Fc_gamma_RIII</p> <p>MODULE:TCR, MODULE:TCR_SIGNALING</p> <p>PMID:19349987 </p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="27223.5" y="6402.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5532_rc_sa5532" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI1:promoter_region</p> <p>References:</p> <p>s_shh2_re12:(MAP:survival) PMID:12138125</p> <p>s_shh2_re15:(MAP:survival) PMID:17035233 PMID:16328026</p> <p>s_shh2_re22:(MAP:survival) PMID:18813803 PMID:16880536 PMID:19190345</p> <p>s_shh2_re42:(MAP:survival) PMID:16396903 PMID:20107231 PMID:16054035 PMID:16406505 PMID:16880536 PMID:17000779</p> <p>s_shh2_re45:(MAP:survival) PMID:15087129</p> <p>s_shh2_re53:(MAP:survival) PMID:21059263</p> <p>s_shh2_re57:(MAP:survival) PMID:19736394</p> <p>s_shh2_re58:(MAP:survival) PMID:15520176 PMID:14555646</p> <p>s_shh2_re73:(MAP:survival) PMID:16571352</p> <p>s_shh2_re77:(MAP:survival) PMID:16158046</p> <p>s_shh2_re81:(MAP:survival) PMID:11960000</p> <p>s_shh2_re82:(MAP:survival) PMID:19219074</p> <p>s_shh2_re86:(MAP:survival) PMID:19190345 PMID:16880536</p> <p>s_shh2_re102(MAP:survival):</p> <p>PMID:21442356</p> <p>Not sure if direct interaction of gli1 with gene</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa5_shh1_shh2_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17035233"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16328026"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396903"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20107231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16406505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17000779"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15087129"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21059263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19736394"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15520176"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14555646"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16571352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16158046"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. Knockdown and gene transfection studies confirmed that Nox4 requires p22phox for ROS generationPMID:16179589 NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylationNox4 mediates TGFB1–induced SMalpha actin in human cardiac fibroblasts.PMID:21273445 ROS signaling by NOX4 drives fibroblast-to-myofibroblast transdifferentiation in the diseased prostatic stroma downstream of TGFB ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:PMID:15927447; PMID:19995913 Nox4, in contrast to other Nox proteins, produces large amounts of hydrogen peroxide constitutively. Known cytosolic oxidase proteins or the GTPase Rac are not required for this activity. Nox4 associates with the protein p22phox on internal membranes, where ROS generation occurs. 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4543_rc_sa4543"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR1*"/> <bbox w="90.0" h="25.0" x="20004.06" y="15633.5"/> <glyph class="unit of information" id="_a365e3a7-a5bd-40ff-b0b9-65c66c9b5326"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20034.06" y="15628.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1104_ca_sa1104" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:METABOLIC MODULE:CAF References:PMID:25732824 Hexokinase 2 is upregulated in CAFs downstream of HIF1APMID:9436976HK2 id e dicrect target of HIF1A ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:METABOLIC MODULE:CAF References:PMID:25732824 Hexokinase 2 is upregulated in CAFs downstream of HIF1APMID:9436976HK2 id e dicrect target of HIF1A </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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rdf:resource="urn:miriam:pubmed:21217011"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s5237"/> <bbox w="260.0" h="170.0" x="19530.0" y="3180.0"/> <glyph class="macromolecule" id="s_id_in_sa2069_in_sa2069"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NFKB1_p105*"/> <bbox w="110.0" h="60.0" x="19605.0" y="3190.0"/> <glyph class="state variable" id="_83cf8d36-f92f-48a6-a9ee-88351a0c1cdc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19600.0" y="3215.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2071_in_sa2071"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TNIP2"/> <bbox w="87.0" h="65.0" x="19676.5" y="3267.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2070_in_sa2070"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MAP3K8"/> <bbox w="105.0" h="70.0" x="19537.5" y="3265.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa246_in_csa246" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa246_in_csa246"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20510870"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL13/Receptor-TYPE_2"/> <bbox w="216.0" h="175.0" x="23797.375" y="4672.5"/> <glyph class="macromolecule" id="s_id_in_sa1867_in_sa1867"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TYK2"/> <bbox w="80.0" h="40.0" x="23912.625" y="4732.5"/> <glyph class="state variable" id="_d44ea6bf-3929-42cc-967f-426b2e26fc5a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23905.125" y="4747.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1869_in_sa1869"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13RA1"/> <bbox w="80.0" h="50.0" x="23817.375" y="4772.5"/> <glyph class="state variable" id="_1dd9f4f6-81ec-4c80-9371-a6591711ad19"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23889.875" y="4806.257"/> </glyph> <glyph class="unit of information" id="_adadba8f-6c1b-4303-9766-f2de5601ce1e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23834.875" y="4767.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1871_in_sa1871"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="23920.0" y="4675.0"/> <glyph class="state variable" id="_c13399c1-7be1-4509-ae9a-5ca5a192afa5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23915.0" y="4690.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1870_in_sa1870"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:MDSC, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:IL13</p> <p>References:</p> <p>PMID:12401408</p> <p>IL13 is assosiated with M2 phenotype of macrophages</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:14610620</p> <p>Other receptor of IL13 is IL13RA2</p> <p>PMID:18451175, PMID:14657224</p> <p>IL13 signaling via IL13RA2 induces TGFB production in MDSC.</p> <p>PMID:18250477</p> <p>IL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:21097505</p> <p>IL-13 upregulates expression of SOCS1</p> <p>PMID:9535722</p> <p>IL13 induces phosporylation of IRS2 and PLCG1 which is probably a PLC responsible for downstream IL13 dependent Ca2+ mobilization signaling and assosiation of IRS2 and PLCG1</p> <p>PMID:15099563</p> <p>Mast cells produce cytokines TNF-a, TGF-b, IFN-a, IL-1a, IL-1b, IL-5, IL-6,</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13"/> <bbox w="80.0" h="40.0" x="23815.0" y="4680.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1868_in_sa1868"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="23817.375" y="4722.5"/> <glyph class="state variable" id="_b670eb55-53a8-4b87-ae69-6868e100db70"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23889.875" y="4756.889"/> </glyph> <glyph class="unit of information" id="_c597ceb3-b3f9-4a65-900c-4140370b0319"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23834.875" y="4717.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1866_in_sa1866"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="23912.625" y="4772.5"/> <glyph class="state variable" id="_73d68ae1-3e7a-4606-a4ac-3b66d6d7bbde"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23905.125" y="4787.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa505_emtc_em_sa505" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="G2 phase"/> <bbox w="80.0" h="20.0" x="2885.0" y="13617.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa530_wca1_wca1_sa530" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa530_wca1_wca1_sa530"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HECW1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HECW2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NEDL1*"/> <bbox w="80.0" h="40.0" x="20861.06" y="18874.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa723_ca_sa723" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1, CASCADE:TGFBPMID:8133053IL1a and TGFB induce gene expression and protein accamulation in fibroblasts. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION References:CASCADE:IL1, CASCADE:TGFBPMID:8133053IL1a and TGFB induce gene expression and protein accamulation in fibroblasts. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa723_ca_sa723"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8133053"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8133053"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL11"/> <bbox w="90.0" h="25.0" x="705.0" y="3248.5"/> <glyph class="unit of information" id="_2c59c165-fb71-437a-9938-eeb475d8f457"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="740.0" y="3243.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa430_rc_csa430" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PTCH*:SHH</p> <p>References:</p> <p>20495383</p> <p>In the absence of SHH; Patched recruits a dral-tucan complex that lead to apoptosis</p> </body> </html> </notes> <label text="Patched:SHH"/> <bbox w="100.0" h="130.0" x="20399.06" y="9089.0"/> <glyph class="macromolecule" id="s_id_rc_sa4183_rc_sa4183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:19465923</p> <p>PMID:22679284</p> <p>Patched dependence receptor triggers apoptosis through ubiquitination of caspase-9</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="80.0" h="50.0" x="20409.06" y="9144.0"/> <glyph class="unit of information" id="_a41b47f8-0e86-4b06-98af-fd2cfeafd8da"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20426.56" y="9139.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4182_rc_sa4182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sonic hedgehog</p> <p>HUGO:SHH HGNC:10848 ENTREZ:6469 UNIPROT:Q15465</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>In the absence of SHH; Patched recruits a dral-tucan complex that lead to apoptosis</p> </body> </html> </notes> <label text="SHH"/> <bbox w="80.0" h="40.0" x="20409.06" y="9099.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1060_in_sa1060" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CSF3R"/> <bbox w="80.0" h="50.0" x="8955.0" y="2495.0"/> <glyph class="unit of information" id="_9d2ec40f-8d6d-4eda-a6b3-fb2b65e1b35a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8972.5" y="2490.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4422_rc_sa4422" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:27558815</p> <p>PMID:27048813</p> <p>PMID:27959630</p> <p>Necroptosis is a form of regulated cell death that critically depends on receptor-interacting serine-threonine kinase 3 (RIPK3) and mixed lineage kinase domain-like (MLKL) and generally manifests with morphological features of necrosis.</p> <p>PMID:26853145</p> <p>Sequential Engagement of Distinct MLKL Phosphatidylinositol-Binding Sites Executes Necroptosis.</p> <p>PMID:28498367</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4422_rc_sa4422"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27558815"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048813"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27959630"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26853145"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28498367"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Necrosis death"/> <bbox w="113.0" h="29.0" x="20103.06" y="11162.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa77_ce_csa77" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:UAF1*:USP1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>Fanconi pathway is regulated at two levels:1. FANCD2 and FANCI uiquitination by UBE2T for Fanconi foci association. Followed by FANCD2 and FANCI DE-uiquitination by USP1/UAF1 to allow the repair process: </p> <p>PMID:19217432, PMID:18082604, PMID:19075014, PMID:18082605, PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa77_ce_csa77"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19075014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082605"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UAF1*/USP1"/> <bbox w="100.0" h="120.0" x="16562.473" y="16306.356"/> <glyph class="macromolecule" id="s_id_ce_sa688_ce_sa688"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat domain 48, USP1 associated factor 1 </p> <p>HUGO:WDR48, HGNC:30914, ENTREZ:57599, UNIPROT:Q8TAF3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>For UAF1</p> <p>PMID:19264559, PMID:19075014</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="UAF1*"/> <bbox w="80.0" h="40.0" x="16570.553" y="16361.76"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa689_ce_sa689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin specific peptidase 1</p> <p>HUGO:USP1, HGNC:12607, ENTREZ:7398, UNIPROT:O94782</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>Stabilisation by phosphorylaton by CDK5</p> <p>PMID:23589330</p> </body> </html> </notes> <label text="USP1"/> <bbox w="80.0" h="40.0" x="16570.553" y="16315.76"/> <glyph class="state variable" id="_c3c8474f-69b8-4b6d-980f-10e7ac9702c7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16609.135" y="16310.76"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1813_in_sa1813" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MICB"/> <bbox w="70.0" h="25.0" x="22111.25" y="5222.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4660_rc_sa4660" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4660_rc_sa4660"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR128-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR128-2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR128-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR128-2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR128*"/> <bbox w="90.0" h="25.0" x="21347.06" y="15633.5"/> <glyph class="unit of information" id="_fce1bba7-198a-46e5-8e45-7466741336ff"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21377.06" y="15628.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa32_wca1_wca2_csa32" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRIPTO-1*:LRP5_6*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re70:(MAP:survival) PMID:23022962</p> <p>s_wca2_re72(MAP:survival):</p> <p>Upon WNT3a CRIPTO-1 binds to LRP5/6 this binding is competing with DKK binding</p> <p>PMID:23022962</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa32_wca1_wca2_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23022962"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23022962"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRIPTO-1*:LRP5_6*"/> <bbox w="100.0" h="120.0" x="25282.06" y="19024.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa194_wca1_wca2_sa194"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>teratocarcinoma-derived growth factor 1</p> <p>HUGO:TDGF1 HGNC:11701 ENTREZ:6997 UNIPROT:P13385 GENECARDS:TDGF1 REACTOME:52798 KEGG:6997 ATLASONC:GC_TDGF1 WIKI:TDGF1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CRIPTO-1*"/> <bbox w="80.0" h="40.0" x="25294.56" y="19079.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa193_wca1_wca2_sa193"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="25294.56" y="19031.0"/> <glyph class="state variable" id="_8343acb7-97b6-444c-80af-9e0059e01ca5"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="25277.06" y="19050.96"/> </glyph> <glyph class="state variable" 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<glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa30_akt1_akt2_sa30" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa30_akt1_akt2_sa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFSF10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFSF10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAIL*"/> <bbox w="90.0" h="25.0" x="12722.061" y="20777.5"/> <glyph class="unit of information" id="_88732b2d-c815-46e1-8389-e5129b93379e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12757.061" y="20772.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa341_ce_sa341" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa341_ce_sa341"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GTF2H3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFIIH3*"/> <bbox w="80.0" h="40.0" x="8057.163" y="15256.458"/> </glyph> <glyph class="complex" id="s_id_rc_csa290_rc_csa290" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1"/> <bbox w="100.0" h="180.0" x="20439.06" y="16709.0"/> <glyph class="macromolecule" id="s_id_rc_sa2346_rc_sa2346"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="20449.06" y="16809.0"/> <glyph class="state variable" id="_218ce928-b1d0-495c-a9ee-e467c751ae73"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="20464.992" y="16844.0"/> </glyph> <glyph class="state variable" id="_e949afd8-4f07-4e30-a001-5d43b956e26b"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="20491.01" y="16804.0"/> </glyph> <glyph class="state variable" id="_b535ff47-8365-4b7a-afd9-7942612935a0"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="20457.656" y="16804.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2345_rc_sa2345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="20449.06" y="16759.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2347_rc_sa2347"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="20449.06" y="16719.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa243_in_sa243" compartmentRef="s_id_in_ca12_in_ca12"> <label text="WASF2"/> <bbox w="80.0" h="40.0" x="17870.0" y="6500.0"/> <glyph class="state variable" id="_928360dc-0109-4191-b3ba-584dc84c3765"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17862.5" y="6515.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa34_an_csa34" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> <p>PMID:23896411</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa34_an_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23896411"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s29"/> <bbox w="203.0" h="245.0" x="5230.75" y="5892.5"/> <glyph class="macromolecule" id="s_id_an_sa400_an_sa400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NCK1"/> <bbox w="80.0" h="40.0" x="5283.25" y="6007.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa398_an_sa398"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4566</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="80.0" h="40.0" x="5243.25" y="6087.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa397_an_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: SHC, p66, ShcA</p> <p>HGNC:10840</p> <p>PMID:19449109</p> </body> </html> </notes> <label text="SHC1"/> <bbox w="80.0" h="40.0" x="5323.25" y="6047.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa524_an_sa525"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="5348.4546" y="5908.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa522_an_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFB HGNC:12681</p> <p>Map modules:</p> <p>MODULE:</p> <p>References:</p> <p>PMID:22064427</p> </body> </html> </notes> <label text="VEGFB"/> <bbox w="80.0" h="40.0" x="5261.4546" y="5905.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa310_an_sa311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:6307</p> <p>Synonyms : FLK1, VEGFR, VEGFR2, CD309</p> </body> </html> </notes> <label text="KDR"/> <bbox w="80.0" h="50.0" x="5343.25" y="5962.5"/> <glyph class="state variable" id="_5140364f-f60f-41d3-8005-43cc599315fc"> <state value="P" variable="Y1175"/> <bbox w="40.0" h="10.0" x="5379.5806" y="6007.5"/> </glyph> <glyph class="state variable" id="_2e1c617f-9856-43b1-b433-8dd527b0cf8f"> <state value="P" variable="1054"/> <bbox w="35.0" h="10.0" x="5348.7256" y="6007.5"/> </glyph> <glyph class="unit of information" id="_3ab77384-749d-424d-b245-7df5d52e74db"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5360.75" y="5957.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa305_an_sa305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> </body> </html> </notes> <label text="NRP1"/> <bbox w="80.0" h="40.0" x="5240.75" y="5952.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa524_an_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="5338.4546" y="5898.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa396_an_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTPN6 HGNC:9658</p> </body> </html> </notes> <label text="SHP1*"/> <bbox w="80.0" h="40.0" x="5243.25" y="6047.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa522_an_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFB HGNC:12681</p> <p>Map modules:</p> <p>MODULE:</p> <p>References:</p> <p>PMID:22064427</p> </body> </html> </notes> <label text="VEGFB"/> <bbox w="80.0" h="40.0" x="5251.4546" y="5895.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa399_an_sa399"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:9644</p> <p>HUGO:PTPN11</p> </body> </html> </notes> <label text="SHP2*"/> <bbox w="80.0" h="40.0" x="5323.25" y="6087.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa310_an_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:6307</p> <p>Synonyms : FLK1, VEGFR, VEGFR2, CD309</p> </body> </html> </notes> <label text="KDR"/> 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y="9919.0"/> <glyph class="state variable" id="_6b4ede04-5824-459d-97f6-338f9e507393"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22048.129" y="9914.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa181_ce_sa181" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0HR:DNA:st5Gap filling: DNA with D-loop structure with extended pairing between invading strand and complementary heteroduplex strand and containing newly synthesized ends Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0HR:DNA:st5Gap filling: DNA with D-loop structure with extended pairing between invading strand and complementary heteroduplex strand and containing newly synthesized ends Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR </body> </html> </notes> <label text="HR_DNA_st5*"/> <bbox w="120.0" h="26.0" x="14074.832" y="16894.078"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa976_rc_sa976" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa976_rc_sa976"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RUNX3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RUNX3"/> <bbox w="80.0" h="40.0" x="22681.56" y="16774.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4367_rc_sa4367" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>References:</p> <p>PMID:23846383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4367_rc_sa4367"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Phosphatidylserine exposure"/> <bbox w="205.0" h="29.0" x="28954.31" y="12336.083"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1061_in_sa1061" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10705574, 20644254, 11306493 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:GSF1, CASCADE:IL4</p> <p>References:</p> <p>PMID:10705574</p> <p>CSF1 acts via CSF1R</p> <p>PMID:20644254</p> <p>HIF2a induces macrophage migration via upregulation of CXCR4, FN1 expression and upregulation of CSF1R protein level.</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <p>and blocks gp130 and CSF1R (CD115)surface expression.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1061_in_sa1061"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSF1R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10705574"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20644254"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11306493"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSF1R"/> <bbox w="80.0" h="50.0" x="9620.0" y="2475.0"/> <glyph class="unit of information" id="_58506b7d-6320-40fe-87ef-0c92932acd96"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9637.5" y="2470.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ca_sa1122_ca_sa1122" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ca_csa116_degraded"/> <bbox w="30.0" h="30.0" x="2655.0" y="3625.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa694_ad_sa694" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18784374, PMID:23077238</p> <p>PKC-theta requires DAG for activation. DAG is generated by PLCG through enzymatic cleavage of PIP2</p> <p>PMID:25456276 </p> <p>Functional activation of the T-cell antigen receptor induces tyrosine phosphorylation of phospholipase C-gamma 1.</p> <p>The exception is T-cell receptor activation, which is linked to PLCG1, not PLCG2.</p> <p>PLCγ enzymes are mainly activated through tyrosine </p> <p>phosphorylation by receptor and non-receptor kinases. As in all other PLC families, </p> <p>the main signaling output is generation of the second messengers inositol 1,4,5-</p> <p>trisphosphate (IP3, or InsP3) and diacylglycerol (DAG), from phosphatidylinositol 4,5-</p> <p>bisphosphate (PIP2, or PtdIns(4,5)P2). The released IP3 binds to IP3 receptors on the </p> <p>endoplasmic reticulum resulting in Ca2+ release into the cytoplasm. D</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa694_ad_sa694"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18784374"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23077238"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25456276"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DAG"/> <bbox w="70.0" h="25.0" x="28571.0" y="4197.5"/> </glyph> <glyph class="complex" id="s_id_an_csa40_an_csa40" compartmentRef="s_id_an_ca1_an_ca1"> <label text="p85*"/> <clone/> <bbox w="100.0" h="120.0" x="7202.0" y="6205.0"/> <glyph class="macromolecule" id="s_id_an_sa365_an_sa365"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PIK3R2"/> <clone/> <bbox w="80.0" h="40.0" x="7212.0" y="6265.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa331_an_sa331"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PIK3R1 HGNC:8979</p> <p>synonyms:phosphoinositide-3-kinase, regulatory subunit 1 (alpha),GRB1, p85, p85-ALPHA</p> <p>PMID:19449109</p> </body> </html> </notes> <label text="PIK3R1"/> <clone/> <bbox w="80.0" h="40.0" x="7212.0" y="6215.0"/> <glyph class="state variable" id="_09d94770-4a0f-4c95-aae1-88f0a84499d8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7261.0684" y="6250.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa40_an_csa42" compartmentRef="s_id_an_ca1_an_ca1"> <label text="p85*"/> <clone/> <bbox w="100.0" h="120.0" x="5362.0" y="6245.0"/> <glyph class="macromolecule" id="s_id_an_sa331_an_sa369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PIK3R1 HGNC:8979</p> <p>synonyms:phosphoinositide-3-kinase, regulatory subunit 1 (alpha),GRB1, p85, p85-ALPHA</p> <p>PMID:19449109</p> </body> </html> </notes> <label text="PIK3R1"/> <clone/> <bbox w="80.0" h="40.0" x="5372.0" y="6255.0"/> <glyph class="state variable" id="_8bbcea34-1069-43d6-a954-3e16a6366112"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5421.0684" y="6290.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa365_an_sa370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PIK3R2"/> <clone/> <bbox w="80.0" h="40.0" x="5372.0" y="6305.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa242_ce_csa242" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMC1*:SMC3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="SMC1*/SMC3"/> <bbox w="100.0" h="120.0" x="14417.473" y="14356.356"/> <glyph class="macromolecule" id="s_id_ce_sa1292_ce_sa1292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>structural maintenance of chromosomes 1A</p> <p>HUGO:SMC1A , HGNC:11111, ENTREZ:8243, UNIPROT:Q14683</p> <p>structural maintenance of chromosomes 1B</p> <p>HUGO:SMC1B , HGNC:11112, ENTREZ:27127 UNIPROT:Q8NDV3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:M_CC_PHASE, MODULE:HR, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <label text="SMC1*"/> <bbox w="80.0" h="40.0" x="14426.473" y="14371.356"/> <glyph class="state variable" id="_be83b9b0-4e72-4885-992d-7e315ac9d658"> <state value="P" variable="S957"/> <bbox w="35.0" h="10.0" x="14460.486" y="14366.356"/> </glyph> <glyph class="state variable" id="_0051d8d8-32b0-4411-aa51-ef6ab2aa3621"> <state value="" variable="S966"/> <bbox w="30.0" h="10.0" x="14433.719" y="14366.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1291_ce_sa1291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Structural maintenance of chromosomes 3</p> <p>HUGO:SMC3, HGNC:2468, ENTREZ:9126, UNIPROT:Q9UQE7</p> <p>Map modules:</p> 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rdf:about="#s_id_rc_sa1340_emtc_em_sa2048"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP2"/> <clone/> <bbox w="43.0" h="21.0" x="3870.0" y="16707.5"/> </glyph> <glyph class="complex" id="s_id_in_csa14_in_csa14" compartmentRef="s_id_in_ca16_in_ca16"> <label text="MHC_class_I*:B2M:Tumor_antigen_fragment"/> <bbox w="200.0" h="125.0" x="22553.125" y="6905.0"/> <glyph class="macromolecule" id="s_id_in_sa145_in_sa145"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="B2M"/> <bbox w="80.0" h="40.0" x="22663.125" y="6960.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa189_in_sa189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MHC_class_I*"/> <bbox w="80.0" h="50.0" x="22568.125" y="6962.5"/> <glyph class="unit of information" id="_9ebc2923-32b1-4c2a-8466-5c621a7b6b66"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22585.625" y="6957.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa190_in_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Tumor_antigen_fragment"/> <bbox w="80.0" h="40.0" x="22578.125" y="6907.5"/> <glyph class="unit of information" id="_83b18d94-9437-4347-8413-75014d6b63a2"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22593.125" y="6902.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5376_rc_sa5376" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5376_rc_sa5376"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ANT*"/> <clone/> <bbox w="80.0" h="40.0" x="23299.06" y="12759.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5376_rc_sa3365" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5376_rc_sa3365"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ANT*"/> <clone/> <bbox w="80.0" h="40.0" x="20859.06" y="14009.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa144_wca1_wca2_sa144" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa144_wca1_wca2_sa144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LRP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRP6"/> <clone/> <bbox w="80.0" h="50.0" x="23156.06" y="19402.0"/> <glyph class="state variable" id="_be324030-a8ce-4c21-a43f-4ba36075ef0e"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="23139.053" y="19397.0"/> </glyph> <glyph class="state variable" id="_1ad8cc06-5d11-45be-adf6-2347c1f41a0f"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="23218.56" y="19397.266"/> </glyph> <glyph class="state variable" id="_0e0a7fab-3d91-4b68-98d9-f49f8c50a744"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="23178.592" y="19397.0"/> </glyph> <glyph class="unit of information" id="_f8583bb4-9675-4cb3-8b1a-1fb976216af9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23173.56" y="19397.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa144_wca1_wca2_sa162" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa144_wca1_wca2_sa162"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LRP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRP6"/> <clone/> <bbox w="80.0" h="50.0" x="25310.06" y="18953.0"/> <glyph class="state variable" id="_c3792373-c42b-4748-a023-ff3ea4166115"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="25293.053" y="18948.0"/> </glyph> <glyph class="state variable" id="_07b9f261-93e7-4c7b-8e77-5248591a0726"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="25372.56" y="18948.266"/> </glyph> <glyph class="state variable" id="_e829798d-2a0f-4df8-9f70-182983cfd9ec"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="25332.592" y="18948.0"/> </glyph> <glyph class="unit of information" id="_3a678ba2-44d5-4f84-9d5b-836d4d44767c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25327.56" y="18948.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa606_rc_sa606" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa606_rc_sa606"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L2"/> <bbox w="80.0" h="40.0" x="21294.06" y="15855.87"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3248_rc_sa3248" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17015 KEGGCOMPOUND:C00255 CAS:83-88-5</p> </body> </html> </notes> <label text="riboflavin"/> <bbox w="70.0" h="25.0" x="23674.06" y="9276.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4521_rc_sa4521" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23846383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4521_rc_sa4521"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Inability to produce ATP"/> <bbox w="80.0" h="30.0" x="21270.31" y="14886.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa69_ce_sa69" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa69_ce_sa69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MSH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSH2"/> <bbox w="80.0" h="40.0" x="9746.133" y="15802.127"/> <glyph class="state variable" id="_a1e2ddde-eb91-4d09-bd15-b48a744a0dc7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9738.633" y="15817.127"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_em_sa1994_em_sa1994" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Cytokinesis"/> <bbox w="90.0" h="25.0" x="4848.0" y="14888.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3164_rc_sa3164" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3164_rc_sa3164"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP5C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPP5C"/> <bbox w="80.0" h="40.0" x="22529.06" y="10509.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa698_mpk1_mpk1_sa698" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa698_mpk1_mpk1_sa698"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKD1"/> <bbox w="50.0" h="25.0" x="8401.061" y="19594.5"/> <glyph class="state variable" id="_944ff064-4ae5-40b1-a4cd-a2662adca2ca"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="8393.561" y="19602.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3259_rc_sa3259" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3259_rc_sa3259"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOX4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOX4"/> <clone/> <bbox w="80.0" h="40.0" x="24279.06" y="10849.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3259_ca_sa1082" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3259_ca_sa1082"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOX4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOX4"/> <clone/> <bbox w="80.0" h="40.0" x="2822.9688" y="3937.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa81_akt1_akt2_sa81" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa81_akt1_akt2_sa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNE2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="12860.061" y="20534.0"/> <glyph class="state variable" id="_435e3f7a-4d4e-4a11-b336-c86402edaa0c"> <state value="" variable="T380"/> <bbox w="30.0" h="10.0" x="12845.064" y="20529.0"/> </glyph> <glyph class="state variable" id="_bbae8eb0-65a6-409b-a100-7b54345d5d59"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12855.064" y="20569.0"/> </glyph> <glyph class="state variable" id="_380d0dbc-a0ad-462a-b134-ec3c95d235b4"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="12925.061" y="20529.213"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa38_shh1_shh1_csa38" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AOS1*:UBA2</p> <p>References:</p> <p>s_shh1_re76(MAP:survival):</p> <p>PMID:20711444</p> <p>PTM=sumoylation N/A in CellDesigner. </p> <p>Sumoylation not detected on endogenous Gli proteins.</p> <p>PKA antagonise sumoylation due to the consequence of PKA phosphorylation on Gli proteins it is not a direct effect of PKA. Exact</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa38_shh1_shh1_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20711444"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UBA2_AOS1"/> <bbox w="100.0" h="120.0" x="27848.06" y="18171.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa248_shh1_shh1_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ubiquitin-like modifier activating enzyme 2</p> <p>HUGO:UBA2 HGNC:30661 ENTREZ:10054 UNIPROT:Q9UBT2 GENECARDS:UBA2 KEGG:10054 ATLASONC:GC_UBA2 WIKI:UBA2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="UBA2"/> <bbox w="80.0" h="40.0" x="27859.56" y="18175.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa249_shh1_shh1_sa249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AOS1</p> <p>HUGO:SAE1 HGNC:30660 ENTREZ:10055 UNIPROT:Q9UBE0 GENECARDS:SAE1 KEGG:10055 ATLASONC:GC_SAE1 WIKI:SAE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20711444</p> </body> </html> </notes> <label text="AOS1*"/> <bbox w="80.0" h="40.0" x="27861.06" y="18218.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa190_ce_csa190" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycA*"/> <bbox w="100.0" h="120.0" x="12623.473" y="10062.356"/> <glyph class="macromolecule" id="s_id_ce_sa824_ce_sa824"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="12632.137" y="10072.439"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1631_ce_sa1631"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="12632.639" y="10118.564"/> <glyph class="state variable" id="_4c7621b5-f1b6-4475-b81e-f2cc7f7b6444"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="12669.588" y="10113.564"/> </glyph> <glyph class="state variable" id="_c0f53edd-580e-44e7-8512-0f4588d707ef"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12627.639" y="10133.532"/> </glyph> <glyph class="state variable" id="_347a59aa-9a29-4141-a61c-114e9b3a3568"> <state value="" variable="T161"/> <bbox w="30.0" h="10.0" x="12697.639" y="10133.164"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa255_in_csa255" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s2281"/> <bbox w="100.0" h="140.0" x="23985.0" y="5600.0"/> <glyph class="macromolecule" id="s_id_in_sa1911_in_sa1911"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FLT3"/> <bbox w="80.0" h="50.0" x="23995.0" y="5665.0"/> <glyph class="unit of information" id="_9dd06c28-55f4-49fe-8436-a5c00ff8f057"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24012.5" y="5660.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1912_in_sa1912"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FLT3LG"/> <bbox w="80.0" h="40.0" x="23995.0" y="5620.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa495_in_sa495" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LIMK1"/> <bbox w="80.0" h="40.0" x="15175.0" y="3720.0"/> <glyph class="state variable" id="_c3c5175d-0683-41e3-bb6e-443703107e43"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15167.5" y="3735.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa52_gf1_sa52" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS</p> <p>PMID:27548915 </p> <p>One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. Therefore, reduction in IGF2R following treatment with miR-211 or melanosomes may increase IGF2 levels, promoting its binding to IGF1R, and thus leading to hyperactivation of this pathway and increased proliferation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa52_gf1_sa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27548915"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF2R"/> <bbox w="80.0" h="50.0" x="9845.561" y="17824.5"/> <glyph class="unit of information" id="_1556a1f8-e564-41ba-a011-427a2a009b7e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9863.061" y="17819.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5294_rc_sa5294" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="OH-"/> <bbox w="70.0" h="25.0" x="26724.06" y="9256.5"/> </glyph> <glyph class="phenotype" id="s_id_em_sa2028_em_sa2028" compartmentRef="s_id_em_ca13_em_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOSKELETON_POLARITY </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Caveolin mediated endocytosis"/> <bbox w="210.0" h="25.0" x="1198.0" y="13211.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2588_in_sa2588" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 23811849, 16878026, 17704786, 23681101, 14660645 <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>CASCADE:IL18, CASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>References:</p> <p>PMID:14660645, PMID:16878026, PMID:23681101</p> <p>The adaptor proteins MyD88 and TIRAP associate with TLR 2 and TLR 4 after receptor engagement.</p> <p>PMID:23811849</p> <p>HMGB1 is a nuclear nonhistone chromatin-binding protein. It is secreted at the late stages of cellular demise and iactivates TLR4/MyD88 pathway in dendritic cells (DCs) to accelerate the processing of phagocytic cargo in the DC and to facilitate antigen presentation by DC to T cells.</p> <p>PMID:17704786</p> <p>DCs require signaling through TLR4 and its adaptor MyD88 for efficient processing and cross-presentation of antigen from dying tumor cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2588_in_sa2588"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23811849"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16878026"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17704786"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYD88"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23681101"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYD88"/> <clone/> <bbox w="80.0" h="40.0" x="14550.0" y="1395.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2588_in_sa1506" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 23811849, 16878026, 17704786, 23681101, 14660645 <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>CASCADE:IL18, CASCADE:TLR2_4, CASCADE:IFNG, CASCADE:IL15</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>References:</p> <p>PMID:14660645, PMID:16878026, PMID:23681101</p> <p>The adaptor proteins MyD88 and TIRAP associate with TLR 2 and TLR 4 after receptor engagement.</p> <p>PMID:23811849</p> <p>HMGB1 is a nuclear nonhistone chromatin-binding protein. It is secreted at the late stages of cellular demise and iactivates TLR4/MyD88 pathway in dendritic cells (DCs) to accelerate the processing of phagocytic cargo in the DC and to facilitate antigen presentation by DC to T cells.</p> <p>PMID:17704786</p> <p>DCs require signaling through TLR4 and its adaptor MyD88 for efficient processing and cross-presentation of antigen from dying tumor cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2588_in_sa1506"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23811849"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16878026"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17704786"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYD88"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23681101"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYD88"/> <clone/> <bbox w="80.0" h="40.0" x="23420.0" y="1545.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa4_ce_csa4" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARP1:PCNA:POLB:POLD*:POLE*:RFC*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:19748837, PMID:12637553, PMID:10858306, PMID:11948190, PMID:16442856</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa4_ce_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19748837"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12637553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10858306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11948190"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16442856"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP*/PCNA/POLB/POLD*/POLE*/RFC*"/> <bbox w="254.0" h="115.0" x="10338.473" y="16188.356"/> <glyph class="macromolecule" id="s_id_ce_sa384_ce_sa384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication factor C (activator 1) 1, 145kDa</p> <p>HUGO:RFC1, HGNC:9969, ENTREZ:5981, UNIPROT:P35251</p> <p>replication factor C (activator 1) 2, 40kDa</p> <p>HUGO:RFC2, HGNC:9970, ENTREZ:5982, UNIPROT:P35250</p> <p>replication factor C (activator 1) 3, 38kDa</p> <p>HUGO:RFC3, HGNC:9971, ENTREZ:5983, UNIPROT:P40938</p> <p>replication factor C (activator 1) 4, 37kDa</p> <p>HUGO:RFC4, HGNC:9972, ENTREZ:5984, UNIPROT:P35249</p> <p>replication factor C (activator 1) 5, 36.5kDa</p> <p>HUGO:RFC5, HGNC:9973, ENTREZ:5985, UNIPROT:P40937</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="RFC*"/> <bbox w="80.0" h="40.0" x="10498.473" y="16198.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa385_ce_sa385"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PolB, polymerase (DNA directed), beta</p> <p>HUGO:POLB, HGNC:9174, ENTREZ:5423, UNIPROT:P06746</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> <p>POLB is important for repair of ROS-induced DNA damage, inhibiting impoves sensitivity to ROS-like drugs</p> <p>PMID:20510258, PMID:21251944</p> </body> </html> </notes> <label text="POLB"/> <bbox w="80.0" h="40.0" x="10413.973" y="16196.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1161_ce_sa1161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="80.0" h="40.0" x="10497.108" y="16236.832"/> <glyph class="state variable" id="_f8471fcb-d385-47ab-95e2-57f6c546a89d"> <state value="" variable="PolyADPribose"/> <bbox w="75.0" h="10.0" x="10495.223" y="16231.832"/> </glyph> <glyph class="state variable" id="_83ab39e0-dcfe-45ad-ac70-cd58d6d9b857"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="10477.108" y="16256.062"/> </glyph> <glyph class="state variable" id="_3d778ee7-e742-40e1-8434-366788f9ceaf"> <state value="" variable="Ser786"/> <bbox w="40.0" h="10.0" x="10485.91" y="16271.832"/> </glyph> <glyph class="state variable" id="_a802dc73-4954-4ae3-8a80-181532ab253f"> <state value="" variable="Ser785"/> <bbox w="40.0" h="10.0" x="10477.108" y="16265.763"/> </glyph> <glyph class="state variable" id="_e2c90d91-2e4d-4ee4-897a-b5a2ea451b0a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10572.108" y="16251.832"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa388_ce_sa388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="10421.973" y="16237.856"/> <glyph class="state variable" id="_3452f006-27a5-40cb-810f-37fd1b39e9a9"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="10406.973" y="16252.856"/> </glyph> <glyph class="state variable" id="_59971d0c-db7c-4492-805e-4d39cace336f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10416.974" y="16272.856"/> </glyph> <glyph class="state variable" id="_8ef31a5f-caad-4046-a33d-56718963c6c8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10440.404" y="16272.856"/> </glyph> <glyph class="state variable" id="_48c71c8f-e86b-4e62-ab51-a8954d5f0ff1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10456.973" y="16272.856"/> </glyph> <glyph class="state variable" id="_4b41193f-8bd6-4256-9e04-cc4a1baf0b10"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="10410.957" y="16232.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa386_ce_sa386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), delta 1, catalytic subunit 125kDa</p> <p>HUGO:POLD1, HGNC:9175, ENTREZ:5424, UNIPROT:P28340</p> <p>polymerase (DNA directed), delta 2, regulatory subunit 50kDa</p> <p>HUGO:POLD2, HGNC:9176, ENTREZ:5425, UNIPROT:P49005</p> <p>polymerase (DNA-directed), delta 3, accessory subunit</p> <p>HUGO:POLD3, HGNC:20932, ENTREZ:10714, UNIPROT:Q15054</p> <p>polymerase (DNA-directed), delta 4</p> <p>HUGO:POLD4, HGNC:14106, ENTREZ:57804, UNIPROT:Q9HCU8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER, MODULE:MMR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20478261</p> <p>For A_NHEJ</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292</p> </body> </html> </notes> <label text="POLD*"/> <bbox w="80.0" h="40.0" x="10344.973" y="16236.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa387_ce_sa387"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), epsilon</p> <p>HUGO:POLE, HGNC:9177, ENTREZ:5426, UNIPROT:Q07864</p> <p>polymerase (DNA directed), epsilon 2 (p59 subunit)</p> <p>HUGO:POLE2, HGNC:9178, ENTREZ:5427, UNIPROT:P56282</p> <p>polymerase (DNA directed), epsilon 3 (p17 subunit)</p> <p>HUGO:POLE3, HGNC:13546, ENTREZ:54107, UNIPROT:Q9NRF9</p> <p>polymerase (DNA-directed), epsilon 4 (p12 subunit)</p> <p>HUGO:POLE4, HGNC:18755, ENTREZ:56655, UNIPROT:Q9NR33</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="POLE*"/> <bbox w="80.0" h="40.0" x="10346.973" y="16196.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa123_rc_sa123" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa123_rc_sa123"> 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa867_ad_sa867"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12133805"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="27996.0" y="6385.0"/> <glyph class="state variable" id="_cb07536e-7687-4495-b7fe-d59811897552"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27988.5" y="6400.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa48_mpk1_mpk1_csa48" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DUSP5:ERK*</p> </body> </html> </notes> <label text="DUSP5:ERK*"/> <bbox w="85.0" h="90.0" x="8150.06" y="20578.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa244_mpk1_mpk1_sa244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dual specificity phosphatase 5</p> <p>HUGO:DUSP5 HGNC:3071 ENTREZ:1847 UNIPROT:Q16690</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>DUSP5 represents an inducible ERK-specific MKP and it functions as both a nuclear anchor and inactivator of ERK MODULE:MAPK in mammalian cells.</p> </body> </html> </notes> <label text="DUSP5"/> <bbox w="60.0" h="27.0" x="8164.06" y="20591.0"/> <glyph class="state variable" id="_a2335aef-699b-4eb3-b931-2baab7c75427"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8159.06" y="20599.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa247_mpk1_mpk1_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="60.0" h="27.0" x="8169.56" y="20618.0"/> <glyph class="state variable" id="_497bf05a-f774-41e1-bcfd-d9c974d878fd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8164.56" y="20631.205"/> </glyph> <glyph class="state variable" id="_43aaf3a6-c6d6-4a59-9d92-06f90c2d8533"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8164.56" y="20621.154"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1388_ad_sa1388" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:27192566</p> <p>HVEM expressed in T cells binds to its ligands: LIGHT and LTα expressed on APC to modulate the proliferation and function of effector T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1388_ad_sa1388"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192566"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LTA"/> <bbox w="80.0" h="40.0" x="30506.0" y="2220.0"/> </glyph> <glyph class="complex" id="s_id_in_csa297_in_csa297" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa297_in_csa297"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082433"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s3701"/> <bbox w="100.0" h="120.0" x="15872.5" y="1510.0"/> <glyph class="simple chemical" id="s_id_in_sa2182_in_sa2182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdSer"/> <bbox w="70.0" h="25.0" x="15887.5" y="1517.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2181_in_sa2181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TIMD4"/> <bbox w="80.0" h="50.0" x="15882.5" y="1545.0"/> <glyph class="unit of information" id="_75bc6e8a-ba2f-4189-b3f1-95808ff6a2e4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15900.0" y="1540.0"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa3971_rc_sa3971" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s5240"/> <bbox w="30.0" h="30.0" x="23844.06" y="12754.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa490_in_sa490" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 11687500, 21826665, 18250477, 12906785, 24795729, 19022819, 20805416, 19109239, 22703233</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa490_in_sa490"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11687500"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21826665"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18250477"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12906785"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24795729"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19022819"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20805416"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19109239"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22703233"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <bbox w="80.0" h="40.0" x="17030.0" y="3789.0"/> <glyph class="state variable" id="_3c3a24d8-89de-4bdc-860a-eb188b390813"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17025.0" y="3804.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa1107_in_sa1107" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Urea"/> <bbox w="70.0" h="25.0" x="13739.219" y="6114.6875"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa67_wnc1_wnc1_csa67" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRR*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re114(MAP:survival):</p> <p>Clathrin-mediated endocytosis</p> <p>PMID:21397842</p> <p>PMID:20947020</p> <p>PMID:19910923</p> <p>RhoA branch of the PCP -MODULE when Dvl is hyper-phosphorylated by CK_epsilon</p> <p>PMID:18953287</p> <p>s_wnc1_re109(MAP:survival):</p> <p>Polymerised Dvl act as scaffold for recruiting axin.</p> <p>PMID:21078818</p> <p>GSK3 phosphorylates ROR2</p> <p>PMID:17986005</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa67_wnc1_wnc1_csa67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20947020"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19910923"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18953287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21078818"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17986005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="363.0" h="216.0" x="15708.811" y="19857.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa619_wnc1_wnc1_sa619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="15983.561" y="19941.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa586_wnc1_wnc1_sa586"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="15804.811" y="19985.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa583_wnc1_wnc1_sa583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="15799.811" y="19936.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa581_wnc1_wnc1_sa581"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15979.311" y="19887.5"/> <glyph class="state variable" id="_2f273eac-7f04-4173-95e4-6719689e60bb"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="16044.311" y="19882.766"/> </glyph> <glyph class="state variable" id="_c7ce1c61-8009-4d93-a565-d9f095070a36"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16014.311" y="19932.5"/> </glyph> <glyph class="state variable" id="_f992248e-1766-4fa4-8738-87b6518c7463"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15974.314" y="19882.5"/> </glyph> <glyph class="state variable" id="_01246956-4d61-4542-926f-a8ffaa01166f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16054.311" y="19932.5"/> </glyph> <glyph class="unit of information" id="_e8888431-03e7-4787-b3d5-bdea7dee3fd4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15996.811" y="19882.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa587_wnc1_wnc1_sa587"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="15729.811" y="19880.5"/> <glyph class="state variable" id="_8ada48e2-6379-41e1-bded-c8c5ae0ebc5b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15724.814" y="19875.5"/> </glyph> <glyph class="state variable" id="_4d1e27ba-2831-4097-93f3-05dcbbc88c88"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15804.811" y="19875.5"/> </glyph> <glyph class="state variable" id="_0948d1d2-d8d9-4f1b-ac8e-c135c533a1c9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15804.811" y="19900.5"/> </glyph> <glyph class="state variable" id="_c8a3375e-7ec7-48cc-846b-db8e200769ee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15724.811" y="19900.5"/> </glyph> <glyph class="unit of information" id="_0f91dc32-2982-45e9-bd27-4392c49aff50"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15747.311" y="19875.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa584_wnc1_wnc1_sa584"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15934.811" y="19867.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa585_wnc1_wnc1_sa585"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="15812.811" y="19881.5"/> <glyph class="unit of information" id="_96eeca3f-82d5-41fd-9ec6-cc8f4891283f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15830.311" y="19876.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa588_wnc1_wnc1_sa588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="15716.811" y="19934.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa660_wnc1_wnc1_sa660"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15998.561" y="19991.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa580_wnc1_wnc1_sa580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15898.311" y="19881.5"/> <glyph class="unit of information" id="_5be1ca70-6625-46cd-8728-db254cc01b34"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15915.811" y="19876.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa590_wnc1_wnc1_sa590"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15898.561" y="19940.0"/> <glyph class="state variable" id="_6439ec32-9a34-4179-9c63-5020c4ff13c8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15893.564" y="19975.0"/> </glyph> <glyph class="state variable" id="_203638b5-6b14-40c3-84cd-5bacf2a89d48"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15970.694" y="19935.0"/> </glyph> <glyph class="state variable" id="_13a7119d-a64c-4dba-ae7c-a902aef3e52e"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15960.442" y="19975.0"/> </glyph> <glyph class="state variable" id="_f82e35cb-ba09-405a-bb43-52e9bce2a9bf"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15893.564" y="19935.0"/> </glyph> <glyph class="state variable" id="_3ccc41ef-d72a-4506-85a9-69aa3dfe2d34"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15973.561" y="19935.0"/> </glyph> <glyph class="state variable" id="_742cc97b-323b-4ad7-82c2-70ec10f84850"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15973.561" y="19975.0"/> </glyph> <glyph class="state variable" id="_5bd8bd53-a188-4fef-8070-ec324b94959a"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15881.061" y="19974.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa590_wnc1_wnc1_sa591"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15899.561" y="19993.0"/> <glyph class="state variable" id="_3f7151d5-5470-4788-b97e-f64fc0ccb7d5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15894.564" y="20028.0"/> </glyph> <glyph class="state variable" id="_d457ca64-80b4-4b3d-b1a9-759b8621c28b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15971.694" y="19988.0"/> </glyph> <glyph class="state variable" id="_7e9da44c-52b8-4544-8820-1055e797051e"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="15961.442" y="20028.0"/> </glyph> <glyph class="state variable" id="_185d4849-3ca5-4088-9cfe-fc5127a14bac"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15894.564" y="19988.0"/> </glyph> <glyph class="state variable" id="_1505ecf4-c497-4d21-a5a6-0897869a8007"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15974.561" y="19988.0"/> </glyph> <glyph class="state variable" id="_e8a2c632-eb88-4ffd-a5da-56124987f7c3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15974.561" y="20028.0"/> </glyph> <glyph class="state variable" id="_bfdb059c-2d11-44c3-a3c8-297764d4dcb9"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="15882.061" y="20027.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa589_wnc1_wnc1_sa589"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="15717.811" y="19984.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa582_wnc1_wnc1_sa582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15894.311" y="19862.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa55_wca1_wca1_csa55" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:Iversin*</p> <p>References:</p> <p>s_wca1_re55:(MAP:survival) PMID:15852005</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa55_wca1_wca1_csa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15852005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:Iversin*"/> <bbox w="100.0" h="120.0" x="20704.56" y="17570.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa535_wca1_wca1_sa535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="20713.56" y="17626.0"/> <glyph class="state variable" id="_5704dda4-4d53-44f3-81d7-91ac71d22c18"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20788.56" y="17621.0"/> </glyph> <glyph class="state variable" id="_75d334f9-71dc-4fe3-8ec9-b95927f2a659"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="20698.56" y="17660.72"/> </glyph> <glyph 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y="9179.875"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4888_rc_sa4888" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>bortezomib</p> <p>PMID:19164757</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4888_rc_sa4888"> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa350_shh1_shh3_sa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRK4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRK5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRK6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GRK7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADRBK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ADRBK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRK*"/> <clone/> <bbox w="80.0" h="40.0" x="26143.06" y="22887.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa270_emtc_em_csa270" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN1:_beta_-Catenin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signalingMaps_Modules_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa270_emtc_em_csa270"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12051714"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11967263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8666229"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(APC/AXIN1/S33_S37_T41β-Catenin*)"/> <bbox w="226.0" h="75.0" x="2176.0" y="16211.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1764_emtc_em_sa1764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1, HGNC:903, ENTREZ:8312, UNIPROT:O15169 , GENECARDS:GC16M000338</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding (right panel), DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="40.0" h="20.0" x="2277.25" y="16246.5"/> <glyph class="state variable" id="_7bd15498-efed-47e9-9f94-688cf22cb674"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2290.166" y="16241.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa975_emtc_em_sa975"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> 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id="s_id_rc_sa4626_rc_sa4626" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4626_rc_sa4626"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UVRAG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UVRAG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UVRAG"/> <bbox w="90.0" h="25.0" x="24865.56" y="16160.5"/> <glyph class="unit of information" id="_e894876b-2cac-4d52-887a-6e9557bbe54e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24900.56" y="16155.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa427_rc_csa427" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NRAGE*:UNC5A</p> <p>References:</p> <p>16829956</p> <p>In absence of his lignant, UNC5A is associated with NRAGE also called MAGE-D1</p> </body> </html> </notes> <label text="NRAGE*:UNC5A"/> <bbox w="100.0" h="120.0" x="20187.111" y="9138.431"/> <glyph class="macromolecule" id="s_id_rc_sa4160_rc_sa4160"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>melanoma antigen family D, 1</p> <p>HUGO:MAGED1 HGNC:6813 ENTREZ:9500 UNIPROT:Q9Y5V3</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:12376548</p> <p>NRAGE induces caspase activation and cell death through a JNK-dependent mitochondrial pathway</p> <p>PMID:15721744</p> <p>PMID:11546791</p> <p>PMID:17488777</p> <p>NRAGE associates with the anti-apoptotic factor Che-1 and regulates its degradation to induce cell death.</p> <p>PMID:23314527</p> </body> </html> </notes> <label text="NRAGE*"/> <bbox w="80.0" h="40.0" x="20197.111" y="9198.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4102_rc_sa4102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>unc-5 homolog A (C. elegans)</p> <p>HUGO:UNC5A HGNC:12567 ENTREZ:90249 UNIPROT:Q6ZN44</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:18582460</p> <p>PMID:20173780</p> <p>PMID:16829956</p> <p>UNC5A promotes neuronal apoptosis</p> </body> </html> </notes> <label text="UNC5A"/> <bbox w="80.0" h="50.0" x="20197.111" y="9143.431"/> <glyph class="unit of information" id="_a06ff315-7304-4813-942d-792de59572c9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20214.611" y="9138.431"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1235_ad_sa1235" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22285893</p> <p>CD111</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1235_ad_sa1235"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NECTIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22285893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NECTIN1"/> <bbox w="80.0" h="40.0" x="25306.0" y="2180.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa67_emtc_em_sa67" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa67_emtc_em_sa67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TCF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TCF3"/> <bbox w="40.0" h="20.0" x="4329.5" y="16716.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa447_ad_sa447" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11698448</p> <p>LIMK1 is a serine/threonine kinase that phosphorylates and inactivates the actin-depolymerization factor cofilin, thereby regulating actin cytoskeletal reorganization.</p> <p>LIMK1 phosphorylates CLF1 (cofilin) downstream of killer cell-activating receptors via RHOA/ROCK1 pathway.</p> <p>Inhibition of the p160ROCK/LIMK1 pathway results in decreased actin polymerization at the effector/target interface.</p> <p>PMID:11093160</p> <p>Following co-stimulation through accessory receptors (e.g. CD2 or CD28) - however, not following TCR/CD3 stimulation alone - cofilin undergoes dephosphorylation. The subcellular localization as well as the actin-binding activity of cofilin are regulated by the phosphorylation state of serine-3. Thus, only the dephosphorylated form of cofilin associates with the actin cytoskeleton and possesses the capability to translocate into the nucleus. Recently, LIM-kinase 1 was shown to inactivate cofilin through phosphorylation. Here, we have identified the functional counterparts of LIM-kinase 1: the serine/threonine phosphatases of type 1 and type 2A not only associate with cofilin but also dephosphorylate this 19-kDa protein and thereby mediate cofilin activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa447_ad_sa447"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFL1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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rdf:resource="urn:miriam:hgnc.symbol:RPS6KA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RSK*"/> <bbox w="80.0" h="40.0" x="12529.061" y="18989.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa303_rc_csa303" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2:G0S2</p> </body> </html> </notes> <label text="BCL2:G0S2"/> <bbox w="110.0" h="120.0" x="22664.06" y="13909.0"/> <glyph class="macromolecule" id="s_id_rc_sa2587_rc_sa2587"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G0/G1switch 2</p> <p>HUGO:G0S2 HGNC:30229 ENTREZ:50486 UNIPROT:P27469</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION</p> <p> PMID:19706769</p> <p>pro-apoptotic</p> <p>in H1299 Ad virus driven expression of G0S2 (but not of a R57A,D58A BCL2 interaction mutant) induces externalization of phosphatidylserines</p> </body> </html> </notes> <label text="G0S2"/> <bbox w="80.0" h="40.0" x="22682.06" y="13964.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2588_rc_sa2588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="22682.06" y="13920.0"/> <glyph class="state variable" id="_a9093371-a09f-4c0a-9f03-b24857582784"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22733.629" y="13915.0"/> </glyph> <glyph class="state variable" id="_de19fb6a-989a-428e-8c47-590255fc735a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22677.06" y="13935.0"/> </glyph> <glyph class="state variable" 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The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.PMID:10391247TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:15082531The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.PMID:10391247TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3299_rc_sa3299"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB1"/> <bbox w="80.0" h="40.0" x="22784.81" y="10294.779"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh1_sa266_shh1_shh1_sa266" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> 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rdf:about="#s_id_rc_sa4834_rc_sa4834"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK13"/> <clone/> <bbox w="80.0" h="40.0" x="26839.06" y="14489.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4834_rc_sa3182" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4834_rc_sa3182"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK13"/> <clone/> <bbox w="80.0" h="40.0" x="23038.06" y="11089.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa385_in_sa385" compartmentRef="s_id_in_ca47_in_ca47"> <label text="B7H6*"/> <bbox w="80.0" h="40.0" x="18870.0" y="685.0"/> </glyph> <glyph class="phenotype" id="s_id_in_sa1157_in_sa1157" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1157_in_sa1157"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RECRUITMENT_OF_IMMUNE_CELLS"/> <bbox w="220.0" h="35.0" x="13660.0" y="2317.5"/> </glyph> <glyph class="simple chemical" id="s_id_ce_sa4_ce_sa4" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:BER</p> </body> </html> </notes> <label text="5'dRP"/> <bbox w="70.0" h="25.0" x="9561.269" y="16299.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa481_rc_csa481" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2L11:MCL1:Unfolded protein*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>IRE1a activation is an early event which diminished upon prolonged stress</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa481_rc_csa481"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="86.0" h="76.0" x="27119.967" y="13911.0"/> <glyph class="unit of information" id="_1e6553d1-67b4-4300-9c23-471a67376a44"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="27152.967" y="13906.0"/> </glyph> <glyph class="state variable" id="_739eac80-2a99-49a0-b1e2-f434ed47c4d3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27173.277" y="13906.0"/> </glyph> <glyph class="unit of information" id="_27e6c75f-f853-4f80-98dc-59e655f7806a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27140.467" y="13906.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5083_rc_sa5083"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <label text="Unfolded protein*"/> <bbox w="160.0" h="30.0" x="27097.967" y="13874.0"/> <glyph class="state variable" id="_48132dab-aaca-4bf8-9be6-26bc5cf6c3fb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27092.967" y="13877.787"/> </glyph> <glyph class="state variable" id="_5184c869-fb2b-464d-b442-c40d7dce7d45"> <state value="" variable="disulphide bond"/> <bbox w="85.0" h="10.0" x="27207.229" 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cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="17.0" x="2039.0" y="15518.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1285_emtc_em_sa1285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caveolin 1, caveolae protein, 22kDa</p> <p>HUGO:CAV1, HGNC:1527, ENTREZ:857, UNIPROT:Q03135, GENECARDS:GC07P116164  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:22671595</p> <p>Caveolin-1 is an endocytic scaffolding 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD247"/> <bbox w="80.0" h="50.0" x="18615.0" y="1605.0"/> <glyph class="state variable" id="_db2ef71c-22f2-4e21-afb0-76f867897d75"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18607.5" y="1625.0"/> </glyph> <glyph class="unit of information" id="_f4dc4faa-a3d2-4422-b07f-2c0595797604"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18632.5" y="1600.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa605_in_sa605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FcγRIII*"/> <bbox w="80.0" h="50.0" x="18615.0" y="1655.0"/> <glyph class="unit of information" id="_311401e4-d6e1-477f-b517-a77933a6982c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18632.5" y="1650.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa295_rc_csa295" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ESRRA:PPARGC1A</p> </body> </html> </notes> <label text="ERRα:PGC1α"/> <bbox w="100.0" h="120.0" x="20071.56" y="16454.0"/> <glyph class="macromolecule" id="s_id_rc_sa2413_rc_sa2413"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peroxisome proliferator-activated receptor gamma, coactivator 1 alpha</p> <p>HUGO:PPARGC1A HGNC:9237 ENTREZ:10891 UNIPROT:Q9UBK2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:PGC1alpha</p> </body> </html> </notes> <label text="PPARGC1A"/> <bbox w="80.0" h="40.0" x="20084.56" y="16512.0"/> <glyph class="state variable" id="_52548749-8f4d-49ff-8312-4b79b840f910"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20136.129" y="16507.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2412_rc_sa2412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>estrogen-related receptor alpha</p> <p>HUGO:ESRRA HGNC:3471 ENTREZ:2101 UNIPROT:P11474</p> <p>Map modules:</p> <p>MODULE:RCD_GENES</p> </body> </html> </notes> <label text="ESRRA"/> <bbox w="80.0" h="40.0" x="20087.56" y="16464.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1959_emtc_em_sa1959" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1959_emtc_em_sa1959"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SP1"/> <bbox w="40.0" h="20.0" x="4049.5" y="16096.5"/> <glyph class="state variable" id="_7f9afc82-3d31-418d-886c-061381668333"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4042.0" y="16101.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa17_akt1_akt2_csa17" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*:p27KIP1*</p> <p>References:</p> <p>s_akt2_re51(MAP:survival):</p> <p>PMID:18414028</p> <p>PMID:9106657</p> <p>s_akt2_re38(MAP:survival):</p> <p>PMID:18636226</p> <p>PMID:15147722</p> <p>PMID:14536078</p> <p>PMID:12459251</p> <p>s_akt2_re136:(MAP:survival) PMID:11124803 PMID:12459251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa17_akt1_akt2_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18414028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9106657"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12459251"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11124803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12459251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4_6*:CyclinD*:p27KIP1*"/> <bbox w="103.0" h="157.0" x="12860.061" y="20831.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa108_akt1_akt2_sa108"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="12869.061" y="20877.0"/> <glyph class="state variable" id="_82dc6523-30f8-42bc-b53c-33db4fab3a72"> <state value="" variable="T286"/> <bbox w="30.0" h="10.0" x="12934.061" y="20872.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa107_akt1_akt2_sa107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4 HGNC:1773 ENTREZ:1019 UNIPROT:P11802 GENECARDS:CDK4 REACTOME:68329 KEGG:1019 ATLASONC:CDK4ID238ch12q14 WIKI:CDK4 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6 HGNC:1777 ENTREZ:1021 UNIPROT:Q00534 GENECARDS:CDK6 REACTOME:68335 KEGG:1021 ATLASONC:GC_CDK6 WIKI:CDK6</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="12869.061" y="20836.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa109_akt1_akt2_sa109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27 Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527 GENECARDS:CDKN1B REACTOME:198633 KEGG:1027 ATLASONC:CDKN1BID116 WIKI:CDKN1B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="12869.061" y="20919.0"/> <glyph class="state variable" id="_def07b8f-1da4-4b3e-9911-fdeeaf7abeac"> <state value="" variable="T157"/> <bbox w="30.0" h="10.0" x="12930.643" y="20914.0"/> </glyph> <glyph class="state variable" id="_3ce61c46-7e45-4b18-bf38-ce50b822cbf4"> <state value="" variable="T198"/> <bbox w="30.0" h="10.0" x="12854.061" y="20953.72"/> </glyph> <glyph class="state variable" id="_f4cbbae7-c536-48aa-8d1d-c3cccb855000"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12861.561" y="20934.969"/> </glyph> <glyph class="state variable" id="_6924494a-e923-4e48-aaa7-c78e59bc7db7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12864.061" y="20924.3"/> </glyph> <glyph class="state variable" id="_28612778-33fc-425c-add2-cd521f5b4c4a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12885.155" y="20914.0"/> </glyph> <glyph class="state variable" id="_65c73a67-5b58-473f-a643-ac29debca59a"> <state value="P" variable="S157"/> <bbox w="35.0" h="10.0" x="12931.561" y="20914.213"/> </glyph> <glyph class="state variable" id="_296bcb06-89cd-4fda-9456-de489d657e4e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12903.965" y="20954.0"/> </glyph> <glyph class="state variable" id="_8d8c7aa5-e4cf-4586-95e5-0acf59c42585"> <state value="" variable="S10"/> <bbox w="25.0" h="10.0" x="12856.561" y="20916.404"/> </glyph> <glyph class="state variable" id="_1f43049a-203f-431f-a610-fada1850d41c"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="12933.442" y="20954.0"/> </glyph> <glyph class="state variable" id="_0bf549f0-ff7e-4280-82ea-e5d4cd4ca586"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12904.093" y="20914.0"/> </glyph> <glyph class="state variable" id="_1811dc7c-e37c-4d20-bb78-f21e79cc0c2d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12861.561" y="20946.773"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa9_in_csa9" compartmentRef="s_id_in_ca16_in_ca16"> <label text="MHC_class_I*:B2M"/> <bbox w="180.0" h="70.0" x="22560.176" y="6693.972"/> <glyph class="macromolecule" id="s_id_in_sa130_in_sa130"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MHC_class_I*"/> <bbox w="80.0" h="50.0" x="22570.176" y="6703.972"/> <glyph class="unit of information" id="_2be8c514-d1fa-4652-9ec1-cf7f359c1ee1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22587.676" y="6698.972"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa131_in_sa131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="B2M"/> <bbox w="80.0" h="40.0" x="22650.176" y="6703.972"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa58_mpk1_mpk1_csa58" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MEK*:SEF*</p> </body> </html> </notes> <label text="MEK*:SEF*"/> <bbox w="104.0" h="93.0" x="8076.06" y="19674.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa558_mpk1_mpk1_sa558"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 17 receptor D</p> <p>HUGO:IL17RD HGNC:17616 ENTREZ:54756 UNIPROT:Q8NFM7</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sef1 which is a putative transmembrane protein of the Golgi apparatus seems to be a scaffold protein that recruits ERK1/2 and MEK1/2 to its vicinity and probably allows their activation by Golgi-localised Ras proteins.</p> <p>Unlike many other scaffolds ERK1/2 do not dissociate from Sef1 upon stimulation and therefore nuclear translocation of the Sef1 anchored fraction of ERK1/2 molecules is blocked.</p> </body> </html> </notes> <label text="SEF*"/> <bbox w="37.0" h="58.0" x="8083.333" y="19685.318"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa617_mpk1_mpk1_sa617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="37.0" h="58.0" x="8121.685" y="19685.0"/> <glyph class="state variable" id="_1c66efdc-47a8-4213-9b17-6309577f1001"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8116.685" y="19718.664"/> </glyph> <glyph class="state variable" id="_bdd59ea0-29d9-49ea-9df7-6a6baa33a602"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8116.685" y="19698.854"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5012_rc_sa5012" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5012_rc_sa5012"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SEL1L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SEL1L"/> <bbox w="80.0" h="40.0" x="28649.06" y="15809.0"/> </glyph> <glyph class="complex" id="s_id_in_csa322_in_csa322" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa322_in_csa322"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20154735"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20547845"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23508573"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16306937"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15644117"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17114424"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s2147"/> <bbox w="120.0" h="190.0" x="24155.0" y="1665.0"/> <glyph class="macromolecule" id="s_id_in_sa2464_in_sa2464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TICAM1"/> <bbox w="80.0" h="40.0" x="24175.0" y="1775.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2463_in_sa2463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:TLR2_4, CASCADE:MIF, CASCADE:IFNG</p> <p>References:</p> <p>PMID:11964313, PMID:11672593, PMID:12032143, PMID:12811837.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TLR4"/> <bbox w="80.0" h="50.0" x="24175.0" y="1715.0"/> <glyph class="unit of information" id="_3a68f7d4-2eca-4463-a23a-c2830823e6a8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24192.5" y="1710.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4970_rc_sa4970" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4970_rc_sa4970"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRIB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRIB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRIB3"/> <bbox w="90.0" h="25.0" x="27236.326" y="16042.5"/> <glyph class="unit of information" id="_a0af32a8-695d-45d0-a8c1-caa056140172"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27271.326" y="16037.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2689_in_sa2689" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IFNB*"/> <bbox w="80.0" h="40.0" x="21866.25" y="5395.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2406_rc_sa2406" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2406_rc_sa2406"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFB2M"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFB2M"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFB2M"/> <bbox w="90.0" h="25.0" x="19969.06" y="16048.5"/> <glyph class="unit of information" id="_62458fc6-3622-4e8a-91ef-0f61cefb5c12"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20004.06" y="16043.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa52_wca1_wca4_sa52" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa52_wca1_wca4_sa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR493"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR493"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR493"/> <bbox w="70.0" h="25.0" x="23531.06" y="21504.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa8_wnc1_wnc2_csa8" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CAIN*:PPP3CB:PPP3R*</p> </body> </html> </notes> <label text="(Calcineurin/CAIN)"/> <bbox w="108.0" h="164.0" x="17582.56" y="18167.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa35_wnc1_wnc2_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="17595.56" y="18266.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa34_wnc1_wnc2_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="17595.56" y="18223.0"/> <glyph class="state variable" id="_7f3e5f95-c8b5-4a99-8c97-415cbadc5d0a"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="17660.56" y="18218.213"/> </glyph> <glyph class="state variable" id="_a5da693d-311c-4a66-9cd0-6c1f51b72ae1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17590.56" y="18238.0"/> </glyph> <glyph class="state variable" id="_7d6cdda6-3514-489c-81af-e931da521d4d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17590.564" y="18258.0"/> </glyph> <glyph class="state variable" id="_f1bd3d78-00a5-485a-a6d0-1c7dca3efcf1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17590.564" y="18218.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa36_wnc1_wnc2_sa36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CABIN1</p> <p>HUGO:CABIN1 HGNC:24187 ENTREZ:23523 UNIPROT:Q9Y6J0 GENECARDS:CABIN1 KEGG:23523 ATLASONC:GC_CABIN1 WIKI:CABIN1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CAIN*"/> <bbox w="80.0" h="40.0" x="17594.56" y="18180.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa348_ca_sa348" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa348_ca_sa348"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRAK1"/> <bbox w="80.0" h="40.0" x="2130.0" y="1490.0"/> <glyph class="state variable" id="_e07151b0-939d-428a-a025-8d414517c77b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2125.0" y="1505.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca1_sa601_wca1_wca1_sa601" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Degradation"/> <bbox w="80.0" h="30.0" x="21881.06" y="20226.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa447_wca1_wca3_sa447" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa447_wca1_wca3_sa447"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR373"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR373"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR373"/> <bbox w="70.0" h="25.0" x="20823.06" y="22583.5"/> </glyph> <glyph class="simple chemical" id="s_id_te_sa484_te_sa484" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytidine 5'-monophosphate</p> <p>CHEBI:17361</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="CMP"/> <bbox w="70.0" h="25.0" x="4232.06" y="22810.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa871_ad_sa871" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:AR2A, CASCADE:TCRMODULE:TCR_SIGNALINGPMID:8383323 The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.PMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.YarilinIL2 expression downstream of CD28IL2 expression is akey result of CD4 cells activation, it needs NFkB, AP1 and NF-AT transcription factorsPMID:16200688; PMID:15282297 Phosphorylation of p38 after TCR stimulation was enhanced in anergic CD4+ T cells over that in naive CD4+ T cells, which showed limited phosphorylation. In contrast, the phosphorylation of ERK and JNK in anergic CD4+ T cells was severely reduced, consistent with the previous report of T cells that were anergized in vitroT-cell proliferation is inhibited by p38 MAPK activity in anergic CD4+ T cells. The production of IL-2 is inhibited by p38 activity in anergic CD4+ T cells, while IL-10 production is p38 dependentPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis PMID:12818166the expression of JunB, a component of the AP-1 family induced after T cell activation, was reduced by 49% after B7S1 costimulation. On the other hand, there was little change in c-Jun expression (11% reduction) with B7S1-Ig treatment. JunB has been previously shown to bind to the IL-2 promoter (Boise et al., 1993 and JunB overexpression resulted in greater IL-2 production (our unpublished data). Since JunB is induced after T cell activation (Jain et al., 1995, the mechanism of which is unknown, B7S1 costimulation may result in inefficient JunB induction. ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:AR2A, CASCADE:TCRMODULE:TCR_SIGNALINGPMID:8383323 The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.PMID:10221648c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.The IL-2Rα promoter contains an NF-κB/Rel regulatory element. Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.YarilinIL2 expression downstream of CD28IL2 expression is akey result of CD4 cells activation, it needs NFkB, AP1 and NF-AT transcription factorsPMID:16200688; PMID:15282297 Phosphorylation of p38 after TCR stimulation was enhanced in anergic CD4+ T cells over that in naive CD4+ T cells, which showed limited phosphorylation. In contrast, the phosphorylation of ERK and JNK in anergic CD4+ T cells was severely reduced, consistent with the previous report of T cells that were anergized in vitroT-cell proliferation is inhibited by p38 MAPK activity in anergic CD4+ T cells. The production of IL-2 is inhibited by p38 activity in anergic CD4+ T cells, while IL-10 production is p38 dependentPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis PMID:12818166the expression of JunB, a component of the AP-1 family induced after T cell activation, was reduced by 49% after B7S1 costimulation. On the other hand, there was little change in c-Jun expression (11% reduction) with B7S1-Ig treatment. JunB has been previously shown to bind to the IL-2 promoter (Boise et al., 1993 and JunB overexpression resulted in greater IL-2 production (our unpublished data). Since JunB is induced after T cell activation (Jain et al., 1995, the mechanism of which is unknown, B7S1 costimulation may result in inefficient JunB induction. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa871_ad_sa871"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8383323"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15282297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL2"/> <bbox w="195.0" h="153.0" x="27518.5" y="8293.75"/> </glyph> <glyph class="complex" id="s_id_rc_csa105_rc_csa105" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ENOS*:FAD:FMN:heme b:tetrahydrobiopterin</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="NOS2"/> <bbox w="199.0" h="117.0" x="28423.06" y="10442.0"/> <glyph class="simple chemical" id="s_id_rc_sa1216_rc_sa1216"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17621</p> <p>KEGGCOMPOUND:C00061</p> </body> </html> </notes> <label text="FMN"/> <bbox w="70.0" h="25.0" x="28548.06" y="10479.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1215_rc_sa1215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16238</p> <p>KEGGCOMPOUND:C00016</p> </body> </html> </notes> <label text="FAD"/> <bbox w="70.0" h="25.0" x="28548.06" y="10449.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2666_rc_sa2666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15372</p> <p>KEGGCOMPOUND: C00272</p> </body> </html> </notes> <label text="tetrahydrobiopterin"/> <bbox w="115.0" h="26.0" x="28503.06" y="10513.638"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1213_rc_sa1213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nitric oxide synthase 1 (neuronal)</p> <p>HUGO:NOS1 HGNC:7872 ENTREZ:4842 UNIPROT:P29475 </p> <p>nitric oxide synthase 2, inducible</p> <p>HUGO:NOS2 HGNC:7873 ENTREZ:4843 UNIPROT:P35228 </p> <p>nitric oxide synthase 3 (endothelial cell)</p> <p>HUGO:NOS3 HGNC:7876 ENTREZ:4846 UNIPROT:P29474</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="ENOS*"/> <bbox w="80.0" h="40.0" x="28433.06" y="10449.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1212_rc_sa1212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:26355</p> <p>KEGGCOMPOUND:C00032</p> </body> </html> </notes> <label text="heme b"/> <bbox w="70.0" h="25.0" x="28428.06" y="10516.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1213_rc_sa1214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nitric oxide synthase 1 (neuronal)</p> <p>HUGO:NOS1 HGNC:7872 ENTREZ:4842 UNIPROT:P29475 </p> <p>nitric oxide synthase 2, inducible</p> <p>HUGO:NOS2 HGNC:7873 ENTREZ:4843 UNIPROT:P35228 </p> <p>nitric oxide synthase 3 (endothelial cell)</p> <p>HUGO:NOS3 HGNC:7876 ENTREZ:4846 UNIPROT:P29474</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="ENOS*"/> <bbox w="80.0" h="40.0" x="28443.06" y="10459.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2732_in_sa2732" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRF9"/> <bbox w="70.0" h="25.0" x="18250.0" y="4532.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4997_rc_sa4997" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4997_rc_sa4997"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HYOU1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HYOU1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRP170*"/> <bbox w="90.0" h="25.0" x="28186.326" y="16041.5"/> <glyph class="unit of information" id="_620ca74e-9c72-4c7a-9b9a-a491b102e957"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28221.326" y="16036.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa56_te_csa56" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AP-1*</p> <p>ALT_NAME:JUN/FOS</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <label text="AP-1*"/> <bbox w="100.0" h="120.0" x="6416.06" y="20967.0"/> <glyph class="macromolecule" id="s_id_te_sa378_te_sa378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FBJ murin osteosarcoma viral oncogene homolog</p> <p>HUGO:FOS</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="FOS"/> <bbox w="80.0" h="40.0" x="6427.06" y="21027.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa377_te_sa377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>jun proto-oncogene</p> <p>HUGO:JUN</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="6427.06" y="20978.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa280_akt1_akt2_sa280" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa280_akt1_akt2_sa280"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <bbox w="80.0" h="40.0" x="13727.561" y="21197.0"/> <glyph class="state variable" id="_39a1feb1-beaf-45bb-9f95-eba25ddafa7b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13720.061" y="21200.508"/> </glyph> <glyph class="state variable" id="_948205a9-4449-4dee-80c5-7822c71ea7ff"> <state value="" variable="T146"/> <bbox w="30.0" h="10.0" x="13752.593" y="21192.0"/> </glyph> <glyph class="state variable" id="_68da02af-2be1-4fd0-bf23-781ded9b477f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13722.561" y="21205.338"/> </glyph> <glyph class="state variable" id="_dabb9e36-8b46-4c9b-a876-9b94f685ac2c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13722.561" y="21231.72"/> </glyph> <glyph class="state variable" id="_828d1f70-849f-4d73-aad2-49317666f97c"> <state value="" variable="T145"/> <bbox w="30.0" h="10.0" x="13713.053" y="21192.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa64_emtc_em_csa64" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIZ1*:SMAD2:SMAD3:SMAD4:SP1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11013220</p> <p>Cooperation and physical interaction of Smad2, Smad3, Smad4 with SP1 at the promoter of CDKN2B (p15INK4B) gene</p> <p>This interaction provides a mechanism underlying the TGFB-induced growth arrest</p> <p>PMID:11283614</p> <p>Miz1: a Myc-interacting Zinc-finger protein that recognizes certain transcriptional initiator elements</p> <p>One of this transcriptional initiator element contains the sequence 5'-CCCACTCTGC corresponding to the p15INK4B transcriptional intiator</p> <p>Physical interaction between Smad proteins and Miz-1:</p> <p>-Immunoprecipitation of endogenous Smad2 and Smad3 followed by anti-Miz western bloting provided evidence for an association</p> <p>-This association was stimulated by addition of TGFB</p> <p>-Interaction was observed between Miz1 and Smad3 and Smad4 but no clear interaction was observed between Miz1 and Smad2</p> <p>-Smad3 and weakly Smad4 can directly and selectively bind to Miz1 through the MH1 domain</p> <p>-Although Sp1-Smad interactions have been reported, Sp1 does not directly bind to Miz1, even in the presence of TGFB.</p> <p>-The Smad-interaction region of Miz1 does not overlap with the Myc-interaction region.</p> <p>-Myc did not inhibit the Smad-Miz1 interaction</p> <p>-Miz1 can bridge Smad proteins and Myc when these proteins coexist.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa64_emtc_em_csa64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11013220"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIZ1/SMAD2/SMAD3/SAMD4/SP1"/> <bbox w="203.0" h="161.0" x="3820.75" y="15828.25"/> <glyph class="macromolecule" id="s_id_emtc_em_sa517_emtc_em_sa517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="3894.25" y="15943.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa519_emtc_em_sa519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9670020</p> <p>Smad2 and Smad3 form homo-oligomers upon phosphorylation by the constitutively active TGFBR1</p> <p>This oligomerization does not require Smad4.</p> <p>PMID:11074002</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="119.0" h="49.0" x="3864.25" y="15832.5"/> <glyph class="state variable" id="_c9edfbe2-823f-4c5a-83c0-393c195dd46b"> <state value="P" variable="S467"/> <bbox w="35.0" h="10.0" x="3965.75" y="15871.941"/> </glyph> <glyph class="state variable" id="_0518dbc6-b10c-408a-814f-d343413b342a"> <state value="P" variable="S465"/> <bbox w="35.0" h="10.0" x="3965.75" y="15859.664"/> </glyph> <glyph class="state variable" id="_31495eba-9723-40f4-b686-63367efe9e74"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="3914.7979" y="15876.5"/> </glyph> <glyph class="state variable" id="_f7ad334b-aaee-43d6-9eb6-bce94d6d5bb3"> <state value="P" variable="S464"/> <bbox w="35.0" h="10.0" x="3965.75" y="15850.036"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa518_emtc_em_sa518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD3"/> <bbox w="120.0" h="48.0" x="3864.75" y="15890.25"/> <glyph class="state variable" id="_7b25e77e-8142-41d5-9da6-60171c71b86e"> <state value="" variable="S213"/> <bbox w="30.0" h="10.0" x="3849.75" y="15888.133"/> </glyph> <glyph class="state variable" id="_8d2c9f5d-f9a8-4f69-817c-ec54982ce397"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="3913.4065" y="15933.25"/> </glyph> <glyph class="state variable" id="_10d3f929-f5fd-47fc-ab7f-ec56f0b9984c"> <state value="P" variable="S422"/> <bbox w="35.0" h="10.0" x="3967.25" y="15906.112"/> </glyph> <glyph class="state variable" id="_10094b70-12fc-4de8-ae5b-7d529b9f24a8"> <state value="P" variable="S425"/> <bbox w="35.0" h="10.0" x="3967.25" y="15928.784"/> </glyph> <glyph class="state variable" id="_1c72783b-53b0-4e4a-b5bd-192c468708a6"> <state value="" variable="T179"/> <bbox w="30.0" h="10.0" x="3849.75" y="15928.595"/> </glyph> <glyph class="state variable" id="_1ac35b9e-af82-40c7-9d19-b5f2138df9bc"> <state value="" variable="S204"/> <bbox w="30.0" h="10.0" x="3849.75" y="15912.838"/> </glyph> <glyph class="state variable" id="_4da8ee92-b5c4-4253-8b78-1ebfdf35f2e5"> <state value="" variable="S208"/> <bbox w="30.0" h="10.0" x="3849.75" y="15901.784"/> </glyph> <glyph class="state variable" id="_b6b82f30-2a61-4c68-9c09-42e452d6038d"> <state value="P" variable="S423"/> <bbox w="35.0" h="10.0" x="3967.25" y="15915.717"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa521_emtc_em_sa521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger and BTB domain containing 17</p> <p>HUGO:ZBTB17, HGNC:12936, ENTREZ:7709, GENECARDS:GC01M016268, UNIPROT:Q13105    </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIZ1*"/> <bbox w="40.0" h="20.0" x="3957.75" y="15944.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa520_emtc_em_sa520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sp1 transcription factor</p> <p>HUGO:SP1, HGNC:11205, ENTREZ:6667, GENECARDS:GC12P053801, UNIPROT:P08047</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11013220</p> <p>Cooperation and physical interaction of Smad2, Smad3, Smad4 with SP1 at the promoter of CDKN2B (p15INK4B) gene</p> <p>This interaction provides a mechanism underlying the TGFB-induced growth arrest</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SP1"/> <bbox w="40.0" h="20.0" x="3847.25" y="15942.0"/> <glyph class="state variable" id="_b95ae750-c6cb-4f0c-9b92-0f8e9faf9f51"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3842.25" y="15947.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa301_rc_csa301" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FKBP8:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1:FKBP8"/> <bbox w="179.0" h="119.0" x="26764.56" y="11654.5"/> <glyph class="macromolecule" id="s_id_rc_sa2579_rc_sa2579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FK506 binding protein 8, 38kDa</p> <p>HUGO:FKBP8 HGNC:3724 ENTREZ:23770 UNIPROT:Q14318</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="FKBP8"/> <bbox w="80.0" h="40.0" x="26857.31" y="11660.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2576_rc_sa2576"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="26771.56" y="11702.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2578_rc_sa2578"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="26857.56" y="11704.5"/> <glyph class="state variable" id="_5f0526d7-3193-4eb9-b0be-7f596f379dde"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="26873.492" 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDHC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SDHC"/> <bbox w="70.0" h="25.0" x="19542.06" y="16279.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa1_ca_csa1" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:WWTR1:YAP1</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PMID:25502501</p> <p>yes-associated protein (YAP) (homolog of drosophila Yki) and transcriptional coactivator with PDZ-binding motif (TAZ) (also known as Wwtr1), transcriptional effectors of the Hippo pathway, as key matrix stiffness-regulated coordinators of fibroblast activation and matrix synthesis.</p> <p>Knockdown of YAP and TAZ together in vitro attenuates key fibroblast functions, including matrix synthesis, contraction, and proliferation, and does so exclusively on pathologically stiff matrices. 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa172_emtc_em_csa172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16288291"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN1/DVL1/FRAT1"/> <bbox w="125.0" h="63.0" x="1446.5" y="15987.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa997_emtc_em_sa997"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1, HGNC:903, ENTREZ:8312, UNIPROT:O15169 , GENECARDS:GC16M000338</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding (right panel), DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="40.0" h="20.0" x="1525.5" y="16011.5"/> <glyph class="state variable" id="_821579aa-0215-498f-85d9-603eb9a24db2"> <state value="" 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x="1484.5" y="16010.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa43_akt1_akt2_csa43" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO1:MIR96</p> <p>References:</p> <p>s_akt2_re133:(MAP:survival) PMID:19574223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa43_akt1_akt2_csa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1:MIR96"/> <bbox w="100.0" h="120.0" x="12646.061" y="21802.0"/> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa257_akt1_akt2_sa257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15668399</p> <p>PMID:20673124</p> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1</p> <p>Map modules:</p> <p>References:</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="Single Stranded Flap"/> <bbox w="166.0" h="148.0" x="3662.06" y="22736.0"/> <glyph class="nucleic acid feature" id="s_id_te_sa478_te_sa478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Modules_begin:MODULE:REPLICATION ----- content merged by Celldesigner to SBGN-ML translation ------ Modules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="DNA Flap"/> <bbox w="70.0" h="25.0" x="3712.06" y="22836.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa468_te_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Modules_begin:MODULE:REPLICATION ----- content merged by Celldesigner to SBGN-ML translation ------ Modules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="Okazaki Fragments"/> <bbox w="131.0" h="33.0" x="3675.778" y="22756.111"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa469_te_sa469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Modules_begin:MODULE:REPLICATION ----- content merged by Celldesigner to SBGN-ML translation ------ Modules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="RNA primer"/> <bbox w="90.0" h="25.0" x="3697.778" y="22803.111"/> <glyph class="unit of information" id="_dcedbc25-862e-46ea-9432-1623ae65af6b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3732.778" y="22798.111"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1116_ad_sa1116" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:TCRMODULE:TCR_SIGNALINGPMID:16200688; PMID:15282297 Phosphorylation of p38 after TCR stimulation was enhanced in anergic CD4+ T cells over that in naive CD4+ T cells, which showed limited phosphorylation. In contrast, the phosphorylation of ERK and JNK in anergic CD4+ T cells was severely reduced, consistent with the previous report of T cells that were anergized in vitroT-cell proliferation is inhibited by p38 MAPK activity in anergic CD4+ T cells. The production of IL-2 is inhibited by p38 activity in anergic CD4+ T cells, while IL-10 production is p38 dependent ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:TCRMODULE:TCR_SIGNALINGPMID:16200688; PMID:15282297 Phosphorylation of p38 after TCR stimulation was enhanced in anergic CD4+ T cells over that in naive CD4+ T cells, which showed limited phosphorylation. In contrast, the phosphorylation of ERK and JNK in anergic CD4+ T cells was severely reduced, consistent with the previous report of T cells that were anergized in vitroT-cell proliferation is inhibited by p38 MAPK activity in anergic CD4+ T cells. 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<p>NAME:ATR:ATRIP:CHEK1:CLSPN:RPA1:RPA2:RPA3:TIM1*:TIPIN</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>Stalled replication forks or double strand breaks in the S-phase re-orient activity of TIM1*/TIPIN from the DNA replication to DNA repair. </p> <p>TIM1*/TIPIN as part of this complex inhibits teplication and stablises stalled replication forks till DNA damage is repaired</p> <p>PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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y="12799.356"/> <glyph class="macromolecule" id="s_id_ce_sa1368_ce_sa1368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="12763.515" y="12849.466"/> <glyph class="state variable" id="_a06936ee-03b8-46bb-a685-1dcd222bee06"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12758.515" y="12864.466"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1366_ce_sa1366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claspin</p> <p>HUGO:CLSPN, HGNC:19715, ENTREZ:63967, UNIPROT:Q9HAW4</p> <p>PMID:17303408, PMID:16880517, PMID:16934469</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:19793801, PMID:17582221, PMID:18677104, PMID:17384638, PMID:12766152</p> </body> </html> </notes> <label text="CLSPN"/> <bbox w="80.0" h="40.0" x="12842.6455" y="12808.956"/> <glyph class="state variable" id="_2920eb6f-d27e-4f5e-8b8e-500d88c2a8f8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12915.1455" y="12815.672"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1369_ce_sa1369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="12841.515" y="12849.466"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1370_ce_sa1370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATR interacting protein</p> <p>HUGO:ATRIP, HGNC:33499, ENTREZ:84126, UNIPROT:Q9HA30</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:15798197, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="ATRIP"/> <bbox w="80.0" h="40.0" x="12687.584" y="12892.674"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1364_ce_sa1364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>timeless homolog (Drosophila)</p> <p>HUGO:TIMELESS, HGNC:11813, ENTREZ:8914, UNIPROT:Q9UNS1</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17102137, PMID:17116885, PMID:12875843, PMID:17296725, PMID:15798197</p> <p>Role of TIM/TIPIN complex in DNA replication</p> <p>PMID:17141802, PMID:12875843</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="TIM1*"/> <bbox w="80.0" h="40.0" x="12681.521" y="12808.883"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1365_ce_sa1365"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TIMELESS interacting protein</p> <p>HUGO:TIPIN, HGNC:30750, ENTREZ:54962, UNIPROT:Q9BVW5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17102137, PMID:17116885, PMID:12875843, PMID:17296725</p> <p>Role of TIM/TIPIN complex in DNA replication</p> <p>PMID:17141802, PMID:12875843</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="TIPIN"/> <bbox w="80.0" h="40.0" x="12761.521" y="12809.883"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1341_ce_sa1341"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHK1 checkpoint homolog (S. pombe)</p> <p>HUGO:CHEK1, HGNC:1925, ENTREZ:1111, UNIPROT:O14757</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="CHEK1"/> <bbox w="80.0" h="40.0" x="12850.395" y="12894.518"/> <glyph class="state variable" id="_41209787-6c79-44fe-aa2a-9e2dc46bcb8c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12842.895" y="12909.518"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1367_ce_sa1367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="12684.515" y="12852.466"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1371_ce_sa1371"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia and Rad3 related</p> <p>HUGO:ATR, HGNC:882, ENTREZ:545, UNIPROT:Q13535</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="ATR"/> <bbox w="80.0" h="40.0" x="12770.584" y="12892.674"/> <glyph class="state variable" id="_85eb31c7-2ed7-4d56-9951-7eaaeca996d9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12763.084" y="12907.674"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa875_rc_sa875" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa875_rc_sa875"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ENO1"/> <bbox w="80.0" h="40.0" x="19096.777" y="10911.898"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa726_ca_sa726" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa726_ca_sa726"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK2"/> <clone/> <bbox w="80.0" h="40.0" x="940.0" y="2450.0"/> <glyph class="state variable" id="_77a7e39a-56b8-43c1-b143-d0653ebd61d5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="935.0" y="2465.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa726_ca_sa1168" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa726_ca_sa1168"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK2"/> <clone/> <bbox w="80.0" h="40.0" x="2833.5962" y="925.96155"/> <glyph class="state variable" id="_db904310-7857-4f50-a444-39f911b81a06"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2828.5962" y="940.96155"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa220_rc_csa220" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2-XL*:BMF</p> </body> </html> </notes> <label text="BCL2L1:BMF"/> <bbox w="104.0" h="128.0" x="22465.31" y="13291.0"/> <glyph class="macromolecule" id="s_id_rc_sa1684_rc_sa1684"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="22474.56" y="13305.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1687_rc_sa1687"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bcl2 modifying factor</p> <p>HUGO:BMF HGNC:24132 ENTREZ:90427 UNIPROT:Q96LC9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="BMF"/> <bbox w="80.0" h="40.0" x="22475.31" y="13350.0"/> <glyph class="state variable" id="_ad45fb95-32e3-448f-9e2c-14c14a0250c9"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22524.379" y="13345.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa44_wnc1_wnc1_csa44" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRR*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re111(MAP:survival):</p> <p>Rspo is required for clathrin-mediated endocytosis</p> <p>PMID:21397842</p> <p>It has been shown that Dvl polymers are not associated with vesicles, therefore endocytosis of the complex is likely to be after Dvl polymerisation.</p> <p>PMID:16263762</p> <p>s_wnc1_re112(MAP:survival):</p> <p>Clathrin-mediated endocytosis</p> <p>PMID:20947020</p> <p>PMID:19910923</p> <p>PCP MODULE splits in Rac1 branch when Dvl is not hyper-phosphorylated</p> <p>PMID:18953287</p> <p>s_wnc1_re114(MAP:survival):</p> <p>RhoA branch of the PCP -MODULE when Dvl is hyper-phosphorylated by CK_epsilon</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa44_wnc1_wnc1_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16263762"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20947020"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19910923"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18953287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="397.0" h="214.0" x="16138.561" y="20028.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa309_wnc1_wnc1_sa309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16159.561" y="20052.0"/> <glyph class="state variable" id="_ac9f3842-61b1-43fc-b014-17131025cdab"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16154.564" y="20047.0"/> </glyph> <glyph class="state variable" id="_faa06a7f-15fe-4e95-9830-326d6fe8f357"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16234.561" y="20047.0"/> </glyph> <glyph class="state variable" id="_d99959ef-ca47-4196-a9b3-88e14d8df406"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16234.561" y="20072.0"/> </glyph> <glyph class="state variable" id="_abe3c99e-2c06-479a-8475-a8dad15f3afc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16154.561" y="20072.0"/> </glyph> <glyph class="unit of information" id="_43c5528f-107c-49a6-a906-843c430c9c9d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16177.061" y="20047.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa293_wnc1_wnc1_sa293"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16242.561" y="20053.0"/> <glyph class="unit of information" id="_65aabc62-1511-4503-a9a0-b00e0eb52782"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16260.061" y="20048.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa578_wnc1_wnc1_sa578"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16321.311" y="20107.5"/> <glyph class="state variable" id="_d83e4a56-c996-4759-9421-ff1e398614e1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16316.314" y="20142.5"/> </glyph> <glyph class="state variable" id="_1856e21c-74e8-475e-8453-a4046e82dec6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16393.443" y="20102.5"/> </glyph> <glyph class="state variable" id="_88af8d8e-7f9e-4a70-aa0e-57e629068bc8"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16385.691" y="20142.5"/> </glyph> <glyph class="state variable" id="_fc6bf7d2-c2a1-484f-b88b-709f29bcff31"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16316.314" y="20102.5"/> </glyph> <glyph class="state variable" id="_7cb52f4c-ce8c-47f6-aa63-de5aa29a61da"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16396.31" y="20102.5"/> </glyph> <glyph class="state variable" id="_e407c52b-0f38-43f8-9424-f9c55772f994"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16396.31" y="20142.5"/> </glyph> <glyph class="state variable" id="_ef4a1ee2-b33a-4486-81cf-4e4250c125d5"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16306.311" y="20142.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa301_wnc1_wnc1_sa301"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="16234.561" y="20153.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa268_wnc1_wnc1_sa268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="16328.061" y="20053.0"/> <glyph class="unit of information" id="_c2314b7a-b758-4fd9-bbd7-a0ca16afe5dc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16345.561" y="20048.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa593_wnc1_wnc1_sa593"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="16410.56" y="20153.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa269_wnc1_wnc1_sa269"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="16409.06" y="20059.0"/> <glyph class="state variable" id="_d615a6bc-501c-4b0d-8f74-1d534140a289"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="16474.06" y="20054.266"/> </glyph> <glyph class="state variable" id="_d67ffa0c-a3ae-4dbf-8d29-949caa9b897c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16444.06" y="20104.0"/> </glyph> <glyph class="state variable" id="_27e810b6-7a55-4881-9065-0fab56b0f17c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16404.064" y="20054.0"/> </glyph> <glyph class="state variable" id="_a2db31e9-d65a-439e-8ef1-92d5744ec188"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16484.06" y="20104.0"/> </glyph> <glyph class="unit of information" id="_46d72c0e-5282-4543-adfa-cf07cbb7007c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16426.56" y="20054.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa313_wnc1_wnc1_sa313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16146.561" y="20106.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa617_wnc1_wnc1_sa617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="16410.56" y="20109.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa270_wnc1_wnc1_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="16324.061" y="20033.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa578_wnc1_wnc1_sa579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16321.311" y="20154.5"/> <glyph class="state variable" id="_11a70b31-b02c-4664-bbd1-5eb071eaa989"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16316.314" y="20189.5"/> </glyph> <glyph class="state variable" id="_3c910a23-8ca8-411a-a20d-a6560b7ceea9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16393.443" y="20149.5"/> </glyph> <glyph class="state variable" id="_e4251afc-ba0f-46a6-be7e-bb2621806fab"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16385.691" y="20189.5"/> </glyph> <glyph class="state variable" id="_c4ce884b-7b7e-4598-a2a2-0141b5171329"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16316.314" y="20149.5"/> </glyph> <glyph class="state variable" id="_afae4410-fc15-4f2a-aa21-a4be35519fed"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16396.31" y="20149.5"/> </glyph> <glyph class="state variable" id="_7ff9723a-4701-4f5a-bf4c-f5459ccbd6ee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16396.31" y="20189.5"/> </glyph> <glyph class="state variable" id="_97d9b442-febd-4f1b-81e2-8a24b6156151"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16306.311" y="20189.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa287_wnc1_wnc1_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="16364.561" y="20039.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa271_wnc1_wnc1_sa271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16229.561" y="20107.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa407_wnc1_wnc1_sa407"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16147.561" y="20156.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1170_emtc_em_sa1170" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1170_emtc_em_sa1170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJD2"/> <bbox w="34.0" h="16.0" x="1144.0" y="18404.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa245_ce_csa245" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HUS1:RAD1:RAD9*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:BER</p> <p>References:</p> <p>9-1-1 complex as part of S-phase checkpoint, stops replication</p> <p>PMID:15459660, PMID:17303408, PMID:19793801, PMID:17582221, PMID:18677104 </p> <p>9-1-1 complex activates Lig1 and BER </p> <p>PMID:15871698, PMID:16731526 </p> <p>9-1-1 complex activates FEN and BER </p> <p>PMID:15871698, PMID:16216273</p> <p>9-1-1 complex activates TDG glycosylase and activates BER</p> <p>PMID:17855402</p> <p>9-1-1 complex activates APE and BER </p> <p>PMID:17426133</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa245_ce_csa245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17582221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18677104"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15871698"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16731526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15871698"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16216273"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17855402"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17426133"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HUS1/RAD1/RAD9*"/> <bbox w="104.0" h="173.0" x="10486.473" y="15998.356"/> <glyph class="macromolecule" id="s_id_ce_sa1302_ce_sa1302"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD1 homolog (S. pombe)</p> <p>HUGO:RAD1, HGNC:9806, ENTREZ:5810, UNIPROT:O60671</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="RAD1"/> <bbox w="80.0" h="40.0" x="10499.199" y="16015.382"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1316_ce_sa1316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD9 homolog A (S. pombe)</p> <p>HUGO:RAD9A, HGNC:9827, ENTREZ:5883, UNIPROT:Q99638</p> <p>RAD9 homolog B (S. pombe)</p> <p>HUGO:RAD9B, HGNC:21700, ENTREZ:144715, UNIPROT:Q6WBX8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:8943031, PMID:17493829</p> </body> </html> </notes> <label text="RAD9*"/> <bbox w="80.0" h="40.0" x="10497.804" y="16060.72"/> <glyph class="state variable" id="_da6434e7-872e-4533-996e-3038fdd2efe2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10530.304" y="16055.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1300_ce_sa1300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUS1 checkpoint homolog (S. pombe)</p> <p>HUGO:HUS1, HGNC:5309, ENTREZ:3364, UNIPROT:O60921</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:9524127, PMID:17493829</p> </body> </html> </notes> <label text="HUS1"/> <bbox w="80.0" h="40.0" x="10497.199" y="16105.382"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa664_ca_sa664" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:INTEGRINPMID:17600088 IIntegrin alpha 11 regulates IGF2 expression in fibroblasts to enhance tumorigenicity of human non-small-cell lung cancer cells. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:INTEGRINPMID:17600088 IIntegrin alpha 11 regulates IGF2 expression in fibroblasts to enhance tumorigenicity of human non-small-cell lung cancer cells. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa664_ca_sa664"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17600088"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17600088"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF2"/> <bbox w="90.0" h="25.0" x="3965.0" y="4342.5"/> <glyph class="unit of information" id="_90daf8d7-2e5c-43e8-8642-b0dc8254774f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4000.0" y="4337.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa55_ce_csa55" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BLM:FAAP100*:FAAP20*:FAAP24*:FANCA:FANCB:FANCC:FANCE:FANCF:FANCG:FANCL:FANCM:HES1:RPA1:RPA2:RPA3:TOP3A</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> </body> </html> </notes> <label text="BLM/FAAP20*/FAAP24*/FAAP100*/FANCA/FANCB/FANCC/FANCE/FANCF/FANCG/FANCL/FANCM/HES1/RPA1/RPA2/RPA3/TOP3A"/> <bbox w="439.0" h="197.0" x="15752.473" y="16990.355"/> <glyph class="macromolecule" id="s_id_ce_sa1260_ce_sa1260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group B</p> <p>HUGO:FANCB, HGNC:3583, ENTREZ:2187, UNIPROT:Q8NB91</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCB"/> <bbox w="80.0" h="40.0" x="15922.326" y="17085.525"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1262_ce_sa1262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>some 17 open reading frame 70, FAAP100</p> <p>HUGO:C17orf70, HGNC:26171, ENTREZ:80233, UNIPROT:Q0VG06</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP100*"/> <bbox w="80.0" h="40.0" x="16011.326" y="17086.525"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1263_ce_sa1263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 19 open reading frame 40, "Fanconi anemia-associated protein, 24 kDa"</p> <p>HUGO:C19orf40, HGNC:28467, ENTREZ:91442, UNIPROT:Q9BTP7</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex</p> <p>PMID:19622404</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP24*"/> <bbox w="80.0" h="40.0" x="15922.803" y="16999.006"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1261_ce_sa1261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group L</p> <p>HUGO:FANCL, HGNC:20748, ENTREZ:55120, UNIPROT:Q9NW38</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>The enzyme possesses E3 ubiquitin ligase activity, the active part in the Fanconi core complex</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCL"/> <bbox w="80.0" h="40.0" x="15924.326" y="17125.525"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1266_ce_sa1266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group G</p> <p>HUGO:FANCG, HGNC:3588, UNIPROT:O15287</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCG"/> <bbox w="80.0" h="40.0" x="15837.973" y="17042.055"/> <glyph class="state variable" id="_cdb5cb02-8ead-4de7-bbed-ece17d0fee42"> <state value="P" variable="S7"/> <bbox w="25.0" h="10.0" x="15849.067" y="17037.055"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1265_ce_sa1265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group A</p> <p>HUGO:FANCA, HGNC:3582, ENTREZ:2175, UNIPROT:Q9UEL9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCA"/> <bbox w="80.0" h="40.0" x="15837.401" y="16999.172"/> <glyph class="state variable" id="_3b42632a-60fe-4784-afe9-b30e22063c40"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15909.901" y="17014.172"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa606_ce_sa606"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="16098.16" y="17045.08"/> <glyph class="state variable" id="_116d0ae3-bc32-4e95-a251-0588f892a14c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16093.16" y="17060.08"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa605_ce_sa605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="16098.16" y="17003.08"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1257_ce_sa1257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group C</p> <p>HUGO:FANCC, HGNC:3584, ENTREZ:2176, UNIPROT:Q00597</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCC"/> <bbox w="80.0" h="40.0" x="15839.326" y="17084.303"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1256_ce_sa1256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hairy and enhancer of split 1, (Drosophila)</p> <p>HUGO:HES1, HGNC:5192, ENTREZ:3280, UNIPROT:Q14469</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:8020957, PMID:12535671, PMID:12972610, PMID:18550849, PMID:20832754</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="HES1"/> <bbox w="80.0" h="40.0" x="16011.677" y="17046.678"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa603_ce_sa603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>topoisomerase (DNA) III alpha</p> <p>HUGO:TOP3A, HGNC:11992, ENTREZ:7156, UNIPROT:Q13472</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="TOP3A"/> <bbox w="80.0" h="40.0" x="16096.329" y="17128.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1264_ce_sa1264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group M</p> <p>HUGO:FANCM, HGNC:23168, ENTREZ:57697, UNIPROT:Q8IYD8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:FANCONI, MODULE:NER, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:23444773</p> <p>FANCM/FAAP24 is a sensor of ICL and recruiter of Fanconi core complex</p> <p>PMID:19622404</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>Link between Fanconi and NER</p> <p>PMID:22615860</p> <p>Fanconi and cross-linking agents</p> <p>PMID:21948210</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCM"/> <bbox w="80.0" h="40.0" x="15922.803" y="17042.006"/> <glyph class="state variable" id="_6b611ac9-70a9-4ad4-b1ce-58ce0c01abab"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15957.803" y="17037.006"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1255_ce_sa1255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bloom syndrome, RecQ helicase-like</p> <p>HUGO:BLM, HGNC:1058, ENTREZ:641, UNIPROT:P54132</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>For HR pathway, PMID:22657828 </p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> <p>BLM in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>BLM inhibits A_NHEJ (alt_NHEJ):</p> <p>PMID:24089143</p> <p>PMID:24095737</p> </body> </html> </notes> <label text="BLM"/> <bbox w="80.0" h="40.0" x="16013.462" y="17003.178"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1258_ce_sa1258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group F</p> <p>HUGO:FANCF, HGNC:3587, ENTREZ:2188, UNIPROT:Q9NPI8</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCF"/> <bbox w="80.0" h="40.0" x="15838.326" y="17124.303"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1514_ce_sa1514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 1 open reading frame 86 </p> <p>HUGO:C1orf86, HGNC:26428, ENTREZ:199990, UNIPROT:Q6NZ36</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR , MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FAAP20*"/> <bbox w="80.0" h="40.0" x="15754.264" y="17000.105"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa607_ce_sa607"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="16098.16" y="17085.08"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1259_ce_sa1259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group E</p> <p>HUGO:FANCE, HGNC:3586, ENTREZ:2178, UNIPROT:Q9HB96</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCE"/> <bbox w="80.0" h="40.0" x="15762.629" y="17044.738"/> <glyph class="state variable" id="_46e2229d-23b0-4a3b-84e1-cb7f78d25616"> <state value="P" variable="S376"/> <bbox w="35.0" h="10.0" x="15745.129" y="17051.244"/> </glyph> <glyph class="state variable" id="_339048f6-39f0-4b47-890a-50e9cdb65e87"> <state value="P" variable="T346"/> <bbox w="35.0" h="10.0" x="15745.129" y="17059.707"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa25_wca1_wca2_sa25" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa25_wca1_wca2_sa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNKS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNKS1*"/> <clone/> <bbox w="80.0" h="40.0" x="24556.56" y="18512.0"/> <glyph class="state variable" id="_8caaeb95-f0a8-4d67-a333-f4b0969a136f"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="24549.064" y="18507.0"/> </glyph> <glyph class="state variable" id="_459e1448-9dc0-4342-8d39-5f4398b8377b"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="24629.06" y="18507.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa25_wca1_wca2_sa29" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa25_wca1_wca2_sa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNKS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNKS1*"/> <clone/> <bbox w="80.0" h="40.0" x="24709.56" y="18512.0"/> <glyph class="state variable" id="_e522f196-1725-429b-a841-79984b76ef85"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="24702.064" y="18507.0"/> </glyph> <glyph class="state variable" id="_9d9bedda-1c27-4991-b65e-a7f2fbb40f4d"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="24782.06" y="18507.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa135_mo_sa135" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0myocyte enhancer factor 2C ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0myocyte enhancer factor 2C </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa135_mo_sa135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MEF2C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEF2C"/> <bbox w="70.0" h="25.0" x="5321.0" y="10685.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa42_wca1_wca1_csa42" compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:AXIN*:CK1_alpha_*:CK1_gamma_*:DVL*:FZD*:GSK3*:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> <p>s_wca1_re43(MAP:survival):</p> <p>PMID:21606194 PMID:21285348 </p> <p>DVL is again phosphorylated to form PS-DVL. This isoform of DVL leads to depolimerisation of DVL and even distribution in the cell. Which CK1 isoform catalyses this reaction is unknown</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa42_wca1_wca1_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285348"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="510.0" h="301.0" x="21701.56" y="19422.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa373_wca1_wca1_sa379"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22112.06" y="19613.0"/> <glyph class="state variable" id="_e13a038a-dcdc-45af-b5b3-3184151cf997"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22105.053" y="19608.0"/> </glyph> <glyph class="state variable" id="_c849cc49-732b-4ae3-9df8-62fdc52d2ce9"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22184.56" y="19608.213"/> </glyph> <glyph class="state variable" id="_f1130364-cc22-4740-8403-6a8bbf7d7dc2"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22099.56" y="19647.72"/> </glyph> <glyph class="state variable" id="_445c0cca-5e92-4efd-90a9-c31b2d746c4d"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22177.06" y="19608.213"/> </glyph> <glyph class="state variable" id="_246b3a5c-1188-4d0c-a2b7-515bf8642171"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22176.441" y="19648.0"/> </glyph> <glyph class="state variable" id="_896145d1-5c20-4f84-b2e8-24ba0405a7ba"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22139.465" y="19648.0"/> </glyph> <glyph class="state variable" id="_d60000c5-62b3-4058-af32-b0ea9cc3482a"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="22136.965" y="19648.0"/> </glyph> <glyph class="state variable" id="_27643951-953f-4727-87e8-b2f787c001eb"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="22097.06" y="19647.72"/> </glyph> <glyph class="state variable" id="_17268401-73c5-468b-8698-3aaef6984c78"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="22139.592" y="19608.0"/> </glyph> <glyph class="state variable" id="_9b004f33-6af3-483d-a4f3-b2b8b0f00f13"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="22100.053" y="19608.0"/> </glyph> <glyph class="state variable" id="_563c162b-14eb-43a2-abaf-c318b80f9623"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22178.941" y="19648.0"/> </glyph> <glyph class="state variable" id="_44972bb0-82f2-4cd0-bd9b-81b09f8f7dd2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22107.064" y="19608.0"/> </glyph> <glyph class="state variable" id="_64915a60-b875-42d7-a199-1180c4e60292"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22187.06" y="19608.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa424_wca1_wca1_sa425"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21855.56" y="19508.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa369_wca1_wca1_sa369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21861.06" y="19611.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa362_wca1_wca1_sa367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21857.56" y="19663.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa597_wca1_wca1_sa597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22074.56" y="19432.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa362_wca1_wca1_sa362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="22028.56" y="19665.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa570_wca1_wca1_sa569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22075.56" y="19468.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa371_wca1_wca1_sa371"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21855.56" y="19567.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa359_wca1_wca1_sa359"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21773.06" y="19509.0"/> <glyph class="unit of information" id="_cab889fa-dfc0-444b-bad4-eac77ec8e77f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21790.56" y="19504.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa662_wca1_wca1_sa662"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21715.242" y="19482.818"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa597_wca1_wca1_sa596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21856.06" y="19427.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa424_wca1_wca1_sa424"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22069.56" y="19512.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa369_wca1_wca1_sa376"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="22031.06" y="19613.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa374_wca1_wca1_sa374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21943.56" y="19656.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa381_wca1_wca1_sa381"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21989.06" y="19467.0"/> <glyph class="state variable" id="_3baaef81-aab9-4340-9696-41edd634e39a"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21969.06" y="19486.96"/> </glyph> <glyph class="state variable" id="_b0046256-b5c8-4759-bb10-2d53cea8675a"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22049.06" y="19462.266"/> </glyph> <glyph class="state variable" id="_afc26b57-69fe-465c-9a27-236addd4c959"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22048.441" y="19512.0"/> </glyph> <glyph class="state variable" id="_ab7bb23b-336c-4b64-891c-4ab4c7eb938b"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="22008.164" y="19512.0"/> </glyph> <glyph class="state variable" id="_c5daee6b-96d5-4460-a202-6b022382a30d"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="21969.3" y="19512.0"/> </glyph> <glyph class="state variable" id="_bbbcede5-440a-4142-97b1-eabea96c8f30"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22009.092" y="19462.0"/> </glyph> <glyph class="unit of information" id="_b0063ad8-1959-47f7-959d-712ad3007ed3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22006.56" y="19462.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa371_wca1_wca1_sa494"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22071.31" y="19569.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa372_wca1_wca1_sa372"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21896.56" y="19567.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa374_wca1_wca1_sa370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21775.56" y="19659.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa366_wca1_wca1_sa366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21989.81" y="19559.0"/> <glyph class="state variable" id="_f37ca5b3-96ca-45c5-913d-6830c58f29c1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22062.31" y="19554.0"/> </glyph> <glyph class="state variable" id="_66fda503-1a2e-456d-9e8b-2120d83070f3"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21972.31" y="19593.72"/> </glyph> <glyph class="state variable" id="_25529a8a-e262-49b7-bb29-056b3c74b043"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21984.814" y="19554.0"/> </glyph> <glyph class="state variable" id="_290ea96a-fc09-4f6d-a638-8210e0b1a9be"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22051.691" y="19594.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa366_wca1_wca1_sa361"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21773.81" y="19557.0"/> <glyph class="state variable" id="_8bfcc852-cc88-4b48-a3c3-0cfe8207728a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21846.31" y="19552.0"/> </glyph> <glyph class="state variable" id="_1948ddf3-eb39-4e78-9321-26d3b0d3565a"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21756.31" y="19591.72"/> </glyph> <glyph class="state variable" id="_952ecb10-e7ee-4e79-85a1-7aa05f180f14"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21768.814" y="19552.0"/> </glyph> <glyph class="state variable" id="_ba07e150-33bf-44c3-b954-12f91107f325"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21835.691" y="19592.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa613_wca1_wca1_sa612"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22015.06" y="19452.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa359_wca1_wca1_sa364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21989.06" y="19511.0"/> <glyph class="unit of information" id="_03828f2b-765e-4422-900c-67978d2ac1c5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22006.56" y="19506.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa570_wca1_wca1_sa570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21857.56" y="19468.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa373_wca1_wca1_sa368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21776.06" y="19611.5"/> <glyph class="state variable" id="_0a42f911-caa2-4957-ab02-449adf00a1d7"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21769.053" y="19606.5"/> </glyph> <glyph class="state variable" id="_165b40e4-c9ae-4ad5-8a47-116fcd62d6a7"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21848.56" y="19606.713"/> </glyph> <glyph class="state variable" id="_61ff2067-3e65-475f-895d-28de74870903"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21763.56" y="19646.22"/> </glyph> <glyph class="state variable" id="_8c76f5db-2bcc-455d-8f3d-612a5cf6259a"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21841.06" y="19606.713"/> </glyph> <glyph class="state variable" id="_4dbb7768-3ab7-4b9e-8eea-20599a46f193"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21840.441" y="19646.5"/> </glyph> <glyph class="state variable" id="_c0089d76-6db2-42cc-addf-344323f90520"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21803.465" y="19646.5"/> </glyph> <glyph class="state variable" id="_8ece51c0-a7e8-4c10-bad8-1dd1dccb459f"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21800.965" y="19646.5"/> </glyph> <glyph class="state variable" id="_a8fc0510-7e24-4eb4-98a3-99fcf9cb7bb1"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21761.06" y="19646.22"/> </glyph> <glyph class="state variable" id="_129f2e8e-9e30-46ec-911f-0fe2b98e6e03"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21803.592" y="19606.5"/> </glyph> <glyph class="state variable" id="_f14254a5-729f-44e4-8736-dac3f7c9d02c"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21764.053" y="19606.5"/> </glyph> <glyph class="state variable" id="_c62bafed-c07a-46c0-a518-c47455506667"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21842.941" y="19646.5"/> </glyph> <glyph class="state variable" id="_1994a5ae-060e-44dc-b871-f58b3cc8a9f3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21771.064" y="19606.5"/> </glyph> <glyph class="state variable" id="_e4cedcec-ed05-43e0-8b26-7b59539d319b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21851.06" y="19606.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa373_wca1_wca1_sa373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21947.06" y="19613.0"/> <glyph class="state variable" id="_dbf8c33e-7eaa-41a0-8b4b-4118db2296c6"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21940.053" y="19608.0"/> </glyph> <glyph class="state variable" id="_23c38b0b-982b-4305-8e2b-0e105847be34"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22019.56" y="19608.213"/> </glyph> <glyph class="state variable" id="_d347caaf-9afb-4799-9f68-4a42b32b0d4c"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21934.56" y="19647.72"/> </glyph> <glyph class="state variable" id="_887bee56-9c44-420b-a339-43d62d90ebba"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22012.06" y="19608.213"/> </glyph> <glyph class="state variable" id="_a81dcb18-c585-4a3e-b29f-f974281a73bd"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22011.441" y="19648.0"/> </glyph> <glyph class="state variable" id="_5f88da09-60c9-4d3a-8820-2cb65217823d"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21974.465" y="19648.0"/> </glyph> <glyph class="state variable" id="_8b1e3678-b5bf-45fa-9227-49b13b60df2a"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21971.965" y="19648.0"/> </glyph> <glyph class="state variable" id="_ec0444cd-3e02-45be-a34a-73981ecd5c07"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21932.06" y="19647.72"/> </glyph> <glyph class="state variable" id="_a6a5f823-5ee0-43a7-b10d-afe73115adc9"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21974.592" y="19608.0"/> </glyph> <glyph class="state variable" id="_eb336513-01e3-4d2e-9e90-b0215088e4e1"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21935.053" y="19608.0"/> </glyph> <glyph class="state variable" id="_12c28777-c31b-44a3-b1d8-b50163baa189"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22013.941" y="19648.0"/> </glyph> <glyph class="state variable" id="_8b7257cb-e36a-4da0-a0f1-46308ccb9c8e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21942.064" y="19608.0"/> </glyph> <glyph class="state variable" id="_7d578bb5-f60c-4e3e-a15e-38f98cbb9d0a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22022.06" y="19608.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa374_wca1_wca1_sa378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22110.56" y="19657.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa381_wca1_wca1_sa380"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21773.06" y="19465.0"/> <glyph class="state variable" id="_a57efc0e-d73c-4b7b-b03e-61430cc4e3ef"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21753.06" y="19484.96"/> </glyph> <glyph class="state variable" id="_316bf969-9123-498f-bde7-78cf11fe9edf"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="21833.06" y="19460.266"/> </glyph> <glyph class="state variable" id="_7669e98f-2199-46fb-83d6-5679c17a46f3"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="21832.441" y="19510.0"/> </glyph> <glyph class="state variable" id="_c7e696ce-de01-45db-9a05-bd59bb2cb225"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="21792.164" y="19510.0"/> </glyph> <glyph class="state variable" id="_d2ac1cbe-c437-4fbe-a96b-4c50909d5c7d"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="21753.3" y="19510.0"/> </glyph> <glyph class="state variable" id="_823d6f01-3fa4-4f7d-b75e-f9cc48306127"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="21793.092" y="19460.0"/> </glyph> <glyph class="unit of information" id="_9a9c28f9-2996-4240-ac59-0d631b7be49e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21790.56" y="19460.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa613_wca1_wca1_sa613"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21795.06" y="19452.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa372_wca1_wca1_sa495"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22112.31" y="19569.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1069_emtc_em_sa1069" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1069_emtc_em_sa1069"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RACGAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RACGAP1"/> <bbox w="56.0" h="18.0" x="6449.7" y="14236.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa228_mo_sa228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>matrix metallopeptidase 7 (in extracellular space)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa228_mo_sa228"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP7*"/> <bbox w="80.0" h="40.0" x="4803.0" y="12367.0"/> <glyph class="unit of information" id="_3c350831-b241-425a-88ee-f7643df58f48"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="4818.0" y="12362.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa56_rc_csa56" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:PKM2*:fructose-1,6P2</p> </body> </html> </notes> <label text="active_PKM2"/> <bbox w="120.0" h="100.0" x="19009.06" y="11169.898"/> <glyph class="simple chemical" id="s_id_rc_sa940_rc_sa940"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16905</p> <p>KEGGCOMPOUND:C00354</p> </body> </html> </notes> <label text="fructose-1,6P2"/> <bbox w="108.0" h="22.0" x="19015.31" y="11218.375"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa939_rc_sa939"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate kinase, muscle</p> <p>HUGO:PKM HGNC:9021 ENTREZ:5315 UNIPROT:P14618</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, 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rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD1*"/> <bbox w="80.0" h="40.0" x="20450.0" y="8030.0"/> <glyph class="unit of information" id="_e6540c4e-3cea-42be-84f1-afabfa1ff6c5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20467.5" y="8025.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa107_in_sa107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Lipid_antigen"/> <bbox w="115.0" h="43.0" x="20437.5" y="7983.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa422_ca_sa422" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa422_ca_sa422"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LDHA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LDH5*"/> <bbox w="80.0" h="40.0" x="2630.0" y="4700.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa639_ad_sa639" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa639_ad_sa639"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP2*"/> <bbox w="70.0" h="25.0" x="29571.0" y="3957.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa74_akt1_akt2_sa74" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa74_akt1_akt2_sa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DYRK1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DYRK1B"/> <bbox w="80.0" h="40.0" x="13140.061" y="20483.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa613_ca_sa613" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS References:CASCADE:PLAUPMID:22470492 1.33 fold increase in the levels of cell-surface integrin β1 after uPA-silencing this corresponded with an average 1.25 fold increase in β1 gene expression . ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS References:CASCADE:PLAUPMID:22470492 1.33 fold increase in the levels of cell-surface integrin β1 after uPA-silencing this corresponded with an average 1.25 fold increase in β1 gene expression . </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa613_ca_sa613"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB1"/> <bbox w="90.0" h="25.0" x="6895.0" y="1897.5"/> <glyph class="unit of information" id="_be6cd153-d646-47f6-a113-5c22737ab909"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6930.0" y="1892.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa76_ce_csa76" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RAD5*:UBC12*:UBE2N</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:19851286</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa76_ce_csa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19851286"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMS2*/RAD5/UBC13*"/> <bbox w="109.0" h="157.0" x="17403.473" y="15788.356"/> <glyph class="macromolecule" id="s_id_ce_sa686_ce_sa686"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-conjugating enzyme E2 variant 2</p> <p>HUGO:UBE2V2, HGNC:12495, ENTREZ:7336, UNIPROT:Q15819</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:20675655, PMID:16518696, PMID:18525240, PMID:18157158, PMID:19258535, PMID:18196958, PMID:17652783</p> </body> </html> </notes> <label text="UBC12*"/> <bbox w="80.0" h="40.0" x="17413.611" y="15795.395"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa685_ce_sa685"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast)</p> <p>HUGO:UBE2N, HGNC:12492, ENTREZ:7334, UNIPROT:P61088</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:19258535, PMID:18196958, PMID:17652783</p> </body> </html> </notes> <label text="UBE2N"/> <bbox w="80.0" h="40.0" x="17412.611" y="15840.395"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa687_ce_sa687"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SNF2 histone linker PHD RING helicase, Rad5</p> <p>HUGO:SHPRH, HGNC:19336, ENTREZ:257218, UNIPROT:Q8NBR7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:10880451, PMID:16224103, PMID:19851286, PMID:18647995</p> </body> </html> </notes> <label text="RAD5*"/> <bbox w="80.0" h="40.0" x="17413.611" y="15881.395"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa275_emtc_em_csa275" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Desmoglein1 binding partners*:Desmoglein1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa275_emtc_em_csa275"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19955337"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Desmoglein 1*/Desmoglein 1 binding partners)"/> <bbox w="295.0" h="43.0" x="1707.0" y="16783.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1800_emtc_em_sa1800"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>desmoglein 1</p> <p>HUGO:DSG1 HGNC:3048 ENTREZ:1828 UNIPROT:Q02413 GENECARDS:GC18P028921</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Desmoglein1*"/> <bbox w="87.0" h="19.0" x="1911.5" y="16788.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1799_emtc_em_sa1799"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Desmoglein 1 binding partners*</p> <p>desmocollin 1</p> <p>HUGO:DSC1, HGNC:3035, ENTREZ:1823, UNIPROT:Q08554, GENECARDS:GC18M028732   </p> <p>junction plakoglobin</p> <p>"catenin (cadherin-associated protein), gamma 80kDa", CTNNG</p> <p>HUGO:JUP HGNC:6207 ENTREZ:3728 UNIPROT:P14923 GENECARDS:GC17M039776</p> <p>Plakophilin*</p> <p>plakophilin 1 (ectodermal dysplasia/skin fragility syndrome)</p> <p>HUGO:PKP1 HGNC:9023 ENTREZ:5317 UNIPROT:Q13835</p> <p>plakophilin 2</p> <p>HUGO:PKP2 HGNC:9024 ENTREZ:5318 UNIPROT:Q99959 </p> <p>plakophilin 3</p> <p>HUGO:PKP3, HGNC:9025, ENTREZ:11187, UNIPROT:Q9Y446, GENECARDS:GC11P000394   </p> <p>plakophilin 4</p> <p>HUGO:PKP4 HGNC:9026 ENTREZ:8502 UNIPROT:Q99569</p> <p>desmoplakin</p> <p>HUGO:DSP, HGNC:3052, ENTREZ:1832, UNIPROT:P15924, GENECARDS:GC06P007541  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Desmoglein1 binding partners*"/> <bbox w="199.0" h="18.0" x="1710.5" y="16788.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa1106_in_sa1106" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NADP+"/> <bbox w="70.0" h="25.0" x="14384.219" y="6113.1875"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa843_ca_sa843" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<rdf:li rdf:resource="urn:miriam:hgnc.symbol:GABARAPL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GABARAPL1"/> <bbox w="70.0" h="25.0" x="23563.56" y="16224.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3454_rc_sa3454" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3454_rc_sa3454"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NBN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="18211.56" y="16614.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa52_ce_csa52" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BLM:EXO1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="BLM/EXO1"/> <bbox w="100.0" h="120.0" x="14430.473" y="14956.356"/> <glyph class="macromolecule" id="s_id_ce_sa597_ce_sa597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exonuclease 1</p> <p>HUGO:EXO1, HGNC:3511, ENTREZ:9156, UNIPROT:Q9UQ84</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:14676842, PMID:15474417, PMID:18756267, PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:19490890, PMID:11438669, PMID:20019063, PMID:18048416</p> </body> </html> </notes> <label text="EXO1"/> <bbox w="80.0" h="40.0" x="14441.751" y="14967.514"/> <glyph class="state variable" id="_418e9aea-35db-4082-9bb9-b271f54e3722"> <state value="" variable="S692"/> <bbox w="30.0" h="10.0" x="14483.7" y="14962.514"/> </glyph> <glyph class="state variable" id="_065c318f-8ef2-4d99-bf83-d68555a2e9be"> <state value="" variable="S567"/> <bbox w="30.0" h="10.0" x="14426.751" y="14966.519"/> </glyph> <glyph class="state variable" id="_4b7a0eef-46d7-4b96-8213-79ec387ee503"> <state value="" variable="S587"/> <bbox w="30.0" h="10.0" x="14426.751" y="14980.507"/> </glyph> <glyph class="state variable" id="_c070064c-f277-485c-bffc-31f7a70904d8"> <state value="" variable="S372"/> <bbox w="30.0" h="10.0" x="14426.751" y="14998.784"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa596_ce_sa596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bloom syndrome, RecQ helicase-like</p> <p>HUGO:BLM, HGNC:1058, ENTREZ:641, UNIPROT:P54132</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>For HR pathway, PMID:22657828 </p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> <p>BLM in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>BLM inhibits A_NHEJ (alt_NHEJ):</p> <p>PMID:24089143</p> <p>PMID:24095737</p> </body> </html> </notes> <label text="BLM"/> <bbox w="80.0" h="40.0" x="14443.751" y="15011.514"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa271_emtc_em_csa271" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cadherin*:p120*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:15609097</p> <p>CTNNB1 (beta-catenin) binds with high affinity to the distal Cadherin cytoplasmic tail.</p> <p>Cadherin recruits CTNNA1 (alpha-catenin) to the complex.</p> <p>CTNNA1 (alpha-catenin) binds to Actin filaments directly</p> <p>CTNNA1 (alpha-catenin) and can also associate with other actin-binding proteins (MLLT4 or Formin)</p> <p>CTNND1 (delta-catenin or p120) binds directly to Cadherin independently of the other catenins.</p> <p>Catenins/Cadherin complex can further interact with a range of singaling molecules which participate in either cellular signaling or control of cytoskeletal dynamics.</p> <p>Stability of Cadherin/Catenins complex and thereby the integrity of adherens junctions is controlled by phosphorylation/dephosphorylation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa271_emtc_em_csa271"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15609097"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Cadherin*/p120*)"/> <bbox w="162.0" h="48.0" x="1740.0" y="15837.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1824_emtc_em_sa1824"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> <p>HUGO:CDH1, HGNC:1748, ENTREZ:999, GENECARDS:GC16P068771, UNIPROT:P12830</p> <p>cadherin 2, type 1, N-cadherin (neuronal)</p> <p>HUGO:CDH2, HGNC:1759, ENTREZ:1000, UNIPROT:P19022, GENECARDS:GC18M025465  </p> <p>cadherin 3, type 1, P-cadherin (placental)</p> <p>HUGO:CDH3, HGNC:1762, ENTREZ:1001, UNIPROT:P22223, GENECARDS:GC16P068679   </p> <p>cadherin 4, type 1, R-cadherin (retinal)</p> <p>HUGO:CDH4, HGNC:1763, ENTREZ:1002, UNIPROT:P55283, GENECARDS:GC20P059827 </p> <p>cadherin 5, type 2 (vascular endothelium)</p> <p>HUGO:CDH5, HGNC:1764, ENTREZ:1003, UNIPROT:P33151, GENECARDS:GC16P066400  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2879_rc_sa2879"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXNIP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TXNIP"/> <bbox w="80.0" h="40.0" x="28909.06" y="10709.0"/> <glyph class="state variable" id="_cd6f4fe4-5be7-46de-960f-152acef0a860"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28960.629" y="10704.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2173_emtc_em_sa2173" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2173_emtc_em_sa2173"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NCOR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCOR2"/> <bbox w="47.0" h="18.0" x="2927.0" y="14483.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa103_ca_sa103" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS MODULE:MOTILITY MODULE:CAF References:CASCADE:TGFB, CASCADE:HH, CASCADE:HGFPMID:12702545, PMID:8515656Smad3 mediates transforming growth factor-beta-induced alpha-smooth muscle actin expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:FIBROBLAST_ACTIVATION_MARKERS MODULE:MOTILITY MODULE:CAF References:CASCADE:TGFB, CASCADE:HH, CASCADE:HGFPMID:12702545, PMID:8515656Smad3 mediates transforming growth factor-beta-induced alpha-smooth muscle actin expression. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa103_ca_sa103"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12702545"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8515656"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12702545"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8515656"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACTA2"/> <bbox w="90.0" h="25.0" x="6257.75" y="3814.75"/> <glyph class="unit of information" id="_4244c45e-b8e4-4dcf-8dfa-0f46d9b851db"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6292.75" y="3809.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa97_ce_csa97" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ERCC1:SLX4*:XPF*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa97_ce_csa97"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19473888"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12947387"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19595721"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596236"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERCC1/SLX4/XPF*"/> <bbox w="121.0" h="157.0" x="12182.473" y="16421.355"/> <glyph class="macromolecule" id="s_id_ce_sa735_ce_sa735"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB (POZ) domain containing 12</p> <p>Structure-specific endonuclease subunit SLX4</p> <p>HUGO:BTBD12, HGNC:23845, ENTREZ:84464, UNIPROT:Q8IY92</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236, PMID:22101340</p> </body> </html> </notes> <label text="SLX4*"/> <bbox w="80.0" h="40.0" x="12201.723" y="16514.94"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa736_ce_sa736"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 1 (includes overlapping antisense sequence)</p> <p>HUGO:ERCC1, HGNC:3433, ENTREZ:2067, UNIPROT:P07992</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI, MODULE:SSA</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G, PMID:11900249</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="ERCC1"/> <bbox w="80.0" h="40.0" x="12204.723" y="16428.44"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa737_ce_sa737"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 4</p> <p>HUGO:ERCC4, HGNC:3436, ENTREZ:2072, UNIPROT:Q92889</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:A_NHEJ, MODULE:FANCONI</p> <p>References:</p> <p>PMID:22373527, PMID:23085398, PMID:22824526, PMID:22373527, PMID:22257761</p> <p>PMID:22101340, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> <p>For Fanconi pathway</p> <p>PMID:19686080</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="XPF*"/> <bbox w="80.0" h="40.0" x="12203.723" y="16473.44"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa142_wca1_wca2_sa142" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa142_wca1_wca2_sa142"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <bbox w="80.0" h="40.0" x="23501.06" y="18696.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa5_rc_csa5" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX</p> </body> </html> </notes> <label text="BAX oligomer"/> <bbox w="170.0" h="120.0" x="22215.81" y="14887.25"/> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="22252.19" y="14927.129"/> <glyph class="state variable" id="_30c8ac71-871b-4faa-9f26-f2195df12640"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="22295.773" y="14922.129"/> </glyph> <glyph class="state variable" id="_0807ec79-1e7b-4fe3-816e-2c3e09ac6de5"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="22298.51" y="14962.129"/> </glyph> <glyph class="state variable" id="_5bc3c234-000d-4bb6-9e39-7f98da408848"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="22250.766" y="14922.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3568"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="22232.19" y="14907.129"/> <glyph class="state variable" id="_dc2aa0bd-71ac-4bea-8dd3-cee901304f1a"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="22275.773" y="14902.129"/> </glyph> <glyph class="state variable" id="_e9247bbf-508f-4e6a-83b9-100f05465950"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="22278.51" y="14942.129"/> </glyph> <glyph class="state variable" id="_c3b090f3-a894-412e-8a0d-1fde6e86d8d3"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="22230.766" y="14902.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="22242.19" y="14917.129"/> <glyph class="state variable" id="_43f15755-90cc-4b16-9431-41cacb4096ed"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="22285.773" y="14912.129"/> </glyph> <glyph class="state variable" id="_944638dc-4aa5-4bd2-a028-44aeba30e8b3"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="22288.51" y="14952.129"/> </glyph> <glyph class="state variable" id="_c14623e1-cd88-439b-83a0-e1f154c9a8ee"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="22240.766" y="14912.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3566"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="22286.19" y="14927.129"/> <glyph class="state variable" id="_e952f2bc-52ef-4e4f-a458-27d746fdff42"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="22329.773" y="14922.129"/> </glyph> <glyph class="state variable" id="_1a8e1163-2a5c-4b8a-a316-c821091324fd"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="22332.51" y="14962.129"/> </glyph> <glyph class="state variable" id="_fc2d2049-bafc-45cb-b22e-36bb12539c02"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="22284.766" y="14922.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3571"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="22262.19" y="14937.129"/> <glyph class="state variable" id="_7706f5cf-d871-4bf0-bcab-1f68d04e7dce"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="22305.773" y="14932.129"/> </glyph> <glyph class="state variable" id="_9b2f7888-92b6-4421-9cfa-9fad8d108c84"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="22308.51" y="14972.129"/> </glyph> <glyph class="state variable" id="_fbb67a18-6471-4ab5-b041-7f165e5f2703"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="22260.766" y="14932.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="22276.19" y="14917.129"/> <glyph class="state variable" id="_fd19a388-be7f-4978-8e67-bcb17f66b784"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="22319.773" y="14912.129"/> </glyph> <glyph class="state variable" id="_6af41412-13f0-4b63-91a7-27320d370a82"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="22322.51" y="14952.129"/> </glyph> <glyph class="state variable" id="_8e215d5c-e8c2-46f6-a5e6-a8453fdd37f3"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="22274.766" y="14912.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="22266.19" y="14907.129"/> <glyph class="state variable" id="_d9bcb367-b465-4fce-9184-2f043b18f603"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="22309.773" y="14902.129"/> </glyph> <glyph class="state variable" id="_bfea0c87-20f0-4e0d-b284-fe97c8ad4c03"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="22312.51" y="14942.129"/> </glyph> <glyph class="state variable" id="_100e5fd8-f272-48ef-be39-5751101ea4de"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="22264.766" y="14902.129"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3564_rc_sa3567"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2082_emtc_em_sa2082"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIB2"/> <bbox w="45.0" h="17.0" x="937.0" y="14252.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1749_rc_sa1749" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="ATP"/> <bbox w="40.0" h="20.0" x="6789.0" y="16532.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa3_mpk1_mpk1_csa3" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:RAS*:RTK*:SOS*"/> <bbox w="143.0" h="103.0" x="8319.061" y="19174.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa34_mpk1_mpk1_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="8393.561" y="19182.5"/> <glyph class="unit of information" id="_80ffce91-3e25-4b76-a4aa-66456af193fb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8396.061" y="19177.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa30_mpk1_mpk1_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 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It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8393.561" y="19205.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa15_mpk1_mpk1_sa15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. 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cells.PMID:22649192miR-378 and miR-30e suppress IFN-α–upregulated granzyme B and perforin expression in human NK cellsmiR-378 and miR-30e are markedly decreased in activated NK cells by IFNA,miR-378 and miR-30e directly targeted granzyme B and perforin, respectively and suppress of human NK cell cytotoxicity.. ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0MODULE:TCR_SIGNALINGPMID:24795729PI3K–AKT–mTOR pathway is required for granzyme B production downstream of IL15PMID:21960590Human miR-27a* specifically bound to the 3' untranslated regions of Prf1 and GzmB, down-regulating expression in both resting and activated NK cells.PMID:22649192miR-378 and miR-30e suppress IFN-α–upregulated granzyme B and perforin expression in human NK cellsmiR-378 and miR-30e are markedly decreased in activated NK cells by IFNA,miR-378 and miR-30e directly targeted granzyme B and perforin, respectively and suppress of human NK cell cytotoxicity.. </body> </html> </notes> 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rdf:resource="urn:miriam:hgnc.symbol:ULBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULBP2"/> <bbox w="80.0" h="40.0" x="6042.0" y="10927.0"/> <glyph class="state variable" id="_0d8af14d-b6b3-492c-b432-1f1204bf2e40"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6093.5684" y="10922.0"/> </glyph> <glyph class="state variable" id="_e6540dbd-d97e-476b-875e-71637143b46d"> <state value="" variable="GPI"/> <bbox w="25.0" h="10.0" x="6053.095" y="10922.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2087_em_sa2087" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:p16INK4a activates the pRB tumor suppressor, which silences certain proproliferative genes by heterochromatinization, thereby instituting a stringent arrest of cell proliferationConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:p16INK4a activates the pRB tumor suppressor, which silences certain proproliferative genes by heterochromatinization, thereby instituting a stringent arrest of cell proliferationConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <label text="RB1"/> <bbox w="65.0" h="22.0" x="3141.0" y="14386.5"/> <glyph class="unit of information" id="_66c5ffbc-6eea-476b-92c9-d367cfe312e9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3163.5" y="14381.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa234_rc_csa234" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:14-3-3*:BAD</p> </body> </html> </notes> <label text="14-3-3:BAD_P"/> <bbox w="100.0" h="120.0" x="20849.06" y="12019.0"/> <glyph class="macromolecule" id="s_id_rc_sa1767_rc_sa1767"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>there are at least 2 isoforms of BAD. Here, protein BAD refers to any of the different isoforms. Numbering of amino-acids, used for phosphorylation sites, are adjusted to the 'canonical' isoform as defined in Uniprot. This lead to choosing different isoforms for different organisms.</p> </body> </html> </notes> <label text="BAD"/> <bbox w="80.0" h="40.0" x="20858.81" y="12075.858"/> <glyph class="state variable" id="_0398218b-dbed-4166-ae65-e19510e1a3b3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="20874.906" y="12070.858"/> </glyph> <glyph class="state variable" id="_37bd35f2-a734-41d2-94c1-3efa21252512"> <state value="" variable="S91"/> <bbox w="25.0" h="10.0" x="20903.26" y="12070.858"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1762_rc_sa1762"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="20861.24" y="12027.35"/> <glyph class="state variable" id="_55fbb2e6-e633-40d2-92aa-5ddf5886b156"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="20910.338" y="12022.35"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa202_wnc1_wnc2_sa202" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa202_wnc1_wnc4_sa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK*"/> <clone/> <bbox w="80.0" h="40.0" x="17695.06" y="20614.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4804_rc_sa4804" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4804_rc_sa4804"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="25739.06" y="14569.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4927_rc_sa4927" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4927_rc_sa4927"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DERL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DRL2"/> <bbox w="80.0" h="40.0" x="28829.06" y="13009.0"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa238_wca1_wca3_sa238" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca3_re82(MAP:survival):</p> <p>High-cell density has positive influence on phosphorylation of APC by PKA thereby blocking nuclear import.</p> <p>PMID:11689703</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa238_wca1_wca3_sa238"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> 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id="s_id_in_csa103_in_csa103" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa103_in_csa103"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15356110"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LFA1"/> <bbox w="100.0" h="140.0" x="17187.5" y="1390.0"/> <glyph class="macromolecule" id="s_id_in_sa696_in_sa696"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD18*"/> <bbox w="80.0" h="50.0" x="17197.5" y="1395.0"/> <glyph class="unit of information" id="_4e8c42a1-6e56-4d42-9152-60020368a378"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17215.0" y="1390.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa697_in_sa697"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD11a*"/> <bbox w="80.0" h="50.0" x="17202.5" y="1455.0"/> <glyph class="unit of information" id="_acc47a9c-9830-4f37-8bbc-64c51739f1e6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17220.0" y="1450.0"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_in_sa741_in_sa741" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa75_degraded"/> <bbox w="30.0" h="30.0" x="20140.0" y="2155.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4901_rc_sa4901" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4901_rc_sa4901"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:H2AFY"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="H2AFY"/> <bbox w="80.0" h="40.0" x="28011.326" y="16294.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa56_ca_csa56" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EP300:STAT1</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>CASCADE:IFNG</p> <p>PMID:17559085, PMID:11134049 </p> <p> IFN-γ induced a direct interaction between activated STAT1α and p300 in normal skin fibroblasts (Ghosh et al., 2001). Furthermore, ectopic expression of p300 overcame the inhibition by IFN-γ and rescued stimulation by TGF-β, suggesting that in response to IFN-γ, activated STAT1α and/or downstream factor(s) sequestered p300, preventing its recruitment to the transcriptional machinery and thereby inhibiting collagen gene transcription (Ghosh et al., 2001). Similarly, IFN-γ suppression of COL1A2 promoter activation by YB-1 also appears to involve p300 sequestration (Higashi et al., 2003).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa56_ca_csa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17559085"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11134049"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4250"/> <bbox w="100.0" h="120.0" x="5530.0" y="3640.0"/> <glyph class="macromolecule" id="s_id_ca_sa523_ca_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 hgnc_id:HGNC:3373 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:15265520 </p> <p>The role for CREB binding protein (CBP) and p300 as essential coactivators for SMAD-driven gene expression has been well documented and competition for p300/CBP has been suggested to mediate some examples of signal-induced transcriptional repression.</p> <p>PMID:10918613 </p> <p>For Smad-dependent stimulation of collagen (COL1A2 )synthesis, the interaction of activated Smad2/3 with p300 is essential (Ghosh et al., 2001, 2004a). Furthermore, the acetyltransferase activity of p300 is required for maximal stimulation as shown by the fact that fibroblasts transfected with HAT-deleted mutants of p300 showed markedly reduced TGF-β stimulation of COL1A2 promoter activity (Ghosh et al., 2000).</p> </body> </html> </notes> <label text="EP300"/> <bbox w="80.0" h="40.0" x="5540.0" y="3650.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa522_ca_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>signal transducer and activator of transcription 1</p> <p>HUGO:STAT1 hgnc_id:HGNC:11362 HGNC:11362 ENTREZ:6772 UNIPROT:P42224</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>_INHIBITION_ANTITUMOR</p> <p>CASCADE:IFNG</p> <p>PMID:17559085, PMID:11134049 </p> <p> IFN-γ induced a direct interaction between activated STAT1α and p300 in normal skin fibroblasts (Ghosh et al., 2001). Furthermore, ectopic expression of p300 overcame the inhibition by IFN-γ and rescued stimulation by TGF-β, suggesting that in response to IFN-γ, activated STAT1α and/or downstream factor(s) sequestered p300, preventing its recruitment to the transcriptional machinery and thereby inhibiting collagen gene transcription (Ghosh et al., 2001). Similarly, IFN-γ suppression of COL1A2 promoter activation by YB-1 also appears to involve p300 sequestration (Higashi et al., 2003).</p> </body> </html> </notes> <label text="STAT1"/> <bbox w="80.0" h="40.0" x="5540.0" y="3700.0"/> <glyph class="state variable" id="_455ba141-6a4f-4330-8e07-6e6ebba7cc1b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5535.0" y="3715.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa374_an_sa374" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa374_an_sa374"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSK1*"/> <bbox w="80.0" h="40.0" x="5254.5" y="6640.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa35_akt1_akt2_csa35" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRM1*:FOXO4</p> <p>References:</p> <p>s_akt2_re116:(MAP:survival) PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa35_akt1_akt2_csa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRM1*:FOXO4"/> <bbox w="100.0" h="120.0" x="11868.561" y="21365.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa222_akt1_akt2_sa222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O4</p> <p>HUGO:FOXO4 HGNC:7139 ENTREZ:4303 UNIPROT:P98177 GENECARDS:FOXO4 REACTOME:404982 KEGG:4303 ATLASONC:AFX1ID57 WIKI:FOXO4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11313479</p> <p>PMID:10217147</p> </body> </html> </notes> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="11876.061" y="21377.0"/> <glyph class="state variable" id="_d3feba1a-7cdd-4c96-93cc-b1808124838a"> <state value="P" variable="T28"/> <bbox w="30.0" h="10.0" x="11861.553" y="21372.0"/> </glyph> <glyph class="state variable" id="_c47f6c0d-c421-4ba1-b10f-9d32b5a11a6e"> <state value="P" variable="S258"/> <bbox w="35.0" h="10.0" x="11937.942" y="21412.0"/> </glyph> <glyph class="state variable" id="_767b2aeb-8937-4b8d-bc71-f50393dcb825"> <state value="P" variable="S193"/> <bbox w="35.0" h="10.0" x="11938.561" y="21372.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa223_akt1_akt2_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exportin 1 (CRM1 homolog yeast)</p> <p>HUGO:XPO1 HGNC:12825 ENTREZ:7514 UNIPROT:O14980 GENECARDS:XPO1 REACTOME:165526 KEGG:7514 ATLASONC:XPO1ID44168ch2p15 WIKI:XPO1 </p> <p>exportin 1 CRM1 homo</p> <p>"exportin 1 (CRM1 yeast homolog)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="CRM1*"/> <bbox w="80.0" h="40.0" x="11876.061" y="21422.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa220_in_csa220" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa220_in_csa220"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393492"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s610"/> <bbox w="183.0" h="125.0" x="23803.75" y="5417.5"/> <glyph class="macromolecule" id="s_id_in_sa2875_in_sa2875"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF2"/> <bbox w="80.0" h="40.0" x="23820.0" y="5425.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1652_in_sa1652"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:CSF2</p> <p>References:</p> <p>PMID:12393492</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits</p> <p>PMID:11306493</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF2RA"/> <bbox w="80.0" h="50.0" x="23815.0" y="5475.0"/> <glyph class="unit of information" id="_9896a3ab-2fd4-4c71-9cba-73cad6a753b6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23832.5" y="5470.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1651_in_sa1651"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>CASCADE:CSF2, CASCADE:IL3</p> <p>References:</p> <p>PMID:12393492, PMID:22323450</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits anf use JAK2 kinase</p> <p>PMID:23046136</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF2RB"/> <bbox w="80.0" h="50.0" x="23895.0" y="5475.0"/> <glyph class="unit of information" id="_c32b1e33-5e49-4217-9ab5-a07254c9622b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23912.5" y="5470.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2696_in_sa2696"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="23900.0" y="5435.0"/> <glyph class="state variable" id="_f1e7a7ac-c05a-4ca4-b628-19cda0383e1d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23892.5" y="5450.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5486_rc_sa5486" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanylate-binding protein 5</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:25774716</p> <p>these two GBPs targeted cytosolic F. novicida and promoted bacteriolysis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5486_rc_sa5486"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GBP5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25774716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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</glyph> <glyph class="complex" id="s_id_rc_csa79_rc_csa79" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TSC1:TSC2</p> </body> </html> </notes> <label text="TSC1/2"/> <bbox w="100.0" h="140.0" x="25814.06" y="11854.0"/> <glyph class="macromolecule" id="s_id_rc_sa1077_rc_sa1077"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 1</p> <p>HUGO:TSC1 HGNC:12362 ENTREZ:7248 UNIPROT:Q92574</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="25823.393" y="11861.333"/> <glyph class="state variable" id="_f09b6ea2-a09b-4bc0-8ae4-a4b4010bb6fa"> <state value="" variable="S487"/> <bbox w="30.0" h="10.0" x="25831.988" y="11856.333"/> </glyph> <glyph class="state variable" id="_4d948724-21b8-41cc-a171-134585a6ef1f"> <state value="" variable="S511"/> <bbox w="30.0" h="10.0" x="25865.342" y="11856.333"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1076_rc_sa1076"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="25824.06" y="11924.0"/> <glyph class="state variable" id="_104bef02-4426-4b4b-9738-dc540f264640"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25819.06" y="11939.0"/> </glyph> <glyph class="state variable" id="_5db5f5b2-34ed-41f1-a394-2a21a64116fb"> <state value="" variable="S1337"/> <bbox w="35.0" h="10.0" x="25827.28" y="11959.0"/> </glyph> <glyph 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</glyph> <glyph class="state variable" id="_3efabd7b-824b-4812-88f1-254229bc626c"> <state value="" variable="S1798"/> <bbox w="35.0" h="10.0" x="25886.56" y="11919.579"/> </glyph> <glyph class="state variable" id="_2a0084af-3ce2-409f-843b-95378af0bc32"> <state value="P" variable="T1462"/> <bbox w="40.0" h="10.0" x="25861.01" y="11919.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2820_rc_sa2820" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:37042</p> </body> </html> </notes> <label text="purine 2'-deoxyribonucleoside 5'-triphosphate"/> <bbox w="293.0" h="33.0" x="19612.686" y="11672.625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa510_rc_sa510" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa510_rc_sa510"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase7*"/> <bbox w="80.0" h="40.0" x="24719.06" y="13639.0"/> <glyph class="unit of information" id="_12349876-2b83-4bb3-8631-f0943402be45"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="24734.06" y="13634.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa248_shh1_shh2_sa248" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa248_shh1_shh2_sa248"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR19B1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR19B1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR19B1"/> <bbox w="90.0" h="25.0" x="26997.06" y="22145.0"/> <glyph class="unit of information" id="_0391bcf0-b04d-4d2a-a1c4-1f5913c08409"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27027.06" y="22140.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa65_mpk1_mpk1_csa65" compartmentRef="s_id_mpk1_mpk1_ca9_mpk1_mpk1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GPCR*:GRK*</p> </body> </html> </notes> <label text="GPCR*:GRK*"/> <bbox w="84.0" h="82.0" x="9557.061" y="19620.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa318_mpk1_mpk1_sa318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adrenergic beta receptor kinase 1</p> <p>HUGO:ADRBK1 HGNC:289 ENTREZ:156 UNIPROT:P25098</p> <p>adrenergic beta receptor kinase 2</p> <p>HUGO:ADRBK2 HGNC:290 ENTREZ:157 UNIPROT:P35626</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> </body> </html> </notes> <label text="GRK*"/> <bbox w="50.0" h="25.0" x="9574.894" y="19652.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa577_mpk1_mpk1_sa577"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein-coupled receptor 1</p> <p>HUGO:GPR1 HGNC:4463 ENTREZ:2825 UNIPROT:P46091 </p> <p>G protein-coupled receptor 3</p> <p>HUGO:GPR3 HGNC:4484 ENTREZ:2827 UNIPROT:P46089 </p> <p>G protein-coupled receptor 4</p> <p>HUGO:GPR4 HGNC:4497 ENTREZ:2828 UNIPROT:P46093 </p> <p>G protein-coupled receptor 6</p> <p>HUGO:GPR6 HGNC:4515 ENTREZ:2830 UNIPROT:P46095 </p> <p>G protein-coupled receptor 12</p> <p>HUGO:GPR12 HGNC:4466 ENTREZ:2835 UNIPROT:P47775 </p> <p>G protein-coupled receptor 15</p> <p>HUGO:GPR15 HGNC:4469 ENTREZ:2838 UNIPROT:P49685 </p> <p>G protein-coupled receptor 17</p> <p>HUGO:GPR17 HGNC:4471 ENTREZ:2840 UNIPROT:Q13304 </p> <p>G protein-coupled receptor 18</p> <p>HUGO:GPR18 HGNC:4472 ENTREZ:2841 UNIPROT:Q14330 </p> <p>G protein-coupled receptor 19</p> <p>HUGO:GPR19 HGNC:4473 ENTREZ:2842 UNIPROT:Q15760 </p> <p>G protein-coupled receptor 20</p> <p>HUGO:GPR20 HGNC:4475 ENTREZ:2843 UNIPROT:Q99678</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylation of GPCR (by GRK) induces the activation of ERK cascade on eary endosomes.</p> </body> </html> </notes> <label text="GPCR*"/> <bbox w="50.0" h="25.0" x="9575.878" y="19628.908"/> <glyph class="state variable" id="_b7ef0fa8-1754-4b1a-9e52-11c77161ec5c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9570.878" y="19636.408"/> </glyph> <glyph class="unit of information" id="_bcfdaf94-32d4-4e51-aa4d-5e47d68f570a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9578.378" y="19623.908"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa199_ce_csa199" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC45:CDC6:CDT1:MCM2:MCM3:MCM4:MCM5:MCM6:MCM7:ORC1*:ORC2*:ORC3*:ORC4*:ORC5*:ORC6*:POLA*:PRIM*:RPA1:RPA2:RPA3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDC6/CDT1/MCM2/MCM3/MCM4/MCM5/MCM6/MCM7/ORC1*/ORC2*/ORC3*/ORC4*/ORC5*/ORC6*/POLA*/PRIM*/RPA1/RPA2/RPA3"/> <bbox w="438.0" h="198.0" x="13267.473" y="9506.356"/> <glyph class="macromolecule" id="s_id_ce_sa921_ce_sa921"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="13612.06" y="9518.332"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa896_ce_sa896"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 4</p> <p>HUGO:MCM4, HGNC:6947, ENTREZ:4173, UNIPROT:P33991</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM4"/> <bbox w="80.0" h="40.0" x="13439.215" y="9601.112"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa895_ce_sa895"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 3</p> <p>HUGO:MCM3, HGNC:6945, ENTREZ:4172, UNIPROT:P25205</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM3"/> <bbox w="80.0" h="40.0" x="13439.215" y="9558.112"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa889_ce_sa889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 5-like (yeast)</p> <p>HUGO:ORC5L, HGNC:8491, ENTREZ:5001, UNIPROT:O43913</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC5*"/> <bbox w="80.0" h="40.0" x="13355.563" y="9556.162"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa893_ce_sa893"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 1-like (yeast)</p> <p>HUGO:ORC1L, HGNC:8487, ENTREZ:4998, UNIPROT:Q13415</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC1*"/> <bbox w="80.0" h="40.0" x="13274.563" y="9514.162"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa898_ce_sa898"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 6</p> <p>HUGO:MCM6, HGNC:6949, ENTREZ:4175, UNIPROT:Q14566</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM6"/> <bbox w="80.0" h="40.0" x="13524.215" y="9558.112"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa891_ce_sa891"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 3-like (yeast)</p> <p>HUGO:ORC3L, HGNC:8489, ENTREZ:23595, UNIPROT:Q9UNT6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC3*"/> <bbox w="80.0" h="40.0" x="13274.563" y="9601.162"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa920_ce_sa920"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>primase, DNA, polypeptide 1 (49kDa)</p> <p>HUGO:PRIM1, HGNC:9369, ENTREZ:5557, UNIPROT:P49642</p> <p>primase, DNA, polypeptide 2 (58kDa)</p> <p>HUGO:PRIM2, HGNC:9370, ENTREZ:5558, UNIPROT:P49643</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="PRIM*"/> <bbox w="80.0" h="40.0" x="13612.311" y="9642.863"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa923_ce_sa923"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="13612.06" y="9600.332"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa890_ce_sa890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 4-like (yeast)</p> <p>HUGO:ORC4L, HGNC:8490, ENTREZ:5000, UNIPROT:O43929</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC4*"/> <bbox w="80.0" h="40.0" x="13354.563" y="9514.162"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1624_ce_sa1624"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 45 homolog (S. cerevisiae) </p> <p>HUGO:CDC45, HGNC:1739, ENTREZ:8318, UNIPROT:O75419</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17608804, PMID:17887956, PMID:12185086, PMID:10882098, PMID:21527023, PMID:21406556,</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="CDC45"/> <bbox w="80.0" h="40.0" x="13276.473" y="9641.689"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa922_ce_sa922"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="13612.06" y="9560.332"/> <glyph class="state variable" id="_22dfa491-784d-4386-9820-ea6a0e92a549"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13607.06" y="9575.332"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa888_ce_sa888"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 6-like (yeast)</p> <p>HUGO:ORC6L, HGNC:17151, ENTREZ:23594, UNIPROT:Q9Y5N6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC6*"/> <bbox w="80.0" h="40.0" x="13356.563" y="9600.162"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa894_ce_sa894"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 2</p> <p>HUGO:MCM2, HGNC:6944, ENTREZ:4171, UNIPROT:P49736</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM2"/> <bbox w="80.0" h="40.0" x="13440.215" y="9515.112"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa902_ce_sa902"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromatin licensing and DNA replication factor 1</p> <p>HUGO:CDT1, HGNC:24576, ENTREZ:81620, UNIPROT:Q9H211</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDT1"/> <bbox w="80.0" h="40.0" x="13444.594" y="9642.984"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa917_ce_sa917"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), alpha 1, catalytic subunit</p> <p>HUGO:POLA1, HGNC:9173, ENTREZ:5422, UNIPROT:P09884</p> <p>polymerase (DNA directed), alpha 2 (70kD subunit)</p> <p>HUGO:POLA2, HGNC:30073, ENTREZ:23649, UNIPROT:Q14181</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="POLA*"/> <bbox w="80.0" h="40.0" x="13528.473" y="9644.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa897_ce_sa897"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 7</p> <p>HUGO:MCM7, HGNC:6950, ENTREZ:4176, UNIPROT:P33993</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM7"/> <bbox w="80.0" h="40.0" x="13522.215" y="9600.112"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa901_ce_sa901"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 6 homolog (S. cerevisiae)</p> <p>HUGO:CDC6, HGNC:1744, ENTREZ:990, UNIPROT:Q99741</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDC6"/> <bbox w="80.0" h="40.0" x="13360.594" y="9640.984"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa892_ce_sa892"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>origin recognition complex, subunit 2-like (yeast)</p> <p>HUGO:ORC2L, HGNC:8488, ENTREZ:4999, UNIPROT:Q13416</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:12909626</p> </body> </html> </notes> <label text="ORC2*"/> <bbox w="80.0" h="40.0" x="13271.563" y="9557.162"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa899_ce_sa899"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>minichromosome maintenance complex component 5</p> <p>HUGO:MCM5, HGNC:6948, ENTREZ:4174, UNIPROT:P33992</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="MCM5"/> <bbox w="80.0" h="40.0" x="13521.215" y="9514.112"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa12_wca1_wca2_csa12" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:WNT*:XFZ3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re30(MAP:survival):</p> <p>Shown in Xenopus embryos that dimerisation of XFZ3 correlates with activation. This phenomenon is described once in:</p> <p>PMID:12734397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa12_wca1_wca2_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Xfz3 dimer)"/> <bbox w="110.0" h="100.0" x="25086.06" y="18200.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa70_wca1_wca2_sa71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="XFZ3"/> <bbox w="80.0" h="50.0" x="25104.56" y="18227.0"/> <glyph class="unit of information" id="_11735067-84a5-4b53-8dfa-f2272310953d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25122.06" y="18222.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa70_wca1_wca2_sa70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="XFZ3"/> <bbox w="80.0" h="50.0" x="25094.56" y="18217.0"/> <glyph class="unit of information" id="_ed927bce-7098-410c-bdba-a827f1253943"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25112.06" y="18212.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa73_wca1_wca2_sa73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="25121.06" y="18207.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1094_ce_sa1094" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1094_ce_sa1094"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:INCENP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="INCENP"/> <bbox w="80.0" h="40.0" x="10663.592" y="13899.639"/> <glyph class="state variable" id="_3c457825-a90c-46d8-af78-6bb78cb10bbc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10658.592" y="13914.639"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2313_rc_sa2313" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17033 KEGGCOMPOUND:C00500 CAS:114-25-0</p> </body> </html> </notes> <label text="biliverdin"/> <bbox w="70.0" h="25.0" x="27859.113" y="10492.269"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa267_akt1_akt1_sa267" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa267_akt1_akt1_sa267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PABPC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PABPC3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PABP5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PABP1*"/> <bbox w="80.0" h="40.0" x="11906.061" y="19331.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa221_ce_sa221" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Fanconi:DNA:st3Reversed-fork structured DNA with inter chromasomal crosslinks (ICL) and/or stalled replication forkNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:FANCONIReferences:PMID:21948210 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Fanconi:DNA:st3Reversed-fork structured DNA with inter chromasomal crosslinks (ICL) and/or stalled replication forkNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:FANCONIReferences:PMID:21948210 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa221_ce_sa221"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21948210"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21948210"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fanconi_DNA_st3*"/> <bbox w="120.0" h="26.0" x="15710.611" y="15745.035"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1048_ad_sa1048" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:15886116; PMID:14623913</p> <p>Vav2 and Vav3 have been shown to undergo TCR-induced phosphorylation</p> <p>All Three Vav Proteins Are Tyrosine Phosphorylated and Recruited by Antigen Receptors in Primary T and B Lymphocytes.</p> <p>PMID:10934226</p> <p>The Rho Family Guanine Nucleotide Exchange Factor Vav-2 Regulates the Development of Cell-Mediated Cytotoxicity</p> <p>Vav-2 Becomes Tyrosine Phosphorylated after TCR Cross-Linking.</p> <p>Vav-2 Does Not Activate NFAT–AP-1–mediated Gene Transcription after TCR Cross-Linking.</p> <p>Vav-2 does not regulate the IL-2 promoter after TCR cross-linking.</p> <p>PMID:11262396</p> <p>Vav2 activates c-fos serum response element and CD69 expression but negatively regulates nuclear factor of activated T cells and interleukin-2 gene activation in T lymphocyte.</p> <p>either Vav1 or Vav2 further increased ERK2 activation following TCR stimulation (robably via RAS)</p> <p>Vav2 Functions Upstream of Cn to Inhibit TCR-induced NF-AT Activation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1048_ad_sa1048"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAV2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15886116"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14623913"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10934226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11262396"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VAV2"/> <bbox w="80.0" h="40.0" x="27238.5" y="3972.5"/> <glyph class="state variable" id="_a63f39bd-c7a3-43a0-8fe8-0292f59034d7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27233.5" y="3987.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa56_in_sa56" compartmentRef="s_id_in_ca15_in_ca15"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa56_in_sa56"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19372727"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="O2"/> <bbox w="70.0" h="25.0" x="19909.824" y="6151.028"/> </glyph> <glyph class="complex" id="s_id_ce_csa101_ce_csa101" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATR:ATRIP</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:15743907</p> <p>ATR kinase activation mediated by MutSalpha and MutLalpha in response to cytotoxic O6-methylguanine adducts. O6-methylguanine adducts recognized by MutSalpha, MutLalpha and BER pathways performs the repair:</p> <p>PMID:16713580</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa101_ce_csa101"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15743907"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713580"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATR/ATRIP"/> <bbox w="100.0" h="120.0" x="12356.473" y="11682.356"/> <glyph class="macromolecule" id="s_id_ce_sa747_ce_sa747"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATR interacting protein</p> <p>HUGO:ATRIP, HGNC:33499, ENTREZ:84126, UNIPROT:Q9HA30</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:15798197, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="ATRIP"/> <bbox w="80.0" h="40.0" x="12367.473" y="11697.642"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa746_ce_sa746"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia and Rad3 related</p> <p>HUGO:ATR, HGNC:882, ENTREZ:545, UNIPROT:Q13535</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="ATR"/> <bbox w="80.0" h="40.0" x="12370.473" y="11739.642"/> <glyph class="state variable" id="_566851ab-6cbc-4495-9ae6-e0c007c8820b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12362.973" y="11754.642"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_an_sa475_an_sa475" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11415936</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa475_an_sa475"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11415936"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PI3K pathway"/> <bbox w="80.0" h="30.0" x="5432.0" y="7180.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa365_mo_sa365" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL26"/> <bbox w="90.0" h="25.0" x="3758.5" y="10348.5"/> <glyph class="unit of information" id="_838ac459-c44e-4e35-8847-c483c032a9f5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3793.5" y="10343.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3688_rc_sa3688" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3688_rc_sa3688"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACER1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACER*"/> <bbox w="80.0" h="40.0" x="20399.06" y="10739.0"/> <glyph class="state variable" id="_74fe00b7-df00-40b4-b49d-c60987aa4cdb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20450.629" y="10734.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa96_ca_csa96" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HGF:MET</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> </body> </html> </notes> <label text="ca_s4530"/> <bbox w="100.0" h="120.0" x="5730.0" y="1160.0"/> <glyph class="macromolecule" id="s_id_ca_sa824_ca_sa824"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MET proto-oncogene, receptor tyrosine kinase</p> <p>HUGO:MET hgnc_id:HGNC:7029 HGNC:7029 ENTREZ:4233 UNIPROT:P08581</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>PMID:11290563</p> <p>Human myofibroblasts derived from primary lung cancer expressed c-MET mRNA and protein</p> <p>Proliferation of myofibroblasts was stimulated in a dose-dependent manner by exogenously added recombinant human HGF whereas it was inhibited in a dose-dependent manner by neutralizing antibody to HGF. The addition of HGF in the culture medium stimulated tyrosine phosphorylation of c-MET.</p> <p>A significant relationship between myofibroblast c-MET expression and shortened patient survival was observed.</p> </body> </html> </notes> <label text="MET"/> <bbox w="80.0" h="50.0" x="5740.0" y="1215.0"/> <glyph class="state variable" id="_d8698d9d-2677-4b1b-99a5-f367b36f290f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5732.5" y="1235.0"/> </glyph> <glyph class="unit of information" id="_0ea68110-04e5-4bfc-9b08-f8e435823788"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5757.5" y="1210.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa825_ca_sa825"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hepatocyte growth factor</p> <p>HUGO:HGF hgnc_id:HGNC:4893 HGNC:4893 ENTREZ:3082 UNIPROT:P14210</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION MODULE:CAF </p> <p>References:</p> <p>CASCADE:IL1, CASCADE:FGF, CASCADE:PDGF, CASCADE:HGF</p> <p>PMID:9242465; PMID:19631971</p> <p>IL1B, FGF2, FGF1, FGF4, PDGF induce HGF expression and production in fibroblasts</p> <p>PMID:27474009 </p> <p>HGF is a activation factor for fibroblasts</p> <p>PMID:23667593 </p> <p>Cancer-Associated Fibroblasts from Hepatocellular Carcinoma Promote Malignant Cell Proliferation by HGF Secretion</p> <p>PMID:23402812 </p> <p>Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.</p> <p>HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMA</p> <p>PMID:15059978 </p> <p>Proinvasive factors secreted by myofibroblasts are identified as TNC and SF/HGF, each of </p> <p>which is necessary but not sufficient for stimulation of invasion of human colon cancer cells</p> <p>PMID:22763439 </p> <p>HGF is present in the stromal cells of melanoma and correlates with poor response to therapy</p> </body> </html> </notes> <label text="HGF"/> <bbox w="80.0" h="40.0" x="5740.0" y="1170.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ad_sa1397_ad_sa1397" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_sa1133_degraded"/> <bbox w="30.0" h="30.0" x="30606.0" y="3455.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa38_wnc1_wnc2_sa38" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa38_wnc1_wnc2_sa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BID"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BID"/> <bbox w="80.0" h="40.0" x="17580.06" y="18404.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa105_ca_sa105" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa105_ca_sa105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CNN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CNN1"/> <bbox w="80.0" h="40.0" x="2530.0" y="4451.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1301_ad_sa1301" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:CD8</p> <p>MODULE:TH1, MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR, CASCADE:CD226, CASCADE:PD1</p> <p>PMID:12670391</p> <p>PI3K in T cells</p> <p>PMID:11135576 </p> <p>Akt provides the CD28 costimulatory signal for up-regulation of IL-2 and IFN-gamma but not TH2 cytokines.</p> <p>Phosphorylation of Akt induced by CD28 ligation via PI3K</p> <p>PMID:23087689</p> <p>PMID:23732914 </p> <p>Inhibition of CK2 during stimulation via TCR/CD3 and CD28 recapitulated the effects of PD-1 and resulted in diminished PTEN expression and phosphorylation in the C-terminal regulatory region. These events were associated with diminished activation of the PI3K/Akt pathway, as determined by impaired phosphorylation of Akt and its downstream target, GSK3β</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> <p>PMID:19406987 </p> <p>Akt activation is controlled by phosphorylation at 2 different sites, Thr308 and Ser473</p> <p>The blockade of KLRG1 signaling significantly enhanced the phosphorylation of Akt (ser473) in the CD28−CD27+ cells and CD28−CD27− cells</p> <p>KLRG1 blockade enhances CD8+ T-cell proliferation via the up-regulation of cyclin D2 and E and decrease of p27 expression</p> <p>KLRG1 mediates its effects via the PI3K pathway. Probably via SHIP1</p> <p>PMID:16962653; PMID:18566586 </p> <p>TORC2 is the elusive PDK2 for Akt/PKB Ser473 phosphorylation in the hydrophobic motif. 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD54*"/> <bbox w="80.0" h="40.0" x="14537.606" y="16917.998"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2371_in_sa2371" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17404308, 7650486, 1431106, 9374532, 7594497, 16243976, 18977329, 19732719, 10754326, 23390297, 9973469 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:CSF2, CASCADE:CSF1, CASCADE:IFNGPMID:19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)References:PMID:1431106TNF is ploinfammatory cytokine inducedtumoricidal activity of macrophagesPMID:10754326Human TNF-alpha gene has binding sites for NF-kappa B. By transient transfection,NF-kappa B p65 and p50 synergistically activated the TNF-alpha promoter.Although both the kappa B1 and kappa B3 sites bound transcriptionally active NF-kappa B p50/p65 heterodimers, only the kappaB1 site contributed to down-regulation by NF-kappa B p50 homodimers.PMID:18977329IL-1B activates MDSC in vitro and in vivo through an IL-1RI/NF-kB pathway. mRNA expression of several NF-kB target genes such is IL6, IL1B,TNF are IL1B/NFkB dependent in MSDCPMID:19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)PMID:7594497TGFB1 and IL10 dowregulate expression of TNF in macrophages.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23PMID:16243976IRF4 downregulates expression of TNFa, IL12p40, IL6 probably via inhibition of NF-kB and JNK signaling pathways.PMID:7650486, PMID:9973469, PMID:9374532NF-AT, migrates to the nucleus and activates transcription of cytokines TNF, GM-CSF , IL-2, IL-4. Fas ligand ( FasL ) and, possibly, IFNG.PMID:17404308CSF1 downregulates TNF, IL-23p19, IL-12p40 expression probably via induction of acomulation of p50 homodimer and inhibition of p65/p50 NF-kB signaling. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 17404308, 7650486, 1431106, 9374532, 7594497, 16243976, 18977329, 19732719, 10754326, 23390297, 9973469 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:APOPTOSIS_INDUCING_LIGANDS, MODULE:IMMUNOSTIMULATORY_CYTOKINE_EXPRESSIONCASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:Fc_gamma_RIII, CASCADE:TLR2_4, CASCADE:CSF2, CASCADE:CSF1, CASCADE:IFNGPMID:19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)References:PMID:1431106TNF is ploinfammatory cytokine inducedtumoricidal activity of macrophagesPMID:10754326Human TNF-alpha gene has binding sites for NF-kappa B. By transient transfection,NF-kappa B p65 and p50 synergistically activated the TNF-alpha promoter.Although both the kappa B1 and kappa B3 sites bound transcriptionally active NF-kappa B p50/p65 heterodimers, only the kappaB1 site contributed to down-regulation by NF-kappa B p50 homodimers.PMID:18977329IL-1B activates MDSC in vitro and in vivo through an IL-1RI/NF-kB pathway. mRNA expression of several NF-kB target genes such is IL6, IL1B,TNF are IL1B/NFkB dependent in MSDCPMID:19732719Inhibition of TGF-b signaling downregulates Arginase1, CCL5 and CCL2 expression and upregulates TNF, ICAM1,CCL3 expression (mRNA) in tumor neutrophiles (TAN)PMID:7594497TGFB1 and IL10 dowregulate expression of TNF in macrophages.PMID:23390297MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23PMID:16243976IRF4 downregulates expression of TNFa, IL12p40, IL6 probably via inhibition of NF-kB and JNK signaling pathways.PMID:7650486, PMID:9973469, PMID:9374532NF-AT, migrates to the nucleus and activates transcription of cytokines TNF, GM-CSF , IL-2, IL-4. Fas ligand ( FasL ) and, possibly, IFNG.PMID:17404308CSF1 downregulates TNF, IL-23p19, IL-12p40 expression probably via induction of acomulation of p50 homodimer and inhibition of p65/p50 NF-kB signaling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2371_in_sa2371"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17404308"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> 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</body> </html> </notes> <label text="ferroheme b"/> <bbox w="85.0" h="23.0" x="27854.06" y="10336.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa349_wnc1_wnc1_sa349" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa349_wnc1_wnc1_sa349"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1δ*"/> 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</extension> <label text="CCL20"/> <bbox w="70.0" h="25.0" x="1485.0" y="3441.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa312_emtc_em_csa312" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:JAG1:NOTCH1:NUMB:_beta_-Catenin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="NUMB/NOTCH/CTNNB1"/> <bbox w="185.0" h="77.0" x="1322.0" y="13983.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2151_emtc_em_sa2151"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="75.0" h="29.0" x="1416.0" y="13989.5"/> <glyph class="state variable" id="_013d6e97-3249-4368-93d2-3b6761e3075f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1486.0" y="13984.5"/> </glyph> <glyph class="state variable" id="_bfb56e98-ec14-4a6e-9c0a-c445f26fbec9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1411.0" y="13986.241"/> </glyph> <glyph class="state variable" id="_ccc45769-41bf-44bb-abe2-bb354fc74255"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1448.5299" y="13984.5"/> </glyph> <glyph class="state variable" id="_f04dab9d-db3b-47f8-9276-70584e2e5105"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1432.6804" y="13984.5"/> </glyph> <glyph class="state variable" id="_3f8ca4ab-95e6-4b6e-9d7d-f85e687d35a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1486.0" y="14011.8"/> </glyph> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Notch homolog 1</p> <p>NOTCH intracellular domains NICD</p> <p>HUGO:NOTCH1, HGNC:7881, ENTREZ:4851, GENECARDS:GC09M139388</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:20351093</p> <p>PMID:22363487</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NOTCH1"/> <bbox w="57.0" h="22.0" x="1353.5" y="13991.5"/> <glyph class="unit of information" id="_9326fd6c-a1a8-4847-ae26-9e95bc3edad9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1359.5" y="13986.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2113_emtc_em_sa2113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein numb homolog</p> <p>HUGO:NUMB, HGNC:8060, ENTREZ:8650, UNIPROT:P49757, GENECARDS:GC14M073741</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NUMB"/> <bbox w="43.0" h="19.0" x="1434.5" y="14020.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa240_ce_csa240" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRCA1:SMC1*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:11877377, PMID:15459660, PMID:19793801</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa240_ce_csa240"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11877377"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/SMC1*"/> <bbox w="113.0" h="121.0" x="14071.473" y="9506.356"/> <glyph class="macromolecule" id="s_id_ce_sa1286_ce_sa1286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> 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<state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14105.82" y="9512.005"/> </glyph> <glyph class="state variable" id="_1b478265-fd6d-4b2b-b99f-387f16f49056"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14068.568" y="9531.973"/> </glyph> <glyph class="state variable" id="_bc1a40f0-2cd1-4d1e-9387-0e768275665e"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14071.068" y="9547.475"/> </glyph> <glyph class="state variable" id="_7ebd9988-09fb-41f1-85ac-3f4d4f545785"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14148.568" y="9517.243"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1285_ce_sa1285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>structural maintenance of chromosomes 1A</p> <p>HUGO:SMC1A , HGNC:11111, ENTREZ:8243, UNIPROT:Q14683</p> <p>structural maintenance of chromosomes 1B</p> <p>HUGO:SMC1B , 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:METABOLIC References:PMID:11120745Glut1 promoter has HIF1 binding sitePMID:25732824 HIF1 upregulates GLUT1 protein levelSLC2A1 (GLUT1) is upregulated in CAFs. It provides enhanced glucose uptake by CAFs. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:PMID:11120745Glut1 promoter has HIF1 binding sitePMID:25732824 HIF1 upregulates GLUT1 protein levelSLC2A1 (GLUT1) is upregulated in CAFs. 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id="s_id_in_sa2844_in_sa2844" compartmentRef="s_id_in_ca47_in_ca47"> <label text="FcεR*"/> <bbox w="80.0" h="50.0" x="9781.25" y="597.5"/> <glyph class="state variable" id="_5245a3a5-210c-43a9-bdb1-41ee93ae1577"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9773.75" y="617.5"/> </glyph> <glyph class="unit of information" id="_90699fc0-69fb-4125-b3a9-950bb3d969b4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9798.75" y="592.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa946_ca_sa946" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:26921338 (PEDF, SERPINF1) normal dermal fibroblasts expressing high PEDF levels attenuated melanoma growth and angiogenesis in vivo, whereas PEDF-depleted fibroblasts exerted tumor-promoting effects. melanoma cells produced PDGF-BB and TGFβ, which blocked PEDF production in fibroblasts. Notably, cancer-associated fibroblasts (CAF) isolated from patient-derived tumors expressed markedly low levels of PEDF. Treatment of patient CAF and TGFβ-treated normal fibroblasts with exogenous PEDF decreased the expression of CAF markers and restored PEDF expression. Finally, expression profiling of PEDF-depleted fibroblasts revealed induction of IL8, SERPINB2, hyaluronan synthase-2, and other genes associated with tumor promotion and metastasis.PEDF treatment strongly elevated cytoplasmic PEDF levels in the activated fibroblasts, suggesting a positive feedback loop. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR References:PMID:26921338 (PEDF, SERPINF1) normal dermal fibroblasts expressing high PEDF levels attenuated melanoma growth and angiogenesis in vivo, whereas PEDF-depleted fibroblasts exerted tumor-promoting effects. melanoma cells produced PDGF-BB and TGFβ, which blocked PEDF production in fibroblasts. Notably, cancer-associated fibroblasts (CAF) isolated from patient-derived tumors expressed markedly low levels of PEDF. Treatment of patient CAF and TGFβ-treated normal fibroblasts with exogenous PEDF decreased the expression of CAF markers and restored PEDF expression. Finally, expression profiling of PEDF-depleted fibroblasts revealed induction of IL8, SERPINB2, hyaluronan synthase-2, and other genes associated with tumor promotion and metastasis.PEDF treatment strongly elevated cytoplasmic PEDF levels in the activated fibroblasts, suggesting a positive feedback loop. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa946_ca_sa946"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINF1"/> </rdf:Bag> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="P-Cadherin*"/> <bbox w="80.0" h="20.0" x="999.0" y="16379.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa927_ad_sa927" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:15079071 In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promotersPMID:16227604Expression of breakout gene Bcl-xL is dependent upon phosphatidylinositol 3-kinase.CD28 costimulation increases expression of the survival factor Bcl-xL (8), and this CD28-mediated activation is relatively resistant to the effects of CTLA-4 ligation (7) but not to those of PD-1 ligationso CTLA-4 and PD-1 blockage may have different susceptibilities to apoptosis. factors recruited to the PD-1 ITSM block CD28-mediated induction of Bcl-xL and PI3K. PMID:22017440 TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulationof Bcl-xL and Bfl-1 and downmodulation of BIM protein ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:15079071 In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promotersPMID:16227604Expression of breakout gene Bcl-xL is dependent upon phosphatidylinositol 3-kinase.CD28 costimulation increases expression of the survival factor Bcl-xL (8), and this CD28-mediated activation is relatively resistant to the effects of CTLA-4 ligation (7) but not to those of PD-1 ligationso CTLA-4 and PD-1 blockage may have different susceptibilities to apoptosis. factors recruited to the PD-1 ITSM block CD28-mediated induction of Bcl-xL and PI3K. PMID:22017440 TRAF1 and TRAF2 are required for maximal MAPK and NFjB activation downstream of 4-1BB in T cells, resulting in upregulationof Bcl-xL and Bfl-1 and downmodulation of BIM protein </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa927_ad_sa927"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15079071"/> </rdf:Bag> 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x="3998.0" y="13765.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa258_emtc_em_csa258" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FAK1*:c-SRC*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Autophosphorylation of PTK2:</p> <p>PMID:7529872</p> <p>PMID:19339212</p> <p>PMID:7657702</p> <p>PMID:16919435</p> <p>Autophosphorylation of PTK2 at Y397 creates binding site for CSK, a member of Scr family kinases.</p> <p>In response to integrin engagement with the ECM, FAK is autophosphorylated predominantly on Y397</p> <p>This Y397 is the consensus binding site for the SH2 domain of c-Src (CSK)</p> <p>PMID:11114741</p> <p>Interaction of CSK with FAK leads to phosphorylation of FAK on other tyrosine residues including Y407, 576, 577, 861, 925/</p> <p>These phosphorylation events promote PTK2 to its maximal catalytic activity.</p> <p>Upon autophosphorylation of FAK, a signaling complex of FAK, CSK binds to and can phosphorylate various adaptor proteins such as p130Cas and paxillin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa258_emtc_em_csa258"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7529872"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339212"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7657702"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16919435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11114741"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSK/PTK2"/> <bbox w="123.0" h="55.0" x="5824.0" y="18037.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1681_emtc_em_sa1681"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>c-src tyrosine kinase</p> <p>HUGO:CSK HGNC:2444 ENTREZ:1445 UNIPROT:P41240</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:18829532</p> <p>PMID:9819392</p> <p>PTK6 and CSK both can phosphorylate ARHGAP35 (p190) at Y1105</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by CSK or by PTK6.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="c-SRC*"/> <bbox w="50.0" h="18.0" x="5825.4" y="18045.5"/> <glyph class="state variable" id="_8d9ec71c-c25b-48a4-8f52-391901c4b248"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="5867.9" y="18041.283"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1680_emtc_em_sa1680"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine kinase 2</p> <p>"PTK2 protein tyrosine kinase 2"</p> <p>HUGO:PTK2 HGNC:9611 ENTREZ:5747 UNIPROT:Q05397</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="FAK1*"/> <bbox w="64.0" h="21.0" x="5878.65" y="18048.5"/> <glyph class="state variable" id="_20f68fd9-049b-4708-847e-c5bc21e01414"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="5868.65" y="18043.988"/> </glyph> <glyph class="state variable" id="_7a0e16e0-5d17-404d-b61c-7b8a321e5357"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5932.4155" y="18043.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2396_emtc_em_sa2396" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2396_emtc_em_sa2396"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOS"/> <bbox w="37.0" h="18.0" x="5893.5" y="13905.0"/> <glyph class="state variable" id="_ebb7dbfb-f06a-4696-90a8-a5ec75f6e0a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5925.5" y="13909.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1953_rc_sa1953" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16238 KEGGCOMPOUND:C00016 CAS:146-14-5</p> </body> </html> </notes> <label text="FAD"/> <clone/> <bbox w="70.0" h="25.0" x="18891.81" y="13467.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1953_rc_sa258" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16238 KEGGCOMPOUND:C00016 CAS:146-14-5</p> </body> </html> </notes> <label text="FAD"/> <clone/> <bbox w="70.0" h="25.0" x="18558.31" y="14201.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2594_in_sa2594" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CXCR4"/> <bbox w="80.0" h="50.0" x="13470.0" y="1930.0"/> <glyph class="unit of information" id="_47b91b6d-a0c1-4402-bdcf-58663d84362f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13487.5" y="1925.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4877_rc_sa4877" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="GCN4"/> <bbox w="70.0" h="25.0" x="27846.326" y="16131.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5375_rc_sa5375" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5375_rc_sa5375"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC25A4"/> <clone/> <bbox w="80.0" h="40.0" x="23389.06" y="12879.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5375_rc_sa3083" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5375_rc_sa3083"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC25A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC25A4"/> <clone/> <bbox w="80.0" h="40.0" x="20706.06" y="13961.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa120_emtc_em_csa120" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MIR449A:NOTCH1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa120_emtc_em_csa120"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22024162"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR449A/NOTCH1"/> <bbox w="109.0" h="66.0" x="3725.5" y="17984.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa733_emtc_em_sa733"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Notch homolog 1</p> <p>NOTCH intracellular domains NICD</p> <p>HUGO:NOTCH1, HGNC:7881, ENTREZ:4851, GENECARDS:GC09M139388</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20351093</p> <p>PMID:22363487</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NOTCH1"/> <bbox w="78.0" h="20.0" x="3745.5" y="18010.0"/> <glyph class="unit of information" id="_9fe0fe82-a20c-45dc-a7fa-176686839607"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3774.5" y="18005.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1836_emtc_em_sa1836"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 449a</p> <p>HUGO:MIR449A, HGNC:27645, ENTREZ:554213, GENECARDS:GC05M054466</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR449A"/> <bbox w="80.0" h="20.0" x="3746.5" y="17988.5"/> <glyph class="unit of information" id="_d939d919-ed1b-4958-88a0-c10c4970d88d"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3771.5" y="17983.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2508_emtc_em_sa2508" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2508_emtc_em_sa2508"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP15"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP15*"/> <bbox w="64.0" h="17.0" x="1814.0" y="18913.0"/> <glyph class="unit of information" id="_316d2f67-c474-4a25-aded-697a0c8e2ef5"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1821.0" y="18908.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa55_wnc1_wnc2_sa55" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa55_wnc1_wnc2_sa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAST"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Calpastatin*"/> <bbox w="80.0" h="40.0" x="18317.06" y="18111.0"/> <glyph class="state variable" id="_85423029-2b47-4290-81c3-fa18172ece07"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18312.064" y="18106.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa46_te_csa46" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERα*/estrogen</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <label text="ERα*/estrogen"/> <bbox w="100.0" h="120.0" x="6688.06" y="21403.0"/> <glyph class="macromolecule" id="s_id_te_sa348_te_sa348"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>estrogen receptor 1</p> <p>HUGO:ESR1</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="ERα*"/> <bbox w="80.0" h="50.0" x="6698.06" y="21453.0"/> <glyph class="unit of information" id="_6356bb3e-9af1-49d3-88b6-f8a54ba72b85"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6715.56" y="21448.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_te_sa349_te_sa349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>estrogen</p> <p>CHEBI:50114</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="estrogen"/> <bbox w="70.0" h="25.0" x="6702.06" y="21428.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa47_emtc_em_csa47" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TGFB1:TGFBR1:TGFBR2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Reference_bigin:</p> <p>PMID:22943793</p> <p>TGFb binds to homodimer TGFBR2 first</p> <p>TGFBR2 phosphorylates the GS domain of homodimeric TFGBR1 on serine residues</p> <p>This phosphorylation leads to incorporation of TGFBR1 and formation of a large ligand-receptor complex of fimeric TGFB and two pairs of TGFBR1 and TGFBR2</p> <p>PMID:12809600</p> <p>PMID:22710166</p> <p>The active ligand–receptor complex is a heterotetrameric complex</p> <p>This complex consists of an active dimer of TGFB and homodimers of both TGFBRI and TGFBR2. </p> <p>Within the active receptor complex, TGFBR2autophosphorylates itself and catalyzes transphosphorylation of the TGFBR1.</p> <p>Transphosphorylation of the TGFBRI activates its kinase activity.</p> <p>Reference_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa47_emtc_em_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22943793"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12809600"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22710166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFB1/TGFBR1/TGFBR2"/> <bbox w="71.0" h="140.0" x="6691.812" y="16554.75"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa420_emtc_em_sa420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor II (70/80kDa)</p> <p>HUGO:TGFBR2, HGNC:11773, ENTREZ:7048, UNIPROT:P37173, GENECARDS:GC03P030623</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="52.0" h="43.0" x="6703.562" y="16558.75"/> <glyph class="unit of information" id="_585d235d-97c6-4469-8d3f-255a3da84b11"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6719.562" y="16553.75"/> </glyph> <glyph class="state variable" id="_e9280198-eddf-4f79-93c1-e8342ddde555"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="6691.062" y="16556.332"/> </glyph> <glyph class="unit of information" id="_2496678b-0726-457b-8171-c0218e3a6838"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6707.062" y="16553.75"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa422_emtc_em_sa422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR1"/> <bbox w="54.0" h="46.0" x="6703.812" y="16629.25"/> <glyph class="unit of information" id="_f652bb5f-1a05-4db6-9ea1-f1d5054c5f87"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6720.812" y="16624.25"/> </glyph> <glyph class="state variable" id="_a4850de9-30f0-4d61-970f-c20bdc186f67"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="6691.312" y="16625.32"/> </glyph> <glyph class="state variable" id="_1cb79a8a-fea2-41e0-af75-89ae79cab862"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6752.812" y="16624.496"/> </glyph> <glyph class="unit of information" id="_7f91e281-7c58-439b-9c3c-05c2feb86e4a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6708.312" y="16624.25"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa421_emtc_em_sa421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="50.0" h="26.0" x="6706.562" y="16600.25"/> <glyph class="unit of information" id="_8378fd73-d697-4a99-ba06-3d94a9913c4e"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6721.562" y="16595.25"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa166_emtc_em_sa166" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa166_emtc_em_sa166"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIN2*"/> <bbox w="40.0" h="20.0" x="4839.5" y="15735.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa49_ce_csa49" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:LIG3:WRN</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:A_NHEJ</p> <p>References:</p> <p>Activation of WRN and Lig3 in cancers</p> <p>PMID:18524993</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa49_ce_csa49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18524993"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIG3/WRN"/> <bbox w="100.0" h="120.0" x="13831.473" y="16691.355"/> <glyph class="macromolecule" id="s_id_ce_sa589_ce_sa589"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Werner syndrome, RecQ helicase-like</p> <p>HUGO:WRN, HGNC:12791, ENTREZ:7486, UNIPROT:Q14191</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:20691907</p> <p>For A_NHEJ pathway</p> <p> (alt_NHEJ or B_NHEJ or MMEJ)</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>, PMID:21376743, PMID:24050180, PMID:22743550</p> <p>For HR pathway</p> <p>PMID:19490890, PMID:22657828 </p> <p>For BER pathway</p> <p>PMID:17116323, PMID:18398454, PMID:16449207, PMID:15385537, PMID:18558713, PMID:23161013</p> <p>WRN in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>Inhibiting WNT kills alt_NHEJ pathway</p> <p>PMID:24036544</p> <p>PARP1 inhibits WRN</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> <p>Activation of WRN in cancers</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="WRN"/> <bbox w="80.0" h="40.0" x="13845.473" y="16750.355"/> <glyph class="state variable" id="_32deaffb-da34-472c-920c-aa88c96a9f66"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13879.221" y="16745.355"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa588_ce_sa588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ligase III DNA, ATP-dependent</p> <p>HUGO:LIG3, HGNC:6600, ENTREZ:3980, UNIPROT:P49916</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:NER</p> <p>References:</p> <p>For BER:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20056333</p> <p>For NER:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> <p>Activation of WRN in cancers</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="LIG3"/> <bbox w="80.0" h="40.0" x="13843.473" y="16704.355"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa31_ce_csa31" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APLF:Artemis*:DNA-PK*:Ku70*:Ku80*:LIG4:PARP3:XLF*:XRCC4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PARP1 and PARP3 in C_NHEJ</p> <p>PMID:22469522</p> <p>APLF and PARP3</p> <p>PMID:21211721‎</p> <p>PMID:23178593</p> <p>PMID:18077224‎</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa31_ce_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22469522"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21211721‎"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23178593"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077224‎"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Artemis*/APLF/DNA-PK*/Ku70*/Ku80*/LIG4/PARP3/XLF/XRCC4"/> <bbox w="307.0" h="189.0" x="12891.473" y="16654.355"/> <glyph class="macromolecule multimer" id="s_id_ce_sa512_ce_sa512"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase, DNA-activated, catalytic polypeptide</p> <p>HUGO:PRKDC, HGNC:9413, ENTREZ:5591, UNIPROT:Q9UME3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:21376743</p> <p>PMID:21300785, PMID:21175350, PMID:20691907</p> </body> </html> </notes> <label text="DNA-PK*"/> <bbox w="80.0" h="40.0" x="13080.723" y="16711.355"/> <glyph class="unit of information" id="_21544b51-1b71-41da-b336-31d5c2906194"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="13110.723" y="16706.355"/> </glyph> <glyph class="state variable" id="_1da5843b-bc2f-4caa-9b47-69248f437591"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13075.723" y="16726.355"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa511_ce_sa511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 5 (double-strand-break rejoining)</p> <p>HUGO:XRCC5, HGNC:12833,ENTREZ:7520, UNIPROT:P13010</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, </p> <p>PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, </p> <p>PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku80*"/> <bbox w="80.0" h="40.0" x="12897.473" y="16710.855"/> <glyph class="state variable" id="_053f40da-282e-496c-b373-68bb8d9d1a90"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12915.904" y="16705.855"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa510_ce_sa510"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 6</p> <p>HUGO:XRCC6, HGNC:4055, ENTREZ:2547, UNIPROT:P12956</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, </p> <p>PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku70*"/> <bbox w="80.0" h="40.0" x="12898.473" y="16663.855"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa515_ce_sa515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XLF</p> <p>nonhomologous end-joining factor 1</p> <p>HUGO:C_NHEJ1, HGNC:25737, ENTREZ:79840, UNIPROT:Q9H9Q4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, PMID:16439205</p> </body> </html> </notes> <label text="XLF*"/> <bbox w="80.0" h="40.0" x="13071.473" y="16762.855"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa514_ce_sa514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ligase IV, DNA, ATP-dependent</p> <p>HUGO:LIG4, HGNC:6601, ENTREZ:3981, UNIPROT:P49917</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:12471202, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869</p> </body> </html> </notes> <label text="LIG4"/> <bbox w="80.0" h="40.0" x="12985.473" y="16708.855"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1582_ce_sa1582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 3</p> <p>HUGO:PARP3, HGNC:273, ENTREZ:10039, UNIPROT:Q9Y6F1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:22055391</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PARP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions (PARP3 in telomere maintenance)</p> <p>PMID:22713970, PMID:21270334</p> <p>PARP3 in HR and C_NHEJ</p> <p>PMID:22469522, PMID:196269035</p> <p>PARP3 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>APLF and PARP3 in C_NHEJ</p> <p>PMID:21211721‎</p> <p>PMID:23178593</p> <p>PMID:18077224‎</p> <p>PARP3 in C_NHEJ</p> <p>PMID:22743550</p> </body> </html> </notes> <label text="PARP3"/> <bbox w="80.0" h="40.0" x="12984.329" y="16663.07"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa513_ce_sa513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA cross-link repair 1C (PSO2 homolog, S. cerevisiae)</p> <p>HUGO:DCLRE1C, HGNC:17642, ENTREZ:64421, UNIPROT:Q5JSS7</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495</p> </body> </html> </notes> <label text="Artemis*"/> <bbox w="80.0" h="40.0" x="12986.223" y="16762.355"/> <glyph class="state variable" id="_2be4ba39-0030-46aa-ab0f-0d500ad256e3"> <state value="P" variable="S645"/> <bbox w="35.0" h="10.0" x="12969.216" y="16757.355"/> </glyph> <glyph class="state variable" id="_41e3d524-2137-4838-844c-f0b547bf3b17"> <state value="P" variable="S516"/> <bbox w="35.0" h="10.0" x="13008.755" y="16757.355"/> </glyph> <glyph class="state variable" id="_d249bacb-3f2c-42bd-91c9-798dca27f597"> <state value="P" variable="S518"/> <bbox w="35.0" h="10.0" x="13025.672" y="16757.355"/> </glyph> <glyph class="state variable" id="_291b01fc-ca42-4335-9f5e-1a0640664df5"> <state value="P" variable="S385"/> <bbox w="35.0" h="10.0" x="12992.317" y="16757.355"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1600_ce_sa1600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aprataxin and PNKP like factor</p> <p>HUGO:APLF HGNC:28724 ENTREZ:200558 UNIPROT:Q8IW19</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>APLF and PARP3 in C_NHEJ</p> <p>PMID:21211721‎</p> <p>PMID:23178593</p> <p>PMID:18077224‎</p> </body> </html> </notes> <label text="APLF"/> <bbox w="80.0" h="40.0" x="12900.598" y="16758.355"/> </glyph> <glyph class="macromolecule multimer" id="s_id_ce_sa516_ce_sa516"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 4</p> <p>HUGO:XRCC4, HGNC:12831, ENTREZ:7518, UNIPROT:Q13426</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869</p> </body> </html> </notes> <label text="XRCC4"/> <bbox w="80.0" h="40.0" x="13077.473" y="16664.855"/> <glyph class="unit of information" id="_0b4e155f-3c5d-44aa-8dd1-89a0e0b65efa"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="13107.473" y="16659.855"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa238_emtc_em_csa238" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC42:CDC42EP*:GTP</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 promotes cytoskeleton remodeling by binding to CDC42EPs (CDC42EP2 and CDC42EP3)</p> <p>PMID:10490598</p> <p>PMID:11035016</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa238_emtc_em_csa238"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10490598"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11035016"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC42/CDC42EP*"/> <bbox w="116.0" h="66.0" x="6595.0" y="14794.5"/> <glyph class="simple chemical" id="s_id_em_sa2176_em_sa2176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6669.2" y="14805.6"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1546_emtc_em_sa1546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDC42EP*</p> <p>CDC42 effector protein (Rho GTPase binding) 2</p> <p>HUGO:CDC42EP2 HGNC:16263 ENTREZ:10435 UNIPROT:O14613 </p> <p>CDC42 effector protein (Rho GTPase binding) 3</p> <p>HUGO:CDC42EP3 HGNC:16943 ENTREZ:10602 UNIPROT:Q9UKI2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 promotes cytoskeleton remodeling by binding to CDC42EPs (CDC42EP2 and CDC42EP3)</p> <p>PMID:10490598</p> <p>PMID:11035016</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDC42EP*"/> <bbox w="73.0" h="21.0" x="6610.5" y="14819.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa930_emtc_em_sa930"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 42</p> <p>HUGO:CDC42, HGNC:1736, ENTREZ:998, UNIPROT:P60953, GENECARDS:GC01P022379</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>CDC42 is a member of the RAS superfamily of small GTPases and plays an essential role in control of cell polarity, actin cytoskeleton rearrangements, protein traffickinf and directed cell movements.</p> <p>PMID:10934474</p> <p>PMID:11248548</p> <p>PMID:11340065</p> <p>PMID:15003621</p> <p>CDC42 and cell polarity:</p> <p>PMID:15020669</p> <p>CDC42 functions in vivo:</p> <p>PMID:18719708</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDC42"/> <bbox w="50.0" h="20.0" x="6610.0" y="14799.5"/> <glyph class="state variable" id="_8ddcaf33-61f9-4344-b6f7-e56e9fd34686"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6655.0" y="14794.5"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5298_rc_sa5298" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>L-selenocysteine</p> <p>CHEBI:16633</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="L-selenocysteine"/> <bbox w="70.0" h="25.0" x="27264.06" y="9736.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa414_in_sa414" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NKp46*"/> <bbox w="80.0" h="50.0" x="19135.0" y="1955.0"/> <glyph class="unit of information" id="_4ca159d3-ce4f-4fb1-8856-a3772fce3f67"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19152.5" y="1950.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa55_ce_sa55" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa55_ce_sa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATM"/> <bbox w="80.0" h="40.0" x="11964.518" y="11681.0"/> <glyph class="state variable" id="_e234e3d7-2b54-474d-8832-20fa2898a2a2"> <state value="" variable="S1981"/> <bbox w="35.0" h="10.0" x="11947.018" y="11695.968"/> </glyph> <glyph class="state variable" id="_f44c3307-8d7b-4047-b74b-1665bfd43f5c"> <state value="" variable="S1893"/> <bbox w="35.0" h="10.0" x="11947.018" y="11711.531"/> </glyph> <glyph class="state variable" id="_04e85b09-68df-4c5e-b590-1a2abd675eae"> <state value="" variable="S367"/> <bbox w="30.0" h="10.0" x="11963.665" y="11676.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa62_mo_sa62" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>eukaryotic translation initiation factor 2 subunit alpha</p> <p>eukaryotic translation initiation factor 2 subunit beta</p> <p>eukaryotic translation initiation factor 2 subunit gamma</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa62_mo_sa62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF2S1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF2S2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF2S3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="eIF2*"/> <bbox w="80.0" h="40.0" x="5276.5" y="9816.5"/> <glyph class="state variable" id="_0d2b25b2-937b-42db-8632-b3ce87c6af8c"> <state value="" variable="Ser51"/> <bbox w="35.0" h="10.0" x="5315.949" y="9811.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa977_ad_sa977" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa977_ad_sa977"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <bbox w="70.0" h="25.0" x="26931.0" y="7997.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa193_wca1_wca3_sa193" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa193_wca1_wca3_sa193"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LRP6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LRP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRP6"/> <bbox w="90.0" h="25.0" x="20923.56" y="22437.785"/> <glyph class="unit of information" id="_6237294a-3a42-4d90-b639-a9c162fad29e"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20958.56" y="22432.785"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2090_em_sa2090" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groupsConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groupsConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2090_em_sa2090"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP7"/> <clone/> <bbox w="72.0" h="18.0" x="2736.0" y="17363.5"/> <glyph class="unit of information" id="_56da323c-ff6e-478a-b50c-01a7b1cc2187"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2762.0" y="17358.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2090_mo_sa185" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groupsConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS References:PMID:16556862ROS regulate MMP gene expression and activation of proenzymes. 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GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21492.56" y="22208.0"/> <glyph class="state variable" id="_1426afb7-d7e1-432d-9026-449a55f6c08d"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21480.553" y="22203.0"/> </glyph> <glyph class="state variable" id="_eaa7dc14-e6c7-463c-9b83-d1ed46688b07"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21480.06" y="22242.72"/> </glyph> <glyph class="state variable" id="_9cef880a-7139-49ad-b05f-0f0b509c24c2"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21557.56" y="22203.213"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="21492.56" y="22155.0"/> <glyph class="state variable" id="_b3257951-10a2-495a-b35d-66f335ecaea2"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="21475.06" y="22189.72"/> </glyph> <glyph class="state variable" id="_6fb781ba-c679-488a-9dd6-4501ffa1a3fa"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21480.553" y="22150.0"/> </glyph> <glyph class="state variable" id="_b725f2aa-7167-4ff4-96c0-45ea8377bcdd"> <state value="P" variable="T1487"/> 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rdf:resource="urn:miriam:hgnc.symbol:PLK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLK1"/> <bbox w="80.0" h="40.0" x="2715.06" y="21020.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa508_rc_csa508" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATP:MT-ND4L</p> </body> </html> </notes> <label text="GCN2:ATP"/> <bbox w="100.0" h="100.0" x="27159.06" y="15239.0"/> <glyph class="macromolecule" id="s_id_rc_sa5165_rc_sa5165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 alpha kinase 4</p> <p>HUGO:EIF2AK4 hgnc_id:HGNC:19687 HGNC:19687 ENTREZ:440275 UNIPROT:Q9P2K8</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TCR_signaling_induction"/> <bbox w="270.0" h="95.0" x="28271.0" y="1932.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa532_rc_sa532" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa532_rc_sa532"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SESN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SESN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SESN1"/> <bbox w="70.0" h="25.0" x="20936.441" y="16257.367"/> </glyph> <glyph class="complex" id="s_id_rc_csa393_rc_csa393" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CFLAR:Caspase8,10*:DR4/5*:FADD:MLKL:RIPK1:RIPK3:TRAIL*</p> <p>References:</p> <p>Caspase8,10*:FADD:TRAIL*:DR4/5*:RIPK1:RIPK3:CFLAR</p> <p>20531300</p> <p>19090789</p> </body> </html> </notes> <label text="Caspase8,10*:FADD:TRAIL*:DR4/5*"/> <bbox w="301.0" h="222.0" x="25248.748" y="9048.414"/> <glyph class="macromolecule" id="s_id_rc_sa3909_rc_sa3913"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25347.498" y="9163.57"/> <glyph class="state variable" id="_cd62edd2-61d6-4ea3-9a3a-e5aabedc267e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25337.498" y="9170.286"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3937_rc_sa3937"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mixed lineage kinase domain-like</p> <p>HUGO:MLKL HGNC:26617 ENTREZ:197259 UNIPROT:Q8NB16</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> <p>PMID:24366341</p> <p>PMID:26024392</p> <p>PMID:26853145</p> <p>Sequential Engagement of Distinct MLKL Phosphatidylinositol-Binding Sites Executes Necroptosis.</p> <p>PMID:28498367</p> </body> </html> </notes> <label text="MLKL"/> <bbox w="80.0" h="40.0" x="25259.373" y="9209.586"/> <glyph class="state variable" id="_0ea6c5a4-755b-4a10-9a3d-54d9e4d0833d"> <state value="" variable="S358"/> <bbox w="30.0" h="10.0" x="25267.969" y="9204.586"/> </glyph> <glyph class="state variable" id="_31200bb5-c9de-4ccc-8179-ad3c255b35ed"> <state value="" variable="T357"/> <bbox w="30.0" h="10.0" x="25244.373" y="9216.093"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3902_rc_sa3905"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25362.498" y="9108.57"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3900_rc_sa3903"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="25442.498" y="9063.57"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3872_rc_sa3872"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASP8 and FADD-like apoptosis regulator</p> <p>HUGO:CFLAR HGNC:1876 ENTREZ:8837 UNIPROT:O15519</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:15760909</p> <p>PMID:19838173</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce </p> </body> </html> </notes> <label text="CFLAR"/> <bbox w="80.0" h="40.0" x="25259.998" y="9160.758"/> <glyph class="state variable" id="_56e57a72-1a32-4eef-95b3-db0a987e34a2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25311.566" y="9155.758"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3909_rc_sa3912"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25357.498" y="9173.57"/> <glyph class="state variable" id="_e559afc2-3345-48cf-8dd3-894453fac938"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25347.498" y="9180.286"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3901_rc_sa3904"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="25442.498" y="9108.57"/> <glyph class="state variable" id="_852d24b9-b0de-4ad5-add6-1d350cab91de"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="25514.998" y="9128.57"/> </glyph> <glyph class="state variable" id="_2a57634a-db89-4048-9890-e43aae2e8e1f"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25472.498" y="9153.57"/> </glyph> <glyph class="unit of information" id="_a0fad303-f130-42a6-8ded-2da704634e5d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25459.998" y="9103.57"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3901_rc_sa3907"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="25452.498" y="9118.57"/> <glyph class="state variable" id="_1ceea285-0802-4558-ac59-70d535227233"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="25524.998" y="9138.57"/> </glyph> <glyph class="state variable" id="_25492941-7427-4885-9ed9-566abca3dcfa"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25482.498" y="9163.57"/> </glyph> <glyph class="unit of information" id="_d26c06b0-5ad6-4234-b74a-f3a19081c576"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25469.998" y="9113.57"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3935_rc_sa3935"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="25258.748" y="9108.414"/> <glyph class="state variable" id="_1fcc4ee8-064a-4a47-8095-861d84f0ffa0"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="25323.748" y="9114.663"/> </glyph> <glyph class="state variable" id="_d1da64e3-59b5-4ea6-b8f8-5b9f7665ffc4"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="25300.078" y="9143.414"/> </glyph> <glyph class="state variable" id="_870a5b68-31a8-42f5-a872-d56f348da89b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25296.584" y="9103.414"/> </glyph> <glyph class="state variable" id="_6a4d458b-2e5a-4155-ae51-ed796a134211"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25253.748" y="9114.586"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3900_rc_sa3906"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="25452.498" y="9073.57"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3902_rc_sa3902"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25352.498" y="9098.57"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3936_rc_sa3936"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor-interacting serine-threonine kinase 3</p> <p>HUGO:RIPK3 HGNC:10021 ENTREZ:11035 UNIPROT:Q9Y572</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:23010170</p> <p>PMID:27558815</p> <p>PMID:23073834</p> <p>PMID:19524512</p> <p>PMID:19632174</p> <p>PMID:19498109</p> <p>PMID:19524513</p> <p>The kinase activity of RIP3 is essential for necrosis execution.</p> <p>PMID:26024392</p> <p>The phosphorylation of Ser345 is not required for the interaction between RIPK3 and MLKL in the necrosome, but is essential for MLKL translocation, accumulation in the plasma membrane, and consequent necroptosis.</p> <p>PMID:26900751</p> <p>CHIP controls necroptosis through ubiquitylation- and lysosome-dependent degradation of RIPK3.</p> </body> </html> </notes> <label text="RIPK3"/> <bbox w="80.0" h="40.0" x="25259.373" y="9059.586"/> <glyph class="state variable" id="_b262c01e-a02f-4073-9080-0905284e6ccc"> <state value="" variable="S199"/> <bbox w="30.0" h="10.0" x="25301.322" y="9054.586"/> </glyph> <glyph class="state variable" id="_96e22e5e-a0bf-47dd-a61d-c3668e3cafeb"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="25244.865" y="9054.586"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3900_rc_sa3900"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor (ligand) superfamily, member 10</p> <p>HUGO:TNFSF10 HGNC:11925 ENTREZ:8743 UNIPROT:P50591</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:9242610</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> <p>PMID:8777713</p> <p>Also known as APO2L, TNFSF10</p> </body> </html> </notes> <label text="TRAIL*"/> <bbox w="80.0" h="40.0" x="25432.498" y="9053.57"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3909_rc_sa3909"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25367.498" y="9183.57"/> <glyph class="state variable" id="_5be433e0-b638-475a-8514-6079fd599cd5"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25357.498" y="9190.286"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3902_rc_sa3908"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25372.498" y="9118.57"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3901_rc_sa3901"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>TRAIL receptor 1 and 2</p> <p>PMID:20531300</p> <p>PMID:19090789</p> <p>PMID:9242610</p> </body> </html> </notes> <label text="DR4/5*"/> <bbox w="80.0" h="50.0" x="25432.498" y="9098.57"/> <glyph class="state variable" id="_e092b0a1-5b44-4a3a-8412-4e7945f7abfa"> <state value="G" variable=""/> <bbox w="15.0" h="10.0" x="25504.998" y="9118.57"/> </glyph> <glyph class="state variable" id="_08bf712e-cc9b-401c-8d35-546b4a2c6011"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25462.498" y="9143.57"/> </glyph> <glyph class="unit of information" id="_08120e27-1053-41c8-9587-5b6e4736dbcd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25449.998" y="9093.57"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2562_rc_sa2562" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2562_rc_sa2562"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP5A1"/> <bbox w="80.0" h="40.0" x="20170.99" y="13616.976"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa132_emtc_em_csa132" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR200C:SMAD2_TGFB2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>PMID:20706219</p> <p>BIM1 and TGFB2 are targeted by MIR200C</p> <p>PMID:22753312</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa132_emtc_em_csa132"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21224848"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22753312"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MIR200C/SMAD2_TGFB2*)"/> <bbox w="165.0" h="60.0" x="3452.5" y="17815.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1853_emtc_em_sa1853"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 200c</p> <p>HUGO:MIR200C, HGNC:31580, ENTREZ:406985, GENECARDS:GC12P007072</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR200C"/> <bbox w="84.0" h="17.0" x="3510.5" y="17816.5"/> <glyph class="unit of information" id="_78df1697-b6aa-4bdd-a811-163acf21b3c2"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3537.5" y="17811.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1855_emtc_em_sa1855"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD2_TGFB2*</p> <p>SMAD family member 2</p> <p>"MAD, mothers against decapentaplegic homolog 2 (Drosophila)", MADH2, "SMAD, mothers against DPP homolog 2 (Drosophila)"</p> <p>HUGO:SMAD2 HGNC:6768 ENTREZ:4087 UNIPROT:Q15796</p> <p>transforming growth factor, beta 2</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>PMID:20706219</p> <p>BIM1 and TGFB2 are targeted by MIR200C</p> <p>PMID:22753312</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2_TGFB2*"/> <bbox w="148.0" h="20.0" x="3467.5" y="17834.5"/> <glyph class="unit of information" id="_4628f19e-65d3-400c-8a6c-93223d310732"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3531.5" y="17829.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa819_ca_sa819" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF References:CASCADE:IL1, CASCADE:FGF, CASCADE:PDGF, CASCADE:HGFPMID:9242465IL1B, FGF2, FGF1, FGF4, PDGF induce HGF expression and production in fibroblasts ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF References:CASCADE:IL1, CASCADE:FGF, CASCADE:PDGF, CASCADE:HGFPMID:9242465IL1B, FGF2, FGF1, FGF4, PDGF induce HGF expression and production in fibroblasts </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa819_ca_sa819"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9242465"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9242465"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HGF"/> <bbox w="90.0" h="25.0" x="4055.0" y="4342.5"/> <glyph class="unit of information" id="_082226b1-a264-418b-bdbe-8e612c2c3890"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4090.0" y="4337.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa235_akt1_akt1_sa235" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa235_akt1_akt1_sa235"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF4B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF4B"/> <bbox w="80.0" h="40.0" x="12527.061" y="19044.0"/> <glyph class="state variable" id="_035c962b-45a2-47b9-86f1-82cd581059d4"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="12512.553" y="19039.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa258_ce_csa258" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATR:ATRIP:CHEK1:CLSPN:PCNA:TIM1*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>Stalled replication forks induce PCNA mono-ubiquitylation and formation of the complex that activated TLS and arrests S-phase</p> <p>PMID:19793801, PMID:17582221, PMID:19158510, PMID:18451105</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa258_ce_csa258"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17582221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19158510"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18451105"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATR/ATRIP/CHEK1/PCNA/TIM1*"/> <bbox w="272.0" h="118.0" x="13184.473" y="13225.356"/> <glyph class="macromolecule" id="s_id_ce_sa1353_ce_sa1353"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATR interacting protein</p> <p>HUGO:ATRIP, HGNC:33499, ENTREZ:84126, UNIPROT:Q9HA30</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:15798197, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="ATRIP"/> <bbox w="80.0" h="40.0" x="13190.428" y="13230.707"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1352_ce_sa1352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia and Rad3 related</p> <p>HUGO:ATR, HGNC:882, ENTREZ:545, UNIPROT:Q13535</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="ATR"/> <bbox w="80.0" h="40.0" x="13194.428" y="13276.707"/> <glyph class="state variable" id="_f38f0c90-a56a-4f4a-a534-529178229812"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13186.928" y="13291.707"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1350_ce_sa1350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="13365.005" y="13233.836"/> <glyph class="state variable" id="_a686e9c6-ea53-4a17-9dee-d8aefa5e785c"> <state value="Ub" variable="K164"/> <bbox w="40.0" h="10.0" x="13345.005" y="13248.836"/> </glyph> <glyph class="state variable" id="_9929f351-584f-4136-8e2e-ef3262c8db6a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13360.006" y="13268.836"/> </glyph> <glyph class="state variable" id="_bb80e136-e4be-4030-b2cc-34cb2a64942a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13383.437" y="13268.836"/> </glyph> <glyph class="state variable" id="_83f6b106-a117-41ec-984e-6d1ebaccfd84"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13400.005" y="13268.836"/> </glyph> <glyph class="state variable" id="_88745d30-a461-470a-960e-068c86bc9ce8"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="13353.988" y="13228.836"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1363_ce_sa1363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claspin</p> <p>HUGO:CLSPN, HGNC:19715, ENTREZ:63967, UNIPROT:Q9HAW4</p> <p>PMID:17303408, PMID:16880517, PMID:16934469</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:19793801, PMID:17582221, PMID:18677104, PMID:17384638, PMID:12766152</p> </body> </html> </notes> <label text="CLSPN"/> <bbox w="80.0" h="40.0" x="13358.933" y="13275.391"/> <glyph class="state variable" id="_9877126c-876c-440f-a118-fdc7d0af4c7a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13431.433" y="13282.106"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1354_ce_sa1354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHK1 checkpoint homolog (S. pombe)</p> <p>HUGO:CHEK1, HGNC:1925, ENTREZ:1111, UNIPROT:O14757</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="CHEK1"/> <bbox w="80.0" h="40.0" x="13275.428" y="13232.421"/> <glyph class="state variable" id="_05294587-6e5a-44e9-836f-8d4fd470f1e6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13267.928" y="13247.421"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1351_ce_sa1351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>timeless homolog (Drosophila)</p> <p>HUGO:TIMELESS, HGNC:11813, ENTREZ:8914, UNIPROT:Q9UNS1</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17102137, PMID:17116885, PMID:12875843, PMID:17296725, PMID:15798197</p> <p>Role of TIM/TIPIN complex in DNA replication</p> <p>PMID:17141802, PMID:12875843</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="TIM1*"/> <bbox w="80.0" h="40.0" x="13277.428" y="13276.421"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa501_ca_sa501" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS References:CASCADE:TGFBPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa501_ca_sa501"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6ST"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6ST"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="gp130"/> <bbox w="90.0" h="25.0" x="435.0" y="2777.5"/> <glyph class="unit of information" id="_40c61c9e-4a97-4e0c-adca-a29117504a5c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="470.0" y="2772.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa98_emtc_em_sa98" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa98_emtc_em_sa98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmoplakin*"/> <bbox w="100.0" h="20.0" x="2940.0" y="16907.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1896_emtc_em_sa1896" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1896_emtc_em_sa1896"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <clone/> <bbox w="34.0" h="20.0" x="3256.0" y="16254.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1896_wnc1_wnc3_sa10" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1896_wnc1_wnc3_sa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <clone/> <bbox w="80.0" h="40.0" x="15399.061" y="20620.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa384_in_sa384" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="B7H6*"/> <bbox w="70.0" h="25.0" x="18905.0" y="447.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa449_in_sa449" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 16177062, 11390470</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa449_in_sa449"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16177062"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11390470"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="3BP2*"/> <bbox w="80.0" h="40.0" x="21825.0" y="1570.0"/> <glyph class="state variable" id="_1114f445-1001-4882-a518-572075b61991"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21817.5" y="1585.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa53_mo_sa53" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa53_mo_sa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-cadherin*"/> <bbox w="80.0" h="40.0" x="2891.0" y="10153.0"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa208_mo_sa208" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Intermediate filaments disasembly"/> <bbox w="190.0" h="65.0" x="5062.0" y="11818.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa491_ca_sa491" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa491_ca_sa491"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL12"/> <bbox w="90.0" h="25.0" x="1015.0" y="3773.5"/> <glyph class="unit of information" id="_2b711ea9-d4eb-430a-ba7d-bb2c17dfad4f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1050.0" y="3768.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa441_rc_csa441" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NRIF*:SQSTM1</p> <p>References:</p> <p>16252010</p> </body> </html> </notes> <label text="NRIF*:SQSTM1"/> <bbox w="108.0" h="135.0" x="25345.31" y="16331.5"/> <glyph class="macromolecule" id="s_id_rc_sa4252_rc_sa4252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin beta 3 binding protein (beta3-endonexin)</p> <p>HUGO:ITGB3BP HGNC:6157 ENTREZ:23421 UNIPROT:Q13352</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:15721744</p> <p>PMID:16252010</p> <p>NRIF is a substrate for TRAF6-mediated K63 polyubiquitination and that this modification is necessary for its nuclear translocation.</p> </body> </html> </notes> <label text="NRIF*"/> <bbox w="80.0" h="40.0" x="25362.81" y="16346.5"/> <glyph class="state variable" id="_f27bbf8e-3d08-4006-a213-71c36acfdb0e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25409.379" y="16341.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4251_rc_sa4251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sequestosome 1</p> <p>HUGO:SQSTM1 HGNC:11280 ENTREZ:8878 UNIPROT:Q13501</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:FAS_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:26587781</p> <p>Sequestosme 1, p62</p> <p>PMID:20531300</p> <p>PMID:16252010</p> <p>PMID:15340068</p> <p>Sequestosome 1/p62 is a polyubiquitin chain binding protein involved in ubiquitin proteasome degradation.PMID:19450509</p> <p>polyubiquitination of caspase-8, rather than targeting it for proteasomal degradation, is critical for sustaining caspase-8 activity after dissociation from the DISC</p> <p>PMID:28574505</p> </body> </html> </notes> <label text="SQSTM1"/> <bbox w="80.0" h="40.0" x="25362.81" y="16396.5"/> <glyph class="state variable" id="_3d3f1942-2e84-447f-978c-53db4b61da2b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25414.379" y="16391.5"/> </glyph> <glyph class="state variable" id="_796901e4-6770-4acc-bb45-de927cb56b64"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25397.81" y="16431.5"/> </glyph> <glyph class="state variable" id="_c98ddbca-ba9b-4fc0-b9a8-c001d40684e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25381.242" y="16391.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa38_wca1_wca1_csa38" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:GSK3*:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> <p>s_wca1_re38(MAP:survival):</p> <p>PMID:20229235 PMID:18077588</p> <p>ANNOTATION:GSK3 phosphorylates first @ S1490 followed by CK1 in the repeat PPSP A</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa38_wca1_wca1_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="480.0" h="345.0" x="21500.56" y="18468.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa282_wca1_wca1_sa275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21542.06" y="18577.0"/> <glyph class="unit of information" id="_683ba431-08cf-4965-9af0-1bcac607014a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21559.56" y="18572.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa288_wca1_wca1_sa288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21544.56" y="18727.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa273_wca1_wca1_sa280"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21892.56" y="18564.0"/> <glyph class="state variable" id="_30d55c46-7731-44e2-8933-7c039029d941"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21878.053" y="18559.0"/> </glyph> <glyph class="state variable" id="_8dbc780c-eea3-47ba-ae2e-9b7855d7a711"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21917.592" y="18559.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa284_wca1_wca1_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21758.81" y="18627.0"/> <glyph class="state variable" id="_faa1c581-306d-41e3-b52b-dbee66831db0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21831.31" y="18622.0"/> </glyph> <glyph class="state variable" id="_c4f03ded-c307-4744-a8f6-51e2dc906713"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21741.31" y="18661.72"/> </glyph> <glyph class="state variable" id="_046ebe9c-9001-4ab1-86e6-b08a8c5fef60"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21753.814" y="18622.0"/> </glyph> <glyph class="state variable" id="_d5538c77-60e9-493b-a001-5ef8c94717c5"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21820.691" y="18662.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa689_wca1_wca1_sa689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="21576.81" y="18620.0"/> <glyph class="state variable" id="_599cb7cc-cd70-4070-8a0f-921a299ae8ae"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21564.803" y="18615.0"/> </glyph> <glyph class="state variable" id="_351595e1-f82a-4a62-b5d0-9e842560c41a"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="21559.31" y="18654.72"/> </glyph> <glyph class="state variable" id="_54558770-4e61-48fa-94ef-c371be864202"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="21638.691" y="18655.0"/> </glyph> <glyph class="state variable" id="_82e0e320-c47c-49d7-a464-f77f748c3be9"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="21559.803" y="18615.0"/> </glyph> <glyph class="state variable" id="_af29e72e-f705-488a-944b-18a4a5bd2921"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="21639.31" y="18615.213"/> </glyph> <glyph class="state variable" id="_822c42df-0c0d-4391-952d-f633cc415113"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="21599.215" y="18655.0"/> </glyph> <glyph class="state variable" id="_4f271770-c411-4050-87cc-192dcb941aa1"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="21639.31" y="18654.133"/> </glyph> <glyph class="state variable" id="_5dc69fd4-9376-44d3-b467-32ca0801e8b6"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="21599.342" y="18615.0"/> </glyph> <glyph class="state variable" id="_908428f1-bdf6-41fc-816f-3f279af84b98"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="21559.31" y="18654.72"/> </glyph> <glyph class="state variable" id="_bac772cc-ea8f-4f5c-866a-2541e4d76619"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="21559.803" y="18615.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa278_wca1_wca1_sa285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21795.56" y="18730.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa299_wca1_wca1_sa299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21881.06" y="18681.0"/> <glyph class="state variable" id="_24e5911c-5b63-4084-8981-779da8c40f25"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21874.053" y="18676.0"/> </glyph> <glyph class="state variable" id="_8ac3e432-8830-4d27-b15a-405356912059"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21953.56" y="18676.213"/> </glyph> <glyph class="state variable" id="_be931339-c02a-4029-856c-37f67ae0fe17"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21868.56" y="18715.72"/> </glyph> <glyph class="state variable" id="_20a79acc-bef3-42a2-96d4-3e27cd46b166"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21946.06" y="18676.213"/> </glyph> <glyph class="state variable" id="_8bad7dc0-f3f7-4b39-a772-d06f7e8f091c"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21945.441" y="18716.0"/> </glyph> <glyph class="state variable" id="_c8254c0b-aae0-430d-898e-c34bcbb6ae99"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21908.465" y="18716.0"/> </glyph> <glyph class="state variable" id="_93614d87-9d1a-461c-94bd-2913f8dd3177"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21905.965" y="18716.0"/> </glyph> <glyph class="state variable" id="_c5d92e8b-0184-41d8-b675-e58dd55ff759"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21866.06" y="18715.72"/> </glyph> <glyph class="state variable" id="_fffd3de8-3605-490d-9765-9f1578b3fe17"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21908.592" y="18676.0"/> </glyph> <glyph class="state variable" id="_ba13754e-11d6-433b-9523-50c6e4b81ad8"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21869.053" y="18676.0"/> </glyph> <glyph class="state variable" id="_fd250074-15bb-4a16-b3df-dfbc3061000c"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21947.941" y="18716.0"/> </glyph> <glyph class="state variable" id="_43cb5da9-c99c-491f-831f-ec9fd0caa871"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21876.064" y="18676.0"/> </glyph> <glyph class="state variable" id="_363296fb-9259-43b2-a4e5-9ca1bdc21d7a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21956.06" y="18676.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa620_wca1_wca1_sa620"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21770.06" y="18515.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa418_wca1_wca1_sa418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21892.56" y="18523.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa620_wca1_wca1_sa605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21560.06" y="18515.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa278_wca1_wca1_sa278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21628.56" y="18728.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa274_wca1_wca1_sa281"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21890.56" y="18604.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa418_wca1_wca1_sa419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="21673.56" y="18519.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa291_wca1_wca1_sa292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21758.06" y="18535.0"/> <glyph class="state variable" id="_7b9389b6-7daf-47ab-8a20-ed11701ba0de"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21738.06" y="18554.96"/> </glyph> <glyph class="state variable" id="_5e7125cd-f98f-44b0-92e6-7a1f0f916ca3"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="21818.06" y="18530.266"/> </glyph> <glyph class="state variable" id="_73d0a4fd-8c71-40d7-94f8-3654b16001d9"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="21817.441" y="18580.0"/> </glyph> <glyph class="state variable" id="_924c4a22-63f6-4535-9e9b-e1fd6277e8bf"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="21779.664" y="18580.0"/> </glyph> <glyph class="state variable" id="_d121d20e-b93a-4224-89ae-e6482934f35e"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="21740.8" y="18580.0"/> </glyph> <glyph class="state variable" id="_df66f2b4-07be-4832-b03f-f1ba0239aa08"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="21778.092" y="18530.0"/> </glyph> <glyph class="unit of information" id="_203b84c7-b15b-446d-a80c-8e36c19becc4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21775.56" y="18530.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa659_wca1_wca1_sa659"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21503.242" y="18551.727"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa287_wca1_wca1_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21630.06" y="18679.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa299_wca1_wca1_sa293"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21716.06" y="18681.0"/> <glyph class="state variable" id="_c18447a6-2f88-4410-9806-3acc4a24e3bb"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21709.053" y="18676.0"/> </glyph> <glyph class="state variable" id="_c35044ce-3dda-483a-9559-63a0968c0011"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21788.56" y="18676.213"/> </glyph> <glyph class="state variable" id="_e0370e53-252f-4ca8-b80f-4ebe2631bf70"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21703.56" y="18715.72"/> </glyph> <glyph class="state variable" id="_23437884-eb3e-4a1b-af36-2ce30b123267"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21781.06" y="18676.213"/> </glyph> <glyph class="state variable" id="_68a35640-7984-4333-902a-3792d26e48fc"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21780.441" y="18716.0"/> </glyph> <glyph class="state variable" id="_d267fa49-33ef-40b3-8c72-67c4d44f7ca3"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21743.465" y="18716.0"/> </glyph> <glyph class="state variable" id="_52ce42c0-58b2-423b-911e-5166d7b8b875"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21740.965" y="18716.0"/> </glyph> <glyph class="state variable" id="_cb193592-f416-451f-b1e8-a7fb6ecba69a"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21701.06" y="18715.72"/> </glyph> <glyph class="state variable" id="_9fa49045-6dd6-4c81-a1ac-5ef11f57bb6d"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21743.592" y="18676.0"/> </glyph> <glyph class="state variable" id="_23dbb3ba-01b2-433e-9357-45d6e88797cf"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21704.053" y="18676.0"/> </glyph> <glyph class="state variable" id="_95eda19a-2ecc-4d67-ae72-ac1363dbda6b"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21782.941" y="18716.0"/> </glyph> <glyph class="state variable" id="_3803bace-935b-4589-941b-bb4b24149eb2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21711.064" y="18676.0"/> </glyph> <glyph class="state variable" id="_4440dd45-cf5e-4684-8451-01802264343d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21791.06" y="18676.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa506_wca1_wca1_sa506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21841.31" y="18646.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa273_wca1_wca1_sa273"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21676.56" y="18562.0"/> <glyph class="state variable" id="_fe5892e2-cebb-45ec-b7f4-c3b26291a517"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21662.053" y="18557.0"/> </glyph> <glyph class="state variable" id="_e1b5651b-c135-4126-b7a6-90d0d46071bc"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21701.592" y="18557.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa562_wca1_wca1_sa561"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21630.56" y="18754.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa274_wca1_wca1_sa274"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21674.56" y="18602.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa288_wca1_wca1_sa298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21879.56" y="18725.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa562_wca1_wca1_sa562"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="21795.56" y="18756.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa282_wca1_wca1_sa282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21758.06" y="18579.0"/> <glyph class="unit of information" id="_07b0a3a5-22f4-4064-9cd1-ae84e61b22f9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21775.56" y="18574.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa279_wca1_wca1_sa279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21838.56" y="18483.0"/> <glyph class="state variable" id="_ef9233ae-c92a-4939-9ced-d03d178c679f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21886.56" y="18478.0"/> </glyph> <glyph class="state variable" id="_e3114bb1-6bce-4988-a91d-08d06638ccce"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21876.56" y="18478.652"/> </glyph> <glyph class="state variable" id="_a6939f81-59c5-4593-9365-603f1efbef5f"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21874.629" y="18601.0"/> </glyph> <glyph class="state variable" id="_a726691c-0a39-4882-ac0f-b9c6a06a2eb8"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21824.404" y="18478.0"/> </glyph> <glyph class="state variable" id="_9df313c6-c2cb-4e35-962c-1014be83ee26"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21823.719" y="18601.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa279_wca1_wca1_sa272"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21622.56" y="18481.0"/> <glyph class="state variable" id="_ec573355-0c40-45ec-b7c9-e47c856965c4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21670.56" y="18476.0"/> </glyph> <glyph class="state variable" id="_3b828b22-d3e1-441c-9474-678cbf440847"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21660.56" y="18476.652"/> </glyph> <glyph class="state variable" id="_8746809d-c22f-4f51-95cb-153353903d20"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21658.629" y="18599.0"/> </glyph> <glyph class="state variable" id="_9e67ed21-ea9b-4bd1-a415-53c0bf831034"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21608.404" y="18476.0"/> </glyph> <glyph class="state variable" id="_ce2c2180-d2fa-4d15-b54d-415496552eaf"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21607.719" y="18599.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa588_wca1_wca1_sa589"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21674.06" y="18477.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa284_wca1_wca1_sa277"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21542.81" y="18625.0"/> <glyph class="state variable" id="_1ca0e5fd-678a-49db-ae87-7379c62ef187"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21615.31" y="18620.0"/> </glyph> <glyph class="state variable" id="_898264a8-9850-40bc-843e-c1a86b94fed8"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="21525.31" y="18659.72"/> </glyph> <glyph class="state variable" id="_6f993694-aaeb-40eb-aa48-2df9fbf59150"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21537.814" y="18620.0"/> </glyph> <glyph class="state variable" id="_0aafe9dd-2294-4134-b1cb-1062421a92e4"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="21604.691" y="18660.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa507_wca1_wca1_sa507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21882.31" y="18646.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa291_wca1_wca1_sa291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21542.06" y="18533.0"/> <glyph class="state variable" id="_0f9f0841-38ba-461c-9a06-428ecfff5522"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="21522.06" y="18552.96"/> </glyph> <glyph class="state variable" id="_2e012ddc-285a-4a8b-ac84-c63023facccb"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="21602.06" y="18528.266"/> </glyph> <glyph class="state variable" id="_b4aba6bf-9e60-4891-8fba-0d90c45f27af"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="21601.441" y="18578.0"/> </glyph> <glyph class="state variable" id="_aa7e9b92-651d-4d36-abaf-8aaa5b4c314d"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="21563.664" y="18578.0"/> </glyph> <glyph class="state variable" id="_058a083c-021e-4183-8946-fc5b4b13336a"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="21524.8" y="18578.0"/> </glyph> <glyph class="state variable" id="_735276f1-0220-48c4-99ef-8d8b8f5e740f"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="21562.092" y="18528.0"/> </glyph> <glyph class="unit of information" id="_718d7119-267b-48f3-a876-08232d5c1b59"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21559.56" y="18528.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa507_wca1_wca1_sa509"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21666.31" y="18645.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa588_wca1_wca1_sa588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="21892.56" y="18482.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa287_wca1_wca1_sa296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="21800.06" y="18681.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa299_wca1_wca1_sa286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="21545.06" y="18679.5"/> <glyph class="state variable" id="_0953f6c3-8448-4657-a879-c345d8bf5238"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21538.053" y="18674.5"/> </glyph> <glyph class="state variable" id="_e7d1fa87-77e0-4b1f-ae73-6c4e56716804"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="21617.56" y="18674.713"/> </glyph> <glyph class="state variable" id="_7c8b9d26-edce-4016-baa4-db5b426b49f0"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21532.56" y="18714.22"/> </glyph> <glyph class="state variable" id="_6adba5f8-c9cd-4517-b8b5-4b80307de8ad"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="21610.06" y="18674.713"/> </glyph> <glyph class="state variable" id="_50b48d86-56a4-4e22-8451-689dfdbb8ddb"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="21609.441" y="18714.5"/> </glyph> <glyph class="state variable" id="_6be79f82-e623-4425-8f9a-fe38138d12bb"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="21572.465" y="18714.5"/> </glyph> <glyph class="state variable" id="_9ac44bfd-bb3d-4239-b346-0d5a8dccbb47"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="21569.965" y="18714.5"/> </glyph> <glyph class="state variable" id="_04e2683e-6641-4d66-8610-c4889976036e"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="21530.06" y="18714.22"/> </glyph> <glyph class="state variable" id="_1c54a3d2-f57b-4b7f-b2f8-b0bab7b1295c"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="21572.592" y="18674.5"/> </glyph> <glyph class="state variable" id="_49a54cbb-7234-4963-a52b-a11cd00d2895"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="21533.053" y="18674.5"/> </glyph> <glyph class="state variable" id="_9d6c8212-571a-49e3-a98e-5e2b9a5fb930"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="21611.941" y="18714.5"/> </glyph> <glyph class="state variable" id="_266a0bcc-ed56-4f47-9d07-42e299cdbcc8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21540.064" y="18674.5"/> </glyph> <glyph class="state variable" id="_c5b91485-99f4-4802-a4fe-693f51e662f9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21620.06" y="18674.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa506_wca1_wca1_sa508"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21625.31" y="18645.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa288_wca1_wca1_sa294"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="21712.56" y="18724.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4615_rc_sa4615" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4615_rc_sa4615"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAB5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAB5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAB5*"/> <bbox w="70.0" h="25.0" x="24803.56" y="16222.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa125_ca_sa125" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:CASCADE:TGFB, CASCADE:HGFPMID:19747910Through paracrine signaling molecules, TGF-beta and IL-1beta, cancer cells activate stromal fibroblasts and induce the expression of fibroblast activation protein (FAP). FAP, in turn, affects the proliferation, invasion and migration of the cancer cells. We report that TGF-beta and IL-1beta are important factors in inducing differentiation of myofibroblasts and expression of functional markers, notably alpha-SMA.PMID:23034983; PMID:18423981 TGFb upregulates gene expression of FAP, probably via SMAD3PMID:23402812 Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMA ----- content merged by Celldesigner to SBGN-ML translation ------ References:CASCADE:TGFB, CASCADE:HGFPMID:19747910Through paracrine signaling molecules, TGF-beta and IL-1beta, cancer cells activate stromal fibroblasts and induce the expression of fibroblast activation protein (FAP). FAP, in turn, affects the proliferation, invasion and migration of the cancer cells. We report that TGF-beta and IL-1beta are important factors in inducing differentiation of myofibroblasts and expression of functional markers, notably alpha-SMA.PMID:23034983; PMID:18423981 TGFb upregulates gene expression of FAP, probably via SMAD3PMID:23402812 Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMA </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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rdf:resource="urn:miriam:hgnc.symbol:EIF4E"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF4E"/> <bbox w="60.0" h="20.0" x="6080.0" y="13823.0"/> <glyph class="state variable" id="_737c4484-7b83-4db1-b401-dcc07fa562aa"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6072.5" y="13818.439"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa158_emtc_em_csa158" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:p53*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:14963330</p> <p>Cytosolic localization of endogenous p53 was necessary and sufficient for apoptosis. </p> <p>p53 directly activated the pro-apoptotic BCL2 protein Bax in the absence of other proteins to permeabilize mitochondria and engage the apoptotic program.</p> <p>It was proposed that when p53 accumulates in the cytosol, it can function analogously to the pro-apoptotic BAX protein to activate Bax and trigger apoptosis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa158_emtc_em_csa158"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14963330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX/TP53"/> <bbox w="66.0" h="64.0" x="4509.0" y="13701.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa899_emtc_em_sa899"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein </p> <p>HUGO:BAX, HGNC:959, ENTREZ:581, UNIPROT:Q07812, GENECARDS:GC19P049458</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:8358790</p> <p>Bax homodimerizes and forms heterodimers with BCL2 in vivo.</p> <p>Overexpressed Bax accelerates apoptotic death induced by cytokine deprivation in an IL-3-dependent cell line. </p> <p>Overexpressed Bax also counters the death repressor activity of BCL2.</p> <p>These data suggest a model in which the ratio of BCL2 to Bax determines survival or death following an apoptotic stimulus.</p> <p>PMID:7644501</p> <p>The susceptibility to apoptosis is determined by multiple competing dimerizations in which Bax may be a common partner.</p> <p>Multiple BCL2 family members demonstrate selective dimerizations with Bax</p> <p>PMID:21641962</p> <p>The pro-apoptototic protein Bax plays a central role in the mitochondria- dependent apoptotic pathway. </p> <p>In healthy mammalian cells, Bax is essentially cytosolic and inactive. </p> <p>Following a death signal, the protein is translocated to the outer mitochondrial membrane, where it promotes a permeabilization that favors the release of different apoptogenic factors, such as cytochrome c.</p> <p>PMID:23064052</p> <p>Inactive Bax can be directly converted into an active conformation following the interaction with activator Bid , Bim (BCL2L11) or Puma (BBC3)</p> <p>The interaction of Bax with BCL2 or BCL2L1 drives the translocation of Bax to the outer mitochondrial membrane</p> <p>Under this condition, active Bax can be liberated from its interaction with BCL2L1 by a derepressor BH3-only protein, such as Bad. </p> <p>Other experiments have shown that Bax can be translocated to the outer mitochondrial membrane and further activated by different proteins such as Myc or p38MapK</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAX"/> <bbox w="28.0" h="19.0" x="4526.5" y="13705.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa898_emtc_em_sa898"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53 </p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:P04637, GENECARDS:GC17M007565</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21518799</p> <p>p53 activates MIR200C</p> <p>PMID:21483453</p> <p>p53 activates microRNAs</p> <p>PMID:21336307</p> <p>p53 activates MIR34</p> <p>PMID:17823410</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="p53*"/> <bbox w="36.0" h="16.0" x="4521.5" y="13729.608"/> <glyph class="state variable" id="_dbaf6846-952f-43fd-8dc1-52bcc05b5b91"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4552.5" y="13729.295"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_te_sa340_te_sa340" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <label text="nfkb pathway"/> <bbox w="91.0" h="30.0" x="6589.06" y="21375.0"/> </glyph> <glyph class="complex" id="s_id_em_csa337_em_csa337" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Occludin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="em_s2533"/> <bbox w="88.0" h="46.0" x="1067.0" y="14996.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa1220_emtc_em_sa1220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="65.0" h="22.0" x="1078.5" y="15000.5"/> <glyph class="unit of information" id="_1a085b54-cf92-4f56-854a-b4300307d93e"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1101.0" y="14995.5"/> </glyph> <glyph class="state variable" id="_af10bab4-9c25-4b04-99fa-41033200f397"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1138.5" y="15006.535"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa364_mo_sa364" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL26"/> <bbox w="70.0" h="25.0" x="3750.5" y="10420.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa74_akt1_akt1_csa74" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAPKAP1:MLST8:MTOR:PROTOR*:RAC1:RICTOR</p> <p>References:</p> <p>s_akt1_re174(MAP:survival):</p> <p>PMID:20027184</p> <p>PMID:21474067</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa74_akt1_akt1_csa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027184"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC2)"/> <bbox w="180.0" h="153.0" x="11886.561" y="18043.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa450_akt1_akt1_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="11976.311" y="18051.75"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa446_akt1_akt1_sa446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="11894.061" y="18051.75"/> <glyph class="state variable" id="_1f7e4bba-69ba-4ee6-894f-aa7d746adbfa"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="11880.096" y="18046.75"/> </glyph> <glyph class="state variable" id="_4b641d16-9765-4774-810e-bfa86acb24b2"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="11955.942" y="18086.75"/> </glyph> <glyph class="state variable" id="_d43e1393-20fd-43bf-b71c-39f889c557e1"> <state value="" variable="S2481"/> <bbox w="35.0" h="10.0" x="11876.561" y="18085.697"/> </glyph> <glyph class="state variable" id="_41cf548b-3121-484f-9582-797c47c6982f"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="11879.061" y="18066.75"/> </glyph> <glyph class="state variable" id="_1c2b3b08-a998-428a-ae28-39c18e074526"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="11953.143" y="18046.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa528_akt1_akt1_sa528"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="11976.061" y="18135.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa449_akt1_akt1_sa449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="11977.311" y="18093.0"/> <glyph class="state variable" 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<body> <p>PROTOR</p> <p>HUGO:PRR5 HGNC:31682 ENTREZ:55615 UNIPROT:P85299 GENECARDS:PRR5 KEGG:55615 ATLASONC:GC_PRR5 WIKI:PRR5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PROTOR*"/> <bbox w="80.0" h="40.0" x="11893.811" y="18134.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa149_ce_sa149" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa149_ce_sa149"> <bqbiol:isEncodedBy> 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by antigen-presenting cells or by drugs that mimic the antigen receptor signal does not require MALT1-dependent cleavage of Bcl-10 but most likely depends on other MALT1 substrates.</p> <p>After activation with either anti-CD3 and anti-CD28 or PMA, cells expressing the R228G mutant had less adhesion to fibronectin than did cells expressing wild-type Bcl-10</p> <p>(. In Jurkat T cells, adhesion to the 1 ligand fibronectin is mediated mainly by the integrin a4b1, with a minor contribution from a5b1)</p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>In the CARMA1–Bcl-10–MALT1 signaling complex, Bcl-10 acts as an adaptor protein that binds, through its caspase-recruitment domain (CARD), to the CARD motif of CARMA1 (refs. 6,7,8,9,10,11,12); this interaction leads to the recruitment of MALT1 and/or the stabilization of the MALT1-CARMA1 interaction13, 14, 15. The formation of the CARMA1–Bcl-10–MALT1 complex is central to antigen receptor–mediated activation of the NF-B pathway and thereby controls the antigen receptor–induced expression and secretion of cytokines that are essential for lymphocyte proliferation</p> <p>PMID:11356195; PMID:17052756 </p> <p>CARMA1 induces BCL10 phosphorylation (data from non immune cells)</p> <p>Phosphorylation of Bcl10 at S138 Negatively Regulates T-Cell Receptor-Mediated NF-κB Activation.</p> <p>CaMKII phosphorylates Bcl10 on Ser138. Furthermore, a CaMKII inhibitor, KN93, and CaMKII siRNA substantially reduce Bcl10 phosphorylation induced by phorbol myristate acetate/ionomycin. S138A mutation prolongs Bcl10-induced NF-κB activation, suggesting that Bcl10 phosphorylation is involved in attenuation of NF-κB activation.</p> <p>Phosphorylation of Bcl10, especially at Ser138, has been linked to a signal-induced degradation of Bcl10. </p> <p>PMID:16818229 </p> <p>IKK2 (IKBKB) phoshorylates BCL10 downstream of TCR.</p> <p>Mutation of the IKKbeta phosphorylation sites on Bcl10 enhances expression of NF-kappaB target genes IL-2 and TNFalpha after activation of primary T cells.</p> <p>PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> <p>Mechanistically, the positive effect of calcineurin on the CBM complex formation seems to be linked to a dephosphorylation of Bcl10. </p> <p>PMID:17462996</p> <p>Bcl-10 links MALT1 to the active caspase complex in effector T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" 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compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Dbait is a short stabilized double stranded DNA molecule mimicking double strand breaks and inducing false DNA damage signaling and DNA repair pathways</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:DR, MODULE:C_NHEJ, MODULE:A_NHEJ, MODULE:TLS</p> <p>References:</p> <p>PMID:22068457, PMID:22815765, PMID:22042585, PMID:19621083</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<body>MODULE:TCR_SIGNALINGPMID:15079071 In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 downstream CD28CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promotersPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:15079071 In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 downstream CD28CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promotersPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa925_ad_sa925"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15079071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15079071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL8"/> <bbox w="70.0" h="25.0" x="26781.0" y="7642.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa59_ca_csa59" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RBCK1:RNF31:SHARPIN</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:24699077</p> <p>LUBAC, linear ubiquitin chain assembly complex comprises  SHANK-associated RH-domain interactor (SHARPIN), heme-oxidized IRP2 ubiquitin ligase 1 homolog (HOIL1/RBCK1) and the E3 HOIL-1–interacting protein (HOIP/RNF31)</p> <p>—is recruited to the TNFR1 complex via binding to the autoubiquitinated c-IAP1 and c-IAP2 proteins to mediate the assembly of linear polyubiquitin chains on NF-κB essential modifier (NEMO/IKBKG) and RIPK1</p> <p>PMID:21232017, PMID:17301840</p> <p>cIAP1 and cIAP2 modify RIP1, TRAF2 and</p> <p>themselves with K63-linked ubiquitin chains. This creates docking sites for the LUBAC complex, an E3 ligase capable of forming linear polyubiquitin chains. The LUBAC complex ubiquitinates NEMO, a subunit of the IKK complex, which by help of its IKK2 subunit also interacts</p> <p>with TRADD-bound TRAF2. In parallel, the TAK1-TAB 2 complex interacts with K63-ubiquitin modified RIP1 by use of the K63-ubiquitin binding TAB 2 subunit. 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comprises  SHANK-associated RH-domain interactor (SHARPIN), heme-oxidized IRP2 ubiquitin ligase 1 homolog (HOIL1/RBCK1) and the E3 HOIL-1–interacting protein (HOIP/RNF31)</p> <p>—is recruited to the TNFR1 complex via binding to the autoubiquitinated c-IAP1 and c-IAP2 proteins to mediate the assembly of linear polyubiquitin chains on NF-κB essential modifier (NEMO/IKBKG) and RIPK1</p> </body> </html> </notes> <label text="RBCK1"/> <bbox w="80.0" h="40.0" x="1525.0" y="2235.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa552_ca_sa552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SHANK associated RH domain interactor</p> <p>HUGO:SHARPIN hgnc_id:HGNC:25321 HGNC:25321 ENTREZ:81858 UNIPROT:Q9H0F6</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:TNF</p> <p>References:</p> <p>PMID:24699077</p> <p>LUBAC, linear ubiquitin chain assembly 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x="16143.061" y="20738.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1395_in_sa1395" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL1RN"/> <bbox w="80.0" h="40.0" x="11552.5" y="5457.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa49_wca1_wca3_csa49" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:BCL9:CTBP*:DVL*:HDAC1_2*:JUN:LEF_TCF*:PYGO*:WRE*:_beta_-Catenin*:p300*</p> <p>References:</p> <p>s_wca3_re109:(MAP:survival) PMID:12711682 PMID:15834423 PMID:16510874 PMID:15327769 PMID:16547505</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa49_wca1_wca3_csa49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12711682"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15834423"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327769"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547505"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:BCL9:CTBP*:DVL*:HDAC1_2*:JUN:LEF_TCF*:PYGO*:WRE*:β-Catenin*:p300*"/> <bbox w="122.0" h="526.0" x="21296.31" y="22128.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa307_wca1_wca3_sa307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21312.123" y="22388.5"/> <glyph class="state variable" id="_8a2b8e0e-94d0-4818-a4c1-b6fe77889f21"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21300.115" y="22383.5"/> </glyph> <glyph class="state variable" id="_fa883191-e64d-436d-a468-ce95a259d38d"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21299.623" y="22423.22"/> </glyph> <glyph class="state variable" id="_39e0aa60-781e-42c8-b100-5a631e5da8c4"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21377.123" y="22383.713"/> </glyph> <glyph class="state variable" 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variable" id="_d4b05ced-1fbf-49fa-b8c3-c0329fef55c5"> <state value="Ac" variable="K345"/> <bbox w="40.0" h="10.0" x="21372.123" y="22383.713"/> </glyph> <glyph class="state variable" id="_c7074981-5726-419a-8cef-ab2703122134"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="21297.615" y="22383.5"/> </glyph> <glyph class="state variable" id="_b4645a48-cf74-490f-9570-367cfed55be8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21307.123" y="22389.771"/> </glyph> <glyph class="state variable" id="_60933ab8-ae36-4581-8eb2-7eae01b66dfa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21307.123" y="22395.008"/> </glyph> <glyph class="state variable" id="_7d2fa6e8-ff54-4ebe-b914-48599aed9487"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21307.123" y="22403.469"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa306_wca1_wca3_sa306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21311.873" y="22308.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa483_wca1_wca3_sa483"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21314.06" y="22557.5"/> <glyph class="state variable" id="_a71b9644-6fea-4ceb-83fa-46c7729d052a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21389.06" y="22552.5"/> </glyph> <glyph class="state variable" id="_85dad3f2-cf37-4a28-b3cf-92254dd0ff6a"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="21299.06" y="22592.22"/> </glyph> <glyph class="state variable" id="_9aa0ade6-7f68-4685-bf18-a18c607a05a1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21309.064" y="22552.5"/> </glyph> <glyph class="state variable" id="_ca31fb51-f0f2-443c-8f40-74225faf65c9"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="21378.441" y="22592.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa310_wca1_wca3_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="21311.686" y="22270.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa313_wca1_wca3_sa313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547 GENECARDS:HDAC1 REACTOME:56408 KEGG:3065 ATLASONC:GC_HDAC1 WIKI:HDAC1 </p> <p>HUGO:HDAC2 HGNC:4853 ENTREZ:3066 UNIPROT:Q92769 GENECARDS:HDAC2 REACTOME:56410 KEGG:3066 ATLASONC:HDAC2ID40803ch6q22 WIKI:HDAC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HDAC1_2*"/> <bbox w="80.0" h="40.0" x="21311.56" y="22230.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa482_wca1_wca3_sa482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="21314.06" y="22512.5"/> <glyph class="state variable" id="_63c520be-3e52-450c-8ca1-b44f0d8fe2b4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21306.564" y="22507.5"/> </glyph> <glyph class="state variable" id="_11048232-502c-4315-be4f-ea88f4be2158"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21306.564" y="22547.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa311_wca1_wca3_sa311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="21306.56" y="22138.5"/> <glyph class="state variable" id="_83d91c59-8a3d-4c94-b009-d3ba7745a81f"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="21289.06" y="22173.22"/> </glyph> <glyph class="state variable" id="_87f89153-c801-46a5-88ce-2a12389948a4"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="21294.553" y="22133.5"/> </glyph> <glyph class="state variable" id="_b7f56a8b-8034-4a1a-bec2-b986a7b9b637"> <state value="P" variable="T1487"/> <bbox w="40.0" h="10.0" x="21366.56" y="22172.633"/> </glyph> <glyph class="state variable" id="_71b7c235-5907-431f-821c-fc21778f537f"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="21289.06" y="22173.22"/> </glyph> <glyph class="state variable" 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<glyph class="macromolecule" id="s_id_wca1_wca3_sa308_wca1_wca3_sa308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> <p>PMID:21285352</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="21312.623" y="22436.0"/> <glyph class="state variable" id="_50bbe9df-5d7b-469f-9d16-c08ce586d14b"> <state value="" variable="S166"/> <bbox w="30.0" h="10.0" x="21298.115" y="22431.0"/> </glyph> <glyph class="state variable" id="_a2ef3fe7-fa49-4b64-a7e8-b780d4d4874d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21387.623" y="22431.877"/> </glyph> <glyph class="state variable" id="_77562f33-4b27-4f3a-a4ff-23cd417e260b"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="21380.123" y="22467.615"/> </glyph> <glyph class="state variable" id="_45f13c73-1701-4a28-bc96-fc8750157bf9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21387.623" y="22451.0"/> </glyph> <glyph class="state variable" id="_a147eef8-21dc-4a0b-b465-d940ef4e0f7c"> <state value="" variable="T155"/> <bbox w="30.0" h="10.0" x="21297.623" y="22470.72"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_wca1_wca3_sa312_wca1_wca3_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="86.0" h="46.0" x="21311.56" y="22185.0"/> <glyph class="unit of information" id="_74a35b3a-d4af-4de8-809b-4f722310d553"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="21344.56" y="22180.0"/> </glyph> <glyph class="state variable" id="_d94f20ea-75f7-4094-8642-5c412138be7a"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="21382.56" y="22180.244"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa309_wca1_wca3_sa309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICALReferences:WNT responsive elementReferences:WNT responsive element </body> </html> </notes> <label text="WRE*"/> <bbox w="70.0" h="25.0" x="21317.123" y="22481.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa305_wca1_wca3_sa305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21311.873" y="22348.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2159_emtc_em_sa2159" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2159_emtc_em_sa2159"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ID3"/> <bbox w="29.0" h="19.0" x="4454.0" y="16878.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa76_akt1_akt1_csa76" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PAM*:TSC2</p> <p>References:</p> <p>s_akt1_re180:(MAP:survival) PMID:18308511</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa76_akt1_akt1_csa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18308511"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAM*:TSC2"/> <bbox w="100.0" h="120.0" x="13110.061" y="18715.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa480_akt1_akt1_sa480"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MYC binding protein 2</p> <p>HUGO:MYCBP2 HGNC:23386 ENTREZ:23077 UNIPROT:O75592 GENECARDS:MYCBP2 KEGG:23077 WIKI:MYCBP2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PAM*"/> <bbox w="80.0" h="40.0" x="13119.061" y="18723.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa482_akt1_akt1_sa482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tuberous sclerosis 2</p> <p>HUGO:TSC2 HGNC:12363 ENTREZ:7249 UNIPROT:P49815 GENECARDS:TSC2 REACTOME:404219 KEGG:7249 ATLASONC:TSC2ID184 WIKI:TSC2 </p> <p>P49815</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> <p>PMID:16636147</p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="13117.061" y="18773.0"/> <glyph class="state variable" id="_0a0b91fe-2efb-4097-a1a2-7c19f980914e"> <state value="" variable="S1086"/> <bbox w="35.0" h="10.0" x="13179.561" y="18789.467"/> </glyph> <glyph class="state variable" id="_596c855d-232c-46c5-a243-59c8b38d3936"> <state value="" variable="S981"/> <bbox w="30.0" h="10.0" x="13178.643" y="18768.0"/> </glyph> <glyph class="state variable" id="_f3ec1fb3-e938-4ae4-9a08-75adb702dd29"> <state value="" variable="T1462"/> <bbox w="35.0" h="10.0" x="13100.053" y="18768.0"/> </glyph> <glyph class="state variable" id="_b0157284-8afd-46a2-bc20-8d2be2f93de6"> <state value="" variable="S1132"/> <bbox w="35.0" h="10.0" x="13099.561" y="18806.947"/> </glyph> <glyph class="state variable" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa27_ce_sa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POLB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POLB"/> <bbox w="80.0" h="40.0" x="9403.269" y="16108.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2386_in_sa2386" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR183"/> <bbox w="70.0" h="25.0" x="11235.0" y="4438.125"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1340_ad_sa1340" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:CD4</p> <p>CELL:TREG</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:8758473</p> <p>TReg cells — as defined by their expression of CD4+/CD25+/FOXP3+ and an ability to suppress the proliferation of CD4+/CD25− cells — express high levels of both CD39 (Ref. 56) and CD73 (Refs 56,57), cell surface ectoenzymes that convert extracellular ATP and ADP to adenosine</p> <p>PMID:17502665 </p> <p>the expression of CD39/ENTPD1 in concert with CD73/ecto-5'-nucleotidase distinguishes CD4(+)/CD25(+)/Foxp3(+) T reg cells from other T cells. These ectoenzymes generate pericellular adenosine from extracellular nucleotides. The coordinated expression of CD39/CD73 on T reg cells and the adenosine A2A receptor on activated T effector cells generates immunosuppressive loops, indicating roles in the inhibitory function of T reg cells.</p> <p>PMID:17449799 </p> <p>In mice, the enzyme is present on virtually all CD4(+)CD25(+) cells. CD39 expression is driven by the Treg-specific transcription factor Foxp3 and its catalytic activity is strongly enhanced by T-cell receptor (TCR) ligation.</p> <p>PMID:20546740</p> <p>CD39/ENTPD1 expression by CD4+Foxp3+ regulatory T cells promotes hepatic metastatic tumor growth in mice</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1340_ad_sa1340"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENTPD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8758473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17502665"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17449799"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20546740"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD39*"/> <bbox w="80.0" h="40.0" x="27106.0" y="2450.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa714_ad_sa714" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR, CASCADE:CD226</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10714681</p> <p> PKCθ is regulated by Vav1, a guanine nucleotide exchange factor for Rac and Cdc42 that plays an important role in T cell development and activation46. Thus, a dominant negative PKCθ mutant blocked a number of growth signals, which are normally induced by overexpression of Vav1, namely, activation of JNK, the IL-2 gene promoter and NFAT or AP-1 reporter genes. Conversely, a dominant negative Vav1 mutant did not significantly inhibit the same signaling events induced by a constitutively active PKCθ mutant46, tentatively placing PKCθ downstream of Vav1 in these growth signaling pathways.</p> <p>Vav promoted PKCθ translocation from the cytosol to the membrane and cytoskeleton and induced its enzymatic activation in a CD3/CD28-initiated pathway that was dependent on Rac and on actin cytoskeleton reorganization. These findings reveal that the Vav/Rac pathway promotes the recruitment of PKCθ to the T cell synapse and its activation, essential processes for T cell activation and IL-2 production.</p> <p>PMID:25539813 </p> <p>Vav1 is the linker molecule that couples the C-terminal proline-rich motif of CD28 to the recruitment and activation of PIP5Kα, which in turn cooperates with Vav1 in regulating actin polymerization and CD28 signaling functions.</p> <p>PMID:12186560</p> <p>Phosphorylation of the linker for activation of T-cells by Itk promotes recruitment of Vav.</p> <p>PMID:11754814</p> <p>CD28 signaling is dependent on VAV/SLP-76 complex formation and induces membrane localization of these complexes. </p> <p>PMID:10849438; PMID:10077632 ;PMID:9438848</p> <p>Tyr174 of Vav is thought to be the site of phosphorylation by Lck that regulates Vav function </p> <p>Tyrosine-phosphorylated Vav1 as a Point of Integration for T-cell Receptor- and CD28-mediated Activation of JNK, p38, and Interleukin-2 Transcription</p> <p>Vav1 is phosphorylated probably by Lck.</p> <p>The Rho-family GTP exchange factor Vav is a critical transducer of T cell receptor signals to the calcium, ERK, and NF-κB pathways</p> <p>PMID:10898494</p> <p>Vav-induced NFAT activation involves a MEK/ERK pathway</p> <p>3 Vav functions upstream of Ras in the NFAT activation pathway</p> <p>Ras function is required for Vav-induced ERK activation</p> <p>Vav up-regulates the expression of CD69 via</p> <p>a Ras-dependent, but Rac-independent,</p> <p>PMID:14764585 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>pathway.</p> <p>Vav1 Transduces TCR Signals to Ras and ERK via PLC and DAG</p> <p>Defective TCR-induced DAG Production in Vav1-deficient Cells</p> <p>Defective phosphorylation of PKCθ and PKD in Vav1–/– thymocytes.</p> <p>Vav1 Is Required for TCR-induced Translocation of Ras-GRP1</p> <p>in Vav1–/– cells, whereasGrb2 was constitutively associated with Sos1 and Sos2, there was very little or no inducible association with LAT.</p> <p>Taken together these results show that in Vav1-deficient cells there is a failure to form a LAT-Grb2-Sos complex following TCR stimulation, probably because of reduced phosphorylation of key tyrosine residues on LAT. This in turn may contribute to the profound defect in TCR-induced Ras and ERK activation.</p> <p>PMID:11994416 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of Phospholipase C-γ1 via Phosphoinositide 3-Kinase-dependent and -independent Pathways</p> <p>PMID:10646608 </p> <p>Negative regulation of lymphocyte activation and autoimmunity by the molecular adaptor Cbl-b</p> <p>Cbl-b negatively regulates Vav1 tyrosine phosphorylation. Probably downstream of PI3K)</p> <p>PMID:11526404 </p> <p>inhibition of PI3K leads to a reduction in TCR-induced</p> <p>Vav phosphorylation</p> <p>PMID:12616499</p> <p>Vav1 transduces TCR signals required for LFA-1 function and cell polarization at the immunological synapse.</p> <p>Vav1 is required for TCR-induced activation of LFA-1</p> <p>Vav1 is required for TCR-induced polarization of the MTOC</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa714_ad_sa714"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAV1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10714681"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25539813"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12186560"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11754814"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10849438"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10077632"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9438848"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10898494"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11994416"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10646608"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11526404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12616499"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26552706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VAV1"/> <bbox w="80.0" h="40.0" x="27086.0" y="3970.0"/> <glyph class="state variable" id="_7be88696-50fb-40fe-a6da-a68a59cc4773"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27081.0" y="3985.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa22_wca1_wca1_csa22" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:RBX1:SKP*:_beta_TRCP*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10023660</p> <p>s_wca1_re46(MAP:survival):</p> <p>PMID:15688063 PMID:22730322 </p> <p>FAF1 acts as scaffold protein</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa22_wca1_wca1_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10023660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15688063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22730322"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(E3_ligase_complex)"/> <bbox w="177.0" h="114.0" x="20412.06" y="19456.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa129_wca1_wca1_sa129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Beta-transducin repeat domain</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 GENECARDS:BTRC REACTOME:55056 KEGG:8945 ATLASONC:BTRCID451ch10q24 WIKI:BTRC </p> <p>F-box and WD repeat domain containing 11</p> <p>BTRC2, BTRCP2, Fbw1b, Fbw11, Hos, KIAA0696</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1 GENECARDS:FBXW11 REACTOME:55058 KEGG:23291 WIKI:FBXW11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="20501.06" y="19510.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa126_wca1_wca1_sa126"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="20420.06" y="19467.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa128_wca1_wca1_sa128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2 HGNC:10901 ENTREZ:6502 UNIPROT:Q13309 GENECARDS:SKP2 REACTOME:405589 KEGG:6502 ATLASONC:GC_SKP2 WIKI:SKP2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15688063</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP*"/> <bbox w="80.0" h="40.0" x="20501.06" y="19467.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa127_wca1_wca1_sa127"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="20419.06" y="19510.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4729_rc_sa4729" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4729_rc_sa4729"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38 MAPK*"/> <bbox w="80.0" h="40.0" x="27109.06" y="14409.0"/> <glyph class="state variable" id="_12251831-9ac3-4f32-aa5a-ca861f85f3ae"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27101.56" y="14415.716"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa520_in_sa520" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LYN"/> <bbox w="80.0" h="40.0" x="17887.5" y="2260.0"/> <glyph class="state variable" id="_6be85c6e-2d4b-4bf6-9fd8-e04846040fe4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17882.5" y="2275.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa68_wca1_wca3_csa68" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKK1:MIR372</p> <p>References:</p> <p>s_wca3_re161:(MAP:survival) PMID:22020335</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa68_wca1_wca3_csa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22020335"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK1:MIR372"/> <bbox w="98.0" h="94.0" x="21052.06" y="22536.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa450_wca1_wca3_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dickkopf 1 homolog (Xenopus laevis)</p> <p>"dickkopf (Xenopus laevis) homolog 1"</p> <p>HUGO:DKK1 HGNC:2891 ENTREZ:22943 UNIPROT:O94907 GENECARDS:DKK1 KEGG:22943 ATLASONC:DKK1ID44007ch10q11 WIKI:DKK1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>dickkopf 1 homolog (Xenopus laevis)</p> <p>"dickkopf (Xenopus laevis) homolog 1"</p> <p>HUGO:DKK1 HGNC:2891 ENTREZ:22943 UNIPROT:O94907 GENECARDS:DKK1 KEGG:22943 ATLASONC:DKK1ID44007ch10q11 WIKI:DKK1</p> <p>Map modules:</p> </body> </html> </notes> <label text="DKK1"/> <bbox w="90.0" h="25.0" x="21053.56" y="22548.0"/> <glyph class="unit of information" id="_cceb1ca0-a5a6-4817-a6fe-ce24f080be50"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21088.56" y="22543.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa452_wca1_wca3_sa452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 372</p> <p>HUGO:MIR372 HGNC:31786 ENTREZ:442917 GENECARDS:MIR372 KEGG:442917 ATLASONC:GC_MIR372 WIKI:MIR372</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>microRNA 372</p> <p>HUGO:MIR372 HGNC:31786 ENTREZ:442917 GENECARDS:MIR372 KEGG:442917 ATLASONC:GC_MIR372 WIKI:MIR372</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR372"/> <bbox w="90.0" h="25.0" x="21053.56" y="22577.0"/> <glyph class="unit of information" id="_d75279a3-3b09-4fbc-bc22-2ebe5218e56b"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21083.56" y="22572.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1174_emtc_em_sa1174" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1174_emtc_em_sa1174"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSG2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmoglein2*"/> <bbox w="88.0" h="18.0" x="2462.0" y="16759.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa196_mo_sa196" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>SMAD family member 2</p> <p>SMAD family member 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa196_mo_sa196"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2_3*"/> <bbox w="80.0" h="40.0" x="4256.5" y="8966.5"/> <glyph class="state variable" id="_d5eb8b46-3c82-4067-ae45-3ef047466dd2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4308.0684" y="8961.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3302_rc_sa3302" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3302_rc_sa3302"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELA"/> <bbox w="80.0" h="40.0" x="22789.06" y="10605.0"/> <glyph class="state variable" id="_f120fcf7-fbba-4988-bbc2-8184bfd22542"> <state value="P" variable="T254"/> <bbox w="35.0" h="10.0" x="22827.482" y="10640.0"/> </glyph> <glyph class="state variable" id="_a8f22472-d18d-4146-a5f4-e5f83e9d5f6d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22807.492" y="10640.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa104_in_csa104" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s94"/> <bbox w="90.0" h="105.0" x="16465.0" y="3937.5"/> <glyph class="simple chemical" id="s_id_in_sa699_in_sa699"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="16480.0" y="3990.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2241_in_sa2241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="16470.0" y="3940.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4644_rc_sa4644" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TRAIL_RESPONSE ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TRAIL_RESPONSE </body> </html> </notes> <label text="Caspase10*"/> <bbox w="90.0" h="25.0" x="22115.56" y="16110.5"/> <glyph class="unit of information" id="_835dd84b-9912-4a81-9d86-8407fed528fb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22150.56" y="16105.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4670_rc_sa4670" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4670_rc_sa4670"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR24-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR24-1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR24"/> <bbox w="90.0" h="25.0" x="22890.06" y="15630.5"/> <glyph class="unit of information" id="_b2209829-b05c-4e07-9c0a-e98936dbd9d5"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="22920.06" y="15625.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa6_wnc1_wnc2_csa6" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*:PPP3CB:PPP3R*</p> <p>References:</p> <p>s_wnc2_re7(MAP:survival):</p> <p>PMID:17593948</p> <p>PMID:18235236</p> <p>s_wnc2_re26:(MAP:survival) PMID:15036616, PMID:14741051</p> <p>s_wnc2_re49:(MAP:survival) PMID:2550447, PMID:19608982</p> <p>s_wnc2_re53:(MAP:survival) PMID:19136967</p> <p>s_wnc2_re66:(MAP:survival) PMID:11796223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa6_wnc1_wnc2_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18235236"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15036616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14741051"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2550447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19608982"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11796223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin/_BR_Calmodulin/_BR_Ca2+)"/> <bbox w="102.0" h="216.0" x="17979.06" y="18178.0"/> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa26_wnc1_wnc2_sa26"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18016.31" y="18311.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa24_wnc1_wnc2_sa24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="17988.56" y="18227.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa25_wnc1_wnc2_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="17988.56" y="18270.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa23_wnc1_wnc2_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="17988.56" y="18184.5"/> <glyph class="state variable" id="_15afca78-4f24-4500-b747-303080ea1630"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="18053.56" y="18179.713"/> </glyph> <glyph class="state variable" id="_90da5f3a-18c3-4661-91ce-626e1e079455"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17983.56" y="18199.5"/> </glyph> <glyph class="state variable" id="_4a937b1e-4b0c-4863-b251-a7a7f0955373"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17983.564" y="18219.5"/> </glyph> <glyph class="state variable" id="_15312e3c-1ba1-433d-84a2-2055fad5b10e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17983.564" y="18179.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa354_emtc_em_csa354" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Collagen1 partners*:Collagen1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Collagen1/Collagen1 partners)"/> <bbox w="187.0" h="66.0" x="5359.0" y="18901.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2495_emtc_em_sa2495"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>a1b1*_a2b1*</p> <p>NAME:a1b1*</p> <p>ITGA1/ITGB1</p> <p>integrin, alpha 1</p> <p>HUGO:ITGA1 HGNC:6134 ENTREZ:3672 UNIPROT:P56199</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>NAME: a2b1*</p> <p>ITGA2/ITGB1</p> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>NAME:aVb3*</p> <p>ITGAV/ITGB3</p> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)</p> <p>GP3A</p> <p>HUGO:ITGB3 HGNC:6156 ENTREZ:3690 UNIPROT:P05106 GENECARDS:GC17P045331</p> <p>fibronectin 1</p> <p>HUGO:FN1, HGNC:3778, ENTREZ:2335, UNIPROT:P02751, GENECARDS:GC02M216225</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Collagen1 partners*"/> <bbox w="132.0" h="20.0" x="5384.75" y="18928.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2494_emtc_em_sa2494"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Collagen 1*</p> <p>collagen, type I, alpha 1</p> <p>HUGO:COL1A1 HGNC:2197 ENTREZ:1277 UNIPROT:P02452</p> <p>collagen, type I, alpha 2</p> <p>HUGO:COL1A2, HGNC:2198, ENTREZ:1278, GENECARDS:GC07P094023, UNIPROT:P08123 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:18375391</p> <p>Type I procollagen is a heterotrimer composed of 2 proalpha1(I) chains (encoded by COL1A1) and 1 proalpha2(I) chain (encoded by COL1A2 genes)</p> <p>proalpha2(I) C-propeptide and proalpha1(I) C-propeptide, is essential for efficient assembly of type I procollagen heterotrimers.</p> <p>PMID:17217948</p> <p>Inhibition of RhoA/Rho-kinase pathway suppresses the expression of type I collagen induced by TGFB2 in human retinal pigment epithelial cells</p> <p>PMID:11114293</p> <p>Sp1 and Smad proteins form complexes and their synergy plays an important role in mediating TGFB1-induced 2(I) collagen expression in human mesangial cells.</p> <p>Involvement of Sp1 binding in Smad3-mediated TGFB1 induction of COL1A2</p> <p>Sp1 and Smad proteins bind to the COL1A2 promoter</p> <p>TGFB1 increases association between Sp1 and Smad proteins</p> <p>Sp1 and Smad3 cooperate to regulate COL1A2 expression</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Collagen1*"/> <bbox w="79.0" h="20.0" x="5415.75" y="18907.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa7_shh1_shh3_csa7" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re6:(MAP:survival) PMID:17430994</p> <p>s_wca1_re28(MAP:survival):</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. Activation of CK1 epsilon by unknown factor</p> <p>An acidic environment is required for phosphorylation of DVL and LRP5/6</p> <p>s_wnc1_re50:(MAP:survival) PMID:20628572</p> <p>s_wnc1_re64(MAP:survival):</p> <p>For the Fzl receptor, probably same mechanism as for the canonical MODULE.</p> <p>CK1 epsilon is activated upon Wnt-5 stimulation, however, the mechanism is unknown.</p> <p>PMID:17244647</p> <p>PMID:20215527</p> <p>s_shh3_re7(MAP:survival):</p> <p>PMID:12764189</p> <p>PMID:18815277</p> <p>s_shh3_re10(MAP:survival):</p> <p>PMID:12297047</p> <p>PMID:16847462</p> <p>s_wca1_re29(MAP:survival):</p> <p>PMID:19705439 PMID:17426148</p> <p>Beta-ARRESTIN binds to phosphorylated DVL</p> <p>s_wca1_re33(MAP:survival):</p> <p>PMID:19561074 PMID:20460648 PMID:19581931 PMID:21304492 PMID:21498506</p> <p>AMER1 recruits axin</p> <p>s_wnc1_re29:(MAP:survival) PMID:12747838</p> <p>s_wnc1_re31:(MAP:survival) PMID:21736902</p> <p>s_wnc1_re54:(MAP:survival) PMID:10999941</p> <p>s_wnc1_re57(MAP:survival):</p> <p>PLC-beta_2 and 3 are activated by the beta-and gamma subunit of the G-protein class q</p> <p>PMID:20553968</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa7_shh1_shh3_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20006983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16965538"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:210606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17244647"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12764189"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297047"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16847462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19705439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17426148"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12747838"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21736902"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10999941"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20553968"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Giβgamma_dimer"/> <bbox w="100.0" h="120.0" x="26014.06" y="22649.0"/> <glyph class="macromolecule" id="s_id_shh1_shh3_sa41_shh1_shh3_sa41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="80.0" h="40.0" x="26026.06" y="22702.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa42_shh1_shh3_sa42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="80.0" h="40.0" x="26026.06" y="22660.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa162_in_csa162" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa162_in_csa162"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20237318"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18400509"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSF3R:CSF3"/> <bbox w="100.0" h="120.0" x="8925.0" y="2650.0"/> <glyph class="macromolecule" id="s_id_in_sa1065_in_sa1065"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GSF3"/> <bbox w="80.0" h="40.0" x="8935.0" y="2660.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1064_in_sa1064"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF3R"/> <bbox w="80.0" h="50.0" x="8935.0" y="2705.0"/> <glyph class="unit of information" id="_495e1fba-d7dc-4ec1-a7ec-0a919820df65"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8952.5" y="2700.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc3_sa37_wnc1_wnc3_sa37" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc3_re10:(MAP:survival) PMID:22275375, PMID:15657064, PMID:16396959, PMID:16998587</p> </body> </html> </notes> <extension> <annotation 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RHOB"/> <bbox w="80.0" h="40.0" x="20870.0" y="7085.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa112_in_sa112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="20875.0" y="7132.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa938_ad_sa938" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11356195; PMID:17052756; PMID:21199863 </p> <p>CARMA1 induces BCL10 phosphorylation via CaMKII </p> <p>PMID:16809782;PMID:17052756 </p> <p>In the immune synapse, CaMKII phosphorylates Carma1 on Ser109 and the phosphorylation increases the interaction between Carma1 and Bcl10.</p> <p>Carma1/Bcl10/Malt1 complex induces NF-κB activation (Sun et al., 2004). Accordingly based on the findings in the present study, CaMKII phosphorylates Bcl10 on Ser138 while IKKβ phosphorylates residues Ser134, 136, 138, 141 and 144 (Wegener et al., 2006). Phosphorylation of Bcl10 disrupts Bcl10/Malt1 association (Wegener et al., 2006), and attenuates NF-κB activation.</p> <p>PMID:15843557</p> <p>Calcium/calmodulin-dependent protein kinase II (CaMKII),4 a multifunctional serine/threonine kinase, consists of four distinct isoforms (α, β, γ, and δ), and each comprises a family of alternatively spliced variants. A general feature of all CaMKII isoforms is their ability to decode the frequency of calcium oscillations by retaining calcium-independent kinase activity subsequent to the initial stimulation. The α and β isoforms are expressed abundantly in neurons, while the γ and δ isoforms are more widely expressed</p> <p>Active CaMKII-transduced T cells exhibit enhanced cytotoxic activity </p> <p>PMID:19349987 </p> <p>Ca2+ signaling requires myosin IIA activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa938_ad_sa938"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMK2D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11356195"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052756"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21199863"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16809782"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052756"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15843557"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19349987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CAMK2*"/> <bbox w="80.0" h="40.0" x="29006.0" y="5165.0"/> <glyph class="state variable" id="_7a21a9c5-9f94-46c1-bfcd-42cbf7f634e3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29001.0" y="5180.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa118_emtc_em_sa118" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa118_emtc_em_sa118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmocollin2*"/> <bbox w="88.0" h="20.0" x="2463.5" y="16631.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3385_rc_sa3385" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3385_rc_sa3385"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGD"/> <bbox w="86.0" h="46.0" x="18358.56" y="10141.0"/> <glyph class="unit of information" id="_44a67c64-c27d-48a8-944f-1af98416c91a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18391.56" y="10136.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2468_in_sa2468" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MAOA"/> <bbox w="80.0" h="40.0" x="14533.594" y="7185.9375"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa605_ad_sa605" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:SMAC</p> <p>PMID:23620508;PMID:21127503 </p> <p>Lck (lymphocyte-specific tyrosine-protein kinase) is a membrane-tethered kinase that phosphorylates tyrosine residues in the ITAMs in the TCR–CD3 complex. Doubly phosphorylated ITAMs are the docking sites for ZAP70 and other TCR signaling-associated proteins. Lck is often associated with the CD4 or CD8 co-receptors, which might potentiate its activity by bringing it into the proximity of the CD3 chains </p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves. </p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:9438848</p> <p>Tyr174 of Vav is thought to be the site of phosphorylation by Lck that regulates Vav function</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa605_ad_sa605"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LCK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23620508"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21127503"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19290918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10652356"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17544292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9438848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LCK"/> <bbox w="80.0" h="40.0" x="28156.0" y="2785.0"/> <glyph class="state variable" id="_66902182-d58f-4fb0-ba6a-f400727af544"> <state value="" variable="Y505"/> <bbox w="30.0" h="10.0" x="28141.0" y="2785.4866"/> </glyph> <glyph class="state variable" id="_e1103dd8-62a5-444d-8395-b050a96dc415"> <state value="" variable="Y394"/> <bbox w="30.0" h="10.0" x="28221.0" y="2819.638"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa131_ce_csa131" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycE*"/> <bbox w="93.0" h="108.0" x="11380.473" y="9009.356"/> <glyph class="macromolecule" id="s_id_ce_sa816_ce_sa816"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="11386.973" y="9054.356"/> <glyph class="state variable" id="_7bb1d7e5-815a-494f-bc99-6b188f7fee82"> <state value="P" variable="T160"/> <bbox w="35.0" h="10.0" x="11369.473" y="9069.324"/> </glyph> <glyph class="state variable" id="_1bc9a886-811c-4aee-b9c8-251d663befd4"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="11384.298" y="9049.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa815_ce_sa815"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1, HGNC:1589, ENTREZ:898, UNIPROT:P24864</p> <p>cyclin E2</p> <p>HUGO:CCNE2, HGNC:1590, ENTREZ:9134, UNIPROT:O96020</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="11386.973" y="9014.856"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_shh1_shh1_sa293_shh1_shh1_sa293" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh1_re98:(MAP:survival) PMID:18829525</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa293_shh1_shh1_sa293"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18829525"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAS activation"/> <bbox w="80.0" h="30.0" x="27222.06" y="19945.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2560_emtc_em_sa2560" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2560_emtc_em_sa2560"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP4A3"/> <clone/> <bbox w="76.0" h="17.0" x="2740.0" y="17052.0"/> <glyph class="unit of information" id="_c3e30a5b-dc88-481e-891b-f4985bb7247d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2768.0" y="17047.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2560_mo_sa82" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2560_mo_sa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP4A3"/> <clone/> <bbox w="90.0" h="25.0" x="5544.0" y="10254.5"/> <glyph class="unit of information" id="_340611cd-6a7e-45e4-b58b-6cd14f53652d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5579.0" y="10249.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_wca1_wca2_sa24_wca1_wca2_sa24" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <label text="Proteosome"/> <bbox w="30.0" h="30.0" x="25124.06" y="18682.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa59_shh1_shh1_csa59" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha__sub_i_endsub_*:G_beta__sub_i_endsub_*:G_gamma__sub_i_endsub_*:SMO</p> <p>References:</p> <p>s_shh1_re26(MAP:survival):</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa59_shh1_shh1_csa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMO_Gi_proteins"/> <bbox w="137.0" h="143.0" x="26293.06" y="17600.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa336_shh1_shh1_sa336"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gγi*"/> <bbox w="40.0" h="30.0" x="26383.06" y="17668.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa134_shh1_shh1_sa134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Smoothened</p> <p>HUGO:SMO HGNC:11119 ENTREZ:6608 UNIPROT:Q99835 GENECARDS:SMO REACTOME:64670 KEGG:6608 ATLASONC:GC_SMO WIKI:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18820483</p> <p>PMID:17641202</p> </body> </html> </notes> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26321.56" y="17611.5"/> <glyph class="state variable" id="_b78096ff-d709-4cd4-924a-b38b47786a90"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26396.56" y="17606.5"/> </glyph> <glyph class="state variable" id="_7c000559-d07c-424d-84c1-c9280f12f746"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26396.56" y="17606.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa334_shh1_shh1_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gαi*"/> <bbox w="40.0" h="30.0" x="26301.06" y="17668.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa337_shh1_shh1_sa337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="30.0" h="30.0" x="26309.06" y="17691.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa335_shh1_shh1_sa335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gβi*"/> <bbox w="40.0" h="30.0" x="26342.06" y="17668.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1392_ad_sa1392" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:24076050,PMID:12538684</p> <p>PDL1 and PDL2 are expressed in DCs.</p> <p>blockade of PD-L2 on dendritic cells results in enhanced T cell proliferation and cytokine production, including that of IFN-gamma and IL-10, while blockade of PD-L1 results in similar, more modest, effects. Blockade of both PD-L1 and PD-L2 showed an additive effect. Both whole mAb and Fab enhanced T cell activation, showing that PD-L1 and PD-L2 function to inhibit T cell activation.</p> <p>PMID:18585785; PMID:17629517 </p> <p> human B7-1(CD80) can interact with human PD-L1 with affinity greater than that of B7-1 with CD28, but less than that of B7-1 with CTLA-4 or of PD-L1 with PD-1.</p> <p> ligation of PD-L1 on T cells by B7-1 inhibits T cell responses in mouse T-cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1392_ad_sa1392"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD274"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24076050"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12538684"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18585785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17629517"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDL1*"/> <bbox w="80.0" h="40.0" x="26946.0" y="2610.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2024_emtc_em_sa2024" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2024_emtc_em_sa2024"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1_2*"/> <bbox w="66.0" h="17.0" x="5980.5" y="13823.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa313_emtc_em_csa313" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CBF1*:NICD*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(CBF1* activator complex)"/> <bbox w="114.0" h="57.0" x="2699.0" y="14544.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2171_emtc_em_sa2171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>recombination signal binding protein for immunoglobulin kappa J region</p> <p>HUGO:RBPJ, HGNC:5724, ENTREZ:3516, UNIPROT:Q06330 , GENECARDS:GC04P026165</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CBF1*"/> <bbox w="39.0" h="18.0" x="2769.5" y="14554.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2172_emtc_em_sa2172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Notch homolog 1</p> <p>NOTCH intracellular domains NICD</p> <p>HUGO:NOTCH1, HGNC:7881, ENTREZ:4851, UNIPROT:P46531, GENECARDS:GC09M139388</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:LYSOSOME_ENDOSOME, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21828089</p> <p>Phosphorylation of NICD by GSK3B inhibits Ntch1/ICD-mediated induction of genes such as Hes1 but stabilizes Notch1/ICD.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NICD*"/> <bbox w="49.0" h="21.0" x="2704.5" y="14553.0"/> <glyph class="state variable" id="_cde48746-522d-4726-b4c5-a077b02f9747"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2748.5" y="14548.0"/> </glyph> <glyph class="state variable" id="_4332f08b-0855-41a6-baaa-4bebfaaab5cc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2699.5" y="14548.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa418_rc_csa418" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CIP2A*:DAPK1:NTN1:UNC5B</p> <p>References:</p> <p>19543238</p> <p>21172653</p> <p>UNC5H2/B recruits a protein complex that includes PR65β and DAPk and retains PP2A activity. PP2A activity is required for UNC5H2/B-induced apoptosis, since it activates DAPk by triggering its dephosphorylation. Moreover, netrin-1 binding to UNC5H2/B prevents this effect through interaction of the PP2A inhibitor CIP2A to UNC5H2/B</p> <p>12598906</p> <p>p53RDL1 interacted with its ligand, Netrin-1, p53-dependent apoptosis was blocked</p> </body> </html> </notes> <label text="multimerize UNCH2:NTN1"/> <bbox w="112.0" h="231.0" x="19487.111" y="9078.431"/> <glyph class="macromolecule" id="s_id_rc_sa4134_rc_sa4134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-associated protein kinase 1</p> <p>HUGO:DAPK1 HGNC:2674 ENTREZ:1612 UNIPROT:P53355</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17703233</p> <p>DAP kinase regulates JNK signaling by binding and activating protein kinase D</p> </body> </html> </notes> <label text="DAPK1"/> <bbox w="80.0" h="40.0" x="19507.111" y="9198.431"/> <glyph class="state variable" id="_2fca14ef-7f5b-434e-a057-c07aad5f5278"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="19523.043" y="9193.431"/> </glyph> <glyph class="state variable" id="_f70eca7a-d98d-4325-b1e0-ad56ab1acd69"> <state value="" variable="S289"/> <bbox w="30.0" h="10.0" x="19548.68" y="9193.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4114_rc_sa4115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>netrin 1</p> <p>HUGO:NTN1 HGNC:8029 ENTREZ:9423 UNIPROT:O95631</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:19543238</p> <p>PMID:22920895</p> <p>Netrin-1 was recently proposed to control tumorigenesis by inhibiting apoptosis induced by the dependence receptors DCC (Deleted in colorectal cancer) and UNC5H</p> </body> </html> </notes> <label text="NTN1"/> <bbox w="80.0" h="40.0" x="19507.111" y="9098.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4114_rc_sa4114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>netrin 1</p> <p>HUGO:NTN1 HGNC:8029 ENTREZ:9423 UNIPROT:O95631</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:20173780</p> <p>PMID:19543238</p> <p>PMID:22920895</p> <p>Netrin-1 was recently proposed to control tumorigenesis by inhibiting apoptosis induced by the dependence receptors DCC (Deleted in colorectal cancer) and UNC5H</p> </body> </html> </notes> <label text="NTN1"/> <bbox w="80.0" h="40.0" x="19497.111" y="9088.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4143_rc_sa4143"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>KIAA1524</p> <p>HUGO:KIAA1524 HGNC:29302 ENTREZ:57650 UNIPROT:Q8TCG1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:21172653</p> <p>CIP2A is an inhibitor of UNC5H2/B-induced DAPk activation</p> </body> </html> </notes> <label text="CIP2A*"/> <bbox w="80.0" h="40.0" x="19507.111" y="9238.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4112_rc_sa4113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>unc-5 homolog B (C. elegans)</p> <p>HUGO:UNC5B HGNC:12568 ENTREZ:219699 UNIPROT:Q8IZJ1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:19543238</p> <p>PMID:12598906</p> <p>p53RDL1 mediated p53-dependent apoptosis. Conversely, when p53RDL1 interacted with its ligand, Netrin-1, p53-dependent apoptosis was blocked</p> <p>PMID:18582460</p> </body> </html> </notes> <label text="UNC5B"/> <bbox w="80.0" h="50.0" x="19507.111" y="9143.431"/> <glyph class="unit of information" id="_8503b4ef-706b-4ebd-a735-4fcc3f3e0bf4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19524.611" y="9138.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4112_rc_sa4112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>unc-5 homolog B (C. elegans)</p> <p>HUGO:UNC5B HGNC:12568 ENTREZ:219699 UNIPROT:Q8IZJ1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:20495383</p> <p>PMID:19543238</p> <p>PMID:12598906</p> <p>p53RDL1 mediated p53-dependent apoptosis. Conversely, when p53RDL1 interacted with its ligand, Netrin-1, p53-dependent apoptosis was blocked</p> <p>PMID:18582460</p> </body> </html> </notes> <label text="UNC5B"/> <bbox w="80.0" h="50.0" x="19497.111" y="9133.431"/> <glyph class="unit of information" id="_ebe6be73-f2f2-4565-9cd3-d1acd2d04de4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19514.611" y="9128.431"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1026_ad_sa1026" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:23620508</p> <p>LCP2(SLP76)</p> <p>SLP-76 (SH2 domain-containing leukocyte protein of 76 kDa, also known as LCP2), an adaptor that mediates interactions between a host of proteins, including LAT and the actin-regulatory proteins Nck and Vav1. SLP-76 is activated through phosphorylation by Lck and ZAP70 as well as through TCR-independent pathways</p> <p>PMID:12640133 </p> <p>the induced Gab2 potentially competes with SLP-76 for Gads binding, and this may play a role in the efficient negative regulation of TCR signaling through Gab2.</p> <p>PMID:24584089 </p> <p>CD6, which is expressed on the surface of T cells, is also phosphorylated by Zap70 regardless of the presence of Lat. CD6 nucleates the assembly of a signalosome that also involves SLP-76 and probably accounts for the many TCR-induced tyrosine-phosphorylated species that remain in the absence of Lat</p> <p>CD6–SLP-76 association requires Zap70</p> <p>SLP-76 associates with CD6 in a Lat-independent manner.</p> <p>PMID:21536650 </p> <p>Lat-bound SLP-76 also interacts with Nck and with Vav1 to promote reorganization of the actin cytoskeleton</p> <p>PMID:23474202</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation </p> <p>GCK-like kinase (GLK), a SLP76-regulated kinase, was recently reported to phosphorylate directly PKCθ both in vitro and in primary T cells and T cell lines in response to TCR stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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rdf:about="#s_id_rc_sa1900_rc_sa1900"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase6*"/> <bbox w="80.0" h="40.0" x="23219.06" y="16794.0"/> <glyph class="unit of information" id="_8fa2699e-00da-4dcf-ad68-87aa6670a956"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23234.06" y="16789.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2146_in_sa2146" compartmentRef="s_id_in_ca12_in_ca12"> <label text="cGAS*"/> <bbox w="80.0" h="40.0" x="15257.5" y="1960.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2802_in_sa2802"> <label text="KITLG"/> <bbox w="80.0" h="40.0" x="13780.0" y="1115.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa1791_rc_sa1791" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s3183"/> <bbox w="30.0" h="30.0" x="24374.06" y="12024.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2670_rc_sa2670" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2670_rc_sa2670"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DDIT4"/> <bbox w="80.0" h="40.0" x="26024.06" y="12294.0"/> <glyph class="state variable" id="_d7cf5645-699c-481f-b707-d2e188b3eec3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26073.129" y="12289.0"/> </glyph> <glyph class="state variable" id="_35110eca-b0cc-4e0c-bcd1-035955373102"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26042.492" y="12289.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa58_emtc_em_csa58" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:p16INK4A*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="CDK4_6*/p16INK4A*"/> <bbox w="144.0" h="43.0" x="4027.5" y="14255.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1927_emtc_em_sa1927"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDK4_6*</p> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, GENECARDS:GC12M058142, UNIPROT:P11802 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, GENECARDS:GC07M092234, UNIPROT:Q00534  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="60.0" h="19.0" x="4030.5" y="14259.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1926_emtc_em_sa1926"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 2A</p> <p>HUGO:CDKN2A, HGNC:1787, ENTREZ:1029, GENECARDS:GC09M021957, UNIPROT:P42771  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>PMID:26592237</p> <p>P16-specific DNA methylation by engineered zinc finger methyltransferase inactivates gene transcription and</p> <p>promotes cancer metastasis</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="p16INK4A*"/> <bbox w="78.0" h="19.0" x="4090.5" y="14259.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa43_wca1_wca1_csa43" compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:p120*</p> <p>References:</p> <p>s_wca1_re42:(MAP:survival) PMID:21606194</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa43_wca1_wca1_csa43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:p120*"/> <bbox w="100.0" h="120.0" x="22437.06" y="19453.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa358_wca1_wca1_sa358"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22449.56" y="19508.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa384_wca1_wca1_sa384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22448.56" y="19467.0"/> <glyph class="state variable" id="_adb319fa-b725-41bc-a9bc-4e063af88f3e"> <state value="P" variable="S268"/> <bbox w="35.0" h="10.0" x="22431.553" y="19462.0"/> </glyph> <glyph class="state variable" id="_e69c5582-bd4a-4d9d-9226-5a96018c9bce"> <state value="P" variable="S269"/> <bbox w="35.0" h="10.0" x="22471.092" y="19462.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa4_te_sa4" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa4_te_sa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERF2"/> <bbox w="80.0" h="40.0" x="2415.06" y="21290.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1155_emtc_em_sa1155" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1155_emtc_em_sa1155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN19"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin19*"/> <bbox w="70.0" h="17.0" x="1131.0" y="15799.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa848_ce_sa848" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa848_ce_sa848"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ORC1L"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ORC1*"/> <bbox w="80.0" h="40.0" x="12490.27" y="9406.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa360_rc_csa360" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2:NR4A1</p> </body> </html> </notes> <label text="BCL2:Nur77"/> <bbox w="100.0" h="120.0" x="22664.06" y="14069.0"/> <glyph class="macromolecule" id="s_id_rc_sa3360_rc_sa3360"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear receptor subfamily 4, group A, member 1</p> <p>HUGO:NR4A1 HGNC:7980 ENTREZ:3164 UNIPROT:P22736</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:NUR77/TR3</p> </body> </html> </notes> <label text="NR4A1"/> <bbox w="80.0" h="40.0" x="22672.818" y="14126.014"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3361_rc_sa3361"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2 HGNC:990 ENTREZ:596 UNIPROT:P10415</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>PMID:23377657</p> <p>PMID:17446862</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="22675.818" y="14082.014"/> <glyph class="state variable" id="_9d509cdb-c909-415a-9494-d9c6ea179a85"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22724.887" y="14077.014"/> </glyph> <glyph class="state variable" id="_533b96ed-f0b2-47a6-ac56-faa4e4519ac9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22670.818" y="14097.014"/> </glyph> <glyph class="state variable" id="_623bce79-650f-48f4-81c4-621cf758fa80"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22694.25" y="14077.014"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5255_rc_sa5255" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Membrane lipids</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5255_rc_sa5255"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Membrane Lipids*"/> <bbox w="115.0" h="23.0" x="26891.56" y="9177.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa250_emtc_em_sa250" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa250_emtc_em_sa250"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA7"/> <bbox w="40.0" h="20.0" x="4368.316" y="17647.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa438_akt1_akt1_sa438" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa438_akt1_akt1_sa438"> <bqbiol:isEncodedBy> 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reprogramming</p> <p>We found significantly reduced levels of c-Myc in p62 KO fibroblasts as well as in WT fibroblasts in which p62 has been knocked down by shRNA</p> <p> reduction in GLUT1 levels in p62-deficient fibroblasts.</p> <p>We also observed a decrease in the direct conversion of [U-13C5] glutamine to glutamate in p62 KO fibroblasts, with a relative increase in the fraction of glutamate derived from [1,2-13C2]glucose </p> <p>and reduced levels of the glutamine transporters SLC7A5 and SLC1A5, as well as glutaminase-1 (GLS1) (Figure 4O), a critical enzyme in the pathway that catalyzes the conversion of glutamine into glutamate </p> <p>p62 KO cells exhibited decreased glucose uptake and lactate secretion</p> <p>p62 KO cells displayed reduced mTORC1 activity</p> <p> mTORC1 activity in p62 KO fibroblasts accounts for the low levels of c-Myc and the subsequent increase in IL-6 production in these mutant cells. Treatment of WT fibroblasts with rapamycin or Torin, two different inhibitors of mTORC1, effectively reduced c-Myc levels</p> <p>We found significantly reduced levels of c-Myc in p62 KO fibroblasts as well as in WT fibroblasts in which p62 has been knocked down by shRNA (Figures 5A and 5B), and a reduction in the levels of the key glutamine transporters SLC7A5 and SLC1A5, and GLS1 (Figure 4O), which are targets of c-Myc (Dang, 2012). Interestingly, ectopic expression of c-Myc in p62 KO fibroblasts (Figure 5C) reverted the p62-deficient phenotype in terms of IL-6 production</p> <p>PMID:21981924</p> <p>p62 is a key regulator of nutrient sensing in the mTORC1 pathway (data is not from fibroblasts).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1047_ca_sa1047"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SQSTM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25002027"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21981924"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SQSTM1"/> <bbox w="80.0" h="40.0" x="3260.0" y="3300.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa378_rc_csa378" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FADD:GLUD1:GLUL:MLKL:PGAM5:PYGL:RIPK1:RIPK3</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:17603935</p> <p>PMID:16469705</p> <p>The E3 ubiquitin ligase itch couples JNK activation to TNFalpha-induced cell death by inducing c-FLIP(L) turnover.</p> <p>FADD:MLKL:PYGL:RIPK3:RIPK1:PGAM5:GLUL:GLUD1</p> <p>PMID:23073834</p> <p>New components of the necroptotic pathway.</p> <p>PMID:19632174</p> <p>RIP3 directly interacts with glycogen phosphorylase (PYGL), glutamate ammonia ligase (GLUL), and glutamate dehydrogenase 1 (GLUD1)</p> <p>PMID:26807733</p> <p>Mitochondrial Protein PGAM5 Regulates Mitophagic Protection against Cell Necroptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa378_rc_csa378"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22421439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17603935"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16469705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19632174"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26807733"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Necrosome"/> <bbox w="310.0" h="240.0" x="19979.56" y="9831.0"/> <glyph class="macromolecule" id="s_id_rc_sa3609_rc_sa3609"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="20099.56" y="9951.0"/> <glyph class="state variable" id="_918d9af0-961c-41c3-b54f-754b4316ff6b"> <state value="P" variable="S161"/> <bbox w="35.0" h="10.0" x="20138.39" y="9986.0"/> </glyph> <glyph class="state variable" id="_80f48670-c353-4eb7-919e-b55ac225edd5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20094.56" y="9957.171"/> </glyph> <glyph class="state variable" id="_fc7f11dd-cf8a-44aa-ba8c-3c5d05d3b119"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20137.396" y="9946.0"/> </glyph> <glyph class="state variable" id="_8a806501-a3d4-436f-a24a-241017c54627"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="20164.56" y="9957.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3618_rc_sa3618"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mixed lineage kinase domain-like</p> <p>HUGO:MLKL HGNC:26617 ENTREZ:197259 UNIPROT:Q8NB16</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> <p>PMID:24366341</p> <p>PMID:26024392</p> <p>PMID:26853145</p> <p>Sequential Engagement of Distinct MLKL Phosphatidylinositol-Binding Sites Executes Necroptosis.</p> <p>PMID:28498367</p> </body> </html> </notes> <label text="MLKL"/> <bbox w="80.0" h="40.0" x="19999.56" y="9901.0"/> <glyph class="state variable" id="_3e380304-eb17-490b-9119-73c498e2966f"> <state value="P" variable="S358"/> <bbox w="35.0" h="10.0" x="20005.656" y="9896.0"/> </glyph> <glyph class="state variable" id="_88cf5550-fb41-453d-b9ad-53cf1d00021f"> <state value="P" variable="T357"/> <bbox w="35.0" h="10.0" x="19982.06" y="9907.506"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3611_rc_sa3611"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="20099.56" y="9841.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3645_rc_sa3645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoglycerate mutase family member 5</p> <p>HUGO:PGAM5 HGNC:28763 ENTREZ:192111 UNIPROT:Q96HS1</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:23010170</p> <p>PGAM5 promotes necroptosis through the dephosphorylation of Drp1 </p> <p>PMID:23073834</p> <p>PMID:22265414</p> <p>The mitochondrial phosphatase PGAM5 functions at the convergence point of multiple necrotic death pathways.</p> </body> </html> </notes> <label text="PGAM5"/> <bbox w="80.0" h="40.0" x="20099.56" y="10001.0"/> <glyph class="state variable" id="_add8eb2d-63de-4fe4-8109-ead4e6935804"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="20172.06" y="10016.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3629_rc_sa3629"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutamate-ammonia ligase</p> <p>HUGO:GLUL HGNC:4341 ENTREZ:2752 UNIPROT:P15104</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="GLUL"/> <bbox w="80.0" h="40.0" x="20189.56" y="9901.0"/> <glyph class="state variable" id="_6d0d47ee-1f1b-4cb0-a689-433a52da2f2a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20241.129" y="9896.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3610_rc_sa3610"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor-interacting serine-threonine kinase 3</p> <p>HUGO:RIPK3 HGNC:10021 ENTREZ:11035 UNIPROT:Q9Y572</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:23010170</p> <p>PMID:27558815</p> <p>PMID:23073834</p> <p>PMID:19524512</p> <p>PMID:19632174</p> <p>PMID:19498109</p> <p>PMID:19524513</p> <p>The kinase activity of RIP3 is essential for necrosis execution.</p> <p>PMID:26024392</p> <p>The phosphorylation of Ser345 is not required for the interaction between RIPK3 and MLKL in the necrosome, but is essential for MLKL translocation, accumulation in the plasma membrane, and consequent necroptosis.</p> <p>PMID:26900751</p> <p>CHIP controls necroptosis through ubiquitylation- and lysosome-dependent degradation of RIPK3.</p> </body> </html> </notes> <label text="RIPK3"/> <bbox w="80.0" h="40.0" x="20099.56" y="9901.0"/> <glyph class="state variable" id="_96c96a48-1fa1-4261-9473-97a087c02080"> <state value="P" variable="S199"/> <bbox w="35.0" h="10.0" x="20139.01" y="9896.0"/> </glyph> <glyph class="state variable" id="_d05476bb-5a91-4908-af2d-7ecafbbbe020"> <state value="P" variable="S227"/> <bbox w="35.0" h="10.0" x="20082.553" y="9896.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3634_rc_sa3634"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphorylase, glycogen, liver</p> <p>HUGO:PYGL HGNC:9725 ENTREZ:5836 UNIPROT:P06737</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:GLUCOSE_METABOLISM, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:23010170</p> <p>PMID:20823910</p> <p>PYGL catalyses the breakdown of glycogen into glucose-1-phosphate (glycogenolysis), which can be converted into the glycolytic substrate glucose-6-phosphate87, thereby stimulating glycolysis (which eventually contributes to ROS generation). </p> <p>PMID:23627914</p> <p>Glycogen phosphorylase (GP) is the enzyme responsible for the synthesis of glucose-1-phosphate</p> </body> </html> </notes> <label text="PYGL"/> <bbox w="80.0" h="40.0" x="19999.56" y="9951.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3630_rc_sa3630"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutamate dehydrogenase 1</p> <p>HUGO:GLUD1 HGNC:4335 ENTREZ:2746 UNIPROT:P00367</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="GLUD1"/> <bbox w="80.0" h="40.0" x="20189.56" y="9951.0"/> <glyph class="state variable" id="_34cb8fbe-003b-4763-b1d6-ba5966b606ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20241.129" y="9946.0"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_akt1_akt2_sa75_akt1_akt2_sa75" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="G0 phase"/> <bbox w="80.0" h="30.0" x="13138.061" y="20419.0"/> </glyph> <glyph class="complex" id="s_id_in_csa347_in_csa347" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa347_in_csa347"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17301840"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21232017"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24958845"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24699077"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LUBAC"/> <bbox w="110.0" h="150.0" x="23150.0" y="3145.0"/> <glyph class="macromolecule" id="s_id_in_sa2727_in_sa2727"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SHARPIN"/> <bbox w="80.0" h="40.0" x="23170.0" y="3195.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2726_in_sa2726"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RNF31"/> <bbox w="80.0" h="40.0" x="23170.0" y="3155.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2728_in_sa2728"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RBCK1"/> <bbox w="80.0" h="40.0" x="23170.0" y="3235.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa192_emtc_em_csa192" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:ZO1_2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Actin*/ZO1_2*"/> <bbox w="183.0" h="42.0" x="2063.375" y="14414.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1386_emtc_em_sa1386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ZO1_2*</p> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>tight junction protein 2</p> <p>HUGO:TJP2, HGNC:11828, ENTREZ:9414, GENECARDS:GC09P071766, UNIPROT:Q9UDY2 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1_2*"/> <bbox w="56.0" h="19.0" x="2187.875" y="14418.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1262_emtc_em_sa1262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="119.0" h="19.0" x="2067.875" y="14417.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2171_rc_sa2171" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2171_rc_sa2171"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FASN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FASN"/> <bbox w="80.0" h="40.0" x="18178.303" y="11827.125"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2736_in_sa2736" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 12393492, 23046136, 22323450 <p>Map modules:</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>CASCADE:CSF2, CASCADE:IL3</p> <p>References:</p> <p>PMID:12393492, PMID:22323450</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits anf use JAK2 kinase</p> <p>PMID:23046136</p> <p>The receptor for IL-3 comprises the cytokine-specific a subunit IL3Ra and the Bc subunit (CSF2RB) (</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2736_in_sa2736"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393492"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23046136"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSF2RB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22323450"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSF2RB"/> <clone/> <bbox w="80.0" h="50.0" x="8880.0" y="1840.0"/> <glyph class="unit of information" id="_584b3669-5a1f-440e-b2ef-92182b22deef"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8897.5" y="1835.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2736_in_sa2722" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 12393492, 23046136, 22323450 <p>Map modules:</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>CASCADE:CSF2, CASCADE:IL3</p> <p>References:</p> <p>PMID:12393492, PMID:22323450</p> <p>CSF2 acts via heterodimer receptor contains CSF2RA and SSF2RB subunits anf use JAK2 kinase</p> <p>PMID:23046136</p> <p>The receptor for IL-3 comprises the cytokine-specific a subunit IL3Ra and the Bc subunit (CSF2RB) (</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2736_in_sa2722"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393492"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23046136"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSF2RB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22323450"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSF2RB"/> <clone/> <bbox w="80.0" h="50.0" x="24415.0" y="5485.0"/> <glyph class="unit of information" id="_97dd9854-9de6-4fc4-a570-884bb5ac4611"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24432.5" y="5480.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa936_ca_sa936" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HHPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HHPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa936_ca_sa936"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI3"/> <bbox w="90.0" h="25.0" x="5835.0" y="1547.5"/> <glyph class="unit of information" id="_7b8f1158-c074-490d-b980-3003892896b3"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5870.0" y="1542.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa963_in_sa963" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MAF"/> <bbox w="80.0" h="40.0" x="12640.0" y="4496.875"/> </glyph> <glyph class="phenotype" id="s_id_ce_sa1541_ce_sa1541" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:DR, MODULE:NER</p> </body> </html> </notes> <label text="Toxic compounds"/> <bbox w="140.0" h="32.0" x="10989.77" y="14274.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa39_wnc1_wnc1_csa39" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:FZD*:GTP:G_alpha_*:G_beta_*:G_gamma_*:PAR6*:PRICKLE1:PRR*:RACK1*:ROR2:SYN4*:VANGL*:WNT*</p> <p>References:</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> <p>s_wnc1_re64(MAP:survival):</p> <p>For the Fzl receptor, probably same mechanism as for the canonical MODULE.</p> <p>CK1 epsilon is activated upon Wnt-5 stimulation, however, the mechanism is unknown.</p> <p>PMID:17244647</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa39_wnc1_wnc1_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17244647"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:CTHRC1:FZD*:GTP:Gα*:Gβ*:Gγ*:PAR6*:PRICKLE1:PRR*:RACK1*:ROR2:SYN4*:VANGL*:WNT*"/> <bbox w="366.0" h="168.0" x="16854.06" y="19047.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa400_wnc1_wnc1_sa400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16862.56" y="19168.0"/> <glyph class="state variable" id="_c8b22583-2cc8-490d-9247-fbade37447db"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16935.06" y="19163.0"/> </glyph> <glyph class="state variable" id="_f272c72d-5501-49cc-8106-6b6fc61d76ce"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16857.564" y="19163.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa307_wnc1_wnc1_sa307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16862.56" y="19077.0"/> <glyph class="state variable" id="_568c6576-3910-49fc-bcaf-71d9d1a5949b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16857.564" y="19072.0"/> </glyph> <glyph class="state variable" id="_98392189-8592-4917-8958-c5a4e6b1a5a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16937.56" y="19072.0"/> </glyph> <glyph class="state variable" id="_df27536f-0994-4017-8996-922c0b6d8c49"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16937.56" y="19097.0"/> </glyph> <glyph class="state variable" id="_aed816e1-5658-4805-9d70-de745ab11993"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16857.56" y="19097.0"/> </glyph> <glyph class="unit of information" id="_bcd76498-ddc9-4591-aa07-b584b20e156d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16880.06" y="19072.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa404_wnc1_wnc1_sa404"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16942.56" y="19157.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa238_wnc1_wnc1_sa238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17027.56" y="19078.5"/> <glyph class="unit of information" id="_1c044025-e6bb-4af9-b0ce-04955798c8f9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17045.06" y="19073.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa243_wnc1_wnc1_sa243"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="17088.56" y="19130.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa240_wnc1_wnc1_sa240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="17085.56" y="19057.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa290_wnc1_wnc1_sa290"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="17129.56" y="19061.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa296_wnc1_wnc1_sa296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16944.56" y="19076.0"/> <glyph class="unit of information" id="_9ed92cbb-fc84-46f5-abb6-d2c322acf447"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16962.06" y="19071.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa612_wnc1_wnc1_sa612"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="17048.56" y="19154.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa242_wnc1_wnc1_sa242"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="17047.56" y="19130.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa241_wnc1_wnc1_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 11 (Gq class) </p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12 </p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 5Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="17006.56" y="19130.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa244_wnc1_wnc1_sa244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="17018.56" y="19150.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa316_wnc1_wnc1_sa316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16860.56" y="19127.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa239_wnc1_wnc1_sa239"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="17108.56" y="19078.5"/> <glyph class="state variable" id="_71bf3e8f-454d-4100-9c30-98990594b15a"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="17173.56" y="19073.766"/> </glyph> <glyph class="state variable" id="_3c400daa-4ecc-422a-9600-8b951ce0214c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17143.56" y="19123.5"/> </glyph> <glyph class="state variable" id="_7bfb4364-4dab-4045-aec1-305e01e89eb2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17103.564" y="19073.5"/> </glyph> <glyph class="state variable" id="_f2f806a9-2785-4278-a53c-5953073877bd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17183.56" y="19123.5"/> </glyph> <glyph class="unit of information" id="_e12a1cf0-f6c1-4379-809c-54d30fda2e63"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17126.06" y="19073.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa252_wnc1_wnc1_sa252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="17130.56" y="19128.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2701_rc_sa2701" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2701_rc_sa2701"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STK11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STK11"/> <bbox w="80.0" h="40.0" x="17821.322" y="15986.072"/> <glyph class="state variable" id="_74e934a7-3480-47d7-a588-26637e0e43c9"> <state value="active" variable=""/> <bbox w="40.0" h="10.0" x="17841.322" y="15981.072"/> </glyph> <glyph class="state variable" id="_e387f409-2c3d-4a8a-8753-f9550077e851"> <state value="?" variable="K48"/> <bbox w="30.0" h="10.0" x="17862.89" y="15981.072"/> </glyph> <glyph class="state variable" id="_24ddc528-2727-489c-b736-bd5c634a7555"> <state value="?" variable="T366"/> <bbox w="35.0" h="10.0" x="17827.418" y="15981.072"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa255_ca_sa255" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TNF, CASCADE:TGFBPMID:15653932 Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. Western blot analysis showed that TNF-α activated the extracellular signal–regulated kinase (ERK), and inhibitors of the ERK-specific mitogen-activated protein kinase pathway (PD98059 or U0126) blocked TNF-α induction of TGF-β1PMID:21098712Exosomal TGF-β, resulted in an enhanced induction of TGF-β-mRNA in fibroblasts via TGFBR1 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:TNF, CASCADE:TGFBPMID:15653932 Treatment of fibroblasts with TNF-α resulted in a significant increase in TGF-β1 protein as measured by ELISA. The increase in protein was preceded by a 200–400% increase in TGF-β1 mRNA detected by quantitative, real-time, reverse transcriptase–polymerase chain reaction. Western blot analysis showed that TNF-α activated the extracellular signal–regulated kinase (ERK), and inhibitors of the ERK-specific mitogen-activated protein kinase pathway (PD98059 or U0126) blocked TNF-α induction of TGF-β1PMID:21098712Exosomal TGF-β, resulted in an enhanced induction of TGF-β-mRNA in fibroblasts via TGFBR1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa255_ca_sa255"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB1"/> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa87_mo_sa87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RCHY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RCHY1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIRH2*"/> <bbox w="70.0" h="25.0" x="4456.125" y="10351.375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2428_in_sa2428" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CST3"/> <bbox w="70.0" h="25.0" x="20935.0" y="5797.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa10_wca1_wca1_csa10" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re9:(MAP:survival) PMID:17910481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa10_wca1_wca1_csa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17910481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="194.0" h="187.0" x="20412.893" y="19782.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa50_wca1_wca1_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20423.893" y="19880.5"/> <glyph class="state variable" id="_eac21f08-dbcc-409a-9420-57bfad0a3579"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20411.885" y="19875.5"/> </glyph> <glyph class="state variable" id="_770a61cc-92b8-4e3d-b7e8-181ef2d46a60"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20406.393" y="19915.225"/> </glyph> <glyph class="state variable" id="_db687088-dc31-47cf-919c-132cf6bb0547"> <state value="P" variable="S1505"/> <bbox w="40.0" h="10.0" x="20483.273" y="19915.5"/> </glyph> <glyph class="state variable" id="_f33f99eb-cd19-49ad-a389-89cb53a2fa2d"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20406.885" y="19875.5"/> </glyph> <glyph class="state variable" id="_98c136c9-a067-4102-b16a-1a6d4044da20"> <state value="P" variable="S1504"/> <bbox w="40.0" h="10.0" x="20483.893" y="19875.717"/> </glyph> <glyph class="state variable" id="_45f42654-b0fa-456b-a1af-85bfeb39d5f8"> <state value="P" variable="S1507"/> <bbox w="40.0" h="10.0" x="20443.797" y="19915.5"/> </glyph> <glyph class="state variable" id="_041d7b27-46ad-4cf6-90c6-3e772f72b9f0"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20486.393" y="19914.629"/> </glyph> <glyph class="state variable" id="_76e980f9-8d25-42a4-8f2d-6d15e28617c9"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20446.424" y="19875.5"/> </glyph> <glyph class="state variable" id="_1337db08-0c0f-455f-afbd-fbe48b26699b"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20406.393" y="19915.225"/> </glyph> <glyph class="state variable" id="_9ad2807e-21c0-49c7-b435-39c0adb39db3"> <state value="P" variable="S1501"/> <bbox w="40.0" h="10.0" x="20404.385" y="19875.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa715_wca1_wca1_sa715"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20524.06" y="19880.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa47_wca1_wca1_sa47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20507.895" y="19792.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa716_wca1_wca1_sa716"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20516.06" y="19909.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa49_wca1_wca1_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20509.395" y="19836.0"/> <glyph class="state variable" id="_3617a7fa-7fdb-4e33-ad87-37b5d5a9b8fc"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20574.395" y="19831.217"/> </glyph> <glyph class="state variable" id="_6865caba-8775-412d-9dee-50bcb0831318"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20523.611" y="19831.0"/> </glyph> <glyph class="state variable" id="_a2157957-2ffd-411b-87cf-efd7272610c9"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20494.887" y="19831.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20422.643" y="19837.0"/> <glyph class="state variable" id="_5c6a8d5e-bc80-40ad-8672-00576ce3e2f6"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20415.635" y="19832.0"/> </glyph> <glyph class="state variable" id="_9f514a35-3832-461f-84b4-19d0b3e09846"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20495.143" y="19832.217"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20423.893" y="19792.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1882_rc_sa1882" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<body>CELL:TCD4MODULE:TCR_SIGNALINGPMID:1825141; PMID:2965306The stacks contact the plasma membrane (Stinchcombe et al., 2006), which would lead to very focused secretion of cytokines. Interleukin 2 (IL2), IL4, IL5, and interferon-g are all secreted in a polarized manner toward the target APCby T-helpersPMID:26755705 the combinatory blockade of CD112R and TIGIT significantly promoted the secretion of cytokines, including IL-2, IL-5, IL-10, IL-13, and IFN-γ ----- content merged by Celldesigner to SBGN-ML translation ------ CELL:TCD4MODULE:TCR_SIGNALINGPMID:1825141; PMID:2965306The stacks contact the plasma membrane (Stinchcombe et al., 2006), which would lead to very focused secretion of cytokines. Interleukin 2 (IL2), IL4, IL5, and interferon-g are all secreted in a polarized manner toward the target APCby T-helpersPMID:26755705 the combinatory blockade of CD112R and TIGIT significantly promoted the secretion of cytokines, including IL-2, IL-5, IL-10, IL-13, and IFN-γ </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1254_ad_sa1254"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1825141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2965306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26755705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1825141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2965306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26755705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL5"/> <bbox w="90.0" h="25.0" x="26601.0" y="7887.5"/> <glyph class="unit of information" id="_e955e662-d176-45a8-b93c-3711bc53a949"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26636.0" y="7882.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa695_rc_sa695" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa695_rc_sa695"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT5A"/> <bbox w="70.0" h="25.0" x="23603.037" y="16262.798"/> </glyph> <glyph class="complex" id="s_id_ca_csa57_ca_csa57" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CREBBP:EP300</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> </body> </html> </notes> <label text="ca_s4253"/> <bbox w="100.0" h="120.0" x="5360.0" y="3720.0"/> <glyph class="macromolecule" id="s_id_ca_sa525_ca_sa525"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 hgnc_id:HGNC:3373 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:15265520 </p> <p>The role for CREB binding protein (CBP) and p300 as essential coactivators for SMAD-driven gene expression has been well documented and competition for p300/CBP has been suggested to mediate some examples of signal-induced transcriptional repression.</p> <p>PMID:10918613 </p> <p>For Smad-dependent stimulation of collagen (COL1A2 )synthesis, the interaction of activated Smad2/3 with p300 is essential (Ghosh et al., 2001, 2004a). Furthermore, the acetyltransferase activity of p300 is required for maximal stimulation as shown by the fact that fibroblasts transfected with HAT-deleted mutants of p300 showed markedly reduced TGF-β stimulation of COL1A2 promoter activity (Ghosh et al., 2000).</p> </body> </html> </notes> <label text="EP300"/> <bbox w="80.0" h="40.0" x="5370.0" y="3780.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa524_ca_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CREB binding protein</p> <p>HUGO:CREBBP hgnc_id:HGNC:2348 HGNC:2348 ENTREZ:1387 UNIPROT:Q92793</p> <p>Map modules:</p> <p>MODULE:CORE MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:15265520 </p> <p>The role for CREB binding protein (CBP) and p300 as essential coactivators for SMAD-driven gene expression has been well documented and competition for p300/CBP has been suggested to mediate some examples of signal-induced transcriptional repression.</p> </body> </html> </notes> <label text="CREBBP"/> <bbox w="80.0" h="40.0" x="5370.0" y="3730.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4782_rc_sa4782" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4782_rc_sa4782"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF3"/> <bbox w="80.0" h="40.0" x="27639.06" y="15799.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1160_rc_sa1160" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="succinate"/> <clone/> <bbox w="70.0" h="25.0" x="25024.56" y="15300.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1160_rc_sa1147" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="succinate"/> <clone/> <bbox w="70.0" h="25.0" x="17811.56" y="13246.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4765_rc_sa4765" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4765_rc_sa4765"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR455"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR455"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR455"/> <bbox w="90.0" h="25.0" x="27446.326" y="16251.5"/> <glyph class="unit of information" id="_2706a61e-fd0d-40b7-a5d9-fc6b724d0185"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27476.326" y="16246.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa16_wca1_wca4_sa16" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa16_wca1_wca4_sa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR375"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR375"/> <bbox w="90.0" h="25.0" x="23493.06" y="22695.5"/> <glyph class="unit of information" id="_495eb22e-918c-4ce3-a7dd-bbb709ab2c51"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="23523.06" y="22690.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa1159_ca_sa1159" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Septins_polymerization"/> <bbox w="220.0" h="45.0" x="6050.0" y="3607.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa71_wca1_wca3_csa71" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL9:DVL*:JUN:PYGO*:_beta_-Catenin*:p300*</p> <p>References:</p> <p>s_wca3_re170:(MAP:survival) PMID:18347071</p> <p>s_wca3_re6(MAP:survival):</p> <p>PMID:16169192</p> <p>B-catenin competes with TLE for Lef-1</p> <p>PMID:15768032</p> <p>CBP-and P300-mediated transcription different cell fates</p> <p>PMID:20530697</p> <p>(phosphorylated) C-JUN can bind to TCF4</p> <p>PMID:18347071 PMID:16007074</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa71_wca1_wca3_csa71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16169192"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15768032"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16007074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL9:DVL*:JUN:PYGO*:β-Catenin*:p300*"/> <bbox w="105.0" h="303.0" x="21161.31" y="21592.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa471_wca1_wca3_sa471"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="21174.06" y="21812.5"/> <glyph class="state variable" id="_98d5fe58-1ab6-41da-b5cc-347f9289881c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21249.06" y="21807.5"/> </glyph> <glyph class="state variable" id="_28580f7a-7eba-4da6-aef0-6f686b42229e"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="21159.06" y="21847.22"/> </glyph> <glyph class="state variable" id="_147d822b-0b02-4953-a130-d097eb2de275"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21169.064" y="21807.5"/> </glyph> <glyph class="state variable" id="_5ec41382-1854-4031-b638-f347bdbe113f"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="21238.441" y="21847.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa469_wca1_wca3_sa469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="21173.936" y="21600.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa468_wca1_wca3_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="21173.873" y="21719.5"/> <glyph class="state variable" id="_d75e3123-ea61-4f7f-a255-177ae3829bf9"> <state value="" variable="K19"/> <bbox w="25.0" h="10.0" x="21161.865" y="21714.5"/> </glyph> <glyph class="state variable" id="_8fe84c60-1b0e-4149-8ba7-74f711a3541b"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="21161.373" y="21754.22"/> </glyph> <glyph class="state variable" id="_dc9fcb05-899b-46ee-ac7f-f491ab89828b"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21238.873" y="21714.713"/> </glyph> <glyph class="state variable" id="_5c89e214-db06-4198-8818-60355144d47a"> <state value="" variable="S45"/> <bbox w="25.0" h="10.0" x="21201.277" y="21754.5"/> </glyph> <glyph class="state variable" id="_2e8f56fe-178c-41b6-a09f-fbf175886b87"> <state value="" variable="T41"/> <bbox w="25.0" h="10.0" x="21240.754" y="21754.5"/> </glyph> <glyph class="state variable" id="_17616a0d-7956-4381-90bd-5b4ebd335369"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21188.09" y="21714.5"/> </glyph> <glyph class="state variable" id="_59447e9c-70b6-46bf-af3f-7cfe694b372c"> <state value="" variable="S37"/> <bbox w="25.0" h="10.0" x="21241.373" y="21714.713"/> </glyph> <glyph class="state variable" id="_07acd482-463c-4b28-8229-99d70973a20b"> <state value="" variable="S33"/> <bbox w="25.0" h="10.0" x="21201.404" y="21714.5"/> </glyph> <glyph class="state variable" id="_72a20824-ee7b-4644-b393-b56d36dbb3af"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="21163.873" y="21732.46"/> </glyph> <glyph class="state variable" id="_751f76da-25ef-4a22-b018-74b7939addb5"> <state value="Ac" variable="K345"/> <bbox w="40.0" h="10.0" x="21233.873" y="21714.713"/> </glyph> <glyph class="state variable" id="_e2ee7647-56e4-4ed4-8325-dcc8de9b95bc"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="21159.365" y="21714.5"/> </glyph> <glyph class="state variable" id="_e642d1a9-5a17-41fb-b745-e36522e3daf1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21168.873" y="21720.771"/> </glyph> <glyph class="state variable" id="_3d8fe392-9a24-49d6-a81b-9a160420df1b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21168.873" y="21726.008"/> </glyph> <glyph class="state variable" id="_7ff063bd-ce50-4ed4-afb5-12a9b7f4d1a9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21168.873" y="21734.469"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa466_wca1_wca3_sa466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 9</p> <p>HUGO:BCL9 HGNC:1008 ENTREZ:607 UNIPROT:O00512 GENECARDS:BCL9 KEGG:607 ATLASONC:BCL9ID466 WIKI:BCL9</p> <p>Map modules:</p> </body> </html> </notes> <label text="BCL9"/> <bbox w="80.0" h="40.0" x="21174.373" y="21681.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa467_wca1_wca3_sa467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pygopus homolog 1 (Drosophila)</p> <p>HUGO:PYGO1 HGNC:30256 ENTREZ:26108 UNIPROT:Q9Y3Y4 GENECARDS:PYGO1 WIKI:PYGO1</p> <p>Map modules:</p> </body> </html> </notes> <label text="PYGO*"/> <bbox w="80.0" h="40.0" x="21174.373" y="21641.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa470_wca1_wca3_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="21174.06" y="21767.5"/> <glyph class="state variable" id="_6fc7aba0-2805-4c96-b44e-d91d97b4633a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21166.564" y="21762.5"/> </glyph> <glyph class="state variable" id="_e86557fc-b2f5-463e-b614-8176e18df980"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21166.564" y="21802.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa720_rc_sa720" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa720_rc_sa720"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:E2F3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E2F3"/> <bbox w="70.0" h="25.0" x="23830.53" y="16266.684"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa958_ca_sa958" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19631971</p> <p>Fibroblasts cultivated in cancer cell CM express different growth factors,</p> <p>bFGF mRNA and IL-1α mRNA was increased after 12 h, whereas mRNA for bFGF, HB-EGF, HGF, IGF-1, and IL-1α was increased after 24 h. </p> <p>EGF mRNA was not increased by the CM at any time point.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa958_ca_sa958"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HBEGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19631971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HBEGF"/> <bbox w="80.0" h="40.0" x="3880.0" y="4840.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2130_in_sa2130" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20581311, 22067385 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSUPPRESSIVECASCADE:GSF3, CASCADE:IL4, CASCADE:IFNABReferences:PMID:22067385c-MYC expression is assosiated with M2 type of macrophages.IL4 induces MYC expression in macrophages. MYC directly regulates some genes associated with alternative activation, including SCARB1, ALOX15, and MRC1, whereas others, including CD209, are indirectly regulated by c-MYC. c-MYC up-regulates the IL-4 signaling mediators signal transducer and activator of transcription-6 and peroxisome proliferator-activated receptorg, is also expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20581311STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis. ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 20581311, 22067385 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:NEUTROPHILMODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSUPPRESSIVECASCADE:GSF3, CASCADE:IL4, CASCADE:IFNABReferences:PMID:22067385c-MYC expression is assosiated with M2 type of macrophages.IL4 induces MYC expression in macrophages. MYC directly regulates some genes associated with alternative activation, including SCARB1, ALOX15, and MRC1, whereas others, including CD209, are indirectly regulated by c-MYC. c-MYC up-regulates the IL-4 signaling mediators signal transducer and activator of transcription-6 and peroxisome proliferator-activated receptorg, is also expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20581311STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2130_in_sa2130"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20581311"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22067385"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <bbox w="90.0" h="25.0" x="13295.0" y="4644.375"/> <glyph class="unit of information" id="_688aee07-d5b5-49cd-93fb-633a27b0da2d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="13330.0" y="4639.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa72_mo_sa72" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>FK506 binding protein 8 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa72_mo_sa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FKBP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FKBP38*"/> <bbox w="80.0" h="44.0" x="3150.0" y="8934.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa37_akt1_akt1_csa37" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:PRAS40*</p> <p>References:</p> <p>s_akt1_re61:(MAP:survival) PMID:17604271</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa37_akt1_akt1_csa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17604271"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:PRAS40*"/> <bbox w="188.0" h="93.0" x="13358.061" y="19610.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa201_akt1_akt1_sa201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="13365.561" y="19631.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa204_akt1_akt1_sa204"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="13453.561" y="19629.0"/> <glyph class="state variable" id="_85c4e492-d2c2-48b8-aa83-2e3cdb61a4c1"> <state value="P" variable="S183"/> <bbox w="35.0" h="10.0" x="13436.553" y="19624.0"/> </glyph> <glyph class="state variable" id="_01f23f65-b005-4f07-a071-09ff45188ee6"> <state value="P" variable="S212"/> <bbox w="35.0" h="10.0" x="13516.061" y="19624.99"/> </glyph> <glyph class="state variable" id="_66a1d837-7f35-47f7-8a43-509c05215621"> <state value="P" variable="S221"/> <bbox w="35.0" h="10.0" x="13516.061" y="19663.133"/> </glyph> <glyph class="state variable" id="_73cc0233-acec-4391-852a-8dbc6b839d53"> <state value="P" variable="T246"/> <bbox w="35.0" h="10.0" x="13436.061" y="19660.12"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1002_ad_sa1002" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD4</p> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:TCR_SIGNALING, MODULE:TH1</p> <p>PMID:21411734 </p> <p>T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doses</p> <p>when cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.</p> <p>NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells.</p> <p>PMID:1825141; PMID:2965306</p> <p>The stacks contact the plasma membrane (Stinchcombe et al., 2006), which would lead to very focused secretion of cytokines. Interleukin 2 (IL2), IL4, IL5, and interferon-g are all secreted in a polarized manner toward the target APC</p> <p>by T-helpers</p> <p>PMID:24658051</p> <p> CD96 competed with CD226 for CD155 binding and limited NK cell function by direct inhibition. As a result, Cd96(-/-) mice displayed hyperinflammatory responses to the bacterial product lipopolysaccharide (LPS) and resistance to carcinogenesis and experimental lung metastases.</p> <p> CD96 competed with CD226 for ligand binding and dampened the production of IFN-γ by NK cells in vitro and in vivo through direct inhibition.</p> <p>PMID:15811952</p> <p>The tumor suppressor TSLC1/NECL-2 triggers NK-cell and CD8+ T-cell responses through the cell-surface receptor CRTAM</p> <p>Stimulation of a human polyclonal T-cell line with PMA/ionomycin induced expression of CRTAM on CD8+ T cells after 4 hours of stimulation</p> <p>CRTAM expression on NK cells and CD8+ T cells is tightly regulated by NK cell–activating receptors and T-cell receptor (TCR) triggering, respectively.</p> <p>Necl-2–CRTAM interaction leads to strong IFN-γ secretion by CD8+ T cells.</p> <p>PMID:26755705</p> <p> the combinatory blockade of CD112R and TIGIT significantly promoted the secretion of cytokines, including IL-2, IL-5, IL-10, IL-13, and IFN-γ</p> <p>PMID:16286920; PMID:20819927</p> <p>Galectin-9 via TIM3 eliminates IFN-γ-producing TH1 cells</p> <p>PMID:12818165</p> <p>By arresting cell cycle, B7-H4 ligation of T cells has a profound inhibitory effect on the growth, cytokine secretion, and development of cytotoxicity.</p> <p>It inhibits IL-2, IL-4, IL-10, and IFN-γ secretion from B7-1 costimulated T cells.</p> <p>PMID:15634932</p> <p>A2A adenosine receptor induction inhibits IFN-gamma production in murine CD4+ T cells.</p> <p>PMID:20038811</p> <p>IFNG as well as TNF secretion was reduced when melanoma cell lines expressed HVEM (Figure ​(Figure6,6, C and D). This inhibition correlated significantly with percentages of T cells expressing BTLA (Figure ​(Figure6E).6E).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1002_ad_sa1002"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1825141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2965306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24658051"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15811952"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26755705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286920"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20819927"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818165"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15634932"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20038811"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IFNG"/> <bbox w="80.0" h="40.0" x="27086.0" y="8170.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa216_ce_csa216" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AURKB:BIRC5:Borealin*:INCENP</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> </body> </html> </notes> <label text="AURCB/Borealin*/INCENP/Survivin*"/> <bbox w="191.0" h="115.0" x="11300.473" y="13718.356"/> <glyph class="macromolecule" id="s_id_ce_sa1056_ce_sa1056"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inner centromere protein antigens 135/155kDa</p> <p>HUGO:INCENP, HGNC:6058, ENTREZ:3619, UNIPROT:Q9NQS7</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>Component of the chromosomal passenger complex (CPC)</p> <p>PMID:15249581, PMID:15249581, PMID:17956729, PMID:12925766, PMID:16571674</p> </body> </html> </notes> <label text="INCENP"/> <bbox w="80.0" h="40.0" x="11404.783" y="13767.928"/> <glyph class="state variable" id="_54382e39-5433-467d-9d9b-9add771738c6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11397.283" y="13782.928"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1052_ce_sa1052"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aurora kinase B</p> <p>HUGO:AURKB, HGNC:11390, ENTREZ:9212, UNIPROT:Q96GD4</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:14767480</p> <p>Component of the chromosomal passenger complex (CPC)</p> <p>PMID:15249581, PMID:15249581, PMID:17956729, PMID:12925766, PMID:16571674</p> </body> </html> </notes> <label text="AURKB"/> <bbox w="80.0" h="40.0" x="11312.783" y="13728.015"/> <glyph class="state variable" id="_6c0bb8bc-c5af-44d4-af73-11df394af481"> <state value="P" variable="T232"/> <bbox w="35.0" h="10.0" x="11295.283" y="13743.015"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1053_ce_sa1053"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle associated 8, Borealin</p> <p>HUGO:CDCA8, HGNC:14629, ENTREZ:55143, UNIPROT:Q53HL2</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>Component of the chromosomal passenger complex (CPC)</p> <p>PMID:15249581, PMID:15249581, PMID:17956729, PMID:12925766, PMID:16571674</p> </body> </html> </notes> <label text="Borealin*"/> <bbox w="80.0" h="40.0" x="11404.783" y="13727.953"/> <glyph class="state variable" id="_7ed405a9-75cc-4a45-a5f1-cfe6386e92d2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11397.283" y="13742.953"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1054_ce_sa1054"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>baculoviral IAP repeat-containing 5, Surverin</p> <p>HUGO:BIRC5, HGNC:593, ENTREZ:332, UNIPROT:Q9P2W8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>Component of the chromosomal passenger complex (CPC)</p> <p>PMID:15249581, PMID:15249581, PMID:17956729, PMID:12925766, PMID:16571674</p> </body> </html> </notes> <label text="BIRC5"/> <bbox w="80.0" h="40.0" x="11312.783" y="13770.953"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa7_an_csa7" compartmentRef="s_id_an_ca1_an_ca1"> <label text="an_s56"/> <bbox w="103.0" h="175.0" x="7182.0" y="5870.0"/> <glyph class="macromolecule" id="s_id_an_sa52_an_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: Ang1</p> <p>HGNC:484</p> </body> </html> </notes> <label text="ANGPT1"/> <bbox w="80.0" h="40.0" x="7193.0" y="5884.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa510_an_sa510"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. Although Ang2 is a weaker agonist than Ang1, endogenous Ang2 maintains a level of Tie2 activation that is critical to a spectrum of EC functions</p> <p>Ang-2 levels are upregulated by hypoxia</p> <p> Davis S, Aldrich TH, Jones PF et al (1996) Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap</p> </body> </html> </notes> <label text="ANGPT2"/> <bbox w="80.0" h="40.0" x="7193.4287" y="5931.2856"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa50_an_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: CD202b, TIE-2, TIE2, VMCM1</p> <p>HGNC:11724</p> </body> </html> </notes> <label text="TEK"/> <bbox w="80.0" h="50.0" x="7192.0" y="5980.0"/> <glyph class="state variable" id="_de1a9ab6-cf89-473a-9df5-8943d7939abd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7210.446" y="6025.0"/> </glyph> <glyph class="state variable" id="_b5c37b78-34d6-4dce-a16c-51397c59e2e1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7267.0" y="6000.0"/> </glyph> <glyph class="state variable" id="_67eae2ce-e505-4a5d-a5a4-281cc6d797b0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7243.5684" y="6025.0"/> </glyph> <glyph class="unit of information" id="_7f877903-46df-43a6-a0e3-99e003f17b69"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7209.5" y="5975.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa16_akt1_akt2_csa16" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CKS1B:CUL1:SKP1:SKP2</p> <p>References:</p> <p>s_akt2_re48:(MAP:survival) PMID:15147722</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa16_akt1_akt2_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CKS1B:CUL1:SKP1:SKP2"/> <bbox w="172.0" h="112.0" x="13328.061" y="20477.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa115_akt1_akt2_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>"S-phase kinase-associated protein 1A (p19A)", SKP1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="13331.561" y="20527.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa105_akt1_akt2_sa105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2 HGNC:10901 ENTREZ:6502 UNIPROT:Q13309 GENECARDS:SKP2 REACTOME:405589 KEGG:6502 ATLASONC:GC_SKP2 WIKI:SKP2 </p> <p>Q13309</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="SKP2"/> <bbox w="80.0" h="40.0" x="13413.061" y="20527.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa104_akt1_akt2_sa104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="13413.061" y="20485.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa102_akt1_akt2_sa102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDC28 protein kinase regulatory subunit 1B</p> <p>HUGO:CKS1B HGNC:19083 ENTREZ:1163 UNIPROT:P61024 GENECARDS:CKS1B REACTOME:69869 KEGG:1163 ATLASONC:CKS1BID40092ch1q21 WIKI:CKS1B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CKS1B"/> <bbox w="80.0" h="40.0" x="13332.061" y="20485.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa267_ce_sa267" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0C_NHEJ:DNA:st2Recognized DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:C_NHEJReferences:PMID:24050180 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0C_NHEJ:DNA:st2Recognized DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:C_NHEJReferences:PMID:24050180 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa267_ce_sa267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="C_NHEJ_DNA_st2*"/> <bbox w="150.0" h="26.0" x="12742.974" y="15797.294"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa5531_rc_sa5531" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="Potassium efflux"/> <bbox w="90.0" h="25.0" x="28429.06" y="9034.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2130_em_sa2130" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="ARF5"/> <bbox w="80.0" h="40.0" x="1941.0" y="12975.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2847_rc_sa2847" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2847_rc_sa2847"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90AA2"/> <bbox w="80.0" h="40.0" x="25248.81" y="14313.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1798_emtc_em_sa1798" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1798_emtc_em_sa1798"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmoglein1 binding partners*"/> <bbox w="199.0" h="18.0" x="1924.0" y="16882.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1332_emtc_em_sa1332" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1332_emtc_em_sa1332"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJB1"/> <bbox w="35.0" h="16.0" x="1143.5" y="18084.5"/> <glyph class="state variable" id="_424d8d4c-c3dc-40cd-b03e-113d0928d568"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="1171.0" y="18079.896"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa99_in_csa99" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s1700"/> <bbox w="100.0" h="120.0" x="14780.0" y="3205.0"/> <glyph class="macromolecule" id="s_id_in_sa688_in_sa688"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CDC42"/> <bbox w="80.0" h="40.0" x="14790.0" y="3225.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa689_in_sa689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="14795.0" y="3272.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa25_wca1_wca1_csa25" compartmentRef="s_id_wca1_wca1_ca4_wca1_wca1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:E-Cadherin*:LRP5_6*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20940130 PMID:21606194</p> <p>s_wca1_re25:(MAP:survival) PMID:21606194 PMID:19705439</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa25_wca1_wca1_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20940130"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19705439"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:E-Cadherin*:LRP5_6*:p120*"/> <bbox w="225.0" h="189.0" x="21234.06" y="17576.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa145_wca1_wca1_sa145"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21372.06" y="17707.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa139_wca1_wca1_sa139"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21237.06" y="17644.0"/> <glyph class="state variable" id="_6aba03e3-e039-4475-a97b-b766d559999c"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="21219.56" y="17663.96"/> </glyph> <glyph class="state variable" 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class="macromolecule" id="s_id_wca1_wca1_sa143_wca1_wca1_sa143"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21320.06" y="17586.0"/> <glyph class="state variable" id="_b406f3f7-30ac-47f8-8ddd-013a23a3a97d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21368.06" y="17581.0"/> </glyph> <glyph class="state variable" id="_ef2a29f5-1b84-4366-9e6b-fe0e66880b17"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21358.06" y="17581.652"/> </glyph> <glyph class="state variable" id="_b3e69ac3-b478-4c25-9dd1-fd444194e334"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21356.129" y="17704.0"/> </glyph> <glyph class="state variable" id="_21d6dba3-a5f1-41d0-b420-8d6d0b857ba6"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21305.904" y="17581.0"/> </glyph> <glyph class="state variable" id="_65be402c-9efa-4776-bef5-1a04b583e753"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21305.219" y="17704.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa144_wca1_wca1_sa144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21374.06" y="17667.0"/> <glyph class="state variable" id="_ddb2ace2-95c1-4c61-acdd-b4b30bfa8ec6"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21359.553" y="17662.0"/> </glyph> <glyph class="state variable" id="_e2ad237b-64cf-4c1d-8b0e-8def65c72ddc"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21399.092" y="17662.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2389_in_sa2389" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ETS1"/> <bbox w="80.0" h="40.0" x="19765.0" y="4645.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa622_ca_sa622" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:INTEGRINPMID:20129924; PMID:19913614 The human alpha11 integrin promoter drives fibroblast-restricted expression in vivo and is regulated by TGF-beta1 in a Smad- and Sp1-dependent manner.Transfection and expression of the inhibitory Smad7 in the cells attenuated the TGF-beta1-dependent alpha11 induction both at the RNA and the protein level. Mutation and deletion analyses identified a Smad-binding element, SBE2 (nt -182/-176), as an important Smad3-binding site in this part of the promoter. Further analyses suggested that the Sp1-binding site SBS1 (nt -140/-134) takes part in the responsiveness to TGF-beta1 in a Smad2-dependent manner. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:TGFB, CASCADE:INTEGRINPMID:20129924; PMID:19913614 The human alpha11 integrin promoter drives fibroblast-restricted expression in vivo and is regulated by TGF-beta1 in a Smad- and Sp1-dependent manner.Transfection and expression of the inhibitory Smad7 in the cells attenuated the TGF-beta1-dependent alpha11 induction both at the RNA and the protein level. Mutation and deletion analyses identified a Smad-binding element, SBE2 (nt -182/-176), as an important Smad3-binding site in this part of the promoter. Further analyses suggested that the Sp1-binding site SBS1 (nt -140/-134) takes part in the responsiveness to TGF-beta1 in a Smad2-dependent manner. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa622_ca_sa622"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20129924"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19913614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20129924"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19913614"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA11"/> <bbox w="70.0" h="25.0" x="7215.0" y="2147.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa83_ce_csa83" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:hMutL*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="hMutL*"/> <bbox w="93.0" h="66.0" x="11522.473" y="15897.356"/> <glyph class="macromolecule" id="s_id_ce_sa1250_ce_sa1250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hMutL* </p> <p>Node_Type:Generic</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="hMutL*"/> <bbox w="80.0" h="40.0" x="11525.973" y="15899.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa53_wnc1_wnc1_csa53" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRICKLE1:RACK1*:ROR2:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re86:(MAP:survival) PMID:17030191</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa53_wnc1_wnc1_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17030191"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="400.0" h="201.0" x="16223.561" y="19514.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa384_wnc1_wnc1_sa384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="16412.06" y="19519.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa541_wnc1_wnc1_sa541"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16504.31" y="19603.5"/> <glyph class="state variable" id="_b986351b-2c45-48d7-91f8-fa191d9fb1fa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16499.314" y="19638.5"/> </glyph> <glyph class="state variable" id="_799aadce-089f-465e-b650-f700eb9b77f9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16576.443" y="19598.5"/> </glyph> <glyph class="state variable" id="_18485ffb-eee3-4a59-aa3a-bd68ee4bd2b9"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16568.691" y="19638.5"/> </glyph> <glyph class="state variable" id="_bfbe3a2f-b9af-4556-bbb8-d0ede77e5c85"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16499.314" y="19598.5"/> </glyph> <glyph class="state variable" id="_ab8d0a0f-2ccf-45ea-ad94-0fc6a9a9aebb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16579.31" y="19598.5"/> </glyph> <glyph class="state variable" id="_e098954a-65a2-4900-9861-971ee628b123"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16579.31" y="19638.5"/> </glyph> <glyph class="state variable" id="_bd7976f2-d0f1-40a3-8fe7-e93df0321ffb"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16489.31" y="19638.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa397_wnc1_wnc1_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16231.561" y="19643.0"/> <glyph class="state variable" id="_5f2d3118-aea2-4d2b-9008-7f507d0ebd33"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16304.061" y="19638.0"/> </glyph> <glyph class="state variable" id="_e6728081-9f80-40f8-8d68-2225b53bff90"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16226.564" y="19638.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa392_wnc1_wnc1_sa392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16326.311" y="19535.5"/> <glyph class="unit of information" id="_b7e34437-ab02-47b5-826f-21a5fd48a9d3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16343.811" y="19530.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa411_wnc1_wnc1_sa411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16316.561" y="19640.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa385_wnc1_wnc1_sa385"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16317.561" y="19593.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa383_wnc1_wnc1_sa383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="16424.06" y="19542.0"/> <glyph class="unit of information" id="_de796623-5260-41a4-a9be-62ccd56a6829"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16441.56" y="19537.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa396_wnc1_wnc1_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="16508.06" y="19546.0"/> <glyph class="state variable" id="_779faae6-91ba-4c9d-ba5e-c5245e1733ac"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="16573.06" y="19541.266"/> </glyph> <glyph class="state variable" id="_86685048-a42f-478c-9593-eecd6c5aa368"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16543.06" y="19591.0"/> </glyph> <glyph class="state variable" id="_7e7d837f-e666-4688-bcb3-c761f6cfc9d0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16503.064" y="19541.0"/> </glyph> <glyph class="state variable" id="_ad747f95-88aa-412c-948e-bb79bb66af9e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16583.06" y="19591.0"/> </glyph> <glyph class="unit of information" id="_d613b286-e057-4b19-9c40-e6f7135207e8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16525.56" y="19541.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa391_wnc1_wnc1_sa391"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="16455.31" y="19520.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa394_wnc1_wnc1_sa394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16241.311" y="19535.5"/> <glyph class="state variable" id="_ef24e282-c918-43c4-abea-a6a0fefe6938"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16236.314" y="19530.5"/> </glyph> <glyph class="state variable" id="_750fcf72-6039-4538-a035-d119c8fb11d4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16316.311" y="19530.5"/> </glyph> <glyph class="state variable" id="_451b1a72-8ce2-4821-ac61-b46989a26bb8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16316.311" y="19555.5"/> </glyph> <glyph class="state variable" id="_10b29049-1966-4295-9dbb-75c4b95beae7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16236.311" y="19555.5"/> </glyph> <glyph class="unit of information" id="_39250724-3e5c-4f41-9086-52de6c37ea4b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16258.811" y="19530.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa393_wnc1_wnc1_sa393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="16403.31" y="19644.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa541_wnc1_wnc1_sa540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16501.31" y="19650.5"/> <glyph class="state variable" id="_f64971af-61bd-4047-961d-c9d3e3cf3903"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16496.314" y="19685.5"/> </glyph> <glyph class="state variable" id="_1c1d56c7-77e8-4656-919d-3d00cdfd2aa7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16573.443" y="19645.5"/> </glyph> <glyph class="state variable" id="_28cf6762-7f45-40ab-882c-99a25e422c88"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16565.691" y="19685.5"/> </glyph> <glyph class="state variable" id="_10827dbf-992f-45b1-987f-bbe53abf4b09"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16496.314" y="19645.5"/> </glyph> <glyph class="state variable" id="_e959861b-da52-4bf0-b07f-86c302535fd5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16576.31" y="19645.5"/> </glyph> <glyph class="state variable" id="_2714174a-c490-4658-8a8a-b03a4b0cb032"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16576.31" y="19685.5"/> </glyph> <glyph class="state variable" id="_d6c99143-bc48-41a0-a4e3-685896dc875a"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16486.31" y="19685.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa395_wnc1_wnc1_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16231.311" y="19589.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2106_in_sa2106" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="70.0" h="25.0" x="20640.0" y="4722.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa309_ce_sa309" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa309_ce_sa309"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="10948.145" y="9178.875"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa811_rc_sa811" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16905 KEGGCOMPOUND:C00354 CAS:488-69-7</p> </body> </html> </notes> <label text="fructose-1,6P2"/> <bbox w="110.0" h="32.0" x="18684.06" y="10093.375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2407_emtc_em_sa2407" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2407_emtc_em_sa2407"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP3"/> <bbox w="48.0" h="19.0" x="2992.0" y="17144.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa436_rc_csa436" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GEF*:NRAGE*</p> <p>References:</p> <p>11756498</p> </body> </html> </notes> <label text="GEF*:NRAGE*"/> <bbox w="100.0" h="120.0" x="20789.06" y="9829.0"/> <glyph class="macromolecule" id="s_id_rc_sa4236_rc_sa4236"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>melanoma antigen family D, 1</p> <p>HUGO:MAGED1 HGNC:6813 ENTREZ:9500 UNIPROT:Q9Y5V3</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:12376548</p> <p>NRAGE induces caspase activation and cell death through a JNK-dependent mitochondrial pathway</p> <p>PMID:15721744</p> <p>PMID:11546791</p> <p>PMID:17488777</p> <p>NRAGE associates with the anti-apoptotic factor Che-1 and regulates its degradation to induce cell death.</p> <p>PMID:23314527</p> </body> </html> </notes> <label text="NRAGE*"/> <bbox w="80.0" h="40.0" x="20799.06" y="9839.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4235_rc_sa4235"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rho guanine nucleotide exchange factor (GEF) 1</p> <p>HUGO:ARHGEF1 HGNC:681 ENTREZ:9138 UNIPROT:Q92888</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:21893191</p> <p>PMID:10985348</p> </body> </html> </notes> <label text="GEF*"/> <bbox w="80.0" h="40.0" x="20799.06" y="9879.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa22_ad_csa22" compartmentRef="s_id_ad_ca8_ad_ca8"> <label text="ad_s4357"/> <bbox w="100.0" h="120.0" x="28236.0" y="2555.0"/> <glyph class="macromolecule" id="s_id_ad_sa1006_ad_sa1006"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:LCK</p> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:SMAC</p> <p>PMID:23620508;PMID:21127503 </p> <p>Lck (lymphocyte-specific tyrosine-protein kinase) is a membrane-tethered kinase that phosphorylates tyrosine residues in the ITAMs in the TCR–CD3 complex. Doubly phosphorylated ITAMs are the docking sites for ZAP70 and other TCR signaling-associated proteins. Lck is often associated with the CD4 or CD8 co-receptors, which might potentiate its activity by bringing it into the proximity of the CD3 chains </p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves. </p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:9438848</p> </body> </html> </notes> <label text="LCK"/> <bbox w="80.0" h="40.0" x="28246.0" y="2625.0"/> <glyph class="state variable" id="_fc0bf9fb-6319-4ebb-9822-df7fe110a1ad"> <state value="P" variable="Y394"/> <bbox w="35.0" h="10.0" x="28308.5" y="2659.638"/> </glyph> <glyph class="state variable" id="_14584ce0-3078-49fd-b3fa-17cd61ac8131"> <state value="" variable="Y505"/> <bbox w="30.0" h="10.0" x="28231.0" y="2625.4866"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa240_ad_sa240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD4</p> <p>HUGO:CD4</p> <p>CASCADE:TCR</p> <p>PMID:3263576</p> <p>CD4 and CD8 are cell-surface glycoproteins expressed on mutually exclusive subsets of peripheral T cells. T cells that express CD4 have T-cell antigen receptors that are specific for antigens presented by major histocompatibility complex class II molecules, whereas T cells that express CD8 have receptors specific for antigens presented by MHC class I molecules</p> <p>PMID:10398592 </p> </body> </html> </notes> <label text="CD4"/> <bbox w="80.0" h="50.0" x="28246.0" y="2560.0"/> <glyph class="unit of information" id="_3069a263-883d-407b-ae99-132ffd93d599"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28263.5" y="2555.0"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_ce_sa1280_ce_sa1280" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="Chromosome"/> <bbox w="144.0" h="27.0" x="10791.27" y="10805.5"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa2147_in_sa2147" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2147_in_sa2147"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24766893"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cGAMP"/> <bbox w="70.0" h="25.0" x="15142.5" y="2147.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa240_mpk1_mpk1_sa240" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa240_mpk1_mpk1_sa240"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAF1"/> <bbox w="66.0" h="26.0" x="8220.061" y="19706.0"/> <glyph class="state variable" id="_6fff158f-c2f5-4543-be25-7848f48921b9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8215.061" y="19714.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa86_akt1_akt1_csa86" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:RBX1:RICTOR</p> <p>References:</p> <p>s_akt1_re198:(MAP:survival) PMID:20832730</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa86_akt1_akt1_csa86"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20832730"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL1:RBX1:RICTOR"/> <bbox w="188.0" h="125.0" x="12361.561" y="18075.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa538_akt1_akt1_sa538"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="12370.061" y="18131.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa537_akt1_akt1_sa537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12370.811" y="18088.5"/> <glyph class="state variable" id="_f3899a3d-3958-4431-a011-f2a1a7bd440e"> <state value="P" variable="T1135"/> <bbox w="40.0" h="10.0" x="12370.371" y="18123.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa539_akt1_akt1_sa539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="12453.061" y="18089.5"/> 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<rdf:Description rdf:about="#s_id_ca_sa518_ca_sa518"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EP300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EP300"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EP300"/> <bbox w="90.0" h="25.0" x="5025.0" y="3737.5"/> <glyph class="unit of information" id="_a448159f-38eb-4280-9dfa-8d91d4a04b75"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5060.0" y="3732.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa962_rc_sa962" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa962_rc_sa962"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IKBKB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IKBKB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKBKB"/> <bbox w="90.0" h="25.0" x="24671.56" y="16063.5"/> <glyph class="unit of information" id="_b1b3bcdf-603a-428a-820e-9b8894f57f5d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24706.56" y="16058.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4863_rc_sa4863" compartmentRef="s_id_rc_ca42_rc_ca42"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4863_rc_sa4863"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG5"/> <bbox w="80.0" h="40.0" x="28794.06" y="14739.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4128_rc_sa4128" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4128_rc_sa4128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DCC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cleaved DCC*"/> <bbox w="80.0" h="50.0" x="19037.111" y="9153.431"/> <glyph class="unit of information" id="_41391c92-6285-461d-9495-7e52765bc04a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19054.611" y="9148.431"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1402_emtc_em_sa1402" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Actin polymerization"/> <clone/> <bbox w="140.0" h="20.0" x="5119.0" y="14724.5"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1402_wnc1_wnc1_sa688" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Actin polymerization"/> <clone/> <bbox w="80.0" h="30.0" x="16048.061" y="18471.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4911_rc_sa4911" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4911_rc_sa4911"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UFD1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UFD1*"/> <bbox w="80.0" h="40.0" x="28739.06" y="13629.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4364_rc_sa4364" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16038</p> <p>References:</p> <p>PMID:23301705</p> <p>PMID:24070470</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4364_rc_sa4364"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23301705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Phosphatidyl ethanolamine"/> <bbox w="160.0" h="33.0" x="28456.156" y="12220.314"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5462_rc_sa5462" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:NLR family, CARD domain containing 4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23940371</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5462_rc_sa5462"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NLRC4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23940371"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRC4"/> <clone/> <bbox w="80.0" h="50.0" x="28269.06" y="9214.0"/> <glyph class="state variable" id="_196e6fab-a2a3-4cc1-9b55-4efec7174633"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28344.06" y="9209.0"/> </glyph> <glyph class="unit of information" id="_9511898b-e971-45ab-b697-4b914f451dfc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28286.56" y="9209.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5462_rc_sa5469" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:NLR family, CARD domain containing 4</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23940371</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5462_rc_sa5469"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NLRC4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23940371"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRC4"/> <clone/> <bbox w="80.0" h="50.0" x="28019.06" y="9334.0"/> <glyph class="state variable" id="_ecf37ea5-bfe5-46d0-9a96-2b2ccb2ac014"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28094.06" y="9329.0"/> </glyph> <glyph class="unit of information" id="_369e21f5-7623-4b3d-93a6-591fa7ee99f1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28036.56" y="9329.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa348_akt1_akt1_sa348" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa348_akt1_akt1_sa348"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <bbox w="80.0" h="40.0" x="12316.061" y="18432.0"/> <glyph class="state variable" id="_166287cc-49d2-4019-8308-a6f632e0cfd8"> <state value="P" variable="S166"/> <bbox w="35.0" h="10.0" x="12298.561" y="18427.932"/> </glyph> <glyph class="state variable" id="_4f16f93f-ef72-4d1d-8fff-2b9047707140"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12311.061" y="18437.3"/> </glyph> <glyph class="state variable" id="_096a906c-0917-415f-afa1-11ab5e4d76ea"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12311.061" y="18447.969"/> </glyph> <glyph class="state variable" id="_46f2cdaa-1f90-4c8b-9256-46f28b2dd7e8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12311.061" y="18454.264"/> </glyph> <glyph class="state variable" id="_c40972f1-eb43-4562-aac2-183a5d6523ee"> <state value="" variable="S188"/> <bbox w="30.0" h="10.0" x="12380.442" y="18467.0"/> </glyph> <glyph class="state variable" id="_d07f13b2-a427-41cf-86d2-29365590529b"> <state value="P" variable="S186"/> <bbox w="35.0" h="10.0" x="12378.561" y="18427.99"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2403_emtc_em_sa2403" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2403_emtc_em_sa2403"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP1"/> <bbox w="45.0" h="18.0" x="2995.0" y="17075.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc3_sa9_wnc1_wnc3_sa9" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc4_re22(MAP:survival):</p> <p>c-Raf; MEK1/2; ERK1/2;HRAS</p> <p>PMID:19906679</p> <p>TGF-b1 in airway smooth muscle cells</p> <p>PMID:21908588</p> <p>s_wnc4_re26(MAP:survival):</p> <p>In airway smooth muscle cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa9_wnc1_wnc3_sa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19906679"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGF-β pathway"/> <bbox w="80.0" h="30.0" x="15316.061" y="20491.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2502_emtc_em_sa2502" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2502_emtc_em_sa2502"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FERMT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FERMT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FERMT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Talin partners*"/> <bbox w="97.0" h="19.0" x="5468.0" y="18230.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa319_emtc_em_csa319" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha_*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Class I: WNT-1,3a,7,8a,8b activates canonical </p> <p>PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa319_emtc_em_csa319"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14747478"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15265686"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8655584"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017973"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17127310"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Gα-GTP)"/> <bbox w="67.0" h="69.0" x="2279.0" y="18315.5"/> <glyph class="simple chemical" id="s_id_emtc_em_sa2227_emtc_em_sa2227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="28.0" h="27.0" x="2298.0" y="18318.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2226_emtc_em_sa2226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992</p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113</p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344</p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837</p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679</p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096</p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899</p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754</p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405</p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471</p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21640127</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Gα*"/> <bbox w="40.0" h="20.0" x="2293.5" y="18347.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa538_rc_csa538" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NLRP3:PYCARD</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa538_rc_csa538"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRP3:NLRP3:PYCARD"/> <bbox w="118.0" h="140.0" x="28356.56" y="9605.25"/> <glyph class="macromolecule" id="s_id_rc_sa5405_rc_sa5405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PYD and CARD domain containing</p> <p>HUGO:PYCARD HGNC:16608 ENTREZ:29108 UNIPROT:Q9ULZ3</p> <p>synonyms:ASC</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:PYROPTOSIS, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27984721</p> <p>Upon detection of their respective agonists, NLRP3, NLRC4, NLRP1b, AIM2, and pyrin assemble canonical inflammasomes containing adaptor ASC and leading to the activation of caspase-1 that controls the maturation of pro-cytokines (pro-IL-1b and pro-IL-18) and pyroptosis through the cleavage of GSDMD among other mechanisms.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PYCARD"/> <bbox w="80.0" h="40.0" x="28376.56" y="9682.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5406_rc_sa5411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NLRP3</p> <p>synonyms:NOD-like Receptor protein 3</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27439607</p> </body> </html> </notes> <label text="NLRP3"/> <bbox w="80.0" h="50.0" x="28376.56" y="9627.75"/> <glyph class="unit of information" id="_0d76d9dc-1236-440e-8093-8c0feb1aaf10"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28394.06" y="9622.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5406_rc_sa5406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NLRP3</p> <p>synonyms:NOD-like Receptor protein 3</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:27439607</p> </body> </html> </notes> <label text="NLRP3"/> <bbox w="80.0" h="50.0" x="28366.56" y="9617.75"/> <glyph class="unit of information" id="_aaa58eef-651f-40d1-96e3-133506c3a200"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28384.06" y="9612.75"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa707_wnc1_wnc1_sa707" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa707_wnc1_wnc1_sa707"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ROCK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ROCK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROCK*"/> <bbox w="80.0" h="40.0" x="15420.061" y="19001.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa96_shh1_shh3_sa96" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_sa96_shh1_shh3_sa96"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FHL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DRAL*"/> <clone/> <bbox w="80.0" h="40.0" x="27306.56" y="22535.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa96_rc_sa4180" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_sa96_rc_sa4180"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FHL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DRAL*"/> <clone/> <bbox w="80.0" h="40.0" x="20509.06" y="9249.0"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1406_emtc_em_sa1406" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Filopodium formation"/> <bbox w="140.0" h="20.0" x="5658.0" y="12935.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa925_ca_sa925" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HHPMID:22354771; PMID:17638910Stimulation of cultured normal fibroblasts with TGFβ in the absence of SHH increased the mRNA levels of the hedgehog target genes Ptch1, Ptch2 (probably via GLI1 and GLI2) ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HHPMID:22354771; PMID:17638910Stimulation of cultured normal fibroblasts with TGFβ in the absence of SHH increased the mRNA levels of the hedgehog target genes Ptch1, Ptch2 (probably via GLI1 and GLI2) </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa925_ca_sa925"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22354771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22354771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTCH*"/> <bbox w="90.0" h="25.0" x="6255.0" y="1487.5"/> <glyph class="unit of information" id="_1b23fc1a-48ba-4cab-9a5b-42ad55b4b47b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6290.0" y="1482.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2240_rc_sa2240" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2240_rc_sa2240"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALAS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALAS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALAS1"/> <bbox w="70.0" h="25.0" x="22331.06" y="16278.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa178_shh1_shh2_sa178" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="SUFU"/> <clone/> <bbox w="90.0" h="25.0" x="27546.06" y="21399.5"/> <glyph class="unit of information" id="_bf55b8ea-99ad-436f-b70b-278afb58f383"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27581.06" y="21394.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa178_shh1_shh2_sa281" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="SUFU"/> <clone/> <bbox w="90.0" h="25.0" x="27309.06" y="22173.5"/> <glyph class="unit of information" id="_cfe5c9aa-ff62-4905-82c6-c144f075ac2b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27344.06" y="22168.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa89_ad_csa89" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21059766</p> <p>The TCR of αβ T cells is composed of the ligand-binding subunits TCRα and TCRβ, which form the disulfide-linked TCRαβ heterodimer, non-covalently bound to the signal transducing CD3 subunits [CD3γ, CD3δ, CD3ε and CD3ζ (CD247)].</p> <p>PMID:23886063 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa89_ad_csa89"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21059766"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s4356"/> <bbox w="119.0" h="210.0" x="28296.625" y="3067.0"/> <glyph class="macromolecule" id="s_id_ad_sa806_ad_sa806"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TRA</p> <p>HUGO:TRB</p> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:9738502</p> <p>TCR–CD3 complex is localized in the central part of immunological synapse.</p> <p>PMID:21059766</p> </body> </html> </notes> <label text="alpha_/beta_TCR*"/> <bbox w="80.0" h="50.0" x="28315.375" y="3072.0"/> <glyph class="unit of information" id="_d2618536-90ac-49eb-8f7b-0955e5df8e48"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28332.875" y="3067.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa809_ad_sa809"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ZAP70</p> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:SMAC</p> <p>PMID:23620508</p> <p>ZAP70 (ζ-chain-associated protein of 70 kDa) is a tyrosine-protein kinase from the Syk family that docks at phosphorylated ITAMs of the TCR. Docking, subsequent phosphorylation by Lck and trans-autophosphorylation all increase kinase activity. ZAP70 phosphorylates a number of signaling proteins, including LAT and SLP-76</p> <p>PMID:7600293; PMID:8642247 </p> <p>ZAP-70 is constitutively associated with tyrosine-phosphorylated TCR zeta</p> <p>TCR ligation promotes a large increase in the tyrosine phosphorylation of ZAP-70 by Lck</p> <p>PMID:15735648 </p> <p>T cell Src family kinases (lck and fyn) and Zap70 activate p38 by phosphorylating Tyr323 downstream of TCR.</p> <p>Lck is required for activation of Zap70, which in turn phosphorylates and activates p38.</p> <p>PMID:12415267 </p> <p>c-Cbl and Cbl-b regulate T cell responsiveness by promoting ligand-induced TCR down-modulation.</p> <p>c-Cbl was highly expressed in thymocytes, whereas Cbl-b was preferentially expressed in mature T cells.</p> <p>In the TCR signaling pathway, c-Cbl inhibits ZAP-70 activation in thymocytes</p> <p>PMID:17371980</p> </body> </html> </notes> <label text="ZAP70"/> <bbox w="80.0" h="40.0" x="28316.0" y="3212.0"/> <glyph class="state variable" 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id="_42c8a4db-afb1-4635-ab96-83e45a8dd9bf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28332.875" y="3147.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa291_rc_csa291" compartmentRef="s_id_rc_ca10_rc_ca10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1"/> <bbox w="100.0" h="165.0" x="20126.56" y="16714.0"/> <glyph class="macromolecule" id="s_id_rc_sa2351_rc_sa2351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="20136.56" y="16719.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2349_rc_sa2349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="20136.56" y="16759.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2350_rc_sa2350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="20136.56" y="16809.0"/> <glyph class="state variable" id="_48f84844-a4cc-4b52-b130-09a7ea84e4da"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="20152.492" y="16844.0"/> </glyph> <glyph class="state variable" id="_b14f9938-2400-458f-8b9c-b8e90ea5e6af"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="20178.51" y="16804.0"/> </glyph> <glyph class="state variable" id="_ef5598ee-78c4-4882-b3ff-c1d72be135a2"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="20145.156" y="16804.0"/> 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="cGAMP"/> <bbox w="70.0" h="25.0" x="15392.5" y="2317.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2157_in_sa2157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="STING*"/> <bbox w="80.0" h="40.0" x="15387.5" y="2350.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2158_in_sa2158"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TBK1"/> <bbox w="80.0" h="40.0" x="15387.5" y="2400.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa88_ce_csa88" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:HEL308*:POLN</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="POLN/HEL308*"/> <bbox w="100.0" h="120.0" x="14337.473" y="16646.355"/> <glyph class="macromolecule" id="s_id_ce_sa712_ce_sa712"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed) nu</p> <p>HUGO:POLN, HGNC:18870, ENTREZ:353497, UNIPROT:Q7Z5Q5</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:A_NHEJ, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For A_NHEJ</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>PMID:18809224, 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1049_ce_sa1049"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BUB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BUB3"/> <bbox w="80.0" h="40.0" x="11400.77" y="13453.5"/> </glyph> <glyph class="complex" id="s_id_ad_csa91_ad_csa91" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CHUK:IKBKG:IKK_beta_*</p> <p>Map modules:</p> <p>MODULE:MACROPHAGE , MODULE:MDSC, MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> <p>CASCADE:IL13, CASCADE:STING, CASCADE:TLR2_4, CASCADE:IL2, CASCADE:CSF2, CASCADE:TNF</p> <p>GASCADE:VEGFA</p> <p>References:</p> <p>complex</p> <p>PMID‭:15145317</p> <p>The activated IKK complex,</p> <p>catalyzes the phosphorylation of IkBs (at sites</p> <p>equivalent to Ser32 and Ser36 of IkBa), polyubiquitination</p> <p>(at sites equivalent to Lys21 and Lys22 of IkBa) and</p> <p> subsequent degradation by the 26S proteasome. The</p> <p>released NF-kB dimers (in this pathway, most commonly</p> <p>the p50– RelA dimer) translocate to the nucleus, bind DNA</p> <p>and activate gene transcription</p> <p>PMID:10521409, PMID:18802069</p> <p>The endogenous IKK complex, overexpressed IKKs, and recombinant IKKbeta efficiently phosphorylated the Ser536 residue of p65 in vivo and in vitro,</p> <p>that is important foe NFKB signaling activation.Ser536 is phoshorylated downstream of RAGE signaling in MDSC.</p> <p>PMID:24766893</p> <p>Cytosolic DNA induces type I IFNs through the endoplasmic reticulum membrane protein STING, which subsequently activates the transcription factors NF-κB and IRF3 through the kinases IKK and TBK1, respectively</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa91_ad_csa91"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10521409"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18802069"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24766893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKK complex"/> <bbox w="100.0" h="164.0" x="28446.0" y="4783.0"/> <glyph class="macromolecule" id="s_id_ad_sa831_ad_sa831"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:IKBKB </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:12133805</p> <p>PMID:16818229 </p> <p>IKK2 (IKBKB) phoshorylates BCL10 downstream of TCR.</p> <p>Mutation of the IKKbeta phosphorylation sites on Bcl10 enhances expression of NF-kappaB target genes IL-2 and TNFalpha after activation of primary T cells.</p> <p>PMID:17363905 </p> <p>PKC-θ regulates TGF-β–activated kinase 1 (TAK1), a member of the MAPKK kinase family, leading to activation (phosphorylation)of IKK and NF-κB in a CARMA1-independent manner in the TCR pathway</p> </body> </html> </notes> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="28456.0" y="4835.0"/> <glyph class="state variable" id="_b82d589e-fbfb-4407-acc6-cd8be9799b2a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28451.0" y="4850.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa830_ad_sa830"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:IKBKG </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:12133805</p> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="28456.0" y="4795.0"/> <glyph class="state variable" id="_71874f41-13e9-4b60-8517-0c847ca3fa45"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28531.0" y="4810.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa832_ad_sa832"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CHUK </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:12133805</p> <p>NFkB downstream of CD28</p> <p> PMID:16970925 </p> <p>The alternative NF-kappaB pathway induces p100 processing and p52 generation through the activation of at least two kinases, which are NIK and IKKalpha.</p> <p>PMID:15536066</p> <p>TCR/CD28 costimulation induces IkappaBalpha, IkappaBbeta, and IkappaBepsilon degradation, and PKC is required for IkappaBalpha and IkappaBepsilon but not IkappaBbeta degradation. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1372_ce_sa1372"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NEIL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NEIL1"/> <bbox w="80.0" h="40.0" x="9593.812" y="15620.566"/> </glyph> <glyph class="complex" id="s_id_ce_csa67_ce_csa67" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FANCA:FANCG</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> </body> </html> </notes> <label text="FANCA/FANCG"/> <bbox w="100.0" h="120.0" x="16344.473" y="16977.355"/> <glyph class="macromolecule" id="s_id_ce_sa661_ce_sa661"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group G</p> <p>HUGO:FANCG, HGNC:3588, UNIPROT:O15287</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCG"/> <bbox w="80.0" h="40.0" x="16353.482" y="17033.732"/> <glyph class="state variable" id="_c75847ce-26a1-4bfa-8258-737123e2e915"> <state value="P" variable="S7"/> <bbox w="25.0" h="10.0" x="16364.577" y="17028.732"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa660_ce_sa660"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group A</p> <p>HUGO:FANCA, HGNC:3582, ENTREZ:2175, UNIPROT:Q9UEL9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <label text="FANCA"/> <bbox w="80.0" h="40.0" x="16353.912" y="16988.85"/> <glyph class="state variable" id="_7284b4e2-bafc-4ccd-8d42-3a1adb0d02df"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16426.412" y="17003.85"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa118_ad_csa118" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17462996</p> <p>, c-FLIPL co-precipitated with the active caspase complex in lipid rafts, the majority of which was processed to p43 FLIP despite the reverse ratio in the whole cell lysate</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa118_ad_csa118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17462996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s5216"/> <bbox w="100.0" h="120.0" x="28946.0" y="4335.0"/> <glyph class="macromolecule" id="s_id_ad_sa962_ad_sa962"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CASP8</p> <p>MODULE:TCR, MODULE:TCR_SIGNALING</p> <p>PMID:17462996</p> <p>Humans and mice lacking functional caspase-8 in T cells manifest a profound immunodeficiency syndrome due to defective T cell antigen receptor (TCR)-induced NF-kappaB signaling and proliferation.</p> </body> </html> </notes> <label text="caspase8*"/> <bbox w="80.0" h="40.0" x="28956.0" y="4395.0"/> <glyph class="unit of information" id="_5f8b45ac-b101-435b-b68b-d89d83eb974a"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28971.0" y="4390.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa959_ad_sa959"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CASP8</p> <p>MODULE:TCR, MODULE:TCR_SIGNALING</p> <p>PMID:12215447 </p> <p>The long form of FLIP c-FLIP(L) is an activator of caspase-8.</p> <p>FLIPL induces processing of caspase-8. (non immune cells) </p> <p>PMID:17462996</p> </body> </html> </notes> <label text="cFLIP_L*"/> <bbox w="80.0" h="40.0" x="28956.0" y="4345.0"/> <glyph class="unit of information" id="_0e4d68ce-1ff3-449e-bbe2-f9d825c334de"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28971.0" y="4340.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa519_rc_csa519" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IDH3C:TMBIM3</p> </body> </html> </notes> <label text="BAK1:TMBIM3"/> <bbox w="100.0" h="120.0" x="27292.967" y="13839.0"/> <glyph class="macromolecule" id="s_id_rc_sa5195_rc_sa5195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1 HGNC:949 ENTREZ:578 UNIPROT:Q16611</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="80.0" h="40.0" x="27302.967" y="13849.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5196_rc_sa5196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glutamate ionotropic receptor NMDA type subunit associated protein 1</p> <p>HUGO:GRINA hgnc_id:HGNC:4589 HGNC:4589 ENTREZ:2907 UNIPROT:Q7Z429</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Binding of Bax and Bak to IRE1 is negatively regulated by 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<p>PMID:11013220</p> <p>Cooperation and physical interaction of Smad2, Smad3, Smad4 with SP1 at the promoter of CDKN2B (p15INK4B) gene</p> <p>This interaction provides a mechanism underlying the TGFB-induced growth arrest</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa56_emtc_em_csa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11013220"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2/SMAD3/SAMD4/SP1"/> <bbox w="169.0" h="152.0" x="4070.375" y="15811.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa468_emtc_em_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="4154.375" y="15812.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa473_emtc_em_sa473"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sp1 transcription factor</p> <p>HUGO:SP1, HGNC:11205, ENTREZ:6667, GENECARDS:GC12P053801, UNIPROT:P08047</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11013220</p> <p>Cooperation and physical interaction of Smad2, Smad3, Smad4 with SP1 at the promoter of CDKN2B (p15INK4B) gene</p> <p>This interaction provides a mechanism underlying the TGFB-induced growth arrest</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SP1"/> <bbox w="40.0" h="20.0" x="4096.875" y="15812.5"/> <glyph class="state variable" id="_c176ce93-55dc-4088-afa3-f87a23db04ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4091.875" y="15817.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa470_emtc_em_sa470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa46_mo_sa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Src"/> <clone/> <bbox w="80.0" h="40.0" x="5263.0" y="9626.0"/> <glyph class="state variable" id="_df1723de-323e-4ea9-908c-f695f5e72a13"> <state value="P" variable="Tyr527"/> <bbox w="45.0" h="10.0" x="5320.5" y="9649.296"/> </glyph> <glyph class="state variable" id="_5eaba7a5-f5c1-4e39-b356-d9fe55b57677"> <state value="" variable="Tyr416"/> <bbox w="40.0" h="10.0" x="5282.9043" y="9661.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa46_mo_sa333" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian)</p> <p>SRC1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa46_mo_sa333"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Src"/> <clone/> <bbox w="80.0" h="40.0" x="5108.875" y="9734.625"/> <glyph class="state variable" id="_41d06e70-5f55-4546-aa54-e7f2794bf820"> <state 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>IGF family*</p> <p>insulin-like growth factor 1 (somatomedin C)</p> <p>HUGO:IGF1 HGNC:5464 ENTREZ:3479 UNIPROT:P05019</p> <p>insulin-like growth factor 2 (somatomedin A)</p> <p>HUGO:IGF2 HGNC:5466 ENTREZ:3481 UNIPROT:P01344</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>IRS3 and IRS4 however have negative effect on anti-apoptotic effects of IGFR.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="IGF family*"/> <bbox w="70.0" h="19.0" x="2578.5" y="19095.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2531_emtc_em_sa2531"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>IGF binding partners*</p> <p>insulin-like growth factor binding protein 1</p> <p>HUGO:IGFBP1 HGNC:5469 ENTREZ:3484 UNIPROT:P08833</p> <p>insulin-like growth factor binding protein 2</p> <p>HUGO:IGFBP2 HGNC:5471 ENTREZ:3485 UNIPROT:P18065</p> <p>insulin-like growth factor binding protein 3</p> <p>HUGO:IGFBP3 HGNC:5472 ENTREZ:3486 UNIPROT:P17936</p> <p>insulin-like growth factor binding protein 4</p> <p>HUGO:IGFBP4 HGNC:5473 ENTREZ:3487 UNIPROT:P22692</p> <p>insulin-like growth factor binding protein 5</p> <p>HUGO:IGFBP5 HGNC:5474 ENTREZ:3488 UNIPROT:P24593</p> <p>insulin-like growth factor binding protein 6</p> <p>HUGO:IGFBP6 HGNC:5475 ENTREZ:3489 UNIPROT:P24592</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="IGF binding partners*"/> <bbox w="144.0" h="19.0" x="2540.5" y="19070.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa167_wca1_wca3_sa167" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca3_re40(MAP:survival):</p> <p>Not sure if ubiquitination by XIAP is necessary for replacement of TLE by b-catenin upon canonical WNT signaling</p> <p>PMID:22304967</p> <p>s_wca3_re168(MAP:survival):</p> <p>contains NLS import higher when stimulated with wnt3</p> <p>PMID:15720724</p> <p>s_wca3_re169(MAP:survival):</p> <p>Upon WNT3a stimulation formation complex DVL with c-jun</p> <p>PMID:18347071</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa167_wca1_wca3_sa167"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22304967"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15720724"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Wnt canonical signaling"/> <bbox w="80.0" h="30.0" x="21965.06" y="21684.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa23_wnc1_wnc1_csa23" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_alpha__sub_s_endsub_*:G_beta_*:G_gamma_*:LRP6</p> <p>References:</p> <p>s_wnc1_re38:(MAP:survival) PMID:21406690</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa23_wnc1_wnc1_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(G-protein/LRP6)"/> <bbox w="159.0" h="104.0" x="16785.654" y="17735.156"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa162_wnc1_wnc1_sa162"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GNAS complex locus</p> <p>GNAS1, "guanine nucleotide binding protein (G protein), alpha stimulating activity polypeptide 1"</p> <p>HUGO:GNAS HGNC:4392 ENTREZ:2778 UNIPROT:O95467 GENECARDS:GNAS KEGG:2778 ATLASONC:GNASID40727ch20q13 WIKI:GNAS</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gαs*"/> <bbox w="40.0" h="20.0" x="16805.06" y="17797.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa146_wnc1_wnc1_sa146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="16887.28" y="17797.969"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa137_wnc1_wnc1_sa137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="16824.467" y="17740.156"/> <glyph class="state variable" id="_90338a93-bdea-44b5-88cf-1b5cc816983a"> <state value="" variable="S1544"/> <bbox w="35.0" h="10.0" x="16886.967" y="17735.422"/> </glyph> <glyph class="state variable" id="_6caf63b3-8584-4936-b0a7-9d3c6a0314cf"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="16846.998" y="17735.156"/> </glyph> <glyph class="state variable" id="_dd89539f-f4dc-48a4-82e8-e00b66606c36"> <state value="" variable="T1572"/> <bbox w="35.0" h="10.0" x="16806.967" y="17760.117"/> </glyph> <glyph class="state variable" id="_e117d859-7770-4529-abf9-177577d28e98"> <state value="" variable="T1548"/> <bbox w="35.0" h="10.0" x="16886.967" y="17773.594"/> </glyph> <glyph class="unit of information" id="_d5af9932-4a00-4083-863a-145cba3caef2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16841.967" y="17735.156"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa145_wnc1_wnc1_sa145"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="16846.28" y="17797.969"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1015_rc_sa1015" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1015_rc_sa1015"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CAMKK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CAMKK2"/> <bbox w="80.0" h="40.0" x="25820.045" y="11118.18"/> </glyph> <glyph class="source and sink" id="s_id_te_sa336_te_sa336" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="te_s431"/> <bbox w="30.0" h="30.0" x="4426.06" y="20862.0"/> </glyph> <glyph class="source and sink" id="s_id_ce_sa1547_ce_sa1547" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_s3259"/> <bbox w="30.0" h="30.0" x="11539.0" y="17289.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa414_rc_csa414" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ASK1*:CFLAR:Caspase8,10*:DAXX:FADD:FAF1:FAS:FASLG:FLASH*:RIPK1:TRAF2</p> <p>References:</p> <p>10*:RIPK1:CFLAR:FLASH*:ASK1*:FAF1:FADD:DAXX:FASLG:FAS</p> <p>23069999</p> </body> </html> </notes> <label text="FAS:FASLG:FADD:DAXX:ASK1"/> <bbox w="420.0" h="198.0" x="25182.936" y="10346.4375"/> <glyph class="macromolecule" id="s_id_rc_sa4086_rc_sa4090"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25511.686" y="10417.0625"/> <glyph class="state variable" id="_9bd25833-c2db-4fba-873e-78f0e8bd351c"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25581.686" y="10426.706"/> </glyph> <glyph class="unit of information" id="_03d3f0c0-f23a-4959-a39b-ceb1006d7ee4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25529.186" y="10412.0625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4095_rc_sa4095"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="25212.31" y="10474.25"/> <glyph class="state variable" id="_5594b512-ea90-49a8-9f9c-aa3631389c0b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25207.31" y="10480.422"/> </glyph> <glyph class="state variable" id="_18f179aa-875f-4943-a1ad-b113c820bd94"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="25253.64" y="10509.25"/> </glyph> <glyph class="state variable" id="_497f6665-b22b-459e-8e29-791bfdee22d9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25250.146" y="10469.25"/> </glyph> <glyph class="state variable" id="_9c2577aa-b90a-4225-8af7-65ca059d44b1"> <state value="Ub" variable="K377"/> <bbox w="40.0" h="10.0" x="25272.31" y="10480.499"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4039_rc_sa4039"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:15592525</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="80.0" h="40.0" x="25216.31" y="10361.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4042_rc_sa4042"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25198.31" y="10410.25"/> <glyph class="state variable" id="_59ee6fa8-9acc-4c68-9132-4a54fef088ea"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="25188.31" y="10416.966"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4086_rc_sa4086"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25491.686" y="10397.0625"/> <glyph class="state variable" id="_d44a56d3-ed05-4fe4-afd8-ee45d241d7d0"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25561.686" y="10406.706"/> </glyph> <glyph class="unit of information" id="_70648a89-b3d0-453a-9a4d-ed81c0922746"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25509.186" y="10392.0625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4038_rc_sa4038"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6) associated factor 1</p> <p>HUGO:FAF1 HGNC:3578 ENTREZ:11124 UNIPROT:Q9UNN5</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12702723</p> <p>FAF1 is a member of Fas-DISC acting upstream of caspase-8</p> <p>PMID:19597341</p> <p>FAF1 downregulation may contribute to multiple aspects of tumorigenesis</p> </body> </html> </notes> <label text="FAF1"/> <bbox w="80.0" h="40.0" x="25404.936" y="10354.9375"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4085_rc_sa4085"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25491.686" y="10352.0625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4085_rc_sa4089"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25511.686" y="10372.0625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4036_rc_sa4036"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 8 associated protein 2</p> <p>HUGO:CASP8AP2 HGNC:1510 ENTREZ:9994 UNIPROT:Q9UKL3</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE</p> <p>References:</p> <p>PMID:22427918</p> <p>FLASH (FLICE-associated huge protein or CASP8AP2) is a large multifunctional protein that is involved in many cellular processes associated with cell death and survival</p> <p>PMID:12702723</p> <p>PMID:15592525</p> <p>PMID:1134007</p> </body> </html> </notes> <label text="FLASH*"/> <bbox w="80.0" h="40.0" x="25324.936" y="10394.9375"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4035_rc_sa4035"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASP8 and FADD-like apoptosis regulator</p> <p>HUGO:CFLAR HGNC:1876 ENTREZ:8837 UNIPROT:O15519</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE</p> <p>References:</p> <p>PMID:15760909</p> <p>PMID:19838173</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce </p> </body> </html> </notes> <label text="CFLAR"/> <bbox w="80.0" h="40.0" x="25324.936" y="10354.9375"/> <glyph class="state variable" id="_469b3dd1-a842-42ce-be4e-f67881a3d4d0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25376.504" y="10349.9375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4092_rc_sa4092"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 5</p> <p>HUGO:MAP3K5 HGNC:6857 ENTREZ:4217 UNIPROT:Q99683</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:FAS_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:ASK1</p> </body> </html> </notes> <label text="ASK1*"/> <bbox w="80.0" h="40.0" x="25312.31" y="10464.25"/> <glyph class="state variable" id="_9caa878e-a15e-434b-b4b2-d9a51474995e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25363.879" y="10459.25"/> </glyph> <glyph class="state variable" id="_13d74a78-4758-4730-98f0-4a20b30b6555"> <state value="" variable="S967"/> <bbox w="30.0" h="10.0" x="25320.906" y="10459.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4086_rc_sa4088"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25501.686" y="10407.0625"/> <glyph class="state variable" id="_71b0cb43-640f-48b5-a641-16bdc15ac732"> <state value="Pa" variable=""/> <bbox w="20.0" h="10.0" x="25571.686" y="10416.706"/> </glyph> <glyph class="unit of information" id="_98df9c87-5f51-4ffa-88de-659424ad9582"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25519.186" y="10402.0625"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4085_rc_sa4087"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25501.686" y="10362.0625"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4034_rc_sa4034"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas (TNFRSF6)-associated via death domain</p> <p>HUGO:FADD HGNC:3573 ENTREZ:8772 UNIPROT:Q13158</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:9488730</p> <p>PMID:20531300</p> <p>PMID:28574505</p> <p>PMID:11003656</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce apoptosis.</p> </body> </html> </notes> <label text="FADD"/> <bbox w="80.0" h="40.0" x="25404.936" y="10394.9375"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4091_rc_sa4091"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-domain associated protein</p> <p>HUGO:DAXX HGNC:2681 ENTREZ:1616 UNIPROT:Q9UER7</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:11003656</p> </body> </html> </notes> <label text="DAXX"/> <bbox w="80.0" h="40.0" x="25402.31" y="10444.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa697_emtc_em_sa697" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa697_emtc_em_sa697"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ETS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ETS1"/> <bbox w="40.0" h="20.0" x="2852.0" y="17162.5"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa2474_in_sa2474" compartmentRef="s_id_in_ca12_in_ca12"> <label text="linoleic acid"/> <bbox w="70.0" h="25.0" x="10692.25" y="3779.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa346_te_sa346" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Wilms tumor 1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa346_te_sa346"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WT1"/> <bbox w="80.0" h="40.0" x="6609.06" y="21059.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1302_emtc_em_sa1302" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1302_emtc_em_sa1302"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA4"/> <bbox w="37.0" h="16.0" x="1031.75" y="17749.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3423_rc_sa3423" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3423_rc_sa3423"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDHA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDHA2"/> <bbox w="80.0" h="40.0" x="20159.06" y="14935.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa104_rc_csa104" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CITED2:HIF1A:HIF1B*</p> </body> </html> </notes> <label text="HIF1aHIF1b"/> <bbox w="100.0" h="184.0" x="23691.56" y="16812.0"/> <glyph class="macromolecule" id="s_id_rc_sa1201_rc_sa1201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aryl hydrocarbon receptor nuclear translocator</p> <p>HUGO:ARNT HGNC:700 ENTREZ:405 UNIPROT:P27540</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:HIF1beta</p> </body> </html> </notes> <label text="HIF1B*"/> <bbox w="80.0" h="40.0" x="23701.56" y="16826.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1202_rc_sa1202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2</p> <p>HUGO:CITED2 HGNC:1987 ENTREZ:10370 UNIPROT:Q99967</p> <p>Map modules:</p> <p>MODULE:RCD_GENES</p> </body> </html> </notes> <label text="CITED2"/> <bbox w="80.0" h="40.0" x="23701.56" y="16926.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1200_rc_sa1200"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)</p> <p>HUGO:HIF1A HGNC:4910 ENTREZ:3091 UNIPROT:Q16665</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="80.0" h="40.0" x="23701.56" y="16876.0"/> <glyph class="state variable" id="_8193a32f-8417-4eef-b67f-11bc41b87c94"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23753.129" y="16871.0"/> </glyph> <glyph class="state variable" id="_2cbd9b37-79c0-4b5a-9797-ea75f01cfe1a"> <state value="" variable="N803"/> <bbox w="30.0" h="10.0" x="23709.062" y="16911.0"/> </glyph> <glyph class="state variable" id="_04c53ca6-6360-4b31-9f42-457a7863d3e9"> <state value="" variable="P564"/> <bbox w="30.0" h="10.0" x="23710.156" y="16871.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1101_emtc_em_sa1101" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1101_emtc_em_sa1101"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DOCK9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DOCK9"/> <bbox w="47.0" h="16.0" x="6660.5" y="14395.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa29_emtc_em_csa29" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Integrin A8B1_AVB1_AVB5_AVB6_AVB8*:LTBP1:Latency-associated protein*:TGFB1</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:10025398</p> <p>Large latent complex binds to aVb6 via the RGD motif present in the LAP of TGFb, then</p> <p>the b6 cytoplasmic domain binds to the actin cytoskeleton, then</p> <p>Cytoskeleton-associated integrin induces release of mature TGFb from the large latent complex</p> <p>PMID:21883891</p> <p>This is one of the 2 mechanisms for activating TGFb via integrins.</p> <p>In this model, there is no proteolysis of either the LAP or LTBP.</p> <p>PMID:21900405</p> <p>LAP contains an integrin-binding site called RBD</p> <p>Several RBD-binding integrins are able to activate latent TGFB complex through binding this site.</p> <p>PMID:21909923</p> <p>The previously mentionned integrins are: a8b1, aVb1, aVb5, aVb6, aVb8.</p> <p>In the complex Ingergin-large latent TGFB complex, I picked aVb6 as example. But a8b1, aVb1, aVb5, and aVb8 can active TGFB with the same mechanism.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa29_emtc_em_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10025398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21883891"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Integrin/Large Latent Complex)"/> <bbox w="280.0" h="72.0" x="1578.0" y="19085.75"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa347_emtc_em_sa347"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="183.0" h="23.0" x="1620.304" y="19086.75"/> <glyph class="unit of information" id="_95a51eff-02c5-423b-9ba8-53e6cad2f43a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1701.804" y="19081.75"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa346_emtc_em_sa346"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="47.0" h="25.0" x="1810.429" y="19113.5"/> <glyph class="unit of information" id="_c16bbdd0-5bca-49d7-8ead-7d25ed2b290f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1823.929" y="19108.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa345_emtc_em_sa345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1, HGNC:6714, ENTREZ:4052, UNIPROT:Q14766,GENECARDS:GC02P033172, UNIPROT:Q14766</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LTBPs are microfibril-associated proteins that tether latent TGFB to the ECM</p> <p>There are 4 LTBP proteins (1, 2, 3, 4). Although LTBP1 and 3 bind all three TGFB (1, 2, 3), LTBP4 binds only TGFB1</p> <p>PMID:9931372</p> <p>LTBP1 is a member of the fibrillin family</p> <p>An extracellular fibrillar structure containing LTBP1 was found in both the basement membrane of epithelia and mesenchymal tissue in which extensive tissue remodeling is carried out</p> <p>PMID:10544215</p> <p>Extracellular tTgase is located at the basal and apical surfaces of cells and at cell–cell contacts, and that LTBP1 is co-distributed with cell surface tTgase</p> <p>LTPB1 was also found to co-localize with both intracellular and extracellular fibronectin</p> <p>Regulation of tTgase expression is important for controlling matrix storage of latent TGFB1 complexes</p> <p>Fibronectin may be one extracellular component to which LTBP1 is crosslinked when LTBP1 and tTgase interact at the cell surface</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LTBP1"/> <bbox w="44.0" h="25.0" x="1803.465" y="19087.375"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1367_emtc_em_sa1367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Integrin A8B1_AVB1_AVB5_AVB6_AVB8*</p> <p>NAME:a8b1*</p> <p>ITGA8/ITGB1</p> <p>NAME:aVb1*</p> <p>ITGAV/ITGB1</p> <p>NAME:aVb5*</p> <p>ITGAV/ITGB5</p> <p>NAME:aVb6*</p> <p>ITGAV/ITGB6</p> <p>NAME:aVb8*</p> <p>ITGAV/ITGB8</p> <p>HUGO:ITGA8, HUGO:ITGB1, HUGO:ITGAV, HUGO:ITGB1, HUGO:ITGAV, HUGO:ITGB5, HUGO:ITGAV, HUGO:ITGB6, HUGO:ITGAV, HUGO:ITGB8</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Integrin A8B1_AVB1_AVB5_AVB6_AVB8*"/> <bbox w="231.0" h="22.0" x="1581.0" y="19112.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa21_an_csa21" compartmentRef="s_id_an_ca4_an_ca4"> <label text="an_s253"/> <bbox w="190.0" h="100.0" x="4333.0" y="8191.0"/> <glyph class="simple chemical" id="s_id_an_sa227_an_sa227"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Sphingosine-1-phosphate"/> <bbox w="175.0" h="33.0" x="4335.5" y="8254.75"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa228_an_sa228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:S1PR1 HUGO:S1PR3</p> <p>PMID:23747852</p> <p>PMID:11324699</p> <p>PMID:22975327</p> <p>PMID:18541717</p> </body> </html> </notes> <label text="S1PR*"/> <bbox w="80.0" h="50.0" x="4403.0" y="8206.0"/> <glyph class="unit of information" id="_1f972af3-4885-45cd-98aa-ce17ef747b60"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4420.5" y="8201.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa224_emtc_em_csa224" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:RHOB</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="RhoB_GDP"/> <bbox w="70.0" h="60.0" x="5987.0" y="14318.5"/> <glyph class="simple chemical" id="s_id_emtc_em_sa1448_emtc_em_sa1448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="35.0" h="17.0" x="5999.5" y="14344.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1446_emtc_em_sa1446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member B</p> <p>HUGO:RHOB, HGNC:668, ENTREZ:388, GENECARDS:GC02P020568, UNIPROT:P62745</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOB"/> <bbox w="41.0" h="18.0" x="5996.5" y="14323.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_te_sa132_te_sa132" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Homologous Recombination</p> <p>Modules_begin:</p> <p>MODULE:SHELTERIN</p> <p>Modules_end</p> </body> </html> </notes> <label text="HR"/> <bbox w="80.0" h="30.0" x="3305.06" y="21736.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa553_rc_csa553" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GSDMD</p> </body> </html> </notes> <label text="GSDMD~olligomerized"/> <bbox w="120.0" h="120.0" x="27829.06" y="9769.0"/> <glyph class="macromolecule" id="s_id_rc_sa5517_rc_sa5517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 1</p> <p>HUGO:CASP1 hgnc_id:HGNC:1499 HGNC:1499 ENTREZ:834 UNIPROT:P29466</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>GSDMD cleavage is sufficent to induce Pyroptosis</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="GSDMD"/> <bbox w="80.0" h="40.0" x="27839.06" y="9779.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5517_rc_sa5519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 1</p> <p>HUGO:CASP1 hgnc_id:HGNC:1499 HGNC:1499 ENTREZ:834 UNIPROT:P29466</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>GSDMD cleavage is sufficent to induce Pyroptosis</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="GSDMD"/> <bbox w="77.0" h="50.0" x="27859.06" y="9799.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5517_rc_sa5518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 1</p> <p>HUGO:CASP1 hgnc_id:HGNC:1499 HGNC:1499 ENTREZ:834 UNIPROT:P29466</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>GSDMD cleavage is sufficent to induce Pyroptosis</p> <p>PMID:27066895</p> </body> </html> </notes> <label text="GSDMD"/> <bbox w="80.0" h="40.0" x="27849.06" y="9789.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_in_sa1113_in_sa1113"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1113_in_sa1113"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10925299"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14568929"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-ornitine_production"/> <bbox w="170.0" h="45.0" x="13725.0" y="8257.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4648_rc_sa4648" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4648_rc_sa4648"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIRT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIRT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIRT1"/> <bbox w="70.0" h="25.0" x="19358.56" y="16226.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4744_rc_sa4744" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS , MODULE:APOPTOSIS , MODULE:STARVATION_AUTOPHAGY </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4744_rc_sa4744"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ER Stress"/> <bbox w="80.0" h="30.0" x="28062.967" y="13378.75"/> </glyph> <glyph class="complex" id="s_id_ce_csa193_ce_csa193" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK1:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDC2*/CycA*"/> <bbox w="100.0" h="120.0" x="12774.473" y="10064.356"/> <glyph class="macromolecule" id="s_id_ce_sa835_ce_sa835"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="12783.08" y="10119.401"/> <glyph class="state variable" id="_2885568a-ef90-4665-847a-2261d47b0bc2"> <state value="P" variable="Y14/15"/> <bbox w="45.0" h="10.0" x="12817.529" y="10114.401"/> </glyph> <glyph class="state variable" id="_ecf114cf-ae95-4ed5-893b-5a6468039138"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12778.08" y="10134.369"/> </glyph> <glyph class="state variable" id="_5fd03260-ae26-4d62-8c2c-e20ebda55464"> <state value="" variable="T161"/> <bbox w="30.0" h="10.0" x="12848.08" y="10134.001"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa834_ce_sa834"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="12783.137" y="10074.439"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa45_in_csa45" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MIR378:GZMB"/> <bbox w="100.0" h="120.0" x="16060.0" y="6010.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa306_in_sa306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR378"/> <bbox w="90.0" h="25.0" x="16065.0" y="6017.5"/> <glyph class="unit of information" id="_89bd1c4e-62ef-472e-acf2-646abe3d0aed"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="16095.0" y="6012.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa305_in_sa305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GZMB"/> <bbox w="90.0" h="25.0" x="16065.0" y="6047.5"/> <glyph class="unit of information" id="_35e4aa71-8de3-40d6-b7f3-a44a6de1f012"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="16100.0" y="6042.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa250_ce_csa250" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPP5C:RAD17</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="PP5*/RAD17"/> <bbox w="100.0" h="120.0" x="13495.473" y="12126.356"/> <glyph class="macromolecule" id="s_id_ce_sa1318_ce_sa1318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD17 homolog (S. pombe)</p> <p>HUGO:RAD17, HGNC:9807, ENTREZ:5884, UNIPROT:O75943</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:16885023, PMID:17303408</p> </body> </html> </notes> <label text="RAD17"/> <bbox w="80.0" h="40.0" x="13507.777" y="12135.736"/> <glyph class="state variable" id="_52c70491-8125-44f6-942a-e8b5288ade3a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13502.777" y="12150.736"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1319_ce_sa1319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Protein phosphatase 5, catalytic subunit</p> <p>HUGO:PPP5C, HGNC:9322, ENTREZ:5536, UNIPROT:P53041</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:16260606, PMID:14871926</p> </body> </html> </notes> <label text="PPP5C"/> <bbox w="80.0" h="40.0" x="13506.777" y="12178.736"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa80_akt1_akt1_csa80" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:FBW7*:RBX1:SKP1</p> <p>References:</p> <p>s_akt1_re184:(MAP:survival) PMID:18787170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa80_akt1_akt1_csa80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18787170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL1:FBW7*:RBX1:SKP1"/> <bbox w="170.0" h="116.0" x="13066.061" y="19379.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa494_akt1_akt1_sa494"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="13069.061" y="19427.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa492_akt1_akt1_sa492"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="13069.061" y="19383.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa493_akt1_akt1_sa493"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>"S-phase kinase-associated protein 1A (p19A)", SKP1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="13153.061" y="19383.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa495_akt1_akt1_sa495"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>F-box and WD repeat domain containing 7</p> <p>HUGO:FBXW7 HGNC:16712 ENTREZ:55294 UNIPROT:Q969H0 GENECARDS:FBXW7 REACTOME:147220 KEGG:55294 ATLASONC:GC_FBXW7 WIKI:FBXW7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="FBW7*"/> <bbox w="80.0" h="40.0" x="13153.061" y="19427.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa571_rc_sa571" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa571_rc_sa571"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIAH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIAH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIAH1"/> <bbox w="70.0" h="25.0" x="21757.025" y="16291.848"/> </glyph> <glyph class="simple chemical" id="s_id_ce_sa1538_ce_sa1538" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Nitrogen mustards</p> <p> Cyclophosphamide</p> <p> Mechlorethamine or mustine (HN2) (trade name Mustardgen)</p> <p> Uramustine or uracil mustard</p> <p> Melphalan</p> <p> Chlorambucil</p> <p> Ifosfamide</p> <p> Nitrosoureas</p> <p> Carmustine</p> <p> Lomustine</p> <p> Streptozocin</p> <p> Alkyl sulfonates</p> <p> Busulfan</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:NER, MODULE:DR, MODULE:MMR</p> <p>References:</p> <p>PMID:22237395, PMID:22122467, PMID:21113301, PMID:22911013, PMID:22788764, PMID:22709253</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1538_ce_sa1538"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22237395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22122467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21113301"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22911013"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22788764"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22709253"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Alkylating agents*"/> <bbox w="160.0" h="28.0" x="10854.77" y="14395.0"/> </glyph> <glyph 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<body> <p>NAME:NICD*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re67:(MAP:survival) PMID:19000719</p> <p>s_wca3_re69(MAP:survival):</p> <p>Synergistic effect on HES1 transcription</p> <p>PMID:19000719</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa29_wca1_wca3_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19000719"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="22145.06" y="21108.5"/> <glyph class="state variable" id="_59fafd41-ee5f-460b-ab8f-039eafc41119"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="22210.06" y="21103.713"/> </glyph> <glyph class="state variable" id="_79bb1c03-f6f5-4873-b97b-2a6d845f725e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22159.277" y="21103.5"/> </glyph> <glyph class="state variable" id="_60fa1913-03c9-4eba-9eef-879d63cc4739"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="22130.553" y="21103.5"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>notch 1</p> <p>HUGO:NOTCH1 HGNC:7881 ENTREZ:4851 UNIPROT:P46531 GENECARDS:NOTCH1 REACTOME:60520 KEGG:4851 ATLASONC:NOTCH1ID30ch9q34 WIKI:NOTCH1 </p> <p>notch 2</p> <p>HUGO:NOTCH2 HGNC:7882 ENTREZ:4853 UNIPROT:Q04721 GENECARDS:NOTCH2 REACTOME:60522 KEGG:4853 ATLASONC:NOTCH2ID41556ch1p12 WIKI:NOTCH2 </p> <p>notch 3</p> <p>HUGO:NOTCH3 HGNC:7883 ENTREZ:4854 UNIPROT:Q9UM47 GENECARDS:NOTCH3 REACTOME:60524 KEGG:4854 ATLASONC:NOTCH3ID41557ch19p13 WIKI:NOTCH3 </p> <p>notch 4</p> <p>HUGO:NOTCH4 HGNC:7884 ENTREZ:4855 UNIPROT:Q99466 GENECARDS:NOTCH4 REACTOME:60526 KEGG:4855 ATLASONC:GC_NOTCH4 WIKI:NOTCH4</p> <p>Map modules:</p> </body> </html> </notes> <label text="NICD*"/> <bbox w="80.0" h="40.0" x="22145.06" y="21150.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa488_ca_sa488" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Caspase9*:HAX1</p> </body> </html> </notes> <label text="CASP9:HAX1"/> <bbox w="100.0" h="120.0" x="21129.06" y="12949.0"/> <glyph class="macromolecule" id="s_id_rc_sa499_rc_sa499"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HCLS1 associated protein X-1</p> <p>HUGO:HAX1 HGNC:16915 ENTREZ:10456 UNIPROT:O00165</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES</p> </body> </html> </notes> <label text="HAX1"/> <bbox w="80.0" h="40.0" x="21138.06" y="13006.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa500_rc_sa500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>PMID:26618107</p> <p>PMID:12011067</p> <p>DCC interacts with both caspase-3 and caspase-9 and drives the activation of caspase-3 through caspase-9</p> <p>PMID:19465923</p> <p>The Patched dependence receptor triggers apoptosis through a DRAL-caspase-9 complex.</p> <p>PMID:22679284</p> <p>Patched dependence receptor triggers apoptosis through ubiquitination of caspase-9.</p> </body> </html> </notes> <label text="Caspase9*"/> <bbox w="80.0" h="40.0" x="21138.06" y="12964.0"/> <glyph class="state variable" id="_bc9341fe-33f7-4afe-9a73-2324775af9ca"> <state value="" variable="S196"/> <bbox w="30.0" h="10.0" x="21180.01" y="12959.0"/> </glyph> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APPL2:Cleaved DCC*:cleaved~Caspase9*</p> <p>References:</p> <p>DCC*:APPL2:cleaved Caspase9*</p> <p>11248093</p> <p>22920895</p> </body> </html> </notes> <label text="DCC:NTN1"/> <bbox w="100.0" h="170.0" x="19337.111" y="9148.431"/> <glyph class="macromolecule" id="s_id_rc_sa4123_rc_sa4123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 9, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP9 HGNC:1511 ENTREZ:842 UNIPROT:P55211</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> </body> </html> </notes> <label text="cleaved~Caspase9*"/> <bbox w="80.0" h="40.0" x="19347.111" y="9258.431"/> <glyph class="unit of 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2</p> <p>HUGO:APPL2 HGNC:18242 ENTREZ:55198 UNIPROT:Q8NEU8</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:12011067</p> <p>DIP13 alpha is a mediator of the DCC apoptotic pathway</p> <p>PMID:22920895</p> </body> </html> </notes> <label text="APPL2"/> <bbox w="80.0" h="40.0" x="19347.111" y="9208.431"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1264_in_sa1264" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 17485448, 10661401 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORSCASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:TLR2_4References:PMID:17485448Inhibition of NFkB signaling downstream of ABIN3inhibits expression of IL8, IL6, TNF, IL12PMID:10661401Cross-Linking of B1 Integrins on Human NK Cells via VAV1 activates Rac1, which controls p38 MAPK Activation. MKK3 is activated by B1 Integrin Cross-Linking on Human NK Cells,It activates p38MAPK regulated IL8 mRNA expression and protein production by NK cells downstream of integrin signaling ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 17485448, 10661401 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORSCASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:TLR2_4References:PMID:17485448Inhibition of NFkB signaling downstream of ABIN3inhibits expression of IL8, IL6, TNF, IL12PMID:10661401Cross-Linking of B1 Integrins on Human NK Cells via VAV1 activates Rac1, which controls p38 MAPK Activation. 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="14150.0" y="4500.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2104_in_sa2104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="14150.0" y="4450.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa326_rc_csa326" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC13*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*:FZR1</p> </body> </html> </notes> <label text="APC/C:CDH1"/> <bbox w="340.0" h="210.0" x="21841.81" y="16789.0"/> <glyph class="macromolecule" id="s_id_rc_sa2940_rc_sa2940"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5 HGNC:15713 ENTREZ:51433 UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="21931.31" y="16849.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2941_rc_sa2941"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23</p> <p>HUGO:CDC23 HGNC:1724 ENTREZ:8697 UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="21931.31" y="16929.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2943_rc_sa2943"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7 HGNC:17380 ENTREZ:51434 UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="22011.31" y="16889.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2934_rc_sa2934"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11 HGNC:14452 ENTREZ:51529 UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="21851.31" y="16809.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2935_rc_sa2935"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10 HGNC:24077 ENTREZ:10393 UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="21851.31" y="16889.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2945_rc_sa2945"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26</p> <p>HUGO:CDC26 HGNC:17839 ENTREZ:246184 UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="22011.31" y="16929.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2944_rc_sa2944"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 13</p> <p>HUGO:ANAPC13 HGNC:24540 ENTREZ:25847 UNIPROT:Q9BS18</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC13*"/> <bbox w="80.0" h="40.0" x="22011.31" y="16849.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2936_rc_sa2936"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16</p> <p>HUGO:CDC16 HGNC:1720 ENTREZ:8881 UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="21851.31" y="16849.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2942_rc_sa2942"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27</p> <p>HUGO:CDC27 HGNC:1728 ENTREZ:996 UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="22011.31" y="16809.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2938_rc_sa2938"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 1</p> <p>HUGO:ANAPC1 HGNC:19988 ENTREZ:64682 UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="21931.31" y="16809.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2937_rc_sa2937"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="21851.31" y="16929.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2939_rc_sa2939"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4 HGNC:19990 ENTREZ:29945 UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="21931.31" y="16889.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2948_rc_sa2948"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fizzy/cell division cycle 20 related 1 (Drosophila)</p> <p>HUGO:FZR1 HGNC:24824 ENTREZ:51343 UNIPROT:Q9UM11</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM</p> <p>References:</p> <p>synonym:CDH1</p> </body> </html> </notes> <label text="FZR1"/> <bbox w="80.0" h="40.0" x="22091.31" y="16809.0"/> <glyph class="state variable" id="_2087ead9-3d62-420e-b4d3-5acd982d7d48"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22142.879" y="16804.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2451_in_sa2451" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> <p>PMID:2308644</p> <p>RelB promoted DC activation not as the expected RelB-p52 effector of the noncanonical NF-κB pathway, but as a RelB-p50 dimer regulated by canonical IκBs, IκBα and IκBɛ.</p> <p>TLRs activate RelB-p50 via the canonical NFκB pathway</p> <p>IKKB signaling is required for RelB activation.</p> <p>PMID:23394901</p> <p>dimer RelB/p50 rather than the p50/p50 complex inhibits TNF production in LPS-stimulated DCs and macrophages. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD1:MIR204</p> <p>References:</p> <p>s_wca4_re21:(MAP:survival) PMID:22833265</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa9_wca1_wca4_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22833265"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label 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x="23826.06" y="21279.0"/> <glyph class="unit of information" id="_405899b3-b6a0-4d01-a5d7-d8da736c9e43"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23861.06" y="21274.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa43_wca1_wca4_sa43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 204</p> <p>MIRN204</p> <p>HUGO:MIR204 HGNC:31582 ENTREZ:406987 GENECARDS:MIR204 KEGG:406987 ATLASONC:GC_MIR204 WIKI:MIR204</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>microRNA 204</p> <p>MIRN204</p> <p>HUGO:MIR204 HGNC:31582 ENTREZ:406987 GENECARDS:MIR204 KEGG:406987 ATLASONC:GC_MIR204 WIKI:MIR204</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR204"/> <bbox w="90.0" h="25.0" x="23826.06" y="21306.0"/> <glyph class="unit of information" id="_c2210569-10db-4950-af10-0792d0912229"> <label text="asRNA"/> <bbox w="30.0" 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class="macromolecule" id="s_id_in_sa857_in_sa857"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NKG2A*"/> <bbox w="80.0" h="50.0" x="11595.0" y="1565.0"/> <glyph class="unit of information" id="_41ad0870-c1bd-4fd8-88dd-2e18f3d10664"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11612.5" y="1560.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa859_in_sa859"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HLA-E"/> <bbox w="80.0" h="40.0" x="11595.0" y="1680.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa858_in_sa858"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="KLRD1"/> <bbox w="80.0" h="50.0" x="11595.0" y="1625.0"/> <glyph class="unit of information" id="_698b223c-0b75-4bd5-9813-67c324ed8ed3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11612.5" y="1620.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa250_akt1_akt2_sa250" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa250_akt1_akt2_sa250"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR27A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR27A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR27A"/> <bbox w="90.0" h="25.0" x="12541.561" y="21725.5"/> <glyph class="unit of information" id="_1016c004-d0f3-474d-856b-fb9f5fa6af3f"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="12571.561" y="21720.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3685_rc_sa3685" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Lactosylceramide"/> <bbox w="116.0" h="23.0" x="19911.56" y="10841.5"/> </glyph> <glyph class="source and sink" id="s_id_ce_sa332_ce_sa332" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_sa105_degraded"/> <bbox w="30.0" h="30.0" x="12373.75" y="10096.875"/> </glyph> 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x="23409.06" y="16044.5"/> <glyph class="unit of information" id="_15b25401-3d85-43c1-90e5-a144ae3ce1d4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23444.06" y="16039.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa91_ca_sa91" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa91_ca_sa91"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC16A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC16A4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC16A4"/> <bbox w="70.0" h="25.0" x="3355.0" y="3957.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3170_rc_sa3170" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3170_rc_sa3170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K6"/> <bbox w="80.0" h="40.0" x="22698.56" y="10981.0"/> <glyph class="state variable" id="_48bbe1ad-a337-43b6-b693-9a481860a5cf"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22747.629" y="10976.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa52_wca1_wca1_csa52" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL3:KLHL*:RBX1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:16547521</p> <p>s_wca1_re51(MAP:survival):</p> <p>In the presence of WNT3a DVL-3 forms complex with KLHL12/CUL3/RBX1-complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa52_wca1_wca1_csa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547521"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL3:KLHL*:RBX1"/> <bbox w="131.0" h="161.0" x="20396.31" y="18211.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa524_wca1_wca1_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="20419.56" y="18304.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa523_wca1_wca1_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 3</p> <p>HUGO:CUL3 HGNC:2553 ENTREZ:8452 UNIPROT:Q13618 GENECARDS:CUL3 REACTOME:53166 KEGG:8452 ATLASONC:GC_CUL3 WIKI:CUL3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17312394</p> </body> </html> </notes> <label text="CUL3"/> <bbox w="80.0" h="40.0" x="20419.56" y="18262.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa522_wca1_wca1_sa522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kelch-like 1 (Drosophila)</p> <p>HUGO:KLHL1 HGNC:6352 ENTREZ:57626 UNIPROT:Q9NR64 GENECARDS:KLHL1 KEGG:57626 ATLASONC:GC_KLHL1 WIKI:KLHL1 </p> <p>kelch-like 2 Mayven (Drosophila)</p> <p>HUGO:KLHL2 HGNC:6353 ENTREZ:11275 UNIPROT:O95198 GENECARDS:KLHL2 KEGG:11275 ATLASONC:GC_KLHL2 WIKI:KLHL2 </p> <p>kelch-like 3 (Drosophila)</p> <p>HUGO:KLHL3 HGNC:6354 ENTREZ:26249 UNIPROT:Q9UH77 GENECARDS:KLHL3 KEGG:26249 WIKI:KLHL3 </p> <p>kelch-like 4 (Drosophila)</p> <p>HUGO:KLHL4 HGNC:6355 ENTREZ:56062 UNIPROT:Q9C0H6 GENECARDS:KLHL4 KEGG:56062 WIKI:KLHL4 </p> <p>kelch-like 5 (Drosophila)</p> <p>HUGO:KLHL5 HGNC:6356 ENTREZ:51088 UNIPROT:Q96PQ7 GENECARDS:KLHL5 WIKI:KLHL5 </p> <p>kelch-like 6 (Drosophila)</p> <p>HUGO:KLHL6 HGNC:18653 ENTREZ:89857 UNIPROT:Q8WZ60 GENECARDS:KLHL6 KEGG:55975 WIKI:KLHL6 </p> <p>kelch-like 7 (Drosophila)</p> <p>HUGO:KLHL7 HGNC:15646 ENTREZ:55975 UNIPROT:Q8IXQ5 GENECARDS:KLHL7 KEGG:55975 ATLASONC:GC_KLHL7 WIKI:KLHL7 </p> <p>kelch-like 8 (Drosophila)</p> <p>HUGO:KLHL8 HGNC:18644 ENTREZ:57563 UNIPROT:Q9P2G9 GENECARDS:KLHL8 WIKI:KLHL8 </p> <p>kelch-like 9 (Drosophila)</p> <p>HUGO:KLHL9 HGNC:18732 ENTREZ:55958 UNIPROT:Q9P2J3 GENECARDS:KLHL9 REACTOME:67738 WIKI:KLHL9 </p> <p>kelch-like 10 (Drosophila)</p> <p>HUGO:KLHL10 HGNC:18829 ENTREZ:317719 UNIPROT:Q6JEL2 GENECARDS:KLHL10 KEGG:317719 WIKI:KLHL10 </p> <p>kelch-like 11 (Drosophila)</p> <p>HUGO:KLHL11 HGNC:19008 ENTREZ:55175 UNIPROT:Q9NVR0 GENECARDS:KLHL11 WIKI:KLHL11 </p> <p>kelch-like 12 (Drosophila)</p> <p>HUGO:KLHL12 HGNC:19360 ENTREZ:59349 UNIPROT:Q53G59 GENECARDS:KLHL12 KEGG:59349 WIKI:KLHL12 </p> <p>kelch-like 13 (Drosophila)</p> <p>HUGO:KLHL13 HGNC:22931 ENTREZ:90293 UNIPROT:Q9P2N7 GENECARDS:KLHL13 REACTOME:67732 KEGG:90293 WIKI:KLHL13 </p> <p>kelch-like 14 (Drosophila)</p> <p>HUGO:KLHL14 HGNC:29266 ENTREZ:57565 UNIPROT:Q9P2G3 GENECARDS:KLHL14 WIKI:KLHL14 </p> <p>kelch-like 15 (Drosophila)</p> <p>HUGO:KLHL15 HGNC:29347 ENTREZ:80311 UNIPROT:Q96M94 GENECARDS:KLHL15 WIKI:KLHL15 </p> <p>kelch-like 17 (Drosophila)</p> <p>HUGO:KLHL17 HGNC:24023 ENTREZ:339451 UNIPROT:Q6TDP4 GENECARDS:KLHL17 KEGG:339451 WIKI:KLHL17 </p> <p>kelch-like 18 (Drosophila)</p> <p>HUGO:KLHL18 HGNC:29120 ENTREZ:23276 UNIPROT:O94889 GENECARDS:KLHL18 WIKI:KLHL18 </p> <p>kelch-like 20 (Drosophila)</p> <p>HUGO:KLHL20 HGNC:25056 ENTREZ:27252 UNIPROT:Q9Y2M5 GENECARDS:KLHL20 REACTOME:58067 KEGG:27252 ATLASONC:GC_KLHL20 WIKI:KLHL20 </p> <p>kelch-like 21 (Drosophila)</p> <p>HUGO:KLHL21 HGNC:29041 ENTREZ:9903 UNIPROT:Q9UJP4 GENECARDS:KLHL21 REACTOME:67612 ATLASONC:GC_KLHL21 WIKI:KLHL21 </p> <p>kelch-like 22 (Drosophila)</p> <p>HUGO:KLHL22 HGNC:25888 ENTREZ:84861 UNIPROT:Q53GT1 GENECARDS:KLHL22 KEGG:84861 WIKI:KLHL22 </p> <p>kelch-like 23 (Drosophila)</p> <p>HUGO:KLHL23 HGNC:27506 ENTREZ:151230 UNIPROT:Q8NBE8 GENECARDS:KLHL23 KEGG:151230 WIKI:KLHL23 </p> <p>kelch-like 24 (Drosophila)</p> <p>HUGO:KLHL24 HGNC:25947 ENTREZ:54800 UNIPROT:Q6TFL4 GENECARDS:KLHL24 KEGG:54800 WIKI:KLHL24 </p> <p>kelch-like 25 (Drosophila)</p> <p>HUGO:KLHL25 HGNC:25732 ENTREZ:64410 UNIPROT:Q9H0H3 GENECARDS:KLHL25 KEGG:64410 WIKI:KLHL25 </p> <p>kelch-like 26 (Drosophila)</p> <p>HUGO:KLHL26 HGNC:25623 ENTREZ:55295 UNIPROT:Q53HC5 GENECARDS:KLHL26 WIKI:KLHL26 </p> <p>kelch-like 28 (Drosophila)</p> <p>HUGO:KLHL28 HGNC:19741 ENTREZ:54813 UNIPROT:Q9NXS3 GENECARDS:KLHL28 KEGG:54813 WIKI:KLHL28 </p> <p>kelch-like 29 (Drosophila)</p> <p>HUGO:KLHL29 HGNC:29404 ENTREZ:114818 UNIPROT:Q96CT2 GENECARDS:KLHL29 KEGG:114818 WIKI:KLHL29 </p> <p>kelch-like 30 (Drosophila)</p> <p>HUGO:KLHL30 HGNC:24770 ENTREZ:377007 UNIPROT:Q0D2K2 GENECARDS:KLHL30 WIKI:KLHL30 </p> <p>kelch-like 31 (Drosophila)</p> <p>HUGO:KLHL31 HGNC:21353 ENTREZ:401265 UNIPROT:Q9H511 GENECARDS:KLHL31 KEGG:401265 WIKI:KLHL31 </p> <p>kelch-like 32 (Drosophila)</p> <p>HUGO:KLHL32 HGNC:21221 ENTREZ:114792 UNIPROT:Q96NJ5 GENECARDS:KLHL32 KEGG:114792 WIKI:KLHL32 </p> <p>kelch-like 33 (Drosophila)</p> <p>HUGO:KLHL33 HGNC:31952 ENTREZ:123103 UNIPROT:A6NCF5 GENECARDS:KLHL33 WIKI:KLHL33 </p> <p>kelch-like 34 (Drosophila)</p> <p>HUGO:KLHL34 HGNC:26634 ENTREZ:257240 UNIPROT:Q8N239 GENECARDS:KLHL34 WIKI:KLHL34 </p> <p>kelch-like 35 (Drosophila)</p> <p>HUGO:KLHL35 HGNC:26597 ENTREZ:283212 UNIPROT:Q6PF15 GENECARDS:KLHL35 KEGG:8507 WIKI:KLHL35 </p> <p>kelch-like 36 (Drosophila)</p> <p>HUGO:KLHL36 HGNC:17844 ENTREZ:79786 UNIPROT:Q8N4N3 GENECARDS:KLHL36 KEGG:79786 WIKI:KLHL36 </p> <p>kelch-like 38 (Drosophila)</p> <p>HUGO:KLHL38 HGNC:34435 ENTREZ:340359 UNIPROT:Q2WGJ6 GENECARDS:KLHL38 KEGG:340359 WIKI:KLHL38</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="KLHL*"/> <bbox w="80.0" h="40.0" x="20419.56" y="18220.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3736_rc_sa3736" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3736_rc_sa3736"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLA2G4A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLA2G4A"/> <bbox w="80.0" h="40.0" x="21079.06" y="10599.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2713_rc_sa2713" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2713_rc_sa2713"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-ND5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-ND5"/> <bbox w="90.0" h="25.0" x="21066.06" y="15002.5"/> <glyph class="unit of information" id="_2941cb0e-707d-495c-ac1c-5d15cdd8cdf5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21101.06" y="14997.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa147_mpk1_mpk1_sa147" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa147_mpk1_mpk1_sa147"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BRAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IMP*"/> <bbox w="50.0" h="25.0" x="9326.561" y="19387.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa54_rc_csa54" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ENO*:Mg2+</p> </body> </html> </notes> <label text="ENO"/> <bbox w="107.0" h="80.0" x="18815.777" y="10936.898"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3396_rc_sa3396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>enolase 1, (alpha)</p> <p>HUGO:ENO1 HGNC:3350 ENTREZ:2023 UNIPROT:P06733 </p> <p>enolase 2 (gamma, neuronal)</p> <p>HUGO:ENO2 HGNC:3353 ENTREZ:2026 UNIPROT:P09104 </p> <p>enolase 3 (beta, muscle)</p> <p>HUGO:ENO3 HGNC:3354 ENTREZ:2027 UNIPROT:P13929</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="ENO*"/> <bbox w="86.0" h="46.0" x="18825.291" y="10953.933"/> <glyph class="unit of information" id="_21beefd8-6a24-4464-8f64-d7ab546c58c6"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18858.291" y="10948.933"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa932_rc_sa932"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="18889.291" y="10938.933"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ce_sa129_ce_sa129" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa129_ce_sa129"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XRCC4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XRCC4"/> <bbox w="80.0" h="40.0" x="13451.307" y="16782.408"/> <glyph class="unit of information" id="_bad372f6-8063-4350-8135-fa98a64f1f17"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="13481.307" y="16777.408"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa34_rc_csa34" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:COX4I2:COX5A:COX5B:COX6A*:COX6B*:COX6C:COX7A*:COX7B*:COX7C:COX8*:Cu2+:MT-CO1:MT-CO2:MT-CO3:heme a</p> <p>References:</p> <p>stoechiometry:FALSE</p> </body> </html> </notes> <label text="cytochrome c oxidase"/> <bbox w="420.0" h="150.0" x="19065.81" y="13579.0"/> <glyph class="macromolecule" id="s_id_rc_sa442_rc_sa442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIb</p> <p>HUGO:COX7B HGNC:2291 ENTREZ:1349 UNIPROT:P24311 </p> <p>cytochrome c oxidase subunit VIIb2</p> <p>HUGO:COX7B2 HGNC:24381 ENTREZ:170712 UNIPROT:Q8TF08</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX7B*"/> <bbox w="80.0" h="40.0" x="19317.81" y="13621.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa438_rc_sa438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit Vb</p> <p>HUGO:COX5B HGNC:2269 ENTREZ:1329 UNIPROT:P10606</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX5B"/> <bbox w="80.0" h="40.0" x="19153.81" y="13663.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa443_rc_sa443"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIc</p> <p>HUGO:COX7C HGNC:2292 ENTREZ:1350 UNIPROT:P15954</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX7C"/> <bbox w="80.0" h="40.0" x="19317.81" y="13663.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa445_rc_sa445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:24479</p> <p>KEGGCOMPOUND:C15670 </p> </body> </html> </notes> <label text="heme a"/> <bbox w="70.0" h="25.0" x="19404.81" y="13660.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa441_rc_sa441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIa polypeptide 1 (muscle)</p> <p>HUGO:COX7A1 HGNC:2287 ENTREZ:1346 UNIPROT:P24310 </p> <p>cytochrome c oxidase subunit VIIa polypeptide 2 (liver)</p> <p>HUGO:COX7A2 HGNC:2288 ENTREZ:1347 UNIPROT:P14406 </p> <p>cytochrome c oxidase subunit VIIa polypeptide 2 like</p> <p>HUGO:COX7A2L HGNC:2289 ENTREZ:9167 UNIPROT:O14548</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX7A*"/> <bbox w="80.0" h="40.0" x="19317.81" y="13579.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa445_rc_sa446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:24479</p> <p>KEGGCOMPOUND:C15670 </p> </body> </html> </notes> <label text="heme a"/> <bbox w="70.0" h="25.0" x="19404.81" y="13694.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa444_rc_sa444"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIIIA (ubiquitous)</p> <p>HUGO:COX8A HGNC:2294 ENTREZ:1351 UNIPROT:P10176 </p> <p>cytochrome c oxidase subunit VIIIC</p> <p>HUGO:COX8C HGNC:24382 ENTREZ:341947 UNIPROT:Q7Z4L0</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX8*"/> <bbox w="80.0" h="40.0" x="19399.81" y="13579.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa439_rc_sa439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIc</p> <p>HUGO:COX6C HGNC:2285 ENTREZ:1345 UNIPROT:P09669</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX6C"/> <bbox w="80.0" h="40.0" x="19235.81" y="13663.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa450_rc_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit IV isoform 2 (lung)</p> <p>HUGO:COX4I2 HGNC:16232 ENTREZ:84701 UNIPROT:Q96KJ9</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX4I2"/> <bbox w="80.0" h="40.0" x="19153.81" y="13582.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa447_rc_sa447"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29036</p> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="19448.81" y="13632.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa440_rc_sa440"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIb polypeptide 1 (ubiquitous)</p> <p>HUGO:COX6B1 HGNC:2280 ENTREZ:1340 UNIPROT:P14854 </p> <p>cytochrome c oxidase subunit VIb polypeptide 2 (testis)</p> <p>HUGO:COX6B2 HGNC:24380 ENTREZ:125965 UNIPROT:Q6YFQ2</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX6B*"/> <bbox w="80.0" h="40.0" x="19235.81" y="13621.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa447_rc_sa448"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29036</p> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="19407.31" y="13632.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa437_rc_sa437"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit Va</p> <p>HUGO:COX5A HGNC:2267 ENTREZ:9377 UNIPROT:P20674</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX5A"/> <bbox w="80.0" h="40.0" x="19153.81" y="13621.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa434_rc_sa434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome c oxidase I</p> <p>HUGO:MT-CO1 HGNC:7419 ENTREZ:4512 UNIPROT:P00395</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CO1"/> <bbox w="80.0" h="40.0" x="19071.81" y="13581.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa449_rc_sa449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c oxidase subunit VIa polypeptide 1</p> <p>HUGO:COX6A1 HGNC:2277 ENTREZ:1337 UNIPROT:P12074 </p> <p>cytochrome c oxidase subunit VIa polypeptide 2</p> <p>HUGO:COX6A2 HGNC:2279 ENTREZ:1339 UNIPROT:Q02221</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="COX6A*"/> <bbox w="80.0" h="40.0" x="19235.81" y="13579.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa435_rc_sa435"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome c oxidase II</p> <p>HUGO:MT-CO2 HGNC:7421 ENTREZ:4513 UNIPROT:P00403</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CO2"/> <bbox w="80.0" h="40.0" x="19071.81" y="13625.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa436_rc_sa436"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded cytochrome c oxidase III</p> <p>HUGO:MT-CO3 HGNC:7422 ENTREZ:4514 UNIPROT:P00414</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-CO3"/> <bbox w="80.0" h="40.0" x="19071.81" y="13665.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa494_rc_sa494" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa494_rc_sa494"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HAX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HAX1"/> <bbox w="80.0" h="40.0" x="21280.31" y="12941.877"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa165_shh1_shh2_sa165" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa165_shh1_shh2_sa165"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI3"/> <bbox w="70.0" h="25.0" x="26451.06" y="21858.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2359_emtc_em_sa2359" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2359_emtc_em_sa2359"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGFR3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGFR3"/> <bbox w="80.0" h="50.0" x="2245.5" y="12608.5"/> <glyph class="unit of information" id="_f91253ae-55af-4e2e-9f27-b23c9dbd7dfe"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2263.0" y="12603.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa913_ad_sa913" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21277899 </p> <p>In searching for specific upstream activators linking CD28 to the IKKα/NF-κB cascade, we identify a novel constitutive association between filamin A (FLNa) and the NF-κB inducing kinase (NIK), in both Jurkat and human primary T cells. Following CD28 engagement by B7, in the absence of TCR, FLNa-associated NIK is activated and induces IKKα kinase activity. Both proline (P(208)YAP(211)P(212)) and tyrosine residues (Y(206)QPY(209)APP) within the C-terminal proline-rich motif of CD28 are involved in the recruitment of FLNa/NIK complexes to the membrane as well as in the activation of NIK and IKKα.</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> <p>We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manne</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa913_ad_sa913"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21277899"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536066"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K14"/> <bbox w="80.0" h="40.0" x="28066.0" y="5405.0"/> <glyph class="state variable" id="_86ea0feb-3535-4094-8160-b90c85134a78"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28061.0" y="5420.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2095_emtc_em_sa2095" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2095_emtc_em_sa2095"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NICD*"/> <bbox w="49.0" h="21.0" x="1307.0" y="14243.5"/> <glyph class="state variable" id="_f107920a-7994-4a52-b13f-49c30e5c00f0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1351.0" y="14238.5"/> </glyph> <glyph class="state variable" id="_6709afaa-8c48-4227-9dd8-d94ce5f9e4f8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1302.0" y="14238.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1212_in_sa1212" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL19"/> <bbox w="90.0" h="25.0" x="14535.0" y="2552.5"/> <glyph class="unit of information" id="_0f133aec-1b79-4055-8bc5-4b1c0cf98c80"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="14570.0" y="2547.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa100_rc_csa100" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Fe2+:HIF1AN</p> </body> </html> </notes> <label text="FIH"/> <bbox w="100.0" h="104.0" x="23841.56" y="16682.0"/> <glyph class="macromolecule" id="s_id_rc_sa1190_rc_sa1190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hypoxia inducible factor 1, alpha subunit inhibitor</p> <p>HUGO:HIF1AN HGNC:17113 ENTREZ:55662 UNIPROT:Q9NWT6</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FIH1</p> </body> </html> </notes> <label text="HIF1AN"/> <bbox w="80.0" h="40.0" x="23851.56" y="16695.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1191_rc_sa1191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Fe2+"/> <bbox w="25.0" h="25.0" x="23880.56" y="16740.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa94_wnc1_wnc4_sa94" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>It is not a real protein but a collection of proteins that make up the extracellular matrix</p> <p>s_wnc4_re28:(MAP:survival) PMID:21908588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa94_wnc1_wnc4_sa94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ECM proteins*"/> <bbox w="80.0" h="40.0" x="19296.06" y="21510.0"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1404_emtc_em_sa1404" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Stress fiber formation"/> <bbox w="140.0" h="20.0" x="5283.0" y="12934.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2010_emtc_em_sa2010" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2010_emtc_em_sa2010"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUNB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUNB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUNB"/> <bbox w="55.0" h="19.0" x="4181.0" y="16658.25"/> <glyph class="unit of information" id="_4dd34e27-1ba1-48fa-a52b-56ecd7675c62"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4198.5" y="16653.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa33_wca1_wca2_csa33" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRIPTO-1*:E-Cadherin*:FZD*:GTP:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:WNT*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re72(MAP:survival):</p> <p>Upon WNT3a CRIPTO-1 binds to LRP5/6 this binding is competing with DKK binding</p> <p>PMID:23022962</p> <p>s_wca2_re71(MAP:survival):</p> <p>Binding of CRIPTO-1 to LRP5/6 enhances Topflash activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa33_wca1_wca2_csa33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23022962"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRIPTO-1*:E-Cadherin*:FZD*:GTP:Gαo*:Gβ*:Gγ*:LRP5_6*:WNT*"/> <bbox w="246.0" h="169.0" x="25149.06" y="19175.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa203_wca1_wca2_sa203"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>teratocarcinoma-derived growth factor 1</p> <p>HUGO:TDGF1 HGNC:11701 ENTREZ:6997 UNIPROT:P13385 GENECARDS:TDGF1 REACTOME:52798 KEGG:6997 ATLASONC:GC_TDGF1 WIKI:TDGF1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CRIPTO-1*"/> <bbox w="80.0" h="40.0" x="25155.06" y="19204.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa196_wca1_wca2_sa196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="25235.06" y="19205.0"/> <glyph class="unit of information" id="_8c6240c5-c86b-41a7-89d1-d9f4dcce02c8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25252.56" y="19200.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa195_wca1_wca2_sa195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="25235.06" y="19245.0"/> <glyph class="state variable" id="_7c7003e2-b983-494e-a8d1-437b0a54d1a6"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="25217.56" y="19264.96"/> </glyph> <glyph class="state variable" id="_b8ad9ca4-6038-46bb-b0fa-ddf48abb6c7a"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="25297.56" y="19240.266"/> </glyph> <glyph class="state variable" id="_ae091f5a-ce14-4114-9ec4-ff624c21f0d8"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="25296.941" y="19290.0"/> </glyph> <glyph class="state variable" id="_2ef65d37-711d-4ced-bd09-a0f7d10144ea"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="25256.664" y="19290.0"/> </glyph> <glyph class="state variable" id="_324285d5-ef1c-4902-b1f1-0fab99a9b379"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="25217.8" y="19290.0"/> </glyph> <glyph class="state variable" id="_d3283493-e084-43c6-aee4-2cd286003cd5"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="25257.592" y="19240.0"/> </glyph> <glyph class="unit of information" id="_189633c3-7053-41b8-86f7-80a05ee1b8af"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25252.56" y="19240.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa200_wca1_wca2_sa200"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="30.0" h="20.0" x="25255.06" y="19305.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa197_wca1_wca2_sa197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="30.0" h="20.0" x="25260.06" y="19195.0"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca2_sa202_wca1_wca2_sa202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="25212.56" y="19282.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa199_wca1_wca2_sa199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="30.0" h="20.0" x="25215.06" y="19305.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa201_wca1_wca2_sa201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="30.0" h="20.0" x="25295.06" y="19305.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa198_wca1_wca2_sa198"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="25318.56" y="19183.5"/> <glyph class="state variable" id="_2def00bd-b61a-4471-a5f6-55e8de56d44b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25366.56" y="19178.5"/> </glyph> <glyph class="state variable" id="_7e2d7741-f61d-4bf2-9777-c059cac8ef55"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="25356.56" y="19179.152"/> </glyph> <glyph class="state variable" id="_592cc1c6-b451-43c4-a77c-2d6c67d8bbd3"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="25354.629" y="19301.5"/> </glyph> <glyph class="state variable" id="_54c5ecc0-27a2-47dc-8985-6ad178ffc124"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="25304.404" y="19178.5"/> </glyph> <glyph class="state variable" id="_5f9ea7f9-0ef7-48ff-a20d-1e0964ed121e"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="25303.719" y="19301.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_em_sa1996_em_sa1996" compartmentRef="s_id_em_ca11_em_ca11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOSKELETON_POLARITY </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Clathrin dependent endosomal pathway"/> <bbox w="268.0" h="34.0" x="1296.25" y="13432.0"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1403_emtc_em_sa1403" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Microtubule stability"/> <bbox w="140.0" h="20.0" x="5119.0" y="12935.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa92_ce_sa92" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa92_ce_sa92"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="YAP1"/> <bbox w="80.0" h="40.0" x="12849.27" y="13781.0"/> <glyph class="state variable" id="_aababefe-07b0-4510-8184-3d388d362cd9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12900.838" y="13776.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa70_wca1_wca1_csa70" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CyclinY*:PFTK*</p> <p>References:</p> <p>s_wca1_re36(MAP:survival):</p> <p>PMID:20229235 PMID:18077588 PMID:20059949 PMID:20627573</p> <p>ANNOTATION:GSK3 phosphorylates first LRP @ S1490 followed by CK1 in the repeat PPSP A</p> <p>ANNOTATION:CYCLINY/PFTK complex is able to phosphorylate s1490 on LRP6 which primes the receptor for CK1 phosphorylisation. The complex is present during G2/M phase and stimulates wnt signalling it has synergetic effect together with the wnt ligand</p> <p>WNT/b-catenin signalling oscillates durring cell cycle and peaks at G2/M</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa70_wca1_wca1_csa70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20059949"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20627573"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinY*:PFTK*"/> <bbox w="100.0" h="120.0" x="22256.06" y="17937.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa723_wca1_wca1_sa723"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin Y</p> <p>HUGO:CCNY HGNC:23354 ENTREZ:219771 UNIPROT:Q8ND76 GENECARDS:CCNY KEGG:219771 ATLASONC:GC_CCNY WIKI:CCNY</p> <p>Map modules:</p> </body> </html> </notes> <label text="CyclinY*"/> <bbox w="80.0" h="40.0" x="22267.06" y="17950.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa724_wca1_wca1_sa724"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 14</p> <p>HUGO:CDK14 HGNC:8883 ENTREZ:5218 UNIPROT:O94921 GENECARDS:CDK14 KEGG:5218 ATLASONC:GC_CDK14 WIKI:CDK14</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PFTK*"/> <bbox w="80.0" h="40.0" x="22267.06" y="17994.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa108_ca_sa108" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:HHPMID:23031257TGF-β1–Induced Fibroblast Differentiation Depends on SMO in Control FibroblastsExpression of collagen and actin (alphaSMA) and FN1 are SMO and GLI1/GLI2 dependentPMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:HHPMID:23031257TGF-β1–Induced Fibroblast Differentiation Depends on SMO in Control FibroblastsExpression of collagen and actin (alphaSMA) and FN1 are SMO and GLI1/GLI2 dependentPMID:21674557Tumor-secreted lysophostatidic acid accelerates hepatocellular carcinoma progression by promoting differentiation of peritumoral fibroblasts in myofibroblasts.This effect is mediated by up-regulation of specific genes related to a myo/contractile phenotype (ACTA2, CNN1,FN (ED-A containing), EDN1, MYL12A, TAGLN2) and inhibition of ACTG2 expression. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa108_ca_sa108"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23031257"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21674557"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23031257"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21674557"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FN*"/> <bbox w="90.0" h="25.0" x="5485.0" y="4017.5"/> <glyph class="unit of information" id="_0e6fd1eb-909b-4f03-b08d-b105880b81cb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5520.0" y="4012.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa817_in_sa817" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KIR3DL1"/> <bbox w="80.0" h="50.0" x="11725.0" y="1345.0"/> <glyph class="state variable" id="_5b39b6b5-0b3f-41c3-aed5-d9b76d451934"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11720.0" y="1365.0"/> </glyph> <glyph class="unit of information" id="_840e0440-0017-4d53-bb12-60a888cd40f2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11742.5" y="1340.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4844_rc_sa4844" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1656_emtc_em_sa1656"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYL12B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYL12B"/> <bbox w="60.0" h="17.0" x="5834.0" y="16199.791"/> </glyph> <glyph class="complex" id="s_id_rc_csa285_rc_csa285" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Cu2+:SOD1:Zn2+</p> <p>Map modules:</p> <p>MODULE:NECROPTOSIS, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="SOD1"/> <bbox w="108.0" h="84.0" x="25659.06" y="15406.0"/> <glyph class="simple chemical" id="s_id_rc_sa2288_rc_sa2291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="25672.31" y="15435.835"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2288_rc_sa2288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Cu2+"/> <bbox w="25.0" h="25.0" x="25662.31" y="15425.835"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2287_rc_sa2290"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>superoxide dismutase 1, soluble</p> <p>HUGO:SOD1 HGNC:11179 ENTREZ:6647 UNIPROT:P00441</p> <p>Map modules:</p> <p>MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="SOD1"/> <bbox w="80.0" h="40.0" x="25678.06" y="15422.165"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2287_rc_sa2287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>superoxide dismutase 1, soluble</p> <p>HUGO:SOD1 HGNC:11179 ENTREZ:6647 UNIPROT:P00441</p> <p>Map modules:</p> <p>MODULE:NECROPTOSIS</p> </body> </html> </notes> <label text="SOD1"/> <bbox w="80.0" h="40.0" x="25668.06" y="15412.165"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2289_rc_sa2289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Zn2+"/> <bbox w="25.0" h="25.0" x="25726.31" y="15427.835"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2289_rc_sa2292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Zn2+"/> <bbox w="25.0" h="25.0" x="25736.31" y="15437.835"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa368_emtc_em_sa368" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa368_emtc_em_sa368"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2"/> <bbox w="80.0" h="20.0" x="5233.0" y="16463.5"/> <glyph class="unit of 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text="TNFRSF10A"/> <bbox w="80.0" h="50.0" x="23939.06" y="9194.0"/> <glyph class="unit of information" id="_d1be6fc0-07c8-4a2d-80bc-c3297d83ea53"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23956.56" y="9189.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2856_rc_sa2856" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2856_rc_sa2856"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX5A"/> <bbox w="80.0" h="40.0" x="20459.06" y="12539.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa62_shh1_shh2_sa62" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa62_shh1_shh2_sa62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXM1"/> <bbox w="70.0" h="25.0" x="26450.06" y="20825.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2628_in_sa2628" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NKp44*"/> <bbox w="80.0" h="50.0" x="19755.0" y="1935.0"/> <glyph class="unit of information" id="_682c664e-1e28-45d0-99d6-2ee739e887fd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19772.5" y="1930.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4739_rc_sa4739" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4739_rc_sa4739"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF10B"/> <bbox w="70.0" h="25.0" x="26562.201" y="16124.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1186_emtc_em_sa1186" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1186_emtc_em_sa1186"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL5A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COL5A1"/> <bbox w="49.0" h="18.0" x="5814.75" y="18534.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa42_shh1_shh1_csa42" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CyclinB*:PTCH*</p> <p>References:</p> <p>s_shh1_re83:(MAP:survival) PMID:11331587</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa42_shh1_shh1_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11331587"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTC_CYCLINB"/> <bbox w="122.0" h="190.0" x="27150.06" y="17571.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa263_shh1_shh1_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="78.0" h="114.0" x="27175.56" y="17577.0"/> <glyph class="unit of information" id="_b3346cc9-7936-4b5b-bdab-a25dd92a997c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27192.06" y="17572.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa265_shh1_shh1_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cyclin B1</p> 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x="3782.5" y="17589.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa38_an_csa38" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16076871</p> <p>VEGFR-2– and VEGFR-3–positive endothelial cells respond to</p> <p>VEGF-C or VEGF-D by forming functional heterodimers that</p> <p>would maintain elevated levels of survival signaling through</p> <p>Y1063, but attenuated endothelial-cell proliferation and spreading</p> <p>as the contribution of Y1337 would be missing</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa38_an_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16076871"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s410"/> <bbox w="270.0" h="180.0" x="6107.0" y="5905.0"/> <glyph class="macromolecule" id="s_id_an_sa358_an_sa358"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:6307</p> <p>Synonyms : FLK1, VEGFR, VEGFR2, CD309</p> </body> </html> </notes> <label text="KDR"/> <bbox w="80.0" h="50.0" x="6202.0" y="5970.0"/> <glyph class="state variable" id="_35bf0ca4-9747-4c69-a5af-68e1d74f243c"> <state value="" variable="Y1175"/> <bbox w="35.0" h="10.0" x="6240.8306" y="6015.0"/> </glyph> <glyph class="state variable" id="_edc3e2ec-2ff3-475f-8f15-a7b02cfd08ea"> <state value="P" variable="1054"/> <bbox w="35.0" h="10.0" x="6207.4756" y="6015.0"/> </glyph> <glyph class="unit of information" id="_ce886aee-d38f-4aea-b622-d44ab8383828"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6219.5" y="5965.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa533_an_sa533"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="6202.4204" y="5912.375"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa535_an_sa535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12682</p> </body> </html> </notes> <label text="VEGFC"/> <bbox w="80.0" h="40.0" x="6119.4204" y="5913.375"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa362_an_sa362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8005</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> </body> </html> </notes> <label text="NRP2"/> <bbox w="80.0" h="40.0" x="6282.0" y="6026.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa534_an_sa534"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFB HGNC:12681</p> <p>Map modules:</p> <p>MODULE:</p> <p>References:</p> <p>PMID:22064427</p> </body> </html> </notes> <label text="VEGFB"/> <bbox w="80.0" h="40.0" x="6203.4204" y="5937.375"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa360_an_sa360"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CRK HGNC:2362</p> <p>PMID:16076871</p> </body> </html> </notes> <label text="CRK"/> <bbox w="80.0" h="40.0" x="6197.0" y="6025.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa536_an_sa536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3708</p> <p>Previous name : VEGFD</p> </body> </html> </notes> <label text="FIGF"/> <bbox w="80.0" h="40.0" x="6120.4204" y="5936.375"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa356_an_sa356"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3767</p> <p>synonyms:PCL, VEGFR3</p> </body> </html> </notes> <label text="FLT4"/> <bbox w="80.0" h="50.0" x="6127.0" y="5970.0"/> <glyph class="state variable" id="_0dc42105-c7f7-423c-b3f6-1e046375af62"> <state value="P" variable="Y1230"/> <bbox w="40.0" h="10.0" x="6107.0" y="5972.7373"/> </glyph> <glyph class="state variable" id="_80962f70-4179-40e0-b2e0-2c9dfbc1b6f3"> <state value="" variable="Y1337"/> <bbox w="35.0" h="10.0" x="6147.342" y="6015.0"/> </glyph> <glyph class="state variable" id="_6cb3646e-0a82-4630-9c5a-fed8a6f9ba12"> <state value="P" variable="Y1063"/> <bbox w="40.0" h="10.0" x="6187.0" y="5971.8267"/> </glyph> <glyph class="unit of information" id="_e13c2649-bcac-47b5-9546-3e919c86ce0c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6144.5" y="5965.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa361_an_sa361"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CRKL</p> </body> </html> </notes> <label text="CRKL"/> <bbox w="80.0" h="40.0" x="6117.0" y="6025.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa539_an_sa539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> </body> </html> </notes> <label text="NRP1"/> <bbox w="80.0" h="40.0" x="6286.5" y="5972.1665"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa757_ad_sa757" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12356734</p> <p>CARD11(CARMA1) mediates NF-kappaB activation by alphaCD3/alphaCD28 cross-linking.</p> <p>CARD11 functions upstream of the IKK complex. </p> <p> wild‐type CARD11 co‐precipitating with endogenous Bcl10</p> <p>CARMA1 only expresses in lymphocytes</p> <p>PMID:20685844 </p> <p>CARMA1, a critical target of PKCθ phosphorylation, resides in lymphocytes in an inactive state. Extensive CARMA1 mutagenesis data suggest that this inactive state is maintained by intramolecular interactions that prevent the CARMA1 CARD from interacting with the CARD of BCL10 12 and 13. PKCθ phosphorylates human CARMA1 at three serine residues, S552, S645 and S637 (S564, S657, S649 in mice)</p> <p>PMID:11356195; PMID:17052756; PMID:21199863 </p> <p>CARMA1 induces BCL10 phosphorylation via CaMKII </p> <p>PMID:16809782;PMID:17052756 </p> <p>In the immune synapse, CaMKII phosphorylates Carma1 on Ser109 and the phosphorylation increases the interaction between Carma1 and Bcl10.</p> <p>Carma1/Bcl10/Malt1 complex induces NF-κB activation (Sun et al., 2004). Accordingly based on the findings in the present study, CaMKII phosphorylates Bcl10 on Ser138 while IKKβ phosphorylates residues Ser134, 136, 138, 141 and 144 (Wegener et al., 2006). Phosphorylation of Bcl10 disrupts Bcl10/Malt1 association (Wegener et al., 2006), and attenuates NF-κB activation.</p> <p>PMID:17363905 </p> <p>PKC-θ regulates TGF-β–activated kinase 1 (TAK1), a member of the MAPKK kinase family, leading to activation of IKK and NF-κB in a CARMA1-independent manner in the TCR pathway</p> <p>TAK1 activation was significantly inhibited with the pretreatment of the PKC inhibitor in both Jurkat and JPM50.6 cells (Figure 6A, lower panels). Together, these results suggest that PKC functions upstream of TAK1 and TAK1 regulates IKKα/β phosphorylation in the TCR signaling pathway.</p> <p>PKCθ, TAK1, and IKK assemble into a complex in a signal‐dependent but CARMA1‐independent manner, whereas BCL10 and MALT1 require CARMA1 to associate with the PKCθ–TAK1–IKK complex. 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</head> <body> <p>Charge: 0</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:17785506</p> <p>Cdc42-interacting protein-4 (CIP4) - TRIP10 is able to associate with Wiskott-Aldrich syndrome protein (WASp) and the actin filament-rich IS.</p> <p>WASP is needful for TRIP10 activation. CIP4 in NK provides cell cytotoxicity and MTOC polarization but not F-actin accumulation.</p> <p>TRIP10 (CIP4) functions downstream of Cdc42 to induce MTOC polarization to the IS and cytotoxicity.</p> <p>PMID:10713100</p> <p>Cdc42-interacting protein 4 mediates binding of the Wiskott-Aldrich syndrome protein to microtubules. (COS7 model)</p> <p>PMID:15541654 </p> <p>Involvement of the Wiskott-Aldrich syndrome protein and other actin regulatory adaptors in T cell activation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa439_ad_sa439"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRIP10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17785506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10713100"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15541654"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRIP10"/> <bbox w="80.0" h="40.0" x="30056.0" y="7510.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa53_akt1_akt2_csa53" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR214:PTEN</p> <p>References:</p> <p>s_akt2_re156:(MAP:survival) PMID:18199536</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa53_akt1_akt2_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18199536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR214:PTEN"/> <bbox w="100.0" h="120.0" x="12412.061" y="21802.0"/> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa307_akt1_akt2_sa307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 214</p> <p>HUGO:MIR214 HGNC:31591 ENTREZ:406996 GENECARDS:MIR214 KEGG:406996 ATLASONC:GC_MIR214 WIKI:MIR214</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:APOPTOSIS_GENES</p> <p>References:</p> <p>PMID:20083225</p> <p>microRNA 214</p> <p>HUGO:MIR214 HGNC:31591 ENTREZ:406996 GENECARDS:MIR214 KEGG:406996 ATLASONC:GC_MIR214 WIKI:MIR214</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR214"/> <bbox w="90.0" h="25.0" x="12418.561" y="21819.0"/> <glyph class="unit of information" id="_604556e1-3d03-4306-bfc2-474bb82f01b1"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="12448.561" y="21814.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa306_akt1_akt2_sa306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatase and tensin homolog</p> <p>HUGO:PTEN HGNC:9588 ENTREZ:5728 UNIPROT:P60484 GENECARDS:PTEN REACTOME:62405 KEGG:5728 ATLASONC:PTENID158 WIKI:PTEN </p> <p>phosphatase and tensin homo</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:16288286</p> <p>PMID:17218262</p> <p>phosphatase and tensin homolog</p> <p>HUGO:PTEN HGNC:9588 ENTREZ:5728 UNIPROT:P60484 GENECARDS:PTEN REACTOME:62405 KEGG:5728 ATLASONC:PTENID158 WIKI:PTEN </p> <p>phosphatase and tensin homo</p> <p>Map modules:</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:16288286</p> </body> </html> </notes> <label text="PTEN"/> <bbox w="90.0" h="25.0" x="12417.561" y="21853.0"/> <glyph class="unit of information" id="_0bb09d0d-f671-4caa-af9b-a316302c4573"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12452.561" y="21848.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2441_in_sa2441" compartmentRef="s_id_in_ca13_in_ca13"> <label text="ICAM1"/> <clone/> <bbox w="80.0" h="50.0" x="22550.0" y="7975.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2441_in_sa1211" compartmentRef="s_id_in_ca13_in_ca13"> <label text="ICAM1"/> <clone/> <bbox w="80.0" h="50.0" x="14650.0" y="1790.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa2_wnc1_wnc1_csa2" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:G_alpha__sub_13q_endsub_*:G_beta_*:G_gamma_*:PAR1*</p> <p>References:</p> <p>s_wnc1_re7(MAP:survival):</p> <p>PAR1 is activated by cleavage of exodomain at Arg41-Ser42</p> <p>PMID:14652070</p> <p>PAR1 can be activated by MMP1</p> <p>PMID:15707890</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="25.0" h="25.0" x="14791.561" y="17789.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa22_wnc1_wnc1_sa22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα13q*"/> <bbox w="50.0" h="20.0" x="14780.561" y="17772.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa23_wnc1_wnc1_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="14830.561" y="17772.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa24_wnc1_wnc1_sa24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="14871.561" y="17772.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa12_wnc1_wnc1_sa12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>coagulation factor II (thrombin) receptor</p> <p>HUGO:F2R HGNC:3537 ENTREZ:2149 UNIPROT:P25116 GENECARDS:F2R REACTOME:61310 KEGG:2149 ATLASONC:GC_F2R WIKI:F2R</p> <p>Map modules:</p> </body> </html> </notes> <label text="PAR1*"/> <bbox w="80.0" h="50.0" x="14804.061" y="17723.5"/> <glyph class="unit of information" id="_5bec08a7-43d1-4216-902f-3c223006ff44"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14821.561" y="17718.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa267_akt1_akt2_sa267" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa267_akt1_akt2_sa267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="13393.561" y="20414.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa94_ce_sa94" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa94_ce_sa94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="11545.27" y="11428.0"/> <glyph class="state variable" id="_5296886f-9972-4d97-ba05-88c83b6f62cd"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="11606.629" y="11423.0"/> </glyph> <glyph class="state variable" id="_4d0794ff-b681-4dd3-a388-714dca1814ee"> <state value="" variable="T179"/> <bbox w="30.0" h="10.0" x="11548.918" y="11423.0"/> </glyph> <glyph class="state variable" id="_fa3bf65e-e700-495c-b9f8-3c20411ae23f"> <state value="" variable="S185"/> <bbox w="30.0" h="10.0" x="11564.135" y="11423.0"/> </glyph> <glyph class="state variable" id="_1464df56-a7c2-4998-96fa-fe553f949524"> <state value="" variable="S181"/> <bbox w="30.0" h="10.0" x="11581.238" y="11423.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa802_emtc_em_sa802" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa802_emtc_em_sa802"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP13"/> <bbox w="40.0" h="20.0" x="1581.0" y="18858.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa98_ad_csa98" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> </body> </html> </notes> <label text="ad_s2447"/> <bbox w="100.0" h="120.0" x="28236.0" y="6475.0"/> <glyph class="macromolecule" id="s_id_ad_sa850_ad_sa850"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:REL</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.</p> <p>PMID:10221648</p> <p>c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.</p> <p>The IL-2Rα promoter contains an NF-κB/Rel regulatory element. </p> <p>Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.</p> <p>PMID:15079071 </p> </body> </html> </notes> <label text="cREL*"/> <bbox w="80.0" h="40.0" x="28246.0" y="6485.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa851_ad_sa851"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="82.0" h="46.0" x="28246.0" y="6529.0"/> <glyph class="unit of information" id="_c30b8607-d7ed-4b89-bcdf-b23d4254ffae"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28262.0" y="6524.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa219_ad_sa219" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22264927</p> <p>CD200 has a short intracellular tail devoid of any known signaling motifs and functions as a ligand for CD200R</p> <p>CD200-positive chronic lymphocytic leukemia (CLL) cells suppress pro-inflammatory cytokine production and tumor cell lysis in mixed lymphocyte cultures, which can be reversed by blocking CD200 antibodies [28,35,36••]. Similarly, CD200 blocking antibodies increase IL-2 and IFNγ production in allogeneic mixed lymphocyte reactions of T cells and dendritic cells (DCs) with melanoma and ovarian cancer cell lines [30]. Knock down of CD200 in melanoma cells also results in enhanced T cell responses in vitro [37,38].</p> <p>Of note, all these studies are based on mixed lymphocyte cultures and it is difficult to dissect if the inhibition is direct or through antigen presenting cells. Indirect inhibition of T cells by CD200R was initially shown in antigen-specific T cell stimulations in vitro, where CD200R-block on monocytes but not on T cells was essential for inhibition [39]. These results were reproduced in a tumor model where CD200-expressing plasmacytoma cells are unable to inhibit cytotoxic T lymphocytes activity directly, but influence T cell function by changing the cytokine profile of tumor associated macrophages</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa219_ad_sa219"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD200R1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22264927"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD200R1"/> <clone/> <bbox w="80.0" h="50.0" x="26386.0" y="2465.0"/> <glyph class="unit of information" id="_81792292-6020-443b-9ccd-b48454397690"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26403.5" y="2460.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa219_ad_sa220" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22264927</p> <p>CD200 has a short intracellular tail devoid of any known signaling motifs and functions as a ligand for CD200R</p> <p>CD200-positive chronic lymphocytic leukemia (CLL) cells suppress pro-inflammatory cytokine production and tumor cell lysis in mixed lymphocyte cultures, which can be reversed by blocking CD200 antibodies [28,35,36••]. Similarly, CD200 blocking antibodies increase IL-2 and IFNγ production in allogeneic mixed lymphocyte reactions of T cells and dendritic cells (DCs) with melanoma and ovarian cancer cell lines [30]. Knock down of CD200 in melanoma cells also results in enhanced T cell responses in vitro [37,38].</p> <p>Of note, all these studies are based on mixed lymphocyte cultures and it is difficult to dissect if the inhibition is direct or through antigen presenting cells. Indirect inhibition of T cells by CD200R was initially shown in antigen-specific T cell stimulations in vitro, where CD200R-block on monocytes but not on T cells was essential for inhibition [39]. These results were reproduced in a tumor model where CD200-expressing plasmacytoma cells are unable to inhibit cytotoxic T lymphocytes activity directly, but influence T cell function by changing the cytokine profile of tumor associated macrophages</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa219_ad_sa220"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD200R1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22264927"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD200R1"/> <clone/> <bbox w="80.0" h="50.0" x="26386.0" y="2565.0"/> <glyph class="unit of information" id="_a01b8d04-79b8-4a06-81e9-c34df82ae93e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26403.5" y="2560.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa277_emtc_em_sa277" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa277_emtc_em_sa277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA8"/> <bbox w="60.0" h="20.0" x="4412.885" y="17722.5"/> <glyph class="unit of information" id="_c345cd15-deb3-4a64-bf41-52f93a365303"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4432.885" y="17717.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ce_sa24_ce_sa24" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:BER</p> </body> </html> </notes> <label text="3'ddR5P"/> <bbox w="70.0" h="25.0" x="9082.27" y="16315.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1956_rc_sa1956" compartmentRef="s_id_rc_ca4_rc_ca2"> <label text="ROS"/> <bbox w="70.0" h="25.0" x="19062.81" y="13509.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1249_ad_sa1249" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD4</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:15811952</p> <p>Crtam Assembles a Scrib-Containing Complex that</p> <p>Controls T Cell Polarity 12 hr after TCR Activation</p> <p>. 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y="3990.0"/> <glyph class="macromolecule" id="s_id_ca_sa1164_ca_sa1164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>laminin subunit beta 1</p> <p>HUGO:LAMB1 hgnc_id:HGNC:6486 HGNC:6486 ENTREZ:3912 UNIPROT:P07942 </p> <p>laminin subunit beta 2</p> <p>HUGO:LAMB2 hgnc_id:HGNC:6487 HGNC:6487 ENTREZ:3913 UNIPROT:P55268 </p> <p>laminin subunit beta 3</p> <p>HUGO:LAMB3 hgnc_id:HGNC:6490 HGNC:6490 ENTREZ:3914 UNIPROT:Q13751 </p> <p>laminin subunit beta 4</p> <p>HUGO:LAMB4 hgnc_id:HGNC:6491 HGNC:6491 ENTREZ:22798 UNIPROT:A4D0S4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MATRIX_REGULATION MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:26519775 </p> <p>a3b1 integrin is a Laminin receptor</p> <p>PMID:16572188 </p> <p>Fibroblasts synthesize many of the constituents of the fibrillar ECM such as type I (genes COL1A1, COL1A2), type III (COL3A1) and type V collagen (COL5A1, COL5A2, COL5A3), and fibronectin.</p> <p>They also contribute to the formation of basement membranes by secreting type IV collagen (COL4A1, COL4A2, COL4A3, COL4A4, COL4A5, COL4A6) and laminin.</p> </body> </html> </notes> <label text="LAMB*"/> <bbox w="80.0" h="40.0" x="5305.0" y="4030.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1165_ca_sa1165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>laminin subunit gamma 1</p> <p>HUGO:LAMC1 hgnc_id:HGNC:6492 HGNC:6492 ENTREZ:3915 UNIPROT:P11047 </p> <p>laminin subunit gamma 2</p> <p>HUGO:LAMC2 hgnc_id:HGNC:6493 HGNC:6493 ENTREZ:3918 UNIPROT:Q13753 </p> <p>laminin subunit gamma 3</p> <p>HUGO:LAMC3 hgnc_id:HGNC:6494 HGNC:6494 ENTREZ:10319 UNIPROT:Q9Y6N6</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF MODULE:MATRIX_REGULATION </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:26519775 </p> <p>a3b1 integrin is a Laminin receptor</p> <p>PMID:16572188 </p> <p>Fibroblasts synthesize many of the constituents of the fibrillar ECM such as type I (genes COL1A1, COL1A2), type III (COL3A1) and type V collagen (COL5A1, COL5A2, COL5A3), and fibronectin.</p> <p>They also contribute to the formation of basement membranes by secreting type IV collagen (COL4A1, COL4A2, COL4A3, COL4A4, COL4A5, COL4A6) and laminin.</p> </body> </html> </notes> <label text="LAMC*"/> <bbox w="80.0" h="40.0" x="5305.0" y="4070.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1163_ca_sa1163"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>laminin subunit alpha 1</p> <p>HUGO:LAMA1 hgnc_id:HGNC:6481 HGNC:6481 ENTREZ:284217 UNIPROT:P25391 </p> <p>laminin subunit alpha 2</p> <p>HUGO:LAMA2 hgnc_id:HGNC:6482 HGNC:6482 ENTREZ:3908 UNIPROT:P24043 </p> <p>laminin subunit alpha 3</p> <p>HUGO:LAMA3 hgnc_id:HGNC:6483 HGNC:6483 ENTREZ:3909 UNIPROT:Q16787 </p> <p>laminin subunit alpha 4</p> <p>HUGO:LAMA4 hgnc_id:HGNC:6484 HGNC:6484 ENTREZ:3910 UNIPROT:Q16363 </p> <p>laminin subunit alpha 5</p> <p>HUGO:LAMA5 hgnc_id:HGNC:6485 HGNC:6485 ENTREZ:3911 UNIPROT:O15230</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:26519775 </p> <p>a3b1 integrin is a Laminin receptor</p> <p>PMID:16572188 </p> <p>Fibroblasts synthesize many of the constituents of the fibrillar ECM such as type I (genes COL1A1, COL1A2), type III (COL3A1) and type V collagen (COL5A1, COL5A2, COL5A3), and fibronectin.</p> <p>They also contribute to the formation of basement membranes by secreting type IV collagen (COL4A1, COL4A2, COL4A3, COL4A4, COL4A5, COL4A6) and laminin.</p> </body> </html> </notes> <label text="LAMA*"/> <bbox w="80.0" h="40.0" x="5305.0" y="4000.0"/> </glyph> </glyph> <glyph 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<glyph class="macromolecule" id="s_id_in_sa2385_in_sa2385" compartmentRef="s_id_in_ca47_in_ca47"> <label text="MRC2"/> <bbox w="80.0" h="40.0" x="10328.75" y="645.625"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa354_in_sa354" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR34A"/> <bbox w="90.0" h="25.0" x="20957.5" y="460.0"/> <glyph class="unit of information" id="_97d2f938-cc38-41dc-8293-09dea321ef7c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20987.5" y="455.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc1_sa173_wnc1_wnc1_sa173" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="cAMP"/> <bbox w="70.0" h="25.0" x="16670.06" y="18154.5"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa1115_in_sa1115" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1115_in_sa1115"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19372727"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19732719"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="O2-"/> <bbox w="70.0" h="25.0" x="14055.594" y="6942.4375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa153_ce_sa153" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0HR:DNA:st2Resected DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0HR:DNA:st2Resected DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:HR </body> </html> </notes> <label text="HR_DNA_st2*"/> <bbox w="120.0" h="26.0" x="14074.832" y="15468.975"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa143_wca1_wca3_sa143" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa143_wca1_wca3_sa143"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB2"/> <bbox w="80.0" h="40.0" x="21324.06" y="21426.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa631_rc_sa631" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa631_rc_sa631"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPI"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPI"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPI"/> <bbox w="70.0" h="25.0" x="22887.56" y="16271.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa702_mpk1_mpk1_sa702" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa702_mpk1_mpk1_sa702"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="50.0" h="25.0" x="7598.06" y="20414.5"/> <glyph class="state variable" id="_f88be284-ab9c-4ee9-9af3-b1429cecfbb0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7643.06" y="20422.252"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa702_mo_sa97" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa702_mo_sa97"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p21CIP1*"/> <clone/> <bbox w="80.0" h="40.0" x="3306.5" y="10332.0"/> <glyph class="state variable" id="_8abc613c-4946-4e98-bb63-bf5c3f4886da"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3381.5" y="10347.401"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa52_akt1_akt1_csa52" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:p27KIP1*</p> <p>References:</p> <p>s_akt1_re97:(MAP:survival) PMID:19887899</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa52_akt1_akt1_csa52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19887899"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:p27KIP1*"/> <bbox w="100.0" h="120.0" x="12976.061" y="18586.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa309_akt1_akt1_sa309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="12985.561" y="18646.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa310_akt1_akt1_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27 Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527 GENECARDS:CDKN1B REACTOME:198633 KEGG:1027 ATLASONC:CDKN1BID116 WIKI:CDKN1B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="12984.561" y="18602.0"/> <glyph class="state variable" id="_9206d7a3-5ad3-4143-b170-b9391b9ad164"> 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a1b1*_a2b1*"/> <bbox w="88.0" h="22.0" x="4072.0" y="18712.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa464_in_sa464" compartmentRef="s_id_in_ca13_in_ca13"> <label text="SH2D1A"/> <bbox w="80.0" h="40.0" x="21715.0" y="1710.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1335_in_sa1335" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCL18"/> <bbox w="80.0" h="40.0" x="14440.0" y="2435.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa212_rc_csa212" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2L11:MCL1</p> </body> </html> </notes> <label text="BCL2L11:MCL1"/> <bbox w="98.0" h="122.0" x="21711.31" y="13707.0"/> <glyph class="macromolecule" id="s_id_rc_sa1669_rc_sa1669"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>synonym:BIM</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="80.0" h="40.0" x="21720.06" y="13723.0"/> <glyph class="state variable" id="_9e0e1df0-dd13-4345-85e8-268ee81c1c75"> <state value="" variable="S58"/> <bbox w="25.0" h="10.0" x="21787.56" y="13718.216"/> </glyph> <glyph class="state variable" id="_14cb8f24-dfbc-4459-a915-ad6e30cd5a15"> <state value="" variable="S44"/> <bbox w="25.0" h="10.0" x="21708.053" y="13718.0"/> </glyph> <glyph class="state 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id="s_id_akt1_akt2_sa213_akt1_akt2_sa213" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa213_akt1_akt2_sa213"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO4"/> <bbox w="80.0" h="40.0" x="11873.561" y="21014.0"/> <glyph class="state variable" id="_4120bc2d-2895-4555-b68a-5136847fa979"> <state value="" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="12441.811" y="21432.0"/> <glyph class="state variable" id="_be14107f-2cac-4c2b-aa23-27aa75e27d18"> <state value="P" variable="T24"/> <bbox w="30.0" h="10.0" x="12427.303" y="21427.0"/> </glyph> <glyph class="state variable" id="_b28564e6-535f-4879-8dc3-5c58ffe12e44"> <state value="P" variable="S319"/> <bbox w="35.0" h="10.0" x="12504.311" y="21427.0"/> </glyph> <glyph class="state variable" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFB, CASCADE:PDGFPMID:25732824 the expression of ALT2 (GPT2) was significantly increased in induced CAFs (Figure 4C), suggesting that the slight elevation of α-KG is likely through the glutamate pathway by feedback upregulation of ALT2 in CAFs and fibroblasts with IDH3α knockdown.ALT2 is upregulated downstream of TGFB and PDGF. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFB, CASCADE:PDGFPMID:25732824 the expression of ALT2 (GPT2) was significantly increased in induced CAFs (Figure 4C), suggesting that the slight elevation of α-KG is likely through the glutamate pathway by feedback upregulation of ALT2 in CAFs and fibroblasts with IDH3α knockdown.ALT2 is upregulated downstream of TGFB and PDGF. </body> </html> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="80.0" h="40.0" x="10760.0" y="3360.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa281_emtc_em_csa281" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR141:SMAD2_TGFBR1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20498632</p> <p>PMID:22753312</p> <p>direct regulation of TGFBR1 by miR-141</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>direct regulation of ZEB2 by miR-30e</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGFBR1_SMAD2*</p> <p>transforming growth factor, beta receptor 1</p> <p>HUGO:TGFBR1, HGNC:11772, ENTREZ:7046, UNIPROT:P36897, GENECARDS:GC09P101867</p> <p>SMAD family member 2</p> <p>"MAD, mothers against decapentaplegic homolog 2 (Drosophila)", MADH2, "SMAD, mothers against DPP homolog 2 (Drosophila)"</p> <p>HUGO:SMAD2 HGNC:6768 ENTREZ:4087 UNIPROT:Q15796</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20498632</p> <p>PMID:22753312</p> <p>direct regulation of TGFBR1 by miR-141</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>direct regulation of ZEB2 by miR-30e</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2_TGFBR1*"/> <bbox w="130.0" h="20.0" x="3662.5" y="17834.5"/> <glyph class="unit of information" id="_21c1bb28-4691-4dc7-a763-a00a38dbba09"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3717.5" 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x="27772.967" y="13839.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa72_ca_csa72" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:GTP:RHOA</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:LIF, CASCADE:TGFB, CASCADE:EGF, CASCADE:CXCL12, CASCADE:CAV</p> <p>PMID:18037882</p> <p>Rho–ROCK function is required in leading fibroblasts probably downstream of integrins a5b1</p> <p>PMID:24857661 </p> <p>siRNA-mediated knockdown of RhoA expression or pharmacological inhibition of Rho-kinase (ROCK) activity resulted in blockade of both TGF-β1 and LIF-dependent proinvasive hDF activity (Figures S2B and S2C). Long-term stimulation of both TGF-β and LIF cytokines also upregulated RhoA small GTPase and myosin light chain 2 (MLC2) proteins, leading to an increase in MLC2 phosphorylation at ser19, which attests for an increased activity</p> <p>PMID:18423981 </p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>EGF down-regulated Rho-GTP levels in fibroblasts, giving permissive signals for Rac1 activation, fibroblast polarization, and invasion.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa72_ca_csa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18037882"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24857661"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18423981"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHOA:GTP"/> <bbox w="100.0" h="120.0" x="6600.0" y="3034.0"/> <glyph class="simple chemical" id="s_id_ca_sa638_ca_sa638"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="6615.0" y="3091.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa637_ca_sa637"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>HUGO:RHOA hgnc_id:HGNC:667 HGNC:667 ENTREZ:387 UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:LIF, CASCADE:TGFB, CASCADE:EGF, CASCADE:CXCL12, CASCADE:CAV</p> <p>PMID:18037882</p> <p>Rho–ROCK function is required in leading fibroblasts probably downstream of integrins a5b1 and a3b1</p> <p>More detailed analysis of Rho isoforms revealed that RhoA, but not RhoB, is required for fibroblasts to promote SCC invasion</p> <p>PMID:24857661 </p> <p>siRNA-mediated knockdown of RhoA expression or pharmacological inhibition of Rho-kinase (ROCK) activity resulted in blockade of both TGF-β1 and LIF-dependent proinvasive hDF activity (Figures S2B and S2C). Long-term stimulation of both TGF-β and LIF cytokines also upregulated RhoA small GTPase and myosin light chain 2 (MLC2) proteins, leading to an increase in MLC2 phosphorylation at ser19, which attests for an increased activity</p> <p>PMID:18423981 </p> <p>TGF-β induced a strong activation of RhoA and stress fiber formation in fibroblasts,</p> <p>EGF down-regulated Rho-GTP levels in fibroblasts, giving permissive signals for Rac1 activation, fibroblast polarization, and invasion.</p> <p>PMID:21178402</p> <p> RhoA was thought to be activated mainly at the retracting tail (red) to promote tail contraction, while Rac1 was thought to be activated at the front of the cell to promote lamellipodial protrusion.</p> <p>PMID:17517963 </p> <p>caveolin-deficient MEFs showed a notable decrease in basal Rho activity and a significant increase in Rac and Cdc42 activity</p> <p>PMID:20535745 </p> <p>CXCR4 receptor and CXCL12 both are expressed in fibroblasts and probably provides positive loop in fibroblast activation</p> <p>and promotes RhoA-activation aand actin polymerisation.</p> <p>Rho–ROCK function is required only in stromal fibroblasts for collective SCC invasion.</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="80.0" h="40.0" x="6611.0" y="3044.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa228_in_sa228" compartmentRef="s_id_in_ca37_in_ca37"> <label text="GZMK"/> <bbox w="80.0" h="40.0" x="16710.0" y="7560.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa104_ce_csa104" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK4_6*:INK4*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK4,6*/INK4"/> <bbox w="105.0" h="106.0" x="11125.473" y="9437.356"/> <glyph class="macromolecule" id="s_id_ce_sa755_ce_sa755"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 2A (melanoma, p16, inhibits CDK4), p16INK4A, p19ARF</p> <p>HUGO:CDKN2A, HGNC:1787, ENTREZ:1029, UNIPROT:Q8N726</p> <p>cyclin-dependent kinase inhibitor 2B (p15, inhibits CDK4), p15INK4b</p> <p>HUGO:CDKN2B, HGNC:1788, ENTREZ:1030, UNIPROT:P42772</p> <p>cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4), INK4C</p> <p>HUGO:CDKN2C, HGNC:1789, ENTREZ:1031, UNIPROT:P42773</p> <p>cyclin-dependent kinase inhibitor 2D (p19, inhibits CDK4), INK4D</p> <p>HUGO:CDKN2D, NC:1790, ENTREZ:1032, UNIPROT:P55273</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="INK4*"/> <bbox w="80.0" h="40.0" x="11135.473" y="9442.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa754_ce_sa754"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4, HGNC:1773, ENTREZ:1019, UNIPROT:P11802</p> <p>Cyclin-dependent kinase 6</p> <p>HUGO:CDK6, HGNC:1777, ENTREZ:1021, UNIPROT:Q00534</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:20068082, PMID:16236519, PMID:18590585, PMID:19075565, PMID:18786381, PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="11136.473" y="9482.856"/> <glyph class="state variable" id="_8e58b8fe-32f7-4493-8a0c-b1f7b4656cfb"> <state value="" variable="T172"/> <bbox w="30.0" h="10.0" x="11121.473" y="9497.856"/> </glyph> <glyph class="state variable" id="_ea240296-c1d2-47f6-8ea2-2692370b2463"> <state value="" variable="Y14"/> <bbox w="25.0" h="10.0" 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</html> </notes> <label text="PtdSer"/> <bbox w="70.0" h="25.0" x="15975.0" y="1137.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2177_in_sa2177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PROS1"/> <bbox w="80.0" h="40.0" x="15970.0" y="1080.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa60_ca_csa60" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA2:ITGB1</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:9456329;PMID:11112697 </p> <p>Fibroblasts express the α1β1, α2β1 and α11β1 collagen-binding integrins</p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor</p> <p>PMID:25100717 </p> <p>Probably colagen signaling activates NFkB via ILK</p> <p>ILK is involved in an alternative activation of NF-κB signaling by modulating the phosphorylation of p65 at Ser-536 (Cre-mediated ILK deletion in ilkfl/fl MEFs demonstrates that LPS-induced p65 Ser-536 phosphorylation was inhibited by ILK deficiency). </p> <p>PMID:11112697 </p> <p>Collagen signaking together with TNF induses MMP14 expression and MMP2 activation in fibroblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa60_ca_csa60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9456329"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25100717"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4295"/> <clone/> <bbox w="100.0" h="120.0" x="6510.0" y="1790.0"/> <glyph class="macromolecule" id="s_id_ca_sa567_ca_sa567"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="6520.0" y="1840.0"/> <glyph class="unit of information" id="_a7a245e0-fd39-4a0a-b2f1-a8138910baa3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6537.5" y="1835.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa566_ca_sa566"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 2</p> <p>HUGO:ITGA2 hgnc_id:HGNC:6137 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor</p> </body> </html> </notes> <label text="ITGA2"/> <clone/> <bbox w="80.0" h="40.0" x="6520.0" y="1800.0"/> <glyph class="unit of information" id="_14d25077-97af-43e4-bcf0-e467e5222046"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6537.5" y="1795.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa60_ca_csa61" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA2:ITGB1</p> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:9456329;PMID:11112697 </p> <p>Fibroblasts express the α1β1, α2β1 and α11β1 collagen-binding integrins</p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor</p> <p>PMID:25100717 </p> <p>Probably colagen signaling activates NFkB via ILK</p> <p>ILK is involved in an alternative activation of NF-κB signaling by modulating the phosphorylation of p65 at Ser-536 (Cre-mediated ILK deletion in ilkfl/fl MEFs demonstrates that LPS-induced p65 Ser-536 phosphorylation was inhibited by ILK deficiency). </p> <p>PMID:11112697 </p> <p>Collagen signaking together with TNF induses MMP14 expression and MMP2 activation in fibroblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa60_ca_csa61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9456329"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25100717"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4295"/> <clone/> <bbox w="100.0" h="120.0" x="6490.0" y="2020.0"/> <glyph class="macromolecule" id="s_id_ca_sa566_ca_sa570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit alpha 2</p> <p>HUGO:ITGA2 hgnc_id:HGNC:6137 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor</p> </body> </html> </notes> <label text="ITGA2"/> <clone/> <bbox w="80.0" h="40.0" x="6500.0" y="2040.0"/> <glyph class="unit of information" id="_5830374e-4203-48eb-af50-2671727eb39b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6517.5" y="2035.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa567_ca_sa571"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin subunit beta 1</p> <p>HUGO:ITGB1 hgnc_id:HGNC:6153 HGNC:6153 ENTREZ:3688 UNIPROT:P05556</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN, CASCADE:PLAU</p> <p>PMID:9456329;PMID:11112697 </p> <p>Integrin α2β1 is a heterodimeric adhesive protein receptor belonging to the β1 subfamily. It serves as a collagen receptor on fibroblasts and platelets and additionally as a laminin receptor on epithelial and endothelial cells</p> <p>Collagen signaling nduces NF-κB Activity in fibroblasts probably via this receptor.</p> <p>PMID:22470492 </p> <p> Treatment with αvβ5 blocking antibody reduces integrin β1/matrix binding.</p> <p>increase in β5 cell-surface levels after uPA-silencing promotes β1-mediated cell attachment that correlates with a decrease in integrin β1 activity.</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="6500.0" y="2090.0"/> <glyph class="unit of information" id="_2783f89d-7f2b-44a2-8fc0-2e8f34b7d035"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6517.5" y="2085.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa17_wnc1_wnc2_csa17" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO1:PPP3CB_sub_trunc_endsub_*:PPP3R*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa17_wnc1_wnc2_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1:PPP3CBtrunc*:PPP3R*"/> <bbox w="103.0" h="175.0" x="18314.81" y="19206.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa80_wnc1_wnc2_sa80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="18327.56" y="19306.5"/> <glyph class="state variable" id="_be97d7ef-ad68-4d9c-a19b-a256453fa999"> <state value="P" variable="T24"/> <bbox w="30.0" h="10.0" x="18313.053" y="19301.5"/> </glyph> <glyph class="state variable" id="_51687c7e-cd9c-4d3c-81d9-074b4feebfac"> <state value="P" variable="S319"/> <bbox w="35.0" h="10.0" x="18390.06" y="19301.713"/> </glyph> <glyph class="state variable" id="_d45986a2-9b43-42db-9013-1b432f661328"> <state value="" variable="S329"/> <bbox w="30.0" h="10.0" x="18312.56" y="19341.22"/> </glyph> <glyph class="state variable" id="_b3836781-b6ab-4dce-b3a5-0a9349ed89e6"> <state value="" variable="S325"/> <bbox w="30.0" h="10.0" x="18352.465" y="19341.5"/> </glyph> <glyph class="state variable" id="_e7ac8414-7960-420b-be60-4a573f6c27b8"> <state value="" variable="S322"/> <bbox w="30.0" h="10.0" x="18391.941" y="19341.5"/> </glyph> <glyph class="state variable" id="_ff9afcca-ad89-44aa-ba01-be260773a466"> <state value="" variable="S256"/> <bbox w="30.0" h="10.0" x="18352.592" y="19301.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa78_wnc1_wnc2_sa78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="18324.81" y="19215.5"/> <glyph class="unit of information" id="_a094cdde-31d6-4321-ad9e-ff985ab6f735"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18339.81" y="19210.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa79_wnc1_wnc2_sa79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4404_rc_sa4404"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG9B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG9B"/> <bbox w="80.0" h="40.0" x="28612.56" y="11213.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa363_rc_sa363" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa363_rc_sa363"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TXNRD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TXNRD2"/> <bbox w="80.0" h="40.0" x="20189.31" y="14491.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4477_rc_sa4477" compartmentRef="s_id_rc_ca31_rc_ca31"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4477_rc_sa4477"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved ATG3*"/> <bbox w="80.0" h="40.0" x="28558.56" y="11849.5"/> <glyph class="unit of information" id="_9c8c330e-a1cd-4f3a-bbad-939df1f5ad36"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28573.56" y="11844.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa68_wnc1_wnc4_sa68" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa68_wnc1_wnc4_sa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <bbox w="80.0" h="40.0" x="18285.31" y="22036.0"/> <glyph class="state variable" id="_c168e3ac-bd8b-4c94-9a48-2c94407553ae"> <state value="" variable="S62"/> <bbox w="25.0" h="10.0" x="18273.303" y="22031.0"/> </glyph> <glyph class="state variable" id="_2d847a3f-7860-4b81-8554-20ec860888ca"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="18352.81" y="22031.213"/> </glyph> <glyph class="state variable" id="_8a6117c1-9af7-4506-a916-5f76801ddc37"> <state value="P" variable="T58"/> <bbox w="30.0" h="10.0" x="18270.31" y="22070.72"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa169_ca_sa169" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:PLAUPMID:27216177FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.STAT3 inducec CLL2 expression downstream of this signaling. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:CASCADE:PLAUPMID:27216177FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.STAT3 inducec CLL2 expression downstream of this signaling. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa169_ca_sa169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27216177"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27216177"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL2"/> <bbox w="90.0" h="25.0" x="1085.0" y="3517.0"/> <glyph class="unit of information" id="_669cd9d9-201a-40f3-9052-c45babf6af3b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1120.0" y="3512.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa413_rc_csa413" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase8,10*:FLASH*</p> <p>References:</p> <p>22427918</p> <p>caspase-8 formed triple complex with TRAF2 and FLASH. Taken together, these results suggest that endogenous caspase-8 mediates TNF-alpha-induced activation of NF-kappaB via FLASH</p> </body> </html> </notes> <label text="Caspase8,10*:FLASH"/> <bbox w="140.0" h="120.0" x="25289.06" y="9529.0"/> <glyph class="macromolecule" id="s_id_rc_sa3988_rc_sa3988"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>symbol withdrawn, see </p> <p>HUGO:A2MRAP~withdrawn HGNC:10</p> <p>References:</p> <p>PMID:20531300</p> <p>PMID:16498403</p> <p>PMID:11583996</p> <p>PMID:23377657</p> <p>apoptosis signaling by death receptors involves not only caspase-8 but also caspase-10, and both caspases may have equally important roles in apoptosis initiation</p> <p>PMID:27984721</p> </body> </html> </notes> <label text="Caspase8,10*"/> <bbox w="110.0" h="40.0" x="25301.56" y="9584.0"/> <glyph class="state variable" id="_7e9632dd-4cd6-4390-bf27-a9f471afa26c"> <state 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compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CCN2*:LRP6</p> <p>References:</p> <p>s_wnc1_re47:(MAP:survival) PMID:21237163</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa28_wnc1_wnc1_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21237163"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCN2*:LRP6"/> <bbox w="100.0" h="100.0" x="17078.06" y="18243.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa183_wnc1_wnc1_sa183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="17089.06" y="18268.0"/> <glyph class="state variable" id="_b8dc65a6-549e-42e6-ae54-e0a7e1a59ae4"> <state value="" variable="S1544"/> <bbox w="35.0" h="10.0" x="17151.56" y="18263.266"/> </glyph> <glyph class="state variable" id="_ad9aad31-9f83-406f-894b-7257504c7ad2"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="17111.592" y="18263.0"/> </glyph> <glyph class="state variable" id="_ceb3eb9a-f573-4276-953e-314b493ec5ec"> <state value="" variable="T1572"/> <bbox w="35.0" h="10.0" x="17071.56" y="18287.96"/> </glyph> <glyph class="state variable" id="_b1afc99b-d164-4ea5-8e16-4371118894e4"> <state value="" variable="T1548"/> <bbox w="35.0" h="10.0" x="17151.56" y="18301.438"/> </glyph> <glyph class="unit of information" id="_79ea5983-8c5a-4311-92f2-06a19720aebe"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17106.56" y="18263.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa182_wnc1_wnc1_sa182"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>connective tissue growth factor</p> <p>HUGO:CTGF HGNC:2500 ENTREZ:1490 UNIPROT:P29279 GENECARDS:CTGF REACTOME:53030 KEGG:1490 ATLASONC:CTGFID40192ch6q23 WIKI:CTGF</p> <p>Map modules:</p> </body> </html> </notes> <label text="CCN2*"/> <bbox w="35.0" h="30.0" x="17115.31" y="18248.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa127_te_sa127" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>exonuclease 1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa127_te_sa127"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EXO1"/> <bbox w="80.0" h="40.0" x="2411.06" y="21880.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa100_emtc_em_sa100" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa100_emtc_em_sa100"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Desmoplakin*"/> <bbox w="100.0" h="20.0" x="2133.0" y="17248.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa955_ad_sa955" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:17462996</p> <p>Following TCR ligation, a small portion of total cellular caspase-8 and c-FLIP(L) rapidly migrate to lipid rafts where they associate in an active caspase complex. Activation of caspase-8 in lipid rafts is followed by rapid cleavage of c-FLIP(L) at a known caspase-8 cleavage site. The active caspase.c-FLIP complex forms in the absence of Fas (CD95/APO1) and associates with the NF-kappaB signaling molecules RIP1, TRAF2, and TRAF6, as well as upstream NF-kappaB regulators PKC theta, CARMA1, Bcl-10, and MALT1, which connect to the TCR.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa955_ad_sa955"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RALBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17462996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RALBP1"/> <bbox w="80.0" h="40.0" x="29026.0" y="4515.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa27_ce_csa27" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MBD4:MLH1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:MMR</p> <p>References:</p> <p>BER and MMR interaction and G2/M arrest in response to o6-meG formation</p> <p>14614141</p> </body> </html> </notes> <label text="MBD4/MLH1"/> <bbox w="100.0" h="120.0" x="10492.473" y="15571.356"/> <glyph class="macromolecule" id="s_id_ce_sa493_ce_sa493"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>methyl-CpG binding domain protein 4</p> <p>HUGO:MBD4, HGNC:6919, ENTREZ:8930, UNIPROT:O95243</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:MMR</p> <p>References:</p> <p>PMID:10545939, PMID:12417741, PMID:15703371, PMID:19847258, PMID:16697054</p> </body> </html> </notes> <label text="MBD4"/> <bbox w="80.0" h="40.0" x="10503.359" y="15580.823"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa492_ce_sa492"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)</p> <p>HUGO:MLH1, HGNC:7127, ENTREZ:4292, UNIPROT:P40692</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MLH1"/> <bbox w="80.0" h="40.0" x="10502.359" 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</notes> <label text="dihydroorotate"/> <bbox w="70.0" h="25.0" x="18138.31" y="13331.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa374_in_sa374" compartmentRef="s_id_in_ca47_in_ca47"> <label text="p53*"/> <bbox w="80.0" h="40.0" x="21020.0" y="210.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa146_emtc_em_csa146" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BMI1:Cyclin D1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MIR34A/BMI1"/> <bbox w="80.0" h="60.0" x="3799.5" y="18245.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa786_emtc_em_sa786"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> 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proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. 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id="_9a5a976c-6d44-432c-b9fd-e009b3938db8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7701.8296" y="20396.924"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1224_ad_sa1224" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTS PMID:21623380 T-bet directly repressed transcription of the gene encoding PD-1 and resulted in lower expression of other inhibitory receptors.Increased T-bet expression using the retroviral overexpression approach in P14 cells increased KLRG-1 expression (Fig. 8c), but repressed Lag-3, CD160, and BTLA along with PD-1 during chronic LCMV infection </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1224_ad_sa1224"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21623380"/> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4341_rc_sa4341"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP1LC3A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LC3*"/> <bbox w="80.0" h="40.0" x="28540.81" y="11547.583"/> <glyph class="state variable" id="_93153297-8c36-4f3d-bbed-1eff6f327ca3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28615.81" y="11554.298"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2041_em_sa2041" compartmentRef="s_id_em_ca11_em_ca11"> <extension> <annotation xmlns="" 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR family*"/> <bbox w="90.0" h="55.0" x="1200.0" y="13572.0"/> <glyph class="state variable" id="_db04c65f-d3ad-43ff-9db7-e3177ac3fa11"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1239.1357" y="13567.0"/> </glyph> <glyph class="unit of information" id="_23269600-5bdd-4b55-9618-fee4029b6afe"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1222.5" y="13567.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2623_rc_sa2623" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15428 CAS:56-40-6</p> <p>References:</p> <p>COMPOUND:C00037</p> </body> </html> </notes> <label text="glycine"/> <bbox w="70.0" h="25.0" x="26552.06" y="9609.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa356_emtc_em_csa356" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Fibronectin partners*:Fibronectin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Fibronectin/Fibronectin partners)"/> <bbox w="193.0" h="64.0" x="5780.0" y="18902.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2501_emtc_em_sa2501"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fibronectin partners</p> <p>NAME:a5b1*</p> <p>ITGA5/ITGB1</p> <p>integrin, alpha 5 (fibronectin receptor, alpha polypeptide)</p> <p>HUGO:ITGA5, HGNC:6141, ENTREZ:3678, UNIPROT:P08648, GENECARDS:GC12M054789</p> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>NAME:aVb3*</p> <p>ITGAV/ITGB3</p> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)</p> <p>GP3A</p> <p>HUGO:ITGB3 HGNC:6156 ENTREZ:3690 UNIPROT:P05106 GENECARDS:GC17P045331</p> <p>integrin, alpha 2b (platelet glycoprotein IIb of IIb/IIIa complex, antigen CD41)</p> <p>GP2B, "integrin, alpha 2b (platelet glycoprotein IIb of IIb/IIIa complex, antigen CD41B)"</p> <p>HUGO:ITGA2B HGNC:6138 ENTREZ:3674 UNIPROT:P08514</p> <p>NAME:a2b1*</p> <p>ITGA2/ITGB1</p> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>NAME:a10b1*</p> <p>ITGA10/ITGB1</p> <p>integrin, alpha 10</p> <p>HUGO:ITGA10 HGNC:6135 ENTREZ:8515 UNIPROT:O75578</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Fibronectin partners*"/> <bbox w="135.0" h="19.0" x="5816.5" y="18928.766"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2500_emtc_em_sa2500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>fibronectin 1</p> <p>HUGO:FN1, HGNC:3778, ENTREZ:2335, UNIPROT:P02751, GENECARDS:GC02M216225</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS, MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:2409071</p> <p>Fibronectin is located on the apical and basal cell surfaces.</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> </body> </html> </notes> <label text="Fibronectin*"/> <bbox w="72.0" h="20.0" x="5846.0" y="18906.234"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3384_rc_sa3384" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3384_rc_sa3384"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:G6PD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="G6PD"/> <bbox w="86.0" h="46.0" x="18186.06" y="9856.0"/> <glyph class="unit of information" id="_3d21c48b-7531-4b0b-9611-906cde64c16c"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18219.06" y="9851.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa357_emtc_em_csa357" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Talin partners*:Talin*</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(Talin/Talin partners)"/> <bbox w="129.0" h="62.0" x="5435.0" y="18093.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2504_emtc_em_sa2504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Talin*</p> <p>talin 1</p> <p>HUGO:TLN1 HGNC:11845 ENTREZ:7094 UNIPROT:Q9Y490 </p> <p>talin 2</p> <p>HUGO:TLN2 HGNC:15447 ENTREZ:83660 UNIPROT:Q9Y4G6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Talin*"/> <bbox w="39.0" h="16.0" x="5463.5" y="18097.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2503_emtc_em_sa2503"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:FERMT1 HUGO:FERMT2 HUGO:FERMT3 </p> <p>Map modules:</p> <p>References:</p> <p> </p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Talin partners*"/> <bbox w="97.0" h="19.0" x="5437.5" y="18116.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa198_ce_sa198" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa198_ce_sa198"> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD3*"/> <bbox w="60.0" h="20.0" x="3175.0" y="14083.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa190_ad_sa190" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:CD4</p> <p>CELL:TREG</p> <p>MODULE:SMAC, MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:22116087 </p> <p>CTLA4 has been reported to recruit phosphatases — such as protein phosphatase 2A (PP2A)72,73 and SYP (also known as PTPN11)74 — and to decrease the phosphorylation of several key proteins in the TCR signalling cascade, including CD3ζ and linker for activation of T cells (LAT).</p> <p>PMID:16227604</p> <p>similarly constructed CD3/CD28/PD-1 aAPCs inhibited T-cell expansion and IL-2 production as well as CD3/CD28/CTLA-4-coated beads. </p> <p>CTLA-4 and PD-1 ablate the effect of costimulation on glucose uptake in T lymphocytes.</p> <p>PD-1 signaling blocks CD28-mediated activation of PI3K and Akt.</p> <p>CTLA-4 ligation blocks Akt but not PI3K activation.</p> <p>PD-1 suppression of PI3K/Akt is dependent upon factors binding to the ITSM motif in its cytoplasmic tail.</p> <p>CTLA-4-mediated suppression of Akt phosphorylation is inhibited by the PP2A inhibitor okadaic acid.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAX:BCL2-XL*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa491_rc_csa491"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="27962.967" y="13679.0"/> <glyph class="state variable" id="_4aff25db-2837-4825-a1a5-67454d0cc02b"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="28009.05" y="13674.0"/> </glyph> <glyph class="state variable" id="_7ab57c2b-fa8a-407b-932e-ae2088f465e9"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="28009.287" y="13714.0"/> </glyph> 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rdf:resource="urn:miriam:hgnc.symbol:ITPR2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITPR3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITPR*"/> <bbox w="80.0" h="50.0" x="26131.56" y="13993.0"/> <glyph class="unit of information" id="_500f3377-0446-40e4-8027-2e055376ef6a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26149.06" y="13988.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa79_wnc1_wnc1_csa79" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PTEN:_beta_-Arrestin*</p> <p>References:</p> <p>s_wnc1_re152(MAP:survival):</p> <p>Binding of beta-arrestin to PTEN increases the lipid phosphatase activity of PTEN which converts PIP3 to PIP2. Active ROCK stimulates this complex formation </p> <p>PMID:21642958</p> <p>ROCK phosphorylates PTEN which is than activated. Activated PTEN reduces the concentration of PIP3</p> <p>PMID:15793569</p> <p>PMID:20008297</p> <p>s_wnc1_re154(MAP:survival):</p> <p>PTEN contains a C2-domain which inhibits cell migration. This inhibition works only when T383 is not phosphorylated </p> <p>PMID:14976311</p> <p>However, beta-arrestin can also bind PTEN in this C2-region thereby dis-inhibiting migration.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa79_wnc1_wnc1_csa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21642958"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15793569"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14976311"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN:β-Arrestin*"/> <bbox w="110.0" h="120.0" x="15199.061" y="18656.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa715_wnc1_wnc1_sa715"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin, beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>arrestin, beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2</p> <p>Map modules:</p> </body> </html> </notes> <label text="β-Arrestin*"/> <bbox w="80.0" h="40.0" x="15209.561" y="18665.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa713_wnc1_wnc1_sa713"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatase and tensin homolog</p> <p>HUGO:PTEN HGNC:9588 ENTREZ:5728 UNIPROT:P60484 GENECARDS:PTEN REACTOME:62405 KEGG:5728 ATLASONC:PTENID158 WIKI:PTEN </p> <p>phosphatase and tensin homologue</p> <p>BZS, MHAM</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:16288286</p> </body> </html> </notes> <label text="PTEN"/> <bbox w="80.0" h="40.0" x="15212.561" y="18711.0"/> <glyph class="state variable" id="_c5c7a45f-5ca8-4811-a8c6-9cd39eaeea92"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15205.064" y="18706.0"/> </glyph> <glyph class="state variable" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa119_shh1_shh2_sa119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SUFU"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="25751.06" y="21795.0"/> <glyph class="state variable" id="_1c5e845e-812d-4f16-9a33-64560cde2e4f"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="25736.553" y="21790.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa64_ca_sa64" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa64_ca_sa64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL5"/> <bbox w="80.0" h="40.0" x="1440.0" y="4050.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa278_akt1_akt1_sa278" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa278_akt1_akt1_sa278"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SGK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SGK1"/> <bbox w="80.0" h="40.0" x="12201.936" y="18369.0"/> <glyph class="state variable" id="_50db9753-a2dc-4509-86cf-faec41e66dcb"> <state value="P" variable="S442"/> <bbox w="35.0" h="10.0" x="12264.436" y="18400.28"/> </glyph> <glyph class="state variable" id="_b176344b-7a9f-4f02-b7fe-4f66af581b18"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12196.936" y="18403.72"/> </glyph> <glyph class="state variable" id="_f66b9742-8744-47b4-aab9-69c629ceb13a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12196.936" y="18374.3"/> </glyph> <glyph class="state variable" id="_c2ae1cd7-6828-4695-b95a-04121848f8ce"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12196.936" y="18384.969"/> </glyph> <glyph class="state variable" id="_e4dfcd59-afad-4512-9b2b-88f79cf19e4d"> <state value="" variable="T256"/> <bbox w="30.0" h="10.0" x="12190.471" y="18364.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa23_rc_csa23" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:FMN:MT-ND1:MT-ND2:MT-ND3:MT-ND4:MT-ND4L:MT-ND5:MT-ND6:NDUFA1:NDUFA10:NDUFA11:NDUFA12:NDUFA13:NDUFA2:NDUFA3:NDUFA4:NDUFA5:NDUFA6:NDUFA7:NDUFA8:NDUFA9:NDUFAB1:NDUFB1:NDUFB10:NDUFB11:NDUFB2:NDUFB3:NDUFB4:NDUFB5:NDUFB6:NDUFB7:NDUFB8:NDUFB9:NDUFC1:NDUFC2:NDUFS1:NDUFS2:NDUFS3:NDUFS4:NDUFS5:NDUFS6:NDUFS7:NDUFS8:NDUFV1:NDUFV2:NDUFV3</p> </body> </html> </notes> <label text="NADH dehydrogenase"/> <bbox w="434.0" h="424.0" x="18346.654" y="13472.112"/> <glyph class="macromolecule" id="s_id_rc_sa313_rc_sa313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1, alpha/beta subcomplex, 1, 8kDa</p> <p>HUGO:NDUFAB1 HGNC:7694 ENTREZ:4706 UNIPROT:O14561</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFAB1"/> <bbox w="80.0" h="40.0" x="18442.154" y="13707.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa319_rc_sa319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 7, 14.5kDa</p> <p>HUGO:NDUFA7 HGNC:7691 ENTREZ:4701 UNIPROT:O95182</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA7"/> <bbox w="80.0" h="40.0" x="18444.154" y="13665.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa294_rc_sa294"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded NADH dehydrogenase 5</p> <p>HUGO:MT-ND5 HGNC:7461 ENTREZ:4540 UNIPROT:P03915</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ND5"/> <bbox w="80.0" h="40.0" x="18696.154" y="13621.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa304_rc_sa304"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 2, 8kDa</p> <p>HUGO:NDUFB2 HGNC:7697 ENTREZ:4708 UNIPROT:O95178</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB2"/> <bbox w="80.0" h="40.0" x="18696.154" y="13578.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa290_rc_sa290"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded NADH dehydrogenase 3</p> <p>HUGO:MT-ND3 HGNC:7458 ENTREZ:4537 UNIPROT:P03897</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ND3"/> <bbox w="80.0" h="40.0" x="18532.154" y="13789.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa285_rc_sa285"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 2, 49kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS2 HGNC:7708 ENTREZ:4720 UNIPROT:O75306</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS2"/> <bbox w="80.0" h="40.0" x="18363.154" y="13747.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa326_rc_sa326"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded NADH dehydrogenase 4L</p> <p>HUGO:MT-ND4L HGNC:7460 ENTREZ:4539 UNIPROT:P03901</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ND4L"/> <bbox w="80.0" h="40.0" x="18445.154" y="13536.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa321_rc_sa321"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 6, 14kDa</p> <p>HUGO:NDUFA6 HGNC:7690 ENTREZ:4700 UNIPROT:P56556</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA6"/> <bbox w="80.0" h="40.0" x="18612.154" y="13494.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa310_rc_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 1, 7.5kDa</p> <p>HUGO:NDUFA1 HGNC:7683 ENTREZ:4694 UNIPROT:O15239</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA1"/> <bbox w="80.0" h="40.0" x="18532.154" y="13831.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa295_rc_sa295"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded NADH dehydrogenase 6</p> <p>HUGO:MT-ND6 HGNC:7462 ENTREZ:4541 UNIPROT:P03923</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ND6"/> <bbox w="80.0" h="40.0" x="18696.154" y="13705.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa287_rc_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 7, 20kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS7 HGNC:7714 ENTREZ:374291 UNIPROT:O75251</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS7"/> <bbox w="80.0" h="40.0" x="18444.154" y="13623.388"/> <glyph class="state variable" id="_4587ad29-439f-41a9-b6a2-a48290473827"> <state value="[4Fe-4S]" variable=""/> <bbox w="50.0" h="10.0" x="18459.154" y="13618.388"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa309_rc_sa309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 1, 7kDa</p> <p>HUGO:NDUFB1 HGNC:7695 ENTREZ:4707 UNIPROT:O75438</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB1"/> <bbox w="80.0" h="40.0" x="18447.154" y="13830.388"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa284_rc_sa284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17621</p> <p>KEGGCOMPOUND:C00061</p> </body> </html> </notes> <label text="FMN"/> <bbox w="70.0" h="25.0" x="18370.154" y="13856.888"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa289_rc_sa289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 3, 30kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS3 HGNC:7710 ENTREZ:4722 UNIPROT:O75489</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS3"/> <bbox w="80.0" h="40.0" x="18357.154" y="13494.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa312_rc_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 8, 19kDa</p> <p>HUGO:NDUFA8 HGNC:7692 ENTREZ:4702 UNIPROT:P51970</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA8"/> <bbox w="80.0" h="40.0" x="18697.154" y="13831.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa303_rc_sa303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) flavoprotein 3, 10kDa</p> <p>HUGO:NDUFV3 HGNC:7719 ENTREZ:4731 UNIPROT:P56181</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFV3"/> <bbox w="80.0" h="40.0" x="18611.154" y="13536.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa298_rc_sa298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 10, 42kDa</p> <p>HUGO:NDUFA10 HGNC:7684 ENTREZ:4705 UNIPROT:O95299</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA10"/> <bbox w="80.0" h="40.0" x="18613.154" y="13664.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa307_rc_sa307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 1, 6kDa</p> <p>HUGO:NDUFC1 HGNC:7705 ENTREZ:4717 UNIPROT:O43677</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFC1"/> <bbox w="80.0" h="40.0" x="18360.154" y="13708.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa308_rc_sa308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4, 9kDa</p> <p>HUGO:NDUFA4 HGNC:7687 ENTREZ:4697 UNIPROT:O00483</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA4"/> <bbox w="80.0" h="40.0" x="18697.154" y="13788.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa296_rc_sa296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13</p> <p>HUGO:NDUFA13 HGNC:17194 ENTREZ:51079 UNIPROT:Q9P0J0</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>References:</p> <p>synonym:GRIM19</p> </body> </html> </notes> <label text="NDUFA13"/> <bbox w="80.0" h="40.0" x="18445.154" y="13581.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa311_rc_sa311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 10, 22kDa</p> <p>HUGO:NDUFB10 HGNC:7696 ENTREZ:4716 UNIPROT:O96000</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB10"/> <bbox w="80.0" h="40.0" x="18614.154" y="13788.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa300_rc_sa300"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS4 HGNC:7711 ENTREZ:4724 UNIPROT:O43181</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS4"/> <bbox w="80.0" h="40.0" x="18358.154" y="13537.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa293_rc_sa293"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded NADH dehydrogenase 4</p> <p>HUGO:MT-ND4 HGNC:7459 ENTREZ:4538 UNIPROT:P03905</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ND4"/> <bbox w="80.0" h="40.0" x="18529.154" y="13621.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa320_rc_sa320"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 2, 14.5kDa</p> <p>HUGO:NDUFC2 HGNC:7706 ENTREZ:4718 UNIPROT:O95298</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFC2"/> <bbox w="80.0" h="40.0" x="18531.154" y="13747.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa292_rc_sa292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded NADH dehydrogenase 2</p> <p>HUGO:MT-ND2 HGNC:7456 ENTREZ:4536 UNIPROT:P03891</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ND2"/> <bbox w="80.0" h="40.0" x="18613.154" y="13620.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa318_rc_sa318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 4, 15kDa</p> <p>HUGO:NDUFB4 HGNC:7699 ENTREZ:4710 UNIPROT:O95168</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB4"/> <bbox w="80.0" h="40.0" x="18359.154" y="13665.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa323_rc_sa323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 3, 12kDa</p> <p>HUGO:NDUFB3 HGNC:7698 ENTREZ:4709 UNIPROT:O43676</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB3"/> <bbox w="80.0" h="40.0" x="18696.154" y="13663.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa291_rc_sa291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitochondrially encoded NADH dehydrogenase 1</p> <p>HUGO:MT-ND1 HGNC:7455 ENTREZ:4535 UNIPROT:P03886</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="MT-ND1"/> <bbox w="80.0" h="40.0" x="18363.154" y="13787.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa282_rc_sa282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 1, 75kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS1 HGNC:7707 ENTREZ:4719 UNIPROT:P28331</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS1"/> <bbox w="80.0" h="40.0" x="18444.154" y="13494.388"/> <glyph class="state variable" id="_ca1bdae4-d2bf-4adf-9185-cf81d713b1ae"> <state value="[2Fe-2S],[4Fe-4S],[4Fe-4S]" variable=""/> <bbox w="80.0" h="10.0" x="18444.154" y="13489.388"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa288_rc_sa288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 8, 23kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS8 HGNC:7715 ENTREZ:4728 UNIPROT:O00217</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS8"/> <bbox w="80.0" h="40.0" x="18530.154" y="13707.388"/> <glyph class="state variable" id="_7d088d39-52ff-4e88-a7c5-173461c937a4"> <state value="[4Fe-4S],[4Fe-4S]" variable=""/> <bbox w="80.0" h="10.0" x="18530.154" y="13702.388"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa317_rc_sa317"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 6, 17kDa</p> <p>HUGO:NDUFB6 HGNC:7701 ENTREZ:4712 UNIPROT:O95139</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB6"/> <bbox w="80.0" h="40.0" x="18614.154" y="13707.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa305_rc_sa305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 8, 19kDa</p> <p>HUGO:NDUFB8 HGNC:7703 ENTREZ:4714 UNIPROT:O95169</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB8"/> <bbox w="80.0" h="40.0" x="18448.154" y="13748.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa301_rc_sa301"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 5, 15kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS5 HGNC:7712 ENTREZ:4725 UNIPROT:O43920</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS5"/> <bbox w="80.0" h="40.0" x="18358.154" y="13580.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa322_rc_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 5, 13kDa</p> <p>HUGO:NDUFA5 HGNC:7688 ENTREZ:4698 UNIPROT:Q16718</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA5"/> <bbox w="80.0" h="40.0" x="18695.154" y="13536.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa325_rc_sa325"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 2, 8kDa</p> <p>HUGO:NDUFA2 HGNC:7685 ENTREZ:4695 UNIPROT:O43678</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA2"/> <bbox w="80.0" h="40.0" x="18446.154" y="13788.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa297_rc_sa297"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 11, 14.7kDa</p> <p>HUGO:NDUFA11 HGNC:20371 ENTREZ:126328 UNIPROT:Q86Y39</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA11"/> <bbox w="80.0" h="40.0" x="18358.154" y="13622.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa314_rc_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5, 16kDa</p> <p>HUGO:NDUFB5 HGNC:7700 ENTREZ:4711 UNIPROT:O43674</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> <p>KEGGCOMPOUND:C00076</p> </body> </html> </notes> <label text="NDUFB5"/> <bbox w="80.0" h="40.0" x="18614.154" y="13747.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa283_rc_sa283"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) flavoprotein 1, 51kDa</p> <p>HUGO:NDUFV1 HGNC:7716 ENTREZ:4723 UNIPROT:P49821</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFV1"/> <bbox w="80.0" h="40.0" x="18363.154" y="13830.388"/> <glyph class="state variable" id="_13964ed8-08cc-4299-bde5-fe0a9b55ad25"> <state value="[4Fe-4S]" variable=""/> <bbox w="50.0" h="10.0" x="18378.154" y="13825.388"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa315_rc_sa315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 7, 18kDa</p> <p>HUGO:NDUFB7 HGNC:7702 ENTREZ:4713 UNIPROT:P17568</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB7"/> <bbox w="80.0" h="40.0" x="18530.154" y="13664.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa302_rc_sa302"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) Fe-S protein 6, 13kDa (NADH-coenzyme Q reductase)</p> <p>HUGO:NDUFS6 HGNC:7713 ENTREZ:4726 UNIPROT:O75380</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFS6"/> <bbox w="80.0" h="40.0" x="18528.154" y="13536.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa324_rc_sa324"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 3, 9kDa</p> <p>HUGO:NDUFA3 HGNC:7686 ENTREZ:4696 UNIPROT:O95167</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA3"/> <bbox w="80.0" h="40.0" x="18529.154" y="13579.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa316_rc_sa316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 12</p> <p>HUGO:NDUFA12 HGNC:23987 ENTREZ:55967 UNIPROT:Q9UI09</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA12"/> <bbox w="80.0" h="40.0" x="18611.154" y="13578.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa286_rc_sa286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) flavoprotein 2, 24kDa</p> <p>HUGO:NDUFV2 HGNC:7717 ENTREZ:4729 UNIPROT:P19404</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFV2"/> <bbox w="80.0" h="40.0" x="18528.154" y="13494.388"/> <glyph class="state variable" id="_aa3ef449-bfca-4e69-aa1f-6765a99dd510"> <state value="[2Fe-2S]" variable=""/> <bbox w="50.0" h="10.0" x="18543.154" y="13489.388"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa299_rc_sa299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 9, 39kDa</p> <p>HUGO:NDUFA9 HGNC:7693 ENTREZ:4704 UNIPROT:Q16795</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFA9"/> <bbox w="80.0" h="40.0" x="18696.154" y="13494.388"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa327_rc_sa327"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9, 22kDa</p> <p>HUGO:NDUFB9 HGNC:7704 ENTREZ:4715 UNIPROT:Q9Y6M9</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB9"/> <bbox w="80.0" h="40.0" x="18614.654" y="13831.888"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa306_rc_sa306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 11, 17.3kDa</p> <p>HUGO:NDUFB11 HGNC:20372 ENTREZ:54539 UNIPROT:Q9NX14</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="NDUFB11"/> <bbox w="80.0" h="40.0" x="18697.154" y="13745.388"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa135_ad_csa135" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21059766</p> <p>The TCR of αβ T cells is composed of the ligand-binding subunits TCRα and TCRβ, which form the disulfide-linked TCRαβ heterodimer, non-covalently bound to the signal transducing CD3 subunits [CD3γ, CD3δ, CD3ε and CD3ζ (CD247)].</p> <p>PMID:23886063 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa135_ad_csa135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21059766"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s4356"/> <bbox w="119.0" h="210.0" x="27996.625" y="3067.0"/> <glyph class="macromolecule" id="s_id_ad_sa1131_ad_sa1131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ZAP70</p> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:SMAC</p> <p>PMID:23620508</p> <p>ZAP70 (ζ-chain-associated protein of 70 kDa) is a tyrosine-protein kinase from the Syk family that docks at phosphorylated ITAMs of the TCR. Docking, subsequent phosphorylation by Lck and trans-autophosphorylation all increase kinase activity. 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<p>PMID:16001073</p> <p>RAC1B increases the cellular level of ROS, causing an upregulation of Snail and induction of EMT</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1963_emtc_em_sa1963"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16001073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ROS"/> <bbox w="70.0" h="25.0" x="4726.5" y="13734.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1160_in_sa1160" compartmentRef="s_id_in_ca13_in_ca13"> <label text="PTGER4"/> <bbox w="80.0" h="50.0" x="13250.0" y="1590.0"/> <glyph class="unit of information" id="_5d948002-f944-479c-b17b-1885dd040703"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13267.5" y="1585.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1076_emtc_em_sa1076" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1076_emtc_em_sa1076"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EZR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EZR"/> <bbox w="32.0" h="17.0" x="5767.0" y="14325.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa274_te_sa274" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa274_te_sa274"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGES3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10197982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTGES3"/> <clone/> <bbox w="80.0" h="40.0" x="5643.06" y="20142.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa274_te_sa302" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa274_te_sa302"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGES3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10197982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTGES3"/> <clone/> <bbox w="80.0" h="40.0" x="6203.06" y="20112.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa200_wca1_wca1_sa200" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa200_wca1_wca1_sa200"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22572.06" y="18336.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1151_ca_sa1151" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF </p> <p>References:</p> <p>MODULE METABOLIC</p> <p>PMID:25002027 </p> <p>SQSTM1 (p62) p62 </p> <p>We also observed a decrease in the direct conversion of [U-13C5] glutamine to glutamate in p62 KO fibroblasts, with a relative increase in the fraction of glutamate derived from [1,2-13C2]glucose </p> <p>and reduced levels of the glutamine transporters SLC7A5 and SLC1A5, as well as glutaminase-1 (GLS1) (Figure 4O), a critical enzyme in the pathway that catalyzes the conversion of glutamine into glutamate</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1151_ca_sa1151"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLS"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25002027"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLS"/> <bbox w="80.0" h="40.0" x="2980.0" y="3630.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3435_rc_sa3435" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3435_rc_sa3435"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRDX2"/> <bbox w="90.0" h="25.0" x="23502.56" y="16016.5"/> <glyph class="unit of information" id="_223237fa-c226-4e59-a562-575ec86d026a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23537.56" y="16011.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa471_rc_csa471" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAD:BCL2-XL*</p> <p>References:</p> <p>PMID:17446862</p> <p>PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa471_rc_csa471"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17446862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD:BCL2-XL*"/> <bbox w="100.0" h="124.0" x="27631.56" y="10779.5"/> <glyph class="macromolecule" id="s_id_rc_sa4464_rc_sa4464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="27637.275" y="10843.214"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4463_rc_sa4463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>there are at least 2 isoforms of BAD. Here, protein BAD refers to any of the different isoforms. Numbering of amino-acids, used for phosphorylation sites, are adjusted to the 'canonical' isoform as defined in Uniprot. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa114_emtc_em_sa114"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="R-Cadherin*"/> <bbox w="100.0" h="20.0" x="2763.5" y="16452.5"/> <glyph class="unit of information" id="_38826a11-f8f1-42d2-a02f-93e646474cf2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2803.5" y="16447.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa93_ce_sa93" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa93_ce_sa93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:YAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="YAP1"/> <bbox w="80.0" h="40.0" x="12691.627" y="13779.556"/> <glyph class="state variable" id="_aa765834-f88c-4391-adeb-472e2e5b0669"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12740.695" y="13774.556"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa5_wca1_wca2_csa5" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKK1:KRM*:LRP5_6*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re20(MAP:survival):</p> <p>PMID:11433302</p> <p>PMID:11448771</p> <p>PMID:12050670</p> <p>s_wca2_re22:(MAP:survival) PMID:20543981</p> <p>s_wca2_re24:(MAP:survival) PMID:17804805</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa5_wca1_wca2_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11433302"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11448771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12050670"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20543981"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17804805"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK1:KRM*:LRP5_6*"/> <bbox w="150.0" h="100.0" x="23961.06" y="18187.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa33_wca1_wca2_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dickkopf 1 homolog (Xenopus laevis)</p> <p>"dickkopf (Xenopus laevis) homolog 1"</p> <p>HUGO:DKK1 HGNC:2891 ENTREZ:22943 UNIPROT:O94907 GENECARDS:DKK1 KEGG:22943 ATLASONC:DKK1ID44007ch10q11 WIKI:DKK1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DKK1"/> <bbox w="40.0" h="20.0" x="23991.06" y="18197.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa34_wca1_wca2_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="23971.06" y="18212.0"/> <glyph class="state variable" id="_553451a2-adc6-4a58-8f7f-7ae2589f6574"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="23953.56" y="18231.96"/> </glyph> <glyph class="state variable" id="_53f7374f-a6f4-49db-9bac-2bf9d56dee93"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="24033.56" y="18207.266"/> </glyph> <glyph class="state variable" id="_bfe4e202-826c-4752-ac94-2cb696634b9b"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="24032.941" y="18257.0"/> </glyph> <glyph class="state variable" id="_49851e15-16f0-4542-9e59-25665d053879"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="23992.664" y="18257.0"/> </glyph> <glyph class="state variable" id="_c85df129-02a0-4fb6-a291-ade5cb05568f"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="23953.8" y="18257.0"/> </glyph> <glyph class="state variable" id="_2f17bf97-61d4-46a8-a341-53066ef0b2fd"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="23993.592" y="18207.0"/> </glyph> <glyph class="unit of information" id="_889f1a46-1f12-4154-9f80-0010420bdeec"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23988.56" y="18207.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa54_wca1_wca2_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kringle containing transmembrane protein 1</p> <p>HUGO:KREMEN1 HGNC:17550 ENTREZ:83999 UNIPROT:Q96MU8 GENECARDS:KREMEN1 KEGG:83999 WIKI:KREMEN1 </p> <p>kringle containing transmembrane protein 2</p> <p>HUGO:KREMEN2 HGNC:18797 ENTREZ:79412 UNIPROT:Q8NCW0 GENECARDS:KREMEN2 KEGG:79412 WIKI:KREMEN2</p> <p>Map modules:</p> </body> </html> </notes> <label text="KRM*"/> <bbox w="35.0" h="60.0" x="24053.56" y="18207.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4929_rc_sa4929" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>Eeyarestatin I, EerI</p> <p>PMID:19164757</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4929_rc_sa4929"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19164757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Eeyarestatin I"/> <bbox w="80.0" h="30.0" x="28729.06" y="14334.0"/> <glyph class="unit of information" id="_829be284-85fd-4fa4-b6ff-0397b1ad396b"> <label text="drug"/> <bbox w="25.0" h="10.0" x="28756.56" y="14329.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa662_ca_sa662" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa662_ca_sa662"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGIF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAP"/> <bbox w="80.0" h="40.0" x="3510.0" y="4770.0"/> <glyph class="unit of information" id="_1f10caca-dc7a-4071-abf8-15bac5eac5c0"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="3525.0" y="4765.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa855_emtc_em_sa855" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa855_emtc_em_sa855"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT14"/> <bbox w="60.0" h="20.0" x="4839.5" y="15575.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3377_rc_sa3377" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3377_rc_sa3377"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALDOC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALDO*"/> <bbox w="86.0" h="46.0" x="18546.06" y="10336.0"/> <glyph class="unit of information" id="_1f4c939b-6a47-46fe-ace3-6f46f2aec6be"> <label text="N:4"/> <bbox w="20.0" h="10.0" x="18579.06" y="10331.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4795_rc_sa4795" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4795_rc_sa4795"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ca2+ pulse"/> <bbox w="80.0" h="30.0" x="27129.06" y="12814.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa187_ce_sa187" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa187_ce_sa187"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MUS81"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MUS81"/> <bbox w="80.0" h="40.0" x="14763.606" y="17249.998"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa130_wca1_wca1_sa130" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa130_wca1_wca1_sa130"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UBE2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UBE2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD6*"/> <bbox w="80.0" h="40.0" x="20460.936" y="19650.666"/> </glyph> <glyph class="complex" id="s_id_in_csa340_in_csa340" compartmentRef="s_id_in_ca12_in_ca12"> <label text="mTORC1*"/> <bbox w="210.0" h="210.0" x="17195.0" y="4615.0"/> <glyph class="macromolecule" id="s_id_in_sa2604_in_sa2604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="17300.0" y="4630.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2600_in_sa2600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="17210.0" y="4750.0"/> <glyph class="state variable" id="_e2a8f6fc-a1a3-4293-8335-c1af8f3ec8e0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17205.0" y="4765.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2603_in_sa2603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="DEPTOR"/> <bbox w="80.0" h="40.0" x="17300.0" y="4740.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2601_in_sa2601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="17210.0" y="4690.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2602_in_sa2602"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="17300.0" y="4690.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa6_ce_csa6" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK7:CyclinH*:MNAT1:TFIIH1*:TFIIH2*:TFIIH3*:TFIIH4*:TFIIH5*:XPB*:XPD*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="CDK7/CycH*/MNAT1/TFB5*/TFIIH1*/TFIIH2*/TFIIH3*/TFIIH4*/TTDA*/XPB*/XPD*"/> <bbox w="191.0" h="263.0" x="7964.472" y="15426.356"/> <glyph class="macromolecule" id="s_id_ce_sa398_ce_sa398"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 4, 52kDa</p> <p>HUGO:GTF2H4, HGNC:4658, ENTREZ:2968, UNIPROT:Q92759</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH4*"/> <bbox w="80.0" h="40.0" x="8062.972" y="15578.106"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa402_ce_sa402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CyclinH</p> <p>HUGO:CCNH, HGNC:1594, ENTREZ:902, UNIPROT:P51946</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery:</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="CyclinH*"/> <bbox w="80.0" h="40.0" x="8064.972" y="15621.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa401_ce_sa401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 7</p> <p>HUGO:CDK7, HGNC:1778, ENTREZ:1022, UNIPROT:P50613</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> <p>CDK7 participates in basal transcription by phosphorylating the carboxy-terminal domain of the largest subunit of RNA polymerase II</p> </body> </html> </notes> <label text="CDK7"/> <bbox w="80.0" h="40.0" x="7969.972" y="15626.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa394_ce_sa394"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pigmentosum group B complementing)</p> <p>HUGO:ERCC3, HGNC:3435, ENTREZ:2071, UNIPROT:P19447</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPB*"/> <bbox w="80.0" h="40.0" x="7970.972" y="15437.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa397_ce_sa397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 3, 34kDa</p> <p>HUGO:GTF2H3, HGNC:4657, ENTREZ:2967, UNIPROT:Q13889</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH3*"/> <bbox w="80.0" h="40.0" x="8061.972" y="15534.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa393_ce_sa393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>excision repair cross-complementing rodent repair deficiency, complementation group 2</p> <p>HUGO:ERCC2, HGNC:3434, ENTREZ:2068, UNIPROT:P18074</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPD*"/> <bbox w="80.0" h="40.0" x="7972.972" y="15479.106"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa392_ce_sa392"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 5</p> <p>HUGO:GTF2H5, HGNC:21157, ENTREZ:404672, UNIPROT:Q6ZYL4</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH5*"/> <bbox w="80.0" h="40.0" x="7972.972" y="15518.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa395_ce_sa395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 1, 62kDa</p> <p>HUGO:GTF2H1, HGNC:4655, ENTREZ:HGNC:2965, UNIPROT:P32780</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH1*"/> <bbox w="80.0" h="40.0" x="8062.972" y="15448.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa396_ce_sa396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>general transcription factor IIH, polypeptide 2, 44kDa</p> <p>HUGO:GTF2H2, HGNC:4656, ENTREZ:2966, UNIPROT:Q13888</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="TFIIH2*"/> <bbox w="80.0" h="40.0" x="8062.972" y="15491.606"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa400_ce_sa400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis)</p> <p>HUGO:MNAT1 , HGNC:7181, ENTREZ:4331, UNIPROT:P51948</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G,PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="MNAT1"/> <bbox w="80.0" h="40.0" x="7970.972" y="15588.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5355_rc_sa5355" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5355_rc_sa5355"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PSPH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PSPH"/> <bbox w="80.0" h="40.0" x="26011.56" y="9887.75"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa748_ad_sa748" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:24104473; PMID:16799472</p> <p> Triggering of the T cell receptor (TCR) activates Src family kinases (SFK) and the zeta-chain-associated protein of 70 kDa (ZAP-70). These tyrosine kinases lead to the activation of the transcription factor NF-κB and the p38 mitogen-activated protein kinase. NF-κB induces transcription of the Gadd45b gene. The same applies to the cytokines IL-12 and IL-18 as well as stimulation of the Notch receptor and its cytoplasmic effector Deltex. The cytokine IL-2 activates transcription of the Gadd45g gene. Both Gadd45β and Gadd45γ proteins interact with the kinase MEKK4, which leads to sustained p38 activation and, subsequently, to interferon-γ (IFN-γ) production and Th1 differentiation.</p> <p>PMID:15735649 </p> <p>In the classical MAPK enzymatic cascade, p38 dual phosphorylation is mediated by the MAPKKs MKK3, MKK4 and MKK6, which themselves are activated by MAPKK kinase−mediated phosphorylation</p> <p>Spontaneous phosphorylation of MKK3 and MKK6 was low in CD4+ T cells and increased equivalently in a dose-dependent way after stimulation with anti-CD3</p> <p>Baseline phosphorylation of MKK4 did not increase with anti-CD3 stimulation </p> <p> PMID:9294148 </p> <p> SEK1 (MAP2K4) has a role in CD28-mediated costimulation for proliferation and IL-2 production in peripheral T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa748_ad_sa748"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24104473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15735649"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9294148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K4"/> <bbox w="80.0" h="40.0" x="26496.0" y="5765.0"/> <glyph class="state variable" id="_9f4f8b65-f85a-46bf-9ad0-327b4976f58b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26488.5" y="5780.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa38_gf1_sa38" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:25772309 </p> <p>Downstream of the signaling tyrosine kinase FGFRs, intracellular signaling cascades are also tightly regulated by specialized adaptor proteins such as FGFR substrate 2?? (FRS2??) and regulators of the RAS???MAPK and PI3K???AKT pathways such as Sprouty (SPRY) proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa38_gf1_sa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FRS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25772309"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FRS2"/> <bbox 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARK2"/> <bbox w="80.0" h="40.0" x="21129.06" y="15299.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa960_ce_sa960" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa960_ce_sa960"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ANAPC4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="10338.281" y="10180.02"/> </glyph> <glyph class="complex" id="s_id_rc_csa497_rc_csa497" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CHOP*:GCN5*:JUN</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:26587781</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa497_rc_csa497"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26587781"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUN:CHOP*:GCN5*"/> <bbox w="100.0" h="170.0" x="26351.326" y="16279.0"/> <glyph class="macromolecule" id="s_id_rc_sa5126_rc_sa5126"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun proto-oncogene, AP-1 transcription factor subunit</p> <p>HUGO:JUN hgnc_id:HGNC:6204 HGNC:6204 ENTREZ:3725 UNIPROT:P05412</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:26587781</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="26361.326" y="16339.0"/> <glyph class="state variable" id="_bec22d0e-fbe5-4870-997c-60c5b66856f8"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26410.395" y="16334.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5127_rc_sa5127"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>biogenesis of lysosomal organelles complex 1 subunit 1</p> <p>HUGO:BLOC1S1 hgnc_id:HGNC:4200 HGNC:4200 ENTREZ:2647 UNIPROT:P78537</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>KAT2A</p> <p>PMID:26587781</p> </body> </html> </notes> <label text="GCN5*"/> <bbox w="80.0" h="40.0" x="26361.326" y="16289.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5125_rc_sa5125"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA damage inducible transcript 3</p> <p>HUGO:DDIT3 hgnc_id:HGNC:2726 HGNC:2726 ENTREZ:1649 UNIPROT:P35638</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="CHOP*"/> <bbox w="80.0" h="40.0" x="26361.326" y="16389.0"/> <glyph class="state variable" id="_8874f010-ce53-40ad-bd12-22557ea7aa95"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26412.895" y="16384.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4806_rc_sa4806" compartmentRef="s_id_rc_ca39_rc_ca39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108 KEGGCOMPOUND:C00076 CAS:14127-61-8</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="33.0" h="33.0" x="26042.81" y="14242.75"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa229_emtc_em_csa229" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RAC1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:12480336</p> <p>PMID:16212495</p> <p>Rac1 is a member of the Ras superfamily of small GTPases.</p> <p>It plays essential role in control of the cell polarity, actin cytoskeleton rearrangements, protein trafficking and directed motility in a wide variety of mammalian cells</p> <p>PMID:11152757</p> <p>Rac1 belongs to the Rho supgroup of small GTPases protein family.</p> <p>This subgroup is involved in cytoskeletal control, regulation of stress fibers formation, focal adhesions, cell growth, membrane trafficking, development.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa229_emtc_em_csa229"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12480336"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16212495"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11152757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC1_GTP"/> <bbox w="70.0" h="66.0" x="6287.0" y="14492.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1468_emtc_em_sa1468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="42.0" h="18.0" x="6300.0" y="14496.5"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1469_emtc_em_sa1469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6302.0" y="14519.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa41_akt1_akt2_csa41" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CKS1B:CUL1:SKP1:SKP2</p> <p>References:</p> <p>s_akt2_re91:(MAP:survival) PMID:15668399</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa41_akt1_akt2_csa41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15668399"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CKS1B:CUL1:SKP1:SKP2"/> <bbox w="172.0" h="112.0" x="12228.311" y="22310.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa246_akt1_akt2_sa246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDC28 protein kinase regulatory subunit 1B</p> <p>HUGO:CKS1B HGNC:19083 ENTREZ:1163 UNIPROT:P61024 GENECARDS:CKS1B REACTOME:69869 KEGG:1163 ATLASONC:CKS1BID40092ch1q21 WIKI:CKS1B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CKS1B"/> <bbox w="80.0" h="40.0" x="12232.311" y="22318.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa248_akt1_akt2_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 2 (p45)</p> <p>HUGO:SKP2 HGNC:10901 ENTREZ:6502 UNIPROT:Q13309 GENECARDS:SKP2 REACTOME:405589 KEGG:6502 ATLASONC:GC_SKP2 WIKI:SKP2 </p> <p>Q13309</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="SKP2"/> <bbox w="80.0" h="40.0" x="12313.311" y="22360.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa249_akt1_akt2_sa249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>"S-phase kinase-associated protein 1A (p19A)", SKP1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="12231.811" y="22360.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa247_akt1_akt2_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, 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</rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23728.06" y="18605.0"/> <glyph class="state variable" id="_16e66c0c-315b-47cb-a651-b88e865c2817"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="23715.56" y="18639.72"/> </glyph> <glyph class="state variable" id="_83708247-0df7-4d39-ae8f-c2b25d430bea"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23793.06" y="18600.213"/> </glyph> <glyph class="state variable" id="_3805a671-377d-4c0b-ad46-e9d30d58e76b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23742.277" y="18600.0"/> </glyph> <glyph class="state variable" id="_f829f669-ceff-4b64-9a7b-8f5386c4c706"> <state value="" variable="T41"/> <bbox w="25.0" h="10.0" x="23794.941" y="18640.0"/> </glyph> <glyph class="state variable" id="_79540a78-e2af-4d15-9324-38a2660adac7"> <state value="" variable="S37"/> <bbox w="25.0" h="10.0" x="23795.56" y="18600.213"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa108_wnc1_wnc4_sa108"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPRE1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPRE2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPRE3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EB1*"/> <bbox w="80.0" h="40.0" x="18336.06" y="20557.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2690_in_sa2690" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NKG2D*"/> <bbox w="80.0" h="50.0" x="21105.0" y="1955.0"/> <glyph class="unit of information" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa178_ca_sa178"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL5"/> <bbox w="70.0" h="25.0" x="1445.0" y="3933.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2415_in_sa2415" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CD11c*"/> <bbox w="80.0" h="50.0" x="17702.5" y="1915.0"/> <glyph class="unit of information" id="_305db4e9-8f9a-47f2-8e8c-6b1ee7e20d77"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17720.0" y="1910.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2394_in_sa2394" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TBX21"/> <bbox w="90.0" h="25.0" x="19870.0" y="4802.5"/> <glyph class="unit of information" id="_176c2567-f48c-4b74-acd8-bd9cac28b09c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19905.0" y="4797.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_in_sa2872_in_sa2872"> <label text="IMMUNE_SUPRESSION"/> <bbox w="490.0" h="165.0" x="10195.0" y="8377.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1984_rc_sa1984" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1984_rc_sa1984"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC1A5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC1A5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC1A5"/> <bbox w="90.0" h="25.0" x="24831.56" y="16063.5"/> <glyph class="unit of information" id="_f943296e-d38e-451d-baad-826fe795a0f7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24866.56" y="16058.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa285_mo_sa285" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT serine/threonine kinase 1</p> <p>AKT serine/threonine kinase 2</p> <p>AKT serine/threonine kinase 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa285_mo_sa285"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="2383.0" y="11170.0"/> <glyph class="state variable" id="_588d1b58-7d62-4f9f-9557-897637d8f177"> <state value="" variable="ser473"/> <bbox w="40.0" h="10.0" x="2443.0" y="11185.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2543_emtc_em_sa2543" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2543_emtc_em_sa2543"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD"/> <bbox w="38.0" h="20.0" x="5467.5" y="13582.5"/> <glyph class="state variable" id="_dcab52d3-c697-45d7-a904-d90f962d715d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5479.395" y="13577.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1171_ad_sa1171" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:20634814</p> <p>Following antigen recognition and proximal signalling events, cytotoxic granules are polarized towards the cytotoxic T lymphocyte (CTL)–target cell contact site where the immunological synapse forms. Actin filaments are cleared away from the site of secretion (not shown). Mature cytotoxic granules dock at the plasma membrane through the interaction of RAB27a with synaptotagmin-like protein 1 (SLP1) or SLP2. In addition, cytotoxic granules interact with a docking complex of MUNC18-2 and syntaxin 11 in the closed conformation. Docked vesicles are then primed by MUNC13-4, which probably triggers the switch of syntaxin 11 from a closed to an open conformation. A SNARE (soluble N-ethylmaleimide-sensitive factor accessory protein receptor) complex then forms between a vesicle membrane SNARE, possibly vesicle-associated membrane protein 7 (VAMP7) and/or VAMP8, on one side and the target membrane SNAREs syntaxin 11 and SNAP23 (synaptosomal-associated protein of 23 kDa), on the other side. Completion of the fusion reaction occurs when MUNC18-2 clasps across the zippering four-helix SNARE complex bundle.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1171_ad_sa1171"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20634814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VAMP*"/> <bbox w="80.0" h="40.0" x="29286.0" y="7695.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa273_emtc_em_csa273" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:Cadherin*:_alpha_-Catenin*:_beta_-Catenin*:p120*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:15609097</p> <p>CTNNB1 (beta-catenin) binds with high affinity to the distal Cadherin cytoplasmic tail.</p> <p>Cadherin recruits CTNNA1 (alpha-catenin) to the complex.</p> <p>CTNNA1 (alpha-catenin) binds to Actin filaments directly</p> <p>CTNNA1 (alpha-catenin) and can also associate with other actin-binding proteins (MLLT4 or Formin)</p> <p>CTNND1 (delta-catenin or p120) binds directly to Cadherin independently of the other catenins.</p> <p>Catenins/Cadherin complex can further interact with a range of singaling molecules which participate in either cellular signaling or control of cytoskeletal dynamics.</p> <p>Stability of Cadherin/Catenins complex and thereby the integrity of adherens junctions is controlled by phosphorylation/dephosphorylation.</p> <p>PMID:16099633</p> <p>Phosphorylation of beta-catenin (CTNNB1) by receptor and no-receptor tyrosine kinases results in dissociation of CTNNA1 from CTNNB1 with concomitant loss of cadherin adhesion.</p> <p>Dephosphoryaltion of CTNNB1 by tyrosine phosphatases ensure or restore the integrity of Cadherin-mediated adhesions.</p> <p>PMID :10402472</p> <p>We conclude that a pool of surface E-cadherin is constantly trafficked through an endocytic, recycling pathway and that this may provide a mechanism for regulating the availability of E-cadherin for junction formation in development, tissue remodeling, and tumorigenesis.</p> <p>PMID:22674073</p> <p>Cadherin internalization can occur through either clathrin-mediated, caveolin-mediated, or macropinocytosis-like pathways. Internalized cadherin is then sorted either for lysosomal degradation or recycling back to the plasma membrane.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa273_emtc_em_csa273"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15609097"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16099633"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(α-Catenin*/β-Catenin*/p120*/Actin cytoskeletal/Cadherin*)"/> <bbox w="370.0" h="66.0" x="1971.0" y="15833.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1779_emtc_em_sa1779"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="66.0" h="28.0" x="1976.75" y="15854.0"/> <glyph class="state variable" id="_06cd58d4-f2f8-439d-b172-49ca6c86708a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2037.75" y="15849.0"/> </glyph> <glyph class="state variable" id="_c6dd3b96-5b44-41fb-8638-bf1aaddaf098"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1971.75" y="15850.682"/> </glyph> <glyph class="state variable" id="_3b2820d5-a694-488c-a9a7-79b6c5b8c8a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2004.7762" y="15849.0"/> </glyph> <glyph class="state variable" id="_74344f5e-bcbf-4e23-91e2-b128c9fbbeec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1990.8287" y="15849.0"/> </glyph> <glyph class="state variable" id="_5cbc4053-62a7-4934-9a20-5869dc6fac76"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2037.75" y="15875.358"/> </glyph> <glyph class="state variable" id="_18ca814a-0c4a-4930-91ae-144d7c03b520"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2017.961" y="15849.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2007_em_sa2007"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="2136.0" y="15839.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1825_emtc_em_sa1825"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> <p>HUGO:CDH1, HGNC:1748, ENTREZ:999, GENECARDS:GC16P068771, UNIPROT:P12830</p> <p>cadherin 2, type 1, N-cadherin (neuronal)</p> <p>HUGO:CDH2, HGNC:1759, ENTREZ:1000, UNIPROT:P19022, GENECARDS:GC18M025465  </p> <p>cadherin 3, type 1, P-cadherin (placental)</p> <p>HUGO:CDH3, HGNC:1762, ENTREZ:1001, UNIPROT:P22223, GENECARDS:GC16P068679   </p> <p>cadherin 4, type 1, R-cadherin (retinal)</p> <p>HUGO:CDH4, HGNC:1763, ENTREZ:1002, UNIPROT:P55283, GENECARDS:GC20P059827 </p> <p>cadherin 5, type 2 (vascular endothelium)</p> <p>HUGO:CDH5, HGNC:1764, ENTREZ:1003, UNIPROT:P33151, GENECARDS:GC16P066400  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Cadherin*"/> <bbox w="75.0" h="20.0" x="2048.5" y="15856.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1778_emtc_em_sa1778"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), alpha 1, 102kDa</p> <p>HUGO:CTNNA1 HGNC:2509 ENTREZ:1495 UNIPROT:P35221</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:16325583</p> <p>Monomeric CTNNA1 binds more strongly to E-cadherin/CTNNB1, whereas the dimer preferentially binds actin filaments</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="69.0" h="18.0" x="2054.75" y="15837.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1780_emtc_em_sa1780"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:12426320</p> <p>VE-cadhein interacts with catenin delta 1 (p120-catenin, CTNND1)</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="52.0" h="16.0" x="2125.0" y="15861.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2575_emtc_em_sa2575" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2575_emtc_em_sa2575"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EFNA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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</glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2063_em_sa2063" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:15082531The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.PMID:10391247TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:15082531The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.PMID:10391247TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.Confidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATG3:LC3-I*</p> <p>References:</p> <p>23301705</p> <p>PMID:24070470</p> <p>PMID:24257061</p> <p>PMID:22166994</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa458_rc_csa458"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> 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text="ATG3"/> <bbox w="80.0" h="40.0" x="28462.31" y="12122.083"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4395_rc_sa4395"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microtubule-associated protein 1 light chain 3 alpha</p> <p>HUGO:MAP1LC3A HGNC:6838 ENTREZ:84557 UNIPROT:Q9H492</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:23301705</p> <p>PMID:23377657</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="LC3-I*"/> <bbox w="80.0" h="40.0" x="28460.156" y="12070.314"/> <glyph class="unit of information" id="_60beb64a-41cc-4e56-b320-12d87431e6a9"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28475.156" y="12065.314"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2131_in_sa2131" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20581311, 22067385, 20237412 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MDSC</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSUPPRESSIVE</p> <p>CASCADE:GSF3, CASCADE:IL4, CASCADE:IFNAB</p> <p>References:</p> <p>PMID:22067385</p> <p>c-MYC expression is assosiated with M2 type of macrophages.</p> <p>IL4 induces MYC expression in macrophages. MYC directly regulates some genes associated with alternative activation, including SCARB1, ALOX15, and MRC1, whereas others, including CD209, are indirectly regulated by c-MYC. c-MYC up-regulates the IL-4 signaling mediators signal transducer and activator of transcription-6 and peroxisome proliferator-activated receptorg, is also expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.</p> <p>PMID:20581311</p> <p>STAT3 as an essential mediator of emergency granulopoiesis by its regulation of transcription factors that direct G-CSF-responsive myeloid progenitor expansion.</p> <p>STAT3 directly controls G-CSF-dependent expression of CCAAT-enhancer-binding protein B (C/EBPB), a crucial factor in the emergency granulopoiesis response. Moreover, STAT3 and C/EBPB coregulate c-Myc through interactions with the c-myc promoter that control the duration of C/EBPa occupancy during demand-driven granulopoiesis.</p> <p>PMID:20237412</p> <p>IFN-B regulates expression of homing and angiogenic factors in neutrophils.</p> <p>IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophils</p> <p>additionally Stat3 and c-myc are downregulated by IFN-B.</p> <p>(STAT3 is known to be required for full activation of the Cxcr4 gene )</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2131_in_sa2131"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20581311"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22067385"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20237412"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <bbox w="80.0" h="40.0" x="13420.0" y="4636.875"/> </glyph> <glyph class="complex" id="s_id_rc_csa292_rc_csa292" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PPARGC1A:RPTOR:YY1</p> </body> </html> </notes> <label text="mTORC1:PGC1A:YY1"/> <bbox w="200.0" h="169.0" x="20221.56" y="16415.5"/> <glyph class="macromolecule" id="s_id_rc_sa2386_rc_sa2386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>YY1 transcription factor</p> <p>HUGO:YY1 HGNC:12856 ENTREZ:7528 UNIPROT:P25490</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="YY1"/> <bbox w="80.0" h="40.0" x="20238.56" y="16469.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2382_rc_sa2382"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peroxisome proliferator-activated receptor gamma, coactivator 1 alpha</p> <p>HUGO:PPARGC1A HGNC:9237 ENTREZ:10891 UNIPROT:Q9UBK2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:PGC1alpha</p> </body> </html> </notes> <label text="PPARGC1A"/> <bbox w="80.0" h="40.0" x="20281.56" y="16424.0"/> <glyph class="state variable" id="_817a6206-ff24-45c8-880b-881ec5ac3e26"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20333.129" y="16419.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2385_rc_sa2385"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="20237.56" y="16514.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2384_rc_sa2384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="20321.56" y="16471.0"/> <glyph class="state variable" id="_cf3b03b3-cc0c-4f0b-8ea9-8bc2ac1e8036"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="20337.492" y="16506.0"/> </glyph> <glyph class="state variable" id="_fef5bd84-adb4-4af0-958d-c06dd70d0794"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="20363.51" y="16466.0"/> </glyph> <glyph 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11875494, 22816309, 20644162, 21680779, 17476345, 6357187 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:NO_ROS_PRODUCTION</p> <p>CASCADE:TGFB, CASCADE:MIF, CASCADE:IL10, CASCADE:IFNG</p> <p>References:</p> <p>PMID:17476345</p> <p>NOS2, a heme-containing enzyme</p> <p>that catalyzes the synthesis of NO and citrulline from l-Arg, is</p> <p>expressed by various cells of the immune system, and its activa-</p> <p>tion is considered a hallmark of classically activated macrophages</p> <p>(also known as M1 macrophages), a macrophage subset that pro-</p> <p>duces proinflammatory cytokines and acts as the effector cell in</p> <p>the killing of invading pathogens and tumor cells.</p> <p>PMID:11875494</p> <p>HMOX1 (HO1) mediates the inhibitory effect of IL10</p> <p>on LPS-induced NOS2 (INOS) expression.</p> <p>PMID:6357187</p> <p>Macrophage tumoricidal activity is attributed to NOS2 (iNOS) production.</p> <p>PMID:20644162</p> <p>Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.</p> <p>PMID:21680779, PMID:22816309</p> <p>Myeloid-derived suppressor cell inhibit the IFN response in immune cells (splenocytes, macrophages) via inhibition of STAT1 phosphorylation by NO (downstream of iNOS)..</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E-Cadherin*:ITGA9:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re67:(MAP:survival) PMID:22370635</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa29_wca1_wca2_csa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370635"/> </rdf:Bag> 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kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23551.06" y="19935.5"/> <glyph class="state variable" id="_9730c7bf-b822-45ed-a3c3-b5954299b388"> <state value="" variable="K49"/> <bbox w="25.0" h="10.0" x="23538.56" y="19970.22"/> </glyph> <glyph class="state variable" id="_4cf91dad-4ffe-4d9f-99f9-76871169b13a"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23616.06" y="19930.713"/> </glyph> <glyph class="state variable" id="_838a8e21-2beb-46db-a929-31863a08625f"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23536.553" y="19930.5"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 16597464, 11399519, 18345002, 10820262, 12417340 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSTIMULATORY</p> <p>CASCADE:IL2, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNG, CASCADE:TLR2_4</p> <p>References:</p> <p>PMID:11399519</p> <p>STAT1, IRF1 and NF-kB interact with NOS2 promoter and cooperatively activate NOS2 expression in macrophages downstteam of IFNG.</p> <p>PMID:10820262</p> <p>Probably IFNG induces SOCS1 expressiov via IRF1 upregulation downstream of STAT1</p> <p>PMID:18345002</p> <p>TNF induces IRF1 expression both through TNFR1 and TNFR2.</p> <p>TNF induced IFNB expression through IRF1</p> <p>PMID:12417340</p> <p>IRF-8/ICSBP and IRF-1 cooperatively stimulate mouse IL-12 p40 promoter activity in macrophages.</p> <p>IRF-1 can be acetylated by p300. p300 is recruited to the IL-12p40 promoter depending on both ICSBP and IRF-1</p> <p>and acts as coactivator.</p> <p>PMID:16597464</p> <p>IRF-8 and IRF-1 are the target genes in activated macrophages.</p> <p>The expression levels of CXCL16, H28, IL-17R, LIF, MAP4K4, MMP9, MYC, PCDH7, PML, and SOCS7 were significantly increased in macrophages</p> <p>extracted form WT mice following activation</p> <p>for 4 h with IFNG and LPS. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5483_rc_sa5483"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytomegalovirus and Influenza virus"/> <bbox w="215.0" h="23.0" x="28544.06" y="9056.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1410_emtc_em_sa1410" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1410_emtc_em_sa1410"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGEF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGEF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGEF3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGEF4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGEF10L"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGEF12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCF2L"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NGEF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ECT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAP1GDS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAV2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_GEFs*"/> <bbox w="78.0" h="19.0" x="5642.0" y="14567.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2259_in_sa2259" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MLCK*"/> <bbox w="80.0" h="40.0" x="19069.0" y="6150.0"/> <glyph class="state variable" id="_a8e8f8d1-7b0b-4207-afc7-4737214a8297"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19064.0" y="6165.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1632_emtc_em_sa1632" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1632_emtc_em_sa1632"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH6"/> <bbox w="45.0" h="16.0" x="5540.66" y="16119.791"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa242_emtc_em_csa242" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA2:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrin a2b1 predominantly binds to fibrillar collagen</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa242_emtc_em_csa242"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22118458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a2b1*"/> <bbox w="40.0" h="60.0" x="4124.908" y="18485.125"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1562_emtc_em_sa1562"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA2"/> <bbox w="40.0" h="20.0" x="4124.908" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1561_emtc_em_sa1561"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4124.908" y="18507.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa252_akt1_akt1_sa252" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa252_akt1_akt1_sa252"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDCD4"/> <bbox w="80.0" h="40.0" x="12913.061" y="19502.0"/> <glyph class="state variable" id="_a10532e6-8e54-4413-9a20-42e6092b57fe"> <state value="P" variable="S67"/> <bbox w="30.0" h="10.0" x="12937.292" y="19497.0"/> </glyph> <glyph class="state variable" id="_e95eccc9-7e2a-4bbd-8542-3c99a43c14b7"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="12903.061" y="19516.969"/> </glyph> </glyph> <glyph class="complex" id="s_id_em_csa318_em_csa318" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CXCL8:CXCR2</p> <p>Map modules:</p> <p>References:</p> <p>PMID:18555777</p> <p>CXCR2 (IL8RB), binds IL8 and induces a self-amplifying secretory network in which CXCR2-binding chemokines reinforce senescence_induced growth arrest</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_csa318_em_csa318"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555777"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCR2/CXCL8"/> <bbox w="100.0" h="104.0" x="4032.0" y="12574.0"/> <glyph class="macromolecule" id="s_id_em_sa2095_em_sa2095"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:17784835</p> <p>IL8 expression is dependent of NF-_kappa_B_ activity</p> <p>PMID : 26548401</p> <p>miR-302c was found to inhibit IL-8 expression and restrain tumor invasion and metastasis.</p> <p>PMID:18555778</p> <p>In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CXCL8"/> <bbox w="45.0" h="20.0" x="4060.5" y="12586.5"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2094_em_sa2094"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:18555777</p> <p>CXCR2 (IL8RB), binds IL8 and induces a self-amplifying secretory network in which CXCR2-binding chemokines reinforce senescence_induced growth arrest</p> <p>PMID:17533374</p> <p>HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expression</p> <p>PMID:23869868</p> <p>Chemokine receptor CXCR2 is transactivated by p53 and induces p38-mediated cellular senescence</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CXCR2"/> <bbox w="80.0" h="50.0" x="4042.5" y="12606.5"/> <glyph class="unit of information" id="_1d81e003-52f8-4534-8f1b-95ee7d074894"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4060.0" y="12601.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4499_rc_sa4499" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Mitochondrial elongation"/> <bbox w="171.0" h="27.0" x="27607.621" y="12363.25"/> </glyph> <glyph class="macromolecule" 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text="in_s1571"/> <bbox w="100.0" h="100.0" x="11117.5" y="3050.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa876_in_sa876"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SHIP1*"/> <bbox w="90.0" h="25.0" x="11122.5" y="3067.5"/> <glyph class="unit of information" id="_ce4e4234-f269-4067-b416-01be2961d724"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11157.5" y="3062.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa877_in_sa877"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR155"/> <bbox w="90.0" h="25.0" x="11122.5" y="3097.5"/> <glyph class="unit of information" id="_97c01df1-29eb-45de-a7da-d7621e8575ab"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="11152.5" y="3092.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4955_rc_sa4955" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4955_rc_sa4955"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNF"/> <bbox w="70.0" h="25.0" x="25786.326" y="16131.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa223_emtc_em_sa223" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa223_emtc_em_sa223"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:THBS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="THBS1"/> <bbox w="44.0" h="16.0" x="1369.969" y="19200.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4704_rc_sa4704" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4704_rc_sa4704"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GYS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GYS1"/> <bbox w="80.0" h="40.0" x="18117.186" y="9509.5"/> <glyph class="state variable" id="_6b3ca7e2-462c-4ad4-8439-29144e9201f9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18189.686" y="9516.216"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa21_akt1_akt2_csa21" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*</p> <p>References:</p> <p>s_akt2_re56:(MAP:survival) PMID:14536078</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa21_akt1_akt2_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK2:CyclinE*"/> <bbox w="100.0" h="120.0" x="13576.061" y="20927.5"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa125_akt1_akt2_sa125"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1 HGNC:1589 ENTREZ:898 UNIPROT:P24864 GENECARDS:CCNE1 REACTOME:87225 KEGG:898 ATLASONC:GC_CCNE1 WIKI:CCNE1 </p> <p>cyclin E2</p> <p>HUGO:CCNE2 HGNC:1590 ENTREZ:9134 UNIPROT:O96020 GENECARDS:CCNE2 REACTOME:87228 KEGG:9134 ATLASONC:GC_CCNE2 WIKI:CCNE2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="13584.561" y="20933.5"/> <glyph class="state variable" id="_23cf3830-eb5c-4852-a040-9da37b9f9404"> <state value="P" variable="T380"/> <bbox w="35.0" h="10.0" x="13567.064" y="20928.5"/> </glyph> <glyph class="state variable" id="_e18f9ee4-2b27-465b-8a8a-3e5507dc0d83"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13579.564" y="20968.5"/> </glyph> <glyph class="state variable" id="_028d5f81-3d5d-40a1-875b-2ca898afa3f6"> <state value="P" variable="S384"/> <bbox w="35.0" h="10.0" x="13647.061" y="20928.713"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa124_akt1_akt2_sa124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2 HGNC:1771 ENTREZ:1017 UNIPROT:P24941 GENECARDS:CDK2 REACTOME:87018 KEGG:1017 ATLASONC:GC_CDK2 WIKI:CDK2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:dnarepair / MODULE:S_CC_PHASE, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="13586.561" y="20975.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa649_rc_sa649" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa649_rc_sa649"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGK1"/> <clone/> <bbox w="80.0" h="40.0" x="23379.06" y="15889.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa649_rc_sa864" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa649_rc_sa864"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PGK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PGK1"/> <clone/> <bbox w="80.0" h="40.0" x="18877.777" y="10615.898"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa372_in_sa372" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR20A"/> <bbox w="90.0" h="25.0" x="20965.0" y="347.5"/> <glyph class="unit of information" id="_9c766a4e-d51a-4f20-880e-474e91bb1f73"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20995.0" y="342.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa125_an_sa125" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:936</p> <p>PMID:9346240</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa125_an_sa125"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9346240"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD"/> <bbox w="80.0" h="40.0" x="7244.0" y="6823.0"/> <glyph class="state variable" id="_5c83c012-990b-4c7e-8ddb-26adb9272699"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7293.0684" y="6858.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa201_ad_sa201" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p> PMID:26098609 </p> <p>In human, CD27 is exclusively expressed in the lymphoid lineage, in other words, by T, B and NK cells and their immediate precursors.</p> <p>Activated T cells proteolytically shed CD27 from the cell surface, thereby giving rise to circulating soluble CD27 that can serve as a diagnostic marker of T-cell activation [25]. Terminally differentiated effector CD8+ T cells loose CD27, while long-lived central memory cells retain it</p> <p>CD27 ligand CD70 was likewise shown to promote TCR/CD3-induced proliferation of naïve CD4+ and CD8+ human T cells and the generation of effector cells</p> <p>PMID:23758787 </p> <p>CD27 - TRAF2, 3, 5</p> <p>PMID:18292513</p> <p>Late Signals from CD27 Prevent Fas-Dependent Apoptosis of Primary CD8+ T Cells</p> <p>blocking CD27L not only increases FasL expression on CD4+ T cells but also increases antigen-specific CD8+ T cells sensitivity to Fas-mediated apoptosis. </p> <p>PMID:21048108 </p> <p>CD27 signaling upregulated expression of the antiapoptotic Bcl-2 family member Bcl-x(L).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa201_ad_sa201"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD27"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26098609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23758787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18292513"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21048108"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD27"/> <clone/> <bbox w="80.0" h="50.0" x="30696.0" y="2485.0"/> <glyph class="unit of information" id="_80fff5c0-58aa-4cc7-9d19-bb23e6aa3aa3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30713.5" y="2480.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa201_ad_sa202" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p> PMID:26098609 </p> <p>In human, CD27 is exclusively expressed in the lymphoid lineage, in other words, by T, B and NK cells and their immediate precursors.</p> <p>Activated T cells proteolytically shed CD27 from the cell surface, thereby giving rise to circulating soluble CD27 that can serve as a diagnostic marker of T-cell activation [25]. Terminally differentiated effector CD8+ T cells loose CD27, while long-lived central memory cells retain it</p> <p>CD27 ligand CD70 was likewise shown to promote TCR/CD3-induced proliferation of naïve CD4+ and CD8+ human T cells and the generation of effector cells</p> <p>PMID:23758787 </p> <p>CD27 - TRAF2, 3, 5</p> <p>PMID:18292513</p> <p>Late Signals from CD27 Prevent Fas-Dependent Apoptosis of Primary CD8+ T Cells</p> <p>blocking CD27L not only increases FasL expression on CD4+ T cells but also increases antigen-specific CD8+ T cells sensitivity to Fas-mediated apoptosis. </p> <p>PMID:21048108 </p> <p>CD27 signaling upregulated expression of the antiapoptotic Bcl-2 family member Bcl-x(L).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa201_ad_sa202"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD27"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26098609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23758787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18292513"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21048108"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CD27"/> <clone/> <bbox w="80.0" h="50.0" x="30696.0" y="2585.0"/> <glyph class="unit of information" id="_198c1a31-7e3a-4a99-a9fb-e6e97bff85cb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="30713.5" y="2580.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1299_ce_sa1299" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1299_ce_sa1299"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HUS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HUS1"/> <bbox w="80.0" h="40.0" x="10673.346" y="16015.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa6_emtc_em_sa6" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa6_emtc_em_sa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TWIST1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TWIST1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TWIST1"/> <bbox w="60.0" h="20.0" x="3583.5" y="16144.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa115_ce_csa115" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E2F4_5*:p107*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="E2F4/p107*"/> <bbox w="93.0" h="110.0" x="12119.473" y="9499.356"/> <glyph class="macromolecule" id="s_id_ce_sa779_ce_sa779"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma-like 1 (p107)</p> <p>HUGO:RBL1, HGNC:9893, ENTREZ:5933, UNIPROT:P28749</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="p107*"/> <bbox w="80.0" h="40.0" x="12125.473" y="9542.856"/> <glyph class="state variable" id="_1bd9d693-0548-4662-96bc-200a2d8f860c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12197.973" y="9554.2705"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa778_ce_sa778"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E2F transcription factor 4, p107/p130-binding</p> <p>HUGO:E2F4, HGNC:3118, ENTREZ:1874, UNIPROT:Q16254</p> <p>E2F transcription factor 5, p130-binding</p> <p>HUGO:E2F5, HGNC:3119, ENTREZ:1875, UNIPROT:Q15329</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E2F4_5*"/> <bbox w="80.0" h="40.0" x="12125.473" y="9503.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa161_emtc_em_csa161" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2-XL*:p53*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic protines) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic protines)work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:12667443</p> <p>p53 induces apoptosis by target gene regulation and transcription-independent signaling.</p> <p>A fraction of induced p53 translocates to the mitochondria of apoptosing tumor cells. Targeting p53 to mitochondria is sufficient to launch apoptosis. </p> <p>Evidence that p53 translocation to the mitochondria occurs in vivo in irradiatedthymocytes was shown. </p> <p>Further, p53 can directly induce permeabilization of the outer mitochondrial membrane by forming complexes with the protective BCL2L1, resulting in cytochrome c release. </p> <p>p53 binds to BCL2L1 via its DNA binding domain. </p> <p>Tumor-derived transactivation-deficient mutants of p53 concomitantly lose the ability to interact with BCL2L1 and promote cytochrome c release. </p> <p>Fraction of induced p53 translocates to the mitochondria of apoptosing tumor cells. Targeting p53 to mitochondria is sufficient to launch apoptosis.</p> <p>p53 protein can directly induce permeabilization of the outer mitochondrial membrane by forming complexes with the protective BCL2L1 and BCL2 proteins, resulting in cytochrome c release.</p> <p>PMID:14963330</p> <p>In other hand, cytosolic localization of endogenous p53 was necessary and sufficient for apoptosis. p53 directly activated the pro-apoptotic BCL2 protein Bax in the absence of other proteins to permeabilize mitochondria and engage the apoptotic program.</p> <p>Binding of BCL2 or BCL2L1 to TP53 therefore antagonizes the activation of BAX via binding to TP53. Like this BCL2 and BCL2L1 also perform their anti-apoptotic effect.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa161_emtc_em_csa161"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22039431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12667443"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14963330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L1/TP53"/> <bbox w="128.0" h="43.0" x="5051.0" y="13544.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa912_emtc_em_sa912"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53 </p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:P04637, GENECARDS:GC17M007565</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21518799</p> <p>p53 activates MIR200C</p> <p>PMID:21483453</p> <p>p53 activates microRNAs</p> <p>PMID:21336307</p> <p>p53 activates MIR34</p> <p>PMID:17823410</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="p53*"/> <bbox w="42.0" h="16.0" x="5067.0" y="13550.0"/> <glyph class="state variable" id="_3ebf0449-b3de-4a71-bfa6-b31f5731a5c2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5104.0" y="13549.687"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa913_emtc_em_sa913"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1, HGNC:992, ENTREZ:598, UNIPROT:Q07817, GENECARDS:GC20M030252</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:12667443</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:22836101</p> <p>BCL2L1 (BCL-X) promotes survival of adult and developing retinal ganglion cells.</p> <p>The activation of the pro-death family member BAX is often the final step before cell death in neurons. </p> <p>Pro-survival family members such as BCL2L1 act to inhibit BAX activation</p> <p>PMID:23064052</p> <p>PMID:11085534</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers. </p> <p>In particular, BCL2L1 overexpression has been correlated with cancer cells resistance to chemotherapeutic agents</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="56.0" h="19.0" x="5121.5" y="13547.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1356_emtc_em_sa1356" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1356_emtc_em_sa1356"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<p>CELL:TCD8</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:14499263</p> <p>Five granzymes are expressed in human T cells (Grz A, B, H, K and M)</p> <p>GrzA and GrzK are trypsins (cleaving at basic residues arginine and lysine)</p> <p>GrzB is an aspase, cleaving after aspartic acid residues, and GrzH is a chymase, cleaving after hydrophobic residues such as phenylalanine.</p> <p> GrzM has a unique enzyme specificity, preferring cleavage after methionine, leucine, or isoleucine.</p> <p>The most extensively studied granzymes are A and B, for which the reader is referred to several recent reviews regarding their discovery, function, and mechanisms of action,</p> <p> Additional granzyme genes have also been described, but little is known about their functions, hence their designation as ‘orphans’. 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa316_emtc_em_sa128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14"/> <clone/> <bbox w="60.0" h="20.0" x="2741.5" y="17506.375"/> <glyph class="unit of information" id="_ddc473d0-4f80-4390-8960-eb900e95c0e9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2761.5" y="17501.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1973_in_sa1973" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="21185.0" y="3570.0"/> <glyph class="state variable" id="_346fbc4b-f63b-4f5c-9367-ac59ac898bdd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21180.0" y="3585.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2108_em_sa2108" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:18555778In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.PMID:18555777There is a positive feedback loop between IL6 and CEBP that help maintain the senescence stateConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:18555778In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.PMID:18555777There is a positive feedback loop between IL6 and CEBP that help maintain the senescence stateConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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</glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa2_wnc1_wnc3_sa2" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa2_wnc1_wnc3_sa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFATC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFAT1_2*"/> <bbox w="90.0" h="25.0" x="15375.061" y="20701.5"/> <glyph class="unit of information" id="_7a47f6cc-8590-4271-9718-6b32cadbe5e3"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15410.061" y="20696.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa104_ca_csa104" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CCL5:MIR214</p> </body> </html> </notes> <label text="ca_s4604"/> <bbox w="100.0" h="120.0" x="1530.0" y="3780.0"/> <glyph class="nucleic acid feature" id="s_id_ca_sa917_ca_sa917"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CCL5 </p> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION </p> <p>References:</p> <p>PMID:23171795</p> <p>Downregulation of miR-31 and miR-214 and upregulation of miR-155 was confirmed in all CAF and induced CAF samples;</p> <p>CCL5 is a Target of miR-214 . The CCL5 secreted by CAFs is a key tumor-promoting factor.</p> </body> </html> </notes> <label text="CCL5"/> <bbox w="90.0" h="25.0" x="1535.0" y="3827.5"/> <glyph class="unit of information" id="_95c4c157-12d8-422e-ac3a-9a7673851396"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1570.0" y="3822.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa916_ca_sa916"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>HUGO:MIR214Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:PMID:23171795Downregulation of miR-31 and miR-214 and upregulation of miR-155 was confirmed in all CAF and induced CAF samples;CCL5 is a Target of miR-214 . The CCL5 secreted by CAFs is a key tumor-promoting factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:PMID:23171795Downregulation of miR-31 and miR-214 and upregulation of miR-155 was confirmed in all CAF and induced CAF samples;CCL5 is a Target of miR-214 . The CCL5 secreted by CAFs is a key tumor-promoting factor. </body> </html> </notes> <label text="MIR214"/> <bbox w="90.0" h="25.0" x="1535.0" y="3797.5"/> <glyph class="unit of information" id="_7d4891df-ae4c-4230-9869-105f0deb592f"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="1565.0" y="3792.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa111_ad_csa111" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5165"/> <bbox w="100.0" h="120.0" x="29256.0" y="5335.0"/> <glyph class="macromolecule" id="s_id_ad_sa907_ad_sa907"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>HUGO:BCL10</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:18264101 </p> <p>Lymphocyte activation induces a smaller Bcl-10 isoform downstream of CD3 and CD28</p> <p>Formation of the faster migrating Bcl-10 isoform depends on its recruitment by CARMA1 and on the formation of CARMA1 oligomers.</p> <p>activation of the NF-B pathway by antigen-presenting cells or by drugs that mimic the antigen receptor signal does not require MALT1-dependent cleavage of Bcl-10 but most likely depends on other MALT1 substrates.</p> <p>After activation with either anti-CD3 and anti-CD28 or PMA, cells expressing the R228G mutant had less adhesion to fibronectin than did cells expressing wild-type Bcl-10</p> <p>(. In Jurkat T cells, adhesion to the 1 ligand fibronectin is mediated mainly by the integrin a4b1, with a minor contribution from a5b1)</p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>In the CARMA1–Bcl-10–MALT1 signaling complex, Bcl-10 acts as an adaptor protein that binds, through its caspase-recruitment domain (CARD), to the CARD motif of CARMA1 (refs. 6,7,8,9,10,11,12); this interaction leads to the recruitment of MALT1 and/or the stabilization of the MALT1-CARMA1 interaction13, 14, 15. The formation of the CARMA1–Bcl-10–MALT1 complex is central to antigen receptor–mediated activation of the NF-B pathway and thereby controls the antigen receptor–induced expression and secretion of cytokines that are essential for lymphocyte proliferation</p> <p>PMID:11356195; PMID:17052756 </p> <p>CARMA1 induces BCL10 phosphorylation (data from non immune cells)</p> <p>Phosphorylation of Bcl10 at S138 Negatively Regulates T-Cell Receptor-Mediated NF-κB Activation.</p> <p>CaMKII phosphorylates Bcl10 on Ser138. Furthermore, a CaMKII inhibitor, KN93, and CaMKII siRNA substantially reduce Bcl10 phosphorylation induced by phorbol myristate acetate/ionomycin. S138A mutation prolongs Bcl10-induced NF-κB activation, suggesting that Bcl10 phosphorylation is involved in attenuation of NF-κB activation.</p> <p>Phosphorylation of Bcl10, especially at Ser138, has been linked to a signal-induced degradation of Bcl10. </p> <p>PMID:16818229 </p> <p>IKK2 (IKBKB) phoshorylates BCL10 downstream of TCR.</p> <p>Mutation of the IKKbeta phosphorylation sites on Bcl10 enhances expression of NF-kappaB target genes IL-2 and TNFalpha after activation of primary T cells.</p> <p>PMID:21199863 </p> <p>The Ca2+-dependent Phosphatase Calcineurin Controls the Formation of the Carma1-Bcl10-Malt1 Complex during T Cell Receptor-induced NF-κB Activation.</p> <p>Mechanistically, the positive effect of calcineurin on the CBM complex formation seems to be linked to a dephosphorylation of Bcl10. </p> <p>PMID:17462996</p> </body> </html> </notes> <label text="BCL10"/> <bbox w="80.0" h="40.0" x="29266.0" y="5385.0"/> <glyph class="state variable" id="_15dea2dc-36a6-4528-b017-0026b12c49f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29261.0" y="5400.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa897_ad_sa897"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CRADD</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:22323537 </p> <p>The “Death” Adaptor CRADD/RAIDD Targets BCL10 and Suppresses Agonist-Induced Cytokine Expression in T Lymphocytes</p> </body> </html> </notes> <label text="CRADD"/> <bbox w="80.0" h="40.0" x="29266.0" y="5345.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa328_mo_sa328" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0as-related C3 botulinum toxin substrate 1 (rho family, small GTP binding 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rdf:resource="urn:miriam:hgnc.symbol:DVL3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15335.811" y="18052.0"/> <glyph class="state variable" id="_46c1c7ea-0978-4dc9-a988-eadd147ddcab"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15330.814" y="18087.0"/> </glyph> <glyph class="state variable" id="_cc1586f0-e16e-456b-a9b1-d6f36e243d4a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15407.944" y="18047.0"/> </glyph> <glyph class="state variable" id="_d70519e0-1b54-4442-a76c-26dada036f37"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="15400.192" y="18087.0"/> </glyph> <glyph class="state variable" id="_6fe7f7ae-3c97-48f7-bee9-5b69c0e2dbdb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15330.814" y="18047.0"/> </glyph> <glyph class="state variable" id="_f443a647-6b7a-402a-b731-d1979b830ce4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15410.811" y="18047.0"/> </glyph> <glyph class="state variable" id="_8542da37-b1be-47e7-988a-22d50b5c5a26"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15410.811" y="18087.0"/> </glyph> <glyph class="state variable" id="_8080cba1-712c-4110-b349-3da482762f37"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="15320.811" y="18086.72"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa13_wca1_wca1_csa13" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re12:(MAP:survival) PMID:10581160</p> <p>s_wca1_re16:(MAP:survival) PMID:17318175 PMID:19581931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa13_wca1_wca1_csa13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="163.0" x="20263.31" y="17693.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa65_wca1_wca1_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20356.81" y="17703.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa61_wca1_wca1_sa61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20274.31" y="17791.5"/> <glyph class="state variable" id="_c3b358f4-2f22-4794-a50c-b04554f08c96"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20262.303" y="17786.5"/> </glyph> <glyph class="state variable" id="_d0cff6ea-30b2-48b6-952e-5f6238c16f83"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20256.81" y="17826.22"/> </glyph> <glyph class="state variable" id="_aedab1cb-4f13-43be-8ca3-0057ba7f70b6"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20336.191" y="17826.5"/> </glyph> <glyph class="state variable" id="_7109443b-8f5a-4946-9827-6b90799abba7"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20257.303" y="17786.5"/> </glyph> <glyph class="state variable" id="_ccf48442-97a0-4537-aeee-f9e3d10aa1fd"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20336.81" y="17786.713"/> </glyph> <glyph class="state variable" id="_04d4471e-4a87-455d-88f3-fb79073e48ca"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20296.715" y="17826.5"/> </glyph> <glyph class="state variable" id="_453472a3-6ca2-4fa0-acb8-e4bd6687e34d"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20336.81" y="17825.633"/> </glyph> <glyph class="state variable" id="_642c702a-6333-4b32-85c7-cb2389640a87"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20296.842" y="17786.5"/> </glyph> <glyph class="state variable" id="_985a65ae-c0c1-4182-a31e-dc54afcba61e"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20256.81" y="17826.22"/> </glyph> <glyph class="state variable" id="_a2b9851e-4def-4ec1-8e39-7a2ddd4fb01c"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20257.303" y="17786.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa694_wca1_wca1_sa694"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20362.06" y="17781.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa60_wca1_wca1_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20272.31" y="17747.5"/> <glyph class="state variable" id="_de0c4cc3-00dd-4484-af95-e75ca238f74f"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20265.303" y="17742.5"/> </glyph> <glyph class="state variable" id="_970a3592-cebc-4c8e-ad28-3c7388ebb47f"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20344.81" y="17742.713"/> </glyph> <glyph class="state variable" id="_96e66c37-96f0-46e6-b777-0837984d5183"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20259.81" y="17782.22"/> </glyph> <glyph class="state variable" 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class="state variable" id="_e079df8e-de42-4838-ac2a-fdee1686fd92"> <state value="P" variable="S80"/> <bbox w="30.0" h="10.0" x="20257.803" y="17742.5"/> </glyph> <glyph class="state variable" id="_b3d7e201-b709-4750-8d38-5629841eab03"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="20339.191" y="17782.5"/> </glyph> <glyph class="state variable" id="_7220f6cd-7d13-4ea5-aba4-869479fcc9fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20267.314" y="17742.5"/> </glyph> <glyph class="state variable" id="_ea8da151-cd68-4df4-af02-3ecbc63d315d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20347.31" y="17742.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa428_wca1_wca1_sa428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20269.56" y="17704.0"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa693_wca1_wca1_sa693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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</annotation> </extension> <label text="DUSP1"/> <bbox w="50.0" h="25.0" x="10117.346" y="20392.143"/> <glyph class="state variable" id="_7332574d-e852-4c86-91f7-a745c4570deb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10112.346" y="20399.643"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1153_ad_sa1153" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:TCRMODULE:INHIBITING_CHECKPOINTSPMID:26885856 GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy. ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:TCRMODULE:INHIBITING_CHECKPOINTSPMID:26885856 GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1153_ad_sa1153"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TBX21"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa471_akt1_akt1_sa471"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="13886.561" y="18527.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa493_rc_csa493" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAX:IRE1-alpha*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa493_rc_csa493"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX:IRE1*"/> <bbox w="100.0" h="120.0" x="26941.248" y="12959.0"/> <glyph class="macromolecule" id="s_id_rc_sa5118_rc_sa5118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="45.0" x="26951.248" y="13016.5"/> <glyph class="state variable" id="_7ebddeee-6199-48a5-a140-4f853cdf1399"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27002.816" y="13011.5"/> </glyph> <glyph class="unit of information" id="_e70da5cf-0c32-4c97-bc2b-6b6ed358bd7a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26968.748" y="13011.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5117_rc_sa5117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="26951.248" y="12969.0"/> <glyph class="state variable" id="_27328e80-d139-4ec2-801d-962dd5bcf5da"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="26997.332" y="12964.0"/> </glyph> <glyph class="state variable" id="_420c5d1c-1cad-4aa6-861c-22d7cb0c8ed3"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="26997.568" y="13004.0"/> </glyph> <glyph class="state variable" id="_8e7c41c1-0865-4b11-8c9a-4bb68a39d587"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="26952.326" y="12964.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4442_rc_sa4442" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4442_rc_sa4442"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STK11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STK11"/> <bbox w="80.0" h="40.0" x="25963.541" y="11165.4"/> <glyph class="state variable" id="_76c093ed-ba56-45c8-ad18-c6e8ddd1eb21"> <state value="active" variable=""/> <bbox w="40.0" h="10.0" x="25983.541" y="11160.4"/> </glyph> <glyph class="state variable" id="_1546a11c-9485-49f8-8c66-eb703db68cc2"> <state value="?" variable="K48"/> <bbox w="30.0" h="10.0" x="26005.11" y="11160.4"/> </glyph> <glyph class="state variable" id="_3a248d73-6143-466e-bf88-04913b9b06c1"> <state value="?" variable="T366"/> <bbox w="35.0" h="10.0" x="25969.637" y="11160.4"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1566_in_sa1566" compartmentRef="s_id_in_ca12_in_ca12"> <label text="BIRC3"/> <bbox w="80.0" h="40.0" x="23475.0" y="3380.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1137_ad_sa1137" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11342610</p> <p>Protein kinase C-theta mediates a selective T cell survival signal via phosphorylation of BAD.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1137_ad_sa1137"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11342610"/> </rdf:Bag> </bqbiol:isEncodedBy> 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rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHO*"/> <bbox w="80.0" h="40.0" x="29189.06" y="9389.0"/> <glyph class="state variable" id="_6ba75936-cd6e-479c-9f34-891143ecdd16"> <state value="Ac" variable=""/> <bbox w="20.0" h="10.0" x="29219.06" y="9384.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa918_in_sa918" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SMAD2"/> <bbox w="80.0" h="40.0" x="9870.0" y="2335.0"/> <glyph class="state variable" id="_4577f7a3-2284-4a5a-9ecd-390238a7f8d6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9862.5" y="2349.9683"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa101_emtc_em_sa101" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa101_emtc_em_sa101"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Plakophilin3*"/> <bbox w="100.0" h="20.0" x="2940.0" y="16869.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1033_ca_sa1033" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION </p> <p>References:</p> <p>PMID:26206869 </p> <p>LOXL2 Is Highly Expressed in Cancer-Associated Fibroblasts and Associates to Poor Colon Cancer Survival.</p> <p>PMID:25128648 </p> <p>Lysyl oxidase-like 2 (LOXL2) from stromal fibroblasts stimulates the progression of gastric cancer</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1033_ca_sa1033"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LOXL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26206869"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25128648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LOXL2"/> <bbox w="80.0" h="40.0" x="5500.0" y="4750.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa153_emtc_em_csa153" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HIF1B*:HIF_alpha_*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:13130303</p> <p>Regulation of HIF-1a protein synthesis</p> <p>MNK phosphorylates eIF-4E and stimulates its activity directly. </p> <p>Active eIF-4E increases the rate of HIF1A-mRNA translation into HIF1A protein.</p> <p>PMID:16887934</p> <p>PMID:9159130</p> <p>HIF-1B (ARNT) is constitutively expressed and itsmRNA and protein are maintained at constant levels regardless of oxygen availability</p> <p>PMID:9278421</p> <p>HIF-1A protein has a short half-life (t1/2 = 5 min) and is highly regulated by oxygen</p> <p>PMID:9746763</p> <p>The transcription and synthesis of HIF-1B are constitutive and seem not to be affected by oxygen. </p> <p>PMID:7539918</p> <p>In normoxia, the HIF-1A proteins are rapidly degraded, resulting in essentially no detectable HIF-1A protein.</p> <p>PMID:8943284</p> <p>During hypoxia, HIF-1A becomes stabilized and translocates from the cytoplasm to the nucleus, where it dimerizes with HIF-1B and the HIF complex formed becomes transcriptionally active</p> <p>PMID:1823643</p> <p>The activated HIF complex then associates with HREs in the regulatory regions of target genes and binds the transcriptional coactivators to induce gene expression.</p> <p>PMID:15451019</p> <p>Tight regulation of the stability and subsequent transactivational function of HIF-1A is chiefly controlled by its post-translation modifications, such as hydroxylation, ubiquitination, acetylation, and phosphorylation</p> <p>The modification of HIF-1A occurs within several domains.</p> <p>PMID:10403805</p> <p>PMID:11566883</p> <p>PMID:12829734</p> <p>In normoxia, hydroxylation of 2 proline residues and acetylation of a lysine residue in its ODDD promote interaction of HIF-1A with the von Hippel-Lindau (pVHL) ubiquitin E3 ligase complex (Srinivas et al., 1999; Masson et al., 2001).</p> <p>PMID:12080085</p> <p>pVHL complex tags HIF-1A with ubiquitin and thereby marks it for degradation by the 26S proteasome. </p> <p>In addition, hydroxylation of an asparagine residue in the C-TAD inhibits the association of HIF-1A with CBP/p300 and thus inhibits its transcriptional activity (Lando et al., 2002a).</p> <p>http://www.sabiosciences.com/pathway.php?sn=HIF1Alpha_Pathway</p> <p>HIF1 consists of a heterodimer of two basic helix-loop-helix PAS (Per-ARNT-Sim) proteins, HIF-1A, and HIF-1B. </p> <p>HIF-1A accumulates under hypoxic conditions whereas HIF-1B. </p> <p>HIF-1A is an important mediator of the hypoxic response of tumor cells and controls the up-regulation of a number of factors important for solid tumor expansion including the angiogenic factor VEGF</p> <p>HIF-1B is the ARNT (Aryl hydrocarbon Receptor Nuclear Translocator), an essential component of the xenobiotic responseReferences_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa153_emtc_em_csa153"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13130303"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887934"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9159130"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9278421"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9746763"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7539918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8943284"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1823643"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15451019"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10403805"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11566883"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12080085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A/HIF1B*"/> <bbox w="88.0" h="45.0" x="4399.0" y="14970.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa867_emtc_em_sa867"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)</p> <p>HUGO:HIF1A, HGNC:4910, ENTREZ:3091, GENECARDS:GC14P062162, UNIPROT:Q16665</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>http://www.omicsonline.org/1948-5956/JCST-03-035.php</p> <p>HIF-1 is the Commander of Gateways to Cancer</p> <p>PMID:16887934</p> <p>PMID:9159130</p> <p>HIF-1B (ARNT) is constitutively expressed and itsmRNA and protein are maintained at constant levels regardless of oxygen availability</p> <p>PMID:9278421</p> <p>HIF-1A protein has a short half-life (t1/2 = 5 min) and is highly regulated by oxygen</p> <p>PMID:9746763</p> <p>The transcription and synthesis of HIF-1B are constitutive and seem not to be affected by oxygen. </p> <p>PMID:7539918</p> <p>In normoxia, the HIF-1A proteins are rapidly degraded, resulting in essentially no detectable HIF-1A protein.</p> <p>PMID:8943284</p> <p>During hypoxia, HIF-1A becomes stabilized and translocates from the cytoplasm to the nucleus, where it dimerizes with HIF-1B and the HIF complex formed becomes transcriptionally active</p> <p>PMID:1823643</p> <p>The activated HIF complex then associates with HREs in the regulatory regions of target genes and binds the transcriptional coactivators to induce gene expression.</p> <p>PMID:15451019</p> <p>Tight regulation of the stability and subsequent transactivational function of HIF-1A is chiefly controlled by its post-translation modifications, such as hydroxylation, ubiquitination, acetylation, and phosphorylation</p> <p>The modification of HIF-1A occurs within several domains.</p> <p>PMID:10403805</p> <p>PMID:11566883</p> <p>PMID:12829734</p> <p>In normoxia, hydroxylation of 2 proline residues and acetylation of a lysine residue in its ODDD promote interaction of HIF-1A with the von Hippel-Lindau (pVHL) ubiquitin E3 ligase complex (Srinivas et al., 1999; Masson et al., 2001).</p> <p>PMID:12080085</p> <p>pVHL complex tags HIF-1A with ubiquitin and thereby marks it for degradation by the 26S proteasome. </p> <p>In addition, hydroxylation of an asparagine residue in the C-TAD inhibits the association of HIF-1A with CBP/p300 and thus inhibits its transcriptional activity (Lando et al., 2002a).</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HIFα*"/> <bbox w="40.0" h="20.0" x="4403.0" y="14973.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa866_emtc_em_sa866"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>aryl hydrocarbon receptor nuclear translocator</p> <p>HUGO:ARNT, HGNC:700, ENTREZ:405, GENECARDS:GC01M150782, UNIPROT:P27540</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>http://www.omicsonline.org/1948-5956/JCST-03-035.php</p> <p>HIF-1 is the Commander of Gateways to Cancer</p> <p>PMID:16887934</p> <p>PMID:9159130</p> <p>HIF-1B (ARNT) is constitutively expressed and itsmRNA and protein are maintained at constant levels regardless of oxygen availability</p> <p>PMID:9278421</p> <p>HIF-1A protein has a short half-life (t1/2 = 5 min) and is highly regulated by oxygen</p> <p>PMID:9746763</p> <p>The transcription and synthesis of HIF-1B are constitutive and seem not to be affected by oxygen. </p> <p>PMID:7539918</p> <p>In normoxia, the HIF-1A proteins are rapidly degraded, resulting in essentially no detectable HIF-1A protein.</p> <p>PMID:8943284</p> <p>During hypoxia, HIF-1A becomes stabilized and translocates from the cytoplasm to the nucleus, where it dimerizes with HIF-1B and the HIF complex formed becomes transcriptionally active</p> <p>PMID:1823643</p> <p>The activated HIF complex then associates with HREs in the regulatory regions of target genes and binds the transcriptional coactivators to induce gene expression.</p> <p>PMID:15451019</p> <p>Tight regulation of the stability and subsequent transactivational function of HIF-1A is chiefly controlled by its post-translation modifications, such as hydroxylation, ubiquitination, acetylation, and phosphorylation</p> <p>The modification of HIF-1A occurs within several domains.</p> <p>PMID:10403805</p> <p>PMID:11566883</p> <p>PMID:12829734</p> <p>In normoxia, hydroxylation of 2 proline residues and acetylation of a lysine residue in its ODDD promote interaction of HIF-1A with the von Hippel-Lindau (pVHL) ubiquitin E3 ligase complex (Srinivas et al., 1999; Masson et al., 2001).</p> <p>PMID:12080085</p> <p>pVHL complex tags HIF-1A with ubiquitin and thereby marks it for degradation by the 26S proteasome. </p> <p>In addition, hydroxylation of an asparagine residue in the C-TAD inhibits the association of HIF-1A with CBP/p300 and thus inhibits its transcriptional activity (Lando et al., 2002a).</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HIF1B*"/> <bbox w="40.0" h="20.0" x="4445.0" y="14974.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa4234_rc_sa4234" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s5839"/> <bbox w="30.0" h="30.0" x="21484.06" y="9424.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa47_wnc1_wnc1_sa47" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa47_wnc1_wnc1_sa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARRB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARRB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Arrestin*"/> <bbox w="80.0" h="40.0" x="15005.061" y="17857.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa239_ce_sa239" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa239_ce_sa239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:REV1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="REV1"/> <bbox w="80.0" h="40.0" x="17126.768" y="15368.647"/> <glyph class="state variable" id="_00ec1e44-a558-4d59-954e-664f538b36d4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17199.268" y="15383.647"/> </glyph> <glyph class="state variable" id="_421a2cde-8fad-4b91-b2f6-eac9b8cd6f63"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17201.768" y="15363.647"/> </glyph> <glyph class="state variable" id="_76b92d6e-2148-44ab-992a-771ede686677"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17201.768" y="15403.647"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2713_in_sa2713" compartmentRef="s_id_in_ca47_in_ca47"> <label text="LY75"/> <bbox w="90.0" h="25.0" x="10278.75" y="140.0"/> <glyph class="unit of information" id="_c6dc5c4b-0461-4a74-8484-d88ba1622c58"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10313.75" y="135.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa3523_rc_sa3523" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s4561"/> <bbox w="30.0" h="30.0" x="24094.06" y="13744.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa291_emtc_em_csa291" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MDM2:SNAI2:p53*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:15140942</p> <p>Phosphorylations on p53 prevent its binding to MDM2.</p> <p>PMID:15574337</p> <p>S186 phosphorylation of MDM2 by AKT favors the binding of MDM2 to p53 and its following degradation.</p> <p>PMID:19448627</p> <p>Complex of p53, MDM2 and Slug faciliates the proteasomal degradation of Slug by MDM2.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa291_emtc_em_csa291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140942"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15574337"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19448627"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2/p53*/SNAI2"/> <bbox w="123.0" h="96.0" x="4659.0" y="14792.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1940_emtc_em_sa1940"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53 </p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:P04637, GENECARDS:GC17M007565</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21518799</p> <p>p53 activates MIR200C</p> <p>PMID:21483453</p> <p>p53 activates microRNAs</p> <p>PMID:21336307</p> <p>p53 activates MIR34</p> <p>PMID:17823410</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="p53*"/> <bbox w="39.0" h="19.0" x="4718.5" y="14794.5"/> <glyph class="state variable" id="_2cdaae45-b6ed-465a-852a-e72f14dee538"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4752.5" y="14795.065"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1941_emtc_em_sa1941"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mdm2 p53 binding protein homolog (mouse)</p> <p>HUGO:MDM2, HGNC:6973, ENTREZ:4193, UNIPROT:Q00987</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>MDM2 = ubiquitin-ligase, regulates p53 stability: induce its degradation via the proteasome.</p> <p>PMID:15024084</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MDM2"/> <bbox w="50.0" h="48.0" x="4696.0" y="14817.5"/> <glyph class="state variable" id="_15a1e14c-6b56-4db6-945f-00c61eaedb7b"> <state value="P" variable="S186"/> <bbox w="35.0" h="10.0" x="4678.5" y="14857.482"/> </glyph> <glyph class="state variable" id="_f16e3907-6816-49a3-9f3b-97e0e7296d56"> <state value="" variable="S395"/> <bbox w="30.0" h="10.0" x="4681.0" y="14815.383"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1939_emtc_em_sa1939"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>snail homolog 2 </p> <p>HUGO:SNAI2, HGNC:11094, ENTREZ:6591, UNIPROT:O43623, GENECARDS:GC08M049830</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22370643</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="SNAI2"/> <bbox w="40.0" h="20.0" x="4676.5" y="14794.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa88_in_csa88" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s1394"/> <bbox w="100.0" h="120.0" x="16245.0" y="4480.0"/> <glyph class="macromolecule" id="s_id_in_sa664_in_sa664"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RAP1A"/> <bbox w="80.0" h="40.0" x="16255.0" y="4500.0"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa665_in_sa665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="16263.0" y="4547.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1034_ca_sa1034" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_PRODUCTION </p> <p>References:</p> <p>CASCADE:PDGF</p> <p>PMID:23243022</p> <p>Quantitative real-time PCR (qRT-PCR) analyses of STC1 expression confirmed a 15-fold STC1-induction upon PDGF stimulation of fibroblasts</p> <p>STC1 expression by cancer-associated fibroblasts drives metastasis of colorectal cancer</p> <p>STC1-deficient fibroblasts displayed reduced intravasation of tumor cells along with fewer and smaller distant metastases formed.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1034_ca_sa1034"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23243022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STC1"/> <bbox w="80.0" h="40.0" x="4430.0" y="4746.0"/> </glyph> <glyph class="complex" id="s_id_in_csa344_in_csa344" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s4094"/> <bbox w="100.0" h="120.0" x="13590.0" y="1405.0"/> <glyph class="macromolecule" id="s_id_in_sa2624_in_sa2624"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>CASCADE:TNF, CASCADE:CSF2, CASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:IL8, CASCADE:TLR2_4</p> <p>MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>References:</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as VEGF, basic fibroblast growth factor (bFGF, also known as FGF2), tumour necrosis factor (TNF), interleukin 1 (IL1), chemokine (C-X-C motif) ligand 8 (CXCL8; also known as IL8), cyclooxygenase 2 (COX2, also known as PTGS2), plasminogen activator, urokinase (uPA, also known as PLAU), platelet derived growth factor beta.</p> <p>Release of the pro-angiogenic chemokines CXCL8 and CXCL1 by neutrophils is also triggered by TNF, and by granulocyte-macrophage colony-stimulating factor (GM-CSF, CSF2), platelet-activating factor and CXCL8 itself</p> <p> iDC in ovarian cancer ascites promote angiogenesis in vivo through production of TNF and CXCL8</p> <p> PMID:18980965</p> <p> Interleukin 8-stimulated phosphatidylinositol-3-kinase activity regulates the migration of human</p> <p>neutrophils</p> <p>PMID:15099563</p> <p>Mast cells produce heparin, interleukin-8 (IL-8) and vascular</p> <p>endothelial cell growth factor (VEGF), which induce</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL8*"/> <bbox w="80.0" h="40.0" x="13600.0" y="1415.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2623_in_sa2623"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CXCR1"/> <bbox w="80.0" h="50.0" x="13600.0" y="1460.0"/> <glyph class="unit of information" id="_808efa4d-5b84-467d-929d-35d6aae502bf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13617.5" y="1455.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa476_ca_sa476" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:FIBROBLAST_ACTIVATION_MARKERS References:CASCADE:TGFBPMID:23784029TGFB upregulates FSP1 (S100A4) expression via Smad2 and smad3PMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1, BMP4, IL6, CXCL7, IL6R,IL6ST,CXCL5 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:FIBROBLAST_ACTIVATION_MARKERS References:CASCADE:TGFBPMID:23784029TGFB upregulates FSP1 (S100A4) expression via Smad2 and smad3PMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1, BMP4, IL6, CXCL7, IL6R,IL6ST,CXCL5 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa476_ca_sa476"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S100A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S100A4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S100A4"/> <bbox w="90.0" h="25.0" x="1805.0" y="4027.5"/> <glyph class="unit of information" id="_ca47a290-daf3-46e5-8bc4-da296e8d8444"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="1840.0" y="4022.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_mo_sa35_mo_sa35" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="EMT & motility"/> <bbox w="107.0" h="45.0" x="2363.5" y="10018.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa955_ce_sa955" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa955_ce_sa955"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC16"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="10423.281" y="10094.0205"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1163_in_sa1163"> <label text="FN1"/> <bbox w="80.0" h="40.0" x="16810.0" y="1070.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2614_in_sa2614" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CXCR3"/> <bbox w="80.0" h="50.0" x="13510.0" y="1530.0"/> <glyph class="unit of information" id="_3a58873f-80d6-400d-9aaf-2b7857691bd3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13527.5" y="1525.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa219_in_sa219" compartmentRef="s_id_in_ca37_in_ca37"> <label text="GZMH"/> <bbox w="80.0" h="40.0" x="16785.0" y="7390.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1412_in_sa1412" compartmentRef="s_id_in_ca13_in_ca13"> <label text="SIRPA"/> <bbox w="80.0" h="50.0" x="12720.0" y="1315.0"/> <glyph class="unit of information" id="_3eea237a-da3e-4153-8b7b-91b131533745"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="12737.5" y="1310.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1355_ad_sa1355" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:21263073</p> <p>Among the three components of type I IFN-induced ISGF3 (STAT1, STAT2, and cytosolic IRF9),</p> <p> IRF9 contains the DNA-binding motif for ISRE. The chromatin precipitated by anti–IRF-9 was enriched in the PD-1 promoter of IFN-α–treated, but not nontreated, T cells, suggesting that the ISGF3 complex bound directly to the PD-1 promoter in activated primary T cells</p> <p>PMID:12796776</p> <p>expression of BTLA mRNA is partially dependent on STAT1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1355_ad_sa1355"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21263073"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12796776"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="STAT1"/> <bbox w="80.0" h="40.0" x="26266.0" y="2905.0"/> <glyph class="state variable" id="_2b13c8ec-5bbc-4008-a767-3d478b6804fd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26261.0" y="2920.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1947_emtc_em_sa1947" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1947_emtc_em_sa1947"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NF-κB_p65*"/> <bbox w="80.0" h="40.0" x="3486.0" y="12838.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_an_sa328_an_sa328" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="ANGPT1"/> <bbox w="90.0" h="25.0" x="7116.0" y="7763.0"/> <glyph class="unit of information" id="_062afae5-8e24-411e-800a-a3a890e0c642"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="7151.0" y="7758.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh3_csa12_shh1_shh3_csa12" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:C-FES*:p110*:p85*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh3_re15(MAP:survival):</p> <p>PMID:11801735</p> <p>PMID:19082481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh3_csa12_shh1_shh3_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11801735"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19082481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="c-Fes_PI3K"/> <bbox w="103.0" h="159.0" x="27268.06" y="23070.0"/> <glyph class="macromolecule multimer" id="s_id_shh1_shh3_sa65_shh1_shh3_sa65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fes</p> <p>HUGO:FES HGNC:3657 ENTREZ:2242 UNIPROT:P07332 GENECARDS:FES REACTOME:54750 KEGG:2242 ATLASONC:GC_FES WIKI:FES</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17549397</p> <p>PMID:19082481</p> <p>PMID:11801735</p> </body> </html> </notes> <label text="C-FES*"/> <bbox w="86.0" h="46.0" x="27278.107" y="23162.795"/> <glyph class="unit of information" id="_497e0dad-0745-432d-ac0d-07f69945a284"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="27311.107" y="23157.795"/> </glyph> <glyph class="state variable" id="_5a05bd87-6d11-47d6-a731-4de412ab0ec1"> <state value="P" variable="Y713"/> <bbox w="35.0" h="10.0" x="27261.137" y="23157.795"/> </glyph> <glyph class="state variable" id="_0cadccc1-5cda-4c82-b453-b2f2d8163a15"> <state value="P" variable="Y811"/> <bbox w="35.0" h="10.0" x="27346.607" y="23158.041"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa62_shh1_shh3_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, alpha polypeptide</p> <p>HUGO:PIK3CA HGNC:8975 ENTREZ:5290 UNIPROT:P42336 GENECARDS:PIK3CA REACTOME:61074 KEGG:5290 ATLASONC:PIK3CAID415ch3q26 WIKI:PIK3CA </p> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, delta polypeptide</p> <p>HUGO:PIK3CD HGNC:8977 ENTREZ:5293 UNIPROT:O00329 GENECARDS:PIK3CD REACTOME:61078 KEGG:5293 ATLASONC:PIK3CDID46261ch1p36 WIKI:PIK3CD </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-45-bisphosphate 3-kinase catalytic subunit alpha</p> <p>"phosphoinositide-3-kinase catalytic alpha polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="p110*"/> <bbox w="80.0" h="40.0" x="27279.06" y="23120.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh3_sa61_shh1_shh3_sa61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, regulatory subunit 1 (alpha)</p> <p>HUGO:PIK3R1 HGNC:8979 ENTREZ:5295 UNIPROT:P27986 GENECARDS:PIK3R1 REACTOME:61192 KEGG:5295 ATLASONC:PIK3R1ID41717ch5q13 WIKI:PIK3R1 </p> <p>phosphoinositide-3-kinase, regulatory subunit 2 (beta)</p> <p>HUGO:PIK3R2 HGNC:8980 ENTREZ:5296 UNIPROT:O00459 GENECARDS:PIK3R2 REACTOME:61194 KEGG:5296 ATLASONC:GC_PIK3R2 WIKI:PIK3R2 </p> <p>phosphoinositide-3-kinase, regulatory subunit 3 (gamma)</p> <p>HUGO:PIK3R3 HGNC:8981 ENTREZ:8503 UNIPROT:Q92569 GENECARDS:PIK3R3 REACTOME:61182 KEGG:8503 ATLASONC:GC_PIK3R3 WIKI:PIK3R3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16847462</p> <p>PMID:19568798</p> </body> </html> </notes> <label text="p85*"/> <bbox w="80.0" h="40.0" x="27279.06" y="23078.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa355_in_sa355" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR10B"/> <bbox w="90.0" h="25.0" x="20325.0" y="507.5"/> <glyph class="unit of information" id="_5ac7d68f-a481-4088-98ed-0321ec78fa08"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20355.0" y="502.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa5394_rc_sa5394" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>secreted by Gram negtive bacteria as Escherichia coli, Citrobacter rodentium, Vibrio cholerae</p> <p>PMID:27984721</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5394_rc_sa5394"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27984721"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="bacterial lipopolysaccharide (LPS)"/> <bbox w="220.0" h="25.0" x="28209.06" y="9086.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa190_akt1_akt2_sa190" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa190_akt1_akt2_sa190"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p19INK4D*"/> <bbox w="70.0" h="25.0" x="12591.561" y="21447.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa60_wca1_wca1_csa60" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:PtdIns</p> <p>References:</p> <p>s_wca1_re59:(MAP:survival) PMID:21304492</p> <p>s_wca1_re76(MAP:survival):</p> <p>PMID:21498506</p> <p>Cell contacts has positive influence on the function of membrane bound AMER1</p> <p>s_wca1_re33(MAP:survival):</p> <p>PMID:19561074 PMID:20460648 PMID:19581931 PMID:21304492 PMID:21498506</p> <p>AMER1 recruits axin</p> <p>s_wca1_re74:(MAP:survival) PMID:21498506 PMID:17925382</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa60_wca1_wca1_csa60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17925382"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMER1*:PtdIns"/> <bbox w="97.0" h="92.0" x="22681.06" y="18241.0"/> <glyph class="simple chemical" id="s_id_wca1_wca1_sa576_wca1_wca1_sa576"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="22697.06" y="18242.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa575_wca1_wca1_sa575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22689.06" y="18271.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4978_rc_sa4978" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4978_rc_sa4978"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP2A2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP2A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SERCA*"/> <bbox w="80.0" h="40.0" x="27815.154" y="12929.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa505_rc_sa505" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa505_rc_sa505"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR34A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34A"/> <bbox w="90.0" h="25.0" x="19915.41" y="15718.734"/> <glyph class="unit of information" id="_5647a623-de2c-4073-bfd6-f2c34737aae3"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="19945.41" y="15713.734"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3780_rc_sa3780" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:28087</p> <p>References:</p> <p>PMID:22248338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3780_rc_sa3780"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22248338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Glycogen"/> <bbox w="70.0" h="25.0" x="18084.06" y="9676.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5289_rc_sa5289" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5289_rc_sa5289"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NQO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NQO1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NQO1"/> <bbox w="70.0" h="25.0" x="25494.06" y="16146.5"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa132_emtc_em_sa132" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:15151915</p> <p>Tight cell juntions serve as a physical barrier to prevent solutes and water from passing freely through the paracellular space between epithelial or endothelial cell sheets.</p> <p>Multicellular organisms are separated from the external environment by a layer of epithelial cells</p> <p>The integrity of these epithelial cells is maintained by intercellular junctional complexes (tight junctions, adherens junctions, and desmosomes, </p> <p>whereas gap junctions provide for intercellular communication.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa132_emtc_em_sa132"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15151915"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Tight junctions"/> <bbox w="110.0" h="20.0" x="893.0" y="15181.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa827_ca_sa827"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa827_ca_sa827"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF3"/> <bbox w="80.0" h="40.0" x="4850.0" y="550.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa213_ce_sa213" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa213_ce_sa213"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WDR48"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UAF1*"/> <bbox w="80.0" h="40.0" x="16727.443" y="16369.89"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2066_emtc_em_sa2066" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2066_emtc_em_sa2066"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT2"/> <bbox w="61.0" h="20.0" x="3788.0" y="14392.5"/> <glyph class="unit of information" id="_dede1a8f-0e28-4219-99d2-4c20bd6866fa"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3808.5" y="14387.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa213_emtc_em_csa213" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA1:ZO2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:15980428</p> <p>PMID:19284610</p> <p>The associations between Cx43 and ZO-1 and ZO-2 proteins were shown to be under cell-cycle stage-specific control. </p> <p>Connexin 43 interacts preferentially</p> <p>with ZO-1 during G0 stage, whereas the interaction with ZO-2 is approximately the same during the various stages</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa213_emtc_em_csa213"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15980428"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19284610"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA1/ZO2*"/> <bbox w="100.0" h="40.0" x="1611.0" y="17452.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1383_emtc_em_sa1383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tight junction protein 2</p> <p>HUGO:TJP2, HGNC:11828, ENTREZ:9414, GENECARDS:GC09P071766, UNIPROT:Q9UDY2 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO2*"/> <bbox w="40.0" h="20.0" x="1666.0" y="17453.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1382_emtc_em_sa1382"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 1, 43kDa</p> <p>HUGO:GJA1, HGNC:4274, ENTREZ:2697, UNIPROT:P17302, GENECARDS:GC06P121756  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:16359940</p> <p>PMID:14576341</p> <p>Among the Connexins, Cx43 (GJA1) is the most ubiquitously expressed. </p> <p>Cx43 is endogenously expressed in at least 35 distinct tissues encompassing over 35 cell types that include cardiomyocytes, keratinocytes, astrocytes, endothelial cells and smooth-muscle cells among many others. </p> <p>Cx43 co-oligomerize with other Connexins like Cx26 (GJB2, keratinocytes and hepatocytes), Cx31 (GJB5, keratinocytes), Cx45 (GJC1, myocardium) and Cx46 (GJA3, trans-Golgi network). </p> <p>However Cx43 is unable to co-oligomerize with Cx32 (GJB1).</p> <p>PMID:16492141</p> <p>Binding partners proteins of Connexin 43 (GJA1):</p> <p>-Kinases: v-Src, c-Src, PKC, PKA, MAPK, Casein kinase 1, Cdc2 kinase</p> <p>-TIGHT_JUNCTIONS scaffold proteins: ZO1, ZO2, caveolin 1</p> <p>-Cytoskeleton: b-catenin, a-tubulin, b-tubulin</p> <p>-Others: Drebrin, NOV, CIP85</p> <p>Cx43 binds with ZO-1 and ZO-2, at different stages of the cell cycle to regulate Gap Junctions size and stability; </p> <p>Cx43 interacts directly with b-Catenin to regulate Gap junctional intercelullar communication cross-talk activity with the WNT signaling (essential for cell survival);</p> <p>Binding of CIP85 to Cx43 regulates the turnover of Cx43-containing Gap Junctions, stabilizing the junctions. </p> <p>Drebrin 1 (Actin-binding protein) binds Cx43 and links Gap junctions to the sub-membrane cytoskeleton</p> <p>Other cytoskeletal proteins like a and b-Tubulin bind with Cx43 to facilitate Connexion transport. </p> <p>Binding of NOV to the C-terminus of Cx43 potentially regulates growth suppression. </p> <p>Binding of Cx43 to Caveolin-1 may play a role in internalization of Cx43. </p> <p>Connexin-specific selectivity:</p> <p>Homomeric Connexons made up of Cx32 are permeable both to cAMP and cGMP </p> <p>Heteromeric Connexons containing both Cx26 (GJB2) and Cx32 are not permeable to cAMP but allow passage of cGMP</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA1"/> <bbox w="39.0" h="16.0" x="1614.5" y="17453.5"/> <glyph class="state variable" id="_7ace019c-9af6-434e-9fe9-fda2b67788ba"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1648.3213" y="17448.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa32_mo_csa32" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="RagGTPases"/> <bbox w="120.0" h="165.0" x="5121.0" y="9130.5"/> <glyph class="macromolecule" id="s_id_mo_sa446_mo_sa446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rag guanine nucleotide exchange factor</p> </body> </html> </notes> <label text="Rag A/B*"/> <bbox w="80.0" h="40.0" x="5141.0" y="9135.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa445_mo_sa445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rag guanine nucleotide exchange factor</p> </body> </html> </notes> <label text="Rag C/D*"/> <bbox w="80.0" h="40.0" x="5141.0" y="9205.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa2074_emtc_em_sa2074" compartmentRef="s_id_emtc_em_ca36_emtc_em_ca36"> <label text="Protosomal degradation of p27KIP1*"/> <bbox w="30.0" h="30.0" x="3998.0" y="13787.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa553_mpk1_mpk1_sa553" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa553_mpk1_mpk1_sa553"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DUSP5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DUSP5"/> <bbox w="60.0" h="27.0" x="8362.632" y="20609.143"/> <glyph class="state variable" id="_f87435d8-a197-42fc-8df5-3d6d6314a5f7"> <state value="*" variable=""/> <bbox w="15.0" h="10.0" x="8355.132" y="20617.643"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1905_emtc_em_sa1905" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1905_emtc_em_sa1905"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMI1"/> <bbox w="42.0" h="16.0" x="2628.5" y="16528.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa56_wnc1_wnc1_csa56" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRICKLE1:PRR*:RACK1*:ROR2:SMURF1:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re89(MAP:survival):</p> <p>Ubiquitination of Prickle by Smurf</p> <p>PMID:19379695</p> <p>PMID:20930545</p> <p>s_wnc1_re111(MAP:survival):</p> <p>Rspo is required for clathrin-mediated endocytosis</p> <p>PMID:21397842</p> <p>It has been shown that Dvl polymers are not associated with vesicles, therefore endocytosis of the complex is likely to be after Dvl polymerisation.</p> <p>PMID:16263762</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa56_wnc1_wnc1_csa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20930545"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16263762"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl"/> <bbox w="358.0" h="203.0" x="16610.56" y="20037.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa457_wnc1_wnc1_sa457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD specific E3 ubiquitin protein ligase 1</p> <p>HUGO:SMURF1 HGNC:16807 ENTREZ:57154 UNIPROT:Q9HCE7 GENECARDS:SMURF1 REACTOME:414424 ATLASONC:GC_SMURF1 WIKI:SMURF1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="SMURF1"/> <bbox w="80.0" h="40.0" x="16713.56" y="20170.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa452_wnc1_wnc1_sa452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="16801.56" y="20169.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa454_wnc1_wnc1_sa454"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16621.56" y="20107.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa453_wnc1_wnc1_sa453"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16614.56" y="20054.5"/> <glyph class="state variable" id="_d685e3c8-b5a1-40e0-98bd-942b86918afb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16609.564" y="20049.5"/> </glyph> <glyph class="state variable" id="_245ea535-7035-4b75-a97b-f01b947ef6fc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16689.56" y="20049.5"/> </glyph> <glyph class="state variable" id="_9fd75edd-0e8b-4cab-aa7f-d4bca9b96963"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16689.56" y="20074.5"/> </glyph> <glyph class="state variable" id="_5ef586d8-ff22-4073-920c-d157d797e125"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16609.56" y="20074.5"/> </glyph> <glyph class="unit of information" id="_775ca1ff-f1cb-439d-bcfb-85c438829688"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16632.06" y="20049.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa456_wnc1_wnc1_sa456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16625.56" y="20191.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa443_wnc1_wnc1_sa443"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="16778.06" y="20066.0"/> <glyph class="unit of information" id="_040c618f-d35e-4639-ac3a-72671330969a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16795.56" y="20061.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa455_wnc1_wnc1_sa455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16623.56" y="20151.5"/> <glyph class="state variable" id="_631c9eca-ccb2-4490-9eda-6f0428cc1b57"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16696.06" y="20146.5"/> </glyph> <glyph class="state variable" id="_3963384f-5134-40ef-84f8-00dc6118ae47"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="16613.564" y="20146.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa616_wnc1_wnc1_sa616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="16794.56" y="20123.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa450_wnc1_wnc1_sa450"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="16882.56" y="20041.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa444_wnc1_wnc1_sa444"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="16859.06" y="20066.0"/> <glyph class="state variable" id="_6a0382e3-bad5-4488-968f-e3a08ca498de"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="16924.06" y="20061.266"/> </glyph> <glyph class="state variable" id="_9c92d264-badb-44be-bf77-6f9211a018da"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16894.06" y="20111.0"/> </glyph> <glyph class="state variable" id="_373d6561-4333-4520-a616-36e341cf7855"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16854.064" y="20061.0"/> </glyph> <glyph class="state variable" id="_4322188b-9da7-4a20-b662-691e33549482"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16934.06" y="20111.0"/> </glyph> <glyph class="unit of information" id="_37165bda-fb9d-492d-8e5d-d4fde9e6c4f5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16876.56" y="20061.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa547_wnc1_wnc1_sa547"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16878.31" y="20176.5"/> <glyph class="state variable" id="_f6a13c25-f90f-498c-a8ea-32b7df8f9931"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16873.314" y="20211.5"/> </glyph> <glyph class="state variable" id="_cb5a1a30-5e4b-4171-9244-db88946c98a6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16950.443" y="20171.5"/> </glyph> <glyph class="state variable" id="_af7ec858-43e9-4e84-9ca3-87d73d21e9c5"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16942.691" y="20211.5"/> </glyph> <glyph class="state variable" id="_7d4ea8b9-7c64-4f0f-ba39-3573bbc1942c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16873.314" y="20171.5"/> </glyph> <glyph class="state variable" id="_48f6edda-0ab7-4a47-80d1-43362b8af202"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16953.31" y="20171.5"/> </glyph> <glyph class="state variable" id="_459a9875-82d1-4bd3-b703-e300428bd918"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16953.31" y="20211.5"/> </glyph> <glyph class="state variable" id="_e64337c5-9b64-4189-9fc5-5599a8815b9a"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16863.31" y="20211.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa547_wnc1_wnc1_sa546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16881.31" y="20129.5"/> <glyph class="state variable" id="_35cec6d8-7e03-4fed-b02d-7ddf5ab4cf56"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16876.314" y="20164.5"/> </glyph> <glyph class="state variable" id="_64116df8-cdc1-4bc6-ad67-48fcb1044462"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16953.443" y="20124.5"/> </glyph> <glyph class="state variable" id="_1327013b-6c71-49f8-a6bb-98a8993b1f62"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16945.691" y="20164.5"/> </glyph> <glyph class="state variable" id="_38f9a9f1-d9c0-4be4-9652-90054029f022"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16876.314" y="20124.5"/> </glyph> <glyph class="state variable" id="_7c55a517-f6a7-45c6-b1ef-9a1b5e57566c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16956.31" y="20124.5"/> </glyph> <glyph class="state variable" id="_9f58b468-db84-4c01-a65c-4b09778e8637"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16956.31" y="20164.5"/> </glyph> <glyph class="state variable" id="_0535835b-f449-466d-ab53-8e09771c56ed"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16866.31" y="20164.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa445_wnc1_wnc1_sa445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="16840.06" y="20042.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa446_wnc1_wnc1_sa446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16710.56" y="20117.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa451_wnc1_wnc1_sa451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16695.56" y="20059.5"/> <glyph class="unit of information" id="_0797f99a-5302-4451-aec9-980fb00104fc"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16713.06" y="20054.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa28_shh1_shh1_csa28" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI3-190*:SUFU:ULK3</p> </body> </html> </notes> <label text="GLI3-190_SUFU_ULK3"/> <bbox w="188.0" h="136.0" x="26664.06" y="18897.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa208_shh1_shh1_sa208"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="26683.31" y="18917.0"/> <glyph class="state variable" id="_161c2525-3681-4aae-98a5-435311a845a0"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="26668.803" y="18912.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa116_shh1_shh1_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 3</p> <p>HUGO:GLI3 HGNC:4319 ENTREZ:2737 UNIPROT:P10071 GENECARDS:GLI3 KEGG:2737 ATLASONC:GC_GLI3 WIKI:GLI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI3-190*"/> <bbox w="165.0" h="41.0" x="26678.883" y="18963.47"/> <glyph class="state variable" id="_903f2bc1-f0ab-48e7-86be-aa1efff3c7c6"> <state value="P" variable="S877"/> <bbox w="35.0" h="10.0" x="26825.107" y="18999.47"/> </glyph> <glyph class="state variable" id="_9d55bc95-4a27-4f3b-9b3c-171ffbcc45f0"> <state value="P" variable="S903"/> <bbox w="35.0" h="10.0" x="26745.336" y="18999.47"/> </glyph> <glyph class="state variable" id="_216ec8a5-0cbd-45bf-9bec-20a79bd7d636"> 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variable" id="_b0a92977-f095-456d-9897-62582a4548e1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26679.158" y="18999.47"/> </glyph> <glyph class="state variable" id="_e9d3763a-bcaa-4c6f-a3bb-fae32c6facdf"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="26720.404" y="18958.47"/> </glyph> <glyph class="state variable" id="_4725cecb-577f-4ab0-b36b-958a6c4858e8"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="26733.867" y="18958.47"/> </glyph> <glyph class="state variable" id="_31c3e8be-ded5-4f0e-a81a-fd8d71ec8e10"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="26668.883" y="18975.207"/> </glyph> <glyph class="state variable" id="_a5cc9d9f-bc6f-4460-b7d7-e1e5656d964a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26705.893" y="18958.47"/> </glyph> <glyph class="state variable" id="_d40bba9f-9736-4c13-a4d4-ec6efc6505ba"> <state value="P" variable="S910"/> <bbox w="35.0" h="10.0" x="26661.879" y="18999.47"/> </glyph> <glyph class="state variable" id="_61c6c3d6-c60d-4ba6-b9c4-81c9db6f2855"> <state value="P" variable="S1006"/> <bbox w="40.0" h="10.0" x="26658.883" y="18973.482"/> </glyph> <glyph class="state variable" id="_ce61953a-c2e9-4c2b-9cab-ef6331bcaebb"> <state value="P" variable="S980"/> <bbox w="35.0" h="10.0" x="26661.383" y="18981.201"/> </glyph> <glyph class="state variable" id="_f3802ff4-4cec-44ee-a634-9981b6289f6e"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="26700.893" y="18958.47"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa209_shh1_shh1_sa209"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>Unc-51-like kinase</p> </body> </html> </notes> <label text="ULK3"/> <bbox w="80.0" h="40.0" x="26766.81" y="18919.0"/> <glyph class="state variable" id="_a2b0a89f-c3f0-4953-b18c-953c40ae6503"> <state value="" variable="S300"/> <bbox w="30.0" h="10.0" x="26752.303" y="18914.0"/> </glyph> <glyph class="state variable" id="_c4260d9c-8fc1-4890-b08a-2d1831bb357b"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="26831.191" y="18954.0"/> </glyph> <glyph class="state variable" id="_a2f913f9-56cd-43ff-85cd-a099d546ae5a"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="26751.81" y="18953.72"/> </glyph> <glyph class="state variable" id="_9544a717-2b64-4edb-b1ec-a2b61de10f1f"> <state value="" variable="S350"/> <bbox w="30.0" h="10.0" x="26831.81" y="18914.213"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2514_rc_sa2514" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2514_rc_sa2514"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TMEM70"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TMEM70"/> <bbox w="80.0" h="40.0" x="20186.81" y="13818.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa53_ce_csa53" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RAD51:XRCC2:XRCC3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="RAD51/XRCC2/XRCC3"/> <bbox w="118.0" h="170.0" x="14879.473" y="16119.356"/> <glyph class="macromolecule" id="s_id_ce_sa598_ce_sa598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), RAD51A</p> <p>HUGO:RAD51, HGNC:9817, ENTREZ:5888, UNIPROT:Q06609</p> <p>RAD51-like 1 (S. cerevisiae), RAD51B</p> <p>HUGO:RAD51L1, HGNC:9822, ENTREZ:5890, UNIPROT:Q86U92</p> <p>RAD51 homolog C (S. cerevisiae)</p> <p>HUGO:RAD51C, HGNC:9820, ENTREZ:5889, UNIPROT:O43502</p> <p>RAD51-like 3 (S. cerevisiae), RAD51D</p> <p>HUGO:RAD51L3, HGNC:9823, ENTREZ:5892, UNIPROT:O94908</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="RAD51"/> <bbox w="80.0" h="40.0" x="14896.33" y="16139.252"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa600_ce_sa600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 3</p> <p>HUGO:XRCC3, HGNC:12830, ENTREZ:7517, UNIPROT:O43542</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="XRCC3"/> <bbox w="80.0" h="40.0" x="14896.33" y="16224.252"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa599_ce_sa599"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 2</p> <p>HUGO:XRCC2, HGNC:12829, ENTREZ:7516, UNIPROT:O43543</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="XRCC2"/> <bbox w="80.0" h="40.0" x="14896.33" y="16182.252"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4361_rc_sa4361" compartmentRef="s_id_rc_ca31_rc_ca31"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4361_rc_sa4361"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG7"/> <bbox w="80.0" h="40.0" x="28797.31" y="11996.083"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa205_an_sa205" compartmentRef="s_id_an_ca1_an_ca1"> <label text="Lysophosphatidylcohine"/> <bbox w="195.0" h="33.0" x="4551.5" y="7203.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa45_wca1_wca4_sa45" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa45_wca1_wca4_sa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FZD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FZD3"/> <bbox w="90.0" h="25.0" x="23659.06" y="21367.5"/> <glyph class="unit of information" id="_4232381b-da0a-4b5f-9716-ef9134c9a936"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23694.06" y="21362.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa30_ce_csa30" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BARD1:BRCA1:BRCA2:BRIT1*:DSS1*:FANCD2:FANCN*:RAD51:RAD52:SFPQ:XRCC2:XRCC3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="BARD1/BRCA1/BRACA2/BRIT1*/DSS1*/FANCD2/FANCN*/RAD51/RAD52/SFPQ/XRCC2/XRCC3"/> <bbox w="380.0" h="199.0" x="14265.473" y="15827.356"/> <glyph class="macromolecule" id="s_id_ce_sa500_ce_sa500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD52 homolog (S. cerevisiae)</p> <p>HUGO:RAD52, HGNC:9824, ENTREZ:5893, UNIPROT:P43351</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For SSA pathway</p> <p>PMID:19473888, PMID:12947387</p> <p>RAD52 in SSA pathway is acting as RAD51 in HR. RAD52 is a key factor initating SSA pathway</p> <p>PMID:11571269, PMID:20081207</p> </body> </html> </notes> <label text="RAD52"/> <bbox w="80.0" h="40.0" x="14319.739" y="15920.594"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa501_ce_sa501"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>"Fanconi anemia, complementation group N"</p> <p>HUGO:PALB2, HGNC:26144, ENTREZ:79728, UNIPROT:Q86YC2</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:22505525</p> <p>Parthner and localizer of BRCA2. For Fancony anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="FANCN*"/> <bbox w="80.0" h="40.0" x="14325.111" y="15964.249"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa503_ce_sa503"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1 associated RING domain 1</p> <p>HUGO:BARD1, HGNC:952, ENTREZ:580, UNIPROT:Q99728</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="BARD1"/> <bbox w="80.0" h="40.0" x="14317.649" y="15840.202"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa502_ce_sa502"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group D2</p> <p>HUGO:FANCD2, HGNC:3585, ENTREZ:2177, UNIPROT:Q9BXW9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22751496, PMID:23444773, PMID:20723763</p> </body> </html> </notes> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="14406.723" y="15922.856"/> <glyph class="state variable" id="_5f89faec-6e68-4e98-8ae9-f69aa32b9893"> <state value="Ub" variable="K561"/> <bbox w="40.0" h="10.0" x="14426.627" y="15957.856"/> </glyph> <glyph class="state variable" id="_a95a9662-f801-418b-9506-58c6c589af8c"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="14432.555" y="15917.856"/> </glyph> <glyph class="state variable" id="_8a21cb34-4221-441d-9d11-5da130584a63"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14399.223" y="15929.572"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1415_ce_sa1415"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCT-repeat inhibitor of TERT expression 1 (BRIT1), Microcephalin(MCPH1)</p> <p>HUGO:MCPH1, HGNC:6954, ENTREZ:79648, UNIPROT:Q8NEM0</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR</p> <p>References:</p> <p>PMID:20376879, PMID:15220350, PMID:19525936, PMID:18660752</p> </body> </html> </notes> <label text="BRIT1*"/> <bbox w="80.0" h="40.0" x="14410.473" y="15965.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa508_ce_sa508"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 2</p> <p>HUGO:XRCC2, HGNC:12829, ENTREZ:7516, UNIPROT:O43543</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="XRCC2"/> <bbox w="80.0" h="40.0" x="14493.919" y="15880.548"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa504_ce_sa504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14318.957" y="15880.472"/> <glyph class="state variable" id="_2f56ae1d-7552-4ef3-bfc1-39f60588437c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14391.043" y="15915.472"/> </glyph> <glyph class="state variable" id="_56d204f6-8315-471f-b89e-826d76393a9f"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="14358.818" y="15875.472"/> </glyph> <glyph class="state variable" id="_eedbcf69-2764-4461-9e42-9ff0b7c3d8c9"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="14320.584" y="15875.472"/> </glyph> <glyph class="state variable" id="_8cba1063-3ab5-44cf-b80d-67bfac3e0704"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14338.709" y="15875.472"/> </glyph> <glyph class="state variable" id="_151c7e0c-624b-4e72-b914-eb840c8e4d10"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14301.457" y="15895.439"/> </glyph> <glyph class="state variable" id="_9ceb2cbb-5acd-414e-8730-3bdc4624ac79"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14303.957" y="15910.942"/> </glyph> <glyph class="state variable" id="_7725f2fc-f552-4858-ac44-fde5dc327735"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14381.457" y="15880.711"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa505_ce_sa505"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 2, early onset, FANCD1</p> <p>HUGO:BRCA2, HGNC:1101, ENTREZ:675, UNIPROT:P51587</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="BRCA2"/> <bbox w="80.0" h="40.0" x="14408.826" y="15841.491"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa507_ce_sa507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), RAD51A</p> <p>HUGO:RAD51, HGNC:9817, ENTREZ:5888, UNIPROT:Q06609</p> <p>RAD51-like 1 (S. cerevisiae), RAD51B</p> <p>HUGO:RAD51L1, HGNC:9822, ENTREZ:5890, UNIPROT:Q86U92</p> <p>RAD51 homolog C (S. cerevisiae)</p> <p>HUGO:RAD51C, HGNC:9820, ENTREZ:5889, UNIPROT:O43502</p> <p>RAD51-like 3 (S. cerevisiae), RAD51D</p> <p>HUGO:RAD51L3, HGNC:9823, ENTREZ:5892, UNIPROT:O94908</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="RAD51"/> <bbox w="80.0" h="40.0" x="14498.919" y="15840.548"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa509_ce_sa509"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 3</p> <p>HUGO:XRCC3, HGNC:12830, ENTREZ:7517, UNIPROT:O43542</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="XRCC3"/> <bbox w="80.0" h="40.0" x="14490.919" y="15920.548"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1429_ce_sa1429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Splicing factor proline/glutamine-rich (SFPQ), Polypyrimidine tract binding protein associated (PSF)</p> <p>HUGO:SFPQ, HGNC:10774, ENTREZ:6421, UNIPROT:P23246</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:20813759, PMID:10931916, PMID:15590677, PMID:19759212, PMID:10858305</p> </body> </html> </notes> <label text="SFPQ"/> <bbox w="80.0" h="40.0" x="14496.752" y="15962.304"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa506_ce_sa506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>split hand/foot malformation (ectrodactyly) type 1</p> <p>HUGO:SHFM1, HGNC:10845 ENTREZ:7979, UNIPROT:P60896</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="DSS1*"/> <bbox w="80.0" h="40.0" x="14407.826" y="15881.491"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2716_rc_sa2716" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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rdf:resource="urn:miriam:hgnc.symbol:LAMA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Galectin 3 partners*"/> <bbox w="124.0" h="21.0" x="4060.0" y="18852.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5308_rc_sa5308" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15414</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5308_rc_sa5308"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S-Adénosylméthionine"/> <bbox w="135.0" h="23.0" x="26469.06" y="9859.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa578_in_sa578" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="20645.0" y="4863.75"/> <glyph class="state variable" id="_f8d87418-0452-4253-85cb-980437aa4a80"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20640.0" y="4878.75"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_in_sa1556_in_sa1556" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_sa696_degraded"/> <bbox w="30.0" h="30.0" x="24395.0" y="3365.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa13_wca1_wca2_csa13" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:XFZ7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="(Xfz7_dimer)"/> <bbox w="90.0" h="100.0" x="25306.06" y="18307.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa75_wca1_wca2_sa76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="XFZ7"/> <bbox w="80.0" h="50.0" x="25312.06" y="18334.0"/> <glyph class="unit of information" id="_9d2f3602-5fd1-4455-9804-5103604ad930"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25329.56" y="18329.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa75_wca1_wca2_sa75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="XFZ7"/> <bbox w="80.0" h="50.0" x="25311.06" y="18313.0"/> <glyph class="unit of information" id="_29a0f8f7-6afa-4a52-9d98-d4342e259690"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25328.56" y="18308.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa30_an_csa30" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> <p>PMID:23896411</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa30_an_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23896411"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s29"/> <bbox w="205.0" h="130.0" x="4969.5" y="5902.0"/> <glyph class="macromolecule" id="s_id_an_sa270_an_sa297"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:6307</p> <p>Synonyms : FLK1, VEGFR, VEGFR2, CD309</p> </body> </html> </notes> <label text="KDR"/> <bbox w="80.0" h="50.0" x="5084.5" y="5957.0"/> <glyph class="state variable" id="_4932966e-d556-44cd-856c-38792ece89dd"> <state value="" variable="Y1175"/> <bbox w="35.0" h="10.0" x="5123.3306" y="6002.0"/> </glyph> <glyph class="state variable" id="_d17affdf-fac2-4541-a784-dcab71950718"> <state value="P" variable="1054"/> <bbox w="35.0" h="10.0" x="5089.9756" y="6002.0"/> </glyph> <glyph class="unit of information" id="_19419697-0292-4b4b-938c-992029053528"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5102.0" y="5952.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa520_an_sa521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFB HGNC:12681</p> <p>Map modules:</p> <p>MODULE:</p> <p>References:</p> <p>PMID:22064427</p> </body> </html> </notes> <label text="VEGFB"/> <bbox w="80.0" h="40.0" x="5008.4546" y="5916.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa269_an_sa269"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> </body> </html> </notes> <label text="NRP1"/> <bbox w="80.0" h="40.0" x="4979.5" y="5962.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa518_an_sa519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="5087.4546" y="5916.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa518_an_sa518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="5077.4546" y="5906.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa270_an_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:6307</p> <p>Synonyms : FLK1, VEGFR, VEGFR2, CD309</p> </body> </html> </notes> <label text="KDR"/> <bbox w="80.0" h="50.0" x="5069.5" y="5967.0"/> <glyph class="state variable" id="_71da31bb-7425-4e76-8888-93d73b8ba636"> <state value="" variable="Y1175"/> <bbox w="35.0" h="10.0" x="5108.3306" y="6012.0"/> </glyph> <glyph class="state variable" id="_3cc36a4e-0aff-419b-a4ef-a29cb68a939b"> <state value="P" variable="1054"/> <bbox w="35.0" h="10.0" x="5074.9756" y="6012.0"/> </glyph> <glyph class="unit of information" id="_5d9def80-f217-48c5-990d-6d9891ac4b68"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5087.0" y="5962.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa520_an_sa520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFB HGNC:12681</p> <p>Map modules:</p> <p>MODULE:</p> <p>References:</p> <p>PMID:22064427</p> </body> </html> </notes> <label text="VEGFB"/> <bbox w="80.0" h="40.0" x="4994.4546" y="5906.8184"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3371_rc_sa3371" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3371_rc_sa3371"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MTOR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MTOR"/> <bbox w="90.0" h="25.0" x="25291.56" y="16079.5"/> <glyph class="unit of information" id="_cd101e43-d949-4e8b-bb43-e731209a2665"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25326.56" y="16074.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa233_te_sa233" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat containing, antisens to TP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa233_te_sa233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WRAP53"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WRAP53"/> <bbox w="80.0" h="40.0" x="4918.06" y="21938.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa12_wca1_wca4_csa12" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL1:SIRT1_2*</p> <p>References:</p> <p>s_wca4_re34:(MAP:survival) PMID:20439735</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_csa12_wca1_wca4_csa12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20439735"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL1:SIRT1_2*"/> <bbox w="100.0" h="120.0" x="23824.06" y="21579.0"/> <glyph class="macromolecule" id="s_id_wca1_wca4_sa64_wca1_wca4_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>sirtuin 1</p> <p>"sirtuin (silent mating type information regulation 2 homolog) 1 (S. cerevisiae)" "sirtuin (silent mating type information regulation 2 S. cerevisiae homolog) 1"</p> <p>HUGO:SIRT1 HGNC:14929 ENTREZ:23411 UNIPROT:Q96EB6 GENECARDS:SIRT1 KEGG:23411 ATLASONC:SIRT1ID44006ch10q21 WIKI:SIRT1 </p> <p>sirtuin 2</p> <p>SIR2L "sirtuin (silent mating type information regulation 2 homolog) 2 (S. cerevisiae)" "sirtuin (silent mating type information regulation 2 S.cerevisiae homolog) 2"</p> <p>HUGO:SIRT2 HGNC:10886 ENTREZ:22933 UNIPROT:Q8IXJ6 GENECARDS:SIRT2 KEGG:22933 ATLASONC:GC_SIRT2 WIKI:SIRT2</p> <p>Map modules:</p> </body> </html> </notes> <label text="SIRT1_2*"/> <bbox w="80.0" h="40.0" x="23835.31" y="21635.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca4_sa63_wca1_wca4_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="DVL1"/> <bbox w="80.0" h="40.0" x="23835.31" y="21593.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2518_emtc_em_sa2518" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2518_emtc_em_sa2518"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP family*"/> <bbox w="87.0" h="20.0" x="1837.0" y="18628.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa72_emtc_em_sa72" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa72_emtc_em_sa72"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRB3"/> <bbox w="40.0" h="20.0" x="4960.5" y="15315.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2573_emtc_em_sa2573" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2573_emtc_em_sa2573"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EPHB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EPH family*"/> <bbox w="80.0" h="50.0" x="1105.5" y="13117.5"/> <glyph class="unit of information" id="_c350a357-133c-48f8-9fb4-94df1d123102"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1123.0" y="13112.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa121_ce_csa121" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycE*"/> <bbox w="97.0" h="105.0" x="11083.473" y="9009.356"/> <glyph class="macromolecule" id="s_id_ce_sa792_ce_sa792"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1, HGNC:1589, ENTREZ:898, UNIPROT:P24864</p> <p>cyclin E2</p> <p>HUGO:CCNE2, HGNC:1590, ENTREZ:9134, UNIPROT:O96020</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="11094.973" y="9013.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa793_ce_sa793"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="11093.973" y="9054.356"/> <glyph class="state variable" 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rdf:about="#s_id_emtc_em_sa1444_emtc_em_sa1444"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD2*"/> <bbox w="62.0" h="20.0" x="3255.0" y="14083.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4916_rc_sa4916" compartmentRef="s_id_rc_ca43_mo_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:12847084</p> <p>PMID:19509052</p> <p>Translocated proteins also undergo modifications to support folding; these include N-terminal glycosylation and disulphide bond formation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa587_ca_sa587"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB5"/> <bbox w="80.0" h="50.0" x="7950.0" y="2655.0"/> <glyph class="state variable" id="_f8db5b41-96cf-40c8-86d3-46bc2c5df422"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7945.0" y="2674.9602"/> </glyph> <glyph class="unit of information" id="_47ed4316-4d54-459b-8d18-b2e2f7953f9f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7967.5" y="2650.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa742_ca_sa742" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:CASCADE:PDGF, CASCADE:LIF, CASCADE:TGFBPMID:19118022Fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblastsprobably via PDGFR-α.PMID:24857661 we noted an increased expression of PDGFRα after LIF stimulation in hPDFPMID:26921338 TGFB induces expression of PDGFB and PDGFR in CAFs and indirectly suppresses PEDF expression via PDGFB signaling ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS References:CASCADE:PDGF, CASCADE:LIF, CASCADE:TGFBPMID:19118022Fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblastsprobably via PDGFR-α.PMID:24857661 we noted an increased expression of PDGFRα after LIF stimulation in hPDFPMID:26921338 TGFB induces expression of PDGFB and PDGFR in CAFs and indirectly suppresses PEDF expression via PDGFB signaling </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24857661"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26921338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFR*"/> <bbox w="70.0" h="25.0" x="4515.0" y="1317.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa847_ce_sa847" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIF1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HIF1A"/> <bbox w="70.0" h="25.0" x="3295.0" y="3707.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2059_emtc_em_sa2059" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2059_emtc_em_sa2059"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC1"/> <bbox w="90.0" h="25.0" x="3471.0" y="16016.0"/> <glyph class="unit of information" id="_82d83780-1988-41fe-bb4c-38179dae200b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3506.0" y="16011.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa196_ce_sa196" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Fanconi:DNA:st1DNA with inter chromasomal crosslinks (ICL) and/or stalled replication fork and/or intrachromasomal crosslinks induced by X rays or UV light or alkylators (cisplatin, mitomycin C, nitrogen mustard)Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:FANCONIReferences:PMID:22258607, PMID:22918414PMID:23444773, PMID:23637285, PMID:23892398For activation of Fanconi by UV lightPMID:17145857, PMUID:22751496Fanconi is activated by interstrand crosslinking agents PMID:23444773, PMID:21948210, PMID:21701511 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Fanconi:DNA:st1DNA with inter chromasomal crosslinks (ICL) and/or stalled replication fork and/or intrachromasomal crosslinks induced by X rays or UV light or alkylators (cisplatin, mitomycin C, nitrogen mustard)Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:FANCONIReferences:PMID:22258607, PMID:22918414PMID:23444773, PMID:23637285, PMID:23892398For activation of Fanconi by UV lightPMID:17145857, PMUID:22751496Fanconi is activated by interstrand crosslinking agents PMID:23444773, PMID:21948210, PMID:21701511 </body> </html> </notes> <extension> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa354_ce_sa354"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β"/> <bbox w="80.0" h="40.0" x="11202.02" y="9687.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3482_rc_sa3482" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3482_rc_sa3482"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMARCA5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMARCA5"/> <bbox w="80.0" h="40.0" x="17791.56" y="16454.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa87_rc_csa87" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:RPTOR</p> </body> </html> </notes> <label text="mTORC1"/> <bbox w="92.0" h="166.0" x="26554.06" y="11444.0"/> <glyph class="macromolecule" id="s_id_rc_sa1098_rc_sa1098"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="26559.56" y="11506.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1099_rc_sa1099"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="26559.56" y="11548.5"/> <glyph class="state variable" id="_997ce078-4a33-429b-a10b-1cff29ebb99d"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="26568.156" y="11543.5"/> </glyph> <glyph class="state variable" id="_dfa0602f-7ab5-4092-a797-ecaf6a113457"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26577.992" y="11583.5"/> </glyph> <glyph class="state variable" id="_59aac869-4025-425d-9254-f53f466368cd"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="26601.51" y="11543.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1100_rc_sa1100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="26559.56" y="11464.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2276_rc_sa2276" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2276_rc_sa2276"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRDX1"/> <bbox w="80.0" h="40.0" x="29331.06" y="10531.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1479_emtc_em_sa1479" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1479_emtc_em_sa1479"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD6G"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARD6G"/> <bbox w="60.0" h="20.0" x="6031.0" y="14979.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa78_wnc1_wnc1_csa78" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RHOA:ROCK*</p> <p>References:</p> <p>s_wnc1_re141(MAP:survival):</p> <p>Activated Daam1 is responisble for the inhibition</p> <p>PMID:20351293</p> <p>s_wnc1_re152(MAP:survival):</p> <p>Binding of beta-arrestin to PTEN increases the lipid phosphatase activity of PTEN which converts PIP3 to PIP2. Active ROCK stimulates this complex formation </p> <p>PMID:21642958</p> <p>ROCK phosphorylates PTEN which is than activated. Activated PTEN reduces the concentration of PIP3</p> <p>PMID:15793569</p> <p>PMID:20008297</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa78_wnc1_wnc1_csa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20351293"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21642958"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15793569"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008297"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHOA:ROCK*"/> <bbox w="100.0" h="120.0" x="15298.061" y="18811.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa709_wnc1_wnc1_sa709"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rho-associated, coiled-coil containing protein kinase 1</p> <p>HUGO:ROCK1 HGNC:10251 ENTREZ:6093 UNIPROT:Q13464 GENECARDS:ROCK1 REACTOME:153167 KEGG:6093 ATLASONC:GC_ROCK1 WIKI:ROCK1 </p> <p>Rho-associated, coiled-coil containing protein kinase 2</p> <p>HUGO:ROCK2 HGNC:10252 ENTREZ:9475 UNIPROT:O75116 GENECARDS:ROCK2 REACTOME:153173 KEGG:9475 ATLASONC:ROCK2ID43474ch2p25 WIKI:ROCK2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="ROCK*"/> <bbox w="80.0" h="40.0" x="15307.998" y="18823.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa708_wnc1_wnc1_sa708"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>ARH12, ARHA, "ras homolog gene family, member A"</p> <p>HUGO:RHOA HGNC:667 ENTREZ:387 UNIPROT:P61586 GENECARDS:RHOA REACTOME:63078 KEGG:387 ATLASONC:RHOAID42107ch3p21 WIKI:RHOA</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="80.0" h="40.0" x="15305.623" y="18869.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1016_emtc_em_sa1016" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1016_emtc_em_sa1016"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PARD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR3*"/> <bbox w="64.0" h="18.0" x="2735.0" y="14844.5"/> <glyph class="unit of information" id="_3d4f8c5a-3355-4d42-bbe9-f6c30ed874ca"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2757.0" y="14839.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1282_in_sa1282" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCL4"/> <bbox w="80.0" h="40.0" x="14090.0" y="2445.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1151_ad_sa1151" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTSCASCADE:TCRPMID:26885856 GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTSCASCADE:TCRPMID:26885856 GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1151_ad_sa1151"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885856"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDCD1"/> <bbox w="90.0" h="25.0" x="26901.0" y="2687.5"/> <glyph class="unit of information" id="_eeda3379-8db3-4d57-b444-16d35dd84a5d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26936.0" y="2682.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1150_ad_sa1150" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:INHIBITING_CHECKPOINTSCASCADE:TCRPMID:26885856 GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.PMID:27806234 Transcription of PD-1 in T cells requires nuclear translocation of NFAT and binding of NFATc1 (NFAT2) to the PDCD1 promoter.15 FOXO1, Notch, and IRF9 also promote PD-1 transcription, whereas T-bet functions as a transcriptional repressor. ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:INHIBITING_CHECKPOINTSCASCADE:TCRPMID:26885856 GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.PMID:27806234 Transcription of PD-1 in T cells requires nuclear translocation of NFAT and binding of NFATc1 (NFAT2) to the PDCD1 promoter.15 FOXO1, Notch, and IRF9 also promote PD-1 transcription, whereas T-bet functions as a transcriptional repressor. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1150_ad_sa1150"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27806234"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27806234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDCD1"/> <bbox w="70.0" h="25.0" x="26911.0" y="2787.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa24_wnc1_wnc3_sa24" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factors_wnc3_re5:(MAP:survival) PMID:15657420s_wnc3_re31(MAP:survival):Phosphorylation of NFAT leads to increased DNA binding of NFAT -> increased gene transcriptionPMID15657416Not sure if dissociation of calcineurin and ERK/MEK occurs ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factors_wnc3_re5:(MAP:survival) PMID:15657420s_wnc3_re31(MAP:survival):Phosphorylation of NFAT leads to increased DNA binding of NFAT -> increased gene transcriptionPMID15657416Not sure if dissociation of calcineurin and ERK/MEK occurs </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa24_wnc1_wnc3_sa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15657420"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15657420"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AP-1_ARRE binding sites*"/> <bbox w="167.0" h="22.0" x="15176.561" y="20932.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa254_emtc_em_sa254" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa254_emtc_em_sa254"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA11"/> <bbox w="40.0" h="20.0" x="4561.355" y="17647.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1520_in_sa1520" compartmentRef="s_id_in_ca13_in_ca13"> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="24310.0" y="3130.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa17_wnc1_wnc4_csa17" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN*:Actin cytoskeletal*:DVL*:HSC70*:HSP70*:HTID1_50_48_kDa_isoform*</p> <p>References:</p> <p>s_wnc4_re45:(MAP:survival) PMID:17588722</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa17_wnc1_wnc4_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17588722"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:AXIN*:Actin cytoskeletal*:DVL*:HSC70*:HSP70*:HTID1_50_48_kDa_isoform*"/> <bbox w="195.0" h="222.0" x="18000.06" y="21060.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa137_wnc1_wnc4_sa137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 70kDa protein 1A</p> <p>"heat shock 70kD protein 1A", HSPA1</p> <p>HUGO:HSPA1A HGNC:5232 ENTREZ:3303 UNIPROT:P08107 GENECARDS:HSPA1A REACTOME:56682 KEGG:3303 ATLASONC:GC_HSPA1A WIKI:HSPA1A HUGO:HSPA1B HGNC:5233 ENTREZ:3304 UNIPROT:P08107 GENECARDS:HSPA1B REACTOME:56682 KEGG:3304 ATLASONC:GC_HSPA1B WIKI:HSPA1B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:CASPASES</p> </body> </html> </notes> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="18016.06" y="21067.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa141_wnc1_wnc4_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DnaJ (Hsp40) homolog, subfamily A, member 3</p> <p>HUGO:DNAJA3 HGNC:11808 ENTREZ:9093 UNIPROT:Q96EY1 GENECARDS:DNAJA3 KEGG:9093 ATLASONC:DNAJA3ID40342ch16p13 WIKI:DNAJA3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Different splice isoforms: Tid50, Tid48 and Tid46 are present in the cytosol and Tid43, Tid40 and Tid38 translocate into the mitochondrium</p> </body> </html> </notes> <label text="HTID1_50_48_kDa_isoform*"/> <bbox w="80.0" h="40.0" x="18102.06" y="21067.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa140_wnc1_wnc4_sa140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="18102.06" y="21111.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa142_wnc1_wnc4_sa142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="18057.06" y="21200.0"/> <glyph class="state variable" id="_538f10fe-ad80-4596-a21f-7756ba2d6c66"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18132.06" y="21195.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa138_wnc1_wnc4_sa138"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 70kDa protein 8</p> <p>"heat shock 70kD protein 8", HSPA10</p> <p>HUGO:HSPA8 HGNC:5241 ENTREZ:3312 UNIPROT:P11142 GENECARDS:HSPA8 REACTOME:56692 KEGG:3312 ATLASONC:GC_HSPA8 WIKI:HSPA8</p> <p>Map modules:</p> </body> </html> </notes> <label text="HSC70*"/> <bbox w="80.0" h="40.0" x="18102.06" y="21156.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa136_wnc1_wnc4_sa136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="18016.06" y="21111.5"/> <glyph class="state variable" id="_76c8fd52-c854-4b23-a1d7-874eebab05a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18011.064" y="21146.5"/> </glyph> <glyph class="state variable" id="_c2dfa741-2406-482a-8868-0d2eed9f3503"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18090.693" y="21106.5"/> </glyph> <glyph class="state variable" id="_8c4df2ed-3b07-497d-aba9-a90f6e009713"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="18080.441" y="21146.5"/> </glyph> <glyph class="state variable" id="_36e4e40b-6973-40c1-a0ba-850cad1dcceb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18011.064" y="21106.5"/> </glyph> <glyph class="state variable" id="_835a8e22-7369-4716-967c-57017b3a4628"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18091.06" y="21106.5"/> </glyph> <glyph class="state variable" id="_10062fa5-50a9-4125-a9dd-b7d950deb800"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18091.06" y="21146.5"/> </glyph> <glyph class="state variable" id="_58c0bb27-a08e-4342-ac05-e0a15190d2a2"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="18001.06" y="21146.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa139_wnc1_wnc4_sa139"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>actin, alpha 1, skeletal muscle</p> <p>NEM3, "nemaline myopathy type 3"</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133 GENECARDS:ACTA1 REACTOME:49626 KEGG:58 ATLASONC:GC_ACTA1 WIKI:ACTA1 </p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709 GENECARDS:ACTB REACTOME:49576 KEGG:60 ATLASONC:ACTBID42959ch7p22 WIKI:ACTB </p> <p>actin, gamma 1</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261 GENECARDS:ACTG1 REACTOME:49603 KEGG:71 ATLASONC:GC_ACTG1 WIKI:ACTG1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY, MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="80.0" h="40.0" x="18016.06" y="21156.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mpk1_mpk1_sa680_mpk1_mpk1_sa680" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa680_mpk1_mpk1_sa680"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p14INK4A*"/> <bbox w="70.0" h="25.0" x="10368.061" y="20818.5"/> </glyph> <glyph class="complex" id="s_id_te_csa66_te_csa66" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase alpha complex</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> <p>PMID:15132993, PMID:9115215</p> <p>References_End</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa66_te_csa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15132993"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9115215"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Polymerase alpha complex"/> <bbox w="196.0" h="150.0" x="3856.06" y="22463.0"/> <glyph class="macromolecule" id="s_id_te_sa439_te_sa439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA polymerase alpha 1, catalytic subunit</p> <p>HUGO:POLA1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="POLA1"/> <bbox w="80.0" h="40.0" x="3870.06" y="22533.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa437_te_sa437"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA primase subunit 1</p> <p>HUGO:PRIM1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> </body> </html> </notes> <label text="PRIM1"/> <bbox w="80.0" h="40.0" x="3870.06" y="22485.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa438_te_sa438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DNA primase subunit 2</p> <p>HUGO:PRIM2</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> <p>References:</p> </body> </html> </notes> <label text="PRIM2"/> <bbox w="80.0" h="40.0" x="3954.06" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GRB2-associated binding protein 1</p> <p>HUGO:GAB1 HGNC:4066 ENTREZ:2549 UNIPROT:Q13480</p> <p>Map modules:</p> </body> </html> </notes> <label text="GAB1"/> <bbox w="50.0" h="25.0" x="8359.061" y="19382.5"/> <glyph class="state variable" id="_5264543c-4125-4f05-89ac-7de3556f7b8b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8354.061" y="19390.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa693_mpk1_mpk1_sa693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8359.061" y="19357.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa167_emtc_em_csa167" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BBC3:BCL2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:11463392</p> <p>BBC3 (so-called PUMA, p53 upregulated modulator of apoptosis) as a target for activation by p53. </p> <p>This gene encodes two BH3 domain–containing proteins that are induced in cells following p53 activation. </p> <p>BBC3 binds to BCL2, localize to the mitochondria to induce cytochrome c release, and activate the rapid induction of programmed cell death. </p> <p>Antisense inhibition of PUMA expression reduced the apoptotic response to p53, and PUMA is likely to play a role inmediating p53-induced cell death through the cytochrome c/Apaf-1–dependent pathway.</p> <p>PMID:11463391</p> <p>PUMA was found to be exclusively mitochondrial and to bind to BCL2 and BCL2L1 through a BH3 domain.</p> <p>It is via this binding to BBC3 (an apoptic inducer) that BCL2 and BCL2L1 exhibit their anti-apoptic effect.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa167_emtc_em_csa167"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463391"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BBC3/BCL2"/> <bbox w="87.0" h="43.0" x="4798.0" y="13544.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa926_emtc_em_sa926"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>B-cell CLL/lymphoma 2</p> <p>HUGO:BCL2, HGNC:990, ENTREZ:596, UNIPROT:P10415, GENECARDS:GC18M060763</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:23064052</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers.</p> <p>PMID:11704864</p> <p>Transcriptional regulation of bcl-2 by nuclear factor kappa B and its significance in prostate cancer.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="37.0" h="19.0" x="4802.5" y="13547.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa927_emtc_em_sa927"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2 binding component 3 </p> <p>HUGO:BBC3, HGNC:17868, ENTREZ:27113, UNIPROT:Q96PG8, GENECARDS:GC19M047724</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:11463392</p> <p>BBC3 (so-called PUMA, p53 upregulated modulator of apoptosis) as a target for activation by p53. </p> <p>This gene encodes two BH3 domain–containing proteins that are induced in cells following p53 activation. </p> <p>BBC3 binds to BCL2, localize to the mitochondria to induce cytochrome c release, and activate the rapid induction of programmed cell death. </p> <p>Antisense inhibition of PUMA expression reduced the apoptotic response to p53, and PUMA is likely to play a role inmediating p53-induced cell death through the cytochrome c/Apaf-1–dependent pathway.</p> <p>PMID:11463391</p> <p>PUMA was found to be exclusively mitochondrial and to bind to BCL2 and BCL2L1 through a BH3 domain.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BBC3"/> <bbox w="37.0" h="17.0" x="4842.5" y="13547.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2317_in_sa2317" compartmentRef="s_id_in_ca12_in_ca12"> <label text="TYMP"/> <bbox w="80.0" h="40.0" x="12920.0" y="7280.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa413_mpk1_mpk1_sa413" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa413_mpk1_mpk1_sa413"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPKAPK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPKAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPKAPK5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPKAPK*"/> <bbox w="85.0" h="25.0" x="11091.224" y="20320.0"/> <glyph class="state variable" id="_e7429980-7c9a-4812-a9fe-b763845ac0f0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11083.724" y="20327.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa278_emtc_em_csa278" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Desmoplakin binding partners*:Desmoplakin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa278_emtc_em_csa278"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19955337"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="'Desmoplakin*/Desmoplakin binding partners)"/> <bbox w="278.0" h="46.0" x="1716.0" y="17348.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1811_emtc_em_sa1811"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Desmoplakin binding partners*</p> <p>desmocollin 1</p> <p>HUGO:DSC1, HGNC:3035, ENTREZ:1823, UNIPROT:Q08554, GENECARDS:GC18M028732   </p> <p>junction plakoglobin</p> <p>"catenin (cadherin-associated protein), gamma 80kDa", CTNNG</p> <p>HUGO:JUP HGNC:6207 ENTREZ:3728 UNIPROT:P14923 GENECARDS:GC17M039776</p> <p>Plakophilin*</p> <p>plakophilin 1 (ectodermal dysplasia/skin fragility syndrome)</p> <p>HUGO:PKP1 HGNC:9023 ENTREZ:5317 UNIPROT:Q13835 GENECARDS:GC01P201252</p> <p>plakophilin 2</p> <p>HUGO:PKP2 HGNC:9024 ENTREZ:5318 UNIPROT:Q99959 GENECARDS:GC12M032943</p> <p>plakophilin 3</p> <p>HUGO:PKP3, HGNC:9025, ENTREZ:11187, UNIPROT:Q9Y446, GENECARDS:GC11P000394   </p> <p>plakophilin 4</p> <p>HUGO:PKP4 HGNC:9026 ENTREZ:8502 UNIPROT:Q99569 GENECARDS:GC02P159313  </p> <p>desmoplakin</p> <p>HUGO:DSP, HGNC:3052, ENTREZ:1832, UNIPROT:P15924, GENECARDS:GC06P007541  </p> <p>vimentin</p> <p>HUGO:VIM, HGNC:12692, ENTREZ:7431, UNIPROT:P08670, GENECARDS:GC10P017310  </p> <p>keratin 18</p> <p>HUGO:KRT18, HGNC:6430, ENTREZ:3875, GENECARDS:GC12P053343, UNIPROT:P05783 </p> <p>keratin 8</p> <p>HUGO:KRT8 HGNC:6446 ENTREZ:3856 UNIPROT:P05787 GENECARDS:GC12M053290</p> <p>keratin 1</p> <p>EHK1, "epidermolytic hyperkeratosis 1"</p> <p>HUGO:KRT1 HGNC:6412 ENTREZ:3848 UNIPROT:P04264 GENECARDS:GC12M053069</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Desmoplakin binding partners*"/> <bbox w="182.0" h="21.0" x="1722.5" y="17352.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1171_emtc_em_sa1171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>desmoplakin</p> <p>HUGO:DSP, HGNC:3052, ENTREZ:1832, UNIPROT:P15924, GENECARDS:GC06P007541  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES, MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endMaps_Modules_begin:</p> <p>References:</p> </body> </html> </notes> <label text="Desmoplakin*"/> <bbox w="83.0" h="20.0" x="1906.0" y="17354.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa3_te_sa3" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa3_te_sa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERF1"/> <bbox w="80.0" h="40.0" x="2412.06" y="21220.0"/> <glyph class="unit of information" id="_b6f5d9ad-7d14-49db-83db-14276fca3bbf"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2442.06" y="21215.0"/> </glyph> <glyph class="state variable" id="_c22cf4c0-1bea-490c-9585-1c211be9cc80"> <state value="" variable="S435"/> <bbox w="30.0" h="10.0" x="2477.06" y="21235.0"/> </glyph> <glyph class="state variable" id="_e79903b5-fe9f-4e43-8507-5babe2d73dbb"> <state value="" variable="S367"/> <bbox w="30.0" h="10.0" x="2397.06" y="21234.969"/> </glyph> <glyph class="state variable" id="_7ef62989-0f58-46d5-83dd-a7cb628ca8ce"> <state value="" variable="T122"/> <bbox w="30.0" h="10.0" x="2437.7646" y="21255.0"/> </glyph> <glyph class="state variable" id="_b3224823-0cb9-4b05-944b-ec65b02f31f9"> <state value="" variable="T344"/> <bbox w="30.0" h="10.0" x="2437.0918" y="21215.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa20_wca1_wca3_csa20" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB1:TAK1*</p> <p>References:</p> <p>s_wca3_re25:(MAP:survival) PMID:20194509</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa20_wca1_wca3_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20194509"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB1:TAK1*"/> <bbox w="100.0" h="120.0" x="21315.06" y="21282.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa142_wca1_wca3_sa142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="21326.06" y="21292.0"/> <glyph class="state variable" id="_3e0145b4-64df-4b28-8d98-4d61258886b0"> <state value="P" variable="T184"/> <bbox w="35.0" h="10.0" x="21309.053" y="21287.0"/> </glyph> <glyph class="state variable" id="_c3dd4cb1-aa48-4999-8251-46c47b5d3276"> <state value="P" variable="T187"/> <bbox w="35.0" h="10.0" x="21388.56" y="21287.213"/> </glyph> <glyph class="state variable" id="_5568c83e-170e-4ffb-8a96-cc5952bad75f"> <state value="P" variable="S192"/> <bbox w="35.0" h="10.0" x="21387.941" y="21327.0"/> </glyph> <glyph class="state variable" id="_f7b01864-5363-4cb6-a9a5-d4316d7152ec"> <state value="P" variable="T178"/> <bbox w="35.0" h="10.0" x="21308.56" y="21326.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa141_wca1_wca3_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 GENECARDS:TAB1 REACTOME:65612 KEGG:10454 ATLASONC:GC_TAB1 WIKI:TAB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB1"/> <bbox w="80.0" h="40.0" x="21327.06" y="21334.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1350_emtc_em_sa1350" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1350_emtc_em_sa1350"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin1_5_8*"/> <bbox w="100.0" h="20.0" x="1316.0" y="15357.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa195_mo_sa195" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>SMAD family member 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa195_mo_sa195"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2_3*"/> <bbox w="80.0" h="40.0" x="4124.875" y="8969.375"/> <glyph class="state variable" id="_ddbc29fe-a281-4faa-843b-f22297d406d6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4173.9434" y="8964.375"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa69_wnc1_wnc1_csa69" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AP2_alpha*:AP2_beta*:AP2_mu_*:AP2_sigma_*</p> <p>References:</p> <p>s_wnc1_re112(MAP:survival):</p> <p>Clathrin-mediated endocytosis</p> <p>PMID:21397842</p> <p>PMID:20947020</p> <p>PMID:19910923</p> <p>PCP MODULE splits in Rac1 branch when Dvl is not hyper-phosphorylated</p> <p>PMID:18953287</p> <p>s_wnc1_re114(MAP:survival):</p> <p>RhoA branch of the PCP -MODULE when Dvl is hyper-phosphorylated by CK_epsilon</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa69_wnc1_wnc1_csa69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20947020"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19910923"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18953287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(AP2-complex)"/> <bbox w="202.0" h="120.0" x="16234.561" y="19736.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa610_wnc1_wnc1_sa610"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adaptor-related protein complex 2, sigma 1 subunit</p> <p>CLAPS2</p> <p>HUGO:AP2S1 HGNC:565 ENTREZ:1175 UNIPROT:P53680 GENECARDS:AP2S1 REACTOME:49294 KEGG:1175 WIKI:AP2S1</p> <p>Map modules:</p> </body> </html> </notes> <label text="AP2σ*"/> <bbox w="80.0" h="40.0" x="16335.561" y="19792.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa608_wnc1_wnc1_sa608"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adaptor-related protein complex 2, beta 1 subunit</p> <p>ADTB2, CLAPB1</p> <p>HUGO:AP2B1 HGNC:563 ENTREZ:163 UNIPROT:P63010 GENECARDS:AP2B1 REACTOME:49274 KEGG:163 ATLASONC:GC_AP2B1 WIKI:AP2B1</p> <p>Map modules:</p> </body> </html> </notes> <label text="AP2_beta*"/> <bbox w="80.0" h="40.0" x="16335.561" y="19746.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa607_wnc1_wnc1_sa607"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adaptor-related protein complex 2, alpha 1 subunit</p> <p>ADTAA, CLAPA1</p> <p>HUGO:AP2A1 HGNC:561 ENTREZ:160 UNIPROT:O95782 GENECARDS:AP2A1 REACTOME:49262 KEGG:160 ATLASONC:GC_AP2A1 WIKI:AP2A1 </p> <p>adaptor-related protein complex 2, alpha 2 subunit</p> <p>ADTAB, CLAPA2</p> <p>HUGO:AP2A2 HGNC:562 ENTREZ:161 UNIPROT:O94973 GENECARDS:AP2A2 REACTOME:49264 KEGG:161 WIKI:AP2A2</p> <p>Map modules:</p> </body> </html> </notes> <label text="AP2_alpha*"/> <bbox w="80.0" h="40.0" x="16250.561" y="19746.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa609_wnc1_wnc1_sa609"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adaptor-related protein complex 2, mu 1 subunit</p> <p>CLAPM1</p> <p>HUGO:AP2M1 HGNC:564 ENTREZ:1173 UNIPROT:Q96CW1 GENECARDS:AP2M1 REACTOME:49286 KEGG:1173 ATLASONC:GC_AP2M1 WIKI:AP2M1</p> <p>Map modules:</p> </body> </html> </notes> <label text="AP2μ*"/> <bbox w="80.0" h="40.0" x="16250.561" y="19792.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa115_te_sa115" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa115_te_sa115"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERF1"/> <clone/> <bbox w="86.0" h="46.0" x="2642.06" y="20957.0"/> <glyph class="unit of information" id="_6b165fde-90eb-4214-953e-f1f851007aec"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2675.06" y="20952.0"/> </glyph> <glyph class="state variable" id="_04e50d88-b031-4be2-977e-7ac4fdc852d8"> <state value="P" variable="T344"/> <bbox w="35.0" h="10.0" x="2667.5942" y="20952.0"/> </glyph> <glyph class="state variable" id="_90487ef9-73df-46c3-ac2f-f02096fb7109"> <state value="" variable="S435"/> <bbox w="30.0" h="10.0" x="2713.06" y="20975.0"/> </glyph> <glyph class="state variable" id="_9b5ebef5-72d1-485e-a10b-e3aa9f5de785"> <state value="" variable="S367"/> 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERF1"/> <clone/> <bbox w="86.0" h="46.0" x="2551.06" y="21077.0"/> <glyph class="unit of information" id="_0532c072-0d6a-49c0-8e6d-75294c1ce16f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2584.06" y="21072.0"/> </glyph> <glyph class="state variable" id="_b016c7e2-fd5f-4786-8027-ef1d84ca3fff"> <state value="P" variable="T344"/> <bbox w="35.0" h="10.0" x="2576.5942" y="21072.0"/> </glyph> <glyph class="state variable" id="_0015ea88-3cc5-4383-a431-853720a57f2e"> <state value="" variable="S435"/> <bbox w="30.0" h="10.0" x="2622.06" y="21095.0"/> </glyph> <glyph class="state variable" id="_d7bf9c04-e460-4f32-968b-2b84baa43a13"> <state value="" variable="S367"/> <bbox w="30.0" h="10.0" x="2536.06" y="21094.963"/> </glyph> <glyph class="state variable" id="_8c8fd103-c7e4-4cae-952a-70675ca7e26d"> <state value="P" variable="T122"/> <bbox w="35.0" h="10.0" x="2577.3174" y="21118.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5361_rc_sa5361" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5361_rc_sa5361"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL19"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK*"/> <bbox w="80.0" h="40.0" x="23569.06" y="12669.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5354_rc_sa5354" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5354_rc_sa5354"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PSAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PSAT1"/> <bbox w="80.0" h="40.0" x="25831.56" y="10047.75"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa15_akt1_akt2_csa15" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KPC1*:KPC2*</p> <p>References:</p> <p>s_akt2_re46:(MAP:survival) PMID:15531880</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa15_akt1_akt2_csa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15531880"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KPC1*:KPC2*"/> <bbox w="92.0" h="111.0" x="14139.061" y="20927.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa99_akt1_akt2_sa99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring finger protein 123</p> <p>HUGO:RNF123 HGNC:21148 ENTREZ:63891 UNIPROT:Q5XPI4 GENECARDS:RNF123 REACTOME:246065 KEGG:63891 ATLASONC:GC_RNF123 WIKI:RNF123</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="KPC1*"/> <bbox w="80.0" h="40.0" x="14144.061" y="20938.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa100_akt1_akt2_sa100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>UBA domain containing 1</p> <p>HUGO:UBAC1 HGNC:30221 ENTREZ:10422 UNIPROT:Q9BSL1 GENECARDS:UBAC1 KEGG:10422 WIKI:UBAC1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="KPC2*"/> <bbox w="80.0" h="40.0" x="14145.061" y="20979.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa243_shh1_shh2_sa243" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa243_shh1_shh2_sa243"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR17HG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR17HG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR17-92*"/> <clone/> <bbox w="70.0" h="25.0" x="26808.06" y="22087.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa243_rc_sa576" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa243_rc_sa576"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR17HG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR17HG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR17-92*"/> <clone/> <bbox w="70.0" h="25.0" x="21841.56" y="16268.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3814_rc_sa3814" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3814_rc_sa3814"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF11B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNFRSF11B"/> <bbox w="80.0" h="40.0" x="23429.06" y="9179.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa105_ca_csa105" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PTCH*:SMO</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> </body> </html> </notes> <label text="ca_s4615"/> <bbox w="100.0" h="120.0" x="6110.0" y="1190.0"/> <glyph class="macromolecule" id="s_id_ca_sa929_ca_sa929"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTCH1</p> <p>HUGO:PTCH2</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:HH</p> <p>PMID:19081070 </p> <p>The Hh reception system consists of a 12-span transmembrane protein, Patched (Ptc), as the Hh receptor and a 7-span transmembrane protein, Smoothened (Smo), as the obligatory signal transducer across the plasma membrane (Ingham and McMahon, 2001). In the absence of Hh, Ptc blocks Smo activity, and full-length Gli proteins are proteolytically processed to generate C-terminally truncated GliR that actively represses a subset of Hh target genes. Hh binding to Ptc unleashes Smo activity, which blocks GliR production and promotes GliA activation.</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="80.0" h="50.0" x="6120.0" y="1235.0"/> <glyph class="unit of information" id="_e608d10e-88e9-4213-a550-eaede98bc1b3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6137.5" y="1230.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa928_ca_sa928"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:SMO</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:HH</p> <p>PMID:20215540 </p> <p>SMO is upregulated in pancreatic CAFs</p> <p>AFs expressing SMO could transduce the Sonic hedgehog signal to activate Gli1 expression, and small interfering RNA knockdown of SMO blocked the induction of Gli1 in these cells. </p> <p>PMID:23031257</p> <p>TGF-β1–Induced Fibroblast Differentiation Depends on SMO in Control Fibroblasts</p> <p>Expression of collagen and actin (alphaSMA) and FN1 are SMO and GLI1/GLI2 dependent</p> <p>PMID:19081070 </p> <p>The Hh reception system consists of a 12-span transmembrane protein, Patched (Ptc), as the Hh receptor and a 7-span transmembrane protein, Smoothened (Smo), as the obligatory signal transducer across the plasma membrane (Ingham and McMahon, 2001). 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2758_rc_sa2758"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TT"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TT"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TT"/> <bbox w="90.0" h="25.0" x="20730.06" y="15036.5"/> <glyph class="unit of information" id="_274fde63-7bb8-4c08-83ec-d72cebd5ee16"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20765.06" y="15031.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa44_ce_csa44" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP*:CTIP*:RB1</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> </body> </html> </notes> <label text="CtBP*/CtIP*/RB1"/> <bbox w="106.0" h="171.0" x="11774.473" y="12559.356"/> <glyph class="macromolecule" id="s_id_ce_sa1486_ce_sa1486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma 1</p> <p>HUGO:RB1, HGNC:9884, ENTREZ:5925, UNIPROT:P06400</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:7935440</p> </body> </html> </notes> <label text="RB1"/> <bbox w="80.0" h="40.0" x="11789.018" y="12667.356"/> <glyph class="state variable" id="_1e6cfe6b-ef28-4e4d-9c6b-131c94fd867a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11864.018" y="12682.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1412_ce_sa1412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma binding protein 8 (RIM)</p> <p>CTBP-interacting protein (CtIP)</p> <p>HUGO:RBBP8, HGNC:9891, ENTREZ:5932, UNIPROT:Q99708</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:17965729, PMID:9721205, PMID:19202191, PMID:18171986, PMID:20723763</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="CTIP*"/> <bbox w="80.0" h="40.0" x="11787.368" y="12571.945"/> <glyph class="state variable" id="_c907214e-0c35-4e9e-bc20-c3440d41d75f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11782.368" y="12586.945"/> </glyph> <glyph class="state variable" id="_ba08be9a-7162-4d33-8a68-8652a39e0dbf"> <state value="P" variable="T847"/> <bbox w="35.0" h="10.0" x="11769.868" y="12573.796"/> </glyph> <glyph class="state variable" id="_80228ee2-74ff-4ff1-ac0a-95b96f341c6b"> <state value="P" variable="S267"/> <bbox w="35.0" h="10.0" x="11769.868" y="12597.317"/> </glyph> <glyph class="state variable" id="_28ad7981-a535-43a8-9365-be7c0dcc63e0"> <state value="" variable="BRCA1-dep"/> <bbox w="55.0" h="10.0" x="11791.237" y="12606.945"/> </glyph> <glyph class="state variable" id="_1c36e98d-a5a8-4497-8e78-4e8f63b142ba"> <state value="P" variable="S372"/> <bbox w="35.0" h="10.0" x="11793.463" y="12566.945"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1413_ce_sa1413"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1, HGNC:2494, ENTREZ:1487, UNIPROT:Q13363</p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2, HGNC:2495, ENTREZ:1488, UNIPROT:P56545</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:21681822, PMID:20964627, PMID:19506021, PMID:19216735</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="11786.5" y="12621.945"/> <glyph class="state variable" id="_134b4f4e-4635-4600-a486-842ccad982ac"> <state value="P" variable="S181"/> <bbox w="35.0" h="10.0" x="11819.969" y="12616.945"/> </glyph> <glyph class="state variable" id="_3035dae0-0031-495a-bba7-13f980690570"> <state value="P" variable="S185"/> <bbox w="35.0" h="10.0" x="11802.865" y="12616.945"/> </glyph> <glyph class="state variable" id="_8b5c9f3d-13e8-4562-abd5-4223f7c76c7b"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="11847.859" y="12616.945"/> </glyph> <glyph class="state variable" id="_777fecb8-dceb-4f93-9e19-65fb12c14f3c"> <state value="P" variable="T179"/> <bbox w="35.0" h="10.0" x="11787.648" y="12616.945"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa16_ad_csa16" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MHC_class_II*:Tumor_antigen_fragment</p> <p>MODULE:DC, MODULE:CROSS_ACTIVATION_OF_IMMUNE_CELLS, MODULE:ANTIGEN_PRESENTATION_AND_ACTIVATING_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:IL10</p> </body> </html> </notes> <label text="MHC_class_II*:Tumor_antigen_fragment"/> <bbox w="120.0" h="140.0" x="28106.0" y="2170.0"/> <glyph class="macromolecule" id="s_id_ad_sa158_ad_sa158"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:HLA-DMA HUGO:HLA-DMB HUGO:HLA-DOA HUGO:HLA-DOB HUGO:HLA-DPA1 HUGO:HLA-DPB1 HUGO:HLA-DQA1 HUGO:HLA-DQA2 HUGO:HLA-DQB1 HUGO:HLA-DQB2 HUGO:HLA-DRA HUGO:HLA-DRB1 HUGO:HLA-DRB3 HUGO:HLA-DRB4 HUGO:HLA-DRB5 </p> <p>Map modules:</p> <p>MODULE:SMAC</p> <p>CASCADE:TCR</p> <p>References:</p> <p>PMID:12391186</p> <p>Maturation of monocyte-derived DCs was induced by TNF-α</p> <p>The surface levels of MHC class II increased markedly after TNF-α stimulation on CD83+ DC </p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD206, CD23 </p> <p>PMID:22076556, PMID:22076556, PMID:25720354</p> <p>Like MHC class I molecules, class II molecules are also heterodimers, but in this case consist of two homogenous peptides, an α and β chain, both of which are encoded in the MHC.</p> <p>MHC class II molecules present antigen peptides to CD4+ T cells</p> <p>PMID:22076556, PMID:21220452 </p> <p>CD83 increases MHC II and CD86 on dendritic cells by opposing IL-10-driven MARCH1-mediated ubiquitination and degradation.</p> <p> PMID:11702064 </p> <p>IL15 signaling upregulates surface expression of MHC class II</p> <p> PMID:16286017</p> <p>cathepsin S activity was responsible for the IL-6-mediated decrease in MHCII αβ dimer, Ii, and H2-DM levels in DCs. </p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II  )</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MHC_class_II*"/> <bbox w="80.0" h="40.0" x="28126.0" y="2240.0"/> <glyph class="state variable" id="_7d8e4895-e9d3-4f84-8a09-9b8ff92f5d89"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28121.0" y="2255.0"/> </glyph> <glyph class="unit of information" id="_79bc74b7-e831-4487-922f-0a006d5b0f4a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28143.5" y="2235.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa159_ad_sa159"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>PMID:8642276; PMID:24457417 </p> <p>Human tumor antigens could be recognized by T lymphocytes.</p> <p>PMID:11154916, PMID:11509172, PMID:22076556</p> <p>Processed antigen peptide in lysosomes forms complex with MHC-class-II. formation and transport to the cell surface of MHC-class-II–peptide complexes is induced by maturation.</p> <p>Immature DCs in culture can take up antigen but do not present it efficiently to T cells. After detecting microbial products or proinflammatory cytokines, immature DCs transform into mature DCs, cells with a reduced capacity for antigen uptake but now with an exceptional capacity for T cell stimulation.</p> <p> PMID:22790179, PMID:14508489</p> <p>The presentation of exogenous antigens on MHC class I molecules, known as cross-presentation, is essential for the initiation of CD8+ T cell responses. In vivo, cross-presentation is mainly carried out by specific dendritic cell (DC) subsets through an adaptation of their endocytic and phagocytic pathways. </p> </body> </html> </notes> <label text="Tumor_antigen_fragment"/> <bbox w="80.0" h="40.0" x="28126.0" y="2190.0"/> <glyph class="unit of information" id="_8c2e3ff5-0983-4b55-9232-637cbfbf6279"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28141.0" y="2185.0"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ce_sa22_ce_sa22" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:BER</p> </body> </html> </notes> <label text="Mg2+"/> <bbox w="35.0" h="31.0" x="9525.812" y="16193.567"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2093_in_sa2093" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD74"/> <bbox w="80.0" h="40.0" x="8990.0" y="3795.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2496_in_sa2496" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="KDM6B"/> <bbox w="70.0" h="25.0" x="10765.0" y="4577.5"/> </glyph> <glyph class="complex" id="s_id_in_csa106_in_csa106" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa106_in_csa106"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12906785"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19022819"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSC1:TSC2"/> <bbox w="100.0" h="140.0" x="17090.0" y="3880.0"/> <glyph class="macromolecule" id="s_id_in_sa703_in_sa703"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="17100.0" y="3950.0"/> <glyph class="state variable" id="_66f5c7fd-61bd-4b14-ba5e-fe9913fa25cb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17095.0" y="3965.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa702_in_sa702"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="17100.0" y="3900.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa288_rc_csa288" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BACH1:small~MAF*</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="BACH1"/> <bbox w="206.0" h="99.0" x="24658.56" y="16684.5"/> <glyph class="macromolecule" id="s_id_rc_sa2337_rc_sa2340"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog K (avian)</p> <p>HUGO:MAFK HGNC:6782 ENTREZ:7975 UNIPROT:O60675 </p> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian)</p> <p>HUGO:MAFG HGNC:6781 ENTREZ:4097 UNIPROT:O15525</p> <p>Map modules:</p> <p>MODULE:RCD_GENES, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>genetic entity</p> </body> </html> </notes> <label text="small~MAF*"/> <bbox w="80.0" h="40.0" x="24730.186" y="16720.117"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2333_rc_sa2336"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB and CNC homology 1, basic leucine zipper transcription factor 1</p> <p>HUGO:BACH1 HGNC:935 ENTREZ:571 UNIPROT:O14867</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="BACH1"/> <bbox w="80.0" h="40.0" x="24777.186" y="16720.117"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2333_rc_sa2333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB and CNC homology 1, basic leucine zipper transcription factor 1</p> <p>HUGO:BACH1 HGNC:935 ENTREZ:571 UNIPROT:O14867</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="BACH1"/> <bbox w="80.0" h="40.0" x="24732.186" y="16690.117"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2337_rc_sa2338"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog K (avian)</p> <p>HUGO:MAFK HGNC:6782 ENTREZ:7975 UNIPROT:O60675 </p> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian)</p> <p>HUGO:MAFG HGNC:6781 ENTREZ:4097 UNIPROT:O15525</p> <p>Map modules:</p> <p>MODULE:RCD_GENES, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>genetic entity</p> </body> </html> </notes> <label text="small~MAF*"/> <bbox w="80.0" h="40.0" x="24690.186" y="16700.117"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2333_rc_sa2334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB and CNC homology 1, basic leucine zipper transcription factor 1</p> <p>HUGO:BACH1 HGNC:935 ENTREZ:571 UNIPROT:O14867</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="BACH1"/> <bbox w="80.0" h="40.0" x="24748.186" y="16700.117"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2333_rc_sa2335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB and CNC homology 1, basic leucine zipper transcription factor 1</p> <p>HUGO:BACH1 HGNC:935 ENTREZ:571 UNIPROT:O14867</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:RCD_GENES, MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="BACH1"/> <bbox w="80.0" h="40.0" x="24759.186" y="16710.117"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2337_rc_sa2339"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog K (avian)</p> <p>HUGO:MAFK HGNC:6782 ENTREZ:7975 UNIPROT:O60675 </p> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian)</p> <p>HUGO:MAFG HGNC:6781 ENTREZ:4097 UNIPROT:O15525</p> <p>Map modules:</p> <p>MODULE:RCD_GENES, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>genetic entity</p> </body> </html> </notes> <label text="small~MAF*"/> <bbox w="80.0" h="40.0" x="24710.186" y="16710.117"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2337_rc_sa2337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog K (avian)</p> <p>HUGO:MAFK HGNC:6782 ENTREZ:7975 UNIPROT:O60675 </p> <p>v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian)</p> <p>HUGO:MAFG HGNC:6781 ENTREZ:4097 UNIPROT:O15525</p> <p>Map modules:</p> <p>MODULE:RCD_GENES, MODULE:ER_STRESS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>genetic entity</p> </body> </html> </notes> <label text="small~MAF*"/> <bbox w="80.0" h="40.0" x="24670.186" y="16690.117"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa310_ce_sa310" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa310_ce_sa310"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="10952.645" y="9060.875"/> <glyph class="state variable" id="_7b664214-51d6-4cfe-ad65-69346440b04a"> <state value="" variable="T160"/> <bbox w="30.0" h="10.0" x="10937.645" y="9075.843"/> </glyph> <glyph class="state variable" id="_4d2eb1ed-cefb-44f5-8367-5407f4431220"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="10952.47" y="9055.875"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1317_in_sa1317" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL1B"/> <bbox w="90.0" h="25.0" x="12915.0" y="6477.5"/> <glyph class="unit of information" id="_45f35d42-2f89-44f9-b521-545001fb4156"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12950.0" y="6472.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa773_ca_sa773" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:MATRIX_REGULATION References:PMID:19847259 In fibroblasts PTEN inhibit ETS2 expression; and AKT and JNK induce phosphorylqtion of ETS2. MMP9 and CCL3 are the direct targets of this transcription factor. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa773_ca_sa773"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847259"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847259"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP9"/> <bbox w="90.0" h="25.0" x="4990.0" y="4507.5"/> <glyph class="unit of information" id="_24db0b9e-6b28-4321-b982-31a0c9b9e65f"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5025.0" y="4502.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa38_wca1_wca3_csa38" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:B56_alpha_*</p> <p>References:</p> <p>s_wca3_re90:(MAP:survival) PMID:11585828</p> <p>s_wca3_re83(MAP:survival):</p> <p>Import of APC does not require phosphorylation of APC</p> <p>PMID:12223464</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa38_wca1_wca3_csa38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11585828"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223464"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC:B56α*"/> <bbox w="100.0" h="120.0" x="20686.06" y="21055.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa252_wca1_wca3_sa252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B' alpha</p> <p>HUGO:PPP2R5A HGNC:9309 ENTREZ:5525 UNIPROT:Q15172 GENECARDS:PPP2R5A REACTOME:49115 KEGG:5525 ATLASONC:GC_PPP2R5A WIKI:PPP2R5A</p> <p>Map modules:</p> </body> </html> </notes> <label text="B56α*"/> <bbox w="80.0" h="40.0" x="20695.81" y="21110.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa251_wca1_wca3_sa251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20695.81" y="21066.0"/> <glyph class="state variable" id="_6834f37c-740a-4660-bb45-f71e5d8c22d1"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20683.803" y="21061.0"/> </glyph> <glyph class="state variable" id="_3685c1fd-e832-4337-8ecb-41450cf82b3e"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20678.31" y="21100.72"/> </glyph> <glyph class="state variable" id="_f9a02429-9691-49f3-950d-3e76f6efcd28"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20757.691" y="21101.0"/> </glyph> <glyph class="state variable" id="_1784286b-f39c-4c68-a63b-5c4711575ff3"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20678.803" y="21061.0"/> </glyph> <glyph class="state variable" id="_b02df0e2-d29d-4737-b641-a2c7a31a1814"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20758.31" y="21061.213"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:29806 KEGGCOMPOUND:C00122 CAS:142-42-7</p> </body> </html> </notes> <label text="fumarate"/> <bbox w="70.0" h="25.0" x="18488.322" y="14519.75"/> </glyph> <glyph class="source and sink" id="s_id_in_sa296_in_sa296" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa110_degraded"/> <bbox w="30.0" h="30.0" x="15825.0" y="5945.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa405_an_sa405" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: SHC, p66, ShcA</p> <p>HGNC:10840</p> <p>PMID:19449109</p> <p>PMID:16076871</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1239_rc_sa1239"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAFG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAFG"/> <bbox w="80.0" h="40.0" x="24921.56" y="16934.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4631_rc_sa4631" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4631_rc_sa4631"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG2"/> <bbox w="80.0" h="40.0" x="25125.06" y="15867.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1820_rc_sa1820" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1820_rc_sa1820"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC6"/> <bbox w="80.0" h="40.0" x="24070.06" y="14002.0"/> <glyph class="state variable" id="_f5cf408f-6f49-4b5f-8923-08a9a7219dc0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24121.629" y="13997.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa47_wnc1_wnc1_csa47" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RACK1*:VANGL*</p> <p>References:</p> <p>PMID:21262816</p> <p>s_wnc1_re72(MAP:survival):</p> <p>Rack1 inhibits canonical MODULE</p> <p>PMID:2126816</p> <p>s_wnc1_re75:(MAP:survival) PMID:19577357</p> <p>s_wnc1_re85(MAP:survival):</p> <p>Prickle interacts physically with Vangl</p> <p>PMID:22037766 </p> <p>PMID:12941693</p> <p>Par6 is constitutively associated with Dvl</p> <p>PMID:19379695</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa47_wnc1_wnc1_csa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21262816"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2126816"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19577357"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22037766"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12941693"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RACK1*:VANGL*"/> <bbox w="100.0" h="120.0" x="16410.06" y="18746.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa305_wnc1_wnc1_sa305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16416.06" y="18808.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa304_wnc1_wnc1_sa304"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16415.56" y="18756.0"/> <glyph class="state variable" id="_caee126a-9495-4109-ad91-fb8c84e904d2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16410.564" y="18751.0"/> </glyph> <glyph class="state variable" id="_31fdcd30-8e4b-420d-8ea6-73cb66a3dfbd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16490.56" y="18751.0"/> </glyph> <glyph class="state variable" id="_6e466653-dd71-42c0-b9d4-1c9a3ef8a3cb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16490.56" y="18776.0"/> </glyph> <glyph class="state variable" id="_b2a8f590-3a05-48ee-b797-8df1e437cd72"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16410.56" y="18776.0"/> </glyph> <glyph class="unit of information" id="_3583ed6b-1f31-402a-a0af-3d303774907d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16433.06" y="18751.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa364_in_sa364" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MICB"/> <bbox w="70.0" h="25.0" x="20505.0" y="327.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa376_akt1_akt1_sa376" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa376_akt1_akt1_sa376"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase9_TRUNC*"/> <bbox w="80.0" h="40.0" x="13652.061" y="18294.0"/> <glyph class="unit of information" id="_2340afdf-f237-4e4e-804f-905d857fd786"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="13667.061" y="18289.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4315_rc_sa4315" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4315_rc_sa4315"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP3"/> <clone/> <bbox w="90.0" h="25.0" x="20545.56" y="15964.5"/> <glyph class="unit of information" id="_a7bc3225-20f0-4432-bf8c-a25cd8f63b07"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20580.56" y="15959.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4315_emtc_em_sa2408" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4315_emtc_em_sa2408"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TIMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TIMP3"/> <clone/> <bbox w="59.0" h="17.0" x="2740.0" y="17144.0"/> <glyph class="unit of information" id="_b94eb2cd-82d4-4892-9818-01205a94819d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2759.5" y="17139.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1529_in_sa1529" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11672593, 12811837., 11964313, 12032143 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:TLR2_4, CASCADE:MIF, CASCADE:IFNG</p> <p>References:</p> <p>PMID:11964313, PMID:11672593, PMID:12032143, PMID:12811837.</p> <p>INFG upregulates mRNA level and surface expression of TLR4 and TLR2.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1529_in_sa1529"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11672593"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12811837."/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLR4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11964313"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12032143"/> </rdf:Bag> 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<p>Interaction between Snail, HDAC1 and HDAC2, and the corepressor Sin3A is dependent on the SNAG domain of Snail, indicating that the Snail transcription factor mediates the repression by recruitment of chromatin-modifying activities, forming a multimolecular complex to repress E-cadherin expression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa285_emtc_em_csa285"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that inhibit gene expression through chromatin remodeling. </p> <p>The polycomb repressive complex 2 (PRC2) recruits PRC1 after chromatin methylation at H3K27 through enhancer of EZH2, a histone H3 lysine-27-specific methyltransferase.</p> <p>Both, PRC1 and PRC2 have been shown to interact with SNAI1 and TWIST1 to promote EMT.</p> <p>SNAI1 is stabilized through its interaction with the PRC1 component BMI1 and interacts with EZH2 and Suz12 to repress CDH1 expression.</p> <p>Interestingly, EZH2 also participates in TGFb1 signaling, a potent inducer of EMT.</p> <p>BMI-1 can also interact with TWIST to induce EMT.</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>The intricate interactions of EMT-inducing transcription factors and chromatin remodeling complexes PRC1 and PRC2 may offer novel approaches to control EMT and thus cell adhesion in cancer cells via a plethora of new drug, such as HDACs and DNMT inhibitors.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HDAC2"/> <bbox w="53.0" h="17.0" x="3315.5" y="15866.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1886_emtc_em_sa1886"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SIN3 transcription regulator homolog A (yeast)</p> <p>SIN3A</p> <p>HUGO:SIN3A HGNC:19353 ENTREZ:25942 UNIPROT:Q96ST3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22796940</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>PMID:14673164</p> <p>Snail interacts in vivo with the E-cadherin promoter and recruits HDAC activity. </p> <p>Interaction between Snail, HDAC1 and HDAC2, and the corepressor Sin3A is dependent on the SNAG domain of Snail, indicating that the Snail transcription factor mediates the repression by recruitment of chromatin-modifying activities, forming a multimolecular complex to repress E-cadherin expression.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SIN3A"/> 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<head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK7:CyclinH*:MNAT1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa119_ce_csa119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19667075"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7533895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK7/CycH*/MNAT1"/> <bbox w="96.0" h="147.0" x="11947.473" y="9330.356"/> <glyph class="macromolecule" id="s_id_ce_sa789_ce_sa789"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CyclinH</p> <p>HUGO:CCNH, HGNC:1594, ENTREZ:902, UNIPROT:P51946</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery:</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="CyclinH*"/> <bbox w="80.0" h="40.0" x="11956.6455" y="9374.501"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa787_ce_sa787"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 7</p> <p>HUGO:CDK7, HGNC:1778, ENTREZ:1022, UNIPROT:P50613</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> <p>CDK7 participates in basal transcription by phosphorylating the carboxy-terminal domain of the largest subunit of RNA polymerase II</p> </body> </html> </notes> <label text="CDK7"/> <bbox w="80.0" h="40.0" x="11955.768" y="9335.175"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa788_ce_sa788"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis)</p> <p>HUGO:MNAT1 , HGNC:7181, ENTREZ:4331, UNIPROT:P51948</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:DNA_REPAIR, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:NER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153:G,PMID:11900249, PMID:17386261</p> <p>Role of CDK7/CycH (CAK) in the transcriptional regulation, a link between transcription and the cell cycle machinery</p> <p>PMID:19667075, PMID:7533895</p> </body> </html> </notes> <label text="MNAT1"/> <bbox w="80.0" h="40.0" x="11956.768" y="9419.175"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa227_ad_sa227" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD8</p> <p>CELL:TCD4</p> <p>MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:22285893 </p> <p>Immunoglobulin receptors that bind nectin and nectin-like proteins include CD226, TIGIT, CRTAM and CD96</p> <p>All of these receptors are expressed on both NK cells and CD8 T cells</p> <p>CD226 and TIGIT may control CD8 T cell effector function through mechanisms analogous to that of CD28/CTLA-4 interactions with CD80/86.</p> <p>CD226 and CRTAM promote NK and CD8 T cell function, where as TIGIT has an inhibitory function.</p> <p>PMID:12913096 </p> <p>Identification of PVR (CD155) and Nectin-2 (CD112) as cell surface ligands for the human DNAM-1 (CD226) activating molecule (NK model)</p> <p>DNAM-1 Contributes to NK-mediated Lysis of Tumor Cells.</p> <p>PMID:19029380; PMID:8673704; PMID:26840537</p> <p>DNAM-1 promotes activation of cytotoxic lymphocytes by nonprofessional antigen-presenting cells and tumors. (T-cell models)</p> <p>DNAM-1 blockade inhibits T cell priming </p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. DNAM-1 signaling was also required to enhance cytotoxicity, by increasing actin polymerization and granule polarization.</p> <p>multiple Src family kinases, including not only Fyn but also Lyn, Src, and Lck, were able to trigger DNAM-1 tyrosine phosphorylation.</p> <p>PMID:10591186; PMID:14676297</p> <p> LFA-1 physically associates with DNAM-1 in NK cells and anti-CD3 mAb stimulated T cells, for which serine phosphorylation of DNAM-1 plays a critical role.</p> <p>CD226 (DNAM-1) Is Involved in Lymphocyte Function–associated Antigen 1 Costimulatory Signal for Naive T Cell Differentiation and Proliferation</p> <p>Upon antigen recognition by the T cell receptor, lymphocyte function–associated antigen 1 (LFA-1) physically associates with the leukocyte adhesion molecule CD226 (DNAM-1) and the protein tyrosine kinase Fyn. </p> <p>proliferation induced by LFA-1 costimulatory signal was suppressed in mutant (Y-F322) CD226-transduced naive CD4+ and CD8+ T cells in the absence of IL-2. These results suggest that CD226 is involved in LFA-1–mediated costimulatory signals for triggering naive T cell differentiation and proliferation.</p> <p>PMID:24337740</p> <p>DNAM-1 interacts with LFA-1, a critical molecule for immunological synapse formation between T cells and APCs, and for cytotoxic killing of target cells. Mice that lack DNAM-1 display abnormal T cell responses and antitumor activity; </p> <p>DNAM-1 deficiency results in reduced proliferation of CD8+ T cells after Ag presentation and impaired cytotoxic activity. We also demonstrate that DNAM-1–deficient T cells show reduced conjugations with tumor cells and decreased recruitment of both LFA-1 and lipid rafts to the immunological synapse, which correlates with reduced tumor cell killing in vitro. This synapse defect may explain why DNAM-1–deficient mice cannot clear tumors in vivo, and highlights the importance of DNAM-1 and the immunological synapse in T cell–mediated antitumor immunity.</p> <p>PMID:24658051</p> <p> CD96 competed with CD226 for CD155 binding and limited NK cell function by direct inhibition. As a result, Cd96(-/-) mice displayed hyperinflammatory responses to the bacterial product lipopolysaccharide (LPS) and resistance to carcinogenesis and experimental lung metastases.</p> <p>PMID:28893624</p> <p>Frequencies of PD-1+ TIGIT+ CD226− CD8+ T cells are increased in AML patients and correlate with poor clinical prognosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa227_ad_sa227"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22285893"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12913096"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19029380"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8673704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26840537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26552706"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10591186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14676297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4986_rc_sa4986"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDEM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EDEM1"/> <bbox w="80.0" h="40.0" x="27159.998" y="15799.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa84_akt1_akt1_csa84" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> <p>References:</p> <p>s_akt1_re113:(MAP:survival) PMID:21474067</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa84_akt1_akt1_csa84"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="194.0" h="256.0" x="12811.561" y="19200.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa516_akt1_akt1_sa516"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="171.0" h="59.0" x="12820.061" y="19376.0"/> <glyph class="state variable" id="_11f06ee1-e324-4a50-8fea-716fcb231011"> <state value="P" variable="S2448"/> <bbox w="40.0" h="10.0" x="12969.739" y="19430.0"/> </glyph> <glyph class="state variable" id="_c6fa1d53-2b4d-4b38-a091-f59dbfc5675e"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12966.255" y="19371.0"/> </glyph> <glyph class="state variable" id="_5dafea1e-90b2-4f2c-8015-f2493b896032"> <state value="" variable="S2481"/> <bbox w="35.0" h="10.0" x="12802.561" y="19428.447"/> </glyph> <glyph class="state variable" id="_9ed1c83b-d105-4065-8538-3eb1c88559d7"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="12805.061" y="19400.5"/> </glyph> <glyph class="state variable" id="_b8e0adb8-a614-4e45-8a1f-bfcf329b92e4"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="12810.116" y="19371.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa513_akt1_akt1_sa513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="160.0" h="57.0" x="12823.561" y="19211.0"/> <glyph class="state variable" id="_7d45b58c-af1b-42fc-a3ff-4064547851c3"> <state value="" variable="S183"/> <bbox w="30.0" h="10.0" x="12809.546" y="19206.0"/> </glyph> <glyph class="state variable" id="_51d0e980-a0d8-4a0f-b377-120da7022f26"> <state value="" variable="S212"/> <bbox w="30.0" h="10.0" x="12968.561" y="19207.41"/> </glyph> <glyph class="state variable" id="_147e08c3-8df0-4981-a070-f30bba7e1aa7"> <state value="" variable="S221"/> <bbox w="30.0" h="10.0" x="12968.561" y="19261.762"/> </glyph> <glyph class="state variable" id="_fd1215b3-0efd-47ed-96e0-129878751a7d"> <state value="" variable="T246"/> <bbox w="30.0" h="10.0" x="12808.561" y="19257.47"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa518_akt1_akt1_sa518"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="12907.561" y="19273.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa514_akt1_akt1_sa514"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12824.061" y="19271.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa515_akt1_akt1_sa515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="169.0" h="51.0" x="12821.061" y="19314.5"/> <glyph class="state variable" id="_7b64db65-3dff-403a-a73a-d1625802d080"> <state value="" variable="S696"/> <bbox w="30.0" h="10.0" x="12806.061" y="19334.959"/> </glyph> <glyph class="state variable" id="_852fd88e-db28-4b29-8dba-8c5ff7bb90ab"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="12926.366" y="19309.5"/> </glyph> <glyph class="state variable" id="_cc8cb54a-8b19-4e27-a1d3-542db5475ed9"> <state value="" variable="S863"/> <bbox w="30.0" h="10.0" x="12926.049" y="19360.5"/> </glyph> <glyph class="state variable" id="_0f1bdf67-dbbd-44df-aaee-383257eda777"> <state value="" variable="S877"/> <bbox w="30.0" h="10.0" x="12850.533" y="19360.5"/> </glyph> <glyph class="state variable" 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id="_4b411843-ba3a-4eff-b143-47ce73b0ecce"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23694.06" y="21124.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4635_rc_sa4635" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4635_rc_sa4635"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR130A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR130A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR130A"/> <bbox w="90.0" h="25.0" x="24942.06" y="15629.5"/> <glyph class="unit of information" id="_5b6347ba-c4e0-4c0d-b54d-602b288961c0"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="24972.06" y="15624.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca1_sa600_wca1_wca1_sa600" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="Recycling "/> <bbox w="80.0" h="30.0" x="21781.06" y="20226.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4274_rc_sa4274" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4274_rc_sa4274"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K1"/> <bbox w="80.0" h="40.0" x="22338.56" y="10701.0"/> <glyph class="state variable" id="_509aeb89-9a17-4dad-bda8-06a02ff350ef"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22390.129" y="10696.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa358_in_sa358" compartmentRef="s_id_in_ca47_in_ca47"> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="23535.0" y="685.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5302_rc_sa5302" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tRNA isopentenyltransferase 1</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5302_rc_sa5302"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRIT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRIT1"/> <bbox w="80.0" h="40.0" x="27469.06" y="9759.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1393_ad_sa1393" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:27192565; PMID:22863785; PMID:21807895 </p> <p>BAG6=BAT3</p> <p>In the absence of ligandmediated Tim-3 signaling, Bat3 is bound</p> <p>to Tim-3 and blocks SH2 domain-binding sites in the Tim-3 tail. In this state, Bat3</p> <p>recruits the catalytically active form of Lck, thereby forming an intracellular molecular complex with Tim-3 that preserves and potentially promotes T cell</p> <p>signaling.Galectin-9 and Ceacam-1 binding to Tim-3 leads to phosphorylation of Y256</p> <p>and Y263 and release of Bat-3 from the Tim-3 tail, thereby promoting Tim-3-mediated T cell inhibition by allowing binding of</p> <p>SH2 domain-containing Src kinases and subsequent regulation</p> <p>of TCR signaling , Fyn binds to the same region on the</p> <p>Tim-3 tail as Bat3. Fyn has been implicated in the induction of</p> <p>T cell anergy (Davidson et al., 2007) and is known to be a key</p> <p>kinase to activate phosphoprotein associated with glycosphingolipid microdomains (PAG), which recruits Csk to suppress</p> <p>Lck function (Salmond et al., 2009; Smida et al., 2007). Because</p> <p>Fyn and Bat3 bind to the same domain in the Tim-3 cytoplasmic</p> <p>tail, it is possible that a switch between Tim-3-Bat3 and Tim-3-</p> <p>Fyn might trigger the switch of Tim-3 function from being permissive to TCR signaling to inhibition of upstream TCR signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1393_ad_sa1393"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27192565"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22863785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21807895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAG6"/> <bbox w="80.0" h="40.0" x="25686.0" y="2650.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1006_ca_sa1006" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF </p> <p>References:</p> <p>PMID:26201938</p> <p>CAFs expressed the co-regulatory molecules, B7H1 (PDL1) and B7DC (PDL2), whereas NFs (normal fibroblasts) did not</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1006_ca_sa1006"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD1LG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26201938"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDL2*"/> <bbox w="80.0" h="50.0" x="570.0" y="3755.0"/> <glyph class="unit of information" id="_bd91da27-131b-4bb2-9b71-dcccaf231412"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="587.5" y="3750.0"/> </glyph> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AKAP*:PKA*</p> <p>References:</p> <p>s_shh1_re52:(MAP:survival) PMID:20016067</p> <p>s_shh1_re49(MAP:survival):</p> <p>PMID:20016067</p> <p>the PTC receptor itself does not trigger the activation of PKA but the withdrawal of the SHH ligand does</p> <p>PMID:16537363</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa24_shh1_shh1_csa24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20016067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20016067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16537363"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKA_AKAP"/> <bbox w="100.0" h="120.0" x="26907.06" y="18352.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa190_shh1_shh1_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>A kinase (PRKA) anchor protein 1</p> <p>HUGO:AKAP1 HGNC:367 ENTREZ:8165 UNIPROT:Q92667 GENECARDS:AKAP1 REACTOME:49858 KEGG:8165 ATLASONC:GC_AKAP1 WIKI:AKAP1 </p> <p>A kinase (PRKA) anchor protein 2</p> <p>HUGO:AKAP2 HGNC:372 ENTREZ:11217 UNIPROT:Q9Y2D5 GENECARDS:AKAP2 KEGG:11217 WIKI:AKAP2 </p> <p>A kinase (PRKA) anchor protein 3</p> <p>HUGO:AKAP3 HGNC:373 ENTREZ:10566 UNIPROT:O75969 GENECARDS:AKAP3 KEGG:10566 ATLASONC:GC_AKAP3 WIKI:AKAP3 </p> <p>A kinase (PRKA) anchor protein 4</p> <p>HUGO:AKAP4 HGNC:374 ENTREZ:8852 UNIPROT:Q5JQC9 GENECARDS:AKAP4 KEGG:8852 ATLASONC:GC_AKAP4 WIKI:AKAP4 </p> <p>A kinase (PRKA) anchor protein 5</p> <p>HUGO:AKAP5 HGNC:375 ENTREZ:9495 UNIPROT:P24588 GENECARDS:AKAP5 REACTOME:381620 KEGG:9495 ATLASONC:GC_AKAP5 WIKI:AKAP5 </p> <p>A kinase (PRKA) anchor protein 6</p> <p>HUGO:AKAP6 HGNC:376 ENTREZ:9472 UNIPROT:Q13023 GENECARDS:AKAP6 KEGG:9472 ATLASONC:GC_AKAP6 WIKI:AKAP6 </p> <p>A kinase (PRKA) anchor protein 7</p> <p>HUGO:AKAP7 HGNC:377 ENTREZ:9465 UNIPROT:O43687 GENECARDS:AKAP7 KEGG:9465 ATLASONC:GC_AKAP7 WIKI:AKAP7 </p> <p>A kinase (PRKA) anchor protein 8</p> <p>HUGO:AKAP8 HGNC:378 ENTREZ:10270 UNIPROT:O43823 GENECARDS:AKAP8 KEGG:10270 ATLASONC:GC_AKAP8 WIKI:AKAP8 </p> <p>A kinase (PRKA) anchor protein 9</p> <p>HUGO:AKAP9 HGNC:379 ENTREZ:10142 UNIPROT:Q99996 GENECARDS:AKAP9 REACTOME:49844 KEGG:10142 ATLASONC:AKAP9ID42999ch7q21 WIKI:AKAP9 </p> <p>A kinase (PRKA) anchor protein 10</p> <p>HUGO:AKAP10 HGNC:368 ENTREZ:11216 UNIPROT:O43572 GENECARDS:AKAP10 REACTOME:49822 KEGG:11216 ATLASONC:GC_AKAP10 WIKI:AKAP10 </p> <p>A kinase (PRKA) anchor protein 11</p> <p>HUGOAKAP11 HGNC:369 ENTREZ:11215 UNIPROT:Q9UKA4</p> <p>A kinase (PRKA) anchor protein 12</p> <p>HUGO:AKAP12 HGNC:370 ENTREZ:9590 UNIPROT:Q02952 GENECARDS:AKAP12 KEGG:9590 ATLASONC:AKAP12ID607ch6q25 WIKI:AKAP12 </p> <p>A kinase (PRKA) anchor protein 13</p> <p>HUGO:AKA13 GENECARDS:AKA13 WIKI:AKA13 </p> <p>A kinase (PRKA) anchor protein 14</p> <p>HUGO:AKAP14 HGNC:24061 ENTREZ:158798 UNIPROT:Q86UN6 GENECARDS:AKAP14 KEGG:158798 WIKI:AKAP14 </p> <p>A kinase (PRKA) anchor protein 17</p> <p>HUGO:AKAP17A HGNC:18783 ENTREZ:8227 UNIPROT:Q02040 GENECARDS:AKAP17A KEGG:8227 WIKI:AKAP17A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20016067</p> </body> </html> </notes> <label text="AKAP*"/> <bbox w="80.0" h="40.0" x="26916.06" y="18409.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa191_shh1_shh1_sa191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Protein kinase cAMP-depenedent catalytic alpha</p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>Protein kinase cAMP-depenedent catalytic beta</p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>Protein kinase cAMP-depenedent catalytic gamma</p> <p>HUGOPRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="PKA*"/> <bbox w="80.0" h="40.0" x="26915.56" y="18363.0"/> </glyph> </glyph> <glyph class="macromolecule" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HHPMID:22354771; PMID:17638910Stimulation of cultured normal fibroblasts with TGFβ in the absence of SHH increased the mRNA levels of the hedgehog target genes Ptch1, Ptch2 (probably via GLI1 and GLI2) ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HHPMID:22354771; PMID:17638910Stimulation of cultured normal fibroblasts with TGFβ in the absence of SHH increased the mRNA levels of the hedgehog target genes Ptch1, Ptch2 (probably via GLI1 and GLI2) </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa923_ca_sa923"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22354771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTCH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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class="macromolecule multimer" id="s_id_ad_sa1319_ad_sa1319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAR1A</p> <p>HUGO:PRKAR1B</p> <p>CASCADE:AR2A</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:11181701 </p> <p> In normal T cells, cAMP-dependent protein kinase (PKA) type I colocalizes with the TCR–CD3 complex and inhibits TCR-induced cell proliferation</p> </body> </html> </notes> <label text="PKA1_R"/> <bbox w="86.0" h="46.0" x="27263.0" y="2952.0"/> <glyph class="unit of information" id="_9ba5e4c0-9d2f-46ad-b935-7aab4a847281"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="27296.0" y="2947.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ad_sa1320_ad_sa1320"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKACA</p> <p>HUGO:PRKACB</p> <p>HUGO:PRKACG</p> <p>CASCADE:AR2A</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:11181701 </p> <p> In normal T cells, cAMP-dependent protein kinase (PKA) type I colocalizes with the TCR–CD3 complex and inhibits TCR-induced cell proliferation</p> <p>cAMP treatment of Jurkat and normal T cells reduces Lck-mediated tyrosine phosphorylation of the TCR/CD3 zeta chain after T cell activation, and decreases Lck activity. Phosphorylation of residue Y505 in Lck by COOH-terminal Src kinase (Csk), which negatively regulates Lck, is essential for the inhibitory effect of cAMP on zeta chain phosphorylation. PKA phosphorylates Csk at S364 in vitro and in vivo leading to a two- to fourfold increase in Csk activity that is necessary for cAMP-mediated inhibition of TCR-induced interleukin 2 secretion</p> <p>PMID:17371980</p> </body> </html> </notes> <label text="PKA*"/> <bbox w="86.0" h="46.0" x="27263.0" y="3002.0"/> <glyph class="unit of information" id="_ba552c1d-bc4e-4b75-92dc-ffc23e7a6cf4"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="27296.0" y="2997.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4956_rc_sa4956" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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x="9040.0" y="3980.0"/> <glyph class="state variable" id="_e7649785-2910-43de-812b-41e3b4b63b53"> <state value="" variable="Y446"/> <bbox w="30.0" h="10.0" x="9067.158" y="4025.0"/> </glyph> <glyph class="state variable" id="_7a4a17c7-5151-448c-885d-48d3d407389a"> <state value="" variable="Y496"/> <bbox w="30.0" h="10.0" x="9025.0" y="3981.8364"/> </glyph> <glyph class="unit of information" id="_10f72752-d581-4a96-9b14-85b05a18908b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9057.5" y="3975.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1008_in_sa1008"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL10, CASCADE:TGFB, CASCADE:MIF, CASCADE:CSF1, CASCADE:IL12, CASCADE:STING, CASCADE:TLR2_4, CASCADE:IFNAB, CASCADE:FLT3LG, CASCADE:IFNG, CASCADE:IL4</p> <p>References:</p> <p>PMID:21115385</p> <p>IL10 is immunosuppressive cytokine.</p> <p>PMID:10623821, PMID:10623821</p> <p>IL10 expression in macrophages is assosiated</p> <p>with TAM (M2) phenotype.</p> <p>PMID:10542212</p> <p>IL10 promotes M2 phenotype of macrophages</p> <p> trough suppression of NFkB signaling</p> <p>and inhibition of synthesis of pro-inflammatory cytokines.</p> <p>PMID:11875494</p> <p>IL10 stimulates HO1 expression via MAPK p38 stimulation.</p> <p>PMID:16713974, PMID:14607900</p> <p>IL10 and Stat3 mediate feedback inhibition of TLR signaling. TLR2/TLR4 induces</p> <p>IL10 expression. IL10 inhibits exppression of TNF downstream of TLR.</p> <p>PMID:16713974</p> <p>Production of IL10 is partially ERK dependent.</p> <p>PMID:21191065</p> <p> regulatory effect of galectin-1 is mediated, in part, through its ability to induce, in an Id3 (inhibitor of DNA binding 3)-dependent manner, the expression of IL-10 in monocytes and MdDCs.</p> <p>At the same tyme IL10 siglaning also participates in ID3 upregulation via PI3K/AKT pathway</p> <p>PMID:17404308</p> <p>CSF1 induces IL10 and CCL2 mRNA expression in macrophages</p> <p>PMID:9834059</p> <p>NK cells stimulated by IL12 induces IL10 production.</p> <p>PMID:11207245</p> <p>IFNA induces IL10 production in Dcs (negative loop)</p> <p>PMID:21220452</p> <p>that IL-10 increased March1 mRNA by approximately six fold</p> <p>PMID:15579430</p> <p>Metastatic Melanoma Secreted IL-10 Down-Regulates CD1(CD1a, CD1b, CD1c, and CD1d) protein Molecules on Dendritic Cells in Metastatic Tumor Lesions (</p> <p>PMID:16424049</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL10"/> <bbox w="80.0" h="40.0" x="9040.0" y="3936.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa391_an_sa391" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11335727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa391_an_sa391"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11335727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p90RSK*"/> <bbox w="80.0" h="40.0" x="5092.0" y="6675.0"/> <glyph class="state variable" id="_185b3897-5fd3-4c31-9d96-8d7deb9749e3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5141.0684" y="6670.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_wnc1_wnc1_sa398_wnc1_wnc1_sa398" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="26S proteosomal degradation"/> <bbox w="30.0" h="30.0" x="16147.061" y="19429.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa118_ca_sa118" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa118_ca_sa118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EDN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EDN1"/> <bbox w="90.0" h="25.0" x="2315.0" y="4368.5"/> <glyph class="unit of information" id="_ab8c081d-d887-46d1-aa96-7d9a5351cbb4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2350.0" y="4363.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa31_akt1_akt1_csa31" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RAC1:RPTOR</p> <p>References:</p> <p>s_akt1_re57(MAP:survival):</p> <p>PMID:18372248</p> <p>PMID:20138985</p> <p>s_akt1_re58(MAP:survival):</p> <p>PMID:19446321</p> <p>ANNOTATION:complex formation with DEPTOR antagonize/inhibits MTOR kinase activity</p> <p>PMID:19706736</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa31_akt1_akt1_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372248"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138985"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19446321"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19706736"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="171.0" h="240.0" x="13835.699" y="19365.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa180_akt1_akt1_sa180"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="163.0" h="64.0" x="13839.199" y="19520.0"/> <glyph class="state variable" id="_ea738082-2b65-460e-b621-dc9925d1c5f1"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="13826.401" y="19515.0"/> </glyph> <glyph class="state variable" id="_3a9c4259-de19-466a-9403-8f1ddfde3c11"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="13819.199" y="19577.32"/> </glyph> <glyph class="state variable" id="_e645395a-e8ad-4af6-bc1c-67b68912e79d"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="13977.735" y="19515.0"/> </glyph> <glyph class="state variable" id="_e031fef5-7f4f-4c9a-96eb-6fc98d94b0d6"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="13824.199" y="19547.0"/> </glyph> <glyph class="state variable" id="_9233acc3-9178-41e9-8ebf-f7f423e0a4bb"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="13983.439" y="19579.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa525_akt1_akt1_sa525"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="13920.561" y="19425.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa179_akt1_akt1_sa179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="140.0" h="46.0" x="13852.199" y="19465.5"/> <glyph class="state variable" id="_f21df454-8d9e-46ae-8f99-59736219d475"> <state value="P" variable="S696"/> <bbox w="35.0" h="10.0" x="13834.699" y="19483.463"/> </glyph> <glyph class="state variable" id="_58fafcb5-f946-4638-a75c-183471c5dfcf"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="13934.36" y="19460.5"/> </glyph> <glyph class="state variable" id="_53522173-c1b6-4188-9a84-6d1126b5903d"> <state value="P" variable="S863"/> <bbox w="35.0" h="10.0" x="13934.098" y="19506.5"/> </glyph> <glyph class="state variable" id="_ebc8aa86-7970-4c56-b21c-d70d5c05944c"> <state value="P" variable="S877"/> <bbox w="35.0" h="10.0" x="13871.54" y="19506.5"/> </glyph> <glyph class="state 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</glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa181_akt1_akt1_sa181"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36 GENECARDS:AKT1S1 REACTOME:200146 KEGG:84335 ATLASONC:GC_AKT1S1 WIKI:AKT1S1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="151.0" h="47.0" x="13847.449" y="19373.0"/> <glyph class="state variable" id="_e295a74a-353a-47c5-a6c1-764b11172c85"> <state value="P" variable="S183"/> <bbox w="35.0" h="10.0" x="13830.879" y="19368.0"/> </glyph> <glyph class="state variable" id="_e78d59b3-03ab-4e96-a764-4af470d31a39"> <state value="P" variable="S212"/> <bbox w="35.0" h="10.0" x="13980.949" y="19369.166"/> </glyph> <glyph class="state 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLUL"/> <clone/> <bbox w="80.0" h="40.0" x="18986.06" y="12249.0"/> <glyph class="state variable" id="_d4f1264f-4def-488e-b7a5-d2802db1d5d0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19037.629" y="12244.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2060_rc_sa3636" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2060_rc_sa3636"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLUL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLUL"/> <clone/> <bbox w="80.0" h="40.0" x="19917.06" y="9636.0"/> <glyph class="state variable" id="_c2835097-8b21-4d40-8faf-d6c7070172e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19968.629" y="9631.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1105_ca_sa1105" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:25732824</p> <p>NDUFA4L2 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex, 4-like 2), a negative regulator of mitochondrial complex 1, was upregulated in CAFs</p> <p> The accumulation of HIF-1α, in turn, promotes glycolysis by increasing the uptake of glucose, upregulating expression of glycolytic enzymes under normoxic conditions, and inhibiting oxidative phosphorylation by upregulating NDUFA4L2 downstream of TGFB.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1105_ca_sa1105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NDUFA4L2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25732824"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NDUFA4L2 "/> <bbox w="80.0" h="40.0" x="3200.0" y="4080.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3455_rc_sa3455" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3455_rc_sa3455"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MRE11A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="18209.06" y="16669.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa89_rc_csa89" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:GTP:RHEB</p> <p>References:</p> <p>PMID:12906785</p> <p>farnesylation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa89_rc_csa89"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12906785"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHEB:GTP"/> <bbox w="100.0" h="94.0" x="26564.06" y="11947.0"/> <glyph class="macromolecule" id="s_id_rc_sa1103_rc_sa1103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras homolog enriched in brain</p> <p>HUGO:RHEB HGNC:10011 ENTREZ:6009 UNIPROT:Q15382</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> </body> </html> </notes> <label text="RHEB"/> <bbox w="80.0" h="40.0" x="26574.06" y="11952.0"/> <glyph class="state variable" id="_c630fc8e-2bba-4867-9e4b-e256d4e51cc8"> <state value="Pr" variable=""/> <bbox w="20.0" h="10.0" x="26587.492" y="11947.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1104_rc_sa1104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="26579.06" y="11995.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa264_emtc_em_csa264" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ARP2_3*:Actin cytoskeletal*:Actinin*:BCAR1:FAK1*:PXN:Talin*:Vinculin*:c-SRC*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:12473693</p> <p>PMID:14749719</p> <p>PMID:15094799</p> <p>Vinculin recruits Arp2_3 complex to new sites of focal adhesions to nucleate new actin filaments, promoting actin polymerization.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa264_emtc_em_csa264"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12473693"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14749719"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15094799"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Focal adhesion complex/Actinin*/Actin*/ARP2_3*)"/> <bbox w="305.0" h="133.0" x="6167.0" y="18078.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1734_emtc_em_sa1734"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actinin*</p> <p>actinin, alpha 1</p> <p>HUGO:ACTN1 HGNC:163 ENTREZ:87 UNIPROT:P12814 </p> <p>actinin, alpha 2</p> <p>HUGO:ACTN2 HGNC:164 ENTREZ:88 UNIPROT:P35609 </p> <p>actinin, alpha 4</p> <p>"focal segmental glomerulosclerosis 1", FSGS1</p> <p>HUGO:ACTN4 HGNC:166 ENTREZ:81 UNIPROT:O43707</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:15688067</p> <p>Alpha-actinin is a cytoskeletal protein that binds to viculin (VCL).</p> <p>Via this binding, Alpha-actinin crosslinks actin (in actomyosin stress fibres) and tether them to the focal contacts.</p> <p>Phosphorylation of alpha-actinin by FAK1 (PTK2) reduces the crossliking of stress fibres and prevents the maturation of focal contacts.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actinin*"/> <bbox w="62.0" h="18.0" x="6313.07" y="18114.064"/> <glyph class="state variable" id="_e13e76fa-7506-4f6b-a17a-53c8456c7cf7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6369.786" y="18109.064"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1732_emtc_em_sa1732"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>paxillin</p> <p>HUGO:PXN HGNC:9718 ENTREZ:5829 UNIPROT:P49023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:16000375</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>PMID:15308668</p> <p>CRK bound to DOCK1 (so-called DOCK180) forms complex with phosphorylated paxillin.</p> <p>The complex is necessary for collagen-dependent cell migration, mainly through Rac1 activation.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="PXN"/> <bbox w="35.0" h="29.0" x="6269.32" y="18131.314"/> <glyph class="state variable" id="_7f08b47b-7bc6-4e27-9e40-ca5d1d401af3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6263.366" y="18126.314"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1721_emtc_em_sa1721"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ARP2/3*</p> <p>ARP2 actin-related protein 2 homolog (yeast)</p> <p>"ARP2 (actin-related protein 2, yeast) homolog"</p> <p>HUGO:ACTR2 HGNC:169 ENTREZ:10097 UNIPROT:P61160 </p> <p>ARP3 actin-related protein 3 homolog (yeast)</p> <p>"ARP3 (actin-related protein 3, yeast) homolog"</p> <p>HUGO:ACTR3 HGNC:170 ENTREZ:10096 UNIPROT:P61158</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ARP2_3*"/> <bbox w="60.0" h="20.0" x="6243.455" y="18086.863"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1737_emtc_em_sa1737"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>c-src tyrosine kinase</p> <p>HUGO:CSK HGNC:2444 ENTREZ:1445 UNIPROT:P41240</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:18829532</p> <p>PMID:9819392</p> <p>PTK6 and CSK both can phosphorylate ARHGAP35 (p190) at Y1105</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by CSK or by PTK6.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="c-SRC*"/> <bbox w="46.0" h="18.0" x="6345.72" y="18155.064"/> <glyph class="state variable" id="_40421b63-a44c-43d2-a1fb-8dd79b7adddd"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="6384.22" y="18150.848"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1736_emtc_em_sa1736"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Talin*</p> <p>talin 1</p> <p>HUGO:TLN1 HGNC:11845 ENTREZ:7094 UNIPROT:Q9Y490 </p> <p>talin 2</p> <p>HUGO:TLN2 HGNC:15447 ENTREZ:83660 UNIPROT:Q9Y4G6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Talin*"/> <bbox w="39.0" h="16.0" x="6311.32" y="18138.064"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1731_emtc_em_sa1731"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine kinase 2</p> <p>"PTK2 protein tyrosine kinase 2"</p> <p>HUGO:PTK2 HGNC:9611 ENTREZ:5747 UNIPROT:Q05397</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FAK1*"/> <bbox w="64.0" h="21.0" x="6273.97" y="18165.064"/> <glyph class="state variable" id="_60e974be-d215-40d8-823d-024389571f98"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="6263.97" y="18160.553"/> </glyph> <glyph class="state variable" id="_a970294d-b1ff-4fde-8cd8-1d760a4b7e59"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6327.736" y="18160.064"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1733_emtc_em_sa1733"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>vinculin</p> <p>HUGO:VCL HGNC:12665 ENTREZ:7414 UNIPROT:P18206</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Vinculin*"/> <bbox w="59.0" h="16.0" x="6253.32" y="18114.064"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1735_emtc_em_sa1735"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="6316.895" y="18089.299"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1738_emtc_em_sa1738"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer anti-estrogen resistance 1</p> <p>HUGO:BCAR1 HGNC:971 ENTREZ:9564 UNIPROT:P56945</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCAR1"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2532_rc_sa2532"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX15"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX15"/> <bbox w="80.0" h="40.0" x="21695.31" y="14375.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa171_mo_sa171" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>lysine demethylase 3B</p> <p>"jumonji domain containing 1B", "lysine (K)-specific demethylase 3B" </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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demethylase 3B</p> <p>"jumonji domain containing 1B", "lysine (K)-specific demethylase 3B" </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa171_mo_sa153"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDM3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JMJD1B*"/> <clone/> <bbox w="80.0" h="40.0" x="2706.4167" y="11036.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa185_emtc_em_csa185" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cingulin*:MyosinII*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Cingulin*/Myosin II*"/> <bbox w="135.0" h="41.0" x="1850.0" y="14537.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1659_emtc_em_sa1659"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MyosinII*</p> <p>myosin, heavy chain 1, skeletal muscle, adult</p> <p>HUGO:MYH1, HGNC:7567, ENTREZ:4619, GENECARDS:GC17M010395, UNIPROT:P12882</p> <p>myosin, heavy chain 2, skeletal muscle, adult</p> <p>HUGO:MYH2 HGNC:7572 ENTREZ:4620 UNIPROT:Q9UKX2</p> <p>myosin, heavy chain 3, skeletal muscle, embryonic</p> <p>HUGO:MYH3 HGNC:7573 ENTREZ:4621 UNIPROT:P11055</p> <p>myosin, heavy chain 4, skeletal muscle</p> <p>HUGO:MYH4 HGNC:7574 ENTREZ:4622 UNIPROT:Q9Y623</p> <p>myosin, heavy chain 6, cardiac muscle, alpha</p> <p>"myosin, heavy polypeptide 6, cardiac muscle, alpha (cardiomyopathy, hypertrophic 1)"</p> <p>HUGO:MYH6 HGNC:7576 ENTREZ:4624 UNIPROT:P13533</p> <p>myosin, heavy chain 7, cardiac muscle, beta</p> <p>CMH1, MPD1, "myopathy, distal 1", "myosin, heavy polypeptide 7, cardiac muscle, beta"</p> <p>HUGO:MYH7 HGNC:7577 ENTREZ:4625 UNIPROT:P12883</p> <p>myosin, heavy chain 7B, cardiac muscle, beta</p> <p>"myosin, heavy polypeptide 7B, cardiac muscle, beta"</p> <p>HUGO:MYH7B HGNC:15906 ENTREZ:57644 UNIPROT:A7E2Y1</p> <p>myosin, heavy chain 8, skeletal muscle, perinatal</p> <p>"myosin, heavy polypeptide 8, skeletal muscle, perinatal"</p> <p>HUGO:MYH8 HGNC:7578 ENTREZ:4626 UNIPROT:P13535</p> <p>myosin, heavy chain 9, non-muscle</p> <p>DFNA17, "myosin, heavy polypeptide 9, non-muscle"</p> <p>HUGO:MYH9 HGNC:7579 ENTREZ:4627 UNIPROT:P35579</p> <p>myosin, heavy chain 10, non-muscle</p> <p>HUGO:MYH10 HGNC:7568 ENTREZ:4628 UNIPROT:P35580</p> <p>myosin, heavy chain 11, smooth muscle</p> <p>HUGO:MYH11 HGNC:7569 ENTREZ:4629 UNIPROT:P35749</p> <p>myosin, heavy chain 13, skeletal muscle</p> <p>HUGO:MYH13 HGNC:7571 ENTREZ:8735 UNIPROT:Q9UKX3</p> <p>myosin, heavy chain 14, non-muscle</p> <p>HUGO:MYH14 HGNC:23212 ENTREZ:79784 UNIPROT:Q7Z406</p> <p>myosin, heavy chain 15</p> <p>HUGO:MYH15 HGNC:31073 ENTREZ:22989 UNIPROT:Q9Y2K3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MyosinII*"/> <bbox w="68.0" h="19.0" x="1913.5" y="14539.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1245_emtc_em_sa1245"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cingulin</p> <p>HUGO:CGN, HGNC:17429, ENTREZ:57530, UNIPROT:Q9P2M7, GENECARDS:GC01P151483  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Cingulin*"/> <bbox w="63.0" h="18.0" x="1851.0" y="14540.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1095_in_sa1095" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NCF1"/> <bbox w="80.0" h="40.0" x="14233.594" y="6355.9375"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2374_rc_sa2374" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" 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w="20.0" h="10.0" x="20108.06" y="16001.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa732_ad_sa732" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>CASCADE:TCR</p> <p>MODULE:CHEKPOINTS, MODULE:TCR_SIGNALING</p> <p>PMID:19836308 </p> <p>CD28 stimulation inhibits GSK3 by increasing inhibitory serine phosphorylation mediated by the phosphatidylinositol 3-kinase (PI3K) pathway, but independently of the guanine nucleotide exchange factor Vav-1 [25]. By inhibiting GSK3, CD28 relieves inhibition of nuclear factor of activated T cells (NFAT), thus providing a mechanism by which cells can monitor receptor occupancy to maintain T-cell responses</p> <p>Maintenance of GSK3 inhibition is critical for CD4+ and CD8+ T-cell survival after activation</p> <p>GSK3 inhibition increased the production of anti-inflammatory IL-10 by memory CD4+ T cells</p> <p> T-cell migration across endothelial cell barriers separating blood from tissue is critical for accessing targets and failure to clear pathogens can result from blocked migration, for example, due to a lack of necessary recognition molecules. T-cell motility is promoted by the chemokine CXCL12, which inhibits GSK3-mediated phosphorylation of CRMP2</p> <p>mitogenic stimulation of T lymphocytes causes rapid activation of protein synthesis, in part due to increased expression of many translational components such as the initiation factor eIF2B. eIF2B is phosphorylated by GSK3, which inhibits nucleotide exchange, and this inhibition is released by TCR activation-induced inhibition of GSK3</p> <p>PMID:19836308 </p> <p>GSK3 inactivates NFATc by phosphorylation-dependent stimulation of NFATc nuclear export </p> <p>PMID:26885856 </p> <p>TCR and CD28 phosphorylate and inactivate GSK-3</p> <p>GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.</p> <p>PMID:23732914 </p> <p>Inhibition of CK2 during stimulation via TCR/CD3 and CD28 recapitulated the effects of PD-1 and resulted in diminished PTEN expression and phosphorylation in the C-terminal regulatory region. These events were associated with diminished activation of the PI3K/Akt pathway, as determined by impaired phosphorylation of Akt and its downstream target, GSK3β</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa732_ad_sa732"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19836308"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19836308"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885856"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23732914"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="29516.0" y="5295.0"/> <glyph class="state variable" id="_2f1fed6e-6f3b-4be5-aa91-c14ce33ca741"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29511.0" y="5310.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa12_in_csa12" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa12_in_csa12"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21458045"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARL14:GDP"/> <bbox w="100.0" h="120.0" x="21770.0" y="7120.0"/> <glyph class="simple chemical" id="s_id_in_sa140_in_sa140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="21785.0" y="7127.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa139_in_sa139"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ARL14"/> <bbox w="80.0" h="40.0" x="21780.0" y="7170.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa931_ad_sa931" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 downstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> <p>PMID:27557510</p> <p>We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts </p> <p>KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa931_ad_sa931"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL8"/> </rdf:Bag> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa210_shh1_shh2_sa210"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC3"/> <clone/> <bbox w="80.0" h="40.0" x="25994.06" y="20537.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa210_emtc_em_sa2050" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa210_emtc_em_sa2050"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC3"/> <clone/> <bbox w="56.0" h="17.0" x="3138.0" y="16094.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa191_an_sa191" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11324699</p> <p>PMID:15258919</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa191_an_sa191"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11324699"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15258919"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLA1A"/> <bbox w="80.0" h="40.0" x="4349.0" y="6870.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3774_rc_sa3774" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:37624</p> <p>References:</p> <p>PMID:22248338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1897_emtc_em_sa1897"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK11"/> <bbox w="58.0" h="21.0" x="3091.5" y="16248.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa14_emtc_em_csa14" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LTBP1:Latency-associated protein*:TGFB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:15611103</p> <p>PMID:21900405</p> <p>TGFB is released from cells in a latent complex formed by 3 proteins: </p> <p>(i) TGFB, (ii) the processed TGFB propeptide (LAP) and (iii) a member of the latent TGFB binding protein (LTBP) family</p> <p>LTBPs are microfibril-associated proteins that tether latent TGFB to the ECM</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa14_emtc_em_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611103"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Large Latent complex)"/> <bbox w="169.0" h="68.0" x="1243.031" y="18981.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa238_emtc_em_sa238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="47.0" h="25.0" x="1285.594" y="19008.5"/> <glyph class="unit of information" id="_178de7d6-e4cd-4b22-adea-d77a94c74109"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1299.094" y="19003.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa344_emtc_em_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="168.0" h="24.0" x="1243.281" y="18982.0"/> <glyph class="unit of information" id="_36e89b06-1b26-43d8-ac7e-35ea1ef17142"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1317.281" y="18977.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa225_emtc_em_sa225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1, HGNC:6714, ENTREZ:4052, UNIPROT:Q14766,GENECARDS:GC02P033172, UNIPROT:Q14766</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LTBPs are microfibril-associated proteins that tether latent TGFB to the ECM</p> <p>There are 4 LTBP proteins (1, 2, 3, 4). 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Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> </body> </html> </notes> <label text="NFKB2_p100*"/> <bbox w="80.0" h="40.0" x="29246.0" y="6175.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa922_ad_sa922"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RELA </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.</p> <p>PMID:15079071 </p> <p>In T cells the alternative NFkB pathway acts via RELA/p52 dimer not via RELB/p52 sownstream CD28</p> <p>CD28 delivers a unique signal leading to the selective recruitment of RelA and p52 NF-κB subunits on IL-8 and Bcl-xL gene promoters</p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="29246.0" y="6215.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2954_rc_sa2954" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16239.811" y="19458.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa695_mpk1_mpk1_sa695" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa695_mpk1_mpk1_sa695"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p110*"/> <bbox w="50.0" h="25.0" x="8473.061" y="19393.5"/> <glyph class="state variable" id="_4993a4b3-81b7-4810-bbfd-7a8d286013d4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="8468.061" y="19401.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa40_ce_csa40" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LIG1:PARP1:PCNA</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20056333</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa40_ce_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15703371"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16697054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14726013"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20056333"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARP*/LIG3/PCNA"/> <bbox w="106.0" h="149.0" x="10463.473" y="16734.355"/> <glyph class="macromolecule" id="s_id_ce_sa558_ce_sa558"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="10479.973" y="16822.855"/> <glyph class="state variable" id="_3a8162ad-44f9-4c67-8a4d-b0c3e1ec0e17"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="10464.973" y="16837.855"/> </glyph> <glyph class="state variable" id="_816c0cd2-bb50-4e2d-8508-80acc30fc81c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10474.974" y="16857.855"/> </glyph> <glyph class="state variable" id="_a20bef4b-e27b-4ee6-b41d-892df371d95e"> <state 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h="40.0" x="10479.973" y="16782.855"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1164_ce_sa1164"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poly (ADP-ribose) polymerase 1</p> <p>HUGO:PARP1, HGNC:270, ENTREZ:142, P09874</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:BER, MODULE:HR, MODULE:C_NHEJ, MODULE:A_NHEJ</p> <p>References:</p> <p>NOTE: </p> <p>PARP-? poly-ADP-ribosilated</p> <p>PMID:22055391</p> <p>PARP is active phosphorylated and poly-ADP-ribosilated form</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:19208614, PMID:20603072</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> <p>PARP3 activated spindle checkpoint and binds to double strand breaks together with PAPRP1</p> <p>PMID:21270334</p> <p>PARPs in cellular functions</p> <p>PMID:22713970</p> <p>PARP1 in chromatin remodeling</p> <p>PMID:22469522, PMID:22713970</p> <p>PARP1 initiating A_NHEJ (alt_NHEJ)</p> <p>PMID:24050180</p> <p>PMID:19364882</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743</p> <p>PMID:22743550</p> <p>PMID:23562323</p> <p>PMID:24210699</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286 </p> <p>PMID:23145148</p> <p>PMID:23568489</p> </body> </html> </notes> <label text="PARP1"/> <bbox w="80.0" h="40.0" x="10477.108" y="16738.238"/> <glyph class="state variable" id="_9da0649a-2ddd-4d3c-9dfc-63eb00555780"> <state value="?" variable="PolyADPribose"/> <bbox w="80.0" h="10.0" x="10472.723" y="16733.238"/> </glyph> <glyph class="state variable" id="_d9b2da01-cee2-413d-ba41-fa90b26ca1dc"> <state value="" variable="Ser782"/> <bbox w="40.0" h="10.0" x="10457.108" y="16757.467"/> </glyph> <glyph class="state variable" 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa34_akt1_akt1_csa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19446321"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19706736"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(mTORC1)"/> <bbox w="171.0" h="240.0" x="13308.029" y="19358.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa527_akt1_akt1_sa527"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="13393.561" y="19370.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa190_akt1_akt1_sa190"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="13311.529" y="19369.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa191_akt1_akt1_sa191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="140.0" h="46.0" x="13324.529" y="19414.5"/> <glyph class="state variable" id="_6e35156a-1322-4601-afda-4c6edb4eb84a"> <state value="P" variable="S696"/> <bbox w="35.0" h="10.0" x="13307.029" y="19432.463"/> </glyph> <glyph class="state variable" id="_7227400e-7c6f-430b-b6c4-35dba03edeff"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="13406.69" y="19409.5"/> </glyph> <glyph class="state variable" id="_3dcfec8f-4013-4a3e-8af8-6ec1df5ea6f3"> <state value="P" variable="S863"/> <bbox w="35.0" h="10.0" x="13406.428" y="19455.5"/> </glyph> <glyph class="state variable" id="_2c0d684e-195b-48df-b127-fbf28a04a326"> <state value="P" variable="S877"/> <bbox w="35.0" h="10.0" x="13343.87" y="19455.5"/> </glyph> <glyph class="state variable" id="_2950bd64-8009-49b4-b0d2-5a28dddac347"> <state value="P" variable="S859"/> <bbox w="35.0" h="10.0" x="13447.029" y="19429.959"/> </glyph> <glyph class="state variable" id="_35598794-2dc6-4b94-bcf2-8ed79907aedf"> <state value="P" variable="T706"/> <bbox w="35.0" h="10.0" x="13341.542" y="19409.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa192_akt1_akt1_sa192"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> 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id="s_id_akt1_akt1_sa199_akt1_akt1_sa199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DEP domain containing MTOR-interacting protein</p> <p>HUGO:DEPTOR HGNC:22953 ENTREZ:64798 UNIPROT:Q8TB45 GENECARDS:DEPTOR KEGG:64798 ATLASONC:GC_DEPTOR WIKI:DEPTOR</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19446321</p> </body> </html> </notes> <label text="DEPTOR"/> <bbox w="80.0" h="40.0" x="13354.561" y="19534.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2968_rc_sa2968" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1793_rc_sa1793"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FH"/> <bbox w="80.0" h="40.0" x="18596.322" y="14441.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa978_ad_sa978" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:21411734 T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doseswhen cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells.PMID:20038811, IFNG as well as TNF secretion was reduced when melanoma cell lines expressed HVEM (Figure ​(Figure6,6, C and D). This inhibition correlated significantly with percentages of T cells expressing BTLA (Figure ​(Figure6E).6E). ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:21411734 T cell-NF-κB can antagonize iTreg differentiation when strongly induced at high antigen doseswhen cells are in the presence of CD28 costimulation, TCR-dependent NF-κB signaling is essential for Foxp3 inhibition at high doses of TCR engagement in mouse T cells.NF-κB-dependent inhibition of Foxp3 expression upon high TCR stimulation is secondary to the production of TNF and IFN-γ by the activated T cells.PMID:20038811, IFNG as well as TNF secretion was reduced when melanoma cell lines expressed HVEM (Figure ​(Figure6,6, C and D). This inhibition correlated significantly with percentages of T cells expressing BTLA (Figure ​(Figure6E).6E). </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa978_ad_sa978"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21411734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1899_emtc_em_sa1899"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAPK13"/> <bbox w="59.0" h="20.0" x="3091.5" y="16302.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa625_ca_sa625" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF References:CASCADE:INTEGRINPMID:17420280 Analysis of matrix metalloproteinase in vitro and in vivo revealed disturbed MMP13 and MMP14 synthesis in alpha11(-/-) cells. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF References:CASCADE:INTEGRINPMID:17420280 Analysis of matrix metalloproteinase in vitro and in vivo revealed disturbed MMP13 and MMP14 synthesis in alpha11(-/-) cells. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa625_ca_sa625"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:Integrin A8B1_AVB1_AVB5_AVB6_AVB8*:LTBP1:Latency-associated protein*:TGFB1</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:10025398</p> <p>Large latent complex binds to aVb6 via the RGD motif present in the LAP of TGFb, then</p> <p>the b6 cytoplasmic domain binds to the actin cytoskeleton, then</p> <p>Cytoskeleton-associated integrin induces release of mature TGFb from the large latent complex</p> <p>PMID:21883891</p> <p>This is one of the 2 mechanisms for activating TGFb via integrins.</p> <p>In this model, there is no proteolysis of either the LAP or LTBP.</p> <p>PMID:21900405</p> <p>LAP contains an integrin-binding site called RBD</p> <p>Several RBD-binding integrins are able to activate latent TGFB complex through binding this site.</p> <p>PMID:21909923</p> <p>The previously mentionned integrins are: a8b1, aVb1, aVb5, aVb6, aVb8.</p> <p>In the complex Ingergin-large latent TGFB complex, I picked aVb6 as example. But a8b1, aVb1, aVb5, and aVb8 can active TGFB with the same mechanism.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa35_emtc_em_csa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10025398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21883891"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Actin*/Integrin*/Large Latent Complex)"/> <bbox w="337.0" h="67.0" x="934.0" y="19083.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa363_emtc_em_sa363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="47.0" h="25.0" x="1188.0" y="19106.5"/> <glyph class="unit of information" id="_dd0fa8fd-2319-437e-b9b1-20b2810be922"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1201.5" y="19101.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa361_emtc_em_sa361"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1, HGNC:6714, ENTREZ:4052, UNIPROT:Q14766,GENECARDS:GC02P033172, UNIPROT:Q14766</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LTBPs are microfibril-associated proteins that tether latent TGFB to the ECM</p> <p>There are 4 LTBP proteins (1, 2, 3, 4). Although LTBP1 and 3 bind all three TGFB (1, 2, 3), LTBP4 binds only TGFB1</p> <p>PMID:9931372</p> <p>LTBP1 is a member of the fibrillin family</p> <p>An extracellular fibrillar structure containing LTBP1 was found in both the basement membrane of epithelia and mesenchymal tissue in which extensive tissue remodeling is carried out</p> <p>PMID:10544215</p> <p>Extracellular tTgase is located at the basal and apical surfaces of cells and at cell–cell contacts, and that LTBP1 is co-distributed with cell surface tTgase</p> <p>LTPB1 was also found to co-localize with both intracellular and extracellular fibronectin</p> <p>Regulation of tTgase expression is important for controlling matrix storage of latent TGFB1 complexes</p> <p>Fibronectin may be one extracellular component to which LTBP1 is crosslinked when LTBP1 and tTgase interact at the cell surface</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LTBP1"/> <bbox w="40.0" h="20.0" x="1226.5" y="19085.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa362_emtc_em_sa362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="176.0" h="22.0" x="1058.0" y="19084.75"/> <glyph class="unit of information" id="_fd7c1786-023f-48ec-8b47-8900025703c8"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1136.0" y="19079.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1370_emtc_em_sa1370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="117.0" h="19.0" x="939.0" y="19084.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1368_emtc_em_sa1368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Integrin A8B1_AVB1_AVB5_AVB6_AVB8*</p> <p>NAME:a8b1*</p> <p>ITGA8/ITGB1</p> <p>NAME:aVb1*</p> <p>ITGAV/ITGB1</p> <p>NAME:aVb5*</p> <p>ITGAV/ITGB5</p> <p>NAME:aVb6*</p> <p>ITGAV/ITGB6</p> <p>NAME:aVb8*</p> <p>ITGAV/ITGB8</p> <p>HUGO:ITGA8, HUGO:ITGB1, HUGO:ITGAV, HUGO:ITGB1, HUGO:ITGAV, HUGO:ITGB5, HUGO:ITGAV, HUGO:ITGB6, HUGO:ITGAV, HUGO:ITGB8</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Integrin A8B1_AVB1_AVB5_AVB6_AVB8*"/> <bbox w="240.0" h="20.0" x="941.0" y="19107.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2422_rc_sa2422" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2422_rc_sa2422"> <bqbiol:isEncodedBy> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR29A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR29A"/> <bbox w="90.0" h="25.0" x="19382.06" y="15631.5"/> <glyph class="unit of information" id="_11962158-136b-4299-a962-693764568367"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="19412.06" y="15626.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa23_ad_csa23" compartmentRef="s_id_ad_ca8_ad_ca8"> <label text="ad_s4360"/> <bbox w="100.0" h="120.0" x="28586.0" y="2555.0"/> <glyph class="macromolecule" id="s_id_ad_sa241_ad_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD8A</p> <p>HUGO:CD8B</p> <p>CELL:TCD8</p> <p>CASCADE:TCR</p> <p>PMID:3263576</p> </body> </html> </notes> <label text="CD8*"/> <bbox w="80.0" h="50.0" x="28596.0" y="2570.0"/> <glyph class="unit of information" id="_f13e1735-b712-402b-82e1-e7c650797001"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28613.5" y="2565.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1007_ad_sa1007"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:LCK</p> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:SMAC</p> <p>PMID:23620508;PMID:21127503 </p> <p>Lck (lymphocyte-specific tyrosine-protein kinase) is a membrane-tethered kinase that phosphorylates tyrosine residues in the ITAMs in the TCR–CD3 complex. Doubly phosphorylated ITAMs are the docking sites for ZAP70 and other TCR signaling-associated proteins. Lck is often associated with the CD4 or CD8 co-receptors, which might potentiate its activity by bringing it into the proximity of the CD3 chains </p> <p>PMID:9738502</p> <p>Three-dimensional analysis indicated that, as early as 5–13 min after cell conjugation, the Src-family kinases Lck and Fyn were also enriched in the c-SMAC</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> <p>An additional critical tyrosine residue in the kinase domains of Lck and Fyn (Tyr394 and Tyr417, respectively) facilitates enzymatic activity and is commonly referred to as the activating Tyr residue. This residue is sited in a region called the activation loop (A-loop) of the kinase and in its dephosphorylated state this loop assumes an α-helical conformation which obscures the catalytic cleft, restricting kinase activity (15). Upon activation of src family kinases, via interactions through their SH2/SH3 domains and dephosphorylation of the inhibitory Tyr, their kinase domains are opened up displacing the A-loop helix and making the A-loop accessible to transphosphorylation by the src family kinases themselves. </p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:9438848</p> </body> </html> </notes> <label text="LCK"/> <bbox w="80.0" h="40.0" x="28596.0" y="2615.0"/> <glyph class="state variable" id="_ba135b23-920a-4c81-a3b8-3aecc1ec05df"> <state value="P" variable="Y394"/> <bbox w="35.0" h="10.0" x="28658.5" y="2649.638"/> </glyph> <glyph class="state variable" id="_846e8d81-9b30-49a3-af68-e8a142e09626"> <state value="" variable="Y505"/> <bbox w="30.0" h="10.0" x="28581.0" y="2615.4866"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2128_in_sa2128" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CEBPA"/> <bbox w="80.0" h="40.0" x="13200.0" y="4616.875"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1097_emtc_em_sa1097" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1097_emtc_em_sa1097"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGAP31"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP31"/> 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id="s_id_ca_csa40_ca_csa40" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PGE2:PTGER2</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> </body> </html> </notes> <label text="ca_s4162"/> <bbox w="100.0" h="120.0" x="1100.0" y="1830.0"/> <glyph class="simple chemical" id="s_id_ca_sa389_ca_sa389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PGE2"/> <bbox w="70.0" h="25.0" x="1115.0" y="1847.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa388_ca_sa388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E receptor 2</p> <p>HUGO:PTGER2 hgnc_id:HGNC:9594 HGNC:9594 ENTREZ:5732 UNIPROT:P43116</p> <p>Map modules:</p> <p>MODULE:INFLAMMATORY_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:PGE</p> <p>PMID:25916550 </p> <p>miR-149 targets IL-6 mRNA and is downregulated in GC CAFs</p> <p>PGE2 receptor, PTGER2 and IL6, are potential targets of miR-149</p> <p>PGE2 binds to EP2 and induces the hypermethylation and suppression of miR-149, reversing the downregulation of IL-6 and EP2 expression.</p> <p>PMID:21209948 </p> <p>PGE2 can induce IL-6 expression in fibroblasts through EP2</p> </body> </html> </notes> <label text="PTGER2"/> <bbox w="80.0" h="50.0" x="1110.0" y="1875.0"/> <glyph class="unit of information" id="_fe0aaf78-83d8-49ac-a72f-bef06ccf9c6c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1127.5" y="1870.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1164_emtc_em_sa1164" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1164_emtc_em_sa1164"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJA4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA4"/> <bbox w="37.0" h="16.0" x="1141.75" y="17743.0"/> </glyph> <glyph class="complex" id="s_id_mo_csa48_mo_csa48" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Tubulin-α*/Tubulin-β*"/> <bbox w="120.0" h="140.0" x="5531.0" y="11584.0"/> <glyph class="macromolecule" id="s_id_mo_sa489_mo_sa489"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a</p> <p>HUGO:TUBA1A </p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C</p> <p>tubulin, alpha 3c</p> <p>HUGO:TUBA3C</p> <p>tubulin, alpha 3d</p> <p>HUGO:TUBA3D </p> <p>tubulin, alpha 3e</p> <p>HUGO:TUBA3E</p> <p>tubulin, alpha 4a</p> <p>HUGO:TUBA4A </p> <p>tubulin, alpha 8</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="5551.0" y="11594.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa490_mo_sa490"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TUBB1 </p> <p>tubulin beta 1 class VI</p> <p>HUGO:TUBB2A </p> <p>tubulin beta 2A class IIa </p> <p>HUGO:TUBB2B </p> <p>tubulin beta 2B class IIb </p> <p>HUGO:TUBB3 </p> <p>tubulin beta 3 class III </p> <p>HUGO:TUBB4A </p> <p>tubulin beta 4A class IVa </p> <p>HUGO:TUBB4B </p> <p>tubulin beta 4B class IVb </p> <p>HUGO:TUBB6 </p> <p>tubulin beta 6 class V </p> <p>HUGO:TUBB7P </p> <p>tubulin beta 7 pseudogene</p> <p>HUGO:TUBB8 </p> </body> </html> </notes> <label text="Tubulin-β*"/> <bbox w="80.0" h="40.0" x="5551.0" y="11644.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1062_in_sa1062"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24669294, 11306493 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:GSF1, CASCADE:IL4</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling blocks CSF (M-CSF) production in DC induced by tumor cells.</p> <p>PMID:24669294</p> <p>SCF1 (M-CSF) is assosiated with M2 phenotype of macrophages</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="s_id_te_sa342_te_sa342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc avian myelocytomatosis viral oncogene homolog</p> <p>HUGO:MYC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="6494.56" y="21349.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa341_te_sa341"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-ets avian erythroblastosis virus E26 oncogene homolog 2</p> <p>HUGO:ETS2</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="ETS2"/> <bbox w="80.0" h="40.0" x="6496.06" y="21399.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa376_mpk1_mpk1_sa376" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa376_mpk1_mpk1_sa376"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYD88"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYD88"/> <bbox w="63.0" h="24.0" x="10383.057" y="19369.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa325_emtc_em_csa325" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EDNRA:Endothelin1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17587812</p> <p>PMID:19880243</p> <p>Endothelin1 acts as an autocrine factor selectively through ENDRA</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa325_emtc_em_csa325"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17587812"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19880243"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Endotherin1/Endotherin A receptor)"/> <bbox w="107.0" h="94.0" x="2026.0" y="18448.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2252_emtc_em_sa2252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endothelin receptor type A</p> <p>HUGO:EDNRA, HGNC:3179, ENTREZ:1909, GENECARDS:GC04P148401, UNIPROT:P25101</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:9588211</p> <p>Endothelin1 is target gene of HIF1</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="EDNRA"/> <bbox w="80.0" h="50.0" x="2041.182" y="18478.5"/> <glyph class="unit of information" id="_cf6ee629-d63a-4920-a651-c8a08dd45f8b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2058.6821" y="18473.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2254_emtc_em_sa2254"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endothelin 1</p> <p>HUGO:EDN1, HGNC:3176, ENTREZ:1906, GENECARDS:GC06P012290, UNIPROT:P05305</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:9588211</p> <p>Endothelin1 is target gene of HIF1</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Endothelin1*"/> <bbox w="78.0" h="20.0" x="2044.5" y="18453.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2399_emtc_em_sa2399" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Plakophilin2 binding partners*:Plakophilin2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa277_emtc_em_csa277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<p>HUGO:JUP HGNC:6207 ENTREZ:3728 UNIPROT:P14923 GENECARDS:GC17M039776</p> <p>desmoplakin</p> <p>HUGO:DSP, HGNC:3052, ENTREZ:1832, UNIPROT:P15924, GENECARDS:GC06P007541  </p> <p>vimentin</p> <p>HUGO:VIM, HGNC:12692, ENTREZ:7431, UNIPROT:P08670, GENECARDS:GC10P017310  </p> <p>keratin 18</p> <p>HUGO:KRT18, HGNC:6430, ENTREZ:3875, GENECARDS:GC12P053343, UNIPROT:P05783 </p> <p>keratin 14</p> <p>HUGO:KRT14, HGNC:6416, ENTREZ:3861, GENECARDS:GC17M039738, UNIPROT:P02533</p> <p>keratin 8</p> <p>HUGO:KRT8 HGNC:6446 ENTREZ:3856 UNIPROT:P05787 GENECARDS:GC12M053290</p> <p>keratin 5</p> <p>EBS2, "epidermolysis bullosa simplex 2 Dowling-Meara/Kobner/Weber-Cockayne types", "keratin 5 (epidermolysis bullosa simplex, Dowling-Meara/Kobner/Weber-Cockayne types)"</p> <p>HUGO:KRT5 HGNC:6442 ENTREZ:3852 UNIPROT:P13647 GENECARDS:GC12M052908</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> 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compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IKBKG:IKK_alpha_*:IKK_beta_*</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>complex</p> <p>PMID‭:15145317, PMID:15573129</p> <p>The activated IKK complex,</p> <p>catalyzes the phosphorylation of IkBs (at sites</p> <p>equivalent to Ser32 and Ser36 of IkBa), polyubiquitination</p> <p>(at sites equivalent to Lys21 and Lys22 of IkBa) and</p> <p> subsequent degradation by the 26S proteasome. The</p> <p>released NF-kB dimers (in this pathway, most commonly</p> <p>the p50– RelA dimer) translocate to the nucleus, bind DNA</p> <p>and activate gene transcription</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). Knockdown of IKKβ did not have an effect in vitro on CAF survival (data not shown). IKKβ-shRNA CAFs were then coinjected orthotopically with PDSC5 cells. Tumors coinjected with shRNA IKKβ fibroblasts grew significantly slower than did tumors coinjected with control fibroblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa20_ca_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15573129"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKK complex"/> <bbox w="100.0" h="164.0" x="2160.0" y="2288.0"/> <glyph class="macromolecule" id="s_id_ca_sa314_ca_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>HUGO:CHUK hgnc_id:HGNC:1974 HGNC:1974 ENTREZ:1147 UNIPROT:O15111</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). Knockdown of IKKβ did not have an effect in vitro on CAF survival (data not shown). IKKβ-shRNA CAFs were then coinjected orthotopically with PDSC5 cells. Tumors coinjected with shRNA IKKβ fibroblasts grew significantly slower than did tumors coinjected with control fibroblasts</p> </body> </html> </notes> <label text="IKKα*"/> <bbox w="80.0" h="40.0" x="2170.0" y="2390.0"/> <glyph class="state variable" id="_14272f43-429a-4777-8e6d-11f94a66a62b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2165.0" y="2405.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa313_ca_sa313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of nuclear factor kappa B kinase subunit gamma</p> <p>HUGO:IKBKG hgnc_id:HGNC:5961 HGNC:5961 ENTREZ:8517 UNIPROT:Q9Y6K9</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). Knockdown of IKKβ did not have an effect in vitro on CAF survival (data not shown). IKKβ-shRNA CAFs were then coinjected orthotopically with PDSC5 cells. Tumors coinjected with shRNA IKKβ fibroblasts grew significantly slower than did tumors coinjected with control fibroblasts</p> </body> </html> </notes> <label text="IKBKG"/> <bbox w="80.0" h="40.0" x="2168.0" y="2295.0"/> <glyph class="state variable" id="_383ecc45-06cb-442e-969c-aeec1a7c32ce"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="2238.0" y="2310.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa312_ca_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of nuclear factor kappa B kinase subunit beta</p> <p>HUGO:IKBKB hgnc_id:HGNC:5960 HGNC:5960 ENTREZ:3551 UNIPROT:O14920</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>To determine whether the tumor-promoting activity of the fibroblasts was dependent on NF-κB, we knocked down Ikkβ in CAFs using shRNA (Figure 5C). 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</rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP16*"/> <bbox w="63.0" h="17.0" x="1814.0" y="18939.0"/> <glyph class="unit of information" id="_271a9e30-c641-4043-aa7c-2cf12c7ea005"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1820.5" y="18934.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa45_ce_csa45" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BRCA1:BRCA2:FANCD2:FANCI:H2AFX:NBS1*:PCNA:RAD51:TIP60*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>The complex participates in the HR and S-checkpoint</p> <p>PMID:12239151, PMID:19686080</p> <p>For Fanconi</p> <p>PMID:19622404</p> <p>The complex is considered to be the actual repair structure of the pathway. </p> <p>Fanconi pathway is regulated at two levels:1. FANCD2 and FANCI uiquitination by UBE2T for Fanconi foci association. Followed by FANCD2 and FANCI DE-uiquitination by USP1/UAF1 to allow the repair process</p> <p>PMID:19217432, PMID:18082604, PMID:19075014, PMID:18082605, PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa45_ce_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12239151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19075014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082605"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1/BRCA2/FANCD2/FANCI/H2AX*/NBS*/PCNA/RAD51/Tip60*"/> <bbox w="362.0" h="160.0" x="14275.473" y="16048.356"/> <glyph class="macromolecule" id="s_id_ce_sa574_ce_sa574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="14463.044" y="16062.07"/> <glyph class="state variable" id="_06dc1218-bb21-483b-b6bd-712af786e45e"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="14448.044" y="16077.07"/> </glyph> <glyph class="state variable" id="_5063838d-7ec4-4fc4-a588-fcb126044a66"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14458.045" y="16097.07"/> </glyph> <glyph class="state variable" id="_779d6b6c-3c5b-4e9b-8f3e-e8c850c58bf5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14481.476" y="16097.07"/> </glyph> <glyph class="state variable" id="_a35b8273-ddbd-4eb2-b122-79c78d8a8240"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14498.044" y="16097.07"/> </glyph> <glyph class="state variable" id="_a273d5c0-c0ba-42e3-a140-d9577ed89d1c"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="14452.027" y="16057.07"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa580_ce_sa580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group D2</p> <p>HUGO:FANCD2, HGNC:3585, ENTREZ:2177, UNIPROT:Q9BXW9</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22751496, PMID:23444773, PMID:20723763</p> </body> </html> </notes> <label text="FANCD2"/> <bbox w="80.0" h="40.0" x="14289.336" y="16059.5"/> <glyph class="state variable" id="_e3585a76-2bcc-4553-ba14-9076a469accf"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14281.836" y="16066.216"/> </glyph> <glyph class="state variable" id="_9e101ee4-9b52-4a93-900c-171b6436356a"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="14315.168" y="16054.5"/> </glyph> <glyph class="state variable" id="_ba43c978-40cd-41ae-bdcb-86fbfb7503bd"> <state value="" variable="K561"/> <bbox w="30.0" h="10.0" x="14314.24" y="16094.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa576_ce_sa576"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), RAD51A</p> <p>HUGO:RAD51, HGNC:9817, ENTREZ:5888, UNIPROT:Q06609</p> <p>RAD51-like 1 (S. cerevisiae), RAD51B</p> <p>HUGO:RAD51L1, HGNC:9822, ENTREZ:5890, UNIPROT:Q86U92</p> <p>RAD51 homolog C (S. cerevisiae)</p> <p>HUGO:RAD51C, HGNC:9820, ENTREZ:5889, UNIPROT:O43502</p> <p>RAD51-like 3 (S. cerevisiae), RAD51D</p> <p>HUGO:RAD51L3, HGNC:9823, ENTREZ:5892, UNIPROT:O94908</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="RAD51"/> <bbox w="80.0" h="40.0" x="14546.044" y="16060.928"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa573_ce_sa573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14543.329" y="16103.047"/> <glyph class="state variable" id="_0a529bdf-c882-4486-b38c-6fb6a99417b0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14615.415" y="16138.047"/> </glyph> <glyph class="state variable" id="_e5ccb668-4c30-47af-8fcc-d439a8539065"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="14583.19" y="16098.047"/> </glyph> <glyph class="state variable" id="_77fc08ee-e2e8-44c8-9a3f-626ad56f4831"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="14544.956" y="16098.047"/> </glyph> <glyph class="state variable" id="_59aec32f-c677-46cf-896a-de59ff41b4c1"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14563.081" y="16098.047"/> </glyph> <glyph class="state variable" id="_799295d6-7879-40cc-8b65-a9d39e20412d"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14525.829" y="16118.015"/> </glyph> <glyph class="state variable" id="_c4077242-2ac2-4418-b370-e7fd8799fe17"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14528.329" y="16133.519"/> </glyph> <glyph class="state variable" id="_16a9ad3d-497d-4ff3-bb0c-a2254f9ba103"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14605.829" y="16103.287"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa575_ce_sa575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>H2A histone family, member X</p> <p>HUGO:H2AFX , HGNC:4739, ENTREZ:3014, UNIPROT:P16104</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:9488723, PMID:19772495, PMID:17303408</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:12607003</p> </body> </html> </notes> <label text="H2AFX"/> <bbox w="80.0" h="40.0" x="14462.579" y="16109.07"/> <glyph class="state variable" id="_27ee0526-21d5-4420-86c4-e3b6cb9c7bb6"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="14445.079" y="16124.07"/> </glyph> <glyph class="state variable" id="_14b76423-89ab-4c45-9580-b77687abc597"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="14452.579" y="16107.002"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa577_ce_sa577"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN, HGNC:7652, ENTREZ:4683, UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:HR, MODULE:A_NHEJ</p> <p>References:</p> <p>PMID:18809224, PMID:18584027, PMID:19772495, PMID:18087292, PMID:20723763</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:11850621, PMID:19793801, PMID:12607003</p> <p>For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):</p> <p>PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="14292.723" y="16146.356"/> <glyph class="state variable" id="_e46b7c46-d293-4b64-a350-ebf1781886cb"> <state value="P" variable="S343"/> <bbox w="35.0" h="10.0" x="14275.223" y="16169.54"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa579_ce_sa579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fanconi anemia, complementation group I</p> <p>HUGO:FANCI, HGNC:25568, ENTREZ:55215, UNIPROT:Q9NVI1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676, PMID:22101340</p> </body> </html> </notes> <label text="FANCI"/> <bbox w="80.0" h="40.0" x="14287.473" y="16105.07"/> <glyph class="state variable" id="_c07da1c8-2d69-4ab3-a4fc-30bcc401e871"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14359.972" y="16140.07"/> </glyph> <glyph class="state variable" id="_e07cceb5-dd53-4cd6-9a85-1f0069953df1"> <state value="" variable="K523"/> <bbox w="30.0" h="10.0" x="14311.177" y="16140.07"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa578_ce_sa578"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>K(lysine) acetyltransferase 5</p> <p>HUGO:KAT5, HGNC:5275, ENTREZ:10524, UNIPROT:Q92993</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:12551922, PMID:11927554, PMID:21574959, PMID:18085520</p> </body> </html> </notes> <label text="TIP60*"/> <bbox w="80.0" h="40.0" x="14546.056" y="16107.106"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa572_ce_sa572"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 2, early onset, FANCD1</p> <p>HUGO:BRCA2, HGNC:1101, ENTREZ:675, UNIPROT:P51587</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For HR pathway</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> <p>For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> </body> </html> </notes> <label text="BRCA2"/> <bbox w="80.0" h="40.0" x="14372.473" y="16059.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa67_mpk1_mpk1_csa67" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:MEK*:_beta_-Arrestin2*</p> </body> </html> </notes> <label text="ERK*:MEK*:β-Arrestin2*"/> <bbox w="140.0" h="116.0" x="9832.061" y="19823.0"/> <glyph class="macromolecule multimer" id="s_id_mpk1_mpk1_sa561_mpk1_mpk1_sa561"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> <p>PMID:19541618 PMID:19565474 PMID:15547943</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="9857.811" y="19886.773"/> <glyph class="unit of information" id="_d2c3a2f2-89c8-4adb-ac1b-d3ef417df8ec"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="9872.811" y="19881.773"/> </glyph> <glyph class="state variable" id="_14214922-7e5b-4dc1-9650-301ec9577c21"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9850.311" y="19898.629"/> </glyph> <glyph class="state variable" id="_4fd7b5d7-e290-4711-bfcd-ff1aa585c99f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9850.311" y="19889.324"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa563_mpk1_mpk1_sa563"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9856.102" y="19859.387"/> <glyph class="state variable" id="_f4d44d89-e671-4321-a674-c0d11635619b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9848.602" y="19871.053"/> </glyph> <glyph class="state variable" id="_95725860-b6cd-4e8a-b88a-505317b5f66e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9848.602" y="19862.512"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa560_mpk1_mpk1_sa560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin beta 2</p> <p>ARR2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="49.0" h="77.0" x="9905.061" y="19831.273"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa95_te_sa95" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa95_te_sa95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIAH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIAH2"/> <bbox w="80.0" h="40.0" x="3150.06" y="21330.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa88_ad_csa88" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5091"/> <bbox w="100.0" h="120.0" x="27416.0" y="2955.0"/> <glyph class="macromolecule" id="s_id_ad_sa803_ad_sa803"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CSK</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>PMID:10790433 </p> <p> PAG is expressed as a constitutively tyrosine-phosphorylated protein and binds the major negative regulator of Src kinases, the tyrosine kinase Csk. After activation of peripheral blood alpha/beta T cells, PAG becomes rapidly dephosphorylated and dissociates from Csk.</p> <p>PMID:12485116</p> <p>REW</p> <p>PMID:11181701</p> <p>Activation of the COOH-terminal Src kinase (Csk) by cAMP-dependent protein kinase inhibits signaling through the T cell receptor.</p> </body> </html> </notes> <label text="CSK"/> <bbox w="80.0" h="40.0" x="27426.0" y="3005.0"/> <glyph class="state variable" id="_1ac01419-5d10-429b-80bc-be38d537ceae"> <state value="" variable="S364"/> <bbox w="30.0" h="10.0" x="27411.0" y="3002.402"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa802_ad_sa802"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>HUGO:PAG1</p> <p>PMID:10790433 </p> <p> PAG is expressed as a constitutively tyrosine-phosphorylated protein and binds the major negative regulator of Src kinases, the tyrosine kinase Csk. After activation of peripheral blood alpha/beta T cells, PAG becomes rapidly dephosphorylated and dissociates from Csk.</p> <p>PMID:12218089</p> </body> </html> </notes> <label text="PAG1"/> <bbox w="80.0" h="40.0" x="27426.0" y="2965.0"/> <glyph class="state variable" id="_96f6c1e2-78f4-4b4e-ba1c-a4f20e2da2ab"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27418.5" y="2980.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1472_ce_sa1472" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1472_ce_sa1472"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PNKP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PNK*"/> <bbox w="80.0" h="40.0" x="13167.314" y="16006.409"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa778_rc_sa778" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa778_rc_sa778"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HK3"/> <bbox w="80.0" h="40.0" x="18421.56" y="9710.0"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa132_shh1_shh2_sa132" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="JNK pathway"/> <bbox w="80.0" h="30.0" x="25848.06" y="20330.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa95_ad_csa95" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> </body> </html> </notes> <label text="ad_s32"/> <bbox w="108.0" h="160.0" x="28792.25" y="6155.0"/> <glyph class="macromolecule" id="s_id_ad_sa842_ad_sa842"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="28806.0" y="6250.0"/> <glyph class="unit of information" id="_23a87970-80a5-4f23-9c21-c27ca27abe01"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28821.0" y="6245.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa843_ad_sa843"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RELB</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21873235 </p> <p>Malt1-dependent RelB cleavage promotes canonical NF-kappaB activation in lymphocytes and lymphoma cell lines.</p> </body> </html> </notes> <label text="RELB"/> <bbox w="85.0" h="40.0" x="28801.0" y="6210.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa844_ad_sa844"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKBIA </p> <p>HUGO:NFKBIB</p> <p>HUGO:NFKBIE </p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="28807.25" y="6165.0"/> <glyph class="state variable" id="_b5bc8c2e-b108-4c87-bf98-c95284a76209"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28799.75" y="6180.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa209_emtc_em_csa209" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJB1:v-SRC*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa209_emtc_em_csa209"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9592087"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15782139"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJB1/SRC"/> <bbox w="92.0" h="42.0" x="1264.0" y="18075.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1336_emtc_em_sa1336"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian)</p> <p>HUGO:SRC, HGNC:11283, ENTREZ:6714, UNIPROT:P12931, GENECARDS:GC20P035973  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:16492141</p> <p>Binding partners proteins of Connexin 43 (GJA1):</p> <p>-Kinases: v-Src, c-Src, PKC, PKA, MAPK, Casein kinase 1, Cdc2 kinase</p> <p>-TIGHT_JUNCTIONS scaffold proteins: ZO1, ZO2, caveolin 1</p> <p>-Cytoskeleton: b-catenin, a-tubulin, b-tubulin</p> <p>-Others: Drebrin, NOV, CIP85</p> <p>PMID:9278444</p> <p>Reduction of gap junctional communication in v-src transformed cells is accompanied by tyrosine phosphorylation of the gap junction protein, connexin 43</p> <p>SH3 and SH2 domains of v-Src bind to proline-rich motifs and a phosphorylated tyrosine residue in the C-terminal tail of Cx43</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="v-SRC*"/> <bbox w="49.0" h="16.0" x="1270.6" y="18076.7"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1335_emtc_em_sa1335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, beta 1, 32kDa</p> <p>HUGO:GJB1, HGNC:4283, ENTREZ:2705, UNIPROT:P08034, GENECARDS:GC0XP070435  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>PMID:11978007</p> <p>Cx32 Formation and / or Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:19284610</p> <p>Cx32, colocalizes with tight junction proteins ZO-1 and ZO-2 in rat hepatocytes, and small gap junction plaques were found within tight junction strands.</p> <p>It was suggested that Cx32 can participate in the formation of functional tight junctions and in actin organization.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJB1"/> <bbox w="35.0" h="16.0" x="1319.6" y="18076.7"/> <glyph class="state variable" id="_05bced92-f0e6-48c3-b501-18c81d98b343"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1349.6" y="18072.094"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa2100_in_sa2100" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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rdf:about="#s_id_an_sa2_an_sa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VEGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFB"/> <bbox w="80.0" h="40.0" x="4502.0" y="5645.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa291_wnc1_wnc1_sa291" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa291_wnc1_wnc1_sa291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDC4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="17092.06" y="18802.0"/> <glyph class="unit of information" id="_627d9bee-58ca-43bf-ba8d-049e0cd90b9a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17109.56" y="18797.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa820_ad_sa820" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p> </p> <p> </p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12133805</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa820_ad_sa820"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12133805"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="28646.0" y="5405.0"/> <glyph class="state variable" id="_79f05261-21e7-4b33-84ea-a1345fb3abb7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28641.0" y="5420.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa319_emtc_em_sa319" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa319_emtc_em_sa319"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB7"/> <bbox w="40.0" h="20.0" x="5181.002" y="17842.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1237_ad_sa1237" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22285893</p> <p>CD113</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1237_ad_sa1237"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NECTIN3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22285893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NECTIN3"/> <bbox w="80.0" h="40.0" x="25406.0" y="2180.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa870_emtc_em_sa870" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa870_emtc_em_sa870"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFB3"/> <bbox w="65.0" h="20.0" x="5208.0" y="17589.5"/> <glyph class="unit of information" id="_1ce1f59a-7915-4bd2-bb40-11c5598883c2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5230.5" y="17584.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa677_mpk1_mpk1_sa677" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa677_mpk1_mpk1_sa677"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD4"/> <bbox w="50.0" h="25.0" x="11598.061" y="20244.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa55_akt1_akt2_csa55" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO1:RUNX2</p> <p>References:</p> <p>s_akt2_re158:(MAP:survival) PMID:21505104</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa55_akt1_akt2_csa55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21505104"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1:RUNX2"/> <bbox w="100.0" h="120.0" x="13757.061" y="21399.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa314_akt1_akt2_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="13766.936" y="21454.0"/> <glyph class="state variable" id="_62a99552-9d53-4a62-9c91-39036798f784"> <state value="" variable="T24"/> <bbox w="25.0" h="10.0" x="13754.928" y="21449.0"/> </glyph> <glyph class="state variable" id="_6998f116-4491-4c66-b035-7f69b271d338"> <state value="" variable="S256"/> <bbox w="30.0" h="10.0" x="13791.968" y="21449.0"/> </glyph> <glyph class="state variable" id="_d8eb4b30-1151-4c1d-9818-8b6fb87623ca"> <state value="" variable="S319"/> <bbox w="30.0" h="10.0" x="13831.936" y="21449.0"/> </glyph> <glyph class="state variable" id="_cef6ef7f-7a4c-4ef7-aef4-ab0088befcd8"> <state value="" variable="S325"/> <bbox w="30.0" h="10.0" x="13791.84" y="21489.0"/> </glyph> <glyph class="state variable" id="_ca47dc65-f238-452e-bfdd-f6a85e6c2134"> <state value="" variable="S329"/> <bbox w="30.0" h="10.0" x="13751.936" y="21488.72"/> </glyph> <glyph class="state variable" id="_74f6b63d-5ef2-496a-a783-ce5bf10220ed"> <state value="" variable="S322"/> <bbox w="30.0" h="10.0" x="13831.317" y="21489.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa313_akt1_akt2_sa313"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Runt-related transcription factor 2</p> <p>HUGO:RUNX2 HGNC:10472 ENTREZ:860 UNIPROT:Q13950 GENECARDS:RUNX2 REACTOME:63858 KEGG:860 ATLASONC:RUNX2ID42183ch6p21 WIKI:RUNX2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20946121</p> </body> </html> </notes> <label text="RUNX2"/> <bbox w="80.0" h="40.0" x="13766.686" y="21409.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa542_akt1_akt1_sa542" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa542_akt1_akt1_sa542"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RBX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="12527.561" y="18273.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4715_rc_sa4715" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4715_rc_sa4715"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="protein ubiquitination and destruction"/> <bbox w="280.0" h="25.0" x="26689.06" y="14936.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3345_rc_sa3345" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3345_rc_sa3345"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIDD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIDD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LRDD"/> <bbox w="70.0" h="25.0" x="20691.56" y="16261.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa541_akt1_akt1_sa541" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa541_akt1_akt1_sa541"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CUL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="12423.561" y="18273.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5465_rc_sa5465" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protective antigen of Bacillus anthracis lethal toxin</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5465_rc_sa5465"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PA*"/> <bbox w="70.0" h="25.0" x="27764.06" y="9176.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa19_shh1_shh1_csa19" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KIF3A:KIF3B:SMO:_beta_-Arrestin2*</p> <p>References:</p> <p>s_shh1_re35(MAP:survival):</p> <p>PMID:18497258</p> <p>PMID:11449277</p> <p>PMID:20375059</p> <p>Rad23 negatively regulates SHH signaling but how exactly is unknown. Recently it was shown to be associated with Smo trafficing into cilium</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa19_shh1_shh1_csa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11449277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20375059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="b-arrestin_SMO_ KIF3A"/> <bbox w="115.0" h="234.0" x="26966.06" y="17896.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa155_shh1_shh1_sa155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Smoothened</p> <p>HUGO:SMO HGNC:11119 ENTREZ:6608 UNIPROT:Q99835 GENECARDS:SMO REACTOME:64670 KEGG:6608 ATLASONC:GC_SMO WIKI:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18820483</p> <p>PMID:17641202</p> </body> </html> </notes> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26981.56" y="17964.0"/> <glyph class="state variable" id="_69736922-edd7-4f32-adb2-31409f4cf245"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27054.06" y="17959.0"/> </glyph> <glyph class="state variable" id="_3c39c1d5-ff0d-4924-ae31-196c0569a523"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27056.56" y="17959.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa154_shh1_shh1_sa154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="26981.56" y="17914.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa156_shh1_shh1_sa156"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3A</p> <p>HUGO:KIF3A HGNC:6319 ENTREZ:11127 UNIPROT:Q9Y496 GENECARDS:KIF3A REACTOME:58019 KEGG:11127 WIKI:KIF3A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3A"/> <bbox w="80.0" h="40.0" x="26981.56" y="18011.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa311_shh1_shh1_sa311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 3B</p> <p>HUGO:KIF3B HGNC:6320 ENTREZ:9371 UNIPROT:O15066 GENECARDS:KIF3B REACTOME:58021 KEGG:9371 ATLASONC:GC_KIF3B WIKI:KIF3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11208056</p> </body> </html> </notes> <label text="KIF3B"/> <bbox w="80.0" h="40.0" x="26985.56" y="18055.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa29_akt1_akt2_sa29" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa29_akt1_akt2_sa29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFSF10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFSF10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAIL*"/> <bbox w="70.0" h="25.0" x="12592.561" y="20777.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4531_rc_sa4531" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>PMID:23110147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4531_rc_sa4531"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23110147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="High AMP level"/> <bbox w="108.0" h="29.0" x="19136.56" y="16961.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa85_mpk1_mpk1_csa85" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAK1*:TNFRSF1B:TRAF2</p> </body> </html> </notes> <label text="TAK1*:TNFRSF1B:TRAF2"/> <bbox w="179.0" h="85.0" x="11068.057" y="19613.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa634_mpk1_mpk1_sa634"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="11091.436" y="19644.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa636_mpk1_mpk1_sa636"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="76.0" h="25.0" x="11150.436" y="19644.5"/> <glyph class="state variable" id="_17b18a01-3550-46dd-bf12-796dbb73de8d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11142.936" y="19652.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa635_mpk1_mpk1_sa635"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1B</p> <p>TNFR2</p> <p>HUGO:TNFRSF1B HGNC:11917 ENTREZ:7133 UNIPROT:P20333</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins (TRAF2).</p> </body> </html> </notes> <label text="TNFRSF1B"/> <bbox w="70.0" h="25.0" x="11086.436" y="19621.5"/> <glyph class="unit of information" id="_c5288b58-e346-40ce-adb3-d0bfb272d858"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11098.936" y="19616.5"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa2443_emtc_em_sa2443" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Heparin</p> <p>Enoxaparin</p> <p>Bemiparin</p> <p>CAS:N/A PUBCHEM:3664, CHEBI:28304, KEGGCOMPOUND:C00374</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Heparin"/> <bbox w="60.0" h="25.0" x="3683.0" y="18929.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1066_emtc_em_sa1066" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1066_emtc_em_sa1066"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGAP24"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP24"/> <bbox w="75.0" h="17.0" x="6071.5" y="14236.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1636_emtc_em_sa1636" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1636_emtc_em_sa1636"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH9"/> <bbox w="41.0" h="17.0" x="5743.473" y="16119.791"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4479_rc_sa4479" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4479_rc_sa4479"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cleaved AMBRA1"/> <bbox w="80.0" h="40.0" x="27411.56" y="11531.5"/> <glyph class="unit of information" id="_3715d845-8907-4aca-ad88-50c1c88f1c21"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="27426.56" y="11526.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa316_emtc_em_sa316" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa316_emtc_em_sa316"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB4"/> <bbox w="40.0" h="20.0" x="5038.285" y="17842.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa128_rc_csa128" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:SNAP23:STX4:STXBP4</p> </body> </html> </notes> <label text="SNAP23:STX4:STXBP4"/> <bbox w="110.0" h="171.0" x="17891.56" y="9104.0"/> <glyph class="macromolecule" id="s_id_rc_sa1352_rc_sa1352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>syntaxin 4</p> <p>HUGO:STX4 HGNC:11439 ENTREZ:6810 UNIPROT:Q12846</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="STX4"/> <bbox w="80.0" h="40.0" x="17909.06" y="9159.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1351_rc_sa1351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>syntaxin binding protein 4</p> <p>HUGO:STXBP4 HGNC:19694 ENTREZ:252983 UNIPROT:Q6ZWJ1</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="STXBP4"/> <bbox w="80.0" h="40.0" x="17909.06" y="9209.0"/> <glyph class="state variable" id="_d828ddaa-7f04-40f1-8e9a-c18512b53f63"> <state value="" variable="S99"/> <bbox w="25.0" h="10.0" x="17953.51" y="9204.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1353_rc_sa1353"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synaptosomal-associated protein, 23kDa</p> <p>HUGO:SNAP23 HGNC:11131 ENTREZ:8773 UNIPROT:O00161</p> <p>Map modules:</p> <p>MODULE:GLUCOSE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="SNAP23"/> <bbox w="80.0" h="40.0" x="17909.06" y="9119.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa145_ad_csa145" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21263073</p> <p>Among the three components of type I IFN-induced ISGF3 (STAT1, STAT2, and cytosolic IRF9),</p> <p> IRF9 contains the DNA-binding motif for ISRE. The chromatin precipitated by anti–IRF-9 was enriched in the PD-1 promoter of IFN-α–treated, but not nontreated, T cells, suggesting that the ISGF3 complex bound directly to the PD-1 promoter in activated primary T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa145_ad_csa145"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21263073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ad_s5647"/> <bbox w="110.0" h="160.0" x="26641.0" y="2775.0"/> <glyph class="macromolecule" id="s_id_ad_sa1232_ad_sa1232"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>HUGO:STAT2</p> <p>PMID:21263073</p> <p>Among the three components of type I IFN-induced ISGF3 (STAT1, STAT2, and cytosolic IRF9),</p> </body> </html> </notes> <label text="STAT2"/> <bbox w="80.0" h="40.0" x="26651.0" y="2785.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1233_ad_sa1233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>HUGO:STAT1</p> <p>PMID:21263073</p> <p>Among the three components of type I IFN-induced ISGF3 (STAT1, STAT2, and cytosolic IRF9),</p> <p> IRF9 contains the DNA-binding motif for ISRE. The chromatin precipitated by anti–IRF-9 was enriched in the PD-1 promoter of IFN-α–treated, but not nontreated, T cells, suggesting that the ISGF3 complex bound directly to the PD-1 promoter in activated primary T cells</p> <p>PMID:12796776</p> </body> </html> </notes> <label text="STAT1"/> <bbox w="80.0" h="40.0" x="26651.0" y="2835.0"/> <glyph class="state variable" id="_c9a389ca-99d3-4cbe-bda2-ef61f4db14c8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26646.0" y="2850.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1218_ad_sa1218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>HUGO:IFR9</p> <p>PMID:21263073</p> </body> </html> </notes> <label text="IFR9"/> <bbox w="80.0" h="40.0" x="26651.0" y="2875.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa264_ce_csa264" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HUS1:RAD1:RAD9*:TDG</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR , MODULE:BER</p> <p>References:</p> <p>9-1-1 complex activates TDG glycosylase and activates BER</p> <p>PMID:17855402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa264_ce_csa264"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17855402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HUS1/RAD1/RAD9*/TDG"/> <bbox w="178.0" h="114.0" x="10414.473" y="15869.356"/> <glyph class="macromolecule" id="s_id_ce_sa1390_ce_sa1390"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD9 homolog A (S. pombe)</p> <p>HUGO:RAD9A, HGNC:9827, ENTREZ:5883, UNIPROT:Q99638</p> <p>RAD9 homolog B (S. pombe)</p> <p>HUGO:RAD9B, HGNC:21700, ENTREZ:144715, UNIPROT:Q6WBX8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:8943031, PMID:17493829</p> </body> </html> </notes> <label text="RAD9*"/> <bbox w="80.0" h="40.0" x="10505.84" y="15921.576"/> <glyph class="state variable" id="_8b7ebd61-7b1f-4cd9-b118-310e1a907e65"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10538.34" y="15916.576"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1388_ce_sa1388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUS1 checkpoint homolog (S. pombe)</p> <p>HUGO:HUS1, HGNC:5309, ENTREZ:3364, UNIPROT:O60921</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660, PMID:9524127, PMID:17493829</p> </body> </html> </notes> <label text="HUS1"/> <bbox w="80.0" h="40.0" x="10425.234" y="15922.238"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1389_ce_sa1389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD1 homolog (S. pombe)</p> <p>HUGO:RAD1, HGNC:9806, ENTREZ:5810, UNIPROT:O60671</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:15459660</p> </body> </html> </notes> <label text="RAD1"/> <bbox w="80.0" h="40.0" x="10507.234" y="15879.238"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1387_ce_sa1387"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>thymine-DNA glycosylase </p> <p>HUGO:TDG, HGNC:11700, ENTREZ:6996, UNIPROT:Q13569</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:17129768, PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="TDG"/> <bbox w="80.0" h="40.0" x="10425.527" y="15878.611"/> <glyph class="state variable" id="_20d31d43-985d-4c4a-9f49-fdf0b22aff21"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10420.527" y="15885.327"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1146_ad_sa1146" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19276087</p> <p>DPYSL2 (CRMP2)</p> <p>CXCL12 Induces CRMP2 Polarization at the T Lymphocyte Uropod</p> <p>CXCL12 Modulates CRMP2 Binding to the Cytoskeleton</p> <p>CRMP2 was distributed in the cytoskeletal compartment of T lymphocytes and that CXCL12 had the ability to alter this distribution, enhancing CRMP2 association with cytoskeletal elements.</p> <p>CXCL12 decreases phosphorylation of the glycogen synthase kinase-3β-targeted residues CRMP2-Thr-509/514; and 3) tyrosine Tyr-479 is a new phosphorylation CRMP2 residue and a target for the Src-family kinase Yes. Moreover, phospho-Tyr-479 increased under CXCL12 signaling while phospho-Thr-509/514 decreased.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1146_ad_sa1146"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19276087"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DPYSL2"/> <bbox w="80.0" h="40.0" x="29448.5" y="5830.0"/> <glyph class="state variable" id="_9f9b05b2-5f5a-42ad-b994-f34f9ce092bd"> <state value="" variable="Thr509/514"/> <bbox w="60.0" h="10.0" x="29418.5" y="5828.0996"/> </glyph> <glyph class="state variable" id="_47b015f2-49fd-4bfe-84aa-729ae9abe8b1"> <state value="" variable="Tyr479"/> <bbox w="40.0" h="10.0" x="29505.586" y="5865.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4528_rc_sa4528" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4528_rc_sa4528"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NUDT9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NUDT5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NUDIX*"/> <bbox w="80.0" h="40.0" x="19137.56" y="16888.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1346_emtc_em_sa1346" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1346_emtc_em_sa1346"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZO1_2_3*"/> <bbox w="60.0" h="20.0" x="2060.0" y="15067.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa14_wca1_wca1_csa14" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re12:(MAP:survival) PMID:10581160</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa14_wca1_wca1_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="163.0" x="20020.06" y="17762.5"/> <glyph class="simple chemical" id="s_id_wca1_wca1_sa695_wca1_wca1_sa695"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20129.06" y="17818.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa696_wca1_wca1_sa696"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20121.06" y="17847.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa66_wca1_wca1_sa66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="17772.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa67_wca1_wca1_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20031.06" y="17816.5"/> <glyph class="state variable" id="_5d18d37c-5f8e-4068-8759-4da0a8d70aab"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20024.053" y="17811.5"/> </glyph> <glyph class="state variable" id="_f549a244-d3f0-4936-bbd3-fe5581e769f7"> <state value="" variable="E"/> <bbox w="15.0" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20031.06" y="17860.5"/> <glyph class="state variable" id="_cd1dd18d-d7a4-444f-8784-f4b81fb91935"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.053" y="17855.5"/> </glyph> <glyph class="state variable" id="_131374f0-4ead-487a-81dc-f86212e8122e"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20013.56" y="17895.22"/> </glyph> <glyph class="state variable" id="_1406cb12-6b71-4fea-867c-01c2914a5f41"> <state value="" variable="S1505"/> <bbox w="35.0" h="10.0" x="20092.941" y="17895.5"/> </glyph> <glyph class="state variable" id="_33cf5b2a-7414-449e-be57-1b3a4415e6e8"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20014.053" y="17855.5"/> </glyph> <glyph class="state variable" id="_337e9b9e-1090-4a62-90b9-abcdbaa4f87d"> <state value="" variable="S1504"/> <bbox w="35.0" h="10.0" x="20093.56" y="17855.713"/> </glyph> <glyph class="state variable" id="_ea895789-d51c-4722-a2ec-d56c78575bed"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20053.465" y="17895.5"/> </glyph> <glyph class="state variable" id="_72771579-7b42-40a9-a868-94b01e4e3ef9"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20093.56" y="17894.633"/> </glyph> <glyph class="state variable" id="_c8367a53-997b-4c60-acc9-48b4df341fd8"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20053.592" y="17855.5"/> </glyph> <glyph class="state variable" id="_2dcca123-ea81-4091-8ca5-9dc0bfd29365"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20013.56" y="17895.22"/> </glyph> <glyph class="state variable" id="_2bd5e170-e4a9-485a-b432-e8b1a1e11532"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20014.053" y="17855.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa62_wca1_wca1_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20118.56" y="17772.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2170_em_sa2170" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MAPK3"/> <bbox w="48.0" h="17.0" x="3100.0" y="16369.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1907_rc_sa1907" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1907_rc_sa1907"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase9*"/> <bbox w="90.0" h="25.0" x="22615.06" y="16015.5"/> <glyph class="unit of information" id="_2d925fd8-14de-4b55-9f9a-c97b38375d78"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22650.06" y="16010.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa113_emtc_em_sa113" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa113_emtc_em_sa113"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="R-Cadherin*"/> <bbox w="80.0" h="20.0" x="2923.5" y="16452.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa802_in_sa802" compartmentRef="s_id_in_ca48_in_ca48"> <label text="HLA-G"/> <bbox w="80.0" h="40.0" x="11730.0" y="960.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa448_emtc_em_sa448" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa448_emtc_em_sa448"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TJP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZO1*"/> <bbox w="47.0" h="19.0" x="1634.5" y="15012.5"/> </glyph> <glyph class="phenotype" id="s_id_mpk1_mpk1_sa670_mpk1_mpk1_sa670" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Proliferation</p> </body> </html> </notes> <label text="Proliferation"/> <bbox w="80.0" h="30.0" x="9832.061" y="20977.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa760_ad_sa760" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:21873235 </p> <p>Malt1 cleaved the NF-κB family member RelB after Arg-85. RelB cleavage induced its proteasomal degradation and specifically controlled DNA binding of RelA- or c-Rel–containing NF-κB complexes.</p> <p>PMID:18264101 </p> <p>MALT1 had arginine-directed proteolytic activity that was activated after T cell stimulation, and we identify the signaling protein Bcl-10 as a MALT1 substrate. Processing of Bcl-10 after Arg228 was required for T cell receptor-induced cell adhesion to fibronectin. In contrast, MALT1 activity but not Bcl-10 cleavage was essential for optimal activation of transcription factor NF-kappaB and production of interleukin 2. Thus, the proteolytic activity of MALT1 is central to T cell activation,</p> <p>PMID:17948050</p> <p>TRAF6 associates with Malt1 in response to T-cell activation and can function as an E3 ligase for Malt1 in vitro and in vivo, mediating lysine 63-linked ubiquitination of Malt1.</p> <p>Ubiquitin chains on Malt1 provide a docking surface for the recruitment of the IKK regulatory subunit NEMO/IKKgamma.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa760_ad_sa760"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MALT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21873235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264101"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17948050"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MALT1"/> <bbox w="80.0" h="40.0" x="28766.0" y="5215.0"/> <glyph class="state variable" id="_793bca51-a3ef-4306-8c25-f07c869cf291"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28761.0" y="5230.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3215_rc_sa3215" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3215_rc_sa3215"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TAX1BP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAX1BP1"/> <bbox w="80.0" h="40.0" x="21999.06" y="9779.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa259_emtc_em_csa259" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CRK:DOCK1:PXN</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:9808620</p> <p>Crk–p130Cas complexes regulate cell spreading after integrin stimulation and serve as amolecular switch for induction of cell migration</p> <p>DOCK1 is suggested to be the downstream effector of Crk in integrin signaling:</p> <p>-DOCK1 binds to Crk after integrin stimulation;</p> <p>-DOCK1 colocalizes with the Crk2–p130Cas complexes at focal adhesions and at the sites of membrane spreading;</p> <p>-Expression of DOCK1 accelerates the formation of the Crk–p130Cas complexes. </p> <p>It is likely that the DOCK1 recruited to the Crk–p130Cas complexes on integrin stimulation transduces signals to Rac1 at focal adhesions, which eventually induces cell spreading.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa259_emtc_em_csa259"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9808620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRK/DOCK1/PXN"/> <bbox w="111.0" h="58.0" x="6086.0" y="17969.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1685_emtc_em_sa1685"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>paxillin</p> <p>HUGO:PXN HGNC:9718 ENTREZ:5829 UNIPROT:P49023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:16000375</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>PMID:15308668</p> <p>CRK bound to DOCK1 (so-called DOCK180) forms complex with phosphorylated paxillin.</p> <p>The complex is necessary for collagen-dependent cell migration, mainly through Rac1 activation.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PXN"/> <bbox w="32.0" h="28.0" x="6088.541" y="17971.125"/> <glyph class="state variable" id="_5e713dcf-dff9-4fdd-bf60-705c171b2491"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6082.455" y="17966.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1684_emtc_em_sa1684"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-crk sarcoma virus CT10 oncogene homolog (avian)</p> <p>"v-crk avian sarcoma virus CT10 oncogene homolog"</p> <p>HUGO:CRK HGNC:2362 ENTREZ:1398 UNIPROT:P46108</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:16000375</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>PMID:15308668</p> <p>CRK bound to DOCK1 (so-called DOCK180) forms complex with phosphorylated paxillin.</p> <p>The complex is necessary for collagen-dependent cell migration, mainly through Rac1 activation.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CRK"/> <bbox w="32.0" h="16.0" x="6122.18" y="17970.875"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1687_emtc_em_sa1687"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dedicator of cytokinesis 1</p> <p>"dedicator of cyto-kinesis 1"</p> <p>HUGO:DOCK1 HGNC:2987 ENTREZ:1793 UNIPROT:Q14185</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15308668</p> <p>DOCK1 (so-called DOCK180) is a GEF of Rac1.</p> <p>DOCK1 together with paxillin-Crk constitutes the main pathway transducing collagen-mediated signals for the activation of Rac1.</p> <p>This signaling pathway is down-regulated when cell migration is counteracted by C3G/Rap1 activation.</p> <p>A balance between Rac1 and Rap1 GTPases in controlling the migratory versus the stationary state of the cell is suggested.</p> <p>PMID:12432077</p> <p>DOCK1 is a GEF for Rac1 and possibly for CDC42</p> <p>PMID:9808620</p> <p>DOCK1 is involved in integrin signaling through Crk-p130Cas complexes.</p> <p>DOCK1 activates JNK in a Rac1, Cdc42 - dependent manner</p> <p>Overexpression of DOCK1 increases the amount of GTP-bound Rac1</p> <p>Coexpression of Crk2 and p130Cas (BCAR1) enhances this DOCK1-dependent activation of Rac1. </p> <p>Direct binding of DOCK1 to Rac1, but not to RhoA or Cdc42. </p> <p>To sum up, DOCK1 is a novel activator of Rac1 and involved in integrin signaling.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="DOCK1"/> <bbox w="48.0" h="19.0" x="6119.0" y="17986.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa245_mpk1_mpk1_sa245" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>PMID:22566907 </p> <p>The interactions of CD44, primarily with its major ligand, the extra-cellular matrix (ECM) component hyaluronic acid (HA), can be crucial for the recruitment</p> <p> and function of effector and memory T cells into/within inflamed tissues</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1383_ad_sa1383"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22566907"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Hyaluronic_acid"/> <bbox w="70.0" h="25.0" x="29811.0" y="2237.5"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa918_rc_sa918" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Biomass production"/> <bbox w="80.0" h="30.0" x="18559.303" y="12029.125"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1063_emtc_em_sa1063" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1063_emtc_em_sa1063"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP1"/> <bbox w="64.0" h="19.0" x="5634.5" y="14236.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3005_rc_sa3005" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3005_rc_sa3005"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PANK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PANK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PANK1"/> <bbox w="90.0" h="25.0" x="20624.06" y="15691.5"/> <glyph class="unit of information" id="_714cd324-5b93-4beb-9e92-ff5e0d6134ae"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20659.06" y="15686.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa9_wca1_wca1_csa9" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re8:(MAP:survival) PMID:17910481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa9_wca1_wca1_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17910481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="185.0" x="20020.06" y="19783.5"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa45_wca1_wca1_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20031.06" y="19881.5"/> <glyph class="state variable" id="_cecd4ebd-34ee-4472-82b1-722b0225351e"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.053" y="19876.5"/> </glyph> <glyph class="state variable" id="_7d58ba47-cf6e-4948-a116-7818a9e44e87"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20013.56" y="19916.22"/> </glyph> <glyph class="state variable" id="_5d1368cc-c691-45b9-b217-9ed01679d73a"> <state value="P" variable="S1505"/> <bbox w="40.0" h="10.0" x="20090.441" y="19916.5"/> </glyph> <glyph class="state variable" id="_88f3ed09-c36d-4055-acc6-614880a83cf0"> <state value="" variable="S2054"/> <bbox w="35.0" h="10.0" x="20014.053" y="19876.5"/> </glyph> <glyph class="state variable" id="_f9af0caf-ec5a-4d17-8fab-332bc4fa6a41"> <state value="P" variable="S1504"/> <bbox w="40.0" h="10.0" x="20091.06" y="19876.713"/> </glyph> <glyph class="state variable" id="_0d060819-a496-40ff-9068-ec8b38500d0f"> <state value="" variable="S1507"/> <bbox w="35.0" h="10.0" x="20053.465" y="19916.5"/> </glyph> <glyph class="state variable" id="_56472bfc-b1d1-449c-b978-e82a25ba6fc6"> <state value="" variable="T1487"/> <bbox w="35.0" h="10.0" x="20093.56" y="19915.633"/> </glyph> <glyph class="state variable" id="_53e2ffc0-7fdd-47a0-8ffc-fc324fa48322"> <state value="" variable="S1503"/> <bbox w="35.0" h="10.0" x="20053.592" y="19876.5"/> </glyph> <glyph class="state variable" id="_0ef975cc-cd6e-4273-8864-aa10fe9a75d9"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20013.56" y="19916.22"/> </glyph> <glyph class="state variable" id="_3756729d-3f74-411c-9061-4298d043df0f"> <state value="P" variable="S1501"/> <bbox w="40.0" h="10.0" x="20011.553" y="19876.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa81_wca1_wca1_sa81"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="20032.06" y="19839.0"/> <glyph class="state variable" id="_8f1f8a7d-013e-4ddf-8474-4a004505f506"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20025.053" y="19834.0"/> </glyph> <glyph class="state variable" id="_bd705e99-29cc-4e20-8357-2ca2d8da677e"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="20104.56" y="19834.213"/> </glyph> <glyph class="state variable" id="_676a8cb5-b3c8-444a-8bc0-60f067184667"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.56" y="19873.72"/> </glyph> <glyph class="state variable" id="_81b65c8c-32d7-4a53-b5b1-376c438af9cd"> <state value="P" variable="S222"/> <bbox w="35.0" h="10.0" x="20094.56" y="19834.213"/> </glyph> <glyph class="state variable" id="_0e2ca6aa-0030-45ca-81b5-310422dbabe0"> <state value="P" variable="S473"/> <bbox w="35.0" h="10.0" x="20093.941" y="19874.0"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="19837.0"/> <glyph class="state variable" id="_ed25eee3-93cb-45c0-9c52-f78c246883f7"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="19832.213"/> </glyph> <glyph class="state variable" id="_967867c3-c695-4d9f-b267-46e765a4868e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="19832.0"/> </glyph> <glyph class="state variable" id="_7feb92ba-70d1-4464-9550-22c7601733e2"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="19832.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="19793.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa42_wca1_wca1_sa42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3183_rc_sa3183"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK3*"/> <bbox w="80.0" h="40.0" x="21989.06" y="10956.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa856_rc_sa856" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa856_rc_sa856"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC2A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SLC2A3"/> <bbox w="80.0" h="40.0" x="18301.56" y="9154.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa255_emtc_em_csa255" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ARHGAP35:RASA1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8360177</p> <p>RASA1 is a GAP for HRAS.</p> <p>PMID:18829532</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by PTK6..</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa255_emtc_em_csa255"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8360177"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18829532"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP35/RASA1"/> <bbox w="116.0" h="38.0" x="6063.0" y="14188.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1614_emtc_em_sa1614"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAS p21 protein activator (GTPase activating protein) 1</p> <p>RASA</p> <p>HUGO:RASA1 HGNC:9871 ENTREZ:5921 UNIPROT:P20936</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8537347</p> <p>PMID:10769036</p> <p>GAP activity of ARHGAP5 is abrogated by binding to RASA1 (p120GAP)</p> <p>PMID:8360177</p> <p>RASA1 is a GAP for HRAS.</p> <p>PMID:18829532</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="RASA1"/> <bbox w="42.0" h="16.0" x="6134.0" y="14192.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1616_emtc_em_sa1616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Rho GTPase activating protein 35</p> <p>HUGO:ARHGAP35 HGNC:4591 ENTREZ:2909 UNIPROT:Q9NRY4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9819392</p> <p>The GAP activity of ARHGAP35 (p190RhoGAP) is specific for RhoA inhibition.</p> <p>PMID:8360177</p> <p>RASA1 is a GAP for HRAS.</p> <p>PMID:18829532</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by PTK6..</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ARHGAP35"/> <bbox w="62.0" h="19.0" x="6065.0" y="14191.5"/> <glyph class="state variable" id="_78ffbb4a-24d8-4bbf-b08a-2c0e12d53d55"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6119.5" y="14196.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2237_rc_sa2237" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2237_rc_sa2237"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALAS1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALAS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALAS*"/> <bbox w="80.0" h="40.0" x="18483.31" y="12744.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa122_ad_csa122" compartmentRef="s_id_ad_ca9_ad_ca9"> <label text="ad_s5328"/> <bbox w="100.0" h="120.0" x="29366.0" y="2990.0"/> <glyph class="macromolecule" id="s_id_ad_sa1030_ad_sa1030"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>HUGO:FYB1</p> <p>PMID:20164171</p> <p> ADAP (FYB1) can be recruited to the Carma1-Bcl10-Malt1 (CBM) complex upon CD3/CD28 stimulation, a key complex that regulates NF-κB activation via the classical pathway </p> </body> </html> </notes> <label text="FYB1"/> <bbox w="80.0" h="40.0" x="29376.0" y="3050.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1031_ad_sa1031"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>HUGO:SKAP1</p> <p>PMID:18760924 </p> <p>ADAP binds to SKAP1 in a pathway linked to the activation of integrin adhesion </p> <p>SKAP-55, SKAP-55-related and ADAP</p> <p>adaptors modulate integrin-mediated</p> </body> </html> </notes> <label text="SKAP1"/> <bbox w="80.0" h="40.0" x="29376.0" y="3000.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa59_ca_sa59" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa59_ca_sa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PLG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PLG"/> <bbox w="80.0" h="40.0" x="700.0" y="1380.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa74_ce_csa74" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:PCNA:POLH:REV1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:19258535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa74_ce_csa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19258535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCNA/POLH"/> <bbox w="103.0" h="160.0" x="16895.473" y="15888.356"/> <glyph class="macromolecule" id="s_id_ce_sa680_ce_sa680"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="16906.508" y="15898.43"/> <glyph class="state variable" id="_ee495b29-32c5-4fee-a79d-12db77ac9172"> <state value="Ub" variable="K164"/> <bbox w="40.0" h="10.0" x="16886.508" y="15913.43"/> </glyph> <glyph class="state variable" id="_15ae8350-193c-4a61-92ed-c50e2d4cfd2c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16901.508" y="15933.43"/> </glyph> <glyph class="state variable" id="_aac79ac7-f544-44fe-8b12-e6d2bae4bdfb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16924.94" y="15933.43"/> </glyph> <glyph class="state variable" id="_75eed19f-d1c2-4ffd-8787-faaac3d3d0db"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16941.508" y="15933.43"/> </glyph> <glyph class="state variable" id="_9347f743-1fd2-4d22-b667-2a40a396731a"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="16895.492" y="15893.43"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa679_ce_sa679"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), eta</p> <p>HUGO:POLH, HGNC:9181, ENTREZ:5429, UNIPROT:Q9Y253</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:18196958, PMID:17652783</p> <p>Related to the Y-family polymerases</p> <p>PMID:19258535</p> <p>POLH participates in the D-loop formation in HR</p> <p>PMID:16337602, PMID:16337601</p> <p>Bypasses thymidine-thymidine (T-T) cyclobutane pyrimidine dimer (CPD) very accurately</p> <p>PMID:15189446</p> <p>Cisplatin tolerance in cells with active POLH</p> <p>PMID:22562137</p> </body> </html> </notes> <label text="POLH"/> <bbox w="80.0" h="40.0" x="16906.473" y="15941.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa681_ce_sa681"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>REV1 homolog (S. cerevisiae)</p> <p>HUGO:REV1, HGNC:14060, ENTREZ:51455, UNIPROT:Q9UBZ9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:23065650</p> <p>Related to Y-family polymerases. For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For hiperphosphotyration of REV1 in cell cycle and DNA danage-dependent manner. </p> <p>Hyperphosphorylation makes REV1 regulatory molecule for activating TLS pathway</p> <p>PMID:17035102, PMID:19258535</p> </body> </html> </notes> <label text="REV1"/> <bbox w="80.0" h="40.0" x="16906.33" y="15983.356"/> <glyph class="state variable" id="_9c621b63-0d36-440a-a281-943709de9b5e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16981.33" y="15998.356"/> </glyph> <glyph class="state variable" id="_6aac99f0-3089-4041-bd1f-403e7e26d099"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16981.328" y="15978.356"/> </glyph> <glyph class="state variable" id="_b5e85b27-dd90-45b8-a296-dd2f9917db79"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16981.328" y="16018.356"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4586_rc_sa4586" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:RCD_GENES ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:RCD_GENES </body> </html> </notes> <label text="CyclinG1"/> <bbox w="90.0" h="25.0" x="19284.06" y="15996.5"/> <glyph class="unit of information" id="_97dc4019-2e6b-4e46-90b6-c9ffbbd89d56"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19319.06" y="15991.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ca_sa190_ca_sa190" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:20823158 </p> <p>CAFs have been identified as a source of hyaluronan, and genetic ablation of the hyaluronan synthase gene (Has2) in fibroblasts strongly diminishes the entry of macrophages into the tumour microenvironment.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa190_ca_sa190"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823158"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="hyaluronan"/> <bbox w="70.0" h="25.0" x="5910.0" y="4658.75"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa241_wnc1_wnc2_sa241" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa241_wnc1_wnc2_sa241"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <bbox w="80.0" h="40.0" x="17520.06" y="18362.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa283_mo_sa283" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>SLC9A3 regulator 1 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa283_mo_sa283"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SLC9A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NHERF1*"/> <bbox w="80.0" h="40.0" x="2231.0" y="10996.0"/> <glyph class="state variable" id="_4a7713c2-574a-4581-969a-7168a4ebd3b4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2280.0686" y="10991.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa60_te_csa60" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:β-catenin*/KLF4</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <label text="β-catenin*/KLF4"/> <bbox w="100.0" h="120.0" x="6871.06" y="21191.0"/> <glyph class="macromolecule" id="s_id_te_sa408_te_sa408"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="β-catenin*"/> <bbox w="80.0" h="40.0" x="6882.06" y="21203.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa409_te_sa409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kruppel-like factor 4 (gut)</p> <p>HUGO:KLF4</p> <p>MODULE:TELOMERASE</p> </body> </html> </notes> <label text="KLF4"/> <bbox w="80.0" h="40.0" x="6882.06" y="21249.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2668_in_sa2668" compartmentRef="s_id_in_ca12_in_ca12"> <label text="HMGB1"/> <bbox w="80.0" h="40.0" x="20406.25" y="5405.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1136_emtc_em_sa1136" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1136_emtc_em_sa1136"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Catenin*"/> <bbox w="59.0" h="21.0" x="1872.0" y="15987.5"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa2800_in_sa2800" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2800_in_sa2800"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10353253"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347416"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11153522"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Histamine"/> <bbox w="70.0" h="25.0" x="12175.0" y="6047.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa215_ce_csa215" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ku70*:Ku80*:Securin*</p> <p>Map modules:</p> <p>MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:17962814</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa215_ce_csa215"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17962814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ku70*/Ku80*/Securin*"/> <bbox w="117.0" h="155.0" x="12954.473" y="15700.356"/> <glyph class="macromolecule" id="s_id_ce_sa1038_ce_sa1038"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 5 (double-strand-break rejoining)</p> <p>HUGO:XRCC5, HGNC:12833,ENTREZ:7520, UNIPROT:P13010</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, </p> <p>PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869, </p> <p>PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku80*"/> <bbox w="80.0" h="40.0" x="12977.691" y="15794.322"/> <glyph class="state variable" id="_2ca8aaf2-e849-412b-9654-14dfef2935b6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12996.123" y="15789.322"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1040_ce_sa1040"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pituitary tumor-transforming 1, Securin</p> <p>HUGO:PTTG1, HGNC:9690, ENTREZ:9232, UNIPROT:O95997</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:SPINDLE_CHECKPOINT, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:17962814, PMID:11238996, PMID:20691907</p> </body> </html> </notes> <label text="Securin*"/> <bbox w="80.0" h="40.0" x="12971.858" y="15706.487"/> <glyph class="state variable" id="_260afda2-dfdc-468f-9bf6-a00cbd18963c"> <state value="" variable="S165"/> <bbox w="30.0" h="10.0" x="12968.351" y="15701.487"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1039_ce_sa1039"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 6</p> <p>HUGO:XRCC6, HGNC:4055, ENTREZ:2547, UNIPROT:P12956</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, </p> <p>PMID:16697054, PMID:19473888, PMID:19808869, PMID:19772495, PMID:24050180</p> <p>Ku competes with PARP1 at the DNA binding site and inhibits alt_NHEJ</p> <p>PMID:17088286</p> </body> </html> </notes> <label text="Ku70*"/> <bbox w="80.0" h="40.0" x="12974.691" y="15750.815"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4723_rc_sa4723" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>Unfolded protein response</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4723_rc_sa4723"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UPR"/> <bbox w="80.0" h="30.0" x="27859.06" y="14874.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1398_emtc_em_sa1398" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1398_emtc_em_sa1398"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJB5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJB5"/> <bbox w="40.0" h="20.0" x="1141.0" y="18262.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa30_ca_sa30" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF </p> <p>References:</p> <p>CASCADE:PLAU</p> <p>PMID:27216177</p> <p>FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.</p> <p>STAT3 inducec CLL2 expression downstream of this signaling. CCL2 derived from FAP+CAFs mediates their ability to promote tumor growth and MDSC infiltration</p> <p>CCL2 (MCP1)</p> <p>CAF express MCP-1/CCL2 when co-cultured with cancer cells [48] and [49]. Galectin-1 expression, which was shown to regulate CAF activation, also controls MCP-1 expression in the activated cells and MCP-1 in turn facilitates tumour invasion and metastasis.</p> <p>Although the mechanism of action described in the paper concentrated on the effects of MCP-1 on tumour cells, there is also a large body of evidence describing MCP-1's involvement in the recruitment of CCR2-positive immune cells such as monocytes, macrophages, dendritic cells and T cells. In 4T1 tumour bearing mice in which the Mcp-1 gene was deleted, a significant decrease of F4/80 positive macrophages was observed in the tumours</p> <p>PMID:23527025</p> <p>The primary tumors of MCP-1(-/-) mice consistently developed necrosis earlier than those of WT mice and showed decreased infiltration by macrophages and reduced angiogenesis. Interestingly, 4T1 cells that metastasized to the lung constitutively expressed elevated levels of MCP-1, and intravenous injection of 4T1 cells producing a high level of MCP-1 resulted in increased tumor foci in the lung of WT and MCP-1(-/-) mice. Thus, stromal cell-derived MCP-1 in the primary tumors promotes lung metastasis of 4T1 cells, but tumor cell-derived MCP-1 can also contribute once tumor cells enter the circulation.</p> <p>PMID:23943801</p> <p>TAF-derived CCL2 and its downstream transcription factor, Ets-1, are prerequisites for TAF-induced FGFR4 upregulation. Furthermore, FGFR4-associated pathways are shown to be preferentially activated in colorectal tumor samples, and direct tumor metastasis in a mouse metastasis model.</p> <p>PMID:24531940</p> <p>Cancer-associated fibroblasts (CAFs) have been described to play critical roles in initiation, progression and metastasis of various cancers. However, the involvement of CAFs in oral cancer (OC) has not been well addressed. In this study, we demonstrate that CAFs, when cocultured with OC cells (OCCs), produce high levels of chemokine (C-C motif) ligand 2 (CCL2) and, subsequently, enhance endogenous reactive oxygen species production in cells. Oxidative stress stimulates expression of cell cycle progression proteins in OCCs, leading to promotion of OCC proliferation, migration, invasion and, OC tumor growth. On the other hand, oxidative stress triggered the activation of nuclear factor-kappaB (NF-κB) and STAT3 in CAFs, resulting in accelerating CCL2 expression.</p> <p>PMID:23567181</p> <p>CCL2, synthesized by both tumor cells and by CAFs, is a known chemoattractant of inflammatory monocytes, which express its receptor—CCR2</p> <p>CCL5/RANTES and CCL2 secreted by CAFs isolated from human melanoma, breast and colon cancers mediated recruitment of Th17 cells from peripheral blood</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16799472; PMID:15735649</p> <p>GADD45 inhibited p38 activated by ZAP70 (that is, through phosphorylation of Tyr323) but not by MKK6 (that is, through phosphorylation of Thr180 and Tyr182).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1078_ad_sa1078"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15735649"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GADD45A "/> <bbox w="80.0" h="40.0" x="26796.0" y="5775.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa711_emtc_em_sa711" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa711_emtc_em_sa711"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR429"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR200C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR200*"/> <bbox w="60.0" h="20.0" x="3474.5" y="16860.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4870_rc_sa4870" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:12667446</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4870_rc_sa4870"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12667446"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="reduce translation initiation"/> <bbox w="180.0" h="25.0" x="26889.06" y="15046.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa930_ce_sa930" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa930_ce_sa930"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC20"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC20"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC20"/> <bbox w="70.0" h="25.0" x="15096.269" y="9750.625"/> </glyph> <glyph class="complex" id="s_id_rc_csa131_rc_csa131" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BMF:DYNLL2</p> </body> </html> </notes> <label text="myosin V motor complex:BMF"/> <bbox w="100.0" h="120.0" x="21360.56" y="11785.25"/> <glyph class="macromolecule" id="s_id_rc_sa1372_rc_sa1372"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Bcl2 modifying factor</p> <p>HUGO:BMF HGNC:24132 ENTREZ:90427 UNIPROT:Q96LC9</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="BMF"/> <bbox w="80.0" h="40.0" x="21368.56" y="11801.25"/> <glyph class="state variable" id="_3962e154-8be7-4fe8-a78d-d552cc9ced86"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="21417.629" y="11796.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1373_rc_sa1373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dynein, light chain, LC8-type 2</p> <p>HUGO:DYNLL2 HGNC:24596 ENTREZ:140735 UNIPROT:Q96FJ2</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="DYNLL2"/> <bbox w="80.0" h="40.0" x="21368.56" y="11845.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa248_ca_sa248" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa248_ca_sa248"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD2"/> <bbox w="80.0" h="40.0" x="3690.0" y="1685.0"/> <glyph class="state variable" id="_0f56c775-8a65-4a72-b6f0-518984459812"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3685.0" y="1699.9681"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2629_in_sa2629" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL2RB"/> <bbox w="70.0" h="25.0" x="23630.0" y="3687.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2807_rc_sa2807" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:37044</p> </body> </html> </notes> <label text="pyrimidine ribonucleoside 5'-triphosphate"/> <bbox w="269.0" h="33.0" x="19224.686" y="11932.625"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa194_mo_sa194" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>RELA proto-oncogene, NF-kB subunit </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa194_mo_sa194"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NF-kB_p65*"/> <bbox w="80.0" h="40.0" x="2003.6666" y="10629.833"/> <glyph class="state variable" id="_e74eaae2-430d-42aa-82c3-e16960b2c76a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2052.735" y="10624.833"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa348_an_sa348" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa348_an_sa348"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK1*"/> <bbox w="80.0" h="40.0" x="5665.0" y="6431.0"/> <glyph class="state variable" id="_71cf0301-f389-4a8b-9d28-c0dd9c6fee79"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5716.5684" y="6426.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa174_emtc_em_csa174" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Claudin2*:Claudin3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Claudin 2/Claudin 3*"/> <bbox w="126.0" h="35.0" x="1037.0" y="15410.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1223_emtc_em_sa1223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 2</p> <p>HUGO:CLDN2, HGNC:2041, ENTREZ:9075, UNIPROT:P57739, GENECARDS:GC0XP106163</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin2*"/> <bbox w="63.0" h="17.0" x="1039.0" y="15412.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1224_emtc_em_sa1224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claudin 3</p> <p>HUGO:CLDN3, HGNC:2045, ENTREZ:1365, GENECARDS:GC07M073183, UNIPROT:O15551</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin3*"/> <bbox w="60.0" h="16.0" x="1102.0" y="15412.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_in_sa2765_in_sa2765" compartmentRef="s_id_in_ca50_in_ca50"> <label text="TUMOR_GROWTH"/> <bbox w="300.0" h="103.0" x="11660.0" y="8698.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3706_rc_sa3706" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 18307</p> </body> </html> </notes> <label text="UDP-alpha-D-galactose"/> <bbox w="155.0" h="33.0" x="19781.56" y="10702.75"/> </glyph> <glyph class="phenotype" id="s_id_shh1_shh2_sa138_shh1_shh2_sa138" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_shh2_re88:(MAP:survival) PMID:12606705</p> <p>s_shh2_re92:(MAP:survival) PMID:21228116</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa138_shh1_shh2_sa138"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12606705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21228116"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NF-κB pathway"/> <bbox w="80.0" h="30.0" x="26898.06" y="21057.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa832_in_sa832" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KLRG1*"/> <bbox w="80.0" h="50.0" x="10625.0" y="1345.0"/> <glyph class="state variable" id="_3b812477-dd58-4fee-9773-83a6d0896f5e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10620.0" y="1365.0"/> </glyph> <glyph class="unit of information" id="_06f2488f-f8b9-45ad-a270-e54795e00ae6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10642.5" y="1340.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa150_emtc_em_csa150" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RAF1:YWHAB</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9069260</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB.</p> <p>YWHAB binds to RAF1 via the Ser259 phosphorylation site.</p> <p>This interaction stabilises the inactive conformation of RAF1, in which the RAS-binding Cysteine-rich doomain (CRD) is obscured.</p> <p>RAF1 contains an additional RAS-binding domain (RBD).References_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa150_emtc_em_csa150"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9069260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAF1/YWHAB"/> <bbox w="101.0" h="94.0" x="6596.5" y="13493.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa817_emtc_em_sa817"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf-1 murine leukemia viral oncogene homolog 1</p> <p>HUGO:RAF1, HGNC:9829, ENTREZ:5894 , GENECARDS:GC03M012625, UNIPROT:P04049</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:9069260</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB.</p> <p>YWHAB binds to RAF1 via the Ser259 phosphorylation site.</p> <p>This interaction stabilises the inactive conformation of RAF1, in which the RAS-binding Cysteine-rich doomain (CRD) is obscured.</p> <p>RAF1 contains an additional RAS-binding domain (RBD).</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RAF1"/> <bbox w="100.0" h="45.0" x="6597.0" y="13519.5"/> <glyph class="state variable" id="_1af8b762-87ef-467d-86e5-51adc8bb8844"> <state value="closed" variable=""/> <bbox w="40.0" h="10.0" x="6627.0" y="13514.5"/> </glyph> <glyph class="state variable" id="_20fd6b36-c424-430a-bb84-0a1e76f4654e"> <state value="P" variable="S259"/> <bbox w="35.0" h="10.0" x="6579.5" y="13514.606"/> </glyph> <glyph class="state variable" id="_6547fdd9-6cbb-4a83-a9fc-6733f2fb0490"> <state value="P" variable="S"/> <bbox w="20.0" h="10.0" x="6687.0" y="13537.0"/> </glyph> <glyph class="state variable" id="_84f32cae-a108-4b89-abd6-627e8c645517"> <state value="" variable="Y340"/> <bbox w="30.0" h="10.0" x="6681.4595" y="13514.5"/> </glyph> <glyph class="state variable" id="_98e0bcac-767a-434d-a0a6-a6949b4978fb"> <state value="" variable="Y341"/> <bbox w="30.0" h="10.0" x="6680.9175" y="13559.5"/> </glyph> <glyph class="state variable" id="_6f36160f-8e7a-4dec-8e0a-13e2b6a7e0f2"> <state value="" variable="S338"/> <bbox w="30.0" h="10.0" x="6582.0" y="13536.964"/> </glyph> <glyph class="state variable" id="_17a3c102-31b1-427b-a227-0d2555f0532e"> <state value="P" variable="S621"/> <bbox w="35.0" h="10.0" x="6579.5" y="13558.317"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa818_emtc_em_sa818"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB, HGNC:12849, ENTREZ:7529, GENECARDS:GC20P043515, UNIPROT:P31946 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>YWHAB is so-called 14-3-3 alpha/beta</p> <p>PMID:9069260</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="YWHAB"/> <bbox w="60.0" h="20.0" x="6620.0" y="13495.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_in_sa1942_in_sa1942" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_csa103_degraded"/> <bbox w="30.0" h="30.0" x="23170.0" y="3995.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa120_mo_sa120" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0UL16 binding protein 2 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0UL16 binding protein 2 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa120_mo_sa120"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ULBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ULBP2"/> <bbox w="70.0" h="25.0" x="5777.0" y="10934.5"/> </glyph> <glyph class="complex" id="s_id_in_csa66_in_csa66" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s1345"/> <bbox w="100.0" h="100.0" x="20905.0" y="2020.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa609_in_sa609"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NKG2D*"/> <bbox w="90.0" h="25.0" x="20910.0" y="2037.5"/> <glyph class="unit of information" id="_8700afb6-2ab5-4706-9b53-e4cf312c8f1b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20945.0" y="2032.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa610_in_sa610"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR1245A"/> <bbox w="90.0" h="25.0" x="20910.0" y="2067.5"/> <glyph class="unit of information" id="_ecb851fa-90c4-428a-a632-8f7f606f1bbb"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20940.0" y="2062.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2916_rc_sa2916" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2916_rc_sa2916"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CIAPIN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cIAP*"/> <bbox w="80.0" h="40.0" x="23042.06" y="9684.25"/> <glyph class="state variable" id="_1a7e3057-8d1a-43cd-b07d-8b50dad2f430"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="23088.629" y="9679.25"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa28_wca1_wca4_sa28" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa28_wca1_wca4_sa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WIF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WIF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WIF1"/> <bbox w="90.0" h="25.0" x="23715.06" y="22618.5"/> <glyph class="unit of information" id="_b846d62f-5c87-44a0-909d-ff5da91e2b20"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23750.06" y="22613.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa107_ce_csa107" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E2F1:RB1</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="E2F1/RB1"/> <bbox w="95.0" h="113.0" x="12333.473" y="9851.356"/> <glyph class="macromolecule" id="s_id_ce_sa761_ce_sa761"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E2F transcription factor 1</p> <p>HUGO:E2F1, HGNC:3113, ENTREZ:1869, UNIPROT:Q01094</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E2F1"/> <bbox w="80.0" h="40.0" x="12337.473" y="9858.356"/> <glyph class="state variable" id="_3222c19a-5a02-413a-b8ef-79d43d37af3a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12412.473" y="9873.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa762_ce_sa762"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma 1</p> <p>HUGO:RB1, HGNC:9884, ENTREZ:5925, UNIPROT:P06400</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:7935440</p> </body> </html> </notes> <label text="RB1"/> <bbox w="80.0" h="40.0" x="12339.473" y="9900.356"/> <glyph class="state 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR1-1"/> <bbox w="90.0" h="25.0" x="20035.06" y="15590.5"/> <glyph class="unit of information" id="_29d94142-42fb-474c-8ab9-9ac01214a716"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20065.06" y="15585.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa1116_in_sa1116" compartmentRef="s_id_in_ca12_in_ca12"> <label text="hydroxyl"/> <bbox w="70.0" h="25.0" x="14308.594" y="6943.4375"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa261_ce_sa261" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa261_ce_sa261"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HELQ"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HEL308*"/> <bbox w="80.0" h="40.0" x="14532.606" y="16734.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1155_ce_sa1155" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1155_ce_sa1155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT*"/> <bbox w="80.0" h="40.0" x="11014.77" y="11221.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1438_ce_sa1438" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0LnP:BER:M-glyc:st6Long patch BER: multiple nucleotide patch replacement pathwayRepaired ligated DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0LnP:BER:M-glyc:st6Long patch BER: multiple nucleotide patch replacement pathwayRepaired ligated DNANode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER </body> </html> </notes> <label text="LnP_BER_M-glyc_st6*"/> <bbox w="150.0" h="26.0" x="10189.334" y="16927.332"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa399_in_sa399" compartmentRef="s_id_in_ca48_in_ca48"> <label text="ULBP2"/> <bbox w="80.0" h="40.0" x="20770.0" y="960.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa39_in_sa39" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRAP"/> <bbox w="80.0" h="40.0" x="22130.0" y="6100.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa51_emtc_em_csa51" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD3:SMAD4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SMAD3 homodimer/SMAD4"/> <bbox w="164.0" h="114.0" x="4321.0" y="15857.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa434_emtc_em_sa434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="4400.5" y="15860.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa433_emtc_em_sa433"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD3"/> <bbox w="118.0" h="57.0" x="4346.5" y="15882.5"/> <glyph class="unit of information" id="_9ca8945a-f471-4b0c-b913-925b8656bc86"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="4395.5" y="15877.5"/> </glyph> <glyph class="state variable" id="_4f4f40b0-8a5b-450f-bedd-c493d9317ada"> <state value="" variable="S213"/> <bbox w="30.0" h="10.0" x="4331.5" y="15880.923"/> </glyph> <glyph class="state variable" id="_aedc0650-24d8-4068-a793-07dc6cece1b3"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="4394.1787" y="15934.5"/> </glyph> <glyph class="state 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</glyph> <glyph class="macromolecule" id="s_id_ce_sa230_ce_sa230" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa230_ce_sa230"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD18"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD18"/> <bbox w="80.0" h="40.0" x="17225.27" y="15602.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2206_rc_sa2206" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2206_rc_sa2206"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ALAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ALAD"/> <bbox w="80.0" h="40.0" x="17789.06" y="12499.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1993_rc_sa1993" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:18050 KEGGCOMPOUND:C00064 CAS:56-85-9</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1993_rc_sa1993"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="L-glutamine"/> <bbox w="70.0" h="25.0" x="18060.06" y="15120.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1491_rc_sa1491" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1491_rc_sa1491"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BBC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BBC3"/> <bbox w="80.0" h="40.0" x="20932.951" y="15855.87"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2026_emtc_em_sa2026" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2026_emtc_em_sa2026"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="I-SMAD*"/> <bbox w="61.0" h="19.0" x="5551.0" y="16733.5"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa27_shh1_shh2_csa27" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BMF:MIR29B*</p> <p>References:</p> <p>s_shh2_re131:(MAP:survival) PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa27_shh1_shh2_csa27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-29b_BMF"/> <bbox w="100.0" h="120.0" x="27605.06" y="21646.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa233_shh1_shh2_sa233"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21359530</p> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR29B*"/> <bbox w="90.0" h="25.0" x="27612.56" y="21659.5"/> <glyph class="unit of information" id="_2bdb5e29-a862-41e8-8858-c0983328b16f"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27642.56" y="21654.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa237_shh1_shh2_sa237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BMF</p> <p>HUGO:BMF HGNC:24132 ENTREZ:90427 UNIPROT:Q96LC9 GENECARDS:BMF REACTOME:140208 ATLASONC:GC_BMF WIKI:BMF</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16243507</p> <p>BMF</p> <p>HUGO:BMF HGNC:24132 ENTREZ:90427 UNIPROT:Q96LC9 GENECARDS:BMF REACTOME:140208 ATLASONC:GC_BMF WIKI:BMF</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="BMF"/> <bbox w="90.0" h="25.0" x="27612.56" y="21689.0"/> <glyph class="unit of information" id="_14152a7c-6e21-4c71-b98d-912ccf59575d"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27647.56" y="21684.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa34_ca_sa34" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa34_ca_sa34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP15"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP16"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP17"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP19"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP20"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP21"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP23A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP23B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP24"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP25"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP26"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP27"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP28"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMPs*"/> <bbox w="80.0" h="40.0" x="5360.0" y="4790.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa62_ce_csa62" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FEN1:PCNA:WRN</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:20056333</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa62_ce_csa62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15703371"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16697054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14726013"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20056333"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FEN1/PCNA/WRN"/> <bbox w="126.0" h="178.0" x="10452.473" y="16426.355"/> <glyph class="macromolecule" id="s_id_ce_sa1457_ce_sa1457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Werner syndrome, RecQ helicase-like</p> <p>HUGO:WRN, HGNC:12791, ENTREZ:7486, UNIPROT:Q14191</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER, MODULE:A_NHEJ, MODULE:HR</p> <p>References:</p> <p>PMID:20691907</p> <p>For A_NHEJ pathway</p> <p> (alt_NHEJ or B_NHEJ or MMEJ)</p> <p>PMID:18584027, PMID:17965729, PMID:20064462, PMID:18809224</p> <p>, PMID:21376743, PMID:24050180, PMID:22743550</p> <p>For HR pathway</p> <p>PMID:19490890, PMID:22657828 </p> <p>For BER pathway</p> <p>PMID:17116323, PMID:18398454, PMID:16449207, PMID:15385537, PMID:18558713, PMID:23161013</p> <p>WRN in telomere maintenance</p> <p>PMID:23253856 </p> <p>Resolving stalled replication fork</p> <p>Inhibiting WNT kills alt_NHEJ pathway</p> <p>PMID:24036544</p> <p>PARP1 inhibits WRN</p> <p>PMID:23082994</p> <p>WRN inhibits C_NHEJ by sequestering DNA-PKs</p> <p>PMID:12202749</p> <p>Activation of WRN in cancers</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/22156</p> <p>http://www.intechopen.com/download/get/type/pdfs/id/19301</p> <p>PMID:18524993</p> </body> </html> </notes> <label text="WRN"/> <bbox w="80.0" h="40.0" x="10471.72" y="16447.773"/> <glyph class="state variable" id="_451767f3-5fd9-4a77-9c6c-78dc9aed9711"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10505.468" y="16442.773"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa644_ce_sa644"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>flap structure-specific endonuclease 1</p> <p>HUGO:FEN1, HGNC:3650, ENTREZ:2237, UNIPROT:P39748</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:BER</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013, PMID:23161013</p> </body> </html> </notes> <label text="FEN1"/> <bbox w="80.0" h="40.0" x="10475.723" y="16497.605"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa646_ce_sa646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="10478.723" y="16540.855"/> <glyph class="state variable" id="_9607a8ab-60f6-4c8e-be8a-80fea24369a7"> <state value="" variable="K164"/> <bbox w="30.0" h="10.0" x="10463.723" y="16555.855"/> </glyph> <glyph class="state variable" id="_5de0c7ae-7ddb-449b-8e21-467f38e4f752"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10473.724" y="16575.855"/> </glyph> <glyph class="state variable" id="_cc1584f8-73c7-4ade-ac9a-7ef8a5bfee50"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10497.154" y="16575.855"/> </glyph> <glyph class="state variable" id="_9253035f-c9b2-4805-b699-29b957db9d9e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10513.723" y="16575.855"/> </glyph> <glyph class="state variable" id="_a63e1fc6-8d38-4b6b-a27e-7cf8667b66fa"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="10467.707" y="16535.855"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1346_ad_sa1346" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CELL:CD4CELL:TREGMODULE:INHIBITING_CHECKPOINTS PMID:16873067NFAT, interfere in a graded manner with the ability of FOXP3 to repress expression of the cytokine IL2, upregulate expression of the Treg markers CTLA4 and CD25Chromatin immunoprecipitation (ChIP) experiments confirmed that NFAT1 and FOXP3 could each occupy the Il2, Ctla4, and Cd25 promoters, both in T cells retrovirally transduced with FOXP3 and in “natural” CD4+CD25+ T regulatory cells that had been expanded with IL-2 PMID:12522256Foxp3 is known to drive the expression of Treg-associated markers such as CD25, CTLA-4, and GITR ----- content merged by Celldesigner to SBGN-ML translation ------ CELL:CD4CELL:TREGMODULE:INHIBITING_CHECKPOINTS PMID:16873067NFAT, interfere in a graded manner with the ability of FOXP3 to repress expression of the cytokine IL2, upregulate expression of the Treg markers CTLA4 and CD25Chromatin immunoprecipitation (ChIP) experiments confirmed that NFAT1 and FOXP3 could each occupy the Il2, Ctla4, and Cd25 promoters, both in T cells retrovirally transduced with FOXP3 and in “natural” CD4+CD25+ T regulatory cells that had been expanded with IL-2 PMID:12522256Foxp3 is known to drive the expression of Treg-associated markers such as CD25, CTLA-4, and GITR </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1346_ad_sa1346"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTLA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16873067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12522256"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTLA4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16873067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12522256"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTLA4"/> <bbox w="70.0" h="25.0" x="27471.0" y="2767.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa127_emtc_em_csa127" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:LRP6:MIR34*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MIR34/LRP6"/> <bbox w="80.0" h="60.0" x="3692.5" y="18178.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa747_emtc_em_sa747"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6, HGNC:6698, ENTREZ:4040, GENECARDS:GC12M012173</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="60.0" h="20.0" x="3711.5" y="18199.0"/> <glyph class="unit of information" id="_f2130422-6136-4b74-843f-2494e9e9131a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3731.5" y="18194.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa748_emtc_em_sa748"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34b</p> <p>HUGO:MIR34B, HGNC:31636, ENTREZ:407041, GENECARDS:GC11P111383</p> <p>microRNA 34c</p> <p>HUGO:MIR34C, HGNC:31637, ENTREZ:407042, GENECARDS:GC11P111384</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>PMID:21909380</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR34*"/> <bbox w="75.0" h="20.0" x="3696.5" 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IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. 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compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="NFKBIZ"/> <bbox w="70.0" h="25.0" x="20065.0" y="4722.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa191_emtc_em_csa191" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Afadin*:ZO1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Afain*/ZO1*"/> <bbox w="99.0" h="44.0" x="1976.5" y="14706.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1261_emtc_em_sa1261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15558297</p> <p>The localization of ZO-1 at gap junctions serves in part to resolve reports of ZO-1 expression in non-epithelial cells such as fibroblasts that lack tight junctions</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1*"/> <bbox w="40.0" h="16.0" x="2032.5" y="14707.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1260_emtc_em_sa1260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4</p> <p>HUGO:MLLT4, HGNC:7137, 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re78:(MAP:survival) PMID:22100263</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa729_wca1_wca1_sa729"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22100263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT non canonical 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<p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa228_emtc_em_csa228"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12480336"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16212495"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC1_GDP"/> <bbox w="70.0" h="60.0" x="6287.0" y="14335.5"/> <glyph class="simple chemical" id="s_id_emtc_em_sa1467_emtc_em_sa1467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="35.0" h="17.0" x="6302.5" y="14357.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1031_emtc_em_sa1031"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 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0</p> <p>PMID:14612578 </p> <p>In NK cells actin and microtubule polymerization are required for cytotoxic function.</p> <p>PMID:16887996</p> <p>Vav1 is required for actin accumulation at the NK-target contact site in response to NKG2D-DAP10 signals,</p> <p>probably via RHOA pathway.</p> <p>PMID:26552706</p> <p>DNAM-1 controls NK cell activation via an ITT-like motif </p> <p> Upon phosphorylation by Src kinases, this motif enabled binding of DNAM-1 to adaptor Grb2, leading to activation of enzymes Vav-1, phosphatidylinositol 3′ kinase, and phospholipase C-γ1. It also promoted activation of kinases Erk and Akt, and calcium fluxes. Although, as reported, DNAM-1 promoted adhesion, this function was signal-independent and insufficient to promote cytotoxicity. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Link to Cell survival map</p> <p>Map modules:</p> <p>MODULE:REGULATORS</p> <p>References:</p> <p>PMID:23197039, PMID:22738915, PMID:23144924, PMID:23148305, PMID:22440753</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1564_ce_sa1564"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23197039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Desmocolin1 binding partners*:Desmocolin1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa274_emtc_em_csa274"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19955337"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Desmocolin 1*/Desmocolin 1 binding partners*)"/> <bbox w="293.0" h="46.0" x="1708.0" y="16716.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1797_emtc_em_sa1797"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>desmocollin 1</p> <p>HUGO:DSC1, HGNC:3035, ENTREZ:1823, UNIPROT:Q08554, GENECARDS:GC18M028732   </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Desmocolin1*"/> <bbox w="88.0" h="21.0" x="1909.5" y="16720.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1796_emtc_em_sa1796"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Desmocollin 1 binding partners*</p> <p>desmoglein 1</p> <p>HUGO:DSG1 HGNC:3048 ENTREZ:1828 UNIPROT:Q02413 GENECARDS:GC18P028921</p> <p>desmoglein 2</p> <p>HUGO:DSG2 HGNC:3049 ENTREZ:1829 UNIPROT:Q14126 GENECARDS:GC18P029101</p> <p>junction plakoglobin</p> <p>"catenin (cadherin-associated protein), gamma 80kDa", CTNNG</p> <p>HUGO:JUP HGNC:6207 ENTREZ:3728 UNIPROT:P14923 GENECARDS:GC17M039776</p> <p>Plakophilin*</p> <p>plakophilin 1 (ectodermal dysplasia/skin fragility syndrome)</p> <p>HUGO:PKP1 HGNC:9023 ENTREZ:5317 UNIPROT:Q13835 GENECARDS:GC01P201252</p> <p>plakophilin 2</p> <p>HUGO:PKP2 HGNC:9024 ENTREZ:5318 UNIPROT:Q99959 GENECARDS:GC12M032943</p> <p>plakophilin 3</p> <p>HUGO:PKP3, HGNC:9025, ENTREZ:11187, UNIPROT:Q9Y446, GENECARDS:GC11P000394   </p> <p>plakophilin 4</p> <p>HUGO:PKP4 HGNC:9026 ENTREZ:8502 UNIPROT:Q99569, GENECARDS:GC02P159313</p> <p>desmoplakin</p> <p>HUGO:DSP, HGNC:3052, ENTREZ:1832, UNIPROT:P15924, GENECARDS:GC06P007541  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>PMID:19955337</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Desmocolin1 binding partners*"/> <bbox w="193.0" h="21.0" x="1709.5" y="16718.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa11_wca1_wca2_csa11" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKK3:KRM*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re27:(MAP:survival) PMID:20370576</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa11_wca1_wca2_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20370576"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK3:KRM*"/> <bbox w="60.0" h="120.0" x="23796.06" y="18430.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa68_wca1_wca2_sa68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kringle containing transmembrane protein 1</p> <p>HUGO:KREMEN1 HGNC:17550 ENTREZ:83999 UNIPROT:Q96MU8 GENECARDS:KREMEN1 KEGG:83999 WIKI:KREMEN1 </p> <p>kringle containing transmembrane protein 2</p> <p>HUGO:KREMEN2 HGNC:18797 ENTREZ:79412 UNIPROT:Q8NCW0 GENECARDS:KREMEN2 KEGG:79412 WIKI:KREMEN2</p> <p>Map modules:</p> </body> </html> </notes> <label text="KRM*"/> <bbox w="35.0" h="60.0" x="23808.56" y="18470.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa67_wca1_wca2_sa67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dickkopf 3 homolog (Xenopus laevis)</p> <p>HUGO:DKK3 HGNC:2893 ENTREZ:27122 UNIPROT:Q9UBP4 GENECARDS:DKK3 KEGG:27122 ATLASONC:GC_DKK3 WIKI:DKK3 </p> <p>"dickkopf (Xenopus laevis) homolog 3"</p> <p>Map modules:</p> </body> </html> </notes> <label text="DKK3"/> <bbox w="40.0" h="20.0" x="23806.06" y="18450.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa18_ce_csa18" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MSH2:MSH3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="MSH2/MSH3"/> <bbox w="110.0" h="113.0" x="11677.473" y="15681.356"/> <glyph class="macromolecule" id="s_id_ce_sa468_ce_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 3 (E. coli)</p> <p>HUGO:MSH3, HGNC:7326, ENTREZ:4437, UNIPROT:P20585</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:SSA</p> <p>References:</p> <p>PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH3"/> <bbox w="80.0" h="40.0" x="11693.473" y="15736.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa469_ce_sa469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) </p> <p>HUGO:MSH2, HGNC:7325, ENTREZ:4436, UNIPROT:P43246</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR , MODULE:BER, MODULE:SSA</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:19847258, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH2"/> <bbox w="80.0" h="40.0" x="11693.973" y="15694.356"/> <glyph class="state variable" id="_761a6e33-d8a5-4deb-be56-6aa979780cdb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11688.973" y="15709.356"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa28_mo_sa28" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>forkhead box O3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa28_mo_sa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO*"/> <bbox w="80.0" h="40.0" x="3235.0" y="9792.5"/> <glyph class="state variable" id="_0d9e6607-fdfc-48c2-9167-8447b01adabc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3286.5686" y="9787.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa468_in_sa468" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ZAP70"/> <bbox w="80.0" h="40.0" x="20265.0" y="2500.0"/> <glyph class="state variable" id="_e3617867-393c-4f97-a42d-86e1761e6d38"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20260.0" y="2515.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa355_rc_csa355" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NFKB1_p50*:NFKBIA:RELA</p> </body> </html> </notes> <label text="RELA:p50"/> <bbox w="97.0" h="167.0" x="23240.56" y="10385.5"/> <glyph class="macromolecule" id="s_id_rc_sa3307_rc_sa3307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, alpha</p> <p>HUGO:NFKBIA HGNC:7797 ENTREZ:4792 UNIPROT:P25963</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> <p>synonym:I_kappa_B-_alpha_</p> </body> </html> </notes> <label text="NFKBIA"/> <bbox w="80.0" h="40.0" x="23249.56" y="10397.5"/> <glyph class="state variable" id="_8a2c255f-2c79-4953-b184-2855ad023c0a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23301.129" y="10392.5"/> </glyph> <glyph class="state variable" id="_0f4e1c65-8f5d-4d80-9b84-10f8b3b79425"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23267.992" y="10392.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3308_rc_sa3308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-rel reticuloendotheliosis viral oncogene homolog A (avian)</p> <p>HUGO:RELA HGNC:9955 ENTREZ:5970 UNIPROT:Q04206</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="23249.133" y="10485.98"/> <glyph class="state variable" id="_3abcf908-c754-432f-a7f5-a458da297079"> <state value="" variable="T254"/> <bbox w="30.0" h="10.0" x="23290.055" y="10520.98"/> </glyph> <glyph class="state variable" id="_3faee1b6-6db2-4640-9eb0-92c69a74285a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23267.564" y="10520.98"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3309_rc_sa3309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of kappa light polypeptide gene enhancer in B-cells 1</p> <p>HUGO:NFKB1 HGNC:7794 ENTREZ:4790 UNIPROT:P19838</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:RCD_GENES, MODULE:TNF_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="23249.883" y="10441.98"/> <glyph class="unit of information" id="_7fbd73e6-9594-40a2-8532-ec2e5f2bc927"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="23264.883" y="10436.98"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa346_ce_sa346" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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h="25.0" x="19501.31" y="14516.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa951_ad_sa951" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12215447 </p> <p>The long form of FLIP c-FLIP(L) is an activator of caspase-8.</p> <p>FLIPL induces processing of caspase-8. 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collagen cross-linking enzymes40 that influence tumor progression41 and metastasis.LOXL1 expression in CAFS is correlated with a11 expression and probably is regulated by this pathway. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:INTEGRINPMID:26148229LOX family oxidases (LOX and LOXL 1–4) are collagen cross-linking enzymes40 that influence tumor progression41 and metastasis.LOXL1 expression in CAFS is correlated with a11 expression and probably is regulated by this pathway. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:27833036</p> <p>CAFs secrete large amounts of ketone bodies which are then re-utilized by tumor cells for anabolic metabolism or OXPHOS like lactat</p> <p>PMID:23082722</p> <p>Coculture with fibroblasts overexpressing BDH1 or HMGCS2 increases the cancer cell </p> <p>population. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PTGER2"/> <bbox w="80.0" h="50.0" x="13150.0" y="1750.0"/> <glyph class="unit of information" id="_f53a18d0-2e10-40e9-a837-e2c69563d996"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13167.5" y="1745.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa264_mo_sa264" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Stathmins family</p> <p>Stathmin 1</p> <p>Stathmin 2</p> <p>Stathmin 3</p> <p>Stathmin 4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa264_mo_sa264"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Stathmin*"/> <bbox w="80.0" h="40.0" x="5407.0" y="11554.0"/> <glyph class="state variable" id="_39a5c57e-3574-41e1-8b57-b87a6f6f5600"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5458.5684" y="11549.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa24_in_sa24" compartmentRef="s_id_in_ca16_in_ca16"> <label text="CANX"/> <clone/> <bbox w="80.0" h="40.0" x="22980.176" y="6793.972"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa24_in_sa102" compartmentRef="s_id_in_ca16_in_ca16"> <label text="CANX"/> <clone/> <bbox w="80.0" h="40.0" x="23223.125" y="6737.5"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc2_sa42_wnc1_wnc2_sa42" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>MOMP=mitochondrial outer membrane permeabilisation.</p> <p>PMID:20709625</p> <p>s_wnc2_re17:(MAP:survival) PMID:21738214</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa42_wnc1_wnc2_sa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20709625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21738214"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MOMP"/> <bbox w="80.0" h="30.0" x="17654.06" y="18807.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa17_ce_csa17" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MLH1:PMS1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="MLH1/PMS1"/> <bbox w="114.0" h="117.0" x="11676.473" y="15931.356"/> <glyph class="macromolecule" id="s_id_ce_sa466_ce_sa466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)</p> <p>HUGO:MLH1, HGNC:7127, ENTREZ:4292, UNIPROT:P40692</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MLH1"/> <bbox w="80.0" h="40.0" x="11692.973" y="15941.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa467_ce_sa467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMS1 postmeiotic segregation increased 1 (S. cerevisiae)</p> <p>HUGO:PMS1, HGNC:9121, ENTREZ:5378, UNIPROT:P54277</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> <p>References:</p> <p>PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="PMS1"/> <bbox w="80.0" h="40.0" x="11691.473" y="15984.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa284_in_csa284" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa284_in_csa284"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10753833"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s2297"/> <bbox w="100.0" h="120.0" x="17745.0" y="4725.0"/> <glyph class="macromolecule" id="s_id_in_sa2076_in_sa2076"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GATA1"/> <bbox w="80.0" h="40.0" x="17755.0" y="4735.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2077_in_sa2077"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SPI1"/> <bbox w="80.0" h="40.0" x="17755.0" y="4775.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa531_rc_csa531" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FTH1:FTL:Fe2+</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa531_rc_csa531"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ferritin*:Fe2+"/> <bbox w="100.0" h="150.0" x="27469.06" y="9414.0"/> <glyph class="macromolecule" id="s_id_rc_sa5269_rc_sa5269"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ferritin, heavy polypeptide 1</p> <p>HUGO:FTH1 HGNC:3976 ENTREZ:2495 UNIPROT:P02794</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS, MODULE:AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:17603935</p> <p>Ferritin is an iron storage protein and its concentration is inversely related to the level of Labile Iron Pool.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FTH1"/> <bbox w="80.0" h="40.0" x="27479.06" y="9494.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5267_rc_sa5267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Fe2+"/> <bbox w="25.0" h="25.0" x="27496.56" y="9421.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5268_rc_sa5268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ferritin, light polypeptide</p> <p>HUGO:FTL HGNC:3999 ENTREZ:2512 UNIPROT:P02792</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS, MODULE:AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FTL"/> <bbox w="80.0" h="40.0" x="27479.06" y="9454.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa142_emtc_em_csa142" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:LAP*:SNAI2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22370643</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa142_emtc_em_csa142"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370643"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR1-1/SNAI2"/> <bbox w="80.0" h="60.0" x="3587.5" y="17981.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1814_emtc_em_sa1814"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>snail homolog 2 </p> <p>HUGO:SNAI2, HGNC:11094, ENTREZ:6591, GENECARDS:GC08M049830</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22370643</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="SNAI2"/> <bbox w="60.0" h="20.0" x="3596.385" y="18003.115"/> <glyph class="unit of information" id="_383b6922-423c-427e-be8e-b14be19aef57"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3616.385" y="17998.115"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa778_emtc_em_sa778"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 1-1</p> <p>HUGO:MIR1-1, HGNC:31499, ENTREZ:406904, GENECARDS:GC20P061153</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22370643</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR1-1"/> <bbox w="75.0" h="20.0" x="3591.5" y="17982.0"/> <glyph class="unit of information" id="_bce5cb9a-36e5-48bb-9883-a08f2cd6decf"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3614.0" y="17977.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1768_rc_sa1768" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1768_rc_sa1768"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPP1C*"/> <clone/> <bbox w="80.0" h="40.0" x="20289.06" y="11509.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1768_emtc_em_sa1756" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1768_emtc_em_sa1756"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1CC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PPP1C*"/> <clone/> <bbox w="45.0" h="18.0" x="1691.0" y="16146.5"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1384_emtc_em_sa1384" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="G0 phase"/> <bbox w="80.0" h="20.0" x="3545.0" y="13617.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa67_wca1_wca4_sa67" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa67_wca1_wca4_sa67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT2B"/> <bbox w="90.0" h="25.0" x="23469.56" y="21757.5"/> <glyph class="unit of information" id="_b530672d-00fe-4d1b-baa5-ce89eb54eba8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23504.56" y="21752.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2179_rc_sa2179" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15380 KEGGCOMPOUND:C00091 CAS:604-98-8</p> </body> </html> </notes> <label text="succinyl-CoA"/> <bbox w="70.0" h="25.0" x="18625.787" y="12818.146"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa42_akt1_akt2_csa42" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO1:MIR27A</p> <p>References:</p> <p>s_akt2_re132:(MAP:survival) PMID:19574223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa42_akt1_akt2_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1:MIR27A"/> <bbox w="100.0" h="120.0" x="12536.561" y="21802.0"/> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa256_akt1_akt2_sa256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15668399</p> <p>PMID:20673124</p> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1</p> <p>Map modules:</p> <p>References:</p> <p>PMID:15668399</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="90.0" h="25.0" x="12544.061" y="21851.0"/> <glyph class="unit of information" id="_b7bdc57a-0ed1-4779-bdb0-0143f5dc0376"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12579.061" y="21846.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa253_akt1_akt2_sa253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 27a</p> <p>HUGO:MIR27A HGNC:31613 ENTREZ:407018 GENECARDS:MIR27A KEGG:407018 ATLASONC:MIR27AID50398ch19p13 WIKI:MIR27A</p> <p>References:</p> <p>PMID:19574223</p> <p>microRNA 27a</p> <p>HUGO:MIR27A HGNC:31613 ENTREZ:407018 GENECARDS:MIR27A KEGG:407018 ATLASONC:MIR27AID50398ch19p13 WIKI:MIR27A</p> <p>References:</p> </body> </html> </notes> <label text="MIR27A"/> <bbox w="90.0" h="25.0" x="12541.061" y="21819.0"/> <glyph class="unit of information" id="_4a69e6bf-f0ba-41ac-a214-cc0e81683422"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="12571.061" y="21814.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa435_akt1_akt1_sa435" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa435_akt1_akt1_sa435"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="13582.061" y="18547.0"/> </glyph> <glyph class="complex" id="s_id_in_csa250_in_csa250" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa250_in_csa250"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20510870"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4_receptor_TYPE1"/> <bbox w="190.0" h="176.0" x="23780.0" y="4912.25"/> <glyph class="macromolecule" id="s_id_in_sa1890_in_sa1890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4"/> <bbox w="80.0" h="40.0" x="23790.0" y="4927.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1887_in_sa1887"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="23880.0" y="5015.0"/> <glyph class="state variable" id="_1117f89b-1842-47e1-a044-fe56329f7e35"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23875.0" y="5030.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1889_in_sa1889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK3"/> <bbox w="80.0" h="40.0" x="23876.0" y="4925.75"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1891_in_sa1891"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="23790.0" y="5010.0"/> <glyph class="state variable" id="_34c6959c-2f08-4047-a56b-e77f97d252a6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23865.0" y="5044.389"/> </glyph> <glyph class="unit of information" id="_9126e6b2-e4e6-4985-bf46-3c23b930e4f0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23807.5" y="5005.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1892_in_sa1892"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL2RG"/> <bbox w="80.0" h="50.0" x="23780.0" y="4960.0"/> <glyph class="unit of information" id="_a51abd27-e8e4-4c6f-81b7-9940b0097ef2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23797.5" y="4955.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1888_in_sa1888"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="23870.0" y="4975.0"/> <glyph class="state variable" id="_46647412-c186-4bce-babf-76fce3aef855"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23862.5" y="4990.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa137_gf1_sa137" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:17883421 </p> <p>Activated Vegfr2/kdr Pathway In Tumour Cells And Tumour Associated Vessels Of Colorectal Cancer</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa137_gf1_sa137"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17883421"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KDR"/> <bbox w="80.0" h="50.0" x="10925.561" y="17824.5"/> <glyph class="unit of information" id="_9d3e7fac-278b-4d1a-b7bb-16599ca19a26"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10943.061" y="17819.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa20_wca1_wca2_sa20" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa20_wca1_wca2_sa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNKS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNKS1*"/> <bbox w="80.0" h="40.0" x="24666.06" y="18582.0"/> <glyph class="state variable" id="_21954386-0f74-4ee5-843b-c37beeacfcf7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24661.064" y="18577.0"/> </glyph> <glyph class="state variable" id="_d381601c-7a68-467d-9845-75d58afa0119"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24741.06" y="18577.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2631_in_sa2631" compartmentRef="s_id_in_ca12_in_ca12"> <label text="LTB"/> <bbox w="70.0" h="25.0" x="15739.375" y="7316.25"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa883_ca_sa883" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:21178402</p> <p>Activation of LIMK by ROCK has been linked to the phosphoregulation of ADF/cofilin.52,54–56 ADF/cofilin has been shown to be one of the key regulators of actin severing, nucleation and capping within the protrusive machinery</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa883_ca_sa883"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIMK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21178402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIMK1"/> <bbox w="80.0" h="40.0" x="6700.0" y="4000.0"/> <glyph class="state variable" id="_8ca6d048-8d95-43e9-84c8-5c99f70710ed"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="6692.5" y="4015.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa25_wca1_wca3_sa25" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_CANONICALs_wca3_re7(MAP:survival):The transcription complex containing P300 initiates transcription of genes that are involved in differentiation.PMID:20920541The repressor complex is is by default present on the enhancers of wnt-target genesPMID:16510874 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_CANONICALs_wca3_re7(MAP:survival):The transcription complex containing P300 initiates transcription of genes that are involved in differentiation.PMID:20920541The repressor complex is is by default present on the enhancers of wnt-target genesPMID:16510874 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa25_wca1_wca3_sa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20920541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20920541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gene under control of_BR_ P300-mediated transcription*"/> <bbox w="70.0" h="25.0" x="21783.06" y="22020.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa14_wnc1_wnc1_csa14" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_alpha__sub_13q_endsub_*:PLC-_beta_*:_beta_-Arrestin*</p> <p>References:</p> <p>Ca2+/Wnt MODULE</p> <p>s_wnc1_re22(MAP:survival):</p> <p>Only the Galpha_q subunit can activate PLC-beta</p> <p>PMID:11395409</p> <p>PMID:19359428</p> <p>s_wnc1_re26:(MAP:survival) PMID:16054198</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa14_wnc1_wnc1_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11395409"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19359428"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054198"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Gα13q*:PLC-β*:β-Arrestin*"/> <bbox w="95.0" h="151.0" x="14715.061" y="18136.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa98_wnc1_wnc1_sa98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin, beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>arrestin, beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2</p> <p>Map modules:</p> </body> </html> </notes> <label text="β-Arrestin*"/> <bbox w="80.0" h="40.0" x="14722.561" y="18168.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa97_wnc1_wnc1_sa97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα13q*"/> <bbox w="50.0" h="20.0" x="14737.061" y="18145.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa99_wnc1_wnc1_sa99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phospholipase C, beta 1 (phosphoinositide-specific) </p> <p>HUGO:PLCB1 HGNC:15917 ENTREZ:23236 UNIPROT:Q9NQ66 GENECARDS:PLCB1 REACTOME:61694 KEGG:23236 ATLASONC:PLCB1ID41742ch20p12 WIKI:PLCB1 </p> <p>phospholipase C, beta 2 (phosphoinositide-specific) </p> <p>HUGO:PLCB2 HGNC:9055 ENTREZ:5330 UNIPROT:Q00722 GENECARDS:PLCB2 REACTOME:61696 ATLASONC:PLCB2ID41743ch15q15 WIKI:PLCB2 </p> <p>phospholipase C, beta 3 (phosphoinositide-specific) </p> <p>HUGO:PLCB3 HGNC:9056 ENTREZ:5331 UNIPROT:Q01970 GENECARDS:PLCB3 REACTOME:61748 ATLASONC:GC_PLCB3 WIKI:PLCB3 </p> <p>phospholipase C, beta 4 (phosphoinositide-specific) </p> <p>HUGO:PLCB4 HGNC:9059 ENTREZ:5332 UNIPROT:Q15147 GENECARDS:PLCB4 REACTOME:61698 KEGG:5332 ATLASONC:GC_PLCB4 WIKI:PLCB4</p> <p>Map modules:</p> </body> </html> </notes> <label text="PLC-β*"/> <bbox w="80.0" h="40.0" x="14722.561" y="18209.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa183_mo_sa183" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0potassium calcium-activated channel subfamily N member 4 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0potassium calcium-activated channel subfamily N member 4 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa183_mo_sa183"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNN4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KCNN4"/> <bbox w="90.0" h="25.0" x="2628.625" y="10569.375"/> <glyph class="unit of information" id="_fe51279f-0157-45d8-b1ba-c440c35407b8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2663.625" y="10564.375"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa131_ad_csa131" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Vav proteins and the regulation of the cytoskeleton</p> <p>In view of the well-established role for Rho-family GTPases in controlling the actin cytoskeleton [51], it has been proposed that by virtue of being Rho-family GEFs, Vav proteins might transduce TCR signals leading to the reorganisation of the cytoskeleton [52]. When a T cell interacts with an antigen-presenting cell (APC), several events occur that require cytoskeletal rearrangements. TCR triggering by peptide–MHC complexes on the APC results in the activation of the integrin lymphocyte function-associated antigen-1 (LFA-1) which then binds to ICAM-1 on the APC leading to the formation of a stable T cell–APC conjugate [53]. This activation of LFA-1 is caused in part by clustering of the integrin leading to high avidity binding of its ligand; cytoskeletal changes are required for this clustering. When a conjugate forms, an ordered array of proteins termed an immunological synapse (IS) is assembled at the interface, characterised by a central accumulation of TCR molecules surrounded by a ring of LFA-1 [54]. Again, this movement of proteins requires actin rearrangements. Finally, the T cell becomes polarised, as exemplified by movement of the microtubule organising centre (MTOC) to face the APC [55]. In support of the proposal that Vav1 can regulate the cytoskeleton, several of the above processes have been found to be Vav1-dependent.</p> <p>Vav1 transduces TCR inside-out signals, leading to the activation of LFA-1 such that, in the absence of Vav1, T cells and thymocytes are inefficient at forming antigen-specific conjugates with APCs [56,57•]. Furthermore, this defect is probably due to a failure to cluster LFA-1, possibly caused by a failure to rearrange the actin cytoskeleton, although there is no direct evidence for this. Antigen-induced clustering of the TCR and of lipid rafts at the centre of the synapse is also defective in Vav1-deficient T cells [58,59]. However, another study found no defect in TCR clustering in Vav1-deficient T cells [57•]. The difference in these results remains unclear, but probably relates to technical differences in the assays used. Finally, antigen-induced polarisation of the MTOC was defective in Vav1-deficient DP thymocytes [57•]. In contrast to the requirement for Vav1 for inside-out activation of LFA-1, TCR clustering and cell polarisation, the characteristic cell shape changes that occur following conjugate formation are unaffected by Vav1 deficiency, demonstrating that Vav1 transduces signals selectively to some but not all cytoskeletal rearrangements [57•].</p> <p>Although Vav1 transduces TCR signals to several cell biological processes known to require rearrangement of the cytoskeleton, the precise pathways by which it does so are not known. Just because Vav1 is a Rho-family GEF, it does not follow that Vav1 necessarily contributes to these pathways by controlling remodelling of the actin cytoskeleton. For example, the inside-out activation of LFA-1 has been shown to require a calcium-dependent protease [60], and thus the defective LFA-1 activation in Vav1-deficient T cells might be secondary to the defect in calcium flux. Nonetheless, several recent studies have suggested mechanisms by which Vav1 might control the cytoskeleton.</p> <p>WASP</p> <p>When activated, Wiskott-Aldrich syndrome protein (WASP) binds to and activates the actin nucleation complex Arp2/3. Antigen stimulation of T cells leads to the recruitment of WASP to the IS through binding to the adapters Nck and SLP-76, where it is then activated by Cdc42-GTP [61•]. Vav1 is also recruited to SLP-76 adaptor following TCR stimulation, and so is co-localised with WASP. In Vav1-deficient T cells, the recruitment of WASP to the immunological synapse is unaffected, but its activation is greatly reduced, as is the accumulation of active Cdc42-GTP [61•]. Taken together, this suggests that Vav1 might transduce TCR signals via Cdc42 and WASP to Arp2/3 and, hence, actin polymerisation.</p> <p>ERM</p> <p>Ezrin/Radixin/Moesin (ERM) proteins form crosslinks between the cortical actin cytoskeleton and the plasma membrane and thereby contribute to cell rigidity. TCR stimulation leads to the dephosphorylation and hence inactivation of ERM proteins, resulting in less rigidity [62]. This may be important in enabling the T cell to deform while forming a conjugate with an APC. In Vav1-deficient T cells, or in T cells expressing dominant negative Rac1, TCR-induced dephosphorylation of ERM is greatly reduced, suggesting the existence of a Vav1/Rac1 pathway which transduces TCR signals to the inactivation of ERM proteins [63•].</p> </body> </html> </notes> <label text="ad_s5388"/> <bbox w="100.0" h="120.0" x="29508.5" y="6060.0"/> <glyph class="macromolecule" id="s_id_ad_sa1074_ad_sa1074"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:DNM2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:15696170</p> <p>Dynamin 2 regulates T cell activation by controlling actin polymerization at the immunological synapse</p> </body> </html> </notes> <label text="DNM2"/> <bbox w="80.0" h="40.0" x="29518.5" y="6120.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1075_ad_sa1075"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:CD226</p> <p>HUGO:VAV1</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10714681</p> <p> PKCθ is regulated by Vav1, a guanine nucleotide exchange factor for Rac and Cdc42 that plays an important role in T cell development and activation46. Thus, a dominant negative PKCθ mutant blocked a number of growth signals, which are normally induced by overexpression of Vav1, namely, activation of JNK, the IL-2 gene promoter and NFAT or AP-1 reporter genes. Conversely, a dominant negative Vav1 mutant did not significantly inhibit the same signaling events induced by a constitutively active PKCθ mutant46, tentatively placing PKCθ downstream of Vav1 in these growth signaling pathways.</p> <p>Vav promoted PKCθ translocation from the cytosol to the membrane and cytoskeleton and induced its enzymatic activation in a CD3/CD28-initiated pathway that was dependent on Rac and on actin cytoskeleton reorganization. These findings reveal that the Vav/Rac pathway promotes the recruitment of PKCθ to the T cell synapse and its activation, essential processes for T cell activation and IL-2 production.</p> <p>PMID:25539813 </p> <p>Vav1 is the linker molecule that couples the C-terminal proline-rich motif of CD28 to the recruitment and activation of PIP5Kα, which in turn cooperates with Vav1 in regulating actin polymerization and CD28 signaling functions.</p> <p>PMID:12186560</p> <p>Phosphorylation of the linker for activation of T-cells by Itk promotes recruitment of Vav.</p> <p>PMID:11754814</p> <p>CD28 signaling is dependent on VAV/SLP-76 complex formation and induces membrane localization of these complexes. </p> <p>PMID:10849438; PMID:10077632 ;PMID:9438848</p> <p>Tyr174 of Vav is thought to be the site of phosphorylation by Lck that regulates Vav function </p> <p>Tyrosine-phosphorylated Vav1 as a Point of Integration for T-cell Receptor- and CD28-mediated Activation of JNK, p38, and Interleukin-2 Transcription</p> <p>Vav1 is phosphorylated probably by Lck.</p> <p>The Rho-family GTP exchange factor Vav is a critical transducer of T cell receptor signals to the calcium, ERK, and NF-κB pathways</p> <p>PMID:10898494</p> <p>Vav-induced NFAT activation involves a MEK/ERK pathway</p> <p>3 Vav functions upstream of Ras in the NFAT activation pathway</p> <p>Ras function is required for Vav-induced ERK activation</p> <p>Vav up-regulates the expression of CD69 via</p> <p>a Ras-dependent, but Rac-independent,</p> <p>PMID:14764585 </p> <p>Vav1 Transduces T Cell Receptor Signals to the Activation of the Ras/ERK Pathway via LAT, Sos, and RasGRP1*</p> <p>pathway.</p> <p>Vav1 Transduces TCR Signals to Ras and ERK via PLC and DAG</p> <p>Defective TCR-induced DAG Production in Vav1-deficient Cells</p> <p>Defective phosphorylation of PKCθ and PKD in Vav1–/– thymocytes.</p> <p>Vav1 Is Required for TCR-induced Translocation of Ras-GRP1</p> <p>in Vav1–/– cells, whereasGrb2 was constitutively associated with Sos1 and Sos2, there was very little or no inducible association with LAT.</p> <p>Taken together these results show that in Vav1-deficient cells there is a failure to form a LAT-Grb2-Sos complex following TCR stimulation, probably because of reduced phosphorylation of key tyrosine residues on LAT. 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h="40.0" x="5640.0" y="4700.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa22_wca1_wca2_csa22" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1*:LRP6:TMEM198</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>TMEM198 can aggegrate multiple LRP6 molecules in signalosome-like structures and recrute CK1 family members</p> <p>PMID:21536646</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa22_wca1_wca2_csa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21536646"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Signalosome-like"/> <bbox w="106.0" h="278.0" x="23142.06" y="19502.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa147_wca1_wca2_sa146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="23157.56" y="19558.0"/> <glyph class="state variable" 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ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1 </p> <p>P48729</p> <p>casein kinase 1 delta</p> <p>HUGO:CSNK1D HGNC:2452 ENTREZ:1453 UNIPROT:P48730 GENECARDS:CSNK1D REACTOME:57869 KEGG:1453 ATLASONC:GC_CSNK1D WIKI:CSNK1D </p> <p>P48730</p> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E </p> <p>P49674</p> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>Q9HCP0</p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>P78368</p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3 </p> <p>Q9Y6M4</p> <p>casein kinase 1 epsiHUGO:CSNK1E HGNC:2453 ENTREZ:1454 P49674</p> <p>Map 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transmembrane protein 198</p> <p>HUGO:TMEM198 HGNC:33704 ENTREZ:130612 UNIPROT:Q66K66 GENECARDS:TMEM198 KEGG:130612 WIKI:TMEM198</p> <p>Map modules:</p> </body> </html> </notes> <label text="TMEM198"/> <bbox w="80.0" h="40.0" x="23157.56" y="19609.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa147_wca1_wca2_sa147"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="LRP6"/> <bbox w="80.0" h="50.0" x="23157.56" y="19651.0"/> <glyph class="state variable" id="_1d003354-89c3-4a15-affe-a94463d09858"> <state value="" 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PROK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EG-VEGF*"/> <bbox w="60.0" h="20.0" x="5063.0" y="17342.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa203_emtc_em_csa203" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA1_3_4_8_GJB2*:GJA3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA3 is so-called Connexin 46</p> <p>PMID:8188753</p> <p>Heterotypic channels composed of Cx46 (GJA3) paired with either Cx43 (GJA1) or Cx50 (GJA8) were also well coupled</p> <p>Cx50 (GJA8) did not form functional channels with Cx43 (GJA1). </p> <p>GJA8 is so-called Connexin 50</p> <p>PMID:19646399</p> <p>Connexins 46 and 50 combine to form the gap junctions in ocular lens fiber cells</p> <p>18 phosphorylation sites on connexin 50 (GJA8) and 9 phosphorylation sites on connexin 46 (GJA3) were identified, all on serine or threonine residues.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa203_emtc_em_csa203"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8188753"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19646399"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJA3/GJA1_3_4_8_GJB2*"/> <bbox w="160.0" h="40.0" x="1021.0" y="17672.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1360_emtc_em_sa1360"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GJA1_3_4_8_GJB2*</p> <p>gap junction protein, alpha 3, 46kDa</p> <p>HUGO:GJA3, HGNC:4277, ENTREZ:2700 , UNIPROT:Q9Y6H8, GENECARDS:GC13M020712 </p> <p>gap junction protein, alpha 1, 43kDa</p> <p>HUGO:GJA1, HGNC:4274, ENTREZ:2697, UNIPROT:P17302, GENECARDS:GC06P121756 </p> <p>gap junction protein, alpha 4, 37kDa</p> <p>HUGO:GJA4, HGNC:4278, ENTREZ:2701 , UNIPROT:P35212, GENECARDS:GC01P035258 </p> <p>gap junction protein, alpha 8, 50kDa</p> <p>HUGO:GJA8, HGNC:4281, ENTREZ:2703, UNIPROT:P48165, GENECARDS:GC01P147374</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA3 is so-called Connexin 46</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA1_3_4_8_GJB2*"/> <bbox w="120.0" h="20.0" x="1021.0" y="17674.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1301_emtc_em_sa1301"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 3, 46kDa</p> <p>HUGO:GJA3, HGNC:4277, ENTREZ:2700 , UNIPROT:Q9Y6H8, GENECARDS:GC13M020712  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA3 is so-called Connexin 46</p> <p>PMID:19646399</p> <p>Connexins 46 and 50 combine to form the gap junctions in ocular lens fiber cells</p> <p>18 phosphorylation sites on connexin 50 (GJA8) and 9 phosphorylation sites on connexin 46 (GJA3) were identified, all on serine or threonine residues.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA3"/> <bbox w="39.0" h="16.0" x="1140.6" y="17677.5"/> <glyph class="state variable" id="_7cfaaa7b-83c1-42f6-bf65-f047158450f1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1174.6" y="17673.34"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa453_emtc_em_sa453" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa325_mo_sa325"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHOA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHOA"/> <bbox w="90.0" h="25.0" x="6009.0" y="10351.5"/> <glyph class="unit of information" id="_34fb66b1-1950-4cbf-90d8-cd95e7ac37aa"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="6044.0" y="10346.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa146_rc_sa146" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:17552 KEGGCOMPOUND:C00035</p> <p>References:</p> <p>146-91-8</p> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="18171.81" y="14689.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4856_rc_sa4856" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4856_rc_sa4856"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNFRSF10A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DR4*"/> <bbox w="70.0" h="25.0" x="26466.326" y="16131.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa180_ce_sa180" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa180_ce_sa180"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SHFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DSS1*"/> <bbox w="80.0" h="40.0" x="15092.444" y="15925.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2096_rc_sa2096" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2096_rc_sa2096"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RRM2B"/> <bbox w="90.0" h="25.0" x="21223.06" y="16040.5"/> <glyph class="unit of information" id="_e9347898-a83d-4a3e-8544-732c46cc7ba5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21258.06" y="16035.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa511_ca_sa511" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa511_ca_sa511"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FKBP1A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FKBP1A"/> <bbox w="80.0" h="40.0" x="3570.0" y="1060.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa48_wnc1_wnc1_csa48" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PAR6*:PRICKLE1:RACK1*:VANGL*</p> <p>References:</p> <p>s_wnc1_re85(MAP:survival):</p> <p>Prickle interacts physically with Vangl</p> <p>PMID:22037766 </p> <p>PMID:12941693</p> <p>Par6 is constitutively associated with Dvl</p> <p>PMID:19379695</p> <p>s_wnc1_re62(MAP:survival):</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa48_wnc1_wnc1_csa48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22037766"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12941693"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR6*:PRICKLE1:RACK1*:VANGL*"/> <bbox w="256.0" h="117.0" x="16960.06" y="18667.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa399_wnc1_wnc1_sa399"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16963.56" y="18678.0"/> <glyph class="state variable" id="_80a972d0-8afe-47e6-9b84-4a6734a9794c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17036.06" y="18673.0"/> </glyph> <glyph class="state variable" id="_2a58977f-90e6-426f-b6a7-4dd23546b0e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16958.564" y="18673.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa403_wnc1_wnc1_sa403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16963.06" y="18723.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa303_wnc1_wnc1_sa303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="17126.06" y="18679.0"/> <glyph class="state variable" id="_ea14e5e9-a937-42c4-85a3-7e46518b759d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17121.064" y="18674.0"/> </glyph> <glyph class="state variable" id="_42020094-f550-4e11-9b81-5bdfabf881d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17201.06" y="18674.0"/> </glyph> <glyph class="state variable" id="_b2666a03-f568-401d-a9cb-208f3a276ee0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17201.06" y="18699.0"/> </glyph> <glyph class="state variable" id="_954a8463-8570-4f32-8fbf-fc0a7d78733a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17121.06" y="18699.0"/> </glyph> <glyph class="unit of information" id="_4dd6d297-fc1b-477c-96bb-af18089bbeb1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17143.56" y="18674.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa306_wnc1_wnc1_sa306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="17044.56" y="18679.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa734_ad_sa734" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:27242793</p> <p>Phosphatidylinositol 4-Phosphate 5-Kinases in the Regulation of T Cell Activation.</p> <p>Following engagement by B7, human CD28 binds Vav1 that in turn favors the recruitment of PIP5Kα and PIP5Kβ. PIP5Kα generates PIP2 that favors the recruitment of the WASP/Cdc42/ARP2/3 complex, which, in turn, promotes actin polymerization. PIP5Kβ mediates the recruitment of filamin-A (FLN-A) and lipid rafts to the T:APC contact zone. (B) Upon TCR recognition of peptide–MHC complexes presented on the surface of APCs, Lck and Fyn phosphorylate CD3 and ζ chains, which bind ZAP-70. ZAP-70 phosphorylates LAT that in turn binds PLC-γ1. CD28 mediates the recruitment of Vav-associated PIP5Kα that generates PIP2. PLC-γ1 hydrolyzes PIP2 in IP3 and DAG. IP3 induces the activation of Ca2+/calcineurin (CN) and NF-AT. CD28 also binds class 1A PI3K that phosphorylates PIP2 and generates PIP3 that favors the recruitment and activation of Akt. Akt cooperates with DAG to activate PKCθ/CARMA1/Bcl10/MALT1 complex and NF-κB.</p> <p>PMID:25539813 </p> <p>Vav1 is the linker molecule that couples the C-terminal proline-rich motif of CD28 to the recruitment and activation of PIP5Kα, which in turn cooperates with Vav1 in regulating actin polymerization and CD28 signaling functions.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa734_ad_sa734"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27242793"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25539813"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP5K1*"/> <clone/> <bbox w="80.0" h="40.0" x="29446.0" y="3890.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa734_ad_sa735" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:27242793</p> <p>Phosphatidylinositol 4-Phosphate 5-Kinases in the Regulation of T Cell Activation.</p> <p>Following engagement by B7, human CD28 binds Vav1 that in turn favors the recruitment of PIP5Kα and PIP5Kβ. PIP5Kα generates PIP2 that favors the recruitment of the WASP/Cdc42/ARP2/3 complex, which, in turn, promotes actin polymerization. PIP5Kβ mediates the recruitment of filamin-A (FLN-A) and lipid rafts to the T:APC contact zone. (B) Upon TCR recognition of peptide–MHC complexes presented on the surface of APCs, Lck and Fyn phosphorylate CD3 and ζ chains, which bind ZAP-70. ZAP-70 phosphorylates LAT that in turn binds PLC-γ1. CD28 mediates the recruitment of Vav-associated PIP5Kα that generates PIP2. PLC-γ1 hydrolyzes PIP2 in IP3 and DAG. IP3 induces the activation of Ca2+/calcineurin (CN) and NF-AT. CD28 also binds class 1A PI3K that phosphorylates PIP2 and generates PIP3 that favors the recruitment and activation of Akt. Akt cooperates with DAG to activate PKCθ/CARMA1/Bcl10/MALT1 complex and NF-κB.</p> <p>PMID:25539813 </p> <p>Vav1 is the linker molecule that couples the C-terminal proline-rich motif of CD28 to the recruitment and activation of PIP5Kα, which in turn cooperates with Vav1 in regulating actin polymerization and CD28 signaling functions.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa734_ad_sa735"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIP5K1C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27242793"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25539813"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP5K1*"/> <clone/> <bbox w="80.0" h="40.0" x="29446.0" y="3800.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa74_mpk1_mpk1_csa74" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RIPK1:TNFRSF1A:TRADD:TRAF2</p> </body> </html> </notes> <label text="RIPK1:TNFRSF1A:TRADD:TRAF2"/> <bbox w="216.0" h="85.0" x="9889.057" y="19164.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa437_mpk1_mpk1_sa437"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="9947.557" y="19197.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa436_mpk1_mpk1_sa436"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="50.0" h="25.0" x="10010.557" y="19172.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa593_mpk1_mpk1_sa593"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1A</p> <p>TNFR1</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="9939.515" y="19173.0"/> <glyph class="unit of information" id="_6ce95f34-e935-4533-86a3-e6bb97d8251b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9952.015" y="19168.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa438_mpk1_mpk1_sa438"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TNF treatment is thought to result in the formation of a TRADD-RIP-TRAF2 complex at the membrane.</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="50.0" h="25.0" x="9997.557" y="19197.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3994_rc_sa3994" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3994_rc_sa3994"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPN13"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTPN13"/> <bbox w="80.0" h="40.0" x="25569.06" y="9309.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1106_ad_sa1106" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:IL2, CASCADE:IL12, CASCADE:IL18MODULE:TCR_SIGNALING, MODULE:TH1PMID:7681987GADD45G was induced by IL-2 in a T cell line, which suggested a role in T cell activationPMID:11371360GADD45G was highly expressed in TH1 versus TH2 cellsp38 kinase activity was induced when TH1 cells were activated by α-CD3 antibody. However, it was not induced in GADD45γ−/− TH1 effector cellsGADD45γ protein therefore mediates TCR-stimulated p38 MAP kinase activation in TH1 effector cells.JNK activity was induced in wild-type TH1 effector cells upon α-CD3 antibody treatment, it was not induced in GADD45γ−/− TH1 effector cells (Figure 4B). Therefore, GADD45γ is required for both p38 and JNK MAP kinase activation through TCR stimulation in TH1 effector cells.The reduction in IFN-γ secretion was the result of reduced expression of IFN-γ mRNA by GADD45γ−/− CD4+ T cells PMID:11175814 IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells. ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:IL2, CASCADE:IL12, CASCADE:IL18MODULE:TCR_SIGNALING, MODULE:TH1PMID:7681987GADD45G was induced by IL-2 in a T cell line, which suggested a role in T cell activationPMID:11371360GADD45G was highly expressed in TH1 versus TH2 cellsp38 kinase activity was induced when TH1 cells were activated by α-CD3 antibody. However, it was not induced in GADD45γ−/− TH1 effector cellsGADD45γ protein therefore mediates TCR-stimulated p38 MAP kinase activation in TH1 effector cells.JNK activity was induced in wild-type TH1 effector cells upon α-CD3 antibody treatment, it was not induced in GADD45γ−/− TH1 effector cells (Figure 4B). Therefore, GADD45γ is required for both p38 and JNK MAP kinase activation through TCR stimulation in TH1 effector cells.The reduction in IFN-γ secretion was the result of reduced expression of IFN-γ mRNA by GADD45γ−/− CD4+ T cells PMID:11175814 IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1106_ad_sa1106"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45G"/> </rdf:Bag> 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text="CK1ε*"/> <bbox w="80.0" h="40.0" x="24069.06" y="11509.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa300_an_sa300" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4037</p> <p>PMID:21378271</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa300_an_sa300"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21378271"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SYN"/> <bbox w="80.0" h="40.0" x="4332.0" y="6395.0"/> <glyph class="state variable" id="_ea08ed9a-6bbf-4185-a459-bdfdeb48c6c1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="4404.5" y="6401.716"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ce_sa1105_ce_sa1105" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="M phase exit"/> <bbox w="80.0" h="30.0" x="10823.27" y="10594.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa194_emtc_em_csa194" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Nectin*:Occludin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Nectin*/Occludin*"/> <bbox w="122.0" h="41.0" x="2229.5" y="14913.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1267_emtc_em_sa1267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>poliovirus receptor-related 1 (herpesvirus entry mediator C)</p> <p>HUGO:PVRL1, HGNC:9706, ENTREZ:5818, UNIPROT:Q15223, GENECARDS:GC11M119542  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:12354099</p> <p>Interactions between Nectin, Afadin and Occludin suggest a role of the nectin-afadin system in the organization of TJs in epithelial cells</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Nectin*"/> <bbox w="46.0" h="18.0" x="2231.0" y="14916.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1268_emtc_em_sa1268"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>occludin</p> <p>HUGO:OCLN, HGNC:8104, ENTREZ:100506658, UNIPROT:Q16625, GENECARDS:GC05P068788 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="59.0" h="16.0" x="2281.0" y="14916.0"/> <glyph class="state variable" id="_23fd46e0-e9e5-4a49-abc1-eae53fff9690"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2335.0" y="14919.025"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa20_akt1_akt2_csa20" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK2:CyclinE*</p> <p>References:</p> <p>s_akt2_re55:(MAP:survival) PMID:14536078</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa20_akt1_akt2_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK2:CyclinE*"/> <bbox w="100.0" h="120.0" x="13436.561" y="20927.5"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa122_akt1_akt2_sa122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1 HGNC:1589 ENTREZ:898 UNIPROT:P24864 GENECARDS:CCNE1 REACTOME:87225 KEGG:898 ATLASONC:GC_CCNE1 WIKI:CCNE1 </p> <p>cyclin E2</p> <p>HUGO:CCNE2 HGNC:1590 ENTREZ:9134 UNIPROT:O96020 GENECARDS:CCNE2 REACTOME:87228 KEGG:9134 ATLASONC:GC_CCNE2 WIKI:CCNE2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="13445.061" y="20933.5"/> <glyph class="state variable" id="_57d3fd3d-dcc2-47b6-87e3-474b75925a01"> <state value="P" variable="T380"/> <bbox w="35.0" h="10.0" x="13427.564" y="20928.5"/> </glyph> <glyph class="state variable" id="_4714d003-b1a8-48dd-9173-a1574cc54a63"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13440.064" y="20968.5"/> </glyph> <glyph class="state variable" id="_b94e4d12-b57f-4154-9636-1eb493a3c9ba"> <state value="" variable="S384"/> <bbox w="30.0" h="10.0" x="13510.061" y="20928.713"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa123_akt1_akt2_sa123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2 HGNC:1771 ENTREZ:1017 UNIPROT:P24941 GENECARDS:CDK2 REACTOME:87018 KEGG:1017 ATLASONC:GC_CDK2 WIKI:CDK2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:dnarepair / MODULE:S_CC_PHASE, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="13447.061" y="20975.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mpk1_mpk1_sa655_mpk1_mpk1_sa655" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa655_mpk1_mpk1_sa655"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DUSP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DUSP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DUSP1"/> <bbox w="70.0" h="25.0" x="9771.061" y="20817.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa950_ad_sa950" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR, MODULE:TCR_SIGNALING</p> <p>PMID:17462996</p> <p>Humans and mice lacking functional caspase-8 in T cells manifest a profound immunodeficiency syndrome due to defective T cell antigen receptor (TCR)-induced NF-kappaB signaling and proliferation.</p> <p>following TCR ligation, a small portion of total cellular caspase-8 and c-FLIP(L) rapidly migrate to lipid rafts where they associate in an active caspase complex. Activation of caspase-8 in lipid rafts is followed by rapid cleavage of c-FLIP(L) at a known caspase-8 cleavage site. The active caspase.c-FLIP complex forms in the absence of Fas (CD95/APO1) and associates with the NF-kappaB signaling molecules RIP1, TRAF2, and TRAF6, as well as upstream NF-kappaB regulators PKC theta, CARMA1, Bcl-10, and MALT1, which connect to the TCR.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa950_ad_sa950"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17462996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CASP8"/> <bbox w="80.0" h="40.0" x="29256.0" y="4415.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa122_mo_sa122" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa122_mo_sa122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SNAI3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Snail*"/> <bbox w="80.0" h="40.0" x="3038.0" y="10498.0"/> <glyph class="state variable" id="_66202678-0448-4362-89b7-e6b3ba1da0e4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3110.5" y="10521.284"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa58_mo_sa58" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein tyrosine phosphatase type IVA, member 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa58_mo_sa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTP4A3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTP4A3"/> <bbox w="80.0" h="40.0" x="5254.5" y="9483.0"/> <glyph class="state variable" id="_ee185ee7-6c0d-4163-91a5-a0fe5f5574c2"> <state value="P" variable="Y53"/> <bbox w="30.0" h="10.0" x="5296.0684" y="9478.0"/> </glyph> <glyph class="state variable" id="_3c5ef09e-605a-4a82-8478-1e31137224b2"> <state value="Pr" variable=""/> <bbox w="20.0" h="10.0" x="5244.5" y="9489.716"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa161_ca_sa161" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF , MODULE:CYTOKINES_CHEMOKINES_PRODUCTIONReferences:CASCADE:TGFB, CASCADE:IL1, CASCADE:PGEPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkBPMID:24857661 TGF-β1-stimulated hDF was thus assessed by quantitative real-time PCR, that disclosed a 100-fold increase of LIF and 5-fold increase of IL6 mRNA steady-state levels.PMID:8133053IL1a and TGFB induce IL6 gene expression and protein accamulation in fibroblasts. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF , MODULE:CYTOKINES_CHEMOKINES_PRODUCTIONReferences:CASCADE:TGFB, CASCADE:IL1, CASCADE:PGEPMID:23034983TGFB upregulates gene expression of CAF markers , FSP1 (S100A4), and TNC. (provably via SMAD3), and gene expression of CCL5, SDF1(CXCL12), BMP4, IL6, CXCL7, IL6R, IL6ST, CXCL5PMID:20138012PTGS2, CXCL1, and CXCL2; the proinflammatory cytokines IL-1β and IL-6, CYR61 and OPN are upregulated in CAFs,probably downstream of IL1B via NFkBPMID:24857661 TGF-β1-stimulated hDF was thus assessed by quantitative real-time PCR, that disclosed a 100-fold increase of LIF and 5-fold increase of IL6 mRNA steady-state levels.PMID:8133053IL1a and TGFB induce IL6 gene expression and protein accamulation in fibroblasts. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa161_ca_sa161"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24857661"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8133053"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24857661"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8133053"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL6"/> <bbox w="70.0" h="25.0" x="325.0" y="3168.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa323_ce_sa323" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa323_ce_sa323"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RB1"/> <bbox w="80.0" h="40.0" x="11949.645" y="10011.375"/> <glyph class="state variable" id="_841895f7-2281-485a-b0ef-3dd23a24bf61"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="12022.145" y="10026.375"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa207_emtc_em_csa207" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA3_8_GJB1_GJB2*:GJB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa207_emtc_em_csa207"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9592087"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15782139"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJB1/GJA3_8_GJB1_GJB2*"/> <bbox w="160.0" h="40.0" x="1041.0" y="18112.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1315_emtc_em_sa1315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, beta 1, 32kDa</p> <p>HUGO:GJB1, HGNC:4283, ENTREZ:2705, UNIPROT:P08034, GENECARDS:GC0XP070435  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>PMID:11978007</p> <p>Cx32 Formation and / or Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:19284610</p> <p>Cx32, colocalizes with tight junction proteins ZO-1 and ZO-2 in rat hepatocytes, and small gap junction plaques were found within tight junction strands.</p> <p>It was suggested that Cx32 can participate in the formation of functional tight junctions and in actin organization.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJB1"/> <bbox w="35.0" h="16.0" x="1163.5" y="18117.5"/> <glyph class="state variable" id="_92f8fc96-a368-4169-8a3c-b392267340de"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1193.5" y="18112.896"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1364_emtc_em_sa1364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GJA3_8_GJB1_GJB2*</p> <p>gap junction protein, beta 1, 32kDa</p> <p>HUGO:GJB1, HGNC:4283, ENTREZ:2705, UNIPROT:P08034, GENECARDS:GC0XP070435 </p> <p>gap junction protein, alpha 3, 46kDa</p> <p>HUGO:GJA3, HGNC:4277, ENTREZ:2700 , UNIPROT:Q9Y6H8, GENECARDS:GC13M020712  </p> <p>gap junction protein, alpha 8, 50kDa</p> <p>HUGO:GJA8, HGNC:4281, ENTREZ:2703, UNIPROT:P48165, GENECARDS:GC01P147374 </p> <p>gap junction protein, beta 2, 26kDa</p> <p>HUGO:GJB2, HGNC:4284, ENTREZ:2706, UNIPROT:P29033, GENECARDS:GC13M020761</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA3_8_GJB1_GJB2*"/> <bbox w="120.0" h="20.0" x="1041.0" y="18114.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa345_emtc_em_csa345" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EGF family*:EGFR family*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(EGF family/EGFR)"/> <bbox w="101.0" h="109.0" x="2952.25" y="18460.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2371_emtc_em_sa2371"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, alpha</p> <p>HUGO:TGFA HGNC:11765 ENTREZ:7039 UNIPROT:P01135</p> <p>heparin-binding EGF-like growth factor</p> <p>HUGO:HBEGF, HGNC:3059, ENTREZ:1839, UNIPROT:Q99075 , GENECARDS:GC05M139694  </p> <p>epidermal growth factor</p> <p>"epidermal growth factor (beta-urogastrone)"</p> <p>HUGO:EGF HGNC:3229 ENTREZ:1950 UNIPROT:P01133</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="EGF family*"/> <bbox w="78.0" h="21.0" x="2963.75" y="18465.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2377_emtc_em_sa2377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Receptor tyrosine kinase</p> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> <p>PMID:17496910</p> <p>PMID:24970086</p> <p>Knockdown of NM23-H1 and -H2 (fig. S1, A to E) reduced clathrin-dependent endocytosis of the transferrin (Tf) and epidermal growth factor (EGF) receptors</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="EGFR family*"/> <bbox w="86.0" h="56.0" x="2959.0" y="18490.5"/> <glyph class="unit of information" id="_735f88bd-cd7f-4e1f-b3b1-d849e380e88b"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="2992.0" y="18485.5"/> </glyph> <glyph class="state variable" id="_3b7c962e-b69a-42b2-8471-c008b47f2429"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2993.674" y="18485.5"/> </glyph> <glyph class="unit of information" id="_e9609864-b4b7-4f0a-bd23-e9b14a639abf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="2979.5" y="18485.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1591_emtc_em_sa1591" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1591_emtc_em_sa1591"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAMC2"/> <bbox w="50.0" h="17.0" x="6651.0" y="18270.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa5_an_sa5" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:6307</p> <p>Synonyms : FLK1, VEGFR, VEGFR2, CD309</p> <p>PMID:16076871</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa5_an_sa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16076871"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KDR"/> <bbox w="80.0" h="50.0" x="4662.0" y="5960.0"/> <glyph class="state variable" id="_5cfa4a04-2a17-41a9-a964-24151f1aa8a4"> <state value="" variable="Y1175"/> <bbox w="35.0" h="10.0" x="4700.8306" y="6005.0"/> </glyph> <glyph class="state variable" id="_3c71d27f-e064-481b-b582-c6880f7d2264"> <state value="" variable="1054"/> <bbox w="30.0" h="10.0" x="4669.9756" y="6005.0"/> </glyph> <glyph class="unit of information" id="_1b66245f-2d24-403c-8b33-66b2c7966202"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4679.5" y="5955.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa37_wca1_wca1_csa37" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:AXIN*:CK1_alpha_*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:GSK3*:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa37_wca1_wca1_csa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="505.0" h="340.0" x="22012.56" y="18469.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa251_wca1_wca1_sa251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22149.56" y="18482.0"/> <glyph class="state variable" id="_63a5fe8a-1740-4226-bee3-5e47e677c642"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22197.56" y="18477.0"/> </glyph> <glyph class="state variable" id="_b2619376-8008-49bd-9484-f4c6ccdfb4c4"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22187.56" y="18477.652"/> </glyph> <glyph class="state variable" id="_0279ddcd-9243-4ba0-ab55-0cae1feb08b7"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22185.629" y="18600.0"/> </glyph> <glyph class="state variable" id="_9fd5e32a-49c8-42a1-8f06-520022d53143"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22135.404" y="18477.0"/> </glyph> <glyph class="state variable" id="_0e027f5f-1d1e-4ff5-a81c-00c00e9011a3"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22134.719" y="18600.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa563_wca1_wca1_sa563"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22329.56" y="18760.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa264_wca1_wca1_sa257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="22154.56" y="18727.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa224_wca1_wca1_sa225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22406.56" y="18726.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa512_wca1_wca1_sa512"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22367.31" y="18649.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa591_wca1_wca1_sa591"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22420.06" y="18479.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa251_wca1_wca1_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22365.56" y="18484.0"/> <glyph class="state variable" id="_cf9c4f8d-004d-468e-be2b-58b343dc25c5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22413.56" y="18479.0"/> </glyph> <glyph class="state variable" id="_3bcaa748-1110-4a41-a4e5-3ee6b3c8322b"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22403.56" y="18479.652"/> </glyph> <glyph class="state variable" id="_44c17e90-acfe-4179-997b-bc35e9815cd4"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22401.629" y="18602.0"/> </glyph> <glyph class="state variable" id="_6f15697c-fed9-417d-90b6-ab50cea18c76"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22351.404" y="18479.0"/> </glyph> <glyph class="state variable" id="_6ad1e3b7-add5-477e-9a05-f327a845f280"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22350.719" y="18602.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa270_wca1_wca1_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22069.06" y="18534.0"/> <glyph class="state variable" id="_0c7c39ee-9298-4801-8dbb-a9997d93706f"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22049.06" y="18553.96"/> </glyph> <glyph class="state variable" id="_7f6ec244-ec4e-4880-a532-b4f5729a9f23"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22129.06" y="18529.266"/> </glyph> <glyph class="state variable" id="_95699863-fc9e-464a-8062-8e0b03820cf1"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22128.441" y="18579.0"/> </glyph> <glyph class="state variable" id="_3eb42f00-9457-47a8-bbf3-8533f80ca1bf"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="22090.664" y="18579.0"/> </glyph> <glyph class="state variable" id="_230ff94d-42f5-4cc3-918c-12f1557cb9bd"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="22051.8" y="18579.0"/> </glyph> <glyph class="state variable" id="_998f99d7-e5fd-417b-8453-d2b98f9de7aa"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22089.092" y="18529.0"/> </glyph> <glyph class="unit of information" id="_3bb12ef9-9b9d-44fb-9e8f-1eb64835be76"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22086.56" y="18529.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa254_wca1_wca1_sa254"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22069.06" y="18578.0"/> <glyph class="unit of information" id="_e302b1af-ec04-4ccb-a1b3-93b4bcf4db5c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22086.56" y="18573.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa221_wca1_wca1_sa266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="22157.06" y="18680.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa221_wca1_wca1_sa221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="22327.06" y="18682.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa263_wca1_wca1_sa256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22069.81" y="18626.0"/> <glyph class="state variable" id="_50dfb5e1-0de9-4923-945c-e5191ebeec75"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22142.31" y="18621.0"/> </glyph> <glyph class="state variable" id="_36e894b7-7f3f-494b-a207-c11abdf67a6a"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="22052.31" y="18660.72"/> </glyph> <glyph class="state variable" id="_41c3ec4f-92cc-4ebe-b9eb-bc185fcb51ab"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22064.814" y="18621.0"/> </glyph> <glyph class="state variable" id="_ae7d9394-18af-4390-b4b9-2dd121ccdc06"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22131.691" y="18661.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa264_wca1_wca1_sa264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="22322.56" y="18735.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa224_wca1_wca1_sa267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22071.56" y="18728.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa270_wca1_wca1_sa271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22285.06" y="18536.0"/> <glyph class="state variable" id="_ed472360-23e1-4aea-877a-e318895ac9a2"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22265.06" y="18555.96"/> </glyph> <glyph class="state variable" id="_693213d4-7d32-4751-bc46-1e031e660676"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22345.06" y="18531.266"/> </glyph> <glyph class="state variable" id="_2dfe2b5c-1779-452f-b2da-b2db2518be57"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22344.441" y="18581.0"/> </glyph> <glyph class="state variable" id="_68b216b3-5a60-495a-8b61-b2d479c91b34"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="22306.664" y="18581.0"/> </glyph> <glyph class="state variable" id="_d06e975a-d7c7-4564-9438-42248d89d009"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="22267.8" y="18581.0"/> </glyph> <glyph class="state variable" id="_42a488b9-0f8c-47ac-95a1-18939fdbf35e"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22305.092" y="18531.0"/> </glyph> <glyph class="unit of information" id="_de49ad5a-b98f-4bb0-9205-75125a154712"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22302.56" y="18531.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa259_wca1_wca1_sa252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22203.56" y="18563.0"/> <glyph class="state variable" id="_60a5e575-4aca-49f1-b0e6-7a089823ae7d"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="22189.053" y="18558.0"/> </glyph> <glyph class="state variable" id="_8506b061-c0b7-4238-aec3-7ca9df345a3f"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="22228.592" y="18558.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa263_wca1_wca1_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22285.81" y="18628.0"/> <glyph class="state variable" id="_a0d0aa29-1c32-428b-ba78-238ae79a5c61"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22358.31" y="18623.0"/> </glyph> <glyph class="state variable" id="_8f18bffa-8984-4ef5-ab18-cf1c727be7ab"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="22268.31" y="18662.72"/> </glyph> <glyph class="state variable" id="_cd9207ae-e7dd-496b-b97d-605d0c5046e5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22280.814" y="18623.0"/> </glyph> <glyph class="state variable" id="_ae0875a6-4a0b-4c41-98d7-f26d8f9594d3"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22347.691" y="18663.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa222_wca1_wca1_sa222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22408.06" y="18682.0"/> <glyph class="state variable" id="_b672f660-b03f-4cba-b608-bc8cdde5fe6f"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22401.053" y="18677.0"/> </glyph> <glyph class="state variable" id="_8dd03d12-5d21-4b95-b28f-3921ba4a083f"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22480.56" y="18677.213"/> </glyph> <glyph class="state variable" id="_61fc9ccb-e046-4f14-afd0-68d266433c69"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22395.56" y="18716.72"/> </glyph> <glyph class="state variable" id="_0428a4b6-78aa-4d2e-bec0-f0335187c506"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22473.06" y="18677.213"/> </glyph> <glyph class="state variable" id="_487f50ab-e435-4066-ab61-41518097a196"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22472.441" y="18717.0"/> </glyph> <glyph class="state variable" id="_c083ecfd-ffff-47db-b833-abe766f9d323"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22435.465" y="18717.0"/> </glyph> <glyph class="state variable" id="_f6f5d336-6718-4cd2-a51e-11aa3377c02f"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="22432.965" y="18717.0"/> </glyph> <glyph class="state variable" id="_f8cded59-3fb0-429f-b922-35ffc0f0f9d0"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="22393.06" y="18716.72"/> </glyph> <glyph class="state variable" id="_be8f3c56-f57d-424e-9509-4a10357bb989"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="22435.592" y="18677.0"/> </glyph> <glyph class="state variable" id="_010b8839-c9a2-45e5-9cfe-ef63fce38cfb"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="22396.053" y="18677.0"/> </glyph> <glyph class="state variable" id="_1c737bd4-cc34-411e-9f0e-bad31f903e61"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22474.941" y="18717.0"/> </glyph> <glyph class="state variable" id="_d4493d70-4ca3-4a3d-a5a6-df3a71b93bfa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22403.064" y="18677.0"/> </glyph> <glyph class="state variable" id="_84f7c32d-43c7-4825-8e34-b8f74e25204f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22483.06" y="18677.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa513_wca1_wca1_sa511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22194.31" y="18647.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa222_wca1_wca1_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22072.06" y="18680.5"/> <glyph class="state variable" id="_d4a10adf-3a05-418b-bd00-10615bf234c7"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22065.053" y="18675.5"/> </glyph> <glyph class="state variable" id="_20f4edf0-32e6-47a3-89a3-92c5874345a0"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22144.56" y="18675.713"/> </glyph> <glyph class="state variable" id="_8c151b62-7d95-4c17-ac65-53255b80356b"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22059.56" y="18715.22"/> </glyph> <glyph class="state variable" id="_07902d13-a2a5-4379-be48-bebc01c612c1"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22137.06" y="18675.713"/> </glyph> <glyph class="state variable" id="_a22031f2-9657-4aaf-9753-f138cbf0f433"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22136.441" y="18715.5"/> </glyph> <glyph class="state variable" id="_c664998f-9e4b-48e2-984d-7aec4d0da866"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22099.465" y="18715.5"/> </glyph> <glyph class="state variable" id="_ed7420e9-d762-4f67-8b29-e405f51dd664"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="22096.965" y="18715.5"/> </glyph> <glyph class="state variable" id="_13d0c280-266c-41e6-9c89-1fc67d019b7d"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="22057.06" y="18715.22"/> </glyph> <glyph class="state variable" id="_7fc873bf-9875-4fa9-a26c-34da9b1455f7"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="22099.592" y="18675.5"/> </glyph> <glyph class="state variable" id="_b47132da-0875-4828-9e8d-725ea7cad3f2"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="22060.053" y="18675.5"/> </glyph> <glyph class="state variable" id="_8469c005-35a9-4f63-89e0-9236f2866432"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22138.941" y="18715.5"/> </glyph> <glyph class="state variable" id="_9566a6b7-6963-4912-815d-de853f44d58b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22067.064" y="18675.5"/> </glyph> <glyph class="state variable" id="_1b5bb79e-6917-482a-ab8c-aba0f4944f2e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22147.06" y="18675.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa224_wca1_wca1_sa224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22239.56" y="18725.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa412_wca1_wca1_sa413"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22204.56" y="18521.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa253_wca1_wca1_sa260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22417.56" y="18605.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa259_wca1_wca1_sa259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22419.56" y="18565.0"/> <glyph class="state variable" id="_727f78ed-5b3e-4d4e-831f-3abfc4949cfc"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="22405.053" y="18560.0"/> </glyph> <glyph class="state variable" id="_185efc00-f58c-4173-8fd1-8b54d3f98fe4"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="22444.592" y="18560.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa619_wca1_wca1_sa618"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22306.06" y="18516.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa513_wca1_wca1_sa513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22408.31" y="18649.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa512_wca1_wca1_sa510"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22153.31" y="18647.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa412_wca1_wca1_sa412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22417.56" y="18520.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa222_wca1_wca1_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22243.06" y="18682.0"/> <glyph class="state variable" id="_301d3873-0c45-4d30-a969-e0b06ae656dd"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22236.053" y="18677.0"/> </glyph> <glyph class="state variable" id="_f160f294-70f2-4314-8087-bc66db953b15"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22315.56" y="18677.213"/> </glyph> <glyph class="state variable" id="_1bdac8a5-d0d8-4d43-9977-637f71b69ac6"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22230.56" y="18716.72"/> </glyph> <glyph class="state variable" id="_56f30e8d-c494-48bd-8444-9b6c956ade15"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22308.06" y="18677.213"/> </glyph> <glyph class="state variable" id="_145a6064-f346-4494-a6fa-6955c958226b"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22307.441" 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x="22309.941" y="18717.0"/> </glyph> <glyph class="state variable" id="_2c72ac7d-5d11-4b04-b1fe-832c7cc64589"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22238.064" y="18677.0"/> </glyph> <glyph class="state variable" id="_1c832262-72b5-4e93-a934-180350e59fb0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22318.06" y="18677.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa591_wca1_wca1_sa590"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22203.56" y="18481.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa658_wca1_wca1_sa658"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="22017.242" y="18557.727"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa619_wca1_wca1_sa619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22086.06" y="18516.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa253_wca1_wca1_sa253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22201.56" y="18603.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa254_wca1_wca1_sa261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22285.06" y="18580.0"/> <glyph class="unit of information" id="_e8115161-e94a-4164-8c88-3f703ce3b4b8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22302.56" y="18575.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa563_wca1_wca1_sa564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22151.56" y="18749.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa368_emtc_em_csa368" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EPHA2:Epherin-A1*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20179713</p> <p>E-cadherin promotes EPHA2– ephrin-A1 localization at epithelial cell junctions </p> <p>EPHA2 is upregulated in many cancers and its expression has been linked to increased malignancy and a poor clinical prognosis.</p> <p>EPHA2 seems to be preferentially expressed in malignant breast and prostate cancers with a basal phenotype.</p> <p>EPHA1 is downregulated in advanced human skin and colorectal cancers, EphB receptors are downregulated in advanced colorectal cancer and ephrin-A5 is downregulated in glioblastomas</p> <p>TNF-alpha, VEGFA and HIF2A upregulate ephrin-A1 in cultured endothelial cells. </p> <p>Endothelial ephrin-B2 is upregulated by VEGF through the Notch pathway.</p> <p>PMID:19074825</p> <p>PMID:24003208</p> <p>“Forward” signaling corresponds to the proto- typical RTK mode of signaling, which is triggered by ligand binding and involves activation of the kinase domain. </p> <p>However, the activation mechanisms of Eph receptors have unique features as compared to other RTK families. </p> <p>Binding between Eph receptors and ephrins on juxtaposed cell surfaces leads to oligomerization through not only Eph receptor – ephrin interfaces but also receptor – receptor cis interfaces located in multiple domains</p> <p>Phosphorylation of the conserved tyrosine in the activation loop appears to be less critical for Eph receptor activation than it is for many other RTKs, although it may be important for maximal activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa368_emtc_em_csa368"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20179713"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19074825"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24003208"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Ephrin-A1/EPHA2)"/> <bbox w="118.0" h="97.0" x="2804.5" y="12563.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2578_emtc_em_sa2578"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ephrin-A1</p> <p>EPLG1, TNFAIP4</p> <p>HUGO:EFNA1 HGNC:3221 ENTREZ:1942 UNIPROT:P20827</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:19074825</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Epherin-A1*"/> <bbox w="79.0" h="16.0" x="2827.0" y="12566.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa2579_emtc_em_sa2579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>EPH receptor A2</p> <p>"EphA2"</p> <p>HUGO:EPHA2 HGNC:3386 ENTREZ:1969 UNIPROT:P29317</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20179713</p> <p>E-cadherin promotes EPHA2– ephrin-A1 localization at epithelial cell junctions </p> <p>EPHA2 is upregulated in many cancers and its expression has been linked to increased malignancy and a poor clinical prognosis.</p> <p>EPHA2 seems to be preferentially expressed in malignant breast and prostate cancers with a basal phenotype.</p> <p>EPHA1 is downregulated in advanced human skin and colorectal cancers, EphB receptors are downregulated in advanced colorectal cancer and ephrin-A5 is downregulated in glioblastomas</p> <p>TNF-alpha, VEGFA and HIF2A upregulate ephrin-A1 in cultured endothelial cells. </p> <p>Endothelial ephrin-B2 is upregulated by VEGF through the Notch pathway.</p> <p>PMID:19074825</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="EPHA2"/> <bbox w="86.0" h="56.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa169_emtc_em_sa169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIN7C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIN7C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LIN7C"/> <bbox w="35.0" h="17.0" x="4839.5" y="15797.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa100_ce_csa100" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK1:CyclinB1*:GADD45A</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:REGULATORS, MODULE:G2_M_CHECKPOINT, MODULE:NER</p> <p>References:</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in response to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa100_ce_csa100"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12124778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19652693"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15917306"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC2*/CycB*/GADD45A"/> <bbox w="141.0" h="158.0" x="12291.473" y="13726.356"/> <glyph class="macromolecule" id="s_id_ce_sa1484_ce_sa1484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin B1</p> <p>HUGO:CCNB1, HGNC:1579, ENTREZ:891, UNIPROT:P14635</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in responce to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> </body> </html> </notes> <label text="CyclinB1*"/> <bbox w="80.0" h="40.0" x="12320.296" y="13779.238"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa743_ce_sa743"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Growth arrest and DNA-damage-inducible, alpha</p> <p>HUGO:GADD45A, HGNC:4095, ENTREZ:1647, UNIPROT:P24522</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G2_M_CHECKPOINT, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:19004803</p> <p>CyclinB1/CDC2 (CDK1) complex is inhibited by GADD45 in responce to DNA damage and causes G2/M arrest</p> <p>PMID:12124778, PMID:19652693, PMID:15917306</p> <p>Role in BER</p> <p>PMID:23485469</p> </body> </html> </notes> <label text="GADD45A"/> <bbox w="80.0" h="40.0" x="12320.329" y="13822.214"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa745_ce_sa745"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 1</p> <p>HUGO:CDK1, HGNC:1722, ENTREZ:983, UNIPROT:P06493</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE, MODULE:G2_CC_PHASE, MODULE:M_CC_PHASE, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK1"/> <bbox w="80.0" h="40.0" x="12320.758" y="13737.642"/> <glyph class="state variable" id="_eb8528da-f4ac-469f-85c7-1e79f5207090"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="12357.707" y="13732.642"/> </glyph> <glyph class="state variable" id="_2eceaf32-da80-4e3a-a8df-827e69deb106"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12315.758" y="13752.609"/> </glyph> <glyph class="state variable" id="_c8811d1f-542f-4574-985e-815ad7316ac0"> <state value="" variable="T161"/> <bbox w="30.0" h="10.0" x="12385.758" y="13752.241"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2538_rc_sa2538" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2538_rc_sa2538"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HCCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HCCS"/> <bbox w="80.0" h="40.0" x="20805.81" y="13439.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa107_emtc_em_sa107" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa107_emtc_em_sa107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="P-Cadherin*"/> <bbox w="80.0" h="20.0" x="2923.5" y="16372.5"/> </glyph> <glyph class="phenotype" id="s_id_ad_sa1369_ad_sa1369"> <label text="CYTOTOXICITY"/> <bbox w="340.0" h="65.0" x="29586.0" y="8747.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa2_wca1_wca1_csa2" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re2:(MAP:survival) PMID:12000790</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa2_wca1_wca1_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12000790"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="193.0" h="191.0" x="20020.06" y="18212.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa9_wca1_wca1_sa9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="20031.06" y="18222.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa700_wca1_wca1_sa700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20121.06" y="18343.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa7_wca1_wca1_sa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC HGNC:583 ENTREZ:324 UNIPROT:P25054 GENECARDS:APC REACTOME:403429 KEGG:5624 ATLASONC:APC118 WIKI:APC </p> <p>"adenomatosis polyposis coli"</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="80.0" h="40.0" x="20031.06" y="18310.0"/> <glyph class="state variable" id="_3b7c74bc-d294-43be-bd5b-9450d581999f"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="20019.053" y="18305.0"/> </glyph> <glyph class="state variable" id="_60b5ec2a-213b-4c8b-97f9-fcd741228c24"> <state value="" variable="S2034"/> <bbox w="35.0" h="10.0" x="20013.56" y="18344.72"/> </glyph> <glyph class="state variable" 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class="state variable" id="_8e6f39a4-9d2e-4b9b-ab9a-305638adadc3"> <state value="" variable="S1510"/> <bbox w="35.0" h="10.0" x="20013.56" y="18344.72"/> </glyph> <glyph class="state variable" id="_fc0d089f-4886-43e8-88d2-44973b5c30cf"> <state value="" variable="S1501"/> <bbox w="35.0" h="10.0" x="20014.053" y="18305.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa8_wca1_wca1_sa8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20115.06" y="18222.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa10_wca1_wca1_sa10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="18265.5"/> <glyph class="state variable" id="_9780a4ab-62c1-4615-b6e5-ac9c1b46f9b2"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="18260.713"/> </glyph> <glyph class="state variable" id="_59b74b65-c7a2-4651-96b8-83cef2e52545"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="18260.5"/> </glyph> <glyph class="state variable" id="_180088d9-409d-42ba-9334-1a49c17e07e6"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="18260.5"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20129.06" y="18314.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa74_wca1_wca1_sa74"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 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h="10.0" x="11700.0" y="4443.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa390_in_sa390" compartmentRef="s_id_in_ca48_in_ca48"> <label text="ICAM2"/> <bbox w="80.0" h="40.0" x="17040.0" y="970.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa124_ca_sa124" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:CASCADE:HGF, CASCADE:TGFBPMID:23034983TGFb upregulates gene expression of FAP, probably via SMAD 3PMID:23402812 Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMA ----- content merged by Celldesigner to SBGN-ML translation ------ References:CASCADE:HGF, CASCADE:TGFBPMID:23034983TGFb upregulates gene expression of FAP, probably via SMAD 3PMID:23402812 Hepatocyte growth factor activates tumor stromal fibroblasts to promote tumorigenesis in gastric cancer.HGF induces expression markers of activated fibroblasts such as FAP, CXCL12 (SDF1),aplpha-SMA </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa124_ca_sa124"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FAP"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23034983"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa961_ce_sa961"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ANAPC11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="10508.281" y="10137.02"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa32_wnc1_wnc2_csa32" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB1:TAB2:TAK1*</p> <p>References:</p> <p>s_wnc2_re52:(MAP:survival) PMID:19136967</p> <p>s_wnc2_re73:(MAP:survival) PMID:18762249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa32_wnc1_wnc2_csa32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18762249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB1:TAB2:TAK1*"/> <bbox w="187.0" h="125.0" x="19040.31" y="18303.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa173_wnc1_wnc2_sa173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 GENECARDS:TAB1 REACTOME:65612 KEGG:10454 ATLASONC:GC_TAB1 WIKI:TAB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB1"/> <bbox w="80.0" h="40.0" x="19050.31" y="18354.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa174_wnc1_wnc2_sa174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>MAP3K7IP2 "mitogen-activated protein kinase kinase kinase 7 interacting protein 2"</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 GENECARDS:TAB2 REACTOME:168084 KEGG:23118 ATLASONC:GC_TAB2 WIKI:TAB2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB2"/> <bbox w="80.0" h="40.0" x="19134.31" y="18313.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa172_wnc1_wnc2_sa172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa10_ce_sa10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FEN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FEN1"/> <clone/> <bbox w="80.0" h="40.0" x="10473.312" y="16373.066"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa10_te_sa476" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2091_emtc_em_sa2091"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PSEN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PSEN1"/> <bbox w="46.0" h="18.0" x="1163.0" y="14247.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2704_in_sa2704" compartmentRef="s_id_in_ca12_in_ca12"> <label text="FLT1"/> <bbox w="90.0" h="25.0" x="9590.0" y="6102.5"/> <glyph class="unit of information" id="_166ed38e-b8ed-4402-909a-32047124fab1"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="9625.0" y="6097.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1093_ad_sa1093" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. DTX1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. 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id="s_id_ca_sa300_ca_sa300" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa300_ca_sa300"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKBIE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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<p>PMID:19223473</p> <p>PMID:19449109</p> <p>Comments:Ang2 is both an agonist and an antagonist of Tie2. 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="DNAM1*"/> <bbox w="80.0" h="50.0" x="17509.375" y="1757.1875"/> <glyph class="state variable" id="_01e793ce-12b5-4160-9488-c0ff8237b8ba"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17501.875" y="1785.7415"/> </glyph> <glyph class="state variable" id="_479cc76a-564b-4ffb-9ed4-fe435c13d19d"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17501.875" y="1759.392"/> </glyph> <glyph class="unit of information" id="_ca960b8c-e597-476a-a379-4886e10b4c26"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17526.875" y="1752.1875"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa679_in_sa679"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD18*"/> <bbox w="80.0" h="50.0" x="17509.375" y="1667.1875"/> <glyph class="unit of information" id="_e4dc57b2-72a4-4734-9e7a-34f546a09079"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17526.875" y="1662.1875"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa728_in_sa728"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CD11a*"/> <bbox w="80.0" h="50.0" x="17514.375" y="1717.1875"/> <glyph class="unit of information" id="_5632a2b8-5558-41cc-a698-ab895135d8d0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17531.875" y="1712.1875"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa59_mo_csa59" compartmentRef="s_id_mo_ca7_mo_ca7"> <label text="ARF1_GTP/PTP4A3"/> <bbox w="109.0" h="164.0" x="6291.5" y="11913.0"/> <glyph class="macromolecule" id="s_id_mo_sa515_mo_sa515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTP4A3</p> </body> </html> </notes> <label text="PTP4A3"/> <bbox w="80.0" h="40.0" x="6306.5835" y="11939.333"/> <glyph class="state variable" id="_242f6157-8869-4347-ae3d-4eb10cd54ca6"> <state value="Pr" variable=""/> <bbox w="20.0" h="10.0" x="6296.5835" y="11946.049"/> </glyph> <glyph class="state variable" id="_546395b3-13e3-48f6-b8bf-6ec70d170106"> <state value="" variable="Y53"/> <bbox w="25.0" h="10.0" x="6350.6523" y="11934.333"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_mo_sa517_mo_sa517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="6311.8335" y="12023.333"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa516_mo_sa516"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ADP ribosylation factor 1 </p> </body> </html> </notes> <label text="ARF1"/> <bbox w="80.0" h="40.0" x="6306.8335" y="11983.333"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa52_in_sa52" compartmentRef="s_id_in_ca15_in_ca15"> <label text="H2O2"/> <bbox w="70.0" h="25.0" x="19999.824" y="6241.028"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1375_rc_sa1375" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1375_rc_sa1375"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSP90AA2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90*"/> <bbox w="80.0" h="40.0" x="25089.06" y="14319.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa66_rc_csa66" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CAB39:STK11:STRADA</p> </body> </html> </notes> <label text="CAB39:STK11:STRADA"/> <bbox w="104.0" h="156.0" x="25705.045" y="11109.18"/> <glyph class="macromolecule" id="s_id_rc_sa2702_rc_sa2702"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>serine/threonine kinase 11</p> <p>HUGO:STK11 HGNC:11389 ENTREZ:6794 UNIPROT:Q15831</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DNA_DAMAGE_RESPONSE, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> <p>References:</p> <p>synonym:LKB1PMID:19037093</p> <p>PMID:20484410</p> </body> </html> </notes> <label text="STK11"/> <bbox w="80.0" h="40.0" x="25718.291" y="11155.4"/> <glyph class="state variable" id="_9941587d-e215-4ff5-aad7-40d1857e1e0c"> <state value="active" variable=""/> <bbox w="40.0" h="10.0" x="25738.291" y="11150.4"/> </glyph> <glyph class="state variable" id="_0e485822-e4fa-4a58-beda-b12d48ed83da"> <state value="?" variable="K48"/> <bbox w="30.0" h="10.0" x="25759.86" y="11150.4"/> </glyph> <glyph class="state variable" id="_3427eb21-7125-4b5a-b3e9-32c959e6937b"> <state value="?" variable="T366"/> <bbox w="35.0" h="10.0" x="25724.387" y="11150.4"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1022_rc_sa1022"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calcium binding protein 39</p> <p>HUGO:CAB39 HGNC:20292 ENTREZ:51719 UNIPROT:Q9Y376</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DNA_DAMAGE_RESPONSE, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="CAB39"/> <bbox w="80.0" h="40.0" x="25717.045" y="11113.18"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1023_rc_sa1023"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>STE20-related kinase adaptor alpha</p> <p>HUGO:STRADA HGNC:30172 ENTREZ:92335 UNIPROT:Q7RTN6</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DNA_DAMAGE_RESPONSE, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="STRADA"/> <bbox w="80.0" h="40.0" x="25717.045" y="11201.18"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa118_emtc_em_csa118" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MIR34*:_beta_-Catenin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa118_emtc_em_csa118"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22024162"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR34/CTNNB1"/> <bbox w="80.0" h="60.0" x="3265.562" y="18178.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa729_emtc_em_sa729"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>beta catenin</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="79.0" h="20.0" x="3265.562" y="18199.0"/> <glyph class="unit of information" id="_dfe24ecb-e615-44ac-9a4d-7e9efed74d54"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3295.062" y="18194.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa730_emtc_em_sa730"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34b</p> <p>HUGO:MIR34B, HGNC:31636, ENTREZ:407041, GENECARDS:GC11P111383</p> <p>microRNA 34c</p> <p>HUGO:MIR34C, HGNC:31637, ENTREZ:407042, GENECARDS:GC11P111384</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>PMID:21909380</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR34*"/> <bbox w="75.0" h="20.0" x="3269.562" y="18179.0"/> <glyph class="unit of information" id="_f9fed734-cad5-4f81-bb74-18400338d18d"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3292.062" y="18174.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1268_in_sa1268" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL7"/> <bbox w="90.0" h="25.0" x="14315.0" y="2532.5"/> <glyph class="unit of information" id="_7772a4b8-3fb0-4df2-8451-9bb05af97bf6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="14350.0" y="2527.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa35_ca_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16572188 </p> <p>Normal stroma in most organs contains a minimal number of fibroblasts in association with a physiological ECM23. Reactive stroma is associated with an increased number of fibroblasts, enhanced capillary density, and type-I-collagen and fibrin deposition.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa35_ca_sa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16572188"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Reactive_stroma"/> <bbox w="238.0" h="91.0" x="5251.25" y="5304.5"/> </glyph> <glyph 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa14_ca_sa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGF*"/> <bbox w="80.0" h="40.0" x="4270.0" y="490.0"/> </glyph> <glyph class="nucleic acid feature" 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h="25.0" x="20923.56" y="22583.5"/> <glyph class="unit of information" id="_5d299863-c6bf-46c9-9c92-a860412c532e"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20953.56" y="22578.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa157_mo_sa157" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0potassium calcium-activated channel subfamily N member 4 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0potassium calcium-activated channel subfamily N member 4 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa157_mo_sa157"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNN4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KCNN4"/> <bbox w="70.0" h="25.0" x="2656.625" y="10476.375"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1191_emtc_em_sa1191" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1191_emtc_em_sa1191"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBLN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FBLN1"/> <bbox w="43.0" h="18.0" x="6447.5" y="18759.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa67_wca1_wca3_csa67" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC13*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*:CDC20</p> <p>References:</p> <p>CDC20 targets AXIN2</p> <p>PMID:22322943</p> <p>Composition APC/C complex</p> <p>PMID:16896351</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa67_wca1_wca3_csa67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22322943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16896351"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(APC/C/CDC20)"/> <bbox w="351.0" h="216.0" x="22324.06" y="22363.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa430_wca1_wca3_sa430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 20</p> <p>"CDC20 (cell division cycle 20 S. cerevisiae homolog)" "CDC20 cell division cycle 20 homolog (S. cerevisiae)" "cell division cycle 20 homolog (S. cerevisiae)"</p> <p>HUGO:CDC20 HGNC:1723 ENTREZ:991 UNIPROT:Q12834 GENECARDS:CDC20 REACTOME:86754 KEGG:991 ATLASONC:CDC20ID40003ch1p34 WIKI:CDC20</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:M_CC_PHASE, MAP:cellcycle / MODULE:APC</p> </body> </html> </notes> <label text="CDC20"/> <bbox w="80.0" h="40.0" x="22586.06" y="22511.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa431_wca1_wca3_sa431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5 HGNC:15713 ENTREZ:51433 UNIPROT:Q9UJX4 GENECARDS:ANAPC5 REACTOME:84980 KEGG:51433 ATLASONC:GC_ANAPC5 WIKI:ANAPC5</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="22418.06" y="22380.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa428_wca1_wca3_sa428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26</p> <p>C9orf17 "cell division cycle 26" "cell division cycle 26 homolog (S. cerevisiae)" "chromosome 9 open reading frame 17"</p> <p>HUGO:CDC26 HGNC:17839 ENTREZ:246184 UNIPROT:Q8NHZ8 GENECARDS:CDC26 REACTOME:177755 KEGG:246184 WIKI:CDC26</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="22502.06" y="22467.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa423_wca1_wca3_sa423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16</p> <p>"CDC16 (cell division cycle 16 S. cerevisiae homolog)" "CDC16 cell division cycle 16 homolog (S. cerevisiae)" "cell division cycle 16 homolog (S. cerevisiae)"</p> <p>HUGO:CDC16 HGNC:1720 ENTREZ:8881 UNIPROT:Q13042 GENECARDS:CDC16 REACTOME:86748 KEGG:8881 ATLASONC:GC_CDC16 WIKI:CDC16</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="22418.06" y="22424.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa420_wca1_wca3_sa420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2 HGNC:19989 ENTREZ:29882 UNIPROT:Q9UJX6 GENECARDS:ANAPC2 REACTOME:84976 KEGG:29882 ATLASONC:GC_ANAPC2 WIKI:ANAPC2 </p> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="22334.06" y="22424.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa421_wca1_wca3_sa421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27</p> <p>"cell division cycle 27" "cell division cycle 27 homolog (S. cerevisiae)" D17S978E D0S1430E</p> <p>HUGO:CDC27 HGNC:1728 ENTREZ:996 UNIPROT:P30260 GENECARDS:CDC27 REACTOME:69811 KEGG:996 ATLASONC:GC_CDC27 WIKI:CDC27</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="22334.06" y="22467.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa424_wca1_wca3_sa424"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7 HGNC:17380 ENTREZ:51434 UNIPROT:Q9UJX3 GENECARDS:ANAPC7 REACTOME:84983 KEGG:51434 ATLASONC:GC_ANAPC7 WIKI:ANAPC7</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="22418.06" y="22467.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa427_wca1_wca3_sa427"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>"anaphase promoting complex subunit 11 (yeast APC11 homolog)"</p> <p>HUGO:ANAPC11 HGNC:14452 ENTREZ:51529 UNIPROT:Q9NYG5 GENECARDS:ANAPC11 REACTOME:69640 KEGG:51529 WIKI:ANAPC11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="22502.06" y="22424.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa419_wca1_wca3_sa419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 1</p> <p>HUGO:ANAPC1 HGNC:19988 ENTREZ:64682 UNIPROT:Q9H1A4 GENECARDS:ANAPC1 REACTOME:84973 KEGG:64682 ATLASONC:GC_ANAPC1 WIKI:ANAPC1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="22334.06" y="22380.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa422_wca1_wca3_sa422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4 HGNC:19990 ENTREZ:29945 UNIPROT:Q9UJX5 GENECARDS:ANAPC4 REACTOME:84978 KEGG:29945 WIKI:ANAPC4</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="22334.06" y="22511.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa426_wca1_wca3_sa426"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10 HGNC:24077 ENTREZ:10393 UNIPROT:Q9UM13 GENECARDS:ANAPC10 REACTOME:85074 KEGG:10393 WIKI:ANAPC10</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="22502.06" y="22380.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa425_wca1_wca3_sa425"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23</p> <p>"CDC23 (cell division cycle 23 yeast homolog)" "cell division cycle 23 homolog (S. cerevisiae)"</p> <p>HUGO:CDC23 HGNC:1724 ENTREZ:8697 UNIPROT:Q9UJX2 GENECARDS:CDC23 REACTOME:86758 KEGG:8697 ATLASONC:GC_CDC23 WIKI:CDC23</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:dnarepair / MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="22418.06" y="22511.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa429_wca1_wca3_sa429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 13</p> <p>HUGO:ANAPC13 HGNC:24540 ENTREZ:25847 UNIPROT:Q9BS18 GENECARDS:ANAPC13 REACTOME:218593 KEGG:25847 ATLASONC:GC_ANAPC13 WIKI:ANAPC13</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM</p> </body> </html> </notes> <label text="APC13*"/> <bbox w="80.0" h="40.0" x="22502.06" y="22511.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa214_emtc_em_csa214" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJC1:ZO1_3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>PMID:11557048</p> <p>GJC1 interacts with the PDZ domains of ZO-1 and ZO-3 but not ZO-2</p> <p>PMID:11313345</p> <p>Connexin45 (GJC1) interacts with ZO-1 and connexin43 (GJA1) in osteoblastic cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p> PMID:24703957</p> <p>PDGFs are encoded by four different genes: PDGF-A, -B, -C and -D, which are related to VEGF and belong to the ???cystine knots??? protein superfamily</p> <p> The two PDGF receptors, namely PDGFR alpha and beta, are receptor tyrosine kinases (RTK) belonging to the so-called type III family, which also includes c-KIT, c-FMS and FLT3 (the receptors of stem cell factor, CSF1 and FLT3-ligand, respectively). 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<title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="80.0" h="40.0" x="3496.0" y="11800.0"/> <glyph class="state variable" id="_d24285b4-612d-4256-9c76-797fa57acba2"> <state value="P" variable="Y783"/> <bbox w="35.0" h="10.0" x="3535.4492" y="11795.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa406_mo_sa406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PTP4A3</p> </body> </html> </notes> <label text="PTP4A3"/> <bbox w="80.0" h="40.0" x="3497.0" y="11851.0"/> <glyph class="state variable" id="_14f8bfe9-b3fa-4a29-aeed-7ffd0786a702"> <state value="" variable="Y53"/> <bbox w="25.0" h="10.0" x="3541.0686" y="11846.0"/> </glyph> <glyph class="state variable" id="_0004e21e-5bc6-4ba0-9475-846da7dc2dd2"> <state value="" variable=""/> <bbox 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1, HGNC:949, ENTREZ:578, UNIPROT:Q16611, GENECARDS:GC06M033489</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as 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mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:23064052</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers.</p> <p>PMID:11704864</p> <p>Transcriptional regulation of bcl-2 by nuclear factor kappa B and its significance in prostate cancer.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCL2"/> <bbox w="33.0" h="17.0" x="5452.5" y="13788.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa133_emtc_em_sa133" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Desmosomes"/> <bbox w="108.0" h="27.0" x="1232.5" y="16579.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa639_rc_sa639" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa639_rc_sa639"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKM"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKM2"/> <bbox w="90.0" h="25.0" x="23051.06" y="16020.5"/> <glyph class="unit of information" id="_fad787a8-98b7-4a38-b77f-470fa511c5b2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="23086.06" y="16015.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa85_akt1_akt1_csa85" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:RBX1:RICTOR</p> <p>References:</p> <p>s_akt1_re196:(MAP:survival) PMID:20832730</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa85_akt1_akt1_csa85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20832730"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CUL1:RBX1:RICTOR"/> <bbox w="188.0" h="125.0" x="12099.061" y="18075.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa535_akt1_akt1_sa535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="12190.561" y="18089.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa533_akt1_akt1_sa533"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12108.311" y="18088.5"/> <glyph class="state variable" id="_94e00a94-9c0a-488e-88e7-4234ea3f6fbd"> <state value="" variable="T1135"/> <bbox w="35.0" h="10.0" x="12110.371" y="18123.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa534_akt1_akt1_sa534"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="12107.561" y="18131.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_gf1_sa153_gf1_sa153" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:25772309 </p> <p>Canonical FGFs are tightly bound to heparin/heparan sulfate (HS) proteoglycans (HSPGs), which function to limit diffusion through the extracellular matrix (ECM) and serve as cofactors that regulate specificity and affinity for signaling FGFRs.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa153_gf1_sa153"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25772309"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSPGs*"/> <bbox w="70.0" h="25.0" x="8580.561" y="17897.0"/> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa143_emtc_em_sa143" compartmentRef="s_id_emtc_em_ca36_emtc_em_ca36"> <label text="degradation of CRB3"/> <bbox w="30.0" h="30.0" x="4191.0" y="13828.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa135_rc_csa135" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:APAF1:HSP70*</p> </body> </html> </notes> <label text="APAF1:HSP70"/> <bbox w="100.0" h="120.0" x="24439.06" y="14889.0"/> <glyph class="macromolecule" id="s_id_rc_sa1408_rc_sa1408"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 70kDa protein 1A</p> <p>HUGO:HSPA1A HGNC:5232 ENTREZ:3303 UNIPROT:P08107 </p> <p>heat shock 70kDa protein 1B</p> <p>HUGO:HSPA1B HGNC:5233 ENTREZ:3304 UNIPROT:P08107 </p> <p>heat shock 70kDa protein 1-like</p> <p>HUGO:HSPA1L HGNC:5234 ENTREZ:3305 UNIPROT:P34931</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23430059</p> </body> </html> </notes> <label text="HSP70*"/> <bbox w="80.0" h="40.0" x="24451.06" y="14938.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1407_rc_sa1407"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="24451.06" y="14898.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa305_emtc_em_sa305" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa305_emtc_em_sa305"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA10"/> <bbox w="40.0" h="20.0" x="4509.08" y="17842.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2727_rc_sa2727" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2727_rc_sa2727"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-TD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-TD"/> <bbox w="90.0" h="25.0" x="20540.06" y="15036.5"/> <glyph class="unit of information" id="_ca8580e5-99d0-4020-9e36-31fdb07c40ee"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20575.06" y="15031.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa982_in_sa982" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IRS2"/> <bbox w="80.0" h="40.0" x="18005.0" y="2890.0"/> <glyph class="state variable" id="_200e9658-274b-4a1c-92ff-e6b6348ef384"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17997.5" y="2905.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa31_wnc1_wnc2_csa31" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPP3CB:PPP3R*:RCAN*</p> <p>References:</p> <p>s_wnc2_re50:(MAP:survival) PMID:16131541</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa31_wnc1_wnc2_csa31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16131541"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin/_BR_RCAN)"/> <bbox w="105.0" h="173.0" x="18368.56" y="17935.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa171_wnc1_wnc2_sa171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulator of calcineurin 1</p> <p>"Down syndrome critical region gene 1", DSCR1</p> <p>HUGO:RCAN1 HGNC:3040 ENTREZ:1827 UNIPROT:P53805 GENECARDS:RCAN1 KEGG:1827 ATLASONC:GC_RCAN1 WIKI:RCAN1 </p> <p>regulator of calcineurin 2 </p> <p>HUGO:RCAN2 HGNC:3041 ENTREZ:10231 UNIPROT:Q14206 GENECARDS:RCAN2 KEGG:10231 ATLASONC:GC_RCAN2 WIKI:RCAN2 </p> <p>RCAN family member 3</p> <p>"Down syndrome critical region gene 1-like 2", DSCR1L2</p> <p>HUGO:RCAN3 HGNC:3042 ENTREZ:11123 UNIPROT:Q9UKA8 GENECARDS:RCAN3 KEGG:11123 ATLASONC:GC_RCAN3 WIKI:RCAN3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RCAN*"/> <bbox w="80.0" h="40.0" x="18381.56" y="18033.0"/> <glyph class="state variable" id="_3cdb0e4a-3c80-4b82-b98e-e75268829a8e"> <state value="P" variable="T192"/> <bbox w="35.0" h="10.0" x="18443.441" y="18068.0"/> </glyph> <glyph class="state variable" id="_f8e7d4ae-9c0d-43fb-be81-9c6979b0df85"> <state value="" variable="S136"/> <bbox w="30.0" h="10.0" x="18446.56" y="18028.213"/> </glyph> <glyph class="state variable" id="_637664d3-f071-4d83-a612-3ac1e2c80402"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18433.129" y="18028.0"/> </glyph> <glyph class="state variable" id="_9a83873c-ff4c-44ad-9489-9d3dab608ec9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18399.992" y="18028.0"/> </glyph> <glyph class="state variable" id="_b6d895f9-dae9-4c88-8c97-e950e8d802c8"> <state value="" variable="S94"/> <bbox w="25.0" h="10.0" x="18369.064" y="18028.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa170_wnc1_wnc2_sa170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18381.56" y="17990.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa169_wnc1_wnc2_sa169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="18381.56" y="17947.0"/> <glyph class="state variable" id="_80d248c3-50af-463a-bed8-7e10549883a7"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="18446.56" y="17942.213"/> </glyph> <glyph class="state variable" 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</html> </notes> <label text="ca_s2440"/> <bbox w="110.0" h="130.0" x="2135.0" y="3295.0"/> <glyph class="macromolecule" id="s_id_ca_sa328_ca_sa328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>MODULE:CAF, MODULE:CORE, MODULE:CAF</p> <p>Map modules:</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). 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These cells have an augmented and prolonged LPS-inducible IKK activity and an accelerated degradation which results in a diminished level of IkappaBalpha protein, despite an upregulated IkappaBalpha mRNA expression.</p> </body> </html> </notes> <label text="RELB"/> <bbox w="69.0" h="46.0" x="2150.625" y="3352.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1518_in_sa1518" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 7479881, 10358173, 18345002, 10820262, 12433365, 17985330 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSTIMULATORYCASCADE:IL2, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNGReferences:PMID:12433365INFG induces SOCS1 expression in macrophages.PMID:10820262Probably IFNG induces SOCS1 expressiov via IRF1 upregulation downstream of STAT1PMID:18345002TNF induces IRF1 expression both through TNFR1 and TNFR2.TNF induced IFNB expression through IRF1PMID:10358173, PMID:7479881IL2 signaling induces IRF1 expression in NK cells, probably via STAT5 (PMID:17985330IFN-B induces IRF1 expression, probably via STAT1in DCs.() ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 7479881, 10358173, 18345002, 10820262, 12433365, 17985330 Charge: 0 Map modules:MAP:MACROPHAGE, MAP:NATURAL_KILLERMODULE:CORE_SIGNALING_PATHWAYS, MODULE:MIRNA_TF_IMMUNOSTIMULATORYCASCADE:IL2, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNGReferences:PMID:12433365INFG induces SOCS1 expression in macrophages.PMID:10820262Probably IFNG induces SOCS1 expressiov via IRF1 upregulation downstream of STAT1PMID:18345002TNF induces IRF1 expression both through TNFR1 and TNFR2.TNF induced IFNB expression through IRF1PMID:10358173, PMID:7479881IL2 signaling induces IRF1 expression in NK cells, probably via STAT5 (PMID:17985330IFN-B induces IRF1 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_PRODUCTION </p> <p>References:</p> <p>PMID:27124156</p> <p>NOTCH3 Is Induced in Cancer-Associated Fibroblasts and Promotes Angiogenesis in Oral Squamous Cell Carcinoma.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1024_ca_sa1024"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOTCH3"/> </rdf:Bag> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa713_emtc_em_sa713"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR1-1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR1-1"/> <bbox w="60.0" h="20.0" x="3474.5" y="17411.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2956_rc_sa2956" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa135_wnc1_wnc4_sa135"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSPA8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSC70*"/> <bbox w="80.0" h="40.0" x="17819.06" y="21209.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa922_ca_sa922" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HH, CASCADE:TGFBPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HH, CASCADE:TGFBPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2416_rc_sa2416"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDK4"/> <bbox w="90.0" h="25.0" x="19899.06" y="16041.5"/> <glyph class="unit of information" id="_5c73a2cf-ae43-403b-b54b-d743724595d0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19934.06" y="16036.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa537_rc_csa537" compartmentRef="s_id_rc_ca50_rc_ca50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NLRP1</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa537_rc_csa537"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLRP1:NLRP1"/> <bbox w="113.0" h="103.0" x="27721.56" y="9602.75"/> <glyph class="macromolecule" id="s_id_rc_sa5407_rc_sa5412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NLR family, pyrin domain containing 1</p> <p>HUGO:NLRP1 HGNC:14374 ENTREZ:22861 UNIPROT:Q9C000</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:PYROPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:19465923</p> <p>Ptc–DRAL interaction represents an anchor for a specific TUCAN/NALP1-caspase-9-containing complex</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NLRP1"/> <bbox w="80.0" h="50.0" x="27741.56" y="9632.75"/> <glyph class="unit of information" id="_438a6265-757e-45e4-8ae1-fa97702b2e44"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27759.06" y="9627.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5407_rc_sa5407"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NLR family, pyrin domain containing 1</p> <p>HUGO:NLRP1 HGNC:14374 ENTREZ:22861 UNIPROT:Q9C000</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS, MODULE:PYROPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:19465923</p> <p>Ptc–DRAL interaction represents an anchor for a specific TUCAN/NALP1-caspase-9-containing complex</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NLRP1"/> <bbox w="80.0" h="50.0" x="27731.56" y="9622.75"/> <glyph class="unit of information" id="_8f27b118-4061-484d-830f-d5ffb24249ba"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="27749.06" y="9617.75"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa51_wca1_wca3_csa51" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP*:p300*</p> <p>References:</p> <p>s_wca3_re109:(MAP:survival) PMID:12711682 PMID:15834423 PMID:16510874 PMID:15327769 PMID:16547505</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="21502.56" y="22298.0"/> <glyph class="state variable" id="_e0141c87-50d2-4769-9d70-30b464ca13bf"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="21567.56" y="22293.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa317_wca1_wca3_sa317"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E1A binding protein p300</p> <p>HUGO:EP300 HGNC:3373 ENTREZ:2033 UNIPROT:Q09472 GENECARDS:EP300 REACTOME:61164 KEGG:2033 ATLASONC:P300ID97 WIKI:EP300</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:HIF1, MAP:cellcycle / MODULE:E2F1</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="21502.56" y="22342.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa278_in_csa278" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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text="NFKB1_p50*"/> <bbox w="119.0" h="67.0" x="21425.75" y="4374.0"/> <glyph class="unit of information" id="_e7871afa-7a9f-465f-9285-c267316228c3"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="21460.25" y="4369.0"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa37_wnc1_wnc4_sa37" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc4_re11(MAP:survival):</p> <p>Increased transcription of p53-target genes</p> <p>PMID:15526030</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa37_wnc1_wnc4_sa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15526030"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p53-target genes"/> <bbox w="80.0" h="30.0" x="18831.06" y="21548.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2110_em_sa2110" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:18555778PMID:18555777There is a positive feedback loop between IL6 and CEBP that help maintain the senescence 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR199A*"/> <bbox w="90.0" h="25.0" x="25236.56" y="15626.5"/> <glyph class="unit of information" id="_db128d50-7224-4fee-ac20-77763557c052"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="25266.56" y="15621.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_gf1_csa8_gf1_csa8" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>PMID:7682895; PMID:17397400 </p> <p>PDGF -receptor directly binds and activates PLC-gamma 1, RasGAP, P13K, and a 64 kd protein. </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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<p>HUGO:PDGFA</p> <p>HUGO:PDGFB</p> <p>HUGO:PDGFC</p> <p>HUGO:PDGFD</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:23123598</p> <p> PDGF stimulation of CAFs induces production of the prototypical pro-angiogenic inducer fibroblast growth factor (FGF)-2 in both cervical carcinomas and melanoma [11] and [85].</p> <p>Interestingly, CAFs activated by PDGF-CC in melanomas also secrete the extracellular matrix protein osteopontin, the action of which is known to synergistically stimulate angiogenesis together with FGF-2 and promote autocrine VEGF-A signaling in endothelial cells</p> <p>PMID:15207817; PMID:19118022 </p> <p>PDGF receptors-mediators of autocrine tumor growth and regulators of tumor vasculature and stroma.</p> <p>Tumor fibroblasts a recruted by PDGF</p> <p> PMID:24703957</p> <p>PDGFs are encoded by four different genes: PDGF-A, -B, -C and -D, which are related to VEGF and belong to the ???cystine knots??? protein superfamily</p> </body> </html> </notes> <label text="PDGF*"/> <bbox w="80.0" h="40.0" x="7895.56" y="18009.5"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa106_gf1_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PGDFRA</p> <p>HUGO:PGDFRB</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p> PMID:24703957</p> <p>PDGFs are encoded by four different genes: PDGF-A, -B, -C and -D, which are related to VEGF and belong to the ???cystine knots??? protein superfamily</p> <p> The two PDGF receptors, namely PDGFR alpha and beta, are receptor tyrosine kinases (RTK) belonging to the so-called type III family, which also includes c-KIT, c-FMS and FLT3 (the receptors of stem cell factor, CSF1 and FLT3-ligand, respectively). 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:KPNB1:NFAT*:PPP3CB_sub_trunc_endsub_*:PPP3R*:Tubulin-_alpha_*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Constitutively active</p> <p>PMID:17662023, PMID:17593948, PMID:14627704</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa20_wnc1_wnc2_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KPNB1:NFAT*:PPP3CBtrunc*:PPP3R*:Tubulin-α*"/> <bbox w="111.0" h="281.0" x="18480.56" y="19206.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa89_wnc1_wnc2_sa89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3CBtrunc*"/> <bbox w="80.0" h="40.0" x="18490.56" y="19215.5"/> <glyph class="unit of information" id="_73ecbd94-3ac8-4314-8f9b-40cfe28ff4c7"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="18505.56" y="19210.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa124_wnc1_wnc2_sa124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a </p> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt: Q71U36</p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt: P68363</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt: Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>tubulin, alpha 3d </p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt: Q6PEY2</p> <p>tubulin, alpha 4a </p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>tubulin, alpha 8 </p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt: Q9NY65</p> <p>Map modules:</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox 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T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18491.56" y="19311.5"/> <glyph class="state variable" id="_8874e176-9378-44f8-9a0c-694246740b6d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18566.56" y="19326.5"/> </glyph> <glyph class="state variable" id="_3e3c0f48-839a-42f9-8660-6c1937e7586d"> <state value="" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18490.56" y="19258.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa123_wnc1_wnc2_sa123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>karyopherin (importin) beta 1</p> <p>HUGO:KPNB1 HGNC:6400 ENTREZ:3837 UNIPROT:Q14974 GENECARDS:KPNB1 REACTOME:57343 KEGG:3837 ATLASONC:GC_KPNB1 WIKI:KPNB1</p> <p>Map modules:</p> </body> </html> </notes> <label text="KPNB1"/> <bbox w="80.0" h="40.0" x="18490.56" y="19360.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1286_rc_sa1286" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1286_rc_sa1286"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L12"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BimEL*"/> <bbox w="80.0" h="40.0" x="22274.06" y="11754.0"/> <glyph class="state variable" id="_aef9aa2f-c516-4021-86d4-1d091dd1531c"> <state value="" variable="S69"/> <bbox w="25.0" h="10.0" x="22341.559" y="11749.0"/> </glyph> <glyph class="state variable" id="_af20b4c8-0c8f-4ecf-9ef3-65a36355a2b4"> <state value="" variable="S94"/> <bbox w="25.0" h="10.0" x="22301.465" y="11789.0"/> </glyph> <glyph class="state variable" id="_76d8ec2f-98a8-42e3-98f5-7c3801e1b29c"> <state value="" variable="S93"/> <bbox w="25.0" h="10.0" x="22261.56" 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(TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:GLUTAMINE_METABOLISM, MODULE:NECROPTOSIS, MODULE:TNF_RESPONSE, MODULE:TRAIL_RESPONSE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:26587781</p> <p>PMID:19632174</p> <p>RIP kinases at the crossroads of cell death and survival</p> <p>PMID:19524513</p> <p>PMID:28574505</p> <p>PMID:23010170</p> <p>PMID:26653790</p> <p>erastin-induced cell death proceeds normally on knockdown of RIPK1/RIPK3</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="80.0" h="40.0" x="25734.06" y="13419.0"/> <glyph class="state variable" id="_10a29565-a74b-471b-bcdf-bd710af73fd0"> <state value="" variable="K377"/> <bbox w="30.0" h="10.0" x="25799.06" y="13425.249"/> </glyph> <glyph class="state variable" id="_fbedefc1-9300-4d0e-bac0-c85eeacef429"> <state value="" variable="S161"/> <bbox w="30.0" h="10.0" x="25775.39" y="13454.0"/> </glyph> <glyph class="state variable" id="_a835afa5-2430-4b64-88d4-b4706169e6ae"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25771.896" y="13414.0"/> </glyph> <glyph class="state variable" id="_a2cfbbc1-bfe8-48a1-a205-d5923ab765b4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25729.06" y="13425.172"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5138_rc_sa5138"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3655_rc_sa724"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FTH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FTH1"/> <clone/> <bbox w="80.0" h="40.0" x="25504.945" y="15407.246"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4886_rc_sa4886" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4886_rc_sa4886"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATF4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATF4"/> <bbox w="80.0" h="40.0" x="28141.326" y="16464.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1100_ad_sa1100" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. DTX1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. 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<rdf:Description rdf:about="#s_id_emtc_em_sa104_emtc_em_sa104"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="N-Cadherin*"/> <bbox w="80.0" h="20.0" x="2923.5" y="16292.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa76_mpk1_mpk1_sa76" compartmentRef="s_id_mpk1_mpk1_ca3_mpk1_mpk1_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa76_mpk1_mpk1_sa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LAMTOR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAMTOR2"/> <bbox w="68.0" h="27.0" x="8837.561" y="19741.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3382_rc_sa3382" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3382_rc_sa3382"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UROD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UROD"/> <bbox w="86.0" h="46.0" x="17876.06" y="13086.0"/> <glyph class="unit of information" id="_3b373ee1-3b54-4133-8e01-019986a1b5ba"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="17909.06" y="13081.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4779_rc_sa4779" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4779_rc_sa4779"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1R15A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PPP1R15A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GADD34*"/> <bbox w="90.0" h="25.0" x="27536.326" y="16042.5"/> <glyph class="unit of information" id="_76cc9ad8-81e2-416b-8f9f-ec6d18baf2cb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27571.326" y="16037.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa32_mpk1_mpk1_csa32" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PLCG1:RTK*:SRC</p> </body> </html> </notes> <label text="PLCG1:RTK*:SRC"/> <bbox w="113.0" h="115.0" x="7658.06" y="19038.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa173_mpk1_mpk1_sa173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian)</p> <p>SRC1 "v-src avian sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog"</p> <p>HUGO:SRC HGNC:11283 ENTREZ:6714 UNIPROT:P12931</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Many activated RTKs induce the Src-dependent activation of PLCG</p> </body> </html> </notes> <label text="SRC"/> <bbox w="50.0" h="25.0" x="7688.06" y="19074.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa583_mpk1_mpk1_sa583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="7688.333" y="19051.0"/> <glyph class="unit of information" id="_3d09c0e5-2e1d-403d-8c4f-6e3fe9147429"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="7690.833" y="19046.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa174_mpk1_mpk1_sa174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phospholipase C gamma 1</p> <p>"phospholipase C gamma 1 (formerly subtype 148)" PLC1</p> <p>HUGO:PLCG1 HGNC:9065 ENTREZ:5335 UNIPROT:P19174</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In response to Src-dependent activation of PLCG1 RasGRP1 translocated to the Golgi where it activated Ras.</p> </body> </html> </notes> <label text="PLCG1"/> <bbox w="50.0" h="25.0" x="7688.06" y="19099.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1796_rc_sa1796" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16087 KEGGCOMPOUND:C00311</p> </body> </html> </notes> <label text="isocitrate"/> <bbox w="70.0" h="25.0" x="18760.322" y="14728.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5045_rc_sa5045" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5045_rc_sa5045"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NUCB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NUCB2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NUCB2"/> <bbox w="90.0" h="25.0" x="28946.326" y="16271.5"/> <glyph class="unit of information" id="_8263fcb5-cd2e-4d39-892e-d09c41249181"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28981.326" y="16266.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ca_sa483_ca_sa483" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ca_csa53_degraded"/> <bbox w="30.0" h="30.0" x="3385.0" y="1345.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa645_wnc1_wnc1_sa645" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa645_wnc1_wnc1_sa645"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SH3RF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="POSH*"/> <bbox w="80.0" h="40.0" x="15623.061" y="18979.0"/> <glyph class="state variable" id="_3a1479af-b80f-4612-a15e-c1a9cc0f852f"> <state value="" variable="S304"/> <bbox w="30.0" h="10.0" x="15688.061" y="18974.213"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa98_ce_csa98" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MSH2:MSH3:SLX4*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa98_ce_csa98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19473888"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12947387"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19595721"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19596236"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSH2/MSH3/SLX4*"/> <bbox w="122.0" h="166.0" x="12173.473" y="16086.356"/> <glyph class="macromolecule" id="s_id_ce_sa739_ce_sa739"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 3 (E. coli)</p> <p>HUGO:MSH3, HGNC:7326, ENTREZ:4437, UNIPROT:P20585</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:SSA</p> <p>References:</p> <p>PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> </body> </html> </notes> <label text="MSH3"/> <bbox w="80.0" h="40.0" x="12198.473" y="16140.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa738_ce_sa738"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BTB (POZ) domain containing 12</p> <p>Structure-specific endonuclease subunit SLX4</p> <p>HUGO:BTBD12, HGNC:23845, ENTREZ:84464, UNIPROT:Q8IY92</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:SSA</p> <p>References:</p> <p>PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236, PMID:22101340</p> </body> </html> </notes> <label text="SLX4*"/> <bbox w="80.0" h="40.0" x="12197.473" y="16187.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa740_ce_sa740"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) </p> <p>HUGO:MSH2, HGNC:7325, ENTREZ:4436, UNIPROT:P43246</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR , MODULE:BER, MODULE:SSA</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:19847258, PMID:18406444, PMID:19473888, PMID:12947387, PMID:19596235, PMID:19595721, PMID:19596236</p> 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<p>References:</p> <p>PMID:12413632</p> <p>IFNG is a major factor of M1 activation of macrophages.</p> <p>PMID:6425450</p> <p>Monoclonal antibody to IFNG inhibits macrophage tumoricidal activities.</p> <p>PMID:11964313</p> <p>INFG potentiates TLR signaling and NFkB activation downstream of TLR.</p> <p>PMID:9864217</p> <p>IFNG cooperates with TNF and TLR signaling in NF-kB activation.</p> <p>PMID:19833085</p> <p>IFNG achieves strong activation effects is by enhancing macrophage</p> <p>responsiveness to other inflammatory stimuli, such as TLR ligands and TNF.</p> <p>PMID:14607900, PMID:16713974</p> <p>IFNG impairs IL-10 anti-inflammatory activity.</p> <p>PMID:10485906</p> <p>IFNG downregulates IL4 signaling pathway via SOCS1.</p> <p>PMID:16713974</p> <p>INFG signaling inhibits p38 activation</p> <p>PMID:15814715, PMID:18272812, PMID:17016554</p> <p>STAT1 is involeved in immunosupresive activity of M2 macrophages and MDSC, probably downstream of IFNG.</p> <p>activation of MSCs is initiated in response to IFN-gamma, presumably produced in situ by antitumor T cells in the tumor microenvironment.</p> <p>PMID:16424049</p> <p>The secretion of interleukin (IL)-10 and transforming growth factor-beta by Gr-1(+)CD115(+) MSCs and iNOS expression was induced and enhanced, respectively, on IFN-gamma stimulation.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 expression.</p> <p>NK cells stimuletad by IL4 have NK2 subtype</p> <p>PMID:21149606</p> <p> Nkp80 signaling induces marked IFNG production</p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway</p> <p>PMID:11489965, PMID:15778339</p> <p>KIR2DL4 transduces signals into human NK cells through association with the Fc receptor gamma protein. 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IFNGR2"/> <bbox w="80.0" h="50.0" x="23805.0" y="2715.0"/> <glyph class="unit of information" id="_53082c7d-7ebc-40ac-9fb6-190aa9f314ff"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23822.5" y="2710.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1627_in_sa1627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="23892.5" y="2765.0"/> <glyph class="state variable" id="_84254f83-6f62-47d4-97cd-1fb88447fb9a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23887.5" y="2780.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1628_in_sa1628"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="23802.5" y="2765.0"/> <glyph class="state variable" id="_b71e48d4-50a5-4c3e-9a46-57a406ec610a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23797.5" y="2780.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1630_in_sa1630"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IFNGR1"/> <bbox w="80.0" h="50.0" x="23895.0" y="2715.0"/> <glyph class="state variable" id="_d99daecb-6a82-46c8-b318-5ff6e076be4e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23887.5" y="2734.9602"/> </glyph> <glyph class="unit of information" id="_0282d1c7-9ec6-4c9f-a7d1-afaf58a4d9a5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23912.5" y="2710.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa816_ca_sa816"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa816_ca_sa816"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGFBP3"/> <bbox w="80.0" h="40.0" x="5570.0" y="570.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa56_wca1_wca3_csa56" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP*:KLF8</p> <p>References:</p> <p>s_wca3_re118:(MAP:survival) PMID:10756197</p> <p>s_wca3_re114(MAP:survival):</p> <p>KLF8 recruits P300</p> <p>PMID:22761862 PMID:20107328</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa56_wca1_wca3_csa56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10756197"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20107328"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP*:KLF8"/> <bbox w="93.0" h="128.0" x="20832.06" y="21918.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa341_wca1_wca3_sa341"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kruppel-like factor 8</p> <p>HUGO:KLF8 HGNC:6351 ENTREZ:11279 UNIPROT:O95600 GENECARDS:KLF8 KEGG:11279 ATLASONC:GC_KLF8 WIKI:KLF8</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES</p> </body> </html> </notes> <label text="KLF8"/> <bbox w="80.0" h="40.0" x="20837.56" y="21933.0"/> <glyph class="state variable" id="_7dc407fe-9bda-40e8-a182-ad0eb0bf896c"> <state value="" variable="K67"/> <bbox w="25.0" h="10.0" x="20825.06" y="21928.932"/> </glyph> <glyph class="state variable" id="_478e11a7-c870-4abb-acc4-37c90eeeca07"> <state value="" variable="K95"/> <bbox w="25.0" h="10.0" x="20905.06" y="21966.38"/> </glyph> <glyph class="state variable" id="_d4587c03-6343-415b-8f18-b223375f1eb9"> <state value="" variable="K93"/> <bbox w="25.0" h="10.0" x="20903.908" y="21928.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa342_wca1_wca3_sa342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="20838.06" y="21978.0"/> <glyph class="state variable" id="_55395fb0-2f1f-4053-85c5-10e8b5e9edbd"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="20903.06" y="21973.213"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa254_emtc_em_csa254" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:HRAS</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="HRAS_GDP"/> <bbox w="67.0" h="60.0" x="6633.875" y="13374.25"/> <glyph class="macromolecule" id="s_id_emtc_em_sa808_emtc_em_sa808"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HUGO:HRAS, HGNC:5173, ENTREZ:3265, GENECARDS:GC11M000522, UNIPROT:P01112</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HRAS"/> <bbox w="40.0" h="20.0" x="6648.875" y="13380.25"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1612_emtc_em_sa1612"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="35.0" h="17.0" x="6652.75" y="13398.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1447_rc_sa1447" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1447_rc_sa1447"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2L11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2L11"/> <bbox w="80.0" h="40.0" x="22271.56" y="11940.75"/> <glyph class="state variable" id="_cc349cad-b9d6-4b23-ba75-5c4de5cb0a83"> <state value="?" variable="S58"/> <bbox w="30.0" h="10.0" x="22336.56" y="11935.966"/> </glyph> <glyph class="state variable" id="_2e651a2e-4be3-4a01-9df5-446bbc0c6fd6"> <state value="?" variable="S44"/> <bbox w="30.0" h="10.0" x="22257.053" y="11935.75"/> </glyph> <glyph class="state variable" id="_19a64282-7877-4c14-9ed5-14889beefdc6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22323.36" y="11975.75"/> </glyph> <glyph class="state variable" id="_0660674c-18bd-410d-bb89-078c94ad0ee9"> <state value="?" variable="T56"/> <bbox w="30.0" h="10.0" x="22296.592" y="11935.75"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa447_ca_sa447"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12118074 , PMID:3491869</p> <p>p38 mitogen-activated protein kinase is required for TGFβ-mediated fibroblastic transdifferentiation and cell migration</p> <p>PMID:23505219</p> <p>Platelet-derived growth factor-D and Rho GTPases regulate recruitment of cancer-associated fibroblasts in cholangiocarcinoma</p> <p>In fibroblasts, PDGF-D activated the Rac1 and Cdc42 Rho GTPases and c-Jun N-terminal kinase (JNK). Selective inhibition of Rho GTPases (particularly Rac1) and of JNK strongly reduced PDGF-D-induced fibroblast migration. </p> <p>PMID:20861157 </p> <p>MIF inhibits in CXCR2/CD74-dependent manner recruitment of CAFs to the growing tumor.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa447_ca_sa447"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12118074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="s_id_in_sa594_in_sa594"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NKp80*"/> <bbox w="86.0" h="56.0" x="21534.5" y="1522.0"/> <glyph class="unit of information" id="_5c6ac681-c77c-440b-8cd8-82f1a00d3bb0"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="21567.5" y="1517.0"/> </glyph> <glyph class="state variable" id="_f268aca3-e016-4c71-9d51-0eb1c1e26cf3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21529.5" y="1545.0"/> </glyph> <glyph class="unit of information" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA4 is so-called Connexin 37</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="GJA4/GJA4"/> <bbox w="122.0" h="37.0" x="1040.25" y="17774.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1303_emtc_em_sa1303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 4, 37kDa</p> <p>HUGO:GJA4, HGNC:4278, ENTREZ:2701 , UNIPROT:P35212, GENECARDS:GC01P035258  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA4 is so-called Connexin 37</p> <p>Confidence_begin:</p> </body> </html> </notes> 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text="CDK2:CyclinE*"/> <bbox w="100.0" h="120.0" x="13707.561" y="20927.5"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa130_akt1_akt2_sa130"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin E1</p> <p>HUGO:CCNE1 HGNC:1589 ENTREZ:898 UNIPROT:P24864 GENECARDS:CCNE1 REACTOME:87225 KEGG:898 ATLASONC:GC_CCNE1 WIKI:CCNE1 </p> <p>cyclin E2</p> <p>HUGO:CCNE2 HGNC:1590 ENTREZ:9134 UNIPROT:O96020 GENECARDS:CCNE2 REACTOME:87228 KEGG:9134 ATLASONC:GC_CCNE2 WIKI:CCNE2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CyclinE*"/> <bbox w="80.0" h="40.0" x="13715.061" y="20940.5"/> <glyph class="state variable" id="_73b2f977-423c-413f-83cc-dccf41439b8a"> <state value="P" variable="T380"/> <bbox w="35.0" h="10.0" x="13697.564" y="20935.5"/> </glyph> <glyph class="state variable" id="_2a0730c6-845d-440b-906d-603e2d0f2214"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="13705.064" y="20975.5"/> </glyph> <glyph class="state variable" id="_2538c161-8781-4804-90e2-2a59a6d1c4f0"> <state value="P" variable="S384"/> <bbox w="35.0" h="10.0" x="13777.561" y="20935.713"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa129_akt1_akt2_sa129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2 HGNC:1771 ENTREZ:1017 UNIPROT:P24941 GENECARDS:CDK2 REACTOME:87018 KEGG:1017 ATLASONC:GC_CDK2 WIKI:CDK2</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:dnarepair / MODULE:S_CC_PHASE, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="13718.061" y="20983.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa758_ad_sa758" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12356734</p> <p>CARD11(CARMA1) mediates NF-kappaB activation by alphaCD3/alphaCD28 cross-linking.</p> <p>CARD11 functions upstream of the IKK complex. </p> <p> wild‐type CARD11 co‐precipitating with endogenous Bcl10</p> <p>CARMA1 only expresses in lymphocytes</p> <p>PMID:20685844 </p> <p>CARMA1, a critical target of PKCθ phosphorylation, resides in lymphocytes in an inactive state. Extensive CARMA1 mutagenesis data suggest that this inactive state is maintained by intramolecular interactions that prevent the CARMA1 CARD from interacting with the CARD of BCL10 12 and 13. PKCθ phosphorylates human CARMA1 at three serine residues, S552, S645 and S637 (S564, S657, S649 in mice)</p> <p>PMID:11356195; PMID:17052756; PMID:21199863 </p> <p>CARMA1 induces BCL10 phosphorylation via CaMKII </p> <p>PMID:16809782;PMID:17052756 </p> <p>In the immune synapse, CaMKII phosphorylates Carma1 on Ser109 and the phosphorylation increases the interaction between Carma1 and Bcl10.</p> <p>Carma1/Bcl10/Malt1 complex induces NF-κB activation (Sun et al., 2004). Accordingly based on the findings in the present study, CaMKII phosphorylates Bcl10 on Ser138 while IKKβ phosphorylates residues Ser134, 136, 138, 141 and 144 (Wegener et al., 2006). Phosphorylation of Bcl10 disrupts Bcl10/Malt1 association (Wegener et al., 2006), and attenuates NF-κB activation.</p> <p>PMID:17363905 </p> <p>PKC-θ regulates TGF-β–activated kinase 1 (TAK1), a member of the MAPKK kinase family, leading to activation of IKK and NF-κB in a CARMA1-independent manner in the TCR pathway</p> <p>TAK1 activation was significantly inhibited with the pretreatment of the PKC inhibitor in both Jurkat and JPM50.6 cells (Figure 6A, lower panels). Together, these results suggest that PKC functions upstream of TAK1 and TAK1 regulates IKKα/β phosphorylation in the TCR signaling pathway.</p> <p>PKCθ, TAK1, and IKK assemble into a complex in a signal‐dependent but CARMA1‐independent manner, whereas BCL10 and MALT1 require CARMA1 to associate with the PKCθ–TAK1–IKK complex. Together, our results suggest a model in which TAK1 functions downstream of PKC and phosphorylates IKKα/β in a CARMA1‐independent manner, and, together with CARMA1‐dependent ubiquitination of NEMO, leads to activation of the IKK complex and NF‐κB in antigen receptor signaling pathways</p> <p>CARMA1 is essential for the ubiquitination of NEMO</p> <p>NEMO, but not its ubiquitination, is required for IKKα/β phosphorylation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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y="6260.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa501_an_sa501"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Synonyms: "CD36 antigen (collagen type I receptor, thrombospondin receptor)"</p> <p>HUGO:CD36 HGNC:1663</p> <p>PMID:?2015-MOJCSR-02-00015</p> </body> </html> </notes> <label text="CD36"/> <bbox w="80.0" h="50.0" x="4032.0" y="6220.0"/> <glyph class="unit of information" id="_595167d1-0b91-495c-8870-59ad701b60e9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4049.5" y="6215.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa500_an_sa500"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:THBS1</p> </body> </html> </notes> <label text="TSP*"/> <bbox w="80.0" h="40.0" x="3952.0" y="6222.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1505_in_sa1505" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1505_in_sa1505"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLR4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TLR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TLR2/4*"/> <bbox w="80.0" h="50.0" x="23420.0" y="1380.0"/> <glyph class="unit of information" id="_acef5a8e-7d57-4c4f-971c-8e368b0cde15"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23437.5" y="1375.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa464_ad_sa464" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0MODULE:TCR_SIGNALINGPMID:24973821mTOR has positive influence on GZMA level in the NK cells. ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0MODULE:TCR_SIGNALINGPMID:24973821mTOR has positive influence on GZMA level in the NK cells. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa464_ad_sa464"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24973821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GZMB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24973821"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMA"/> <bbox w="90.0" h="25.0" x="28681.0" y="7947.5"/> <glyph class="unit of information" id="_046067fc-fb68-4ee5-8df4-cd561d341946"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28716.0" y="7942.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4910_rc_sa4910" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4910_rc_sa4910"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NPLOC4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NPL4*"/> <bbox w="80.0" h="40.0" x="28739.06" y="13679.0"/> </glyph> <glyph 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h="120.0" x="29846.0" y="7410.0"/> <glyph class="macromolecule" id="s_id_ad_sa1185_ad_sa1185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>HUGO:CDC42</p> <p>PMID:7761442</p> <p>Regulation of the polarization of T cells toward antigen-presenting cells by Ras-related GTPase CDC42.</p> <p>Overexpression of dominant negative forms of Cdc42 prevents centrosome polarization, but actin polymerization is unaffected</p> <p>PMID:22821962 </p> </body> </html> </notes> <label text="CDC42"/> <bbox w="80.0" h="40.0" x="29856.0" y="7420.0"/> </glyph> <glyph class="simple chemical" id="s_id_ad_sa1194_ad_sa1194"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> <p>CHEBI:15996, KEGGCOMPOUND:C00044, CAS:86-01-1</p> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="29861.0" y="7467.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa4_mo_csa4" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Formin*/Profilin*/Actin cytoskeletal*"/> <bbox w="180.0" h="214.0" x="5876.0" y="9499.0"/> <glyph class="macromolecule" id="s_id_mo_sa378_mo_sa378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Profilin 1</p> </body> </html> </notes> <label text="Profilin*"/> <bbox w="80.0" h="40.0" x="5921.4116" y="9564.823"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa377_mo_sa377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>formin 1</p> </body> </html> </notes> <label text="Formin*"/> <bbox w="80.0" h="40.0" x="5926.0" y="9516.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa376_mo_sa376"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ACTA1, HUGO:ACTA2, HUGO:ACTB, HUGO:ACTC1, HUGO:ACTG1, HUGO:ACTG2</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="162.0" h="37.0" x="5883.4116" y="9619.823"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2597_rc_sa2597" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2597_rc_sa2597"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLRX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLRX"/> <bbox w="80.0" h="40.0" x="27776.56" y="12436.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa350_an_sa350" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa350_an_sa350"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ERK2*"/> <bbox w="80.0" h="40.0" x="5785.0" y="6491.0"/> <glyph class="state variable" id="_6ac1a2cf-909b-40f6-a983-c01c885c1f8b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5834.0684" y="6486.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3665_rc_sa3665" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3665_rc_sa3665"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CFLAR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CFLAR"/> <bbox w="80.0" h="40.0" x="21999.06" y="10706.0"/> <glyph class="state variable" id="_5a0551a1-c9e8-446f-ab0d-9737c9c03f57"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="22045.629" y="10701.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2388_rc_sa2388" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2388_rc_sa2388"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ESRRA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ESRRA"/> <bbox w="80.0" h="40.0" x="20159.06" y="15855.87"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2086_rc_sa2086" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2086_rc_sa2086"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RRM2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RRM2B"/> <bbox w="80.0" h="40.0" x="18762.81" y="11715.25"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa211_wca1_wca3_sa211" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa211_wca1_wca3_sa211"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HES1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HES1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HES1"/> <bbox w="70.0" h="25.0" x="21967.06" y="21222.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa182_ca_sa182" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa182_ca_sa182"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL2"/> <bbox w="90.0" h="25.0" x="845.0" y="3517.0"/> <glyph class="unit of information" id="_95d0d426-a387-4370-8bea-48bf8cee41b4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="880.0" y="3512.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5398_rc_sa5398" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:absent in melanoma 2</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5398_rc_sa5398"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIM2"/> <clone/> <bbox w="80.0" h="50.0" x="28649.06" y="9454.0"/> <glyph class="unit of information" id="_076dffb9-43df-421a-8c18-e21808304259"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28666.56" y="9449.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5398_rc_sa5458" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:absent in melanoma 2</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5398_rc_sa5458"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIM2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIM2"/> <clone/> <bbox w="80.0" h="50.0" x="28779.06" y="9274.0"/> <glyph class="unit of information" id="_e456e9f9-b44b-4957-822d-3a6cb9e7588b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="28796.56" y="9269.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa73_an_sa73" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10449407</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa73_an_sa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COL18A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10449407"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Endostatin*"/> <bbox w="80.0" h="40.0" x="6292.0" y="7445.0"/> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1405_emtc_em_sa1405" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Lamellipodium formation"/> <bbox w="170.0" h="20.0" x="5459.0" y="12935.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa153_shh1_shh2_sa153" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa153_shh1_shh2_sa153"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARC"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CXCL10"/> <bbox w="80.0" h="40.0" x="13520.0" y="1665.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4745_rc_sa4745" compartmentRef="s_id_rc_ca41_rc_ca41"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4745_rc_sa4745"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MBTPS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S1P*"/> <bbox w="80.0" h="40.0" x="28690.31" y="15414.0"/> </glyph> <glyph class="phenotype" id="s_id_an_sa263_an_sa263" compartmentRef="s_id_an_ca1_an_ca1"> <label text="NOS Pathway"/> <bbox w="110.0" h="25.0" x="6077.0" y="7142.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa207_an_sa207" compartmentRef="s_id_an_ca1_an_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa207_an_sa207"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENPP2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Autotaxin*"/> <bbox w="80.0" h="40.0" x="4699.0" y="7140.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa17_wca1_wca3_csa17" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NLK:TAB1:TAB2:TAK1*</p> <p>References:</p> <p>s_wca3_re25:(MAP:survival) PMID:20194509</p> <p>s_wca3_re26:(MAP:survival) PMID:14960582</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa17_wca1_wca3_csa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20194509"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14960582"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NLK:TAB1:TAB2:TAK1*"/> <bbox w="108.0" h="218.0" x="21495.06" y="21336.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa144_wca1_wca3_sa144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 2</p> <p>MAP3K7IP2 "mitogen-activated protein kinase kinase kinase 7 interacting protein 2"</p> <p>HUGO:TAB2 HGNC:17075 ENTREZ:23118 UNIPROT:Q9NYJ8 GENECARDS:TAB2 REACTOME:168084 KEGG:23118 ATLASONC:GC_TAB2 WIKI:TAB2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB2"/> <bbox w="80.0" h="40.0" x="21507.06" y="21347.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa122_wca1_wca3_sa122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 GENECARDS:TAB1 REACTOME:65612 KEGG:10454 ATLASONC:GC_TAB1 WIKI:TAB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB1"/> <bbox w="80.0" h="40.0" x="21508.06" y="21391.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa124_wca1_wca3_sa124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="21508.06" y="21432.5"/> <glyph class="state variable" id="_04dd3584-2ad8-46da-a8f9-7d7645f660fd"> <state value="P" variable="T184"/> <bbox w="35.0" h="10.0" x="21491.053" y="21427.5"/> </glyph> <glyph class="state variable" id="_27dc2ee5-9c8d-4ee6-af96-4be7115eab86"> <state value="P" variable="T187"/> <bbox w="35.0" h="10.0" x="21570.56" y="21427.713"/> </glyph> <glyph class="state variable" id="_11e51704-c8e9-4f3d-9455-665c280ad47d"> <state value="P" variable="S192"/> <bbox w="35.0" h="10.0" x="21569.941" y="21467.5"/> </glyph> <glyph class="state variable" id="_5b004a58-b52a-405d-bf13-d8e862edce88"> <state value="P" variable="T178"/> <bbox w="35.0" h="10.0" x="21490.56" y="21467.22"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_wca1_wca3_sa140_wca1_wca3_sa140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nemo-like kinase</p> <p>"nemo like kinase"</p> <p>HUGO:NLK HGNC:29858 ENTREZ:51701 UNIPROT:Q9UBE8 GENECARDS:NLK KEGG:2821 ATLASONC:GC_NLK WIKI:NLK</p> <p>Map modules:</p> </body> </html> </notes> <label text="NLK"/> <bbox w="86.0" h="46.0" x="21507.31" y="21480.295"/> <glyph class="unit of information" id="_cea383d9-ba06-4bd5-9e91-fccda29df19d"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="21540.31" y="21475.295"/> </glyph> <glyph class="state variable" id="_7e306059-3724-45c8-a7ce-2c1fcce1b76c"> <state value="P" variable="T286"/> <bbox w="35.0" h="10.0" x="21575.81" y="21475.54"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2202_in_sa2202"> <label text="iC3b*"/> <bbox w="80.0" h="40.0" x="17772.5" y="1180.0"/> <glyph class="unit of information" id="_f8951fcf-ee0e-4050-bcb7-b0181d01af8a"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="17787.5" y="1175.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1111_emtc_em_sa1111" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1111_emtc_em_sa1111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PKN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PKN1"/> <bbox w="42.0" h="17.0" x="5923.0" y="14941.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa64_rc_csa64" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAPKAP1:MLST8:MTOR:RICTOR</p> </body> </html> </notes> <label text="mTORC2"/> <bbox w="174.0" h="112.0" x="26621.06" y="10649.0"/> <glyph class="macromolecule" id="s_id_rc_sa2680_rc_sa2680"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="26627.06" y="10696.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2679_rc_sa2679"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="26709.06" y="10654.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2681_rc_sa2681"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR, complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327</p> <p>Map modules:</p> 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GZMB"/> <bbox w="80.0" h="40.0" x="20042.06" y="12422.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa280_emtc_em_csa280" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BIM1_KLF4_SOX2*:MIR183</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:20706219</p> <p>BMI1, KLF4 and SOX2 are targets of MIR183</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa280_emtc_em_csa280"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MIR183/BIM1_KLF4_SOX2*)"/> <bbox w="171.0" h="62.0" x="2846.5" y="17989.5"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1848_emtc_em_sa1848"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 183</p> <p>HUGO:MIR183, HGNC:31554, ENTREZ:406959, GENECARDS:GC07M129416</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR183"/> <bbox w="81.0" h="19.0" x="2894.0" y="17990.5"/> <glyph class="unit of information" id="_bd959a46-cae1-4220-a2d3-df392ade67fd"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2919.5" y="17985.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1847_emtc_em_sa1847"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BMI1_KLF4_SOX2*</p> <p>BMI1 polycomb ring finger oncogene</p> <p>HUGO:BMI1, HGNC:1066, ENTREZ:648, GENECARDS:GC10P022605</p> <p>Kruppel-like factor 4 (gut)</p> <p>HUGO:KLF4, HGNC:6348, ENTREZ:9314, GENECARDS:GC09M110247</p> <p>SRY (sex determining region Y)-box 2</p> <p>HUGO:SOX2, HGNC:11195, ENTREZ:6657, GENECARDS:GC03P181429</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:21224848</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BIM1_KLF4_SOX2*"/> <bbox w="135.0" h="21.0" x="2868.0" y="18010.5"/> <glyph class="unit 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rdf:resource="urn:miriam:hgnc.symbol:CDC20B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC20B"/> <bbox w="70.0" h="25.0" x="21929.06" y="16304.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa145_ce_sa145" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa145_ce_sa145"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RBBP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTIP*"/> <bbox w="80.0" h="40.0" x="13232.019" y="11124.0"/> <glyph class="state variable" id="_c6ad3669-0bc9-4cf0-b77c-73545343ae7b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13227.019" y="11139.0"/> </glyph> <glyph class="state variable" id="_099b4268-1796-4d83-b440-71a4dd02d61a"> <state value="" variable="T847"/> <bbox w="30.0" h="10.0" x="13217.019" y="11125.852"/> </glyph> <glyph class="state variable" id="_ca29e543-a332-45ef-b098-ac1546eec740"> <state value="" variable="S267"/> <bbox w="30.0" h="10.0" x="13217.019" y="11149.371"/> </glyph> <glyph class="state variable" id="_6f5bf642-2f28-4bb9-baaf-99c7a8ea5028"> <state value="" variable="BRCA1-dep"/> <bbox w="55.0" h="10.0" x="13235.888" y="11159.0"/> </glyph> <glyph class="state variable" id="_bd8f9fb8-0a84-4fc5-aa98-668d16e60422"> <state value="" variable="S372"/> <bbox w="30.0" h="10.0" x="13240.613" y="11119.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa48_emtc_em_csa48" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LTBP1:Latency-associated protein*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="LAP*/LTBP1"/> <bbox w="176.0" h="62.0" x="1427.969" y="19317.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa423_emtc_em_sa423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latent transforming growth factor beta binding protein 1</p> <p>HUGO:LTBP1, HGNC:6714, ENTREZ:4052, UNIPROT:Q14766,GENECARDS:GC02P033172, UNIPROT:Q14766</p> <p>Map modules:</p> <p>MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LTBPs are microfibril-associated proteins that tether latent TGFB to the ECM</p> <p>There are 4 LTBP proteins (1, 2, 3, 4). 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<glyph class="macromolecule multimer" id="s_id_emtc_em_sa425_emtc_em_sa425"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="173.0" h="23.0" x="1429.219" y="19338.5"/> <glyph class="unit of information" id="_7ad1929d-ca0d-4905-812d-c0fb5aba149c"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1505.719" y="19333.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa271_ce_sa271" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Additional pathway names: alternative NHEJ (A_NHEJ or alt_NHEJ) or backup NHEJ (B_NHEJ) or MMEJA_NHEJ:DNA:st5Gap filled DNA Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):PMID:21376743, PMID:24050180, PMID:22743550 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Additional pathway names: alternative NHEJ (A_NHEJ or alt_NHEJ) or backup NHEJ (B_NHEJ) or MMEJA_NHEJ:DNA:st5Gap filled DNA Node_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:For A_NHEJ (alt_NHEJ or B_NHEJ or MMEJ):PMID:21376743, PMID:24050180, PMID:22743550 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa271_ce_sa271"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa42_rc_sa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IGFBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGFBP1"/> <bbox w="80.0" h="40.0" x="21204.06" y="15855.87"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa252_ca_sa252" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa252_ca_sa252"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD3"/> <bbox w="80.0" h="40.0" x="3920.0" y="1635.0"/> <glyph class="state variable" id="_19b97060-5909-442b-ad63-2a0385c3c2b3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3915.0" y="1650.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca2_sa107_wca1_wca2_sa107" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re43(MAP:survival):</p> <p>Y654-phosphorylated isoform is able to induce canonical TCF/LEF transcription</p> <p>PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa107_wca1_wca2_sa107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TCF_LEF transcriptional_BR_regulation"/> <bbox w="80.0" h="30.0" x="23940.06" y="19312.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa72_in_sa72" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD70"/> <bbox w="80.0" h="40.0" x="23060.0" y="8000.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4536_rc_sa4536" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="H20"/> <clone/> <bbox w="70.0" h="25.0" x="19444.06" y="17006.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4536_rc_sa4538" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="H20"/> <clone/> <bbox w="70.0" h="25.0" x="19227.06" y="16839.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa320_rc_csa320" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:TXN:TXNIP</p> </body> </html> </notes> <label text="TXN:TXNIP"/> <bbox w="100.0" h="120.0" x="28769.56" y="10622.0"/> <glyph class="macromolecule" id="s_id_rc_sa2881_rc_sa2881"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>thioredoxin interacting protein</p> <p>HUGO:TXNIP HGNC:16952 ENTREZ:10628 UNIPROT:Q9H3M7</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:GLUCOSE_METABOLISM</p> </body> </html> </notes> <label text="TXNIP"/> <bbox w="80.0" h="40.0" x="28779.56" y="10678.0"/> <glyph class="state variable" id="_fbba8d87-0a04-42da-9561-8acfb31118b4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28831.129" y="10673.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2882_rc_sa2882"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>thioredoxin</p> <p>HUGO:TXN HGNC:12435 ENTREZ:7295 UNIPROT:P10599</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="TXN"/> <bbox w="80.0" h="40.0" x="28778.56" y="10635.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa892_ad_sa892" compartmentRef="s_id_ad_ca2_ad_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa892_ad_sa892"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K7"/> <bbox w="80.0" h="40.0" x="26526.0" y="4705.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1090_emtc_em_sa1090" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1090_emtc_em_sa1090"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGDIG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGDIG"/> <bbox w="63.0" h="16.0" x="5451.5" y="14366.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa69_ad_csa69" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CASCADE:IL15, CASCADE:CSF2</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> <p>PMID:12906785, PMID:19022819 </p> <p>AKT activates Rapamycin associated protein FRAP2 ( mTOR ) probably through Tuberin/GTP-binding protein Ras homolog enriched in brain ( RHEB ) pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa69_ad_csa69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12906785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19022819"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSC1:TSC2"/> <bbox w="100.0" h="140.0" x="29746.0" y="4580.0"/> <glyph class="macromolecule" id="s_id_ad_sa660_ad_sa660"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TSC1</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:TCR</p> <p>PMID:12906785, PMID:19022819 </p> </body> </html> </notes> <label text="TSC1"/> <bbox w="80.0" h="40.0" x="29756.0" y="4600.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa661_ad_sa661"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TSC2</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12906785, PMID:19022819 </p> </body> </html> </notes> <label text="TSC2"/> <bbox w="80.0" h="40.0" x="29756.0" y="4650.0"/> <glyph class="state variable" id="_bde2c4fe-2c95-4cba-a4fe-57aedc3d5822"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="29751.0" y="4665.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa564_ca_sa564" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:TNF, CASCADE:INTEGRINPMID:11112697 TNF-α upregulates MT1-MMP (MMP14) mRNA in organ-cultured human skin and dermal fibroblasts in a collagen environmentNF-κB inhibitor, SN50, blocks TNF-α and collagen mediated MT1-MMP expression and pro-MMP-2 activation.PMID:17420280 Analysis of matrix metalloproteinase in vitro and in vivo revealed disturbed MMP13 and MMP14 synthesis in alpha11(-/-) cells. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:TNF, CASCADE:INTEGRINPMID:11112697 TNF-α upregulates MT1-MMP (MMP14) mRNA in organ-cultured human skin and dermal fibroblasts in a collagen environmentNF-κB inhibitor, SN50, blocks TNF-α and collagen mediated MT1-MMP expression and pro-MMP-2 activation.PMID:17420280 Analysis of matrix metalloproteinase in vitro and in vivo revealed disturbed MMP13 and MMP14 synthesis in alpha11(-/-) cells. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa564_ca_sa564"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17420280"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11112697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17420280"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14"/> <bbox w="70.0" h="25.0" x="5105.0" y="4427.5"/> </glyph> <glyph class="source and sink" id="s_id_ca_sa910_ca_sa910" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ca_csa102_degraded"/> <bbox w="30.0" h="30.0" x="5605.0" y="1205.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa50_akt1_akt2_csa50" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDT2*:CUL4*:DDB1*:RBX1</p> <p>References:</p> <p>s_akt2_re149:(MAP:survival) PMID:19440234</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa50_akt1_akt2_csa50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDT2*:CUL4*:DDB1*:RBX1"/> <bbox w="183.0" h="126.0" x="13864.061" y="21115.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa287_akt1_akt2_sa287"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cullin 4A</p> <p>HUGO:CUL4A HGNC:2554 ENTREZ:8451 UNIPROT:Q13619 GENECARDS:CUL4A ATLASONC:GC_CUL4A WIKI:CUL4A </p> <p>cullin 4B</p> <p>HUGO:CUL4B HGNC:2555 ENTREZ:8450 UNIPROT:Q13620 GENECARDS:CUL4B KEGG:8450 ATLASONC:GC_CUL4B WIKI:CUL4B</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:NER, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <label text="CUL4*"/> <bbox w="80.0" h="40.0" x="13957.061" y="21175.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa288_akt1_akt2_sa288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DDB1 and CUL4 associated factor 4</p> <p>HUGO:DCAF4 HGNC:20229 ENTREZ:26094 UNIPROT:Q8WV16 GENECARDS:DCAF4 KEGG:26094 WIKI:DCAF4 </p> <p>DDB1 and CUL4 associated factor 5</p> <p>HUGO:DCAF5 HGNC:20224 ENTREZ:8816 UNIPROT:Q96JK2 GENECARDS:DCAF5 KEGG:8816 ATLASONC:GC_DCAF5 WIKI:DCAF5 </p> <p>DDB1 and CUL4 associated factor 6</p> <p>HUGO:DCAF6 HGNC:30002 ENTREZ:55827 UNIPROT:Q58WW2 GENECARDS:DCAF6 KEGG:55827 ATLASONC:GC_DCAF6 WIKI:DCAF6 </p> <p>DDB1 and CUL4 associated factor 7</p> <p>HUGO:DCAF7 HGNC:30915 ENTREZ:10238 UNIPROT:P61962 GENECARDS:DCAF7 KEGG:10238 ATLASONC:GC_DCAF7 WIKI:DCAF7 </p> <p>DDB1 and CUL4 associated factor 8</p> <p>HUGO:DCAF8 HGNC:24891 ENTREZ:50717 UNIPROT:Q5TAQ9 GENECARDS:DCAF8 KEGG:50717 WIKI:DCAF8 </p> <p>DDB1 and CUL4 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WIKI:DCAF17</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18381890</p> </body> </html> </notes> <label text="DDB1*"/> <bbox w="80.0" h="40.0" x="13873.061" y="21129.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa289_akt1_akt2_sa289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CDT2</p> <p>HUGO:DTL HGNC:30288 ENTREZ:51514 UNIPROT:Q9NZJ0 GENECARDS:DTL KEGG:10673 ATLASONC:GC_DTL WIKI:DTL</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="CDT2*"/> <bbox w="80.0" h="40.0" x="13956.061" y="21129.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa286_akt1_akt2_sa286"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin 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y="16960.5"/> <glyph class="unit of information" id="_db3e373e-0cb7-4d27-93c0-3a80f6ab80a1"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2755.5" y="16955.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa955_emtc_em_sa955" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa955_emtc_em_sa955"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BMI1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BMI1"/> <bbox w="42.0" h="16.0" x="2839.0" y="16528.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa165_emtc_em_csa165" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAK1:BCL2-XL*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="BAK1/BCL2L1"/> <bbox w="103.0" h="49.0" x="5303.25" y="13783.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa920_emtc_em_sa920"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1, HGNC:992, ENTREZ:598, UNIPROT:Q07817, GENECARDS:GC20M030252</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:12667443</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:22836101</p> <p>BCL2L1 (BCL-X) promotes survival of adult and developing retinal ganglion cells.</p> <p>The activation of the pro-death family member BAX is often the final step before cell death in neurons. </p> <p>Pro-survival family members such as BCL2L1 act to inhibit BAX activation</p> <p>PMID:23064052</p> <p>PMID:11085534</p> <p>BCL2 and BCL2L1 are known to be overexpressed in several cancers. </p> <p>In particular, BCL2L1 overexpression has been correlated with cancer cells resistance to chemotherapeutic agents</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="61.0" h="22.0" x="5305.75" y="13788.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa921_emtc_em_sa921"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-antagonist/killer 1</p> <p>HUGO:BAK1, HGNC:949, ENTREZ:578, UNIPROT:Q16611, GENECARDS:GC06M033489</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="BAK1"/> <bbox w="34.0" h="16.0" x="5368.0" y="13792.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa54_akt1_akt2_csa54" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:RUNX2:promoter_region</p> <p>References:</p> <p>s_akt2_re157:(MAP:survival) PMID:20580290</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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ATLASONC:RUNX2ID42183ch6p21 WIKI:RUNX2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20946121</p> </body> </html> </notes> <label text="RUNX2"/> <bbox w="80.0" h="40.0" x="13901.311" y="21414.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa312_akt1_akt2_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="13906.561" y="21468.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa11_emtc_em_csa11" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TGFB1:TGFBR2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Reference_bigin:</p> <p>PMID:22943793</p> <p>TGFb binds to homodimer TGFBR2 first</p> <p>TGFBR2 phosphorylates the GS domain of homodimeric TFGBR1 on serine residues</p> <p>This phosphorylation leads to incorporation of TGFBR1 and formation of a large ligand-receptor complex of fimeric TGFB and two pairs of TGFBR1 and TGFBR2</p> <p>PMID:12809600</p> <p>PMID:22710166</p> <p>The active ligand–receptor complex is a heterotetrameric complex</p> <p>This complex consists of an active dimer of TGFB and homodimers of both TGFBRI and TGFBR2. </p> <p>Within the active receptor complex, TGFBR2autophosphorylates itself and catalyzes transphosphorylation of the TGFBR1.</p> <p>Transphosphorylation of the TGFBRI activates its kinase activity.</p> <p>Reference_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa11_emtc_em_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22943793"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12809600"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22710166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFB1/TGFBR2"/> <bbox w="60.0" h="97.0" x="6698.0" y="16742.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa221_emtc_em_sa221"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="50.0" h="26.0" x="6703.25" y="16746.5"/> <glyph class="unit of information" id="_b7f3c5c8-2299-45b9-89d7-a96da121dc66"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6718.25" y="16741.5"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa212_emtc_em_sa212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta receptor II (70/80kDa)</p> <p>HUGO:TGFBR2, HGNC:11773, ENTREZ:7048, UNIPROT:P37173, GENECARDS:GC03P030623</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="53.0" h="47.0" x="6700.625" y="16773.25"/> <glyph class="unit of information" id="_a23f28ab-f21a-43fd-805e-b4ee0ac79194"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6717.125" y="16768.25"/> </glyph> <glyph class="state variable" id="_288be911-f547-4925-8d4d-49b82a6e5f68"> <state value="" variable="Ser"/> <bbox w="25.0" h="10.0" x="6688.125" y="16771.072"/> </glyph> <glyph class="unit of information" id="_55db62a8-900b-465b-b7a8-14dddd02cd27"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6704.625" y="16768.25"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5225_rc_sa5225" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:26523</p> </body> </html> </notes> <label text="ROS"/> <clone/> <bbox w="70.0" h="25.0" x="19354.06" y="16476.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5225_emtc_em_sa1961" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:26523</p> </body> </html> </notes> <label text="ROS"/> <clone/> <bbox w="36.0" h="30.0" x="3094.5" y="17716.5"/> </glyph> <glyph class="macromolecule multimer" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1806_emtc_em_sa1806"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KRT5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KRT5"/> <bbox w="58.0" h="16.0" x="5362.5" y="15621.5"/> </glyph> <glyph class="complex" id="s_id_ad_csa125_ad_csa125" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5358"/> <bbox w="100.0" h="120.0" x="27896.0" y="3860.0"/> <glyph class="macromolecule" id="s_id_ad_sa1057_ad_sa1057"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TEC</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. Step 2: once at the</p> <p>membrane, Tec kinases are phosphorylated</p> <p>on a tyrosine in their activation loop by SFKs.</p> <p>Subsequently, the SH3 domain is</p> <p>autophosphorylated.</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>Tec family kinases directly activate PLCγ1 and regulate Ca2+ responses in immune cells</p> </body> </html> </notes> <label text="TEC"/> <bbox w="80.0" h="40.0" x="27906.0" y="3910.0"/> <glyph class="state variable" id="_644930b1-3118-4515-82bb-cab591dd3579"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27898.5" y="3925.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ad_sa1055_ad_sa1055"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11062502, PMID:11385609, PMID:11907067, PMID:15536084</p> <p>Nkp46 controls NK cytolitic activity via PI3K /RAC1/PAK1/MEK /ERK pathway, probably throught SYK </p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway (PMID:11777960</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="27911.0" y="3877.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa820_in_sa820" compartmentRef="s_id_in_ca48_in_ca48"> <label text="CDH2"/> <bbox w="80.0" h="40.0" x="10740.0" y="970.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1371_ad_sa1371" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>PMID:24484736 In Tregs, Foxp3 modulates GITR expression: ectopic expression of Foxp3 in initially GITRlo CD4+CD25− cells confers both suppressive activity and high-level GITR expression [17]. In conventional T cells, GITR is reciprocally regulated by classical nuclear factor κB (NF-κB; RelA most critical, but cRel and p50 are also important) and nuclear factor of activated T cells (NFAT), with NF-κB inducing and NFAT repressing GITR expression downstream of TCR signals ----- content merged by Celldesigner to SBGN-ML translation ------ PMID:24484736 In Tregs, Foxp3 modulates GITR expression: ectopic expression of Foxp3 in initially GITRlo CD4+CD25− cells confers both suppressive activity and high-level GITR expression [17]. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>X-ray repair complementing defective repair in Chinese hamster cells 4</p> <p>HUGO:XRCC4, HGNC:12831, ENTREZ:7518, UNIPROT:Q13426</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:C_NHEJ</p> <p>References:</p> <p>PMID:20691907, PMID:19772495, PMID:19346677, PMID:15703371, PMID:19847258, PMID:16697054, PMID:19473888, PMID:19808869</p> </body> </html> </notes> <label text="XRCC4"/> <bbox w="80.0" h="40.0" x="13243.973" y="16683.355"/> <glyph class="unit of information" id="_bf53b002-2391-4c92-ada0-9fb566abf2be"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="13273.973" y="16678.355"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa517_ce_sa517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ligase IV, DNA, ATP-dependent</p> <p>HUGO:LIG4, 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16174</p> </body> </html> </notes> <label text="dADP"/> <bbox w="70.0" h="25.0" x="19774.06" y="11496.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa494_emtc_em_sa494" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa494_emtc_em_sa494"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSK3B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GSK3β*"/> <bbox w="56.0" h="19.0" x="3310.0" y="14508.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa819_in_sa819" compartmentRef="s_id_in_ca48_in_ca48"> <label text="CDH1"/> <bbox w="80.0" h="40.0" x="10630.0" y="970.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa3_wnc1_wnc4_csa3" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Cytoskeleton:E-Cadherin*:_alpha_-Catenin*:_beta_-Catenin*:p120*</p> <p>References:</p> <p>s_wnc4_re4:(MAP:survival) PMID:22558232</p> <p>s_wnc4_re5:(MAP:survival) PMID:16099633</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa3_wnc1_wnc4_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22558232"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16099633"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Adhesion-complex)"/> <bbox w="293.0" h="159.0" x="17337.06" y="20848.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa18_wnc1_wnc4_sa18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) alpha 1 102kDa</p> <p>HUGO:CTNNA1 HGNC:2509 ENTREZ:1495 UNIPROT:P35221 GENECARDS:CTNNA1 REACTOME:53044 KEGG:1495 ATLASONC:GC_CTNNA1 WIKI:CTNNA1 </p> <p>catenin (cadherin-associated protein) alpha 2</p> <p>HUGO:CTNNA2 HGNC:2510 ENTREZ:1496 UNIPROT:P26232 GENECARDS:CTNNA2 REACTOME:53046 KEGG:1496 WIKI:CTNNA2 </p> <p>catenin (cadherin-associated protein) alpha 3</p> <p>HUGO:CTNNA3 HGNC:2511 ENTREZ:29119 UNIPROT:Q9UI47 GENECARDS:CTNNA3 KEGG:29119 ATLASONC:GC_CTNNA3 WIKI:CTNNA3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="α-Catenin*"/> <bbox w="75.0" h="85.0" x="17530.06" y="20859.5"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa19_wnc1_wnc4_sa19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Cytoskeleton"/> <bbox w="80.0" h="30.0" x="17526.06" y="20948.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa15_wnc1_wnc4_sa15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="17447.06" y="20903.5"/> <glyph class="state variable" id="_1f6b0855-b090-49d9-8103-f28ebb27c287"> <state value="P" variable="Y142"/> <bbox w="35.0" h="10.0" x="17477.287" y="20898.5"/> </glyph> <glyph class="state variable" id="_2fcebfab-c1eb-4a04-9153-e3cb360c94bc"> <state value="" variable="S675"/> <bbox w="30.0" h="10.0" x="17511.441" y="20938.5"/> </glyph> <glyph class="state variable" id="_70477ac4-1ffd-4f5b-abd0-ccabf4db531a"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" x="17498.889" y="20898.5"/> </glyph> <glyph class="state variable" id="_a257f32d-0f7f-42b9-9f17-a9e3c858fe22"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17498.54" y="20898.5"/> </glyph> <glyph class="state variable" id="_8e4f8752-cb6a-47cb-970c-f6ba1720a991"> <state value="" variable="S522"/> <bbox w="30.0" h="10.0" x="17512.06" y="20898.713"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa17_wnc1_wnc4_sa17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="17365.06" y="20904.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa16_wnc1_wnc4_sa16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="154.0" h="40.0" x="17373.06" y="20860.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa69_wca1_wca2_sa69" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Xenopus homologue</p> <p>References:</p> <p>s_wca2_re30(MAP:survival):</p> <p>Shown in Xenopus embryos that dimerisation of XFZ3 correlates with activation. This phenomenon is described once in:</p> <p>PMID:12734397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa69_wca1_wca2_sa69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XFZ3"/> <bbox w="80.0" h="50.0" x="24961.06" y="18230.0"/> <glyph class="unit of information" id="_152a51dd-876d-473c-99ef-f5b451476be2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24978.56" y="18225.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa42_wnc1_wnc1_csa42" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRICKLE1:PRR*:RACK1*:ROR2:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re66(MAP:survival):</p> <p>Polymerisation of Dvl-proteins is not associated with endosomes or other vesicles. Polymerization of Dvl acts as scaffold for recruiting Rac1</p> <p>PMID:20457807</p> <p>s_wnc1_re86:(MAP:survival) PMID:17030191</p> <p>s_wnc1_re88(MAP:survival):</p> <p>Smurf associates upon binding of Wnt5 to frizzled</p> <p>PMID:19379695</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa42_wnc1_wnc1_csa42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20457807"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17030191"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl"/> <bbox w="358.0" h="203.0" x="16858.56" y="19535.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa258_wnc1_wnc1_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17026.06" y="19563.5"/> <glyph class="unit of information" id="_a161b3de-74fc-402f-bc34-88a4661c01ec"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17043.56" y="19558.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa314_wnc1_wnc1_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16869.56" y="19605.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa406_wnc1_wnc1_sa406"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16873.56" y="19689.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa402_wnc1_wnc1_sa402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16871.56" y="19649.0"/> <glyph class="state variable" id="_e7deb6c4-6bac-4d77-bcc1-18837f36e104"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16944.06" y="19644.0"/> </glyph> <glyph class="state variable" id="_10b3049a-08f3-4888-b1ea-7c3f36f48ced"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16866.564" y="19644.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa310_wnc1_wnc1_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16862.56" y="19552.0"/> <glyph class="state variable" id="_fb007e43-73a1-4fa0-924e-4256c681fc8d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16857.564" y="19547.0"/> </glyph> <glyph class="state variable" id="_3f737983-7df1-4d15-8401-3cedd8670323"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16937.56" y="19547.0"/> </glyph> <glyph class="state variable" id="_dd766f60-c36e-4255-ab70-3f4b70825cb5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16937.56" y="19572.0"/> </glyph> <glyph class="state variable" id="_764b8302-3fdf-40dc-b6ee-4cc2693168ad"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16857.56" y="19572.0"/> </glyph> <glyph class="unit of information" id="_9bff0c7d-5ca8-4651-98d4-02cc9866fb23"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16880.06" y="19547.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa294_wnc1_wnc1_sa294"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16943.56" y="19557.0"/> <glyph class="unit of information" id="_d15e5b9d-d5bc-484a-a494-4217137fa33f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16961.06" y="19552.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa302_wnc1_wnc1_sa302"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="16966.56" y="19659.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa288_wnc1_wnc1_sa288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="17130.56" y="19539.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa261_wnc1_wnc1_sa261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="16964.56" y="19613.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa263_wnc1_wnc1_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="17054.81" y="19614.0"/> <glyph class="state variable" id="_5a5049f0-8af4-4aef-8928-6e80e9f4df29"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17049.814" y="19649.0"/> </glyph> <glyph class="state variable" id="_11b6e5a1-fc4f-4bb9-bf94-716cf653bda9"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17126.943" y="19609.0"/> </glyph> <glyph class="state variable" id="_a5f20dee-86b2-4233-a17b-fecca1739b88"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="17119.191" y="19649.0"/> </glyph> <glyph class="state variable" id="_bcf254a0-e193-49d2-b86c-471d76af0b90"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17049.814" y="19609.0"/> </glyph> <glyph class="state variable" id="_17cd5948-c768-4067-aab3-a8b98ec6c7e7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17129.81" y="19609.0"/> </glyph> <glyph class="state variable" id="_8006efa6-9db1-46d5-b9df-e7c821f41e49"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17129.81" y="19649.0"/> </glyph> <glyph class="state variable" id="_2187a47d-8eda-46b3-a52e-5ab5daad4719"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="17039.81" y="19648.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa614_wnc1_wnc1_sa614"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="17133.56" y="19615.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa263_wnc1_wnc1_sa262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="17051.81" y="19661.0"/> <glyph class="state variable" id="_b2617bea-a79c-41a3-a613-e63acf0d4d0a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17046.814" y="19696.0"/> </glyph> <glyph class="state variable" id="_dd2c3e46-41e2-49fa-8b4e-03b4e263dfee"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="17123.943" y="19656.0"/> </glyph> <glyph class="state variable" id="_5ad8c589-31b1-4078-83f1-1e472cd54bac"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="17116.191" y="19696.0"/> </glyph> <glyph class="state variable" id="_0afb802c-9ceb-4697-a4b0-4478aec7a9ba"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17046.814" y="19656.0"/> </glyph> <glyph class="state variable" id="_d9898684-5720-472a-b8cf-7ec93879c02a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17126.81" y="19656.0"/> </glyph> <glyph class="state variable" id="_24efb60f-4c48-403c-9be5-9977d9c8d59b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17126.81" y="19696.0"/> </glyph> <glyph class="state variable" id="_07cdfa47-6e25-4cf7-9546-ef6d4929db75"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="17036.81" y="19695.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa259_wnc1_wnc1_sa259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="17107.06" y="19563.5"/> <glyph class="state variable" id="_b91d6dc4-5e39-4b4f-a424-1a68c4839cab"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="17172.06" y="19558.766"/> </glyph> <glyph class="state variable" id="_769955ea-ded2-4b76-9ac9-0e28db57ef53"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17142.06" y="19608.5"/> </glyph> <glyph class="state variable" id="_261d7899-ab32-4b36-9dca-b2baec62ac0d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17102.064" y="19558.5"/> </glyph> <glyph class="state variable" id="_3a4c0490-808d-486e-8cc7-4687ed66d21e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17182.06" y="19608.5"/> </glyph> <glyph class="unit of information" id="_d61ec3a9-c9ab-4a66-83a9-b3fe2d734c5a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17124.56" y="19558.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa260_wnc1_wnc1_sa260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="17088.06" y="19540.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa78_wnc1_wnc3_sa78" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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rdf:resource="urn:miriam:hgnc.symbol:HDAC5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC*"/> <bbox w="80.0" h="40.0" x="16489.06" y="20888.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2491_in_sa2491" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TIMP3"/> <bbox w="90.0" h="25.0" x="11555.0" y="6501.5"/> <glyph class="unit of information" id="_4d74b464-1994-4687-babe-022a07ee9148"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="11590.0" y="6496.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa39_emtc_em_csa39" compartmentRef="s_id_emtc_em_ca33_emtc_em_ca33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SARA*:SMAD2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SARA*/SMAD2"/> <bbox w="115.0" h="96.0" x="6506.0" y="16515.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa388_emtc_em_sa388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9670020</p> <p>Smad2 and Smad3 form homo-oligomers upon phosphorylation by the constitutively active TGFBR1</p> <p>This oligomerization does not require Smad4.</p> <p>PMID:11074002</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="111.0" h="49.0" x="6507.5" y="16536.0"/> <glyph class="state variable" id="_130c5fc3-e767-482a-af89-c198b39a3511"> <state value="" variable="S467"/> <bbox w="30.0" h="10.0" x="6603.5" y="16575.441"/> </glyph> <glyph class="state variable" id="_672dad12-437e-42a5-9989-1394f1e94ab7"> <state value="" variable="S465"/> <bbox w="30.0" h="10.0" x="6603.5" y="16563.164"/> </glyph> <glyph class="state variable" id="_12adce1e-8c51-40a8-9f62-f1572cf75a56"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="6553.9775" y="16580.0"/> </glyph> <glyph class="state variable" id="_cacceef9-0560-4da1-82a4-705987ba604b"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="6603.5" y="16553.535"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa387_emtc_em_sa387"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger, FYVE domain containing 9</p> <p>HUGO:ZFYVE9, HGNC:6775, ENTREZ:9372, UNIPROT:O95405, GENECARDS:GC01P052608</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9865696</p> <p>SARA interacts directly with Smad2 and Smad3</p> <p>SARA presents Smad2 to the TGFb receptor</p> <p>Phosphorylation of Smad2 induces dissociation from SARA with concomitant formation of Smad2-Smad4 complexes and nuclear translocation.</p> <p>PMID:11792802</p> <p>-SARA contains a FYVE motif which is known to bind phosphatidylinositol 3-phosphate. </p> <p>It might anchor Smad2 to the inner leaflet of the plasma membrane or endosomal vesicles.</p> <p>SARA thus provides a first example of how TGFB signaling centres may be organised at the plasma membrane or endosomal vesicles.</p> <p>-Several other proteins with possible roles in Smad anchoring:</p> <p>PMID:10678166</p> <p>Microtubules can anchor inactive Smads in the cytoplasm</p> <p>Activation by a ligand results in dissociation of the Smads from the microtubule network</p> <p>It is possible that microtubules serve as tracks for intracellular Smad movement</p> <p>PMID:11278410</p> <p>Filamin, an actin crosslinking factor and scaffolding protein also associates with Smads and positively regulates transduction of Smad signals.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SARA*"/> <bbox w="60.0" h="20.0" x="6511.0" y="16515.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1298_ce_sa1298" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1298_ce_sa1298"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD9A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAD9B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAD9*"/> <bbox w="80.0" h="40.0" x="10671.77" y="16068.5"/> <glyph class="state variable" id="_b1705498-2c53-4af1-acce-4fdf2a7e26de"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10704.27" y="16063.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa46_mpk1_mpk1_csa46" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GPCR*:GRK*:_beta_-Arrestin2*</p> </body> </html> </notes> <label text="GPCR*:GRK*:β-Arrestin2*"/> <bbox w="129.0" h="159.0" x="9671.061" y="19077.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa591_mpk1_mpk1_sa591"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>G protein-coupled receptor 1</p> <p>HUGO:GPR1 HGNC:4463 ENTREZ:2825 UNIPROT:P46091 </p> <p>G protein-coupled receptor 3</p> <p>HUGO:GPR3 HGNC:4484 ENTREZ:2827 UNIPROT:P46089 </p> <p>G protein-coupled receptor 4</p> <p>HUGO:GPR4 HGNC:4497 ENTREZ:2828 UNIPROT:P46093 </p> <p>G protein-coupled receptor 6</p> <p>HUGO:GPR6 HGNC:4515 ENTREZ:2830 UNIPROT:P46095 </p> <p>G protein-coupled receptor 12</p> <p>HUGO:GPR12 HGNC:4466 ENTREZ:2835 UNIPROT:P47775 </p> <p>G protein-coupled receptor 15</p> <p>HUGO:GPR15 HGNC:4469 ENTREZ:2838 UNIPROT:P49685 </p> <p>G protein-coupled receptor 17</p> <p>HUGO:GPR17 HGNC:4471 ENTREZ:2840 UNIPROT:Q13304 </p> <p>G protein-coupled receptor 18</p> <p>HUGO:GPR18 HGNC:4472 ENTREZ:2841 UNIPROT:Q14330 </p> <p>G protein-coupled receptor 19</p> <p>HUGO:GPR19 HGNC:4473 ENTREZ:2842 UNIPROT:Q15760 </p> <p>G protein-coupled receptor 20</p> <p>HUGO:GPR20 HGNC:4475 ENTREZ:2843 UNIPROT:Q99678</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylation of GPCR (by GRK) induces the activation of ERK cascade on eary endosomes.</p> </body> </html> </notes> <label text="GPCR*"/> <bbox w="66.0" h="26.0" x="9703.151" y="19085.0"/> <glyph class="state variable" id="_64b0a74a-96aa-42ff-bd6e-c223ec71f252"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9695.651" y="19093.0"/> </glyph> <glyph class="unit of information" id="_24366d3d-4bd6-4053-b71e-3518cd3ba3c0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9713.651" y="19080.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa237_mpk1_mpk1_sa237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin beta 2</p> <p>ARR2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="49.0" h="76.0" x="9712.061" y="19135.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa312_mpk1_mpk1_sa312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adrenergic beta receptor kinase 1</p> <p>HUGO:ADRBK1 HGNC:289 ENTREZ:156 UNIPROT:P25098</p> <p>adrenergic beta receptor kinase 2</p> <p>HUGO:ADRBK2 HGNC:290 ENTREZ:157 UNIPROT:P35626</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> </body> </html> </notes> <label text="GRK*"/> <bbox w="50.0" h="25.0" x="9711.561" y="19108.334"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa45_ad_csa45" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:MACROPHAGE, MODULE:NK, MODULE:TUMOR_KILLING, MODULE:EFFECTOR_ACTIVATION, MODULE:LYTIC_GRANULES_EXOCYTOSIS, MODULE:PHAGOCYTOSIS</p> <p>CASCADE:CR3, CASCADE:Fc_gamma_RII</p> <p>PMID:11395419</p> <p>Arp2/3 complex is intrinsically inactive, relying on nucleation promoting factors for activation. WASp/Scar family proteins are prominent cellular nucleation promoting factors. They bring together an actin monomer and Arp2/3 complex in solution or on the side of an existing actin filament to initiate a new filament that grows in the barbed end direction. </p> <p>PMID:14707117; PMID:15541654 </p> <p>TCR-induced synapse formation is markedly reduced in Fyn-deficient mice and WASp capacity to trigger Arp 2/3-mediated actin polymerization in vitro is enhanced by Fyn and abrogated by PTP-PEST </p> <p>PMID:17306570 </p> <p>Arp2/3 Complex-Dependent F-Actin Polymerization Does Not Control MTOC Polarity, but Regulates Integrins and TCR Internalization</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa45_ad_csa45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11395419"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14707117"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15541654"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17306570"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Arp2/3"/> <bbox w="220.0" h="205.0" x="29706.0" y="6782.5"/> <glyph class="macromolecule" id="s_id_ad_sa507_ad_sa507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ACTR3</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11395419</p> </body> </html> </notes> <label text="ACTR3"/> <bbox w="80.0" h="40.0" x="29716.0" y="6917.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa508_ad_sa508"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11395419</p> </body> </html> </notes> <label text="ARPC2"/> <bbox w="80.0" h="40.0" x="29716.0" y="6837.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa512_ad_sa512"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC5</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11395419</p> </body> </html> </notes> <label text="ARPC5"/> <bbox w="80.0" h="40.0" x="29816.0" y="6877.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa509_ad_sa509"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC1A</p> <p>HUGO:ARPC1B</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11395419</p> </body> </html> </notes> <label text="ARPC1*"/> <bbox w="80.0" h="40.0" x="29716.0" y="6797.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa506_ad_sa506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ACTR2</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11395419</p> </body> </html> </notes> <label text="ACTR2"/> <bbox w="80.0" h="40.0" x="29716.0" y="6875.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa510_ad_sa510"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARPC3</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11395419</p> </body> </html> </notes> <label text="ARPC3"/> <bbox w="80.0" h="40.0" x="29816.0" y="6797.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa513_ad_sa513"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:WAS</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11520460</p> <p>Cdc42 and WASP are critical regulators of actin polymerization whose function during T cell signaling is poorly understood.</p> <p>WASP also localized to the T cell:APC contact site in an antigen-dependent manner. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:CR3</p> <p>PMID:16606694</p> <p>Phosphorylated WIPF1 provides recruitment of of F-actin and MYH9 (myosin IIA) to multiprotein WASP :WIPF1 complexs.</p> <p>PMID:19349987</p> <p>T cell antigen receptor signaling and immunological synapse stability require myosin IIA.</p> <p>Three genes encode mammalian non-muscle myosin II heavy chains, referred to as MyH9 {http://www.signaling-gateway.org/molecule/query?afcsid=A004003}, MyH10 and MyH14 (refs. 21, 22)21, 22. 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1088_emtc_em_sa1088"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TNK2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TNK2"/> <bbox w="42.0" h="16.0" x="5760.0" y="14784.5"/> </glyph> <glyph class="complex" id="s_id_gf1_csa21_gf1_csa21" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <label text="FLT1:VEGF*"/> <bbox w="100.0" h="130.0" x="11215.561" y="18014.5"/> <glyph class="macromolecule" id="s_id_gf1_sa142_gf1_sa142"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFA</p> <p>HUGO:VEGFB</p> <p>HUGO:VEGFC</p> <p>HUGO:VEGFD</p> <p>HUGO:PGF</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> </body> </html> </notes> <label text="VEGF*"/> <bbox w="80.0" h="40.0" x="11225.561" y="18019.5"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa141_gf1_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>HUGO:FLT1</p> </body> </html> </notes> <label text="FLT1"/> <bbox w="80.0" h="50.0" x="11225.561" y="18074.5"/> <glyph class="unit of information" id="_cdebb498-0891-4938-bc2a-25f8bf202261"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="11243.061" y="18069.5"/> </glyph> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1110_ca_sa1110" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> </body> </html> </notes> <label text="Glutamate"/> <bbox w="70.0" h="25.0" x="3045.0" y="3567.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5048_rc_sa5048" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5048_rc_sa5048"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CALM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CALM1"/> <bbox w="90.0" h="25.0" x="29036.326" y="16271.5"/> <glyph class="unit of information" id="_d7dd2e58-be41-48b4-a789-f98cb582eb35"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="29071.326" y="16266.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa19_wca1_wca1_csa19" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PP2A_C*:PR55_alpha_*:PR65_A*</p> <p>References:</p> <p>s_wca1_re20:(MAP:survival) PMID:19556239</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa19_wca1_wca1_csa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19556239"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PP2A_PR55α)"/> <bbox w="103.0" h="159.0" x="20364.06" y="18879.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa106_wca1_wca1_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit A alpha</p> <p>HUGO:PPP2R1A HGNC:9302 ENTREZ:5518 UNIPROT:P30153 GENECARDS:PPP2R1A REACTOME:49125 KEGG:5518 ATLASONC:GC_PPP2R1A WIKI:PPP2R1A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PR65_A*"/> <bbox w="80.0" h="40.0" x="20376.06" y="18975.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa108_wca1_wca1_sa108"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 regulatory subunit B alpha</p> <p>HUGO:PPP2R2A HGNC:9304 ENTREZ:5520 UNIPROT:P63151 GENECARDS:PPP2R2A REACTOME:49129 KEGG:5520 ATLASONC:GC_PPP2R2A WIKI:PPP2R2A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PR55α*"/> <bbox w="80.0" h="40.0" x="20376.06" y="18932.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa107_wca1_wca1_sa107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2 catalytic subunit alpha isozyme</p> <p>HUGO:PPP2CA HGNC:9299 ENTREZ:5515 UNIPROT:P67775 GENECARDS:PPP2CA REACTOME:61096 KEGG:5515 ATLASONC:GC_PPP2CA WIKI:PPP2CA </p> <p>P67775</p> <p>protein phosphatase 2 catalytic subunit beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714 GENECARDS:PPP2CB REACTOME:61104 KEGG:5516 ATLASONC:GC_PPP2CB WIKI:PPP2CB </p> <p>P62714</p> <p>"protein phosphatase 2 (formerly 2A) catalytic subunit alpha isoform"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18042541</p> <p>PMID:10995457</p> <p>PMID:16680151</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <label text="PP2A_C*"/> <bbox w="80.0" h="40.0" x="20376.06" y="18890.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa770_in_sa770" compartmentRef="s_id_in_ca48_in_ca48"> <label text="NKp44L*"/> <bbox w="80.0" h="40.0" x="19820.0" y="960.0"/> <glyph class="unit of information" id="_a8dc5e20-c121-4a2e-a79d-c4fb3e31a6bd"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="19835.0" y="955.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa835_in_sa835" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KLRB1"/> <bbox w="80.0" h="50.0" x="10595.0" y="1705.0"/> <glyph class="unit of information" id="_87afb57d-9dee-40a7-a90e-5b15810902af"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10612.5" y="1700.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1128_rc_sa1128" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1128_rc_sa1128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF4B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF4B"/> <bbox w="80.0" h="40.0" x="27088.06" y="12222.0"/> <glyph class="state variable" id="_f7e4b847-945a-4fea-bb5a-cf9db107d8cb"> <state value="P" variable="S422"/> <bbox w="35.0" h="10.0" x="27131.938" y="12217.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa26_te_csa26" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKC1/NHP2/NOP10/TERC</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <label text="DKC1/NHP2/NOP10/TERC"/> <bbox w="300.0" h="130.0" x="5457.06" y="21991.0"/> <glyph class="macromolecule" id="s_id_te_sa218_te_sa218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NHP2 ribonucleoprotein</p> <p>HUGO:NHP2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NHP2"/> <bbox w="80.0" h="40.0" x="5467.06" y="22001.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa220_te_sa220"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <bbox w="90.0" h="25.0" x="5662.06" y="22028.5"/> <glyph class="state variable" id="_969dab2d-b1da-48c8-8559-c209fe3767ef"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5697.56" y="22023.5"/> </glyph> <glyph class="unit of information" id="_cb9fcfd5-e35a-4ae0-b15a-b4539a0e168c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5697.06" y="22023.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa217_te_sa217"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NOP10 ribonucleoprotein</p> <p>HUGO:NOP10</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="NOP10"/> <bbox w="80.0" h="40.0" x="5467.06" y="22051.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa219_te_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="DKC1"/> <bbox w="80.0" h="40.0" x="5557.06" y="22001.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4597_rc_sa4597" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" 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<glyph class="macromolecule" id="s_id_mo_sa221_mo_sa221" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>potassium calcium-activated channel subfamily N member 4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa221_mo_sa221"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNN4"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa221_mo_sa255"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KCNN4"/> <clone/> <bbox w="80.0" h="40.0" x="2138.0" y="10122.0"/> <glyph class="unit of information" id="_52a47b76-0537-4519-9c73-6e5e4e6e7482"> <label text="ion channel"/> <bbox w="60.0" h="10.0" x="2148.0" y="10117.0"/> </glyph> <glyph class="state variable" id="_40eda8ed-cee1-42d2-8751-43ef131b473b"> <state value="closed" variable=""/> <bbox w="40.0" h="10.0" x="2158.0" y="10157.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa221_mo_sa220" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>potassium calcium-activated channel subfamily N member 4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa221_mo_sa220"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KCNN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="KCNN4"/> <clone/> <bbox w="80.0" h="40.0" x="1960.0" y="8880.0"/> <glyph class="unit of information" id="_d2e91d61-1f42-4c45-9a41-0f05a02a6d3b"> <label text="ion channel"/> <bbox w="60.0" h="10.0" x="1970.0" y="8875.0"/> </glyph> <glyph class="state variable" id="_fa5d300e-e748-446c-80c6-1f887158cc44"> <state value="open" variable=""/> <bbox w="30.0" h="10.0" x="1985.0" y="8915.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa912_ad_sa912" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:27242793 </p> <p> PIP5Kβ mediates the recruitment of filamin-A (FLN-A) and lipid rafts to the T:APC contact zone downstream of CD28.</p> <p>where filamin-A cooperates with Vav1 to integrate signaling pathways resulting in actin polymerization and lipid raft mobilizatio</p> <p>PMID:21277899 </p> <p>In searching for specific upstream activators linking CD28 to the IKKα/NF-κB cascade, we identify a novel constitutive association between filamin A (FLNa) and the NF-κB inducing kinase (NIK), in both Jurkat and human primary T cells. Following CD28 engagement by B7, in the absence of TCR, FLNa-associated NIK is activated and induces IKKα kinase activity. Both proline (P(208)YAP(211)P(212)) and tyrosine residues (Y(206)QPY(209)APP) within the C-terminal proline-rich motif of CD28 are involved in the recruitment of FLNa/NIK complexes to the membrane as well as in the activation of NIK and IKKα.</p> <p>PMID:16849481</p> <p>TCR stimulation induced stable physical association of FLNa with PKCtheta. Furthermore, the TCR/CD28-induced membrane translocation of PKCtheta was inhibited in FLNa-depleted T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa912_ad_sa912"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FLNA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27242793"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa731_rc_sa731"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2A1"/> <bbox w="90.0" h="25.0" x="24012.56" y="16016.5"/> <glyph class="unit of information" id="_2a2d312d-22c7-4a8f-8cc4-13a1d3093b69"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24047.56" y="16011.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa919_ce_sa919" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa919_ce_sa919"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRIM1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRIM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRIM*"/> <bbox w="80.0" h="40.0" x="13040.77" y="9758.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa53_akt1_akt1_csa53" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*:p27KIP1*</p> <p>References:</p> <p>s_akt1_re98:(MAP:survival) PMID:19887899</p> <p>s_akt1_re183(MAP:survival):</p> <p>PMID:18414028</p> <p>PMID:9106657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa53_akt1_akt1_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19887899"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18414028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9106657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4_6*:CyclinD*:p27KIP1*"/> <bbox w="102.0" h="161.0" x="12988.061" y="18775.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa315_akt1_akt1_sa315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27 Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527 GENECARDS:CDKN1B REACTOME:198633 KEGG:1027 ATLASONC:CDKN1BID116 WIKI:CDKN1B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="80.0" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:cellcycle / MODULE:CYCLIND, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="80.0" h="40.0" x="12994.561" y="18825.0"/> <glyph class="state variable" id="_44bcd911-3901-480b-a2cd-7d99d5081f28"> <state value="" variable="T286"/> <bbox w="30.0" h="10.0" x="13059.561" y="18820.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa314_akt1_akt1_sa314"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4 HGNC:1773 ENTREZ:1019 UNIPROT:P11802 GENECARDS:CDK4 REACTOME:68329 KEGG:1019 ATLASONC:CDK4ID238ch12q14 WIKI:CDK4 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6 HGNC:1777 ENTREZ:1021 UNIPROT:Q00534 GENECARDS:CDK6 REACTOME:68335 KEGG:1021 ATLASONC:GC_CDK6 WIKI:CDK6</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="12989.561" y="18781.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa28_ca_csa28" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IkB*:NFKB1_p50*:RELA</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control mice</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa28_ca_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20138012"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RELA:p50/NFKBIA"/> <bbox w="115.0" h="175.0" x="2202.0" y="2762.0"/> <glyph class="macromolecule" id="s_id_ca_sa333_ca_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RELA proto-oncogene, NF-kB subunit</p> <p>HUGO:RELA hgnc_id:HGNC:9955 HGNC:9955 ENTREZ:5970 UNIPROT:Q04206</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:CORE</p> <p>CASCADE:IL1, CASCADE:TNF</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control mice </p> </body> </html> </notes> <label text="RELA"/> <bbox w="80.0" h="40.0" x="2219.5" y="2827.25"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa334_ca_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>MODULE:CAF, MODULE:CORE, MODULE:CAF</p> <p>Map modules:</p> <p>CASCADE:IL1</p> <p>References:</p> <p>PMID:20138012 </p> <p>NF-κB heterodimer (RelA-p50) translocates to the nucleus, where it activates the transcription of its target genes ( Karin and Ben-Neriah, 2000 and Pereira and Oakley, 2008). Nuclear p65 staining was detected in the stroma of HPV skin sections but not in the skin of nontransgenic control miceReferences_end</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="2217.0" y="2869.0"/> <glyph class="unit of information" id="_a309cd3a-7004-4bd6-8a0b-b386885cf333"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="2232.0" y="2864.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa335_ca_sa335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NFKB inhibitor alpha</p> <p>HUGO:NFKBIA hgnc_id:HGNC:7797 HGNC:7797 ENTREZ:4792 UNIPROT:P25963 </p> <p>NFKB inhibitor beta</p> <p>HUGO:NFKBIB hgnc_id:HGNC:7798 HGNC:7798 ENTREZ:4793 UNIPROT:Q15653 </p> <p>NFKB inhibitor epsilon</p> <p>HUGO:NFKBIE hgnc_id:HGNC:7799 HGNC:7799 ENTREZ:4794 UNIPROT:O00221</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> 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compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1584_ce_sa1584"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK5"/> <bbox w="80.0" h="40.0" x="9678.77" y="16101.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa46_ca_csa46" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:JAK1:PLAU:PLAUR:gp130*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>PMID:22470492 </p> <p>Degradation of internalized αvβ5 integrin is controlled by uPAR bound uPA: effect on β1 integrin activity and α-SMA stress fiber assembly.</p> <p>PMID:22595692 </p> <p>The structure of receptors of IL6 like cytokines</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa46_ca_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595692"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s4171"/> <bbox w="200.0" h="110.0" x="700.0" y="2025.0"/> <glyph class="macromolecule" id="s_id_ca_sa427_ca_sa427"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>plasminogen activator, urokinase</p> <p>HUGO:PLAU hgnc_id:HGNC:9052 HGNC:9052 ENTREZ:5328 UNIPROT:P00749</p> <p>Map modules:</p> <p>MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:PLAU</p> <p>MODULE/CAF</p> <p>PMID:27216177</p> <p>FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.</p> <p>PMID:22470492 </p> <p>Degradation of internalized αvβ5 integrin is controlled by uPAR bound uPA: effect on β1 integrin activity and α-SMA stress fiber assembly.</p> <p>uPA (PLAU) signaling has a negative influence on myofibroblast differentiation;</p> </body> </html> </notes> <label text="PLAU"/> <bbox w="80.0" h="40.0" x="710.0" y="2030.0"/> <glyph class="unit of information" id="_0b464826-ea60-44b5-85b9-1d6fe5e5163e"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="725.0" y="2025.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa428_ca_sa428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 6 signal transducer</p> <p>HUGO:IL6ST hgnc_id:HGNC:6021 HGNC:6021 ENTREZ:3572 UNIPROT:P40189</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:LIF, CASCADE:TGFB, CASCADE:IL6, CASCADE:PLAU</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <p>and blocks gp130 and CSF1R (CD115)surface expression.</p> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="800.0" y="2075.0"/> <glyph class="state variable" id="_cc49e38f-8662-4757-bddb-8c7d19322cd5"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="862.5" y="2072.541"/> </glyph> <glyph class="unit of information" id="_8448756c-652b-4f75-b93c-861c0fd06c94"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="817.5" y="2070.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa720_ca_sa720"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Janus kinase 1</p> <p>HUGO:JAK1 hgnc_id:HGNC:6190 HGNC:6190 ENTREZ:3716 UNIPROT:P23458</p> <p>References:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>CASCADE:IL6, CASCADE:PLAU, CASCADE:LIF, CASCADE:IFNG</p> <p>PMID:21840487 </p> <p>CAF-dependent matrix remodelling is essential for collective carcinoma cell invasion</p> <p>JAK kinase inhibitor P6 tested blocked remodelling (Hooper et al., 2010). P6 inhibits multiple members of the JAK family (Pedranzini et al., 2006), so we used JAK isoform-specific inhibitors to probe which JAKs are involved; neither JAK2 nor JAK3-specific inhibitors recapitulated the effect of the pan-JAK inhibitor (P6) on matrix remodelling (Figure 1A), suggesting that JAKI is the family member involved. </p> <p>Jak 1 regulates Actomyosin Contractility in CAFs downstream of GP130-IL6ST IL6 and oncostatin M (OSM) and via STAT3</p> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="800.0" y="2030.0"/> <glyph class="state variable" id="_e35ad3b0-518a-40f6-98e7-4b99da748b9b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="792.5" y="2045.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa426_ca_sa426"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>plasminogen activator, urokinase receptor</p> <p>HUGO:PLAUR hgnc_id:HGNC:9053 HGNC:9053 ENTREZ:5329 UNIPROT:Q03405</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:INFLAMMATORY_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:PLAU</p> <p>PMID:27216177</p> <p>FAP as a persistent activator of fibroblastic STAT3 through a uPAR-dependent FAK-Src-JAK2 signaling pathway.</p> </body> </html> </notes> <label text="PLAUR"/> <bbox w="80.0" h="50.0" x="710.0" y="2070.0"/> <glyph class="unit of information" id="_0767230b-8a3b-4b37-9443-7cbbd84d6611"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="727.5" y="2065.0"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa103_rc_sa103" compartmentRef="s_id_rc_ca4_rc_ca2"> <label text="rc_s131"/> <bbox w="30.0" h="30.0" x="22124.56" y="14525.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4975_rc_sa4975" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4975_rc_sa4975"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP2A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP2A1"/> <bbox w="80.0" h="40.0" x="27715.154" y="12999.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3014_rc_sa3014" compartmentRef="s_id_rc_ca14_rc_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3014_rc_sa3014"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRADD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRADD"/> <bbox w="80.0" h="40.0" x="22359.06" y="9549.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2005_rc_sa2005" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2005_rc_sa2005"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C9orf3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C9orf3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APO*"/> <bbox w="70.0" h="25.0" x="24620.037" y="16267.798"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4467_rc_sa4467" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4467_rc_sa4467"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BCL2"/> <bbox w="80.0" h="40.0" x="27301.56" y="11361.5"/> <glyph class="state variable" id="_4bcc8ac8-f66e-4444-9b7b-553589c48ccf"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27294.06" y="11376.5"/> </glyph> <glyph class="state variable" id="_6b2e55bc-f333-41bd-a4a3-040a81d8e1ee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27319.992" y="11356.5"/> </glyph> <glyph class="state variable" id="_3746bfeb-e0b0-4361-aa83-7c919506e1e2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27353.129" y="11356.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa22_mo_sa22" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT serine/threonine kinase 1</p> <p>AKT serine/threonine kinase 2</p> <p>AKT serine/threonine kinase 3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa22_mo_sa22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="2992.5" y="9649.5"/> <glyph class="state variable" id="_a55866ea-f733-4017-903b-3ad1601e9a15"> <state value="" variable="ser473"/> <bbox w="40.0" h="10.0" x="3052.5" y="9664.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa253_ce_csa253" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ATR:ATRIP:CHEK1:CLSPN:HCLK2*</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:17384638, PMID:19793801</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa253_ce_csa253"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17384638"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATR/ATRIP/CHEK1/CLSPN/HCLK2*"/> <bbox w="193.0" h="161.0" x="13039.473" y="12988.356"/> <glyph class="macromolecule" id="s_id_ce_sa1332_ce_sa1332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ataxia telangiectasia and Rad3 related</p> <p>HUGO:ATR, HGNC:882, ENTREZ:545, UNIPROT:Q13535</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="ATR"/> <bbox w="80.0" h="40.0" x="13056.966" y="13082.412"/> <glyph class="state variable" id="_98c468f4-5860-4f12-8c66-44ab29272d82"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13049.466" y="13097.412"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1333_ce_sa1333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATR interacting protein</p> <p>HUGO:ATRIP, HGNC:33499, ENTREZ:84126, UNIPROT:Q9HA30</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:15798197, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="ATRIP"/> <bbox w="80.0" h="40.0" x="13053.966" y="13040.412"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1331_ce_sa1331"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TEL2, telomere maintenance 2, homolog (S. cerevisiae) </p> <p>Protein clk-2 homolog , HCLK2</p> <p>HUGO:TELO2, HGNC:29099, ENTREZ:9894, UNIPROT:Q9Y4R8</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT</p> <p>References:</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For regulation of Fanconi pathway via cell cycle</p> <p>PMID:18995830, PMID:17384638</p> <p>For S-phase checkpoint</p> <p>PMID:17384638, PMID:19793801</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibits S-phase</p> <p>PMID:19282663, PMID:19622404</p> </body> </html> </notes> <label text="HCLK2*"/> <bbox w="80.0" h="40.0" x="13053.966" y="12998.126"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1362_ce_sa1362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Claspin</p> <p>HUGO:CLSPN, HGNC:19715, ENTREZ:63967, UNIPROT:Q9HAW4</p> <p>PMID:17303408, PMID:16880517, PMID:16934469</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:19793801, PMID:17582221, PMID:18677104, PMID:17384638, PMID:12766152</p> </body> </html> </notes> <label text="CLSPN"/> <bbox w="80.0" h="40.0" x="13135.933" y="12997.391"/> <glyph class="state variable" id="_a76dc08f-e2a9-44fa-b05b-da06b0aa6e91"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13208.433" y="13004.106"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1336_ce_sa1336"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHK1 checkpoint homolog (S. pombe)</p> <p>HUGO:CHEK1, HGNC:1925, ENTREZ:1111, UNIPROT:O14757</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17384638, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> </body> </html> </notes> <label text="CHEK1"/> <bbox w="80.0" h="40.0" x="13141.227" y="13042.126"/> <glyph class="state variable" id="_e78f3744-4929-4a41-b608-288da8d9b4cc"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13133.727" y="13057.126"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa103_ad_csa103" compartmentRef="s_id_ad_ca8_ad_ca8"> <label text="ad_s5042"/> <bbox w="100.0" h="120.0" x="28956.0" y="2795.0"/> <glyph class="macromolecule" id="s_id_ad_sa883_ad_sa883"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TREG</p> <p>CELL:TCD4</p> <p>CELL:TCD8</p> <p>MODULE:SMAC, MODULE:TCR_SIGNALING</p> <p>HUGO:PRKCQ</p> <p>CASCADE:TCR</p> <p>PMID:23433459</p> <p>PKCtheta in tregs.</p> <p>PMID:23886063; PMID:9738502 </p> <p>The central region of the SMAC (cSMAC) is enriched in TCRs and one of its downstream signalling effectors, protein kinase C-teta</p> <p>PMID:17544292 ; PMID:23433459</p> <p>Protein kinase C theta (PKCtheta): a key player in T cell life and death.</p> <p>Mutation of the PKCθ gene leads to impaired receptor-induced stimulation of the transcription factors AP-1, NF-κB and NFAT, which results in defective T cell activation, and to aberrant expression of apoptosis-related proteins, resulting in poor T cell survival. Furthermore, PKCθ-deficient mice display defects in the differentiation of T helper subsets, particularly in Th2 and Th17-mediated inflammatory responses. </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT). </p> <p>PMID:23474202</p> <p>The protein kinase PDK1 is considered essential for PKCθ activation </p> <p>GCK-like kinase (GLK), a SLP76-regulated kinase, was recently reported to phosphorylate directly PKCθ both in vitro and in primary T cells and T cell lines in response to TCR stimulation</p> <p> PMID:10746729 </p> <p>The original analysis of PKCθ−/− T cells25 revealed that two transcription factors, i.e., nuclear factor κB (NF-κB) and activator protein-1 (AP-1) are targets of PKCθ in TCR/CD28-costimulated T cells, but failed to reveal any substantial defect in the activation of another critical transcription factor, i.e., nuclear factor of T cells (NFAT).</p> <p>PMID:15536066</p> <p>Role for protein kinase Ctheta (PKCtheta) in TCR/CD28-mediated signaling through the canonical but not the non-canonical pathway for NF-kappaB activation.</p> <p>PMID:10652356; PMID:17544292 </p> <p>Regulation of Protein Kinase Cθ Function during T Cell Activation by Lck-mediated Tyrosine Phosphorylation</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>PMID:10652356</p> <p>The C2-like domain contains a tyrosine residue (Tyr-90), which is phosphorylated by the T cell tyrosine kinase Lck</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>NIK and IKKα Are Activated by TCR/CD28 Costimulation</p> <p> anti-CD3 stimulation alone could induce increased NIK autophosphorylation in Jurkat-E6.1 cells after 30 min of stimulation. Importantly, anti-CD3/CD28 costimulation induced NIK activity sooner than anti-CD3 stimulation alone</p> <p>The Non-canonical Pathway for NF-κB Activation Is Not Operative Downstream of TCR/CD28 Signaling</p> <p>PKCθ Operates Independently of NIK to Activate NF-κB</p> <p>kinase activity of NIK following PMA or anti-CD3/CD28 stimulation of PKCθ–/– T cells was identical to that observed in wild-type T cells</p> <p>We found that the TCR/CD28-dependent increase in p100 and p52 expression was impaired in PKCθ–/– T cells (Fig. 7C), indicating that PKCθ activity is required for p52 generation by TCR/CD28 signaling. This requirement most likely reflects an indirect role of PKCθ in up-regulating p100 in an NF-κB-dependent manner</p> </body> </html> </notes> <label text="PRKCQ"/> <bbox w="80.0" h="40.0" x="28966.0" y="2805.0"/> <glyph class="state variable" id="_8cf2bd55-bc4e-47b1-9686-ceee8983462c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28958.5" y="2820.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_ad_sa882_ad_sa882"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>CASCADE:IFNAB</p> <p>PMID:18784374, PMID:23077238</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="28971.0" y="2862.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1139_emtc_em_sa1139" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1139_emtc_em_sa1139"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSK"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="c-SRC*"/> <bbox w="57.0" h="22.0" x="2507.0" y="15608.5"/> <glyph class="state variable" id="_1537fabc-9cb8-47c5-83c4-417630a0e8ac"> <state value="P" variable="Y"/> <bbox w="20.0" h="10.0" x="2554.0" y="15604.456"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_mo_sa18_mo_sa18" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="PIP3"/> <bbox w="80.0" h="40.0" x="3086.0" y="9483.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3502_rc_sa3502" compartmentRef="s_id_rc_ca16_rc_ca16"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3502_rc_sa3502"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BRCA1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="18721.56" y="16644.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa515_rc_csa515" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BiP*:PERK*</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa515_rc_csa515"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PERK*:BiP*"/> <bbox w="100.0" h="120.0" x="27952.967" y="13849.0"/> <glyph class="macromolecule" id="s_id_rc_sa5186_rc_sa5186"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 2 alpha kinase 3</p> <p>HUGO:EIF2AK3 hgnc_id:HGNC:3255 HGNC:3255 ENTREZ:9451 UNIPROT:Q9NZJ5</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> </body> </html> </notes> <label text="PERK*"/> <bbox w="80.0" h="40.0" x="27962.967" y="13859.0"/> <glyph class="state variable" id="_e47f3574-9972-4f88-9b43-426f7f8b9549"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28037.967" y="13865.715"/> </glyph> <glyph class="state variable" id="_50e8017c-7282-4d9a-83ad-4c64d0ff712f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28037.967" y="13882.285"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5187_rc_sa5187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein family A (Hsp70) member 5</p> <p>HUGO:HSPA5 hgnc_id:HGNC:5238 HGNC:5238 ENTREZ:3309 UNIPROT:P11021</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>GRP78</p> </body> </html> </notes> <label text="BiP*"/> <bbox w="80.0" h="40.0" x="27969.06" y="13899.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1454_emtc_em_sa1454" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1454_emtc_em_sa1454"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RHPN1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RHPN1"/> <bbox w="47.0" h="17.0" x="5725.0" y="15004.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1470_emtc_em_sa1470" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1470_emtc_em_sa1470"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PAK3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAK*"/> <bbox w="40.0" h="30.0" x="6149.0" y="14797.5"/> <glyph class="state variable" id="_264afb08-8d3a-4de7-b353-65f0860249d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6163.6157" y="14792.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa93_ce_csa93" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:POLH:RAD18:RAD6*:REV1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:TLS</p> </body> </html> </notes> <label text="POLH/RAD6*/RAD18/REV1"/> <bbox w="192.0" h="117.0" x="16807.473" y="15596.356"/> <glyph class="macromolecule" id="s_id_ce_sa722_ce_sa722"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (DNA directed), eta</p> <p>HUGO:POLH, HGNC:9181, ENTREZ:5429, UNIPROT:Q9Y253</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:18196958, PMID:17652783</p> <p>Related to the Y-family polymerases</p> <p>PMID:19258535</p> <p>POLH participates in the D-loop formation in HR</p> <p>PMID:16337602, PMID:16337601</p> <p>Bypasses thymidine-thymidine (T-T) cyclobutane pyrimidine dimer (CPD) very accurately</p> <p>PMID:15189446</p> <p>Cisplatin tolerance in cells with active POLH</p> <p>PMID:22562137</p> </body> </html> </notes> <label text="POLH"/> <bbox w="80.0" h="40.0" x="16906.186" y="15606.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa723_ce_sa723"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>REV1 homolog (S. cerevisiae)</p> <p>HUGO:REV1, HGNC:14060, ENTREZ:51455, UNIPROT:Q9UBZ9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:23065650</p> <p>Related to Y-family polymerases. For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For hiperphosphotyration of REV1 in cell cycle and DNA danage-dependent manner. </p> <p>Hyperphosphorylation makes REV1 regulatory molecule for activating TLS pathway</p> <p>PMID:17035102, PMID:19258535</p> </body> </html> </notes> <label text="REV1"/> <bbox w="80.0" h="40.0" x="16906.186" y="15647.07"/> <glyph class="state variable" id="_8874124c-3e8e-4e24-b1db-fe52715b4c45"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16981.186" y="15662.07"/> </glyph> <glyph class="state variable" id="_aaf10519-0b0d-4e28-8ad6-d7338fc33ece"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16981.186" y="15642.07"/> </glyph> <glyph class="state variable" id="_e757aa04-79f4-4bfa-8f65-faab3162eb6a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16981.186" y="15682.07"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa724_ce_sa724"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ubiquitin-conjugating enzyme E2A (RAD6 homolog)</p> <p>HUGO:UBE2A, HGNC:12472, ENTREZ:7319, UNIPROT:P49459</p> <p>ubiquitin-conjugating enzyme E2B (RAD6 homolog)</p> <p>HUGO:UBE2B, HGNC:12473, ENTREZ:7320, UNIPROT:P63146</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:18196958, PMID:17652783</p> <p>In complex with RAD18 ubiquitinates PCNA at Lys164 making PCNA specific for TLS DNA repair activation</p> <p>PMID:19258535</p> </body> </html> </notes> <label text="RAD6*"/> <bbox w="80.0" h="40.0" x="16816.115" y="15647.351"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa725_ce_sa725"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD18 homolog (S. cerevisiae)</p> <p>HUGO:RAD18, HGNC:18278, ENTREZ:56852, UNIPROT:Q9NS91</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>Rad 18 in complex with UBE2B (or UBE2A) ubiquitinates PCNA that maked PCNA available to TLS pathway specifically</p> <p>PMID:20129063</p> <p>RAD18 is a E3 ligase</p> <p>PMID:10884424, PMID:18363965, PMID:19013543, PMID:16611994, PMID:19396164, PMID:19258535, PMID:20675655, PMID:18196958, PMID:17652783</p> </body> </html> </notes> <label text="RAD18"/> <bbox w="80.0" h="40.0" x="16817.115" y="15605.351"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1259_in_sa1259" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 18633355, 18980965, 15099563 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NEUTROPHIL, MAP:MAST_CELL, MAP:NATURAL_KILLER</p> <p>CASCADE:TNF, CASCADE:CSF2, CASCADE:INTEGRIN_A4B1, CASCADE:INTEGRIN_A5B1, CASCADE:IL8, CASCADE:TLR2_4</p> <p>MODULE:RECRUITMENT_OF_IMMUNE_CELLS, MODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORS</p> <p>References:</p> <p>PMID:18633355</p> <p>TAM express many pro-angiogenic and angiogenesis-modulating factors in vitro, such as VEGF, basic fibroblast growth factor (bFGF, also known as FGF2), tumour necrosis factor (TNF), interleukin 1 (IL1), chemokine (C-X-C motif) ligand 8 (CXCL8; also known as IL8), cyclooxygenase 2 (COX2, also known as PTGS2), plasminogen activator, urokinase (uPA, also known as PLAU), platelet derived growth factor beta.</p> <p>Release of the pro-angiogenic chemokines CXCL8 and CXCL1 by neutrophils is also triggered by TNF, and by granulocyte-macrophage colony-stimulating factor (GM-CSF, CSF2), platelet-activating factor and CXCL8 itself</p> <p> iDC in ovarian cancer ascites promote angiogenesis in vivo through production of TNF and CXCL8</p> <p> PMID:18980965</p> <p> Interleukin 8-stimulated phosphatidylinositol-3-kinase activity regulates the migration of human</p> <p>neutrophils</p> <p>PMID:15099563</p> <p>Mast cells produce heparin, interleukin-8 (IL-8) and vascular</p> <p>endothelial cell growth factor (VEGF), which induce</p> <p>neovascularization,</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1259_in_sa1259"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18633355"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP1_2*:HDAC1:HDAC3:SNAI2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17508028</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa304_emtc_em_csa304"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17508028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP1_2*/HDAC1/HDAC3/SNAI2"/> <bbox w="202.0" h="70.0" x="3172.0" y="16669.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2055_emtc_em_sa2055"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>snail homolog 2 </p> <p>HUGO:SNAI2, HGNC:11094, ENTREZ:6591, UNIPROT:O43623, GENECARDS:GC08M049830</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22370643</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="SNAI2"/> <bbox w="40.0" h="20.0" x="3283.5" y="16697.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2052_emtc_em_sa2052"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363</p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CTBP1_2*"/> <bbox w="62.0" h="22.0" x="3199.5" y="16696.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2053_emtc_em_sa2053"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 3</p> <p>HUGO:HDAC3 HGNC:4854 ENTREZ:8841 UNIPROT:O15379</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HDAC3"/> <bbox w="56.0" h="17.0" x="3204.0" y="16674.25"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2054_emtc_em_sa2054"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone deacetylase 1</p> <p>RPD3L1</p> <p>HUGO:HDAC1 HGNC:4852 ENTREZ:3065 UNIPROT:Q13547</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:22796940</p> <p>The silencing of E-cadherin expression by hypermethylation is a common event in cancer.</p> <p>DNMTs target cytosine residues in CpG dinucleotides for methylation and have been identified in the repression of E-cadherin in normal and pathological contexts</p> <p>such as colorectal cancer, gastric cancer and hepatocellular carcinomas.</p> <p>Multiple signaling pathways involved in EMT and tumorigenesis activate DNMTs, e.g., ras43 and TGF-b.</p> <p>DNMTs bind several histone remodeling enzymes, such as Sirtuin and G9a.</p> <p>However, SNAI1 has been shown to be linked to DNMT1, notably in association with G9a and Suv39H1.</p> <p>Cooperation between Polycomb proteins and EMT-inducing transcription factors.</p> <p>The polycomb proteins are part of repressor complexes that inhibit gene expression through chromatin remodeling. </p> <p>The polycomb repressive complex 2 (PRC2) recruits PRC1 after chromatin methylation at H3K27 through enhancer of EZH2, a histone H3 lysine-27-specific methyltransferase.</p> <p>Both, PRC1 and PRC2 have been shown to interact with SNAI1 and TWIST1 to promote EMT.</p> <p>SNAI1 is stabilized through its interaction with the PRC1 component BMI1 and interacts with EZH2 and Suz12 to repress CDH1 expression.</p> <p>Interestingly, EZH2 also participates in TGFb1 signaling, a potent inducer of EMT.</p> <p>BMI-1 can also interact with TWIST to induce EMT.</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>The intricate interactions of EMT-inducing transcription factors and chromatin remodeling complexes PRC1 and PRC2 may offer novel approaches to control EMT and thus cell adhesion in cancer cells via a plethora of new drug, such as HDACs and DNMT inhibitors.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="HDAC1"/> <bbox w="50.0" h="16.0" x="3266.0" y="16673.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3273_rc_sa3273" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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text="ACTR3"/> <bbox w="80.0" h="40.0" x="17400.0" y="6182.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa253_in_sa253"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ACTR2"/> <bbox w="80.0" h="40.0" x="17400.0" y="6140.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa244_shh1_shh2_sa244" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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y="21994.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca2_sa105_wca1_wca2_sa105" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TGFβ pathway"/> <bbox w="80.0" h="30.0" x="23293.06" y="19303.0"/> </glyph> <glyph class="simple chemical" id="s_id_an_sa251_an_sa251" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23747852</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa251_an_sa251"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23747852"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Sphingosine-1-phosphate"/> <bbox w="175.0" h="33.0" x="5426.5" y="7990.75"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2314_rc_sa2314" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2314_rc_sa2314"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HMOX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HMOX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HMOX1"/> <bbox w="90.0" h="25.0" x="25564.06" y="16026.5"/> <glyph class="unit of information" id="_9fb4ffaa-7c0d-45af-b293-8aa6a468165b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25599.06" y="16021.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa740_ca_sa740" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CORE MODULE:CAF References:CASCADE:PDGFPMID:19118022fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblasts. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CORE MODULE:CAF References:CASCADE:PDGFPMID:19118022fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblasts. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa740_ca_sa740"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SPP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19118022"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SPP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19118022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SPP1"/> <bbox w="90.0" h="25.0" x="4085.0" y="3517.5"/> <glyph class="unit of information" id="_2cc927c0-c6e6-4ed3-8488-93e7382cb2ac"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4120.0" y="3512.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca2_csa1_wca1_wca2_csa1" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:NKD1:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re1:(MAP:survival) PMID:21490931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa1_wca1_wca2_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21490931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NKD1:β-Catenin*"/> <bbox w="100.0" h="120.0" x="23239.06" y="18218.0"/> <glyph class="macromolecule" id="s_id_wca1_wca2_sa4_wca1_wca2_sa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>naked cuticle homolog 1 (Drosophila)-</p> <p>HUGO:NKD1 HGNC:17045 ENTREZ:85407 UNIPROT:Q969G9 GENECARDS:NKD1 KEGG:85407 ATLASONC:GC_NKD1 WIKI:NKD1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="NKD1"/> <bbox w="80.0" h="40.0" x="23250.56" y="18228.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa5_wca1_wca2_sa5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="23250.56" y="18273.0"/> <glyph class="state variable" id="_0e1593e6-7e5e-4934-8406-3e2f2b5d0ced"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="23315.56" y="18268.213"/> </glyph> <glyph class="state variable" id="_7ee2ed59-43c6-4e75-a728-4fd1c61c524f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23264.777" y="18268.0"/> </glyph> <glyph class="state variable" id="_e4188d38-7ad5-4f71-aa52-89614b9e86e4"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="23236.053" y="18268.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Compounds that inhibit activity of Topoisomerase family, interferes with replication, transcription and DNA repair</p> <p> Topoisomerase I inhibitors: irinotecan, topotecan, camptothecin, lamellarin D </p> <p> Topoisomerase II inhibitors: etoposide (VP-16), teniposide, doxorubicin, daunorubicin, mitoxantrone, amsacrine, ellipticines, aurintricarboxylic acid, HU-331</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:C_NHEJ, MODULE:FANCONI</p> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:23259582</p> <p>For HR</p> <p>PMID:22123462, PMID:20693240</p> <p>FOR Fanconi</p> <p>PMID:21414716, PMID:23157317</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL2:NKD1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re2:(MAP:survival) PMID:21490931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_csa2_wca1_wca2_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21490931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa818_ca_sa818"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9242465"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HGF"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9242465"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HGF"/> <bbox w="70.0" h="25.0" x="4065.0" y="4242.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1185_ce_sa1185" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1185_ce_sa1185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAD2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAD2L2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAD2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAD2L2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAD2*"/> <bbox w="90.0" h="25.0" x="15248.269" y="10013.878"/> <glyph class="unit of information" id="_1ff52f05-965f-44fa-91dc-3ee935c71999"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15283.269" y="10008.878"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa261_mo_sa261" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Stathmins familyStathmin 1Stathmin 2Stathmin 3Stathmin 4 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Stathmins familyStathmin 1Stathmin 2Stathmin 3Stathmin 4 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa261_mo_sa261"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STMN4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Stathmin*"/> <bbox w="70.0" h="25.0" x="5260.0" y="10974.5"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa70_ce_sa70" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa70_ce_sa70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MSH6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSH6"/> <bbox w="80.0" h="40.0" x="9743.133" y="15880.456"/> <glyph class="state variable" id="_6f927d04-f3b5-4d8d-b17d-2746afbb6118"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9735.633" y="15895.456"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2865_in_sa2865" compartmentRef="s_id_in_ca47_in_ca47"> <label text="THBD"/> <bbox w="80.0" h="50.0" x="10003.75" y="357.5"/> <glyph class="unit of information" id="_cfac4cee-3c6e-4e34-af55-9f17af9ccbaa"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10021.25" y="352.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa44_akt1_akt2_csa44" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO1:MIR182</p> <p>References:</p> <p>s_akt2_re134:(MAP:survival) PMID:19574223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa44_akt1_akt2_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1:MIR182"/> <bbox w="100.0" h="120.0" x="12757.061" y="21802.0"/> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa258_akt1_akt2_sa258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15668399</p> <p>PMID:20673124</p> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1</p> <p>Map modules:</p> <p>References:</p> <p>PMID:15668399</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="90.0" h="25.0" x="12762.061" y="21854.0"/> <glyph class="unit of information" id="_e518d45d-f9ad-4d77-8fd6-9e5bdaf4f20a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12797.061" y="21849.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa255_akt1_akt2_sa255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:apoptosis / MODULE:APOPTOSIS_GENES ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:APOPTOSIS_GENES </body> </html> </notes> <label text="MIR182"/> <bbox w="90.0" h="25.0" x="12764.561" y="21824.0"/> <glyph class="unit of information" id="_2b43a373-839d-4151-9f52-16970d2d1aba"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="12794.561" y="21819.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa65_wca1_wca3_csa65" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CTBP*:HIPK2:LEF_TCF*:_beta_-Catenin*</p> <p>References:</p> <p>s_wca3_re144(MAP:survival):</p> <p>This complex does not contain HDAC but do contain LEF1</p> <p>PMID:17666529</p> <p>s_wca3_re116(MAP:survival):</p> <p>PMID:22761862</p> <p>Swi/SNF complex </p> <p>PMID:22290435</p> <p>NuRD complex:</p> <p>b-catenin/CTBP/Hipk2/LEF1 complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa65_wca1_wca3_csa65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17666529"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CTBP*:HIPK2:LEF_TCF*:β-Catenin*"/> <bbox w="194.0" h="118.0" x="20846.06" y="21374.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa401_wca1_wca3_sa401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>homeodomain interacting protein kinase 2</p> <p>"homeodomain-interacting protein kinase 2"</p> <p>HUGO:HIPK2 HGNC:14402 ENTREZ:28996 UNIPROT:Q9H2X6 GENECARDS:HIPK2 KEGG:28996 ATLASONC:HIPK2ID40824ch7q34 WIKI:HIPK2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>HIPK2 is pre-dominantly present in the nucleus</p> </body> </html> </notes> <label text="HIPK2"/> <bbox w="80.0" h="40.0" x="20859.81" y="21431.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa402_wca1_wca3_sa402"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20943.81" y="21387.0"/> <glyph class="state variable" id="_4b08bbad-02bd-4201-a6c9-5c0cf6aaedd8"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="21008.81" y="21382.213"/> </glyph> <glyph class="state variable" id="_4760cb51-f1e5-4fff-b59a-a0703ee6025f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20958.027" y="21382.0"/> </glyph> <glyph class="state variable" id="_5e49447f-6c26-4dc6-a538-d0f300f50ce7"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20929.303" y="21382.0"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-terminal binding protein 1</p> <p>HUGO:CTBP1 HGNC:2494 ENTREZ:1487 UNIPROT:Q13363 GENECARDS:CTBP1 KEGG:1487 ATLASONC:GC_CTBP1 WIKI:CTBP1 </p> <p>C-terminal binding protein 2</p> <p>HUGO:CTBP2 HGNC:2495 ENTREZ:1488 UNIPROT:P56545 GENECARDS:CTBP2 ATLASONC:GC_CTBP2 WIKI:CTBP2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT</p> </body> </html> </notes> <label text="CTBP*"/> <bbox w="80.0" h="40.0" x="20859.81" y="21387.0"/> <glyph class="state variable" id="_4ed2aedf-14e9-4193-bcac-826d3d682f05"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="20924.81" y="21382.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa403_wca1_wca3_sa403"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) </p> <p>HUGO:PCBD2 HGNC:24474 ENTREZ:84105 UNIPROT:Q9H0N5 GENECARDS:PCBD2 KEGG:84105 WIKI:PCBD2 </p> <p>HNF1 homeobox A</p> <p>MODY3 TCF1 "transcription factor 1 hepatic; LF-B1 hepatic nuclear factor (HNF1) albumin proximal factor"</p> <p>HUGO:HNF1A HGNC:11621 ENTREZ:6927 UNIPROT:P20823 GENECARDS:HNF1A REACTOME:403244 KEGG:6927 ATLASONC:GC_HNF1A WIKI:HNF1A </p> <p>HNF1 homeobox B</p> <p>TCF2 "transcription factor 2 hepatic; LF-B3; variant hepatic nuclear factor"</p> <p>HUGO:HNF1B HGNC:11630 ENTREZ:6928 UNIPROT:P35680 GENECARDS:HNF1B REACTOME:403844 KEGG:6928 ATLASONC:GC_HNF1B WIKI:HNF1B </p> <p>transcription factor 3</p> <p>HUGO:TCF3 HGNC:11633 ENTREZ:6929 UNIPROT:P15923 GENECARDS:TCF3 REACTOME:65901 KEGG:6929 ATLASONC:E2A WIKI:TCF3 </p> <p>transcription factor 4</p> <p>HUGO:TCF4 HGNC:11634 ENTREZ:6925 UNIPROT:P15884 GENECARDS:TCF4 REACTOME:57613 KEGG:6925 ATLASONC:GC_TCF4 WIKI:TCF4 </p> <p>CCAAT/enhancer binding protein (C/EBP) beta</p> <p>TCF5 </p> <p>HUGO:CEBPB HGNC:1834 ENTREZ:1051 UNIPROT:P17676 GENECARDS:CEBPB REACTOME:51866 KEGG:1051 ATLASONC:GC_CEBPB WIKI:CEBPB </p> <p>transcription factor-like 5 (basic helix-loop-helix)</p> <p>HUGO:TCFL5 HGNC:11646 ENTREZ:10732 UNIPROT:Q9UL49 GENECARDS:TCFL5 KEGG:10732 WIKI:TCFL5 </p> <p>info transcription factor A mitochondrial</p> <p>HUGO:TFAM HGNC:11741 ENTREZ:7019 UNIPROT:Q00059 GENECARDS:TFAM REACTOME:65899 KEGG:7019 ATLASONC:GC_TFAM WIKI:TFAM </p> <p>transcription factor 7 (T-cell specific HMG-box)</p> <p>HUGO:TCF7 HGNC:11639 ENTREZ:6932 UNIPROT:P36402 GENECARDS:TCF7 KEGG:6932 ATLASONC:GC_TCF7 WIKI:TCF7 </p> <p>transcription factor 7-like 1 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L1 HGNC:11640 ENTREZ:83439 UNIPROT:Q9HCS4 GENECARDS:TCF7L1 KEGG:83439 ATLASONC:GC_TCF7L1 WIKI:TCF7L1 </p> <p>transcription factor 7-like 2 (T-cell specific HMG-box)</p> <p>HUGO:TCF7L2 HGNC:11641 ENTREZ:6934 UNIPROT:Q9NQB0 GENECARDS:TCF7L2 REACTOME:65596 KEGG:6934 ATLASONC:GC_TCF7L2 WIKI:TCF7L2 </p> <p>zinc finger E-box binding homeobox 1</p> <p>TCF8</p> <p>HUGO:ZEB1 HGNC:11642 ENTREZ:6935 UNIPROT:P37275 GENECARDS:ZEB1 KEGG:6935 ATLASONC:GC_ZEB1 WIKI:ZEB1 </p> <p>GC-rich sequence DNA-binding factor 2</p> <p>PREVIOUS SYMBOLS/ C2orf3 "chromosome 2 open reading frame 3" TCF9 "transcription factor 9 (binds GC-rich sequences)"</p> <p>HUGO:GCFC2 HGNC:1317 ENTREZ:6936 UNIPROT:P16383 GENECARDS:GCFC2 KEGG:6936 WIKI:GCFC2 </p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1 HGNC:6551 ENTREZ:51176 UNIPROT:Q9UJU2 GENECARDS:LEF1 KEGG:51176 ATLASONC:GC_LEF1 WIKI:LEF1 </p> <p>nuclear factor (erythroid-derived 2)-like 1</p> <p>TCF11</p> <p>HUGO:NFE2L1 HGNC:7781 ENTREZ:4779 UNIPROT:Q14494 GENECARDS:NFE2L1 KEGG:4779 ATLASONC:GC_NFE2L1 WIKI:NFE2L1 </p> <p>transcription factor 12 </p> <p>HUGO:TCF12 HGNC:11623 ENTREZ:6938 UNIPROT:Q99081 GENECARDS:TCF12 REACTOME:56728 KEGG:6938 ATLASONC:TCF12ID406 WIKI:TCF12 </p> <p>TEA domain family member 1 (SV40 transcriptional enhancer factor)</p> <p>AA "atrophia areata peripapillary chorioretinal degeneration" TCF13</p> <p>HUGO:TEAD1 HGNC:11714 ENTREZ:7003 UNIPROT:P28347 GENECARDS:TEAD1 REACTOME:65831 KEGG:7003 ATLASONC:GC_TEAD1 WIKI:TEAD1 </p> <p>TEA domain family member 4</p> <p>TCF13L1</p> <p>HUGO:TEAD4 HGNC:11717 ENTREZ:7004 UNIPROT:Q15561 GENECARDS:TEAD4 REACTOME:65837 KEGG:7004 WIKI:TEAD4 </p> <p>hepatocyte nuclear factor 4 alpha</p> <p>MODY MODY1 TCF14</p> <p>HUGO:HNF4A HGNC:5024 ENTREZ:3172 UNIPROT:P41235 GENECARDS:HNF4A REACTOME:211473 KEGG:3172 ATLASONC:GC_HNF4A WIKI:HNF4A </p> <p>transcription factor 15 (basic helix-loop-helix) </p> <p>HUGO:TCF15 HGNC:11627 ENTREZ:6939 UNIPROT:Q12870 GENECARDS:TCF15 KEGG:6939 ATLASONC:GC_TCF15 WIKI:TCF15 </p> <p>conserved helix-loop-helix ubiquitous kinase</p> <p>TCF16</p> <p>HUGO:CHUK HGNC:1974 ENTREZ:1147 UNIPROT:O15111 GENECARDS:CHUK REACTOME:57214 KEGG:1147 ATLASONC:GC_CHUK WIKI:CHUK </p> <p>zinc finger protein 354A</p> <p>TCF17</p> <p>HUGO:ZNF354A HGNC:11628 ENTREZ:6940 UNIPROT:O60765 GENECARDS:ZNF354A REACTOME:65741 KEGG:6940 WIKI:ZNF354A </p> <p>transcription factor 19 </p> <p>HUGO:TCF19 HGNC:11629 ENTREZ:6941 UNIPROT:Q9Y242 GENECARDS:TCF19 KEGG:6941 WIKI:TCF19 </p> <p>transcription factor 20</p> <p>HUGO:TCF20 HGNC:11631 ENTREZ:6942 UNIPROT:Q9UGU0 GENECARDS:TCF20 KEGG:6942 WIKI:TCF20 </p> <p>transcription factor 21</p> <p>HUGO:TCF21 HGNC:11632 ENTREZ:6943 UNIPROT:O43680 GENECARDS:TCF21 KEGG:6943 ATLASONC:GC_TCF21 WIKI:TCF21 </p> <p>transcription factor 23</p> <p>HUGO:TCF23 HGNC:18602 ENTREZ:150921 UNIPROT:Q7RTU1 GENECARDS:TCF23 KEGG:150921 WIKI:TCF23 </p> <p>transcription factor 24</p> <p>HUGO:TCF24 HGNC:32275 ENTREZ:100129654 UNIPROT:Q7RTU0 GENECARDS:TCF24 KEGG:100129654 WIKI:TCF24 </p> <p>transcription factor 25</p> <p>HUGO:TCF25 HGNC:29181 ENTREZ:22980 UNIPROT:Q9BQ70 GENECARDS:TCF25 KEGG:22980 ATLASONC:GC_TCF25 WIKI:TCF25 </p> <p>TCF3</p> <p>TCF4</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19623618</p> <p>PMID:19619488</p> <p>HNF1 homeobox</p> <p>Phosphorylation sites specific for HIPK2 not known</p> <p>PMID:21285352</p> </body> </html> </notes> <label text="LEF_TCF*"/> <bbox w="80.0" h="40.0" x="20943.81" y="21431.0"/> <glyph class="state variable" id="_01f64d91-c4ee-420b-9d7b-e4a505da46b4"> <state value="" variable="S166"/> <bbox w="30.0" h="10.0" x="20929.303" y="21426.0"/> </glyph> <glyph class="state variable" id="_4faa6b17-39c2-4e39-91df-06144569b053"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21018.81" y="21426.877"/> </glyph> <glyph class="state variable" id="_56e389d0-a7bc-4eb0-81b8-c5e2c45fe6f7"> <state value="" variable="S40"/> <bbox w="25.0" h="10.0" x="21011.31" y="21462.615"/> </glyph> <glyph class="state variable" id="_3eed3f88-40e3-4c1b-ad3b-445d0194b4d3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21018.81" y="21446.0"/> </glyph> <glyph class="state variable" id="_0d73cec3-794c-4395-8f64-613c561c60c0"> <state value="" variable="T155"/> <bbox w="30.0" h="10.0" x="20928.81" y="21465.72"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1808_in_sa1808" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MICA"/> <bbox w="80.0" h="40.0" x="21973.75" y="5395.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa6_akt1_akt2_csa6" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAXX:PML</p> <p>References:</p> <p>s_akt2_re17:(MAP:survival) PMID:18716620</p> <p>s_akt2_re27(MAP:survival):</p> <p>PMID:16680151</p> <p>PMID:20452955</p> <p>PMID:19216069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa6_akt1_akt2_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18716620"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16680151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20452955"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19216069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PML_Nuclear_Body)"/> <bbox w="216.0" h="127.0" x="13145.061" y="21620.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa40_akt1_akt2_sa40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-domain associated protein</p> <p>HUGO:DAXX HGNC:2681 ENTREZ:1616 UNIPROT:Q9UER7 GENECARDS:DAXX KEGG:1616 ATLASONC:DAXXID40265ch6p21 WIKI:DAXX </p> <p>"death-associated protein 6"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20452955</p> </body> </html> </notes> <label text="DAXX"/> <bbox w="80.0" h="40.0" x="13267.061" y="21634.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa53_akt1_akt2_sa48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13150.561" y="21630.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa53_akt1_akt2_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13200.561" y="21680.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa53_akt1_akt2_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13170.561" y="21650.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa53_akt1_akt2_sa51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13180.561" y="21660.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa53_akt1_akt2_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13160.561" y="21640.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa53_akt1_akt2_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PML</p> <p>HUGO:PML HGNC:9113 ENTREZ:5371 UNIPROT:P29590 GENECARDS:PML REACTOME:61894 KEGG:5371 ATLASONC:PMLID41 WIKI:PML </p> <p>promyelocytic leukemia</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PML"/> <bbox w="80.0" h="40.0" x="13190.561" y="21670.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa1463_emtc_em_sa1463" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Overexpression of Numb promotes sorting of Notch1 through late endosomes for degradation, whereas depletion of Numb facilitates Notch1 recycling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Endosomal trafficking"/> <bbox w="152.0" h="20.0" x="1994.625" y="13682.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa664_rc_sa664" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa664_rc_sa664"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXO3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO3"/> <bbox w="80.0" h="40.0" x="23549.06" y="15879.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4759_rc_sa4759" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4759_rc_sa4759"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB3L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="OASIS*"/> <bbox w="80.0" h="40.0" x="27669.06" y="14859.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa59_ce_csa59" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BARD1:BRCA1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> </body> </html> </notes> <label text="BARD1/BRCA1"/> <bbox w="93.0" h="105.0" x="14889.473" y="16008.356"/> <glyph class="macromolecule" id="s_id_ce_sa630_ce_sa630"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>breast cancer 1, early onset</p> <p>HUGO:BRCA1, HGNC:1100, ENTREZ:672, UNIPROT:P38398</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:G1_S_CHECKPOINT, MODULE:S_PHASE_CHECKPOINT, MODULE:G2_M_CHECKPOINT, MODULE:SPINDLE_CHECKPOINT, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>For S-phase checkpoint</p> <p>PMID:11877377, PMID:15459660, PMID:19793801, PMID:20029420, PMID:21337561, PMID:21060331</p> </body> </html> </notes> <label text="BRCA1"/> <bbox w="80.0" h="40.0" x="14894.78" y="16051.626"/> <glyph class="state variable" id="_428f5a4c-950b-48de-89f4-21e8ca6fce6d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14966.866" y="16086.626"/> </glyph> <glyph class="state variable" id="_36284dc5-9a85-4566-824b-32d3f5147d0d"> <state value="" variable="S988"/> <bbox w="30.0" h="10.0" x="14934.643" y="16046.626"/> </glyph> <glyph class="state variable" id="_f2a9d56d-2845-4568-8bb5-fc294cda5595"> <state value="" variable="S1423"/> <bbox w="35.0" h="10.0" x="14896.407" y="16046.626"/> </glyph> <glyph class="state variable" id="_a2ceffa4-eaea-4ef3-a1a2-cc6ff345f092"> <state value="" variable="S1497"/> <bbox w="35.0" h="10.0" x="14914.532" y="16046.626"/> </glyph> <glyph class="state variable" id="_9dbeceaa-2e06-45e9-9e08-a791fdd1c352"> <state value="" variable="S1524"/> <bbox w="35.0" h="10.0" x="14877.28" y="16066.594"/> </glyph> <glyph class="state variable" id="_1cd5c429-810a-4cf5-aee2-61c6c46b226e"> <state value="" variable="S308"/> <bbox w="30.0" h="10.0" x="14879.78" y="16082.097"/> </glyph> <glyph class="state variable" id="_1e3c6b74-601a-43b2-8103-18f830d4938c"> <state value="" variable="S1387"/> <bbox w="35.0" h="10.0" x="14957.28" y="16051.864"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa629_ce_sa629"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BRCA1 associated RING domain 1</p> <p>HUGO:BARD1, HGNC:952, ENTREZ:580, UNIPROT:Q99728</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR</p> <p>References:</p> <p>PMID:19772495, PMID:16697054, PMID:19847258</p> </body> </html> </notes> <label text="BARD1"/> <bbox w="80.0" h="40.0" x="14893.473" y="16011.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa14_ca_csa14" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PDGF*:PDGFR*</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>PMID:7682895; PMID:17397400 </p> <p>PDGF -receptor directly binds and activates PLC-gamma 1, RasGAP, P13K, and a 64 kd protein. </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa14_ca_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7682895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17397400"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s417"/> <bbox w="100.0" h="130.0" x="4380.0" y="1125.0"/> <glyph class="macromolecule" id="s_id_ca_sa281_ca_sa281"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>platelet derived growth factor subunit A</p> <p>HUGO:PDGFA hgnc_id:HGNC:8799 HGNC:8799 ENTREZ:5154 UNIPROT:P04085 </p> <p>platelet derived growth factor subunit B</p> <p>HUGO:PDGFB hgnc_id:HGNC:8800 HGNC:8800 ENTREZ:5155 UNIPROT:P01127 </p> <p>platelet derived growth factor C</p> <p>HUGO:PDGFC hgnc_id:HGNC:8801 HGNC:8801 ENTREZ:56034 UNIPROT:Q9NRA1</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:GROWTH_FACTORS_PRODUCTION </p> <p>References:</p> <p>CASCADE:TGFB, CASCADE:PDGF</p> <p>PMID:23123598</p> <p>paracrine PDGF stimulation of CAFs induces production of the prototypical pro-angiogenic inducer fibroblast growth factor (FGF)-2 in both cervical carcinomas and melanoma [11] and [85].</p> <p>Interestingly, CAFs activated by PDGF-CC in melanomas also secrete the extracellular matrix protein osteopontin, the action of which is known to synergistically stimulate angiogenesis together with FGF-2 and promote autocrine VEGF-A signaling in endothelial cells</p> <p>PMID:15207817; PMID:19118022 </p> <p>PDGF receptors-mediators of autocrine tumor growth and regulators of tumor vasculature and stroma.</p> <p>Tumor fibroblasts a recruted by PDGF</p> <p>PMID:18232728 </p> <p>Inhibition of stromal PDGF receptors reduced proliferation and angiogenesis in cervical lesions through a mechanism involving suppression of expression of the angiogenic factor fibroblast growth factor 2 (FGF-2) and the epithelial cell growth factor FGF-7 by cancer-associated fibroblasts.</p> <p>PMID:19111878 </p> <p>PDGF-C is upregulated in TAFs derived from refractory tumors and that PDGF-C, together with VEGF-A, mediates the angiogenesis induced by such TAFs in vivo. This study also demonstrates that inhibition of PDGF-C may reduce tumor angiogenesis and growth in vivo.</p> <p>PMID:26921338 </p> <p>TGFB induces expression of PDGFB and PDGFR in CAFs and indirectly suppresses PEDF expression via PDGFB signaling</p> </body> </html> </notes> <label text="PDGF*"/> <bbox w="80.0" h="40.0" x="4390.0" y="1140.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa273_ca_sa273"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF , MODULE:FIBROBLAST_ACTIVATION_MARKERS</p> <p>HUGO:PDGFRA</p> <p>HUGO:PDGFRB</p> <p>References:</p> <p>CASCADE:PDGF, CASCADE:LIF, CASCADE:TGFB</p> <p>PMID:19118022</p> <p>Fibroblasts expressed high amounts of osteopontin, and stimulation with PDGF-CC for 6 h increased the production even further, by 2.4-fold compared to unstimulated fibroblasts, demonstrating that the expression of osteopontin is directly regulated by signaling induced by PDGF-CC in fibroblasts</p> <p>probably via PDGFR-α.</p> <p>PMID:24857661 </p> <p>we noted an increased expression of PDGFRα after LIF stimulation in hPDF</p> <p>PMID:15229650</p> <p>PDGFR alpha signaling is required for the recruitment of VEGF-producing stromal fibroblasts for tumor angiogenesis and growth</p> <p>PMID:7682895; PMID:17397400 </p> <p>PDGF -receptor directly binds and activates PLC-gamma 1, RasGAP, P13K, and a 64 kd protein. </p> <p>PI3K-Akt pathway promotes microtubule stabilization in migrating fibroblasts downstream of PDGF signaling</p> </body> </html> </notes> <label text="PDGFR*"/> <bbox w="80.0" h="50.0" x="4390.0" y="1185.0"/> <glyph class="unit of information" id="_2f3dcf9b-29d7-4eb8-a71e-679c16c9299a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4407.5" y="1180.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa94_rc_csa94" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MLST8:MTOR:PRAS40*:RPTOR</p> </body> </html> </notes> <label text="mTORC1:AKT1S1"/> <bbox w="180.0" h="112.0" x="26797.227" y="11285.659"/> <glyph class="macromolecule" id="s_id_rc_sa1120_rc_sa1120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein, LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="26804.893" y="11292.992"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1119_rc_sa1119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:FRAP1</p> <p>PMID:28216025</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="26804.893" y="11334.992"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1118_rc_sa1118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR, complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="26888.893" y="11292.992"/> <glyph class="state variable" id="_40c8cca4-a03e-4efa-8eb1-36d1bcb0d101"> <state value="" variable="S722"/> <bbox w="30.0" h="10.0" x="26897.488" y="11287.992"/> </glyph> <glyph class="state variable" id="_37c82029-fe7e-4f00-a467-72c303971edd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26907.324" y="11327.992"/> </glyph> <glyph class="state variable" id="_523f1fc8-2a12-4a61-a364-e429bff45e89"> <state value="" variable="S792"/> <bbox w="30.0" h="10.0" x="26930.842" y="11287.992"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1117_rc_sa1117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:PRAS</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="26887.227" y="11335.659"/> <glyph class="state variable" id="_90da6b0e-2706-4d04-ae7d-606654782540"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26936.295" y="11330.659"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2589_in_sa2589" compartmentRef="s_id_in_ca12_in_ca12"> <label text="S100A9"/> <bbox w="70.0" h="25.0" x="13075.0" y="2262.5"/> </glyph> <glyph class="source and sink" id="s_id_ce_sa151_ce_sa151" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_sa955_degraded"/> <bbox w="30.0" h="30.0" x="13301.0" y="11847.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1522_in_sa1522" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa232_mo_sa232"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF4EBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="4E-BP1"/> <bbox w="80.0" h="40.0" x="3414.0" y="10023.0"/> <glyph class="state variable" id="_bbaec7ee-eab8-431a-b302-7938b4b82ee2"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3463.0686" y="10018.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa280_emtc_em_sa280" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAPK1:PPP2CB:PPPR1B:UNC5B</p> <p>References:</p> <p>21172653</p> <p>in the absence of netrin-1, recruitment of PP2A to UNC5H2/B allows the activation of DAPk via a PP2A-mediated dephosphorylation</p> <p>21172648</p> </body> </html> </notes> <label text="UNC5B:DAPK1:PPPR1B:PPP2CB"/> <bbox w="100.0" h="220.0" x="19687.111" y="9138.431"/> <glyph class="macromolecule" id="s_id_rc_sa4144_rc_sa4144"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:21172653</p> <p>subunit PR65β of the holoenzyme protein phosphatase 2A (PP2A)</p> </body> </html> </notes> <label text="PPPR1B"/> <bbox w="80.0" h="40.0" x="19697.111" y="9248.431"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4135_rc_sa4135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>death-associated protein kinase 1</p> <p>HUGO:DAPK1 HGNC:2674 ENTREZ:1612 UNIPROT:P53355</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:17703233</p> <p>DAP kinase regulates JNK signaling by binding and activating protein kinase D</p> </body> </html> </notes> <label text="DAPK1"/> <bbox w="80.0" h="40.0" x="19697.111" y="9198.431"/> <glyph class="state variable" id="_d901152b-e511-4c58-aa44-5a68778c4982"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19715.543" y="9193.431"/> </glyph> <glyph class="state variable" id="_5167bdb1-b8ef-4721-8911-787c90ab0374"> <state value="" variable="S289"/> <bbox w="30.0" h="10.0" x="19738.68" 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Conversely, when p53RDL1 interacted with its ligand, Netrin-1, p53-dependent apoptosis was blocked</p> <p>PMID:18582460</p> </body> </html> </notes> <label text="UNC5B"/> <bbox w="80.0" h="50.0" x="19697.111" y="9143.431"/> <glyph class="unit of information" id="_0d23ba3e-f631-4c24-afb5-a2b27c05dfc3"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="19714.611" y="9138.431"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4146_rc_sa4146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 2, catalytic subunit, beta isozyme</p> <p>HUGO:PPP2CB HGNC:9300 ENTREZ:5516 UNIPROT:P62714</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DEPENDANCE_RECEPTORS</p> <p>References:</p> <p>PMID:21172653</p> <p>subunit PR65β of the holoenzyme protein phosphatase 2A (PP2A)</p> </body> </html> </notes> <label text="PPP2CB"/> <bbox w="80.0" h="40.0" 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y="19225.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1378_in_sa1378" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 22461508, 22067385, 20644162, 23390297 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NEUTROPHILMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORSCASCADE:LACTIC, CASCADE:MIF, CASCADE:IL4, CASCADE:CSF2, CASCADE:IFNABReferences:HMGB1 markedly increased the expression of the genes for VEGF, and TGFB1 inperitoneal macrophages.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis provavly via upregulation of MMP9, VEGF expression.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.MIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasion ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 22461508, 22067385, 20644162, 23390297 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NEUTROPHILMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORSCASCADE:LACTIC, CASCADE:MIF, CASCADE:IL4, CASCADE:CSF2, CASCADE:IFNABReferences:HMGB1 markedly increased the expression of the genes for VEGF, and TGFB1 inperitoneal macrophages.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis provavly via upregulation of MMP9, VEGF expression.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.MIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasion </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1378_in_sa1378"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22461508"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22067385"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20644162"/> </rdf:Bag> 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1638_emtc_em_sa1638"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYH11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYH11"/> <bbox w="42.0" h="18.0" x="5840.34" y="16119.791"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4507_rc_sa4507" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17489</p> </body> </html> </notes> <label text="cAMP"/> <bbox w="70.0" h="25.0" x="27310.148" y="12607.514"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa916_in_sa916" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MIR1245A"/> <bbox w="70.0" h="25.0" x="11365.0" y="4448.125"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa44_wnc1_wnc2_csa44" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:NFAT*</p> <p>References:</p> <p>s_wnc2_re87:(MAP:survival) PMID:10611249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa44_wnc1_wnc2_csa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10611249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:NFAT*"/> <bbox w="107.0" h="135.0" x="18102.06" y="19528.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa248_wnc1_wnc2_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="18116.81" y="19536.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4746_rc_sa4746" compartmentRef="s_id_rc_ca41_rc_ca41"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4746_rc_sa4746"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MBTPS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S2P*"/> <bbox w="80.0" h="40.0" x="28692.81" y="15514.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1567_emtc_em_sa1567" 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<glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa198_akt1_akt2_sa198" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa198_akt1_akt2_sa198"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PINK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PINK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PINK1"/> <bbox w="70.0" h="25.0" x="12591.561" y="21536.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2444_rc_sa2444" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2444_rc_sa2444"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5C1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATP5C1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATP5C1"/> <bbox w="70.0" h="25.0" x="19692.06" y="16320.5"/> </glyph> <glyph class="phenotype" id="s_id_in_sa1110_in_sa1110"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1110_in_sa1110"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1431106"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NO_production"/> <bbox w="176.0" h="42.0" x="14712.0" y="8259.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa1893_rc_sa1893" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:NECROPTOSIS, MODULE:PARTHANATOS</p> <p>References:</p> <p>PMID:24684389</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1893_rc_sa1893"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24684389"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNA~fragmentation"/> <bbox w="110.0" h="35.0" x="18741.56" y="16299.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa62_mpk1_mpk1_csa62" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:KSR1:MEK*</p> </body> </html> </notes> <label text="ERK*:KSR1:MEK*"/> <bbox w="134.0" h="112.0" x="9278.061" y="19575.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa304_mpk1_mpk1_sa304"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="9339.727" y="19610.666"/> <glyph class="state variable" id="_e24718bd-5e37-43a3-a0f4-e922d90ec9af"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9332.227" y="19622.332"/> </glyph> <glyph class="state variable" id="_00faf0f6-c737-401b-bfba-d94c17f5ccda"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9332.227" y="19613.793"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_mpk1_mpk1_sa307_mpk1_mpk1_sa307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> <p>PMID:19541618 PMID:19565474 PMID:15547943</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="9340.144" y="19636.166"/> <glyph class="unit of information" id="_8f1a78d9-1094-4209-80bc-25d55e405d25"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="9355.144" y="19631.166"/> </glyph> <glyph class="state variable" id="_b9afb070-4902-443d-a7a4-f11c4fd03bdc"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9332.644" y="19648.023"/> </glyph> <glyph class="state variable" id="_76a6f52c-a09c-4ae2-b4fa-82d88c938834"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9332.644" y="19638.715"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa303_mpk1_mpk1_sa303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase suppressor of ras 1</p> <p>"kinase suppressor of ras" KSR</p> <p>HUGO:KSR1 HGNC:6465 ENTREZ:8844 UNIPROT:Q8IVT5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>KSR1 is a scaffold protein for ERK cascade. 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<bbox w="15.0" h="10.0" x="16412.5" y="4665.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa886_ca_sa886" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:MOTILITY </p> <p>References:</p> <p>PMID:23212475 </p> <p>WAve and WASP proteins activate Arp2/3 complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa886_ca_sa886"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WASF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23212475"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WAVE*"/> <bbox w="80.0" h="40.0" x="6720.0" y="3570.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3372_rc_sa3372" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3372_rc_sa3372"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~GCLC*"/> <bbox w="80.0" h="40.0" x="26189.06" y="9384.0"/> <glyph class="unit of information" id="_c2e7ac9d-7417-42e7-b73c-b5804dabd678"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="26204.06" y="9379.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa44_wnc1_wnc3_sa44" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa44_wnc1_wnc3_sa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FOXA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXA*"/> <bbox w="80.0" h="40.0" x="15823.061" y="20822.0"/> </glyph> <glyph class="complex" id="s_id_em_csa319_em_csa319" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CXCL8:CXCR1</p> <p>Map modules:</p> <p>References:</p> <p>PMID:26548401</p> <p>IL-8 exerts its effect by binding to the IL-8Rs, which are</p> <p>two heterotrimeric G protein-coupled receptors, CXCR1 and CXCR2.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_csa319_em_csa319"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26548401"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCR1/CXCL8"/> <bbox w="99.0" h="106.0" x="4188.0" y="12572.0"/> <glyph class="macromolecule" id="s_id_em_sa2102_em_sa2102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:17784835</p> <p>IL8 expression is dependent of NF-_kappa_B_ activity</p> <p>PMID : 26548401</p> <p>miR-302c was found to inhibit IL-8 expression and restrain tumor invasion and metastasis.</p> <p>PMID:18555778</p> <p>In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CXCL8"/> <bbox w="45.0" h="20.0" x="4214.5454" y="12585.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2101_em_sa2101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE , MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:17533374</p> <p>HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expression</p> <p>PMID:26548401</p> <p>IL-8 exerts its effect by binding to the IL-8Rs, which are</p> <p>two heterotrimeric G protein-coupled receptors, CXCR1 and CXCR2.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CXCR1"/> <bbox w="80.0" h="50.0" x="4199.5454" y="12610.0"/> <glyph class="unit of information" id="_35fd1aa0-2099-45a2-b069-e603b94ef9c1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4217.0454" y="12605.0"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_em_sa2093_em_sa2093" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOSKELETON_POLARITY MODULE:EMT_REGULATORS MODULE:CELL_CELL_ADHESIONS MODULE:CELL_MATRIX_ADHESIONS MODULE:ECM MODULE:TIGHT_JUNCTIONS MODULE:GAP_JUNCTIONS MODULE:ADHERENS_JUNCTIONS MODULE:DESMOSOMES </p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Migratory polarity"/> <bbox w="127.0" h="26.0" x="5101.0" y="14534.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5392_rc_sa5392" compartmentRef="s_id_rc_ca50_rc_ca50"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5392_rc_sa5392"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved~Caspase1*"/> <bbox w="80.0" h="40.0" x="28284.06" y="9965.25"/> <glyph class="unit of information" id="_c6103011-a741-4f6d-89a6-51c76f416cc0"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28299.06" y="9960.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1962_emtc_em_sa1962" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4406_rc_sa4406"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VAMP8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VAMP8"/> <bbox w="80.0" h="40.0" x="29237.56" y="11948.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1509_in_sa1509" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD14"/> <bbox w="80.0" h="40.0" x="23420.0" y="1595.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa205_emtc_em_csa205" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GJA1_5_GJC1*:GJA5</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA5 is so-called Connexin 40</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="GJA5/GJA1_5_GJC1*"/> <bbox w="140.0" h="40.0" x="1031.0" y="17872.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1310_emtc_em_sa1310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>gap junction protein, alpha 5, 40kDa</p> <p>HUGO:GJA5, HGNC:4279, ENTREZ:2702, UNIPROT:P36382, GENECARDS:GC01M147228  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA5 is so-called Connexin 40</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA5"/> <bbox w="35.0" h="16.0" x="1133.5" y="17875.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1362_emtc_em_sa1362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GJA1_5_GJC1*</p> <p>gap junction protein, alpha 5, 40kDa</p> <p>HUGO:GJA5, HGNC:4279, ENTREZ:2702, UNIPROT:P36382, GENECARDS:GC01M147228  </p> <p>gap junction protein, alpha 1, 43kDa</p> <p>HUGO:GJA1, HGNC:4274, ENTREZ:2697, UNIPROT:P17302, GENECARDS:GC06P121756</p> <p>gap junction protein, gamma 1, 45kDa</p> <p>HUGO:GJC1, HGNC:4280, ENTREZ:10052 , UNIPROT:P36383, GENECARDS:GC17M042875</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:GAP_JUNCTIONS</p> <p>References:</p> <p>GJA5 is so-called Connexin 40</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="GJA1_5_GJC1*"/> <bbox w="100.0" h="20.0" x="1033.0" y="17873.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa66_wnc1_wnc1_csa66" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRR*:RAC1:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re108(MAP:survival):</p> <p>Rac1 found to be associated with polymerised Dvl.</p> <p>PMID:20215527</p> <p>PMID:18953287</p> <p>DEP domain in Dvl is enough to activate Rac</p> <p>PMID:12533515</p> <p>s_wnc1_re119(MAP:survival):</p> <p>PRR binds to subunits ATP6V0C/D of the ATPase to lower the pH in the endosome. The reason for this is unknown but it is speculated that a lower pH is required for remodeling of the actin skeleton. However, v-ATPase is necessary for signaling</p> <p>PMID:21796133</p> <p>PMID:21380625</p> <p>PMID:20093472</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa66_wnc1_wnc1_csa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18953287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12533515"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl"/> <bbox w="358.0" h="203.0" x="15736.561" y="19079.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa573_wnc1_wnc1_sa573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="15836.561" y="19159.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa564_wnc1_wnc1_sa564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15985.061" y="19108.0"/> <glyph class="state variable" id="_185c182d-0b68-4cb2-91b9-437ae3725254"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="16050.061" y="19103.266"/> </glyph> <glyph class="state variable" id="_d7f69085-02f7-4e78-86a7-c9e6f47fa97c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16020.061" y="19153.0"/> </glyph> <glyph class="state variable" id="_d1705a38-e4f0-409d-8461-a68191971f3e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15980.064" y="19103.0"/> </glyph> <glyph class="state variable" id="_41730924-5fdf-46a9-8b1b-152a048b6e6c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16060.061" y="19153.0"/> </glyph> <glyph class="unit of information" id="_5d481b0c-3f10-494b-a826-d78bfb170083"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16002.561" y="19103.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa566_wnc1_wnc1_sa566"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="16008.561" y="19083.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa567_wnc1_wnc1_sa567"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="15821.561" y="19101.5"/> <glyph class="unit of information" id="_0c8bbe23-aa0d-4e1c-9e24-06510cbe8038"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15839.061" y="19096.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa576_wnc1_wnc1_sa575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16007.311" y="19163.5"/> <glyph class="state variable" id="_b1756d4e-1b06-48aa-bc1d-a4ebd2b58f97"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16002.314" y="19198.5"/> </glyph> <glyph class="state variable" id="_5bad444a-a8bf-410b-94d5-34748adf0d1c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16079.444" y="19158.5"/> </glyph> <glyph class="state variable" id="_45d13792-5bed-4535-86f1-987649db7d66"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16071.692" y="19198.5"/> </glyph> <glyph class="state variable" id="_6d33a808-08cc-47bb-85bb-cf67fb412dc7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16002.314" y="19158.5"/> </glyph> <glyph class="state variable" id="_b2d16fd4-dd78-40ff-985a-bd685e1ae22e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16082.311" y="19158.5"/> </glyph> <glyph class="state variable" id="_b08cfb4b-6181-4f95-807f-d25171795895"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16082.311" y="19198.5"/> </glyph> <glyph class="state variable" id="_2e9f214c-6d9b-4d95-9b57-41d7c99099dc"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="15992.311" y="19198.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa576_wnc1_wnc1_sa576"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16009.311" y="19207.5"/> <glyph class="state variable" id="_fad53ebb-4b3b-4123-b4a1-47e7eece950a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16004.314" y="19242.5"/> </glyph> <glyph class="state variable" id="_d9dbb9d8-1959-433e-8eeb-6aa9aa905351"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16081.444" y="19202.5"/> </glyph> <glyph class="state variable" id="_efeab4b1-7947-485f-9893-bbb18ba429a2"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16073.692" y="19242.5"/> </glyph> <glyph class="state variable" id="_2acf34b7-adab-48bf-b1aa-aad6c4b5e9c8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16004.314" y="19202.5"/> </glyph> <glyph class="state variable" id="_48506a95-9704-4c73-b42d-12d1958077c6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16084.311" y="19202.5"/> </glyph> <glyph class="state variable" id="_718b6a3e-a846-4a01-97e2-2fb166990716"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16084.311" y="19242.5"/> </glyph> <glyph class="state variable" id="_d8f4aaea-b12c-4723-b4c5-23ffb72d0253"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="15994.311" y="19242.22"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa571_wnc1_wnc1_sa571"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="15750.561" y="19192.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa569_wnc1_wnc1_sa569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="15747.561" y="19149.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa563_wnc1_wnc1_sa563"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15904.061" y="19108.0"/> <glyph class="unit of information" id="_f08028d5-1887-407c-a3a4-b2b2d5096e4c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15921.561" y="19103.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa568_wnc1_wnc1_sa568"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="15740.561" y="19096.5"/> <glyph class="state variable" id="_cb7f1258-c8f1-43f3-942a-98fe7f135ca9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15735.564" y="19091.5"/> </glyph> <glyph class="state variable" id="_7929f74b-d5ee-43ba-86c9-334664f5b70d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15815.561" y="19091.5"/> </glyph> <glyph class="state variable" id="_fe550aae-96ae-4412-a859-b90b71c59f7f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15815.561" y="19116.5"/> </glyph> <glyph class="state variable" id="_0639269d-a817-4bca-9137-e9ca73ada8bc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15735.561" y="19116.5"/> </glyph> <glyph class="unit of information" id="_332ba864-4244-49c0-9c2d-a3bf3b07bb0b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15758.061" y="19091.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa626_wnc1_wnc1_sa626"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="15924.561" y="19162.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa627_wnc1_wnc1_sa627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15758.561" y="19236.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa574_wnc1_wnc1_sa574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="15925.561" y="19205.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa577_wnc1_wnc1_sa577"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="15838.561" y="19207.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa565_wnc1_wnc1_sa565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15966.061" y="19084.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa536_akt1_akt1_sa536" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa536_akt1_akt1_sa536"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SGK1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SGK1"/> <bbox w="80.0" h="40.0" x="11947.311" y="18369.0"/> <glyph class="state variable" id="_52882657-eb79-42fb-a130-6eedc74719f4"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="11937.311" y="18403.72"/> </glyph> <glyph class="state variable" id="_5d634a7a-535e-4d02-9781-f9781b8c18cd"> <state value="" variable="S442"/> <bbox w="30.0" h="10.0" x="12012.311" y="18400.28"/> </glyph> <glyph class="state variable" id="_a9f6afe5-44ca-41ab-837d-9c4fd39edc4c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11942.311" y="18374.3"/> </glyph> <glyph class="state variable" id="_c626b353-eac7-4af8-ac21-0a25d5ffc365"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11942.311" y="18384.969"/> </glyph> <glyph class="state variable" id="_67a58253-c421-45a3-9b33-a2ab059af476"> <state value="" variable="T256"/> <bbox w="30.0" h="10.0" x="11935.846" y="18364.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1991_rc_sa1991" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29988 KEGGCOMPOUND:C00025 CAS:56-86-0</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="L-glutamate"/> <bbox w="70.0" h="25.0" x="18500.06" y="15130.5"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa28_akt1_akt2_csa28" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FOXO1:promoter_region</p> <p>References:</p> <p>s_akt2_re1:(MAP:survival) PMID:10783894 PMID:20673124 PMID:11094066 PMID:11994454</p> <p>s_akt2_re89:(MAP:survival) PMID:17646672</p> <p>s_akt2_re93:(MAP:survival) PMID19244250</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_csa28_akt1_akt2_csa28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10783894"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11094066"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11994454"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17646672"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FOXO1:promoter_region"/> <bbox w="105.0" h="101.0" x="12419.061" y="20778.5"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa179_akt1_akt2_sa179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O1</p> <p>HUGO:FOXO1 HGNC:3819 ENTREZ:2308 UNIPROT:Q12778 GENECARDS:FOXO1 REACTOME:199304 KEGG:2308 ATLASONC:FOXO1ID83ch13q14 WIKI:FOXO1 </p> <p>FKHR, "forkhead homolog in rhabdomyosarcoma", FOXO1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="FOXO1"/> <bbox w="80.0" h="40.0" x="12430.311" y="20786.0"/> <glyph class="state variable" id="_bb42ad92-a0a5-44cf-861d-7f6e4aa24fcb"> <state value="" variable="T24"/> <bbox w="25.0" h="10.0" x="12418.303" y="20781.0"/> </glyph> <glyph class="state variable" id="_f02d5f47-03bd-4233-ae87-29861971d900"> <state value="" variable="S256"/> <bbox w="30.0" h="10.0" x="12455.343" y="20781.0"/> </glyph> <glyph class="state variable" id="_0ebbfecb-ee62-4010-aacf-de66c6e44a1d"> <state value="" variable="S319"/> <bbox w="30.0" h="10.0" x="12495.311" y="20781.0"/> </glyph> <glyph class="state variable" id="_8834d193-e735-47b7-a269-85b84b41945b"> <state value="" variable="S325"/> <bbox w="30.0" h="10.0" x="12455.215" y="20821.0"/> </glyph> <glyph class="state variable" id="_d9b6239d-d7d7-4105-8549-213f5303f156"> <state value="" variable="S329"/> <bbox w="30.0" h="10.0" x="12415.311" y="20820.72"/> </glyph> <glyph class="state variable" id="_5b4c8196-7cc3-4d03-a035-74d178efbef4"> <state value="" variable="S322"/> <bbox w="30.0" h="10.0" x="12494.692" y="20821.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa178_akt1_akt2_sa178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="promoter_region"/> <bbox w="70.0" h="25.0" x="12436.311" y="20831.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa16_ce_csa16" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MLH1:MLH3</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="MLH1/MLH3"/> <bbox w="114.0" h="118.0" x="11678.473" y="15800.356"/> <glyph class="macromolecule" id="s_id_ce_sa464_ce_sa464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)</p> <p>HUGO:MLH1, HGNC:7127, ENTREZ:4292, UNIPROT:P40692</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR, MODULE:BER</p> <p>References:</p> <p>PMID:20478261, PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MLH1"/> <bbox w="80.0" h="40.0" x="11696.973" y="15808.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa465_ce_sa465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mutL homolog 3 (E. coli)</p> <p>HUGO:MLH3, HGNC:7128, ENTREZ:27030, UNIPROT:Q9UHC1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> <p>References:</p> <p>PMID:18157157, PMID:16612326, PMID:15703371, PMID:19847258, PMID:16697054, PMID:16612326, PMID:18406444</p> </body> </html> </notes> <label text="MLH3"/> <bbox w="80.0" h="40.0" x="11695.473" y="15850.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa241_emtc_em_csa241" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:CFL1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:10436159</p> <p>ROCK phosphorylates LIMK1,2 which phosphorylates Cofilin (CFL1)</p> <p>Cofilin exhibits actin depolymerizing activity followed by reorganization of the Actin cytoskeleton.</p> <p>PMID:15866889</p> <p>The ARP2_3 complex and Cofilin are involved in protrusion at the leading edge: the actin-severing activity of cofilin and the actin-branching activity of Arp2_3 act in synergy to drive the extension of lamellipodia.</p> <p>Cofilin is also required for the maintenance of a polarized cytoskeleton and thus for directional cell migration.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa241_emtc_em_csa241"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10436159"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15866889"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Actin/Cofilin*"/> <bbox w="122.0" h="62.0" x="5591.0" y="15268.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1560_emtc_em_sa1560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cofilin 1</p> <p>HUGO:CFL1, HGNC:1874, ENTREZ:1072, UNIPROT:P23528, GENECARDS:GC11M065622</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:15866889</p> <p>Cofilin is required for the maintenance of a polarized cytoskeleton and thus for directional cell miogration.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="CFL1"/> <bbox w="36.0" h="19.0" x="5629.5" y="15289.5"/> <glyph class="state variable" id="_4dd21021-716f-453e-b0c1-9c2833b8d6ff"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5624.5" y="15284.941"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1559_emtc_em_sa1559"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="110.0" h="20.0" x="5594.5" y="15270.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa403_mpk1_mpk1_sa403" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa403_mpk1_mpk1_sa403"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K6"/> <bbox w="83.0" h="25.0" x="11311.557" y="20001.334"/> <glyph class="state variable" id="_78aab561-e3a1-404c-901a-764964fe2f05"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11304.057" y="20013.264"/> </glyph> <glyph class="state variable" id="_1181b1d2-4de6-42df-849d-cc9e648ad5f6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="11304.057" y="20004.771"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa199_ce_sa199" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa199_ce_sa199"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCA"/> <bbox w="80.0" h="40.0" x="16526.521" y="17014.0"/> <glyph class="state variable" id="_f7c9a072-7763-4336-9dc0-79cf4d29c463"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16599.021" y="17029.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa88_rc_csa88" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:14-3-3*:PRAS40*</p> </body> </html> </notes> <label text="14-3-3:AKT1S1"/> <bbox w="100.0" h="120.0" x="26520.559" y="11279.326"/> <glyph class="macromolecule" id="s_id_rc_sa1102_rc_sa1102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="26530.227" y="11290.659"/> <glyph class="state variable" id="_7b758bd2-faa6-4b20-a921-205cf04da3e5"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="26579.324" y="11285.659"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1101_rc_sa1101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AKT1 substrate 1 (proline-rich)</p> <p>HUGO:AKT1S1 HGNC:28426 ENTREZ:84335 UNIPROT:Q96B36</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>synonym:PRAS</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="26530.227" y="11334.659"/> <glyph class="state variable" id="_d2edafa2-098a-4412-a95c-a34f2d0c7e58"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26579.295" y="11329.659"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa2885_rc_sa2885" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s3862"/> <bbox w="30.0" h="30.0" x="28934.06" y="10914.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa35_ca_csa35" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IL6R:gp130*</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:IL6</p> <p>References:</p> <p>1439146</p> <p>IL6 sirnaling acts through IL6 receptor and receptor-associated signal transducer, gp130.</p> </body> </html> </notes> <label text="IL6R"/> <bbox w="124.0" h="134.0" x="368.0" y="2223.0"/> <glyph class="macromolecule" id="s_id_ca_sa373_ca_sa373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 6 signal transducer</p> <p>HUGO:IL6ST hgnc_id:HGNC:6021 HGNC:6021 ENTREZ:3572 UNIPROT:P40189</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:LIF, CASCADE:TGFB, CASCADE:IL6, CASCADE:PLAU</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <p>and blocks gp130 and CSF1R (CD115)surface expression.</p> </body> </html> </notes> <label text="gp130*"/> <bbox w="80.0" h="50.0" x="389.625" y="2284.8125"/> <glyph class="state variable" id="_c9f669a8-0d91-4cf2-8fff-a67a7c011aed"> <state value="P" variable="Y759"/> <bbox w="35.0" h="10.0" x="452.125" y="2282.3535"/> </glyph> <glyph class="unit of information" id="_afb11c65-7d0b-43d1-8f66-f59c072a00af"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="407.125" y="2279.8125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa369_ca_sa369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 6 receptor</p> <p>HUGO:IL6R hgnc_id:HGNC:6019 HGNC:6019 ENTREZ:3570 UNIPROT:P08887</p> <p>Map modules:</p> <p>MODULE:CAF, MODULE:INFLAMMATORY_SIGNALING_PATHWAYS</p> <p>CASCADE:IL6</p> <p>References:</p> <p>PMID:12754507, PMID:24418198</p> <p>SOCS3 binds with high affinity to the phosphorylated Tyr759 (Y759) </p> <p>Of gp130 to suppress IL-6 signaling.</p> </body> </html> </notes> <label text="IL6R"/> <bbox w="80.0" h="50.0" x="391.25" y="2238.0"/> <glyph class="unit of information" id="_dcf7f40a-94e7-4d1a-94cb-37aaa4bd6f46"> <label text="receptor"/> <bbox w="45.0" 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</extension> <label text="MT-ND6"/> <bbox w="90.0" h="25.0" x="21412.31" y="14597.5"/> <glyph class="unit of information" id="_27745580-1d12-4300-b075-b3217f9a0fb5"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21447.31" y="14592.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa1098_in_sa1098" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NADPH"/> <bbox w="70.0" h="25.0" x="14549.219" y="5914.6875"/> </glyph> <glyph class="phenotype" id="s_id_mo_sa304_mo_sa304" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ITGA5 & TFRC recycling"/> <bbox w="230.0" h="35.0" x="6216.0" y="11813.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa128_ca_sa128" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa128_ca_sa128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTGS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTGS2"/> <bbox w="80.0" h="40.0" x="1210.0" y="4270.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2267_in_sa2267" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 21994414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2267_in_sa2267"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21994414"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ADM"/> <bbox w="80.0" h="40.0" x="12440.0" y="7170.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa2920_rc_sa2920" compartmentRef="s_id_mo_ca5_emtc_em_ca21"> <label text="LMP"/> <bbox w="80.0" h="30.0" x="25658.56" y="15147.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa815_ca_sa815" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF References:CASCADE:TGFBPMID:12181198 TGF-β1 induces IGF-I expression in CCD-18Co fibroblast cells. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF References:CASCADE:TGFBPMID:12181198 TGF-β1 induces IGF-I expression in CCD-18Co fibroblast cells. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>PMID:1345821; PMID:10569731 </p> <p>DPP4 is expressed in breast  fibroblasts</p> <p>PMID:17981655</p> <p>CD26/DPPIV can associate with several proteins, among them fibroblast activating protein-alpha (FAP-alpha), plasminogen, adenosine deaminase (ADA), the tyrosine phosphatase CD45, and the chemokine receptor CXCR4. It can also bind to the extracellular matrix (ECM) and depending on the presence of other ligands, this process can either lead to increased or decreased invasive activity of the cells on which it is expressed. As a result of these characteristics, CD26/DPPIV plays an important role in tumor biology, and is useful as a marker for various cancers</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1077_ca_sa1077"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DPP4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1345821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10569731 "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17981655"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DPP4"/> <bbox w="80.0" h="40.0" x="6050.0" y="4580.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa92_wnc1_wnc3_sa92" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_sa92_wnc1_wnc3_sa92"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MEK1*"/> <bbox w="80.0" h="40.0" x="15874.061" y="21378.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa5222_rc_sa5222" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>PMID:24684389</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1476_rc_sa1476"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDCD4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDCD4"/> <bbox w="80.0" h="40.0" x="27415.088" y="12422.764"/> <glyph class="state variable" id="_1068d1fb-118a-4b2e-9e3d-575ba7f3993b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="27464.156" y="12417.764"/> </glyph> <glyph class="state variable" id="_29f6b644-477a-496d-a74c-6e0cbdff623b"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="27428.52" y="12417.764"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa131_wnc1_wnc4_sa131" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS MODULE:SENESCENCE </p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.</p> <p>PMID:10391247</p> <p>TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.</p> <p>PMID:22439866</p> <p>c-Myb strongly increased the expression/activity of cathepsin D and matrix metalloproteinase (MMP) 9 and significantly downregulated MMP1.</p> <p>PMID:7706314 </p> <p>Members of the nuclear factor kappa B family transactivate the murine c-myb gene.</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2064_em_sa2064"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10391247"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22439866"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7706314"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYB"/> <bbox w="70.0" h="30.0" x="5426.0" y="15074.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1951_emtc_em_sa1951" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1951_emtc_em_sa1951"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GSC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Goosecoid*"/> <bbox w="76.0" h="22.0" x="4121.0" y="16828.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa106_ce_csa106" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK2:CIP1_KIP1*:CyclinA1*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CIP/KIP*/CycA*"/> <bbox w="102.0" h="152.0" x="12726.473" y="9176.356"/> <glyph class="macromolecule" id="s_id_ce_sa759_ce_sa759"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1A (p21, Cip1)</p> <p>HUGO:CDKN1A, HGNC:1784, ENTREZ:1026, UNIPROT:P38936</p> <p>cyclin-dependent kinase inhibitor 1B (p27, Kip1)</p> <p>HUGO:CDKN1B, HGNC:1785, ENTREZ:1027, UNIPROT:P46527</p> <p>cyclin-dependent kinase inhibitor 1C (p57, Kip2)</p> <p>HUGO:CDKN1C, HGNC:1786, ENTREZ:1028, UNIPROT:P49918</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CIP1_KIP1*"/> <bbox w="80.0" h="40.0" x="12737.473" y="9264.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa760_ce_sa760"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="12740.473" y="9182.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa758_ce_sa758"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> 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class="state variable" id="_d25568f9-a63a-4957-a09b-a1655b48d221"> <state value="" variable="S10"/> <bbox w="25.0" h="10.0" x="13677.561" y="20756.404"/> </glyph> <glyph class="state variable" id="_1112b7fd-0dec-49bf-9e86-c4a9558bed39"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13725.093" y="20754.0"/> </glyph> <glyph class="state variable" id="_a785a4b9-a427-4124-b4a2-f0d5e76f4f46"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13682.561" y="20786.773"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa67_an_csa67" compartmentRef="s_id_an_ca4_an_ca4"> <label text="VEGF A/B"/> <bbox w="186.0" h="77.0" x="4509.0" y="5731.0"/> <glyph class="macromolecule" id="s_id_an_sa27_an_sa27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="4519.0" y="5741.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa507_an_sa507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFB HGNC:12681</p> <p>Map modules:</p> <p>MODULE:</p> <p>References:</p> <p>PMID:22064427</p> </body> </html> </notes> <label text="VEGFB"/> <bbox w="80.0" h="40.0" x="4606.0" y="5741.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2846_in_sa2846" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 24030977, 14610620, 12223527, 20856220, 23124025 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <p>ARG1, TGFB, COX2 expression is downregulated in IL4R-/- MDSC (probably via STAT3 and MYC).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2846_in_sa2846"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030977"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL4R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="9590.219" y="533.03125"/> <glyph class="state variable" id="_71507ac0-f283-4f57-8d29-1c1fc6c14756"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="9665.219" y="567.42053"/> </glyph> <glyph class="unit of information" id="_5d436989-e435-41c0-aaee-b51d02b9039a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9607.719" y="528.03125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1060_ad_sa1060" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:25137453 </p> <p>Once bound to phosphorylated Lat molecules via GRAP2, SLP-76 is phosphorylated by Zap70 and recruits the Tec-family tyrosine kinase Itk. In turn, Itk phosphorylates PLC-γ1 and enhances its enzymatic activity</p> <p>PMID:12186560</p> <p>Phosphorylation of the linker for activation of T-cells by Itk promotes recruitment of Vav.</p> <p>PMID:15661896</p> <p>Kinase-Independent Functions for Itk in TCR-Induced Regulation of Vav and the Actin Cytoskeleton</p> <p> Itk is constitutively associated with Vav. Loss of Itk expression did not alter gross patterns of Vav tyrosine phosphorylation but appeared to disrupt the interactions of Vav with SLP-76.</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. Step 2: once at the</p> <p>membrane, Tec kinases are phosphorylated</p> <p>on a tyrosine in their activation loop by SFKs.</p> <p>Subsequently, the SH3 domain is</p> <p>autophosphorylated.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1060_ad_sa1060"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25137453"/> </rdf:Bag> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa271_emtc_em_sa271"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGA2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGA2B"/> <bbox w="60.0" h="20.0" x="4129.096" y="17722.5"/> <glyph class="unit of information" id="_e5a4f99c-9934-4148-98d4-1cdd4343557a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4149.096" y="17717.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa503_an_sa503" 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FYN"/> <bbox w="80.0" h="40.0" x="4362.0" y="6145.0"/> <glyph class="state variable" id="_f133f499-64e9-4eb7-b94d-2c9f8ea5ee74"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4437.0" y="6151.716"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2791_in_sa2791" compartmentRef="s_id_in_ca12_in_ca12"> <label text="TIMP1"/> <bbox w="80.0" h="40.0" x="11610.0" y="7395.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1207_ad_sa1207" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:PD1</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:15240681</p> <p>SHP-1 and SHP-2 are recruited to the PD-1 ITSM</p> <p> the ability of PD-1 to block T cell activation correlated with recruitment of Src homology region 2 domain-containing phosphatase-1 (SHP-1) and SHP-2, and not the adaptor Src homology 2 domain-containing molecule 1A, to the ITSM domain. In TCR-stimulated T cells, SHP-2 associated with PD-1, even in the absence of PD-1 engagement. Despite this interaction, the ability of PD-1 to block T cell activation required receptor ligation, suggesting that colocalization of PD-1 with CD3 and/or CD28 may be necessary for inhibition of T cell activation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1207_ad_sa1207"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPN6"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240681"/> 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUNB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUNB"/> <bbox w="42.0" h="19.0" x="3952.0" y="16658.25"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1214_in_sa1214" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="CCL19"/> <bbox w="70.0" h="25.0" x="14545.0" y="2612.5"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa14_mpk1_mpk1_csa14" compartmentRef="s_id_mpk1_mpk1_ca3_mpk1_mpk1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LAMTOR2:MP1*</p> </body> </html> </notes> <label text="LAMTOR2:MP1*"/> <bbox w="119.0" h="98.0" x="8666.061" y="19771.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa73_mpk1_mpk1_sa73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 3</p> <p>MAP2K1IP1 "MODULE:MAPK scaffold protein 1" MAPKSP1 "mitogen-activated protein kinase kinase 1 interacting protein 1"</p> <p>HUGO:LAMTOR3 HGNC:15606 ENTREZ:8649 UNIPROT:Q9UHA4</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MP1 is localised in late endosomes by P14 forming a very stable heterodimeric complex that is required for ERK activation.</p> <p>It is required for efficient and sustained EGF-induced MEK and ERK activation (in late endosomes)</p> </body> </html> </notes> <label text="MP1*"/> <bbox w="50.0" h="25.0" x="8676.061" y="19781.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa74_mpk1_mpk1_sa74"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 2</p> <p>"roadblock domain containing 3" ROBLD3</p> <p>HUGO:LAMTOR2 HGNC:29796 ENTREZ:28956 UNIPROT:Q9Y2Q5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>P14 is an adaptor protein responsible for the recruitment of MP1 to late endosomes.</p> <p>P14 is peripherally associated with the cytoplasmic face of late endosomes.</p> </body> </html> </notes> <label text="LAMTOR2"/> <bbox w="66.0" h="26.0" x="8709.061" y="19801.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4484_rc_sa4484" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4484_rc_sa4484"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cleaved ATG5*"/> <bbox w="80.0" h="40.0" x="29198.56" y="11111.5"/> <glyph class="unit of information" id="_40ae9f2f-c846-4e8a-bff0-b2fbdc564c75"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="29213.56" y="11106.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa173_shh1_shh1_sa173" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Forskolin</p> <p>CAS:66575-29-9 PUBCHEM:47936 KEGGDRUG:DB02587</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>s_shh1_re43:(MAP:survival) PMID:21209912</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa173_shh1_shh1_sa173"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209912"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Forskolin"/> <bbox 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rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SMAD3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SMAD3"/> <bbox w="53.0" h="20.0" x="5094.0" y="16396.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5311_rc_sa5311" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:17482</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:21435402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5311_rc_sa5311"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21435402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cystathionine"/> <bbox w="85.0" h="23.0" x="26306.56" y="10117.75"/> </glyph> <glyph class="complex" id="s_id_ce_csa71_ce_csa71" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:PCNA:REV1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:TLS</p> <p>References:</p> <p>PMID:19258535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa71_ce_csa71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19258535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PCNA/REV1"/> <bbox w="100.0" h="120.0" x="16889.473" y="15463.356"/> <glyph class="macromolecule" id="s_id_ce_sa671_ce_sa671"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>proliferating cell nuclear antigen</p> <p>HUGO:PCNA, HGNC:8729, ENTREZ:5111, UNIPROT:P12004</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER , MODULE:MMR, MODULE:TLS</p> <p>References:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054, PMID:14726013</p> </body> </html> </notes> <label text="PCNA"/> <bbox w="80.0" h="40.0" x="16897.902" y="15470.779"/> <glyph class="state variable" id="_7485591e-0e0b-4054-8906-850c33f6f025"> <state value="Ub" variable="K164"/> <bbox w="40.0" h="10.0" x="16877.902" y="15485.779"/> </glyph> <glyph class="state variable" id="_d2021371-1f30-4b08-aa9b-b462b40ec51a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16892.902" y="15505.779"/> </glyph> <glyph class="state variable" id="_206f2cd0-89c2-44a1-b96b-e1611a08030c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16916.334" y="15505.779"/> </glyph> <glyph class="state variable" id="_efd0b2df-f0c1-4f16-94fb-f986184a858e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16932.902" y="15505.779"/> </glyph> <glyph class="state variable" id="_5590dd4d-d983-4c08-9daa-7a218c81c180"> <state value="" variable="K127"/> <bbox w="30.0" h="10.0" x="16886.887" y="15465.779"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa672_ce_sa672"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>REV1 homolog (S. cerevisiae)</p> <p>HUGO:REV1, HGNC:14060, ENTREZ:51455, UNIPROT:Q9UBZ9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI, MODULE:TLS</p> <p>References:</p> <p>PMID:23065650</p> <p>Related to Y-family polymerases. For Fanconi anemia pathway</p> <p>PMID:19686080, PMID:19622404, PMID:18931676</p> <p>For hiperphosphotyration of REV1 in cell cycle and DNA danage-dependent manner. </p> <p>Hyperphosphorylation makes REV1 regulatory molecule for activating TLS pathway</p> <p>PMID:17035102, PMID:19258535</p> </body> </html> </notes> <label text="REV1"/> <bbox w="80.0" h="40.0" x="16900.988" y="15516.837"/> <glyph class="state variable" id="_ecaf69d2-ffbb-45c3-adff-279e29a72fd1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16975.988" y="15531.837"/> </glyph> <glyph class="state variable" id="_13d14213-102c-4230-b2a9-729303e68d70"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16975.988" y="15511.837"/> </glyph> <glyph class="state variable" id="_5ad54299-c833-4397-ba11-66eec4fb1443"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16975.988" y="15551.837"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2396_in_sa2396" compartmentRef="s_id_in_ca12_in_ca12"> <label text="GATA3"/> <bbox w="80.0" h="40.0" x="19995.0" y="4645.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa488_rc_csa488" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:IRE1-alpha*:TMBIM6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa488_rc_csa488"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRE1*:TMBIM6"/> <bbox w="104.0" h="140.0" x="26345.78" y="13849.0"/> <glyph class="macromolecule" id="s_id_rc_sa5106_rc_sa5106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>endoplasmic reticulum to nucleus signaling 1</p> <p>HUGO:ERN1 hgnc_id:HGNC:3449 HGNC:3449 ENTREZ:2081 UNIPROT:O75460</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:26587781</p> <p>PMID:23430059</p> <p>Under mild ER stress BH3-only proteins Bim and PUMA bind IRE1a, via their BH3 domain, and stimulate its RNase activity</p> </body> </html> </notes> <label text="IRE1-alpha*"/> <bbox w="80.0" h="70.0" x="26355.78" y="13854.0"/> <glyph class="state variable" id="_bd31598d-7591-4e3d-a3e6-ea57e6d4bbe9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26407.348" y="13849.0"/> </glyph> <glyph class="unit of information" id="_79bd1a5b-dc96-424e-ab3c-8d22167efa81"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26373.28" y="13849.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5107_rc_sa5107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transmembrane BAX inhibitor motif containing 6</p> <p>HUGO:TMBIM6 HGNC:11723 ENTREZ:7009 UNIPROT:P55061</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="TMBIM6"/> <bbox w="80.0" h="50.0" x="26355.78" y="13914.0"/> <glyph class="unit of information" id="_4fc87b27-a342-4f05-ad22-859e9e33baf6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26373.28" y="13909.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa64_ad_csa64" compartmentRef="s_id_ad_ca9_ad_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23886063 </p> <p>For a successful T cell activation the TcR signal alone is insufficient, a second, co-stimulatory signaling is also necessary The immunological synapse (A.Kupfer and M. Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal linker proteins (such as talin) . 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa186_mpk1_mpk1_sa186"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASA4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RASA4"/> <bbox w="50.0" h="25.0" x="7968.06" y="19424.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa12_wnc1_wnc3_csa12" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CNA*:CNB*:NFAT*</p> <p>References:</p> <p>s_wnc3_re29:(MAP:survival) PMID15657416</p> </body> </html> </notes> <label text="(Calcineurin/_BR_NFAT)"/> <bbox w="100.0" h="169.0" x="15647.061" y="21166.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa85_wnc1_wnc3_sa85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, alpha isozyme</p> <p>CALN, CALNA, "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform (calcineurin A alpha)"</p> <p>HUGO:PPP3CA HGNC:9314 ENTREZ:5530 UNIPROT:Q08209 GENECARDS:PPP3CA REACTOME:61110 KEGG:5530 ATLASONC:GC_PPP3CA WIKI:PPP3CA </p> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB </p> <p>protein phosphatase 3, catalytic subunit, gamma isozyme</p> <p>"protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform (calcineurin A gamma)"</p> <p>HUGO:PPP3CC HGNC:9316 ENTREZ:5533 UNIPROT:P48454 GENECARDS:PPP3CC REACTOME:61114 KEGG:5533 ATLASONC:GC_PPP3CC WIKI:PPP3CC</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="15656.061" y="21173.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa87_wnc1_wnc3_sa87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="15656.061" y="21258.0"/> <glyph class="state variable" id="_434339a0-4474-4232-b133-b26bcfd3cb78"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15731.061" y="21273.0"/> </glyph> <glyph class="state variable" id="_f9bc6f66-7fdf-490f-bc8a-c4b5715b2cc2"> <state value="" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="15656.061" y="21216.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2399_rc_sa2399" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2399_rc_sa2399"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFB1M"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFB1M"/> <bbox w="80.0" h="40.0" x="21083.31" y="14434.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa245_ce_sa245" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa245_ce_sa245"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCE"/> <bbox w="80.0" h="40.0" x="16802.557" y="16668.383"/> <glyph class="state variable" id="_4f5cb69c-2b20-442c-9e43-ae64eda7cf8f"> <state value="" variable="S376"/> <bbox w="30.0" h="10.0" x="16787.557" y="16674.89"/> </glyph> <glyph class="state variable" id="_324a58a5-b119-48e3-a6c7-2b2cbeab1b9d"> <state value="" variable="T346"/> <bbox w="30.0" h="10.0" x="16787.557" y="16683.352"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa341_ca_sa341" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa341_ca_sa341"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="trIL1B"/> <bbox w="80.0" h="40.0" x="1890.0" y="810.0"/> <glyph class="unit of information" id="_c127fd7f-f0fe-4ba7-90b3-d76d4ffac3e7"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1905.0" y="805.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_ca_sa1092_ca_sa1092" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:TGFB </p> <p>References:</p> <p>PMID:22874531</p> <p>Fibroblasts overexpressing the constitutively active TGF-β</p> <p>receptor kinase (RI; T204D) show increased autophagy and oxidative stress-induced aerobic glycolysis. We n</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1092_ca_sa1092"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22874531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Glycolysis"/> <bbox w="80.0" h="30.0" x="2830.0" y="4535.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa96_ad_csa96" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:CORE_SIGNALING, MODULE:CORE_ACTIVATION</p> </body> </html> </notes> <label text="ad_s38"/> <bbox w="115.0" h="155.0" x="28198.5" y="6157.5"/> <glyph class="macromolecule" id="s_id_ad_sa847_ad_sa847"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKBIA </p> <p>HUGO:NFKBIB</p> <p>HUGO:NFKBIE </p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> </body> </html> </notes> <label text="IkB*"/> <bbox w="80.0" h="40.0" x="28213.5" y="6162.5"/> <glyph class="state variable" id="_aff90372-f8fd-41dc-9822-a9a6f399027a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28206.0" y="6177.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa845_ad_sa845"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:NFKB1 </p> <p>Map modules:</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>References:</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65</p> <p>PMID:15079071 </p> <p> when T cells were stimulated with anti-CD3 antibody, RelA, c-Rel, and p50 were preferentially recruited to the IL-2 promoter</p> <p>PMID:14668329</p> <p>predominance of p50-p50 homodimers binding to the IL-2 promoter κB site in tolerant T cells CD4+ correlated with repression of NFκB-driven transcription. </p> <p> PMID:8580069</p> <p>PMID:15536066 </p> <p>Signal-dependent nuclear translocation of p50 and p65 is impaired in PKCθ–/– cells.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="NFKB1_p50*"/> <bbox w="80.0" h="40.0" x="28213.5" y="6252.5"/> <glyph class="unit of information" id="_772646e7-6103-42bd-8df1-8d6a2039c559"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28228.5" y="6247.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa846_ad_sa846"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:REL</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:8383323 </p> <p>The interleukin 2 CD28-responsive complex contains at least three members of the NF kappa B family: c-Rel, p50, and p65.</p> <p>PMID:10221648</p> <p>c-Rel is important for inducible cytokine and cytokine receptor expression, and a key regulator of early activation and proliferation in T cells.</p> <p>The IL-2Rα promoter contains an NF-κB/Rel regulatory element. </p> <p>Impaired IL-2Rα expression in c-Rel-deficient T lymphocytes and impaired production of cytokines IL-2, IL-3 and granulocyte macrophage colony stimulating factor.</p> <p>PMID:15079071 </p> </body> </html> </notes> <label text="cREL*"/> <bbox w="80.0" h="40.0" x="28213.5" y="6212.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa983_ad_sa983" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. Step 2: once at the</p> <p>membrane, Tec kinases are phosphorylated</p> <p>on a tyrosine in their activation loop by SFKs.</p> <p>Subsequently, the SH3 domain is</p> <p>autophosphorylated.</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>Tec family kinases directly activate PLCγ1 and regulate Ca2+ responses in immune cells</p> <p>AP-1 activation by Tec is largely dependent on PLCγ1 function. Moreover, ionomycin did not enhance Tec-induced AP-1 activation (Fig. 4C), also suggesting that Tec contributes to AP-1 activation upstream of Ca2+ release.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa983_ad_sa983"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TEC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11406363"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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<rdf:Description rdf:about="#s_id_rc_sa2268_rc_sa2268"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRDX*"/> <bbox w="80.0" h="40.0" x="29185.06" y="10553.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa444_te_sa444" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Modules_begin:MODULE:REPLICATIONModules_end ----- content merged by Celldesigner to SBGN-ML translation ------ Modules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="DNA primer"/> <bbox w="70.0" h="25.0" x="4007.06" y="22424.5"/> </glyph> <glyph class="macromolecule" 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</bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB*"/> <bbox w="50.0" h="25.0" x="10899.057" y="19362.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa122_shh1_shh2_sa122" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa122_shh1_shh2_sa122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIN3A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MSIN3*"/> <bbox w="80.0" h="40.0" x="26100.06" y="21958.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc1_sa8_wnc1_wnc1_sa8" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re52(MAP:survival):</p> <p>PMID:21506126</p> <p>This phosphorylated form of b-catenin facilitates interaction between b-catenin and CBP</p> <p>PMID:16476742</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa8_wnc1_wnc1_sa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21506126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16476742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Transcription"/> <bbox w="80.0" h="30.0" x="15823.561" y="18385.414"/> </glyph> <glyph class="complex" id="s_id_rc_csa364_rc_csa364" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ING4:PHD*</p> </body> </html> </notes> <label text="ING4:PHD"/> <bbox w="100.0" h="120.0" x="24816.56" y="14748.25"/> <glyph class="macromolecule" id="s_id_rc_sa3433_rc_sa3433"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>egl nine homolog 1 (C. elegans)</p> <p>HUGO:EGLN1 HGNC:1232 ENTREZ:54583 UNIPROT:Q9GZT9 </p> <p>egl nine homolog 2 (C. elegans)</p> <p>HUGO:EGLN2 HGNC:14660 ENTREZ:112398 UNIPROT:Q96KS0 </p> <p>egl nine homolog 3 (C. elegans)</p> <p>HUGO:EGLN3 HGNC:14661 ENTREZ:112399 UNIPROT:Q9H6Z9</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="PHD*"/> <bbox w="80.0" h="40.0" x="24827.56" y="14803.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3432_rc_sa3432"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>inhibitor of growth family, member 4</p> <p>HUGO:ING4 HGNC:19423 ENTREZ:51147 UNIPROT:Q9UNL4</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="ING4"/> <bbox w="80.0" h="40.0" x="24827.56" y="14759.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa23_shh1_shh1_csa23" compartmentRef="s_id_shh1_shh1_ca4_shh1_shh1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI3-190*:KIF7:SUFU:ULK3</p> <p>References:</p> <p>s_shh1_re39(MAP:survival):</p> <p>PMID:20956384</p> <p>PMID:21209912</p> <p>PMID:19549984</p> <p>PMID:19592253</p> <p>s_shh1_re41(MAP:survival):</p> <p>PMID:20643644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa23_shh1_shh1_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209912"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19549984"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592253"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20643644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SUFU_Gli3"/> <bbox w="206.0" h="168.0" x="27258.56" y="18030.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa165_shh1_shh1_sa165"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 3</p> <p>HUGO:GLI3 HGNC:4319 ENTREZ:2737 UNIPROT:P10071 GENECARDS:GLI3 KEGG:2737 ATLASONC:GC_GLI3 WIKI:GLI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI3-190*"/> <bbox w="165.0" h="41.0" x="27281.31" y="18088.0"/> <glyph class="state variable" id="_2a457238-32bd-46b1-955e-44ab5aa84747"> <state value="" variable="S877"/> <bbox w="30.0" h="10.0" x="27430.035" y="18124.0"/> </glyph> <glyph class="state variable" id="_68b2ec60-5da7-4b01-9330-b620baf4c544"> <state value="" variable="S903"/> <bbox w="30.0" h="10.0" x="27350.264" y="18124.0"/> </glyph> <glyph class="state variable" id="_84632d73-d65e-407f-99c6-de9addaa45b1"> <state value="" variable="S860"/> <bbox w="30.0" h="10.0" x="27366.463" y="18083.0"/> </glyph> <glyph class="state variable" id="_3eb0f4b3-0571-4baf-979d-cf043504dbd8"> <state 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id="_ca9ba3aa-edb6-4d5c-88b1-da730387548f"> <state value="" variable="S980"/> <bbox w="30.0" h="10.0" x="27266.31" y="18105.73"/> </glyph> <glyph class="state variable" id="_27eb77e6-75ae-4e12-a5c8-f2d93096a034"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27308.32" y="18083.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa177_shh1_shh1_sa177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Kinesin family member 7</p> <p>HUGO:KIF7 HGNC:30497 ENTREZ:374654 UNIPROT:Q2M1P5 GENECARDS:KIF7 KEGG:374654 WIKI:KIF7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19666503</p> <p>PMID:19906571</p> <p>PMID:19592253</p> </body> </html> </notes> <label text="KIF7"/> <bbox w="80.0" h="40.0" x="27320.56" y="18137.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa166_shh1_shh1_sa166"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Sufu</p> <p>HUGO:SUFU HGNC:16466 ENTREZ:51684 UNIPROT:Q9UMX1 GENECARDS:SUFU KEGG:51684 ATLASONC:GC_SUFU WIKI:SUFU</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055941</p> </body> </html> </notes> <label text="SUFU"/> <bbox w="80.0" h="40.0" x="27275.06" y="18038.0"/> <glyph class="state variable" id="_e224d3e1-76d7-44a3-9936-366764de7e87"> <state value="" variable="K257"/> <bbox w="30.0" h="10.0" x="27260.553" y="18033.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa183_shh1_shh1_sa183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Unc-51-like kinase 3</p> <p>HUGO:ULK3 HGNC:19703 ENTREZ:25989 UNIPROT:Q6PHR2 GENECARDS:ULK3 ATLASONC:GC_ULK3 WIKI:ULK3</p> <p>Map modules:</p> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3805_rc_sa3805"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX"/> <bbox w="80.0" h="40.0" x="20729.06" y="11099.0"/> <glyph class="state variable" id="_30b32c40-22c9-4fd0-991e-736c1d819dfd"> <state value="" variable="S163"/> <bbox w="30.0" h="10.0" x="20775.145" y="11094.0"/> </glyph> <glyph class="state variable" id="_162eefa9-ae2e-4b32-9e32-c6d0cf0c8733"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="20775.38" y="11134.0"/> </glyph> <glyph class="state variable" id="_3d425fe8-7daa-4e3b-9591-b29e33ba7634"> <state value="" variable="T167"/> <bbox w="30.0" h="10.0" x="20730.139" y="11094.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa78_in_sa78" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 11964292, 15197224, 9359474, 7512027, 20231889, 23390297, 7523569, 25215878, 17513775, 25582338, 14764699, 22437870 <p>Map modules:</p> <p>MAP:DENDRITIC_CELL, MAP:MACROPHAGE</p> <p>MODULE:MARKERS_DC, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CHEKPOINTS, MODULE:EFFECTOR_ACTIVATION</p> <p>CASCADE:MIF, CASCADE:IL3, CASCADE:IL10, CASCADE:TLR2_4, CASCADE:FLT3LG, CASCADE:TNF, CASCADE:IFNAB, CASCADE:IFNG</p> <p>References:</p> <p>PMID:15197224, PMID:7523569, PMID:9359474</p> <p>The Linkage of Innate to Adaptive Immunity via Maturing Dendritic Cells In Vivo Requires CD40 Ligation in Addition to Antigen Presentation and CD80/86 Costimulation.</p> <p>PMID:25582338</p> <p>The expression levels of CD80 and CD83, the molecules involved in T-cell activation, was similar between the two DC subsets (IL4 and IL15)</p> <p>PMID:11964292, PMID:14764699</p> <p>IFNAR signaling upregulates surface expression of CD80, CD86, CD40.Probably via STAT1</p> <p>PMID:22437870</p> <p>CD80 and CD86 act lic coactivators of T-cells when they interact with CD28 and</p> <p>inhibit T-cells via interactions with CTLA4</p> <p>PMID:25215878</p> <p>FLT3 ligand upregulates surface expression of CD80 in DCs.</p> <p>PMID:23390297</p> <p>MIF inhitits expression of M1 markers such as TNF, IL12p40, COX2, INOS, IRF-5, MHC-II, CD11c, CD80, CD86 and MIF induces expression of M2 markers as IL10, stabilin-1, MRC-1, CD23</p> <p> 15034038</p> <p>IL3 induces CD80, CD86, CD40 surface expression in pDC</p> <p>PMID:7512027</p> <p>IL-10 inhibits surface expression CD80 (B7) on monocytes, even following induction of these molecules by IL4 or IFNG and diminishes the antigen-presenting capacity of monocytes.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.)</p> <p>Expression of CD83, a and CD80 and was significantly enhanced by the FLT3L</p> <p> 11207245</p> <p>I IFN receptor signaling regulates antigen cross-presentation to CD8(+) T cells. (), probably via upregulation of CD80, CD86, CD40, CD83 and MHC class II and CD11c,</p> <p>PMID:17513775</p> <p>Probably via STAT1(demondrtated for CD40 and CD11c PMID:14764699, and for CD40, CD80, CD86, and MHC II )</p> <p>INFG up-regulates ICAM1 and CD80 (B7) surface expression in monocytes. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL21, CASCADE:IL2</p> <p>References:</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1150_emtc_em_sa1150"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin5*"/> <bbox w="61.0" h="16.0" x="1129.0" y="15511.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3392_rc_sa3392" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3392_rc_sa3392"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FECH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FECH"/> <bbox w="86.0" h="46.0" x="19090.31" y="13143.0"/> <glyph class="state variable" id="_1abfac75-6ad1-4f11-9275-98bdbd5857b2"> <state value="[2FE-2S]" variable=""/> <bbox w="50.0" h="10.0" x="19108.31" y="13138.0"/> </glyph> <glyph class="unit of information" id="_6bc811e2-5256-43b2-977a-1d1a23a2440a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="19123.31" y="13184.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa283_emtc_em_csa283" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR30E:ZEB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22753312</p> <p>direct regulation of ZEB2 by miR-30e</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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x="3959.5" y="17807.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1867_emtc_em_sa1867"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>zinc finger E-box binding homeobox 2</p> <p>HUGO:ZEB2, HGNC:14881, ENTREZ:9839, GENECARDS:GC02M145145</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:19839049</p> <p>Feedback loops</p> <p>PMID:225147423</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="ZEB2"/> <bbox w="60.0" h="20.0" x="3940.5" y="17833.5"/> <glyph class="unit of information" id="_69a2fc88-da53-46f4-9166-03819ec9ad40"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3960.5" y="17828.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_gf1_csa10_gf1_csa10" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <label text="gf1_s419"/> 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Like other tyrosine kinases, each ErbB molecule comprises an extracellular domain to allow ligand binding, a single transmembrane part, and an intracellular protein tyrosine kinase domain. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="4771.0" y="7658.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa417_wca1_wca3_sa417" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca3_re148(MAP:survival):</p> <p>HIPK2 represses transcription of Vim and thus EMT</p> <p>PMID:22236966</p> </body> </html> </notes> <extension> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="heme"/> <bbox w="70.0" h="25.0" x="14100.469" y="6806.5625"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1135_in_sa1135"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NCF4"/> <bbox w="80.0" h="40.0" x="14213.594" y="6695.9375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1174_rc_sa1174" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1174_rc_sa1174"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGLN1"/> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa655_ca_sa655"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LTBP4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LTBP*"/> <bbox w="80.0" h="40.0" x="3750.0" y="300.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4443_rc_sa4443" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Glucose deprivation"/> <bbox w="120.0" h="25.0" x="19569.06" y="10144.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5014_rc_sa5014" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0Map modules:MODULE:ER_STRESS References:SYVN1PMID:18360008 ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0Map modules:MODULE:ER_STRESS References:SYVN1PMID:18360008 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5014_rc_sa5014"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18360008"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18360008"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SYNV1"/> <bbox w="70.0" h="25.0" x="28736.326" y="16111.5"/> </glyph> <glyph class="complex" id="s_id_rc_csa314_rc_csa314" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Fe2+:RRM1:RRM2*</p> </body> </html> </notes> <label text="RNR"/> <bbox w="100.0" h="120.0" x="19052.81" y="11635.25"/> <glyph class="macromolecule" id="s_id_rc_sa2828_rc_sa2828"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ribonucleotide reductase M2 B (TP53 inducible)</p> <p>HUGO:RRM2B HGNC:17296 ENTREZ:50484 UNIPROT:Q7LG56 </p> <p>ribonucleotide reductase M2</p> <p>HUGO:RRM2 HGNC:10452 ENTREZ:6241 UNIPROT:P31350</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="RRM2*"/> <bbox w="80.0" h="40.0" x="19062.31" y="11689.25"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2827_rc_sa2827"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ribonucleotide reductase M1</p> <p>HUGO:RRM1 HGNC:10451 ENTREZ:6240 UNIPROT:P23921</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:PENTOSE_PHOSPHATE_PATHWAY</p> </body> </html> </notes> <label text="RRM1"/> <bbox w="80.0" h="40.0" x="19062.31" y="11647.25"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2093_rc_sa2093"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Fe2+"/> <bbox w="53.0" h="33.0" x="19056.56" y="11689.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2093_rc_sa2829"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Fe2+"/> <bbox w="25.0" h="25.0" x="19124.31" y="11672.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa396_rc_csa396" compartmentRef="s_id_rc_ca14_rc_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:XAF1:cIAP*</p> </body> </html> </notes> <label text="cIAP*:XAF1"/> <bbox w="100.0" h="120.0" x="23144.56" y="9639.25"/> <glyph class="macromolecule" id="s_id_rc_sa3943_rc_sa3943"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytokine induced apoptosis inhibitor 1</p> <p>HUGO:CIAPIN1 HGNC:28050 ENTREZ:57019 UNIPROT:Q6FI81 </p> <p>baculoviral IAP repeat containing 2</p> <p>HUGO:BIRC2 HGNC:590 ENTREZ:329 UNIPROT:Q13490 </p> <p>baculoviral IAP repeat containing 3</p> <p>HUGO:BIRC3 HGNC:591 ENTREZ:330 UNIPROT:Q13489</p> <p>Map modules:</p> <p>MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="cIAP*"/> <bbox w="80.0" h="40.0" x="23154.56" y="9689.25"/> <glyph class="state variable" id="_72bb930e-112a-447a-90a1-dcb0611410cc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23206.129" y="9684.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3941_rc_sa3941"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>XIAP associated factor 1</p> <p>HUGO:XAF1 HGNC:30932 ENTREZ:54739 UNIPROT:Q6GPH4</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:TNF_RESPONSE</p> <p>References:</p> <p>PMID:23070005</p> </body> </html> </notes> <label text="XAF1"/> <bbox w="80.0" h="40.0" x="23154.56" y="9649.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa57_te_csa57" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CST_complex</p> <p>ALT_NAME:CTC1/STN1/TEN1</p> <p>Modules_begin:</p> <p>MODULE:REPLICATION</p> <p>Modules_end</p> </body> </html> </notes> <label text="CST_complex*"/> <bbox w="103.0" h="174.0" x="2384.06" y="21965.0"/> <glyph class="macromolecule" id="s_id_te_sa388_te_sa388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>oligonucleotide/oligosaccharide-binding fold containing 1</p> <p>HUGO:OBFC1</p> </body> </html> </notes> <label text="STN1*"/> <bbox w="80.0" h="40.0" x="2398.06" y="22021.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa387_te_sa387"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CTS telomere maintenance complex component 1</p> <p>HUGO:CTC1</p> <p>MODULE:REPLICATION</p> </body> </html> </notes> <label text="CTC1"/> <bbox w="80.0" h="40.0" x="2398.06" y="21976.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa389_te_sa389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TEN1 CST complex subunit</p> <p>HUGO:TEN1</p> <p>MODULE:REPLICATION</p> </body> </html> </notes> <label text="TEN1"/> <bbox w="80.0" h="40.0" x="2397.06" y="22072.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa940_emtc_em_sa940" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa940_emtc_em_sa940"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="R-Cadherin*"/> <bbox w="80.0" h="20.0" x="998.0" y="16478.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa16_shh1_shh2_csa16" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GLI1:JUN:promoter_region</p> <p>References:</p> <p>s_shh2_re22:(MAP:survival) PMID:18813803 PMID:16880536 PMID:19190345</p> <p>s_shh2_re36:(MAP:survival) PMID:16880536 PMID:18813803 PMID:19190345</p> <p>s_shh2_re42:(MAP:survival) PMID:16396903 PMID:20107231 PMID:16054035 PMID:16406505 PMID:16880536 PMID:17000779</p> <p>s_shh2_re82:(MAP:survival) PMID:19219074</p> <p>s_shh2_re86:(MAP:survival) PMID:19190345 PMID:16880536</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa16_shh1_shh2_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396903"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20107231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16406505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17000779"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19219074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(GLI1_JUN_DNA_binding_site)"/> <bbox w="100.0" h="163.0" x="26314.06" y="21590.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa161_shh1_shh2_sa161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> </body> </html> </notes> <label text="JUN"/> <bbox w="80.0" h="40.0" x="26324.936" y="21689.0"/> <glyph class="state variable" id="_4a11dbda-3f20-498c-8e75-de9ee278dbd4"> <state value="P" variable="S63"/> <bbox w="30.0" h="10.0" x="26310.428" y="21684.0"/> </glyph> <glyph class="state variable" id="_bbb5e7ff-f1d3-4e72-83d3-71589f611035"> <state value="P" variable="S73"/> <bbox w="30.0" h="10.0" x="26349.967" y="21684.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa159_shh1_shh2_sa159"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 1</p> <p>HUGO:GLI1 HGNC:4317 ENTREZ:2735 UNIPROT:P08151 GENECARDS:GLI1 KEGG:2735 ATLASONC:GLIID310ch12q13 WIKI:GLI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="26322.06" y="21609.0"/> <glyph class="state variable" id="_7655924f-bd01-4e33-97eb-4e3e732f1900"> <state value="" variable="K518"/> <bbox w="30.0" h="10.0" x="26330.035" y="21644.0"/> </glyph> <glyph class="state variable" id="_6734bd65-233b-4529-bf9e-e8877bdb6362"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26314.564" y="21604.0"/> </glyph> <glyph class="state variable" id="_bcdfe35a-9bd2-409e-a19c-63fcbcadc24f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26317.064" y="21644.0"/> </glyph> <glyph class="state variable" id="_1fd28f82-1278-41ae-a036-ba93594e74dc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26397.06" y="21644.0"/> </glyph> <glyph class="state variable" id="_a38fe744-ecc0-4294-a6c8-798a8142836f"> <state value="" variable="T374"/> <bbox w="30.0" h="10.0" x="26386.441" y="21644.0"/> </glyph> <glyph 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x="26327.06" y="21658.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa462_wnc1_wnc1_sa462" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa462_wnc1_wnc1_sa462"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DACT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DACT1"/> <bbox w="80.0" h="40.0" x="16438.06" y="18568.0"/> <glyph class="state variable" id="_7acae25d-5193-464b-a0be-dfaf3efb3f01"> <state value="" variable="S237"/> <bbox w="30.0" h="10.0" x="16423.553" y="18563.0"/> </glyph> <glyph class="state variable" id="_3d215d90-0e02-4dc1-9257-1c859f9ad7ec"> <state value="" variable="S827"/> <bbox w="30.0" h="10.0" x="16502.441" y="18603.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1113_ca_sa1113" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFB, CASCADE:PDGFPMID:25732824 the expression of ALT2 (GPT2) was significantly increased in induced CAFs (Figure 4C), suggesting that the slight elevation of α-KG is likely through the glutamate pathway by feedback upregulation of ALT2 in CAFs and fibroblasts with IDH3α knockdown.ALT2 is upregulated downstream of TGFB and PDGF. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF MODULE:METABOLIC References:CASCADE:TGFB, CASCADE:PDGFPMID:25732824 the expression of ALT2 (GPT2) was significantly increased in induced CAFs (Figure 4C), suggesting that the slight elevation of α-KG is likely through the glutamate pathway by feedback upregulation of ALT2 in CAFs and fibroblasts with IDH3α knockdown.ALT2 is upregulated downstream of TGFB and PDGF. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DUSP1:p38*</p> </body> </html> </notes> <label text="DUSP1:p38*"/> <bbox w="91.0" h="86.0" x="10308.061" y="20568.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa546_mpk1_mpk1_sa546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dual specificity phosphatase 1</p> <p>PTPN10</p> <p>HUGO:DUSP1 HGNC:3064 ENTREZ:1843 UNIPROT:P28562</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MKP-1 (DUSP1) preferentially inactivates JNK and P38.</p> <p>DUSP1 play its phosphatase role in the nucleus.</p> </body> </html> </notes> <label text="DUSP1"/> <bbox w="62.0" h="25.0" x="10323.346" y="20575.857"/> <glyph class="state variable" id="_a0284e9c-944c-4e13-b931-350b40490bb0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="10318.346" y="20583.357"/> </glyph> 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class="unit of information" id="_00d11995-bdbd-4b57-8456-612991ee3705"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="28182.31" y="11906.083"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa568_in_sa568" compartmentRef="s_id_in_ca12_in_ca12"> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="14230.0" y="4190.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa149_shh1_shh2_sa149" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa149_shh1_shh2_sa149"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S100A7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:S100A7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="S100A7"/> <bbox w="90.0" h="25.0" x="26604.06" y="21754.5"/> <glyph class="unit of information" id="_7f63d812-2633-49b0-9b69-7f8e37f860ce"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="26639.06" y="21749.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa8_ce_sa8" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>LnP:BER:M-glyc:st5Long patch BER:multiple nucleotide patch replacement pathwayGap filled end processed DNA containing unligated DNA patchNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER ----- content merged by Celldesigner to SBGN-ML translation ------ LnP:BER:M-glyc:st5Long patch BER:multiple nucleotide patch replacement pathwayGap filled end processed DNA containing unligated DNA patchNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:BER </body> </html> </notes> <label text="LnP_BER_M-glyc_st5*"/> <bbox w="150.0" h="26.0" x="10189.334" y="16676.988"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2721_rc_sa2721" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2721_rc_sa2721"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BIRC5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BIRC5"/> <bbox w="90.0" h="25.0" x="20840.06" y="15040.51"/> <glyph class="state variable" id="_9dac9a3b-f691-4e1f-b5e4-b59b576cb9a1"> <state value="" variable="T34"/> <bbox w="25.0" h="10.0" x="20891.629" y="15035.51"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5217_rc_sa5217" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>poly(ADP-ribose) polymer</p> <p>PMID:24684389</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5217_rc_sa5217"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24684389"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PAR Polymer"/> <bbox w="95.0" h="33.0" x="19684.06" y="16886.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2634_in_sa2634" compartmentRef="s_id_in_ca12_in_ca12"> <label text="DNAM1*"/> <bbox w="80.0" h="50.0" x="17442.5" y="1955.0"/> <glyph class="state variable" 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MODULE:SSA</p> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>For BER</p> <p>PMID:19414382, PMID:21204762, PMID:20832016, PMID:17892593</p> <p>For C_NHEJ</p> <p>PMID:20691907, PMID:23012265, PMID:21785230</p> <p>FOR HR</p> <p>PMID:20723763</p> <p>For A_NHEJ</p> <p>PMID:19357644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1493_ce_sa1493"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21785230"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20723763"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19357644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IR"/> <bbox w="70.0" h="25.0" x="12486.77" y="14409.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca2_sa23_wca1_wca2_sa23" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca2_sa23_wca1_wca2_sa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RNF146"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RNF146"/> <bbox w="80.0" h="40.0" x="24852.56" y="18582.0"/> <glyph class="state variable" id="_a40873f3-35bd-4712-8fda-e32696c4479d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24847.564" y="18577.0"/> </glyph> <glyph class="state variable" id="_b2864274-4840-4539-b88e-2a21ec3e8c84"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24847.564" y="18617.0"/> </glyph> <glyph class="state variable" id="_f75dfa3a-b964-47e0-92a4-7c5ba7fcb960"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24927.56" y="18617.0"/> </glyph> <glyph class="state variable" id="_af2c99fb-5acd-4e1f-92c5-e942c4433d56"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24927.56" y="18577.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2338_in_sa2338" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 20406969, 11867689, 24091328, 14610620, 19833085 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <p>GM-CSF uniquely inhibited signal transducers and activators of transcription (STAT3) and promoted STAT5 activation, probably downstream of JAK2. STAT5ab(null/null) MDSC were rendered sensitive to sunitinib in the presence of GM-CSF in vitro.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2338_in_sa2338"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JAK2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20406969"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11867689"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24091328"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19833085"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="9760.0" y="4445.0"/> <glyph class="state variable" id="_983bac0f-b545-4f91-895d-6ccbce313554"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9752.5" y="4460.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4826_rc_sa4826" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4826_rc_sa4826"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR30C2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR30C2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR30C2 "/> <bbox w="90.0" h="25.0" x="27606.326" y="16252.5"/> <glyph class="unit of information" id="_74f85ce7-e69b-440e-8559-30afdc1d01a9"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27636.326" y="16247.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_akt1_akt1_sa47_akt1_akt1_sa3" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_akt1_re11(MAP:survival):</p> <p>PMID:15584861</p> <p>PMID:10648629</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa47_akt1_akt1_sa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15584861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648629"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GF"/> <bbox w="70.0" h="25.0" x="11975.061" y="17508.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa11_ca_csa11" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:SMAD2:SMAD4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:23784029</p> <p>TGFB upregulates FSP1 (S100A4) expression via Smad2 and smad3</p> <p>Smad 7 is bound to Smad 2 and 3, which are thought to competitively bind to TGFBR1, and prevents their activation upon TGF-β1 stimulation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa11_ca_csa11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23784029"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ca_s1360"/> <bbox w="100.0" h="120.0" x="3760.0" y="1855.0"/> <glyph class="macromolecule" id="s_id_ca_sa260_ca_sa260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4 hgnc_id:HGNC:6770 HGNC:6770 ENTREZ:4089 UNIPROT:Q13485</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:11792802, PMID:12809600</p> <p>The canonical TGFB signalling pathway involves phosphorylation of the carboxy-terminal serine residue of the internal modulator SMAD proteins, SMAD2 or SMAD3, by the activated receptors. This phosphorylation induces oligomerization of SMAD2 or SMAD3 with SMAD4, which is necessary for nuclear translocation.</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling in fibroblasts</p> <p>PMID:12702545</p> <p>Protein level of SMAD3 and SMAD4 is upregulated after TGFB treatment</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="80.0" h="40.0" x="3770.0" y="1915.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa261_ca_sa261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2 hgnc_id:HGNC:6768 HGNC:6768 ENTREZ:4087 UNIPROT:Q15796</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>CASCADE:TGFB</p> <p>PMID:15265520 , PMID:11279127 </p> <p>TGF/SMAD pathway regulates genes involved in extracellular matrix remodeling in fibroblasts.</p> <p>For the TGF-β pathway, the Smad proteins, Smad2 and Smad3, are ligand-responsive</p> <p>PMID:16179589 </p> <p>NAD(P)H oxidase 4 mediates transforming growth factor-beta1-induced differentiation of cardiac fibroblasts into myofibroblasts.</p> <p>On stimulation with TGF-beta1, Nox4 mRNA is dramatically upregulated.</p> <p>Depletion of Nox4 but not Nox5 inhibits baseline and TGF-beta1 stimulation of Smad 2/3 phosphorylation</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="80.0" h="40.0" x="3770.0" y="1865.0"/> <glyph class="state variable" id="_356ad220-7e9b-4537-9fd7-0c33fcd77d14"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="3762.5" y="1879.9681"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa7_wnc1_wnc1_sa7" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa7_wnc1_wnc1_sa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="15695.061" y="18380.098"/> <glyph class="state variable" id="_5fb5e2a1-11df-4b28-b550-6f9ac5371c7a"> <state value="P" variable="S522"/> <bbox w="35.0" h="10.0" x="15757.561" y="18375.31"/> </glyph> <glyph class="state variable" id="_f656e7b9-8ca5-4618-992c-cdf6eee689b2"> <state value="" variable="S552"/> <bbox w="30.0" h="10.0" 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x="23566.56" y="16791.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa9_te_sa9" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa9_te_sa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TPP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TPP1"/> <bbox w="80.0" h="40.0" x="2532.06" y="21490.0"/> </glyph> <glyph class="nucleic acid feature" 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id="s_id_in_sa1409_in_sa1409" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Pubmed_ID: 11766992, 12455035</p> <p>Charge: 0</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa1409_in_sa1409"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11766992"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa266_wnc1_wnc2_sa240"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK12"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p38*"/> <clone/> <bbox w="80.0" h="40.0" x="17414.06" y="18362.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2303_in_sa2303" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="70.0" h="25.0" x="11971.625" y="4595.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa287_mo_sa287" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>lysine demethylase 4C </p> <p>"jumonji domain containing 2C", "lysine (K)-specific demethylase 4C"</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa287_mo_sa287"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDM4C"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JMJD2C*"/> <bbox w="80.0" h="40.0" x="2605.0" y="10693.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa155_emtc_em_csa155" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:L1CAM:VEGFR2*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="L1CAM/VEGFR2*"/> <bbox w="128.0" h="89.0" x="6685.0" y="17134.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa886_emtc_em_sa886"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>L1 cell adhesion molecule</p> <p>HUGO:L1CAM, HGNC:6470, ENTREZ:3897, GENECARDS:GC0XM153126, UNIPROT:P32004</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>ISBN:978-953-51-0410-0</p> <p>PMID:8893017</p> <p>PMID:20044598</p> <p>The adhesion molecule L1CAM (CD171) is a 220 kD transmembrane glyocoprotein and belongs to the immunoglobulin superfamily.</p> <p>The extracellular part of the molecule comprises six Ig-like domains followed by 5 fibronectin type III repeats. </p> <p>The transmembrane domain is followed by a short cytoplasmic tail of 32kD </p> <p>PMID:10413675</p> <p>L1CAM can be expressed and mediate its effects as a membrane-bound form.</p> <p>L1CAM can also be proteolytically cleaved by different proteases releasing a soluble ectodomain that is likewise functionally active. </p> <p>PMID:16199880</p> <p>PMID:11706054</p> <p>The metalloproteases ADAM 10 and 17 as well as plasmin have been described to cleave L1CAM generating a soluble 200 kD and 150 kD form, respectively</p> <p>After ADAM-mediated cleavage, the membrane-bound intracellular C-terminal fragment of L1CAM can be further processed by the presenilin/gamma-secretase complex giving rise of a 28 kD fragment. </p> <p>PMID:19260824</p> <p>This small intracellular fragment translocates into the nucleus where it is thought to contribute to L1CAM-dependent gene regulation.</p> <p>L1CAM can bind to different substrates/molecules in a cell and context dependent manner. </p> <p>PMID:10469653</p> <p>LACAM can undergo homophilic binding to itself as a membrane-bound or shedded form.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>PMID:8898967 </p> <p>PMID:8636223</p> <p>PMID:11553709</p> <p>PMID:10455125</p> <p>PMID:16377081</p> <p>PMID:7613634</p> <p>PMID:1720120</p> <p>L1CAM can interact with a plethora of other proteins, e.g. integrins aVb1, aVb3, aVb5, a5b1, neuropilin-1, CD24, neurocan, and axonin-1/TAX-1.</p> <p>PMID:6368220</p> <p>L1CAM was originally identified in cells of the nervous system</p> <p>PMID:9127006</p> <p>L1CAM expression has been also found in certain populations of hematopoietic cells.</p> <p>PMID:19273627</p> <p>Potential role for L1CAM in transendothelial migration and trafficking of murine dendritic cells. </p> <p>PMID:9864376</p> <p>Furthermore, L1CAM is expressed by renal tubular epithelial cells under physiological conditions being involved in branching of renal tubes in the kidney </p> <p>However, distribution of L1CAM in adults is quite restricted so that its elevated expression in cancerous tissues which is discussed in the next paragraph favours its suitability as therapeutic target in anti-cancer therapy.</p> <p>PMID:19356150</p> <p>PMID:21195665</p> <p>L1CAM expression in tumors can be associated with the activation of several signalling pathways that are known to play a pivotal role in tumor progression e.g. the MAPK/ERK and AKT pathway or FAK-mediated signalling</p> <p>PMID:15716380</p> <p>PMID:17699774</p> <p>PMID:20501702</p> <p>L1CAM is a target gene of b-catenin-TCF signaling in colorectal cancer cells.</p> <p>L1 expression conferred increased cell motility, growth in low serum, transformation and tumorigenesis</p> <p>The transmembrane localization and shedding of L1CAM by metalloproteases, including ADAM10 could be useful for detection and as target for colon cancer therapy.</p> <p>Expression of L1CAM and ADAM10 in human colon cancer cells induces metastasis. NFkB signaling and ezrin are essential for L1CAM-mediated metastasis of colon cancer cells.</p> <p>PMID:21123622</p> <p>Gavert and al. showed that L1CAM-mediated colon cancer cell metastasis does not require changes in EMT and cancer stem cell markers.</p> <p>BUT in other context,</p> <p>PMID:19435915</p> <p>PMID:21109948</p> <p>Geismann and al. showed that upregulation of L1CAM in pancreatic duct cells is TGFB1- and SNAI2-dependent.</p> <p>Binding of SNAI2 to the L1CAM promoter is essential for TGFB1-induced L1CAM expression in human pancreatic ductal adenocarcinoma cells.</p> <p>TGFB1–mediated L1CAM expression is SMAD independent but requires JNK activation.</p> <p>In the context of the human PDAC (pancreatic ductal epithelial cell) line H6em_c7 which mimics the early steps in PDAC tumorigenesis,TGFB1 induces SNAI2 expression in H6em_c7 cells through JNK activation.</p> <p>THUS, the impact of L1CAM on EMT might be either tumor specific and/or tumor stage dependent.</p> <p>Further studies are required to elaborate whether upregulation of L1CAM is part of the EMT or even the inducing event.</p> <p>If it is the case, elevated cell migration and apoptosis resistance could be abolished by interfering wih TGFB1 signaling or by supression of SNAI2 or L1CAM.</p> <p>PMID:16506207</p> <p>PMID:17952127</p> <p>PMID:21373966</p> <p>Binding of L1CAM to aVb3 or aVb5 seemed to be pivotal for L1CAM-mediated cell migration leading to the activation of Erk1/2 and FAK signalling</p> <p>In carcinoma cell lines, L1 overexpression augments cell motility, tumor growth in mice and induces expression of Erk-dependent genes</p> <p>L1CAM-mediated Erk1/2 activate genes encoding for pro-migratory proteins such as cathepsin-B or b3-integrins were upregulated.</p> <p>A mechanism in the glioma cells context was proposed: upregulated ADAM10 proteolyzes surface L1CAM and the resultant ectodomain of L1CAM increases human glioma cell migration and invasion by binding to integrin receptors, activating FAK, and increasing turnover of focal complexes.</p> <p>Besides its ability to induce Erk1/2 and FAK signalling pathways, L1CAM can also lead to the activation of NF-kB, so that inhibition of NF-kB reduced L1CAM-mediated metastasis of colon cancer cells.</p> <p>PMID:17145883</p> <p>Cell adhesion molecule L1 disrupts E-cadherin-containing adherens junctions and increases B-catenin transcriptional activity, thus increases scattering and motility of MCF7 breast carcinoma cells.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="L1CAM"/> <bbox w="60.0" h="20.0" x="6688.5" y="17135.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa887_emtc_em_sa887"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>kinase insert domain receptor (a type III receptor tyrosine kinase)</p> <p>HUGO:KDR, HGNC:6307, ENTREZ:3791, GENECARDS:GC04M055944, UNIPROT:P35968</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21081489</p> <p>MiR-200b Regulates Ets-1-associated Genes</p> <p>Suppression of endogenous miR-200b induced MMP-1 and VEGFR2 expressions</p> <p>Overexpression of Ets-1 did not completely reverse miR- 200b-associated MMP-1 and VEGFR2 down-regulation. </p> <p>It indicates that miR-200b, apart from targeting Ets-1, might silence other target proteins involved in transcription of the indicated genes.</p> <p>PMID:11166270</p> <p>VEGFR2 is highly specific towards VEGFA.</p> <p>PMID:11741095</p> <p>PMID:13678960</p> <p>However VEGFR2 also binds to processed forms of VEGF-C, D, E.</p> <p>VEGFR2 is expressed in both vascular endothelial and lymphatic endothelial cells. </p> <p>Its expression has also been demonstrated in several other cell types such as megakaryocytes and haematopoietic stemm cells.</p> <p>PMID:15501236</p> <p>PMID:14739162</p> <p>Although Endothelial cells express both receptors VEGFR1 and VEGFR2, only VEGFR2 is able to mediate angiogenic effects of VEGFA</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="VEGFR2*"/> <bbox w="60.0" h="40.0" x="6691.5" y="17157.328"/> <glyph class="unit of information" id="_2e2b85a2-0da3-44cd-9f85-471e5c1d004f"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6711.5" y="17152.328"/> </glyph> <glyph class="state variable" id="_02d2c9d7-832c-44fe-9284-24be1d7a57dc"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="6684.0" y="17152.873"/> </glyph> <glyph class="unit of information" id="_c9fe8395-50e9-47c3-a7dd-682763f321d2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="6699.0" y="17152.328"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa73_akt1_akt2_sa73" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa73_akt1_akt2_sa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="13023.561" y="20438.0"/> <glyph class="state variable" id="_42da5bdd-4609-451a-a4cd-12488c8d39f5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13018.561" y="20465.773"/> </glyph> <glyph class="state variable" id="_ed4cf051-d39e-48de-9157-94b3486ecefc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13058.465" y="20473.0"/> </glyph> <glyph class="state variable" id="_fa3c9426-8393-445d-a2ef-79b5583f8450"> <state value="" variable="S10"/> <bbox w="25.0" h="10.0" x="13011.061" y="20435.404"/> </glyph> <glyph class="state variable" id="_4aa21858-3e10-4c86-aa6b-9679daf634d2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13042.155" y="20433.0"/> </glyph> <glyph class="state variable" id="_bd56bb5e-b81a-40d0-b637-da66ffae2ed9"> <state value="" variable="T157"/> <bbox w="30.0" h="10.0" x="13085.143" y="20433.0"/> </glyph> <glyph class="state variable" id="_722a8c24-27df-4d5d-9dcc-613c8be94a9c"> <state value="" variable="T198"/> <bbox w="30.0" h="10.0" x="13008.561" y="20472.72"/> </glyph> <glyph class="state variable" id="_044857a2-9b38-4df8-ab7f-ecddb35934c2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13058.593" y="20433.0"/> </glyph> <glyph class="state variable" id="_086154d1-c6a3-4728-8a9a-782059a77c8e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13018.561" y="20443.3"/> </glyph> <glyph class="state variable" id="_98b31cc7-08a6-4c2c-9e59-b2bd495a669f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13018.561" y="20453.969"/> </glyph> <glyph class="state variable" id="_7f00dd80-cda7-4a6d-94e4-959d264e0ff5"> <state value="" variable="S157"/> <bbox w="30.0" h="10.0" x="13088.561" y="20433.213"/> </glyph> <glyph class="state variable" id="_bfcdda5c-1449-494f-8b5a-34757970e2c1"> <state value="" variable="T187"/> <bbox w="30.0" h="10.0" x="13087.942" y="20473.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa4525_rc_sa4525" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="NAD+"/> <bbox w="70.0" h="25.0" x="19288.56" y="16881.5"/> </glyph> <glyph class="macromolecule multimer" id="s_id_ce_sa125_ce_sa125" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa125_ce_sa125"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKDC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNA-PK*"/> <bbox w="80.0" h="40.0" x="13259.269" y="16361.407"/> <glyph class="unit of information" id="_e5a70433-9afa-409b-8891-1b8c89974019"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="13289.269" y="16356.407"/> </glyph> <glyph class="state variable" id="_7a4d9d91-3610-4458-a2de-fe702323d98f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13254.269" y="16376.407"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_em_sa2098_em_sa2098" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:17533374HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expressionPMID:23869868Chemokine receptor CXCR2 is transactivated by p53 and induces p38-mediated cellular senescenceConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:EMT_REGULATORS MODULE:SENESCENCE References:PMID:17533374HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expressionPMID:23869868Chemokine receptor CXCR2 is transactivated by p53 and induces p38-mediated cellular senescenceConfidence_begin:Confidence_endIdentifiers_begin:Map modules:References:Confidence_begin:Confidence_end </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2098_em_sa2098"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17533374"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23869868"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17533374"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23869868"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCR2"/> <bbox w="59.0" h="20.0" x="3287.0" y="15120.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1932_in_sa1932" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR212"/> <bbox w="90.0" h="25.0" x="20510.0" y="4531.25"/> <glyph class="unit of information" id="_0cd908a9-a8e5-45ba-bd3d-a95f089b7f7e"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="20540.0" y="4526.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa393_in_sa393" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD48"/> <bbox w="80.0" h="40.0" x="22015.0" y="1600.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa16_shh1_shh1_csa16" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HH Ligand:PTCH*</p> <p>References:</p> <p>s_shh1_re27:(MAP:survival) PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa16_shh1_shh1_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTC_HH_ligand"/> <bbox w="126.0" h="281.0" x="26163.81" y="17556.0"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa340_shh1_shh1_sa340"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>Guanine nucleotide binding protein (G-protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gαi*"/> <bbox w="40.0" h="30.0" x="26166.56" y="17748.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa349_shh1_shh1_sa349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="30.0" h="30.0" x="26168.56" y="17779.0"/> </glyph> <glyph class="simple chemical" id="s_id_shh1_shh1_sa138_shh1_shh1_sa138"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="HH Ligand"/> <bbox w="70.0" h="25.0" x="26192.31" y="17572.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa342_shh1_shh1_sa342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein) beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gβi*"/> <bbox w="40.0" h="30.0" x="26206.06" y="17748.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa344_shh1_shh1_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein) gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein) gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="Gγi*"/> <bbox w="40.0" h="30.0" x="26245.56" y="17748.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa137_shh1_shh1_sa137"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Patched 1</p> <p>HUGO:PTCH1 HGNC:9585 ENTREZ:5727 UNIPROT:Q13635 GENECARDS:PTCH1 REACTOME:62393 KEGG:5727 ATLASONC:PTCH100 WIKI:PTCH1 </p> <p>Patched 2</p> <p>HUGO:PTCH2 HGNC:9586 ENTREZ:8643 UNIPROT:Q9Y6C5 GENECARDS:PTCH2 REACTOME:62395 KEGG:8643 ATLASONC:PTCH2ID41892ch1p34 WIKI:PTCH2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <label text="PTCH*"/> <bbox w="78.0" h="114.0" x="26189.31" y="17583.0"/> <glyph class="unit of information" id="_b8f8f947-3114-4691-a66d-6ebb3da4781a"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="26205.81" y="17578.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa139_shh1_shh1_sa139"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Smoothened</p> <p>HUGO:SMO HGNC:11119 ENTREZ:6608 UNIPROT:Q99835 GENECARDS:SMO REACTOME:64670 KEGG:6608 ATLASONC:GC_SMO WIKI:SMO</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18820483</p> <p>PMID:17641202</p> </body> </html> </notes> <label text="SMO"/> <bbox w="80.0" h="40.0" x="26186.56" y="17698.0"/> <glyph class="state variable" id="_64f2553b-5470-44f1-89aa-6f78be2a48e6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26261.56" y="17693.0"/> </glyph> <glyph class="state variable" id="_62479b4d-490d-4cb8-acd8-248178dd977d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26261.56" y="17693.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2628_rc_sa2628" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2628_rc_sa2628"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GCLC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GCLC"/> <bbox w="80.0" h="40.0" x="26189.06" y="9490.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1096_emtc_em_sa1096" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1096_emtc_em_sa1096"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FYN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FYN"/> <bbox w="36.0" h="17.0" x="5929.5" y="14753.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa26_shh1_shh2_csa26" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BCL2L11:MIR29B*</p> <p>References:</p> <p>s_shh2_re130:(MAP:survival) PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa26_shh1_shh2_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-29b_BIM"/> <bbox w="100.0" h="120.0" x="27454.06" y="21646.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa235_shh1_shh2_sa235"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521 GENECARDS:BCL2L11 REACTOME:401534 KEGG:10018 ATLASONC:BCL2L11ID772ch2q13 WIKI:BCL2L11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19934277</p> <p>PMID:20673124</p> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521 GENECARDS:BCL2L11 REACTOME:401534 KEGG:10018 ATLASONC:BCL2L11ID772ch2q13 WIKI:BCL2L11</p> <p>Map modules:</p> <p>References:</p> <p>PMID:19934277</p> </body> </html> </notes> <label text="BCL2L11"/> <bbox w="90.0" h="25.0" x="27461.06" y="21693.0"/> <glyph class="unit of information" id="_a048ac60-ebaa-4a7f-988e-ff4602528108"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27496.06" y="21688.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa226_shh1_shh2_sa226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21359530</p> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR29B*"/> <bbox w="90.0" h="25.0" x="27461.06" y="21663.5"/> <glyph class="unit of information" id="_5dbb8942-9df7-4533-a5b1-f8ce8806c576"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27491.06" y="21658.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc4_sa92_wnc1_wnc4_sa92" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:It's not a gene but it depicts here all genes coding for all proteins that make up the extracellular matrixs_wnc4_re26(MAP:survival):In airway smooth muscle cellsPMID:21908588 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICALReferences:It's not a gene but it depicts here all genes coding for all proteins that make up the extracellular matrixs_wnc4_re26(MAP:survival):In airway smooth muscle cellsPMID:21908588 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa92_wnc1_wnc4_sa92"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ECM genes"/> <bbox w="70.0" h="25.0" x="19041.06" y="21517.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1879_emtc_em_sa1879" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1879_emtc_em_sa1879"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCE"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRKCE"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRKCE"/> <bbox w="70.0" h="18.0" x="2812.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa64_mo_sa64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RCHY1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RCHY1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIRH2*"/> <bbox w="90.0" h="25.0" x="4496.125" y="10252.375"/> <glyph class="unit of information" id="_fe63acd9-2598-43e5-9402-87c37f3e8128"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4531.125" y="10247.375"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa2651_rc_sa2651" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:DNA_DAMAGE_RESPONSE, MODULE:NECROPTOSIS, MODULE:PARTHANATOS</p> <p>References:</p> <p>PMID:23208502</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2651_rc_sa2651"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23208502"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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<rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ATG4A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ATG4*"/> <bbox w="90.0" h="25.0" x="25101.56" y="16166.5"/> <glyph class="unit of information" id="_3c4ecc17-2a3d-41df-a012-b0e2e679f5ae"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25136.56" y="16161.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca4_sa66_wca1_wca4_sa66" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca4_sa66_wca1_wca4_sa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT2B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT2B"/> <bbox w="70.0" h="25.0" x="23340.06" y="21757.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1144_ad_sa1144" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>PMID:22483603</p> <p>SH2-domain containing inositol-5-phosphatase (SHIP) de-phosphorylates PI(3,4,5)P3 at the D5 position of the inositol ring to create PI(3,4)P2.</p> <p>PMID:12421919</p> <p>SHIP is tyrosine phosphorylated in response to CD28 and CD3 ligation in CEM and MOLT-4 cells</p> <p>(The human leukemic T cell lines Jurkat, CEM, MOLT-4, and HUT78)</p> <p>Differential expression of lipid phosphatases correlates with PKB phosphorylation levels</p> <p>availability of SHIP may determine the activity of the PI3K-dependent signaling cascades was confirmed by the expression of constitutively active membrane-localized SHIP construct which was sufficient to reduce both PKB-PH domain membrane localization and phosphorylation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1144_ad_sa1144"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:INPP5D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22483603"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12421919"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHIP1*"/> <bbox w="80.0" h="40.0" x="26256.0" y="3160.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa20_shh1_shh2_csa20" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FUS:MIR378</p> <p>References:</p> <p>s_shh2_re159:(MAP:survival) PMID:18077375</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa20_shh1_shh2_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-378_Fus-1"/> <bbox w="100.0" h="120.0" x="27747.06" y="21503.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa183_shh1_shh2_sa183"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 378</p> <p>HUGO:MIR378 GENECARDS:MIR378 KEGG:494327 WIKI:MIR378</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19446450</p> <p>PMID:18077375</p> <p>microRNA 378</p> <p>HUGO:MIR378 GENECARDS:MIR378 KEGG:494327 WIKI:MIR378</p> <p>Map modules:</p> <p>References:</p> <p>PMID:19446450</p> </body> </html> </notes> <label text="MIR378"/> <bbox w="90.0" h="25.0" x="27753.81" y="21520.0"/> <glyph class="unit of information" id="_4110f8fc-d7f6-4657-9f9d-a39b4b8a4ba7"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27783.81" y="21515.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa184_shh1_shh2_sa184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FUS1</p> <p>HUGO:FUS HGNC:4010 ENTREZ:2521 UNIPROT:P35637 GENECARDS:FUS REACTOME:55036 KEGG:2521 ATLASONC:FUSID44 WIKI:FUS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17533367</p> <p>FUS1</p> <p>HUGO:FUS HGNC:4010 ENTREZ:2521 UNIPROT:P35637 GENECARDS:FUS REACTOME:55036 KEGG:2521 ATLASONC:FUSID44 WIKI:FUS</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FUS"/> <bbox w="90.0" h="25.0" x="27753.81" y="21553.0"/> <glyph class="unit of information" id="_d9b85191-ed2b-4e5c-93fd-a610a1f8b856"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27788.81" y="21548.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa131_gf1_sa131" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:20430953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa131_gf1_sa131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRG1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRG2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRG3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NRG4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20430953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NRG*"/> <bbox w="80.0" h="40.0" x="8955.561" y="17629.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4949_rc_sa4949" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4949_rc_sa4949"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:REL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="REL"/> <bbox w="80.0" h="40.0" x="27689.06" y="14449.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa705_emtc_em_sa705" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa705_emtc_em_sa705"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR205"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR205"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR205"/> <bbox w="80.0" h="20.0" x="3757.5" y="17043.5"/> <glyph class="unit of information" id="_4db22414-cf4f-43a8-a4b5-6801f27466f5"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3782.5" y="17038.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1087_ad_sa1087" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING, MODULE:TH1</p> <p>CASCADE:TCR</p> <p>PMID:24104473; PMID:16799472</p> <p> Triggering of the T cell receptor (TCR) activates Src family kinases (SFK) and the zeta-chain-associated protein of 70 kDa (ZAP-70). These tyrosine kinases lead to the activation of the transcription factor NF-κB and the p38 mitogen-activated protein kinase. NF-κB induces transcription of the Gadd45b gene. The same applies to the cytokines IL-12 and IL-18 as well as stimulation of the Notch receptor and its cytoplasmic effector Deltex. The cytokine IL-2 activates transcription of the Gadd45g gene. Both Gadd45β and Gadd45γ proteins interact with the kinase MEKK4, which leads to sustained p38 activation and, subsequently, to interferon-γ (IFN-γ) production and Th1 differentiation.</p> <p>PMID:11371360</p> <p>mice deficient in MKK3, a direct upstream activator of the p38 kinase pathway, have impaired type I cytokine immune responses (Lu et al., 1999)</p> <p>PMID:15735649 </p> <p>In the classical MAPK enzymatic cascade, p38 dual phosphorylation is mediated by the MAPKKs MKK3, MKK4 and MKK6, which themselves are activated by MAPKK kinase−mediated phosphorylation</p> <p>Spontaneous phosphorylation of MKK3 and MKK6 was low in CD4+ T cells and increased equivalently in a dose-dependent way after stimulation with anti-CD3</p> <p>Baseline phosphorylation of MKK4 did not increase with anti-CD3 stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1087_ad_sa1087"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP2K3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24104473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16799472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11371360"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15735649"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP2K3"/> <bbox w="80.0" h="40.0" x="26666.0" y="5405.0"/> <glyph class="state variable" id="_87aee1dd-c4bf-4937-a21b-1142796fb268"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="26658.5" y="5419.9683"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa126_ad_csa126" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s5359"/> <bbox w="100.0" h="120.0" x="27896.0" y="3640.0"/> <glyph class="simple chemical" id="s_id_ad_sa1054_ad_sa1054"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:IFNG</p> <p>PMID:11062502, PMID:11385609, PMID:11907067, PMID:15536084</p> <p>Nkp46 controls NK cytolitic activity via PI3K /RAC1/PAK1/MEK /ERK pathway, probably throught SYK </p> <p>PMID:11777960</p> <p>ULBP2 through NKG2D induces SCF2 (GM-CSF), CLL4 (MIP1B) and IFNG secretion via PI3K pathway (PMID:11777960</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="27911.0" y="3657.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1056_ad_sa1056"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TEC</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11406363</p> <p>The activation of Tec</p> <p>kinases occurs in two steps. Step 1: the Tec</p> <p>kinase PH domain can engage the products</p> <p>of PI3K to localize to the membrane.</p> <p>Alternatively, protein–protein interactions,</p> <p>such as with the FERM domain of FAK or</p> <p>heterotrimeric G-protein subunits, may assist</p> <p>in this step of activation. Step 2: once at the</p> <p>membrane, Tec kinases are phosphorylated</p> <p>on a tyrosine in their activation loop by SFKs.</p> <p>Subsequently, the SH3 domain is</p> <p>autophosphorylated.</p> <p>PMID:15214048 </p> <p>TCR/CD28-induced tyrosine phosphorylation and activation of PLCgamma1 was significantly impaired in PKCtheta (-/-) primary, restimulated T cells. Consistent with this finding, receptor-induced Ca(2+) mobilization, NF-AT DNA-binding activity and the membrane translocation of PKCalpha, a PLCgamma1-dependent conventional PKC, were also markedly reduced in the same cells. Moreover, a dominant-negative PLCgamma1 mutant blocked the PKCtheta-induced activation of an AP-1 reporter gene in Jurkat and primary cells. Regulation of PLCgamma1 signaling by PKCtheta required the tyrosine kinase Tec since a dominant-negative Tec mutant blocked PKCtheta-induced AP-1 (but not NF-kappaB) activation. In addition, wild-type Tec, but not Itk or Rlk, potently activated AP-1. Furthermore, Tec was found to constitutively associate with PKCtheta, an interaction that like AP-1 activation required the pleckstrin-homology domain of Tec. These findings define a novel PKCtheta-initiated pathway that regulates Ca(2+) signaling and AP-1 activation via Tec and PLCgamma1. Moreover, they identify Tec as a key point downstream of PKCtheta, where TCR- and PKCtheta-induced signaling pathways, leading to AP-1 versus NF-kappaB activation, diverge in T cells.</p> <p> PKCθ-deficient T cells displayed a reduced basal phosphorylation of Tec on tyrosine, and anti-CD3/CD28 stimulation failed to increase the phospho-tyrosine (pTyr) content of Tec (Fig. 6E). These results indicate that PKCθ is required for optimalTec activation.</p> <p>Tec family kinases directly activate PLCγ1 and regulate Ca2+ responses in immune cells</p> </body> </html> </notes> <label text="TEC"/> <bbox w="80.0" h="40.0" x="27906.0" y="3690.0"/> <glyph class="state variable" id="_5e2c0f5a-9efc-4f3a-af3c-c5e3da9c8072"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="27901.0" y="3705.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa530_rc_csa530" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FTH1:FTL</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa530_rc_csa530"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Ferritin*"/> <bbox w="100.0" h="120.0" x="27269.06" y="9429.0"/> <glyph class="macromolecule" id="s_id_rc_sa5266_rc_sa5266"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ferritin, heavy polypeptide 1</p> <p>HUGO:FTH1 HGNC:3976 ENTREZ:2495 UNIPROT:P02794</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS, MODULE:AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:17603935</p> <p>Ferritin is an iron storage protein and its concentration is inversely related to the level of Labile Iron Pool.</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FTH1"/> <bbox w="80.0" h="40.0" x="27279.06" y="9479.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5265_rc_sa5265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ferritin, light polypeptide</p> <p>HUGO:FTL HGNC:3999 ENTREZ:2512 UNIPROT:P02792</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS, MODULE:AUTOPHAGY, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="FTL"/> <bbox w="80.0" h="40.0" x="27279.06" y="9439.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa113_emtc_em_csa113" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PARD6A:SMURF1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:21572392</p> <p>SMURF1 is an homologous to E6AP C-ter (HECT)-type E3 ubiquitin ligase</p> <p>SMURF1 performs a crucial role in the regulation of the BMP signalling pathway in both embryonic development and bone remodelling.</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation controls the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa113_emtc_em_csa113"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21572392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761148"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22949611"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PARD6A/SMURF1"/> <bbox w="128.0" h="69.0" x="1745.0" y="14460.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa683_emtc_em_sa683"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD specific E3 ubiquitin protein ligase 1</p> <p>HUGO:SMURF1, HGNC:16807, ENTREZ:57154, GENECARDS:GC07M098627, UNIPROT:Q9HCE7</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:21572392</p> <p>SMURF1 is an E3 ubiquitin ligase</p> <p>SMURF1 performs a crucial role in the regulation of the BMP signalling pathway in both embryonic development and bone remodelling.</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>Need more reference 34-36 from PMID15761148: RhoA is an important modulator of cell junction formation and stability.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMURF1"/> <bbox w="57.0" h="20.0" x="1816.25" y="14469.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa682_emtc_em_sa682"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>HUGO:PARD6A, HGNC:15943, ENTREZ:50855, GENECARDS:GC16P067696, UNIPROT:Q9NPB6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:15761148</p> <p>PARD6A is a regulator of epithelial cell polarity and tight-junction assembly</p> <p>TGFBRI is localized to tight junctions where PARD6A is also found. TGFBR1 binds to PARD6A and localizes to tight junctions irrespective of TGF-beta stimulation. </p> <p>The N-terminus of PARD6A, containing a PB1 domain necessary for binding to TGFBR1</p> <p>TGFB stimulation induces redistribution of TGFBRII into tight junctions.</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation controls the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PARD6A"/> <bbox w="55.0" h="39.0" x="1756.0" y="14467.5"/> <glyph class="state variable" id="_e2d48d17-b3a8-4c0f-ae3f-f07b903ae5cb"> <state value="P" variable="S345"/> <bbox w="35.0" h="10.0" x="1760.1615" y="14462.5"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_ce_sa113_ce_sa113" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="ce_s752"/> <bbox w="30.0" h="30.0" x="14987.5" y="15407.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa590_rc_sa590" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa590_rc_sa590"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR25"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR25"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR25"/> <bbox w="90.0" h="25.0" x="21534.32" y="15638.098"/> <glyph class="unit of information" id="_cfa07e15-364a-46bc-9044-f9ef19745d1c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21564.32" y="15633.098"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa221_emtc_em_csa221" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RHOA:ROCK*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:12778124</p> <p>In the inactive form, the pleckstrin homology (PH) domain and the Rho-binding domain (RBD) of ROCK bind to the amino-terminal region of the protein, which forms an autoinhibitory loop.</p> <p>Activated, GTP-bound Rho binds to the RBD of ROCK, which results in an open conformation of the kinase and frees the catalytic activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa221_emtc_em_csa221"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12778124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_GTP/ROCK*"/> <bbox w="101.0" h="63.0" x="5394.0" y="14759.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1417_emtc_em_sa1417"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member A</p> <p>HUGO:RHOA, HGNC:667, ENTREZ:387, GENECARDS:GC03M049371, UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation stimulates the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>TGFB regulation of the Par6-Smurf1-RhoA pathway is required for EMT. </p> <p>PMID:14657501</p> <p>Smurf1 functions as an effector of the polarity complex by mediating localized ubiquitination and degradation of RhoA in cellular protrusions. </p> <p>Atypical protein kinase C (aPKCZ), an effector of the Cdc42/Rac1-PAR6 polarity complex, recruited Smurf1 to cellular protrusions, where it controlled the local level of RhoA.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14744429</p> <p>RhoA is the prototypical member of the Rho GTPase family, which regulates many cellular processes, including cellular adhesion, motility, and polarity</p> <p>RhoA is an important modulator of cell junction formation and stability:</p> <p>PMID:7479854</p> <p>Rho protein regulates tight junctions and perjunctional actin organization in polarized epithelia</p> <p>PMID:9362522</p> <p>Rho subfamily is necessary for the formation of both the cadherin-based cell–cell adhesion and the tight junction</p> <p>PMID:9660866</p> <p>RhoA and Rac1 regulate gate and fence functions of the TJ, and play a role in the spatial organization of TJ proteins at the apex of the lateral membrane</p> <p>PMID:12361600</p> <p>PMID:11992112</p> <p>RhoA functions to maintain apical-basal polarity and cell junctions. </p> <p>PMID:11739775</p> <p>PMID:11729192</p> <p>RhoA can stabilize tight junctions and increase transepithelial resistance</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOA"/> <bbox w="52.0" h="20.0" x="5400.5" y="14764.5"/> <glyph class="state variable" id="_573997fe-4f26-4e39-82f0-64e022bea897"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5395.5" y="14769.484"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1419_emtc_em_sa1419"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ROCK</p> <p>Rho-associated, coiled-coil containing protein kinase 1</p> <p>HUGO:ROCK1, HGNC:10251, ENTREZ:6093, UNIPROT:Q13464, GENECARDS:GC18M018529</p> <p>Rho-associated, coiled-coil containing protein kinase 2</p> <p>HUGO:ROCK2, HGNC:10252, ENTREZ:9475, UNIPROT:O75116, GENECARDS:GC02M011272</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:12778124</p> <p>In the inactive form, the pleckstrin homology (PH) domain and the Rho-binding domain (RBD) of ROCK bind to the amino-terminal region of the protein, which forms an autoinhibitory loop.</p> <p>Activated, GTP-bound Rho binds to the RBD of ROCK, which results in an open conformation of the kinase and frees the catalytic activity.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ROCK*"/> <bbox w="40.0" h="26.0" x="5450.5" y="14768.5"/> <glyph class="state variable" id="_e361c069-597f-407b-ba22-c94d79923765"> <state value="open" variable=""/> <bbox w="30.0" h="10.0" x="5455.5" y="14763.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1418_emtc_em_sa1418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="5399.5" y="14782.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa612_ca_sa612" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS References:CASCADE:PLAUPMID:22470492 1.33 fold increase in the levels of cell-surface integrin β1 after uPA-silencing this corresponded with an average 1.25 fold increase in β1 gene expression . ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:INTEGRINS_SIGNALING_PATHWAYS References:CASCADE:PLAUPMID:22470492 1.33 fold increase in the levels of cell-surface integrin β1 after uPA-silencing this corresponded with an average 1.25 fold increase in β1 gene expression . </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa612_ca_sa612"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22470492"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB1"/> <bbox w="70.0" h="25.0" x="6905.0" y="1967.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa980_ad_sa980" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>CASCADE:TCR, CASCADE:AR2AMODULE:TCR_SIGNALING, MODULE:TH1PMID:20643337 We have mapped interactions of three trans-acting factors-NF-kappaB, STAT4, and T-bet-with cis elements in the Ifng locus. We find that RelA is critical for optimal Ifng expression and is differentially recruited to multiple elements contingent upon T cell receptor (TCR) or interleukin-12 (IL-12) plus IL-18 signaling.PMID:10523612Txk expression is intimately associated with development of Th1/Th0 cells and is significantly involved in the IFN-gamma production by the cells through Th1 cell-specific positive transcriptional regulation of the IFN-gamma gene.PMID:11175814 IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.GADD45B significantly increased phosphorylated p38 MAPK compared to the controlMEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysisPMID:17371980AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines IFN-gamma, RANTES, IL-12P(70), and IL-2. ATL313 also increased negative costimulatory molecules programmed death-1 and CTLA-4 expressed on T cells. In lymphocytes activated with anti-CD3e mAb, ATL313 inhibited the phosphorylation of Zap70, an effect that was reversed by the protein kinase A inhibitor H-89.Two-way MLRs produced an increase in IFN-γ mRNA expression, an effect that was reduced with 10 nM ATL313. ----- content merged by Celldesigner to SBGN-ML translation ------ CASCADE:TCR, CASCADE:AR2AMODULE:TCR_SIGNALING, MODULE:TH1PMID:20643337 We have mapped interactions of three trans-acting factors-NF-kappaB, STAT4, and T-bet-with cis elements in the Ifng locus. We find that RelA is critical for optimal Ifng expression and is differentially recruited to multiple elements contingent upon T cell receptor (TCR) or interleukin-12 (IL-12) plus IL-18 signaling.PMID:10523612Txk expression is intimately associated with development of Th1/Th0 cells and is significantly involved in the IFN-gamma production by the cells through Th1 cell-specific positive transcriptional regulation of the IFN-gamma gene.PMID:11175814 IL-12 + IL-18 induces expression of GADD45B and GADD45G mRNA in TH1 cells.GADD45B significantly increased phosphorylated p38 MAPK compared to the controlMEKK4-p38 pathway is requied for INFG transcription activation downstream IL12 and IL18IL-18 induction of GADD45B by NF-B and a requirement for GADD45 interaction with MEKK4 in the downstream induction of IFNGPMID:27557510We FACS sorted KLRG1 positive and negative T cells from PBMC and performed RT-PCR analysis. Our results showed significantly less expression of IL-2 and IL-17 in KLRG1+ CD4 T cells (Figure ​(Figure3B)3B) and IFN-γ and TNF-α in KLRG1+ CD8 T cells compared with their KLRG1− counterparts KLRG1+ T cells secreted significantly higher levels of IL-1b, IL-6 and IL-8 than KLRG1− T cells by RT-PCR analysisPMID:17371980AR2A agonist ATL313 suppressed the activation markers CD25 and CD40L and the release of inflammatory cytokines IFN-gamma, RANTES, IL-12P(70), and IL-2. ATL313 also increased negative costimulatory molecules programmed death-1 and CTLA-4 expressed on T cells. In lymphocytes activated with anti-CD3e mAb, ATL313 inhibited the phosphorylation of Zap70, an effect that was reversed by the protein kinase A inhibitor H-89.Two-way MLRs produced an increase in IFN-γ mRNA expression, an effect that was reduced with 10 nM ATL313. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa980_ad_sa980"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20643337"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10523612"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11175814"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17371980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IFNG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20643337"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10523612"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11175814"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27557510"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17371980"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IFNG"/> <bbox w="70.0" h="25.0" x="27091.0" y="7997.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5002_rc_sa5002" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5002_rc_sa5002"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNAJB11"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNAJB11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNAJB11"/> <bbox w="90.0" h="25.0" x="28366.326" y="16041.5"/> <glyph class="unit of information" id="_7af4d417-5c94-4552-a067-7cf12259ce3b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28401.326" y="16036.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa113_mpk1_mpk1_csa113" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GAB1:GRB2</p> </body> </html> </notes> <label text="GAB1:GRB2"/> <bbox w="80.0" h="84.0" x="8149.56" y="19514.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa713_mpk1_mpk1_sa713"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8168.56" y="19522.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa714_mpk1_mpk1_sa714"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GRB2-associated binding protein 1</p> <p>HUGO:GAB1 HGNC:4066 ENTREZ:2549 UNIPROT:Q13480</p> <p>Map modules:</p> </body> </html> </notes> <label text="GAB1"/> <bbox w="50.0" h="25.0" x="8168.56" y="19547.5"/> <glyph class="state variable" id="_43d68f9b-637f-4658-8c04-2c9baee1f550"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8161.06" y="19555.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2602_rc_sa2602" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2602_rc_sa2602"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPX*"/> <bbox w="80.0" h="40.0" x="26939.06" y="9514.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa39_wnc1_wnc2_csa39" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PPP3CB:PPP3R*</p> <p>References:</p> <p>s_wnc2_re68:(MAP:survival) PMID:15489953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa39_wnc1_wnc2_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15489953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin)"/> <bbox w="100.0" h="120.0" x="17714.56" y="19465.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa214_wnc1_wnc2_sa214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="17727.56" y="19477.0"/> <glyph class="state variable" id="_f6baa9fb-119c-432f-a65f-5f92a6a7c6d0"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="17717.564" y="19472.0"/> </glyph> <glyph class="state variable" id="_87f10ec3-f977-4623-afc6-d04d4e7586bc"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="17717.564" y="19512.0"/> </glyph> <glyph class="state variable" id="_900b2f1d-76f0-4612-adbf-44c7dbacd628"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="17792.56" y="19472.213"/> </glyph> <glyph class="state variable" id="_69176fc2-d5c4-4e09-af09-0687948c14b6"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="17717.56" y="19492.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa215_wnc1_wnc2_sa215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="17727.56" y="19520.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa112_akt1_akt1_sa112" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa112_akt1_akt1_sa112"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AKT1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AKT1"/> <bbox w="80.0" h="40.0" x="13426.561" y="18094.0"/> <glyph class="state variable" id="_d0f35a95-6606-4dcf-ad9f-00aab0a21292"> <state value="" variable="T450"/> <bbox w="30.0" h="10.0" x="13491.194" y="18089.0"/> </glyph> <glyph class="state variable" id="_f09cb251-5180-4a61-a8f9-e59285251246"> <state value="P" variable="S129"/> <bbox w="35.0" h="10.0" x="13409.061" y="18125.12"/> </glyph> <glyph class="state variable" id="_aa9cfc85-b88d-4788-87cf-6efcd4064a87"> <state value="" variable="T308"/> <bbox w="30.0" h="10.0" 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By inhibiting GSK3, CD28 relieves inhibition of nuclear factor of activated T cells (NFAT), thus providing a mechanism by which cells can monitor receptor occupancy to maintain T-cell responses</p> <p>Maintenance of GSK3 inhibition is critical for CD4+ and CD8+ T-cell survival after activation</p> <p>GSK3 inhibition increased the production of anti-inflammatory IL-10 by memory CD4+ T cells</p> <p> T-cell migration across endothelial cell barriers separating blood from tissue is critical for accessing targets and failure to clear pathogens can result from blocked migration, for example, due to a lack of necessary recognition molecules. T-cell motility is promoted by the chemokine CXCL12, which inhibits GSK3-mediated phosphorylation of CRMP2</p> <p>mitogenic stimulation of T lymphocytes causes rapid activation of protein synthesis, in part due to increased expression of many translational components such as the initiation factor eIF2B. eIF2B is phosphorylated by GSK3, which inhibits nucleotide exchange, and this inhibition is released by TCR activation-induced inhibition of GSK3</p> <p>PMID:19836308 </p> <p>GSK3 inactivates NFATc by phosphorylation-dependent stimulation of NFATc nuclear export </p> <p>PMID:26885856 </p> <p>TCR and CD28 phosphorylate and inactivate GSK-3</p> <p>GSK-3 siRNA downregulation, or inhibition by small molecules, blocked PD-1 expression, resulting in increased CD8(+) cytotoxic T lymphocyte (CTL) function. Mechanistically, GSK-3 inactivation increased Tbx21 transcription, promoting enhanced T-bet expression and subsequent suppression of Pdcd1 (encodes PD-1) transcription in CD8(+) CTLs. Injection of GSK-3 inhibitors in mice increased in vivo CD8(+) OT-I CTL function and the clearance of murine gamma-herpesvirus 68 and lymphocytic choriomeningitis clone 13 and reversed T cell exhaustion. Our findings identify GSK-3 as a regulator of PD-1 expression and demonstrate the applicability of GSK-3 inhibitors in the modulation of PD-1 in immunotherapy.</p> <p>PMID:23732914 </p> <p>Inhibition of CK2 during stimulation via TCR/CD3 and CD28 recapitulated the effects of PD-1 and resulted in diminished PTEN expression and phosphorylation in the C-terminal regulatory region. 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</annotation> </extension> <label text="FTH1"/> <bbox w="70.0" h="25.0" x="25574.06" y="16326.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1073_ca_sa1073" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:TREG_MODULATORS MODULE:CAF </p> <p>References:</p> <p>PMID:27298374</p> <p>Fibroblast could express OX40L</p> <p>PMID:17641007</p> <p>OX40L prevents Treg transformation of naive T cells by inhibition of Foxp3 expression</p> <p>"we established a two-step T cell culture system with IEk+ fibroblast APC expressing only OX40L. Naive T cells were cultured as before with low-dose Ag for 18 h. These activated cells were then repurified for secondary culture with OX40L-expressing APC in the presence or absence of TGF-β. At 18 h before restimulation, wild-type and OX40−/− T cells expressed equivalent CD25 and TGF-βRII and no Foxp3 (Fig. 4⇓A). After restimulation with Ag and OX40L, wild-type T cells did not develop into Foxp3+ cells without the addition of TGF-β (Fig. 4⇓, B and C). 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<rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GF"/> <bbox w="70.0" h="25.0" x="2725.0" y="8838.5"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa454_mo_sa455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Receptor tyrosine kinase</p> <p>epidermal growth factor receptor</p> <p>HUGO:EGFR</p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)NGL</p> <p>HUGO:ERBB2</p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)LCCS2 </p> <p>HUGO:ERBB3</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>HUGO:ERBB4</p> <p>fibroblast growth factor receptor 1</p> <p>HUGO:FGFR1</p> <p>fibroblast growth factor receptor 2</p> <p>HUGO:FGFR2</p> <p>fibroblast growth factor receptor 3</p> <p>HUGO:FGFR3</p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4</p> <p>fms-related tyrosine kinase 1 FLT</p> <p>HUGO:FLT1</p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4</p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA</p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>HUGO:PDGFRB</p> <p>v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog</p> <p>insulin-like growth factor 1 receptor</p> <p>HUGO:IGF1R</p> <p>EPH receptor A1</p> <p>HUGO:EPHA1</p> <p>EPH receptor A2</p> <p>EPH receptor B1</p> <p>EPH receptor B2</p> <p>PDGFR</p> <p>A generic name for this family of receptors that contain a tyrosine kinase activity.</p> <p>rhotekin</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="90.0" h="105.0" x="2715.0" y="8858.5"/> <glyph class="state variable" id="_7e4e0a70-c575-4f08-9683-3cf41d32e44e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="2797.5" y="8884.254"/> </glyph> <glyph class="state 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<label text="ITGA9"/> <bbox w="80.0" h="40.0" x="23154.06" y="20147.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa292_emtc_em_csa292" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HMGA2:SMAD2_3*:SMAD4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa292_emtc_em_csa292"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16831886"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18832382"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HMGA2/SMAD2_3*/SMAD4"/> <bbox w="158.0" h="64.0" x="3721.0" y="16200.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2001_emtc_em_sa2001"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2_3*"/> <bbox w="67.0" h="19.0" x="3748.5" y="16226.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1979_emtc_em_sa1979"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>high mobility group AT-hook 2</p> <p>HUGO:HMGA2 HGNC:5009 ENTREZ:8091 UNIPROT:P52926</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="HMGA2"/> <bbox w="60.0" h="20.0" x="3725.5" y="16202.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1984_emtc_em_sa1984"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 4</p> <p>HUGO:SMAD4, HGNC:6770, ENTREZ:4089, UNIPROT:Q13485, GENECARDS:GC18P048494</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9389648</p> <p>Smad4 has the same overall structure as the receptor-regulated SMADs</p> <p>Smad4 is more divergent and lacks the C-ter phosphorylation motif.</p> <p>Smad4 is not required for nuclear translocation of Smads 1 or 2</p> <p>Receptor-activated Smad2 takes Smad4 into the nucleus where they form a complex with FAST-1 that requires these three components to activate transcription. </p> <p>Smad4 contributes 2 functions: </p> <p>N-ter-Smad4 promotes binding of the Smad2/Smad4/FAST-1 complex to DNA; </p> <p>C-ter-Smad4 activates Smad1 or Smad2 to stimulate transcription</p> <p>PMID:11074002</p> <p>In the absence of TGFB signaling, Smad4 is rapidly and continuously shuttling between the nucleus and the cytoplasm</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD4"/> <bbox w="60.0" h="20.0" x="3793.5" y="16203.068"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa226_in_sa226" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="GZMA"/> <bbox w="90.0" h="25.0" x="16475.0" y="6587.5"/> <glyph class="unit of information" id="_350bf376-78ac-4675-9b89-182c9d88e29c"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="16510.0" y="6582.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa895_rc_sa895" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15595 KEGGCOMPOUND:C00711 CAS:149-61-1</p> <p>References:</p> <p>charge:2-</p> </body> </html> </notes> <label text="malate"/> <bbox w="70.0" h="25.0" x="18434.777" y="11231.565"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa381_wca1_wca3_sa381" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_sa381_wca1_wca3_sa381"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIX3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIX3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIX3"/> <bbox w="90.0" h="25.0" x="21186.06" y="22739.5"/> <glyph class="unit of information" id="_89e016c2-b611-4791-a9d1-2358c4258f52"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21221.06" y="22734.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa28_in_sa28" compartmentRef="s_id_in_ca12_in_ca12"> <label text="ARL14EP"/> <bbox w="80.0" h="40.0" x="21410.0" y="7150.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1274_ad_sa1274" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:12818166</p> <p>the expression of JunB, a component of the AP-1 family induced after T cell activation, was reduced by 49% after B7S1 costimulation. On the other hand, there was little change in c-Jun expression (11% reduction) with B7S1-Ig treatment. JunB has been previously shown to bind to the IL-2 promoter (Boise et al., 1993 and JunB overexpression resulted in greater IL-2 production (our unpublished data). Since JunB is induced after T cell activation (Jain et al., 1995, the mechanism of which is unknown, B7S1 costimulation may result in inefficient JunB induction.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1274_ad_sa1274"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:JUNB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12818166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JUNB"/> <bbox w="80.0" h="40.0" x="26746.0" y="6425.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa935_ce_sa935" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa935_ce_sa935"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FBXO5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EMI1*"/> <bbox w="80.0" h="40.0" x="11379.77" y="10307.5"/> <glyph class="state variable" id="_a11d3a5e-8247-4c93-9bec-0087e28ad0c0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11374.77" y="10322.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1013_emtc_em_sa1013" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1013_emtc_em_sa1013"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGF"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGF"/> <bbox w="33.0" h="19.0" x="2767.125" y="19071.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa609_ad_sa609" compartmentRef="s_id_ad_ca10_ad_ca10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:23886063; PMID:23620508;</p> <p>For a successful T cell activation the TcR signal alone is insufficient, a second, co-stimulatory signaling is also necessary The immunological synapse (A.Kupfer and M. Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal linker proteins (such as talin) . Proteins with large extracellular domains, including protein-tyrosine phosphatase CD45 and glycoproteins CD44 and CD43, accumulate in the distal SMAC (d).</p> <p>PTPRC (CD45)</p> <p>PMID:23620508 </p> <p>In the resting state, the T cell receptor (TCR)–CD3 complex is primarily monomeric or forms very transient small aggregates. Phosphatase activity dominates and the level of TCR–CD3 immunoreceptor tyrosine-based activation motif (ITAM) phosphorylation is low. b | TCR engagement with peptide–MHC complex leads to segregation of the TCR–CD3 complex from phosphatases such as CD45, as well as aggregation and conformational change in the TCR–CD3 cytoplasmic domains.</p> <p>PMID:19290918; PMID:12414720  </p> <p>the CD45 tyrosine phosphatase is key in maintaining the inhibitory C-terminal residues of Lck and Fyn in a dephosphorylated form, allowing the proteins to preserve an open, basally active conformation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa609_ad_sa609"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTPRC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23886063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23620508"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23620508 "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19290918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12414720 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTPRC"/> <bbox w="80.0" h="50.0" x="29817.0" y="2770.0"/> <glyph class="unit of information" id="_46f59b7a-55e3-4d1a-bcf4-8955515b4365"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29834.5" y="2765.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ad_csa152_ad_csa152" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p> PMID:25893604 </p> <p>mTORC1 and mTORC2 selectively regulate CD8+ T cell differentiation</p> <p>PMID:18566586 </p> <p>Model for Akt regulation by mTORC2. mTORC2 phosphorylates newly synthesized Akt at the TM (Thr450) site to facilitate carboxyl-terminal folding and to stabilize Akt. In the presence of growth factors, Akt is further phosphorylated at the HM (Ser473) and A-loop (Thr308) sites by mTORC2 and PDK1, respectively, leading to full activation of Akt.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa152_ad_csa152"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25893604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18566586"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="mTORC2*"/> <bbox w="230.0" h="210.0" x="30011.0" y="3970.0"/> <glyph class="macromolecule" id="s_id_ad_sa1296_ad_sa1296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MLST8</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="30126.0" y="4055.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1295_ad_sa1295"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>HUGO:PRR5</p> <p>PMID:16469695, PMID:26159692</p> </body> </html> </notes> <label text="PRR5"/> <bbox w="80.0" h="40.0" x="30031.0" y="4110.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1294_ad_sa1294"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RICTOR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16469695, PMID:26159692</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="30031.0" y="4050.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1292_ad_sa1292"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MTOR</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> <p> PI3K signaling results in the activation of both mTOR-dependent and independent pathways in T cells.</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="30036.0" y="3995.0"/> <glyph class="state variable" id="_d98fb544-bc92-4a78-b3b6-1e9cbcfdd6f1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="30031.0" y="4010.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1297_ad_sa1297"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MAPKAP1</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16469695, PMID:26159692</p> </body> </html> </notes> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="30126.0" y="4110.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3050_rc_sa3050" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3050_rc_sa3050"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ENDOG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ENDOG"/> <bbox w="80.0" h="40.0" x="22829.06" y="15349.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3604_rc_sa3604" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3604_rc_sa3604"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SHH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SHH"/> <bbox w="80.0" h="40.0" x="20539.06" y="9079.0"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa250_shh1_shh2_sa250" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_sa250_shh1_shh2_sa250"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYCN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYCN"/> <bbox w="80.0" h="40.0" x="26840.06" y="21609.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa473_rc_sa473" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa473_rc_sa473"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SCO2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SCO2"/> <bbox w="80.0" h="40.0" x="19972.81" y="13912.523"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1901_rc_sa1901" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1901_rc_sa1901"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP7"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase7*"/> <bbox w="70.0" h="25.0" x="22411.06" y="16278.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2761_rc_sa2761" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2761_rc_sa2761"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACACB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ACACB"/> <bbox w="80.0" h="40.0" x="18018.303" y="11917.125"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa149_ca_sa149" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa149_ca_sa149"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL17A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL17A"/> <bbox w="80.0" h="40.0" x="680.0" y="3620.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc4_sa110_wnc1_wnc4_sa110" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19928350, PMID:22898821, PMID:17293347</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa110_wnc1_wnc4_sa110"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19928350"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22898821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17293347"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Microtubele polymerisation"/> <bbox w="80.0" h="30.0" x="18455.06" y="20705.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa1444_rc_sa1444" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s2536"/> <bbox w="30.0" h="30.0" x="24204.06" y="13984.0"/> </glyph> <glyph class="complex" id="s_id_akt1_akt2_csa23_akt1_akt2_csa23" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDC53*:FBW7*:RBX1:SKP1</p> </body> </html> </notes> <label text="CDC53*:FBW7*:RBX1:SKP1"/> <bbox w="186.0" h="114.0" x="13406.561" y="21128.0"/> <glyph class="macromolecule" id="s_id_akt1_akt2_sa132_akt1_akt2_sa132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>S-phase kinase-associated protein 1</p> <p>HUGO:SKP1 HGNC:10899 ENTREZ:6500 UNIPROT:P63208 GENECARDS:SKP1 REACTOME:101666 KEGG:6500 ATLASONC:GC_SKP1 WIKI:SKP1 </p> <p>"S-phase kinase-associated protein 1A (p19A)", SKP1A</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> </body> </html> </notes> <label text="SKP1"/> <bbox w="80.0" h="40.0" x="13412.561" y="21176.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa131_akt1_akt2_sa131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 KEGG:9978 ATLASONC:RBX1ID42075ch22q13 WIKI:RBX1 </p> <p>"ring-box 1"</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:dnarepair / MODULE:NER, MAP:dnarepair / MODULE:FANCONI, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:12820959</p> </body> </html> </notes> <label text="RBX1"/> <bbox w="80.0" h="40.0" x="13411.561" y="21135.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa133_akt1_akt2_sa133"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring finger protein 7</p> <p>HUGO:RNF7 HGNC:10070 ENTREZ:9616 UNIPROT:Q9UBF6 GENECARDS:RNF7 KEGG:9616 ATLASONC:RNF7ID44108ch3q22 WIKI:RNF7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11554450</p> </body> </html> </notes> <label text="CDC53*"/> <bbox w="80.0" h="40.0" x="13493.561" y="21136.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa136_akt1_akt2_sa136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>F-box and WD repeat domain containing 7</p> <p>HUGO:FBXW7 HGNC:16712 ENTREZ:55294 UNIPROT:Q969H0 GENECARDS:FBXW7 REACTOME:147220 KEGG:55294 ATLASONC:GC_FBXW7 WIKI:FBXW7</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> </body> </html> </notes> <label text="FBW7*"/> <bbox w="80.0" h="40.0" x="13496.061" y="21176.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa465_rc_csa465" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RAB5*</p> <p>References:</p> <p>23301705</p> </body> </html> </notes> <label text="RAB*:GTP"/> <bbox w="100.0" h="109.0" x="28156.56" y="12249.5"/> <glyph class="simple chemical" id="s_id_rc_sa4431_rc_sa4431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15996 KEGGCOMPOUND:C00044 CAS:86-01-1</p> <p>Map modules:</p> <p>MODULE:MITOCH_METABOLISM, MODULE:DEATH-RECEPTORS, MODULE:DEPENDANCE_RECEPTORS</p> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="28174.31" y="12309.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4429_rc_sa4429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAB5A, member RAS oncogene family</p> <p>HUGO:RAB5A HGNC:9783 ENTREZ:5868 UNIPROT:P20339</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="RAB5*"/> <bbox w="80.0" h="40.0" x="28168.06" y="12263.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2558_emtc_em_sa2558" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2558_emtc_em_sa2558"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<p>NAME:APAF1:Caspase9*:Cytochrome_C*:dATP/ATP</p> <p>References:</p> <p>s_akt1_re178(MAP:survival):</p> <p>PMID:19788417</p> <p>PMID:16977332</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa65_akt1_akt1_csa65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788417"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16977332"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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<head> <title/> </head> <body> <p>apoptotic peptidase activating factor 1</p> <p>HUGO:APAF1 HGNC:576 ENTREZ:317 UNIPROT:O14727 GENECARDS:APAF1 REACTOME:50100 KEGG:317 ATLASONC:APAF1ID422 WIKI:APAF1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19788417</p> </body> </html> </notes> <label text="APAF1"/> <bbox w="80.0" h="40.0" x="13560.061" y="18380.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa377_akt1_akt1_sa377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999 GENECARDS:CYCS REACTOME:53260 KEGG:54205 ATLASONC:GC_CYCS WIKI:CYCS</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:PI3K_AKT_MTOR</p> 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id="_b206ad33-bd5d-465b-b80e-e1061d8db4d9"> <state value="-SOH" variable=""/> <bbox w="30.0" h="10.0" x="19836.81" y="14579.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa896_ca_sa896" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:PMID:22964023 miR-221-5p is upregulated in CAFS and , miR-141, miR-200b, miR-101-3p are downregulatedTGF-β, IL-6 and RPS6KB1 are predicted as targets for miR-200b/c, IL-6, GRB2 are predicted as targets for miR-141 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CAF_INHIBITION_ANTITUMOR MODULE:CAF References:PMID:22964023 miR-221-5p is upregulated in CAFS and , miR-141, miR-200b, miR-101-3p are downregulatedTGF-β, IL-6 and RPS6KB1 are predicted as targets for miR-200b/c, IL-6, GRB2 are predicted as targets for miR-141 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa896_ca_sa896"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22964023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22964023"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR141"/> <bbox w="90.0" h="25.0" x="2835.0" y="2562.25"/> <glyph class="unit of information" id="_adda5794-3cd1-404d-83c3-4b64323e388c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="2865.0" y="2557.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa48_akt1_akt1_csa48" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DEK:REF*:RNPS1:SRM160*:Y14*</p> <p>References:</p> <p>s_akt1_re79(MAP:survival):</p> <p>PMID:18423201</p> <p>PMID:19339977</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa48_akt1_akt1_csa48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18423201"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(EJC)"/> <bbox w="180.0" h="160.0" x="12581.061" y="19687.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa467_akt1_akt1_sa467"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RNA binding motif protein 8A</p> <p>HUGO:RBM8A HGNC:9905 ENTREZ:9939 UNIPROT:Q9Y5S9 GENECARDS:RBM8A REACTOME:72303 KEGG:9939 ATLASONC:GC_RBM8A WIKI:RBM8A</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="Y14*"/> <bbox w="80.0" h="40.0" x="12668.061" y="19737.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa271_akt1_akt1_sa271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DEK oncogene</p> <p>HUGO:DEK HGNC:2768 ENTREZ:7913 UNIPROT:P35659 GENECARDS:DEK KEGG:7913 ATLASONC:DEK_23 WIKI:DEK</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="DEK"/> <bbox w="80.0" h="40.0" x="12586.061" y="19738.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa466_akt1_akt1_sa466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Aly/REF export factor</p> <p>HUGO:ALYREF HGNC:19071 ENTREZ:10189 UNIPROT:Q86V81 GENECARDS:ALYREF REACTOME:103403 KEGG:10189 ATLASONC:GC_ALYREF WIKI:ALYREF</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="REF*"/> <bbox w="80.0" h="40.0" x="12668.061" y="19695.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa270_akt1_akt1_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>serine/arginine repetitive matrix 1</p> <p>HUGO:SRRM1 HGNC:16638 ENTREZ:10250 UNIPROT:Q8IYB3 GENECARDS:SRRM1 REACTOME:249492 KEGG:10250 WIKI:SRRM1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11532962</p> </body> </html> </notes> <label text="SRM160*"/> <bbox w="80.0" h="40.0" x="12586.061" y="19695.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa465_akt1_akt1_sa465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RNA binding protein S1 serine-rich domain</p> <p>HUGO:RNPS1 HGNC:10080 ENTREZ:10921 UNIPROT:Q15287 GENECARDS:RNPS1 REACTOME:156734 KEGG:10921 WIKI:RNPS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RNPS1"/> <bbox w="80.0" h="40.0" x="12586.061" y="19779.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa220_ce_csa220" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAX:MYC</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:15814658, PMID:12584560</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa220_ce_csa220"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15814658"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12584560"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAX/MYC"/> <bbox w="100.0" h="120.0" x="11895.473" y="11123.356"/> <glyph class="macromolecule" id="s_id_ce_sa1598_ce_sa1598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-myc myelocytomatosis viral oncogene homolog (avian)</p> <p>HUGO:MYC, HGNC:7553, ENTREZ:4609, UNIPROT:P01106</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:20551172, PMID:21406394, PMID:17873522, PMID:17558397</p> </body> </html> </notes> <label text="MYC"/> <bbox w="80.0" h="40.0" x="11908.473" y="11132.856"/> <glyph class="state variable" id="_efc75f82-b38b-45a8-a405-adbd026c0f63"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11903.473" y="11147.856"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa1117_ce_sa1117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MYC associated factor X</p> <p>HUGO:MAX, HGNC:6913, ENTREZ:4149, UNIPROT:P61244</p> <p>Map modules:</p> <p>MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:2006410, PMID:15121849, PMID:8425218, PMID:16908182</p> </body> </html> </notes> <label text="MAX"/> <bbox w="80.0" h="40.0" x="11904.589" y="11174.664"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa945_ca_sa945" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF_INHIBITION_ANTITUMOR </p> <p>References:</p> <p>PMID:26921338 </p> <p>(PEDF, SERPINF1) normal dermal fibroblasts expressing high PEDF levels attenuated melanoma growth and angiogenesis in vivo, whereas PEDF-depleted fibroblasts exerted tumor-promoting effects.</p> <p> melanoma cells produced PDGF-BB and TGFβ, which blocked PEDF production in fibroblasts. Notably, cancer-associated fibroblasts (CAF) isolated from patient-derived tumors expressed markedly low levels of PEDF. Treatment of patient CAF and TGFβ-treated normal fibroblasts with exogenous PEDF decreased the expression of CAF markers and restored PEDF expression. Finally, expression profiling of PEDF-depleted fibroblasts revealed induction of IL8, SERPINB2, hyaluronan synthase-2, and other genes associated with tumor promotion and metastasis.</p> <p>PEDF treatment strongly elevated cytoplasmic PEDF levels in the activated fibroblasts, suggesting a positive feedback loop.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa945_ca_sa945"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SERPINF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26921338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SERPINF1"/> <bbox w="80.0" h="40.0" x="2850.0" y="2430.0"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4523_rc_sa4523" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="Adequation in ATP comsumption/production"/> <bbox w="300.0" h="29.0" x="28636.56" y="12622.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa19_wca1_wca3_csa19" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:TAB1:TAK1*</p> <p>References:</p> <p>s_wca3_re31(MAP:survival):</p> <p>Autophosphorylation sequential order: S192 T178 T187 T184</p> <p>PMID:20538596</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa19_wca1_wca3_csa19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20538596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TAB1:TAK1*"/> <bbox w="100.0" h="120.0" x="20905.06" y="20884.5"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa138_wca1_wca3_sa138"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TGF-beta activated kinase 1/MAP3K7 binding protein 1</p> <p>MAP3K7IP1 "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"</p> <p>HUGO:TAB1 HGNC:18157 ENTREZ:10454 UNIPROT:Q15750 GENECARDS:TAB1 REACTOME:65612 KEGG:10454 ATLASONC:GC_TAB1 WIKI:TAB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="TAB1"/> <bbox w="80.0" h="40.0" x="20917.06" y="20936.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa139_wca1_wca3_sa139"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 7</p> <p>TAK1</p> <p>HUGO:MAP3K7 HGNC:6859 ENTREZ:6885 UNIPROT:O43318 GENECARDS:MAP3K7 REACTOME:168070 KEGG:6885 ATLASONC:MAP3K7ID454ch6q15 WIKI:MAP3K7 </p> <p>MEKK7</p> <p>MEKK7 TAK1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> </body> </html> </notes> <label text="TAK1*"/> <bbox w="80.0" h="40.0" x="20916.06" y="20894.0"/> <glyph class="state variable" id="_2e641ebd-2895-430c-8478-3a4ee0588909"> <state value="P" variable="T184"/> <bbox w="35.0" h="10.0" x="20899.053" y="20889.0"/> </glyph> <glyph class="state variable" id="_6d2620ad-49df-44a5-aab4-4064593bb23c"> <state value="P" variable="T187"/> <bbox w="35.0" h="10.0" x="20978.56" y="20889.213"/> </glyph> <glyph class="state variable" id="_1f2ea584-0471-4423-9280-23b10125ac63"> <state value="P" variable="S192"/> <bbox w="35.0" h="10.0" x="20977.941" y="20929.0"/> </glyph> <glyph class="state variable" id="_6167d4c8-2962-4128-a461-eff0d44f8a6f"> <state value="P" variable="T178"/> <bbox w="35.0" h="10.0" x="20898.56" y="20928.72"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa371_akt1_akt1_sa371" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa371_akt1_akt1_sa371"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NOS3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ENOS*"/> <bbox w="80.0" h="40.0" x="13646.061" y="17929.5"/> <glyph class="state variable" id="_4d94d092-4677-4f99-834c-5b695df9a128"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="13718.561" y="17924.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa98_rc_csa98" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Fe3+:PHD*</p> </body> </html> </notes> <label text="PHD"/> <bbox w="100.0" h="120.0" x="25120.56" y="14734.75"/> <glyph class="macromolecule" id="s_id_rc_sa1176_rc_sa1176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>egl nine homolog 1 (C. elegans)</p> <p>HUGO:EGLN1 HGNC:1232 ENTREZ:54583 UNIPROT:Q9GZT9 </p> <p>egl nine homolog 2 (C. elegans)</p> <p>HUGO:EGLN2 HGNC:14660 ENTREZ:112398 UNIPROT:Q96KS0 </p> <p>egl nine homolog 3 (C. elegans)</p> <p>HUGO:EGLN3 HGNC:14661 ENTREZ:112399 UNIPROT:Q9H6Z9</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE</p> </body> </html> </notes> <label text="PHD*"/> <bbox w="80.0" h="40.0" x="25132.56" y="14788.75"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa1175_rc_sa1175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Fe3+"/> <bbox w="25.0" h="25.0" x="25154.06" y="14755.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa795_emtc_em_sa795" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa795_emtc_em_sa795"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FGF1"/> <bbox w="40.0" h="20.0" x="3459.0" y="18927.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2529_rc_sa2529" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:60456</p> </body> </html> </notes> <label text="oxidized_cardiolipin"/> <bbox w="70.0" h="25.0" x="21057.81" y="13487.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa127_shh1_shh1_sa127" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa127_shh1_shh1_sa127"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1E"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSNK1G3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="epsiurn:miriam:hgnc.symbol:CSNK1E"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1*"/> <bbox w="80.0" h="40.0" x="26445.56" y="18236.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa8_shh1_shh2_csa8" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:GLI1</p> <p>References:</p> <p>s_shh2_re62:(MAP:survival) PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa8_shh1_shh2_csa8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1_14-3-3"/> <bbox w="100.0" h="120.0" x="26232.06" y="21117.0"/> <glyph class="macromolecule" id="s_id_shh1_shh2_sa95_shh1_shh2_sa95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Gli family zinc finger 1</p> <p>HUGO:GLI1 HGNC:4317 ENTREZ:2735 UNIPROT:P08151 GENECARDS:GLI1 KEGG:2735 ATLASONC:GLIID310ch12q13 WIKI:GLI1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> </body> </html> </notes> <label text="GLI1"/> <bbox w="80.0" h="40.0" x="26239.81" y="21166.0"/> <glyph class="state variable" id="_914f2742-0566-4a1d-a068-4822580c2e20"> <state value="" variable="K518"/> <bbox w="30.0" h="10.0" x="26247.785" y="21201.0"/> </glyph> <glyph class="state variable" id="_aba30605-c70d-4b93-ad00-73918002b31a"> <state value="P" variable="S640"/> <bbox w="35.0" h="10.0" x="26222.31" y="21200.72"/> </glyph> <glyph class="state variable" id="_6a46edd5-305d-40c0-9656-b8541a415d4d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26314.81" y="21201.0"/> </glyph> <glyph class="state variable" id="_021d9207-6027-4f89-9d5a-4510e28077a8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26234.814" y="21161.0"/> </glyph> <glyph class="state variable" id="_b2a0565a-a3d4-4588-aa0c-9b08fce164ff"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26314.81" y="21161.0"/> </glyph> <glyph class="state variable" id="_05eb9c43-257b-4bb6-b470-7b9e5d80e2f9"> <state value="" variable="T374"/> <bbox w="30.0" h="10.0" x="26304.191" y="21201.0"/> </glyph> <glyph class="state variable" id="_b463306e-5e02-4f1c-8215-95dfcc8bdc9c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="26234.814" y="21201.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh2_sa94_shh1_shh2_sa94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="26240.56" y="21123.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4928_rc_sa4928" compartmentRef="s_id_rc_ca38_rc_ca38"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4928_rc_sa4928"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DERL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DRL1"/> <bbox w="80.0" h="40.0" x="28939.06" y="13009.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4482_rc_sa4482" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4482_rc_sa4482"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAX"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="cleaved BAX*"/> <bbox w="80.0" h="40.0" x="22129.06" y="14689.0"/> <glyph class="unit of information" id="_365d6e60-cf94-4be6-8155-d3ac3ad0711f"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="22144.06" y="14684.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa6_an_csa6" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> <p> PMID:11532940</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa6_an_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11532940"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s49"/> <bbox w="180.0" h="115.0" x="5542.0" y="5917.5"/> <glyph class="macromolecule" id="s_id_an_sa33_an_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3767</p> <p>synonyms:PCL, VEGFR3</p> </body> </html> </notes> <label text="FLT4"/> <bbox w="80.0" h="50.0" x="5552.0" y="5972.5"/> <glyph class="state variable" id="_e285c48f-d37f-4acb-a1a0-27fa945f3b48"> <state value="" variable="Y1063"/> <bbox w="35.0" h="10.0" x="5614.5" y="5974.3267"/> </glyph> <glyph class="state variable" id="_0f4e8985-2e84-4cda-9793-7c5255f0f6e3"> <state value="" variable="Y1230"/> <bbox w="35.0" h="10.0" x="5534.5" y="5975.2373"/> </glyph> <glyph class="state variable" id="_e96caeaf-d2d3-41ae-8c12-5d1f5a219de4"> <state value="" variable="Y1337"/> <bbox w="35.0" h="10.0" x="5572.342" y="6017.5"/> </glyph> <glyph class="unit of information" id="_ff85248f-1fac-4027-a6e2-57c7abf074fa"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5569.5" y="5967.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa526_an_sa526"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12682</p> </body> </html> </notes> <label text="VEGFC"/> <bbox w="80.0" h="40.0" x="5559.4546" y="5926.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa32_an_sa32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8005</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> </body> </html> </notes> <label text="NRP2"/> <bbox w="80.0" h="40.0" x="5632.0" y="5967.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa527_an_sa527"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3708</p> <p>Previous name : VEGFD</p> </body> </html> </notes> <label text="FIGF"/> <bbox w="80.0" h="40.0" x="5632.4546" y="5922.8184"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa921_ca_sa921" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HH, CASCADE:TGFBPMID:20215540 Shh ligand induces expression of Gli1 mRNA in pancreatic CAFssiRNA knockdown of SMO expression blocks GLI1 induction in pancreatic CAFsPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF References:CASCADE:HH, CASCADE:TGFBPMID:20215540 Shh ligand induces expression of Gli1 mRNA in pancreatic CAFssiRNA knockdown of SMO expression blocks GLI1 induction in pancreatic CAFsPMID:17638910 GLI1, GLI2, GLI3 proteins are expressed in fibroblasts, GLI1 and GLI2 expression is upregulated by TGFB via SMAD3 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa921_ca_sa921"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215540"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLI1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215540"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17638910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLI1"/> <bbox w="70.0" h="25.0" x="5955.0" y="1717.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1069_ad_sa1069" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:24670066</p> <p>Using specific shRNA we down-regulated the expression of Nck1 or Nck2 to approximately 10% each in Jurkat T cells. We found that down-regulation of Nck1 impaired TCR-induced phosphorylation of the kinases Erk and MEK, activation of the AP-1 and NFAT transcription factors and subsequently, IL-2 and CD69 expression. In sharp contrast, down-regulation of Nck2 hardly impacts these activation read-outs. Thus, in contrast to Nck2, Nck1 is a positive regulator for TCR-induced stimulation of the Erk pathway. Mutation of the third SH3 domain of Nck1 showed that this domain was required for this activity. Further, TCR-induced NFAT activity was reduced in both Nck1 and Nck2 knock-down cells, showing that both isoforms are involved in NFAT activation. Lastly, we show that neither Nck isoform is upstream of p38 phosphorylation or Ca2+influx.</p> <p>In conclusion, Nck1 and Nck2 have non-redundant roles in human T cell activation in contrast to murine T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1069_ad_sa1069"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NCK1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24670066"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NCK1"/> <bbox w="80.0" h="40.0" x="29096.0" y="6960.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa3044_rc_sa3044" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3044_rc_sa3044"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLS2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GLS2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLS2"/> <bbox w="70.0" h="25.0" x="21263.215" y="16295.558"/> </glyph> <glyph class="complex" id="s_id_em_csa306_em_csa306" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DNM2:GTP</p> <p>Map modules:</p> <p>References:</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>DNM2 induces E-cadherin internalisation</p> <p>- Promoting cytokinesis and chromosome stability thanks to NDPKA</p> <p> Loss of NDPK-A is linked to cytokinesis failure and tetraploidy</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_csa306_em_csa306"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNM2_GTP"/> <bbox w="100.0" h="120.0" x="1119.0" y="13308.0"/> <glyph class="macromolecule" id="s_id_em_sa1984_em_sa1984"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS MODULE:ADHERENS_JUNCTIONS MODULE:EMT_REGULATORS , MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>DNM2 induces E-cadherin internalisation</p> <p>- Promoting cytokinesis and chromosome stability thanks to NDPKA</p> <p> Loss of NDPK-A is linked to cytokinesis failure and tetraploidy</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="DNM2"/> <bbox w="80.0" h="40.0" x="1129.0" y="13328.0"/> </glyph> <glyph class="simple chemical" id="s_id_em_sa1985_em_sa1985"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="1134.0" y="13355.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa15_emtc_em_csa15" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Latency-associated protein*:TGFB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>Each TGFB gene encodes a preproprotein sequence consisting of a signal peptide, a propeptide (LAP) and the mature TGFB</p> <p>After translocation into the endoplamic reticulum, TGFB proprotein monomers form homomdimers liked by disulfide bonds, forming pro-TGFB</p> <p>In the Golgi, the prodomains undergo glycosylation.</p> <p>Also in the Golgi, FURIN hydolyzes the leavage site from LAP, creating TGFB and LAP-derived homodimers</p> <p>The 2 homodimers remain noncovalently associated and are secreted.</p> <p>The LAP-derived homodimer prevents TGFB from binding TGFB receptors.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa15_emtc_em_csa15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20519943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16474430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14557817"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Small latent Complex)"/> <bbox w="199.0" h="65.0" x="1228.0" y="18836.0"/> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa219_emtc_em_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor, beta 1</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>PMID:15548370</p> <p>TGFB1 is a prominent EMT-inducing factor. </p> <p>The induction of EMT by TGFB1 is associated with the activation of JNK, p38, Erk, PI3k–Akt, and RhoA. </p> <p>Activation of the Erk pathway is required for TGFB1–induced EMT In Vitro</p> <p>PMID:11133108</p> <p>C. parvum infection stimulates both IL8, TGFB secretion by both the basal and apical side of caco-2 cells</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epithelia</p> <p>PMID:19010789</p> <p>In early stages of carcinogenesis, TGBF has an anti-oncogenic effects:</p> <p>TGFB inhibits the growth of epithelial cells.</p> <p>In later stage, sensitivity to these effects of TGFB is frequently lost and TGFB would favor the development of tumors progression and metastasis</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TGFB1"/> <bbox w="47.0" h="25.0" x="1299.3125" y="18859.438"/> <glyph class="unit of information" id="_fc239a72-8901-4c5f-aa77-06de297905c0"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1312.8125" y="18854.438"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_emtc_em_sa343_emtc_em_sa343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>latency-associated protein*</p> <p>HUGO:TGFB1, HGNC:11766, ENTREZ:7040, UNIPROT:P01137, GENECARDS:GC19M041837</p> <p>HUGO:TGFB3, HGNC:11769, ENTREZ:7043, UNIPROT:P10600, GENECARDS:GC14M076424</p> <p>HUGO:TGFB2, HGNC:11768, ENTREZ:7042, UNIPROT:P61812, GENECARDS:GC01P218519</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP: Latency-associated peptiden encoded by TGFB gene</p> <p>There are 3 LAPs (1, 2, 3) corresponding to 3 TGFB (1, 2, 3)</p> <p>LAP1 contains the RGD motif which is the binding site for integrins aVb1, aVb3, aVb5, aVb6, aVb8, a8b1</p> <p>PMID:19920116</p> <p>LAP is known to bind to ITG heterodimers and activate TGFB.</p> <p>LAP and TGFB were also prominently expressed at the basal surface of endometrial epitheliaModules_bigin:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Latency-associated protein*"/> <bbox w="197.0" h="20.0" x="1228.9375" y="18840.713"/> <glyph class="unit of information" id="_ff24d4fa-697d-48c3-b661-8e2ffec6317a"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="1317.4375" y="18835.713"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa223_emtc_em_csa223" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RHOB</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="RhoB_GTP"/> <bbox w="70.0" h="60.0" x="5987.0" y="14458.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1106_emtc_em_sa1106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras homolog family member B</p> <p>HUGO:RHOB, HGNC:668, ENTREZ:388, GENECARDS:GC02P020568, UNIPROT:P62745</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9822605</p> <p>Members of the Rho/Rac family can be grouped into 3 classes according to amino acid sequence similarities. </p> <p>The first subfamily is composed of four Rac proteins (Rac-1, Rac-2, Rac-3 and RhoG). Some of these proteins promote the activation of protein kinases such as PAK, c-Jun N-terminal kinase (JNK) and p38MAPK. They are also involved in the activation of other independent pathways regulating membrane ruffling and cell proliferation.</p> <p>The second subfamily, Rho, includes RhoA, RhoB, RhoC, RhoD, RhoE and TTF proteins. RhoA has been characterized extensively and shown to be involved in cell transforma- tion, formation of stress fibers and focal adhesions, and in the stimulation of protein kinases such as PKN and p160Rock</p> <p>Finally, the third subfamily is composed of TC10 and the two isoforms of the Cdc42 protein. Cdc42 was shown to be involved in the activation of JNK, PAK and p38MAPK as well as in the formation of filopodia in the plasma membrane</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RHOB"/> <bbox w="41.0" h="18.0" x="6006.5" y="14463.5"/> </glyph> <glyph class="simple chemical" id="s_id_emtc_em_sa1445_emtc_em_sa1445"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="40.0" h="20.0" x="6002.0" y="14478.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa790_rc_sa790" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:28602 KEGGCOMPOUND:C00665</p> </body> </html> </notes> <label text="fructose-2,6P2"/> <bbox w="105.0" h="33.0" x="18936.56" y="9844.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa526_rc_csa526" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATP5S:Ca2+</p> </body> </html> </notes> <label text="CAPN1:Ca2+"/> <bbox w="100.0" h="110.0" x="26209.06" y="12794.0"/> <glyph class="simple chemical" id="s_id_rc_sa5215_rc_sa5215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:29108</p> <p>MODULE:ER_STRESS</p> </body> </html> </notes> <label text="Ca2+"/> <bbox w="33.0" h="33.0" x="26242.81" y="12852.75"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5214_rc_sa5214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calpain 1, (mu/I) large subunit</p> <p>HUGO:CAPN1 HGNC:1476 ENTREZ:823 UNIPROT:P07384</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:PORPHYRIN_METABOLISM, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:19931333</p> <p>synonym:Calpain 1</p> <p>synonym:mu-calpain</p> </body> </html> </notes> <label text="CAPN1"/> <bbox w="80.0" h="40.0" x="26219.06" y="12804.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa365_in_sa365" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MICA"/> <bbox w="70.0" h="25.0" x="20385.0" y="327.5"/> </glyph> <glyph class="complex" id="s_id_an_csa14_an_csa14" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="HIF-1*"/> <bbox w="100.0" h="150.0" x="6681.0" y="7750.5"/> <glyph class="macromolecule" id="s_id_an_sa113_an_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:EP300</p> </body> </html> </notes> <label text="p300*"/> <bbox w="80.0" h="40.0" x="6691.0" y="7840.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa106_an_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:SETD2</p> <p>HGNC:18420</p> </body> </html> </notes> <label text="HIF1A"/> <bbox w="80.0" h="40.0" x="6691.0" y="7800.5"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa112_an_sa112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:ARNT</p> <p>HGNC:700</p> </body> </html> </notes> <label text="HIF1B*"/> <bbox w="80.0" h="40.0" x="6691.0" y="7760.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa912_in_sa912" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MIR185"/> <bbox w="70.0" h="25.0" x="11135.0" y="4438.125"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa21_an_sa21" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8800</p> <p>PMID:17145802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa21_an_sa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFB"/> <bbox w="80.0" h="40.0" x="7762.0" y="6435.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1929_in_sa1929" compartmentRef="s_id_in_ca12_in_ca12"> <label text="STAT4"/> <bbox w="80.0" h="40.0" x="23430.0" y="3967.5"/> <glyph class="state variable" id="_7fc88641-5288-48ad-92ea-cb2df6130f28"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23422.5" y="3982.5"/> </glyph> <glyph class="state variable" id="_2bb03a7d-9770-4e7c-b476-db98aaa4a2a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23505.0" y="3978.885"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1210_emtc_em_sa1210" compartmentRef="s_id_em_ca14_em_ca14"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1210_emtc_em_sa1210"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin2*"/> <bbox w="64.0" h="19.0" x="1011.0" y="15221.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa50_ce_csa50" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:RPA1:RPA2:RPA3:SMARCAL1</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:FANCONI</p> <p>References:</p> <p>For role of SMARCAL1/RPA in stalled replication fork repair and in the homologous recombination</p> <p>PMID:19841479, PMID:19793861, PMID:19793862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_csa50_ce_csa50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19841479"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RPA complex:SMARCAL1"/> <bbox w="146.0" h="200.0" x="14409.473" y="15611.356"/> <glyph class="macromolecule" id="s_id_ce_sa1401_ce_sa1401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a-like 1</p> <p>HUGO:SMARCAL1, HGNC:11102, ENTREZ:50485, UNIPROT:Q9NZC9</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:HR, MODULE:FANCONI</p> <p>References:</p> <p>PMID:19841479</p> <p>For role of SMARCAL1/RPA in stalled relication fork repair and in the homologous recombination</p> <p>PMID:19841479, PMID:19793861, PMID:19793862</p> </body> </html> </notes> <label text="SMARCAL1"/> <bbox w="80.0" h="40.0" x="14437.615" y="15747.284"/> <glyph class="state variable" id="_b8cbbdcb-ad68-4217-8e7f-8a4c73afa92a"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14430.115" y="15762.252"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa591_ce_sa591"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A1, 70kDa</p> <p>HUGO:RPA1, HGNC:10289, ENTREZ:6117, UNIPROT:P27694</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER , MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660, PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA1"/> <bbox w="80.0" h="40.0" x="14437.213" y="15615.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa593_ce_sa593"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A3, 14kDa</p> <p>HUGO:RPA3, HGNC:10291, ENTREZ:6119, UNIPROT:P35244</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA3"/> <bbox w="80.0" h="40.0" x="14436.213" y="15703.615"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa592_ce_sa592"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>replication protein A2, 32kDa</p> <p>HUGO:RPA2, HGNC:10290, ENTREZ:6118, UNIPROT:P15927</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:DNA_REPAIR, MODULE:S_PHASE_CHECKPOINT, MODULE:S_CC_PHASE, MODULE:HR, MODULE:NER, MODULE:MMR</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> <p>For S-phase checkpoint</p> <p>PMID:15459660,PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221, PMID:18677104</p> </body> </html> </notes> <label text="RPA2"/> <bbox w="80.0" h="40.0" x="14437.213" y="15658.615"/> <glyph class="state variable" id="_38731038-ab01-490c-b2c1-855eebd190d6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14432.213" y="15673.615"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa329_mo_sa329" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>as-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>as-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)</p> <p>as-related C3 botulinum toxin substrate 3 (rho family, small GTP binding protein Rac3)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa329_mo_sa329"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RAC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC*"/> <bbox w="80.0" h="40.0" x="6121.0" y="10252.0"/> </glyph> <glyph class="complex" id="s_id_in_csa71_in_csa71" compartmentRef="s_id_in_ca13_in_ca13"> <label text="in_s771"/> <bbox w="110.0" h="140.0" x="21070.0" y="1300.0"/> <glyph class="macromolecule" id="s_id_in_sa621_in_sa621"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="DAP10"/> <bbox w="80.0" h="50.0" x="21080.0" y="1315.0"/> <glyph class="state variable" id="_1ee4c85e-190b-44df-abc5-1c6941591c7b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21075.0" y="1335.0"/> </glyph> <glyph class="unit of information" id="_feaa0f67-768e-4fb1-bc6f-f8c7ef53e489"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21097.5" y="1310.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa620_in_sa620"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="NKG2D*"/> <bbox w="80.0" h="50.0" x="21080.0" y="1365.0"/> <glyph class="unit of information" id="_037ab8ef-b30c-44ae-8c38-8d83eba306f8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21097.5" y="1360.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa49_in_sa49" compartmentRef="s_id_in_ca15_in_ca15"> <label text="HRAS"/> <bbox w="80.0" h="40.0" x="20123.125" y="6507.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5390_rc_sa5390" compartmentRef="s_id_rc_ca50_rc_ca50"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5390_rc_sa5390"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase1*"/> <bbox w="80.0" h="40.0" x="28434.06" y="9965.25"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1042_ca_sa1042" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FIBROBLAST_ACTIVATION_MARKERS </p> <p>References:</p> <p>PMID:25083868</p> <p>The transcriptional regulator Heat-Shock Factor 1 (HSF1) is frequently activated in cancer-associated fibroblasts (CAFs)</p> <p>The effects of stromal HSF1 activation on cancer cells are mediated by TGFβ and SDF1 signaling,</p> <p>expression levels of Sdf1, Tgfβ1 and Tgfβ2 were significantly lower in Hsf1 null MEFs than in WT MEFs, even without co-culture with cancer cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1042_ca_sa1042"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HSF1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25083868"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSF1"/> <bbox w="80.0" h="40.0" x="2210.0" y="4120.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa160_ad_csa160" compartmentRef="s_id_ad_ca9_ad_ca9"> <label text="ad_s5815"/> <bbox w="100.0" h="120.0" x="29146.0" y="2665.0"/> <glyph class="macromolecule" id="s_id_ad_sa1366_ad_sa1366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:CD48</p> <p>MODULE:SMAC, MODULE:ACTIVATING_CHECKPOINTS</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>CD48 interactions with CD2 in cis on T cells can promote T cell activation, by facilitating recruitment of signaling components to the TCR. </p> </body> </html> </notes> <label text="CD48"/> <bbox w="80.0" h="40.0" x="29156.0" y="2675.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1367_ad_sa1367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC, MODULE:ACTIVATING_CHECKPOINTS</p> <p>HUGO:CD2</p> <p>PMID:23886063 </p> <p>For a successful T cell activation the TcR signal alone is insufficient, a second, co-stimulatory signaling is also necessary The immunological synapse (A.Kupfer and M. Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal link</p> <p>er proteins (such as talin) . Proteins with large extracellular domains, including protein-tyrosine phosphatase CD45 and glycoproteins CD44 and CD43, accumulate in the distal SMAC (d).</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> <p>CD58 (LFA-3) is the high affinity ligand for CD2</p> <p>PMID:19398758 </p> <p>The coreceptor CD2 uses plasma membrane microdomains to transduce signals in T cells</p> <p>the binding of CD58 to CD2, even in the absence of TCR activation, also induces signaling through the actin-dependent coalescence of signaling molecules (including TCR-zeta chain, Lck, and LAT) into microdomains.</p> <p>PMID:19494291</p> <p> when either CD2 or CD48 were lacking from the T cell, there was reduced linker for activation of T cells (LAT) recruitment to the TCR, LAT phosphorylation, calcium flux, and IL-2 production. CD2 was required for CD48 to associate with the TCR and CD3, and CD48 was required for LAT association with the TCR(cis interaction)</p> <p> PMID:15331323 </p> </body> </html> </notes> <label text="CD2"/> <bbox w="80.0" h="50.0" x="29156.0" y="2720.0"/> <glyph class="unit of information" id="_cd0f4ef8-8c70-40ae-90a1-db9c3816c9d2"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29173.5" y="2715.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa83_ca_csa83" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDC42:GDP</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>CASCADE:CAV</p> </body> </html> </notes> <label text="ca_s1703"/> <bbox w="100.0" h="120.0" x="6390.0" y="3034.0"/> <glyph class="simple chemical" id="s_id_ca_sa689_ca_sa689"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="63.0" h="27.0" x="6408.75" y="3100.875"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa690_ca_sa690"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 42</p> <p>HUGO:CDC42 hgnc_id:HGNC:1736 HGNC:1736 ENTREZ:998 UNIPROT:P60953</p> <p>Map modules:</p> <p>MODULE:MOTILITY MODULE:CAF </p> <p>References:</p> <p>CASCADE:CAV</p> <p>PMID:17517963 </p> <p>caveolin-deficient MEFs showed a notable decrease in basal Rho activity and a significant increase in Rac and Cdc42 activity</p> <p>PMID:21178402</p> <p>Rac1 and Cdc42 activate ARP2/3 complex;</p> <p>Rac1 and Cdc42 activate Wiskott-Aldrich Syndrome family of proteins including WASP, N-WASP and WAVE1/2.</p> <p>Cdc42 is also involved in Golgi apparatus and MTOC reorientation in wound-edge fibroblasts.</p> <p>PMID:27248291 </p> <p>Cdc42 regulates Cdc42EP3 function in cancer-associated fibroblasts</p> <p>Inhibiting Cdc42 function by transient expression of the dominant negative Cdc42-N17</p> <p>protein resulted in a loss of filamentous Cdc42EP3 structures and reduced F-actin stress fibers and filamentous</p> <p>SEPT2</p> <p>PMID:15882626 </p> <p>Cdc42 and MRCK Activate Nuclear Movement to Reorient the MTOC (The microtubule-organizing center )in fibroblasts</p> </body> </html> </notes> <label text="CDC42"/> <bbox w="80.0" h="40.0" x="6401.0" y="3044.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1839_in_sa1839" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IL2RB"/> <bbox w="80.0" h="50.0" x="23625.0" y="3495.0"/> <glyph class="state variable" id="_c53fc455-c7ba-40af-8fd6-bc8b6abf9f66"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23620.0" y="3515.0"/> </glyph> <glyph class="unit of information" id="_936c1e82-60ce-4cc5-851b-61786466beaf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23642.5" y="3490.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1124_ce_sa1124" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1124_ce_sa1124"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2D"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2C"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2D"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="INK4*"/> <bbox w="70.0" h="25.0" x="15106.769" y="9232.875"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa92_mpk1_mpk1_csa92" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MAP3K2_3*:RIPK1:TNFRSF1A:TRADD:TRAF2</p> </body> </html> </notes> <label text="MAP3K2_3*:RIPK1:TNFRSF1A:TRADD:TRAF2"/> <bbox w="292.0" h="86.0" x="10288.057" y="19760.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa504_mpk1_mpk1_sa504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNF receptor-associated factor 2</p> <p>HUGO:TRAF2 HGNC:12032 ENTREZ:7186 UNIPROT:Q12933</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2. TRAF2 directly interacts with TNFR2. ERN1 activation is likely to trigger binding and activation of TRAF2.</p> </body> </html> </notes> <label text="TRAF2"/> <bbox w="50.0" h="25.0" x="10339.441" y="19794.615"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa539_mpk1_mpk1_sa539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase kinase 2</p> <p>MEKK2</p> <p>HUGO:MAP3K2 HGNC:6854 ENTREZ:10746 UNIPROT:Q9Y2U5 </p> <p>mitogen-activated protein kinase kinase kinase 3</p> <p>MEKK3</p> <p>HUGO:MAP3K3 HGNC:6855 ENTREZ:4215 UNIPROT:Q99759</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways</p> </body> </html> </notes> <label text="MAP3K2_3*"/> <bbox w="102.0" h="26.0" x="10441.444" y="19794.23"/> <glyph class="state variable" id="_c7989ea5-b5c1-4bd4-8500-55ad80a3170b"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10433.944" y="19802.23"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa571_mpk1_mpk1_sa571"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1A</p> <p>TNFR1</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="10331.605" y="19771.908"/> <glyph class="unit of information" id="_c3f12013-319a-4e2f-af1d-9802602acf6b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10344.105" y="19766.908"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa505_mpk1_mpk1_sa505"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor (TNFRSF)-interacting serine-threonine kinase 1</p> <p>HUGO:RIPK1 HGNC:10019 ENTREZ:8737 UNIPROT:Q13546</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TNF treatment is thought to result in the formation of a TRADD-RIP-TRAF2 complex at the membrane.</p> </body> </html> </notes> <label text="RIPK1"/> <bbox w="50.0" h="25.0" x="10389.441" y="19794.615"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa506_mpk1_mpk1_sa506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="61.0" h="24.0" x="10401.441" y="19768.615"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa818_rc_sa818" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:16108 KEGGCOMPOUND:C00111 CAS:57-04-5</p> <p>References:</p> <p>synonym:glycerone phosphate</p> <p>Dihydroxyacetone phosphate lies in the glycolysis metabolic pathway, and is one of the two products of breakdown of fructose 1,6-bisphosphate, along with glyceraldehyde 3-phosphate.</p> </body> </html> </notes> <label text="dihydroxyacetone-P"/> <bbox w="145.0" h="33.0" x="18816.56" y="10182.75"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa30_gf1_sa30" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:23123598</p> <p> PDGF stimulation of CAFs induces production of the prototypical pro-angiogenic inducer fibroblast growth factor (FGF)-2 in both cervical carcinomas and melanoma [11] and [85].</p> <p>Interestingly, CAFs activated by PDGF-CC in melanomas also secrete the extracellular matrix protein osteopontin, the action of which is known to synergistically stimulate angiogenesis together with FGF-2 and promote autocrine VEGF-A signaling in endothelial cells</p> <p>PMID:15207817; PMID:19118022 </p> <p>PDGF receptors-mediators of autocrine tumor growth and regulators of tumor vasculature and stroma.</p> <p>Tumor fibroblasts a recruted by PDGF</p> <p> PMID:24703957</p> <p>PDGFs are encoded by four different genes: PDGF-A, -B, -C and -D, which are related to VEGF and belong to the ???cystine knots??? protein superfamily</p> <p> The two PDGF receptors, namely PDGFR?? and ??, are receptor tyrosine kinases (RTK) belonging to the so-called type III family, which also includes c-KIT, c-FMS and FLT3 (the receptors of stem cell factor, CSF1 and FLT3-ligand, respectively). They are more distantly related to the receptors of VEGF and fibroblast growth factors (FGF).</p> <p>PDGF ligands and receptors are proto-oncogenes that can be activated by various types of genetic alterations in cancer cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa30_gf1_sa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23123598"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15207817"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19118022"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24703957"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGF*"/> <bbox w="80.0" h="40.0" x="7946.56" y="17629.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1040_ca_sa1040" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:TGFBPMID:22158103 Postn expression in fibroblast is activated by TGFB signaling, probably via SMAD. Infiltrating tumour cells need to induce stromal POSTN expression in the secondary target organ (in this case lung) to initiate colonization. POSTN is required to allow cancer stem cell maintenance, and blocking its function prevents metastasis. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:MATRIX_REGULATION MODULE:CAF References:CASCADE:TGFBPMID:22158103 Postn expression in fibroblast is activated by TGFB signaling, probably via SMAD. Infiltrating tumour cells need to induce stromal POSTN expression in the secondary target organ (in this case lung) to initiate colonization. POSTN is required to allow cancer stem cell maintenance, and blocking its function prevents metastasis. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1040_ca_sa1040"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:POSTN"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22158103"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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cluster 1 H3 family member f </p> <p> </p> <p>histone cluster 1 H3 family member g</p> <p>histone cluster 1 H3 family member h </p> <p> </p> <p>histone cluster 1 H3 family member i </p> <p>histone cluster 1 H3 family member j</p> <p>histone cluster 1 H3 pseudogene 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa139_mo_sa139"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST1H3A "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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rdf:resource="urn:miriam:hgnc.symbol:HIST1H3J "/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HIST1H3PS1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Histone H3*"/> <bbox w="122.0" h="52.0" x="2787.053" y="10974.772"/> <glyph class="state variable" id="_3a44770b-8570-42ac-a0c5-e9fa12162be3"> <state value="Me" variable="K9"/> <bbox w="30.0" h="10.0" x="2808.0354" y="10969.772"/> </glyph> <glyph class="state variable" id="_29e78919-126b-4d0a-9278-605a91724f57"> <state value="" variable="K9"/> <bbox w="20.0" h="10.0" x="2863.9006" y="10969.772"/> </glyph> <glyph class="state variable" id="_cf9868d8-ffd5-460b-9275-ff7b80a20362"> <state value="Me" variable="K9"/> <bbox w="30.0" h="10.0" x="2833.1016" y="10969.772"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa4962_rc_sa4962" compartmentRef="s_id_rc_ca43_mo_ca3"> <label text="rc_s572"/> <bbox w="30.0" h="30.0" x="28924.06" y="14314.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa227_emtc_em_csa227" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PKN1:RhoA_B*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8571126</p> <p>PKN1 and RHPN1 as targets of small GTPase Rho.</p> <p>PMID:8662891</p> <p>RTKN is a new putative target for Rho bearing homology to PKN1, and RHPN proteins in the rho-binding domain.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa227_emtc_em_csa227"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8571126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8662891"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RhoA_B*/PKN1"/> <bbox w="119.0" h="48.0" x="5816.0" y="14869.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1466_emtc_em_sa1466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase N1</p> <p>HUGO:PKN1, HGNC:9405, ENTREZ:5585, GENECARDS:GC19P014544, UNIPROT:Q16512 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8571126</p> <p>PKN1 and RHPN1 as targets of small GTPase Rho.</p> <p>PMID:8662891</p> <p>RTKN is a new putative target for Rho bearing homology to PKN1, and RHPN proteins in the rho-binding domain.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="PKN1"/> <bbox w="40.0" h="17.0" x="5891.0" y="14884.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1465_emtc_em_sa1465"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RhoA_B*</p> <p>ras homolog family member B</p> <p>HUGO:RHOB, HGNC:668, ENTREZ:388, GENECARDS:GC02P020568, UNIPROT:P62745</p> <p>ras homolog family member A</p> <p>HUGO:RHOA, HGNC:667, ENTREZ:387, GENECARDS:GC03M049371, UNIPROT:P61586</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RhoA_B*"/> <bbox w="60.0" h="20.0" x="5825.0" y="14875.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4262_rc_sa4262" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4262_rc_sa4262"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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</extension> <label text="CSE1L"/> <bbox w="80.0" h="40.0" x="18844.06" y="18453.0"/> </glyph> <glyph class="complex" id="s_id_in_csa155_in_csa155" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MIR17:STAT3"/> <bbox w="100.0" h="120.0" x="10110.0" y="4055.0"/> <glyph class="nucleic acid feature" id="s_id_in_sa1040_in_sa1040"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="STAT3"/> <bbox w="90.0" h="25.0" x="10115.0" y="4112.5"/> <glyph class="unit of information" id="_83c549bd-45ad-477c-94fb-ef835ea4c870"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="10150.0" y="4107.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1039_in_sa1039"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MIR17"/> <bbox w="90.0" h="25.0" x="10115.0" y="4082.5"/> <glyph class="unit of information" id="_f1c460bc-2dcd-4fb6-8a01-60a952e0b5ce"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="10145.0" y="4077.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa953_emtc_em_sa953" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa953_emtc_em_sa953"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HDAC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HDAC1"/> <bbox w="50.0" h="16.0" x="3366.0" y="16020.0"/> </glyph> <glyph class="phenotype" id="s_id_mpk1_mpk1_sa667_mpk1_mpk1_sa667" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Growth Arrest</p> </body> </html> </notes> <label text="Growth arrest"/> <bbox w="80.0" h="30.0" x="10175.061" y="20977.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2062_rc_sa2062" compartmentRef="s_id_rc_ca5_rc_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2726_rc_sa2726"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-CO2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MT-CO2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MT-CO2"/> <bbox w="90.0" h="25.0" x="20614.06" y="15076.5"/> <glyph class="unit of information" id="_4026ed6c-d76d-4d45-a44d-4b705d71e7c9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20649.06" y="15071.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa2705_in_sa2705" compartmentRef="s_id_in_ca12_in_ca12"> <label text="trVEGFR1*"/> <bbox w="90.0" h="25.0" x="9745.0" y="6197.5"/> <glyph class="unit of information" id="_a07fa8ff-c5ae-4601-a83a-dbf95791ad45"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="9780.0" y="6192.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1366_in_sa1366" compartmentRef="s_id_in_ca12_in_ca12"> <label text="INHBA"/> <bbox w="80.0" h="40.0" x="11850.0" y="5688.75"/> </glyph> <glyph class="complex" id="s_id_ad_csa47_ad_csa47" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_s868"/> <bbox w="105.0" h="140.0" x="30043.5" y="7785.0"/> <glyph class="macromolecule" id="s_id_ad_sa523_ad_sa523"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:WAS</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:11520460</p> <p>Cdc42 and WASP are critical regulators of actin polymerization whose function during T cell signaling is poorly understood.</p> <p>WASP also localized to the T cell:APC contact site in an antigen-dependent manner. Surprisingly, WASP localization was independent of the Cdc42 binding domain but required the proline-rich domain.</p> <p>PMID:14707117 </p> </body> </html> </notes> <label text="WASP*"/> <bbox w="80.0" h="40.0" x="30053.5" y="7845.0"/> <glyph class="state variable" id="_33ff6fab-544d-48f7-b39e-25133ac7dad3"> <state value="P" variable="Tyr291"/> <bbox w="45.0" h="10.0" x="30031.0" y="7840.3296"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa524_ad_sa524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TRIP10</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:17785506</p> <p>Cdc42-interacting protein-4 (CIP4) - TRIP10 is able to associate with Wiskott-Aldrich syndrome protein (WASp) and the actin filament-rich IS.</p> <p>WASP is needful for TRIP10 activation. CIP4 in NK provides cell cytotoxicity and MTOC polarization but not F-actin accumulation.</p> <p>TRIP10 (CIP4) functions downstream of Cdc42 to induce MTOC polarization to the IS and cytotoxicity.</p> <p>PMID:10713100</p> <p>Cdc42-interacting protein 4 mediates binding of the Wiskott-Aldrich syndrome protein to microtubules. (COS7 model)</p> <p>PMID:15541654 </p> </body> </html> </notes> <label text="TRIP10"/> <bbox w="80.0" h="40.0" x="30056.0" y="7795.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa171_te_sa171" compartmentRef="s_id_te_ca3_te_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RuvB-like AAA ATPase 2</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa171_te_sa171"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RUVBL2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Reptin*"/> <bbox w="92.0" h="52.0" x="5302.06" y="21604.0"/> <glyph class="unit of information" id="_243ac38a-e3dd-4928-b9d1-759694ee4ce3"> <label text="N:3"/> <bbox w="20.0" h="10.0" x="5338.06" y="21599.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa461_ca_sa461" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa461_ca_sa461"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK8"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DSN1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK9"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAPK10"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="JNK*"/> <bbox w="80.0" h="40.0" x="5080.0" y="3191.0"/> <glyph class="state variable" id="_7cd07fc4-ea02-4b03-94db-a42a06021ca3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5075.0" y="3206.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa118_ce_csa118" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E2F4_5*:p107*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="E2F4,5*/p107*"/> <bbox w="90.0" h="110.0" x="11952.473" y="9509.356"/> <glyph class="macromolecule" id="s_id_ce_sa785_ce_sa785"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E2F transcription factor 4, p107/p130-binding</p> <p>HUGO:E2F4, HGNC:3118, ENTREZ:1874, UNIPROT:Q16254</p> <p>E2F transcription factor 5, p130-binding</p> <p>HUGO:E2F5, HGNC:3119, ENTREZ:1875, UNIPROT:Q15329</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E2F4_5*"/> <bbox w="80.0" h="40.0" x="11957.473" y="9513.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa786_ce_sa786"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma-like 1 (p107)</p> <p>HUGO:RBL1, HGNC:9893, ENTREZ:5933, UNIPROT:P28749</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="p107*"/> <bbox w="80.0" h="40.0" x="11956.473" y="9552.856"/> <glyph class="state variable" id="_596564d2-cb9b-4e69-b7f0-9b1810b0138e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12031.473" y="9564.2705"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1179_in_sa1179" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="S100A8"/> <bbox w="90.0" h="25.0" x="13165.0" y="2192.5"/> <glyph class="unit of information" id="_fbbfbae4-49ef-4888-9b2b-da4b54c217f7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="13200.0" y="2187.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa351_wnc1_wnc1_sa351" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa351_wnc1_wnc1_sa351"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRICKLE1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16566.31" y="18841.0"/> <glyph class="state variable" id="_e251adb2-e741-40c0-aecd-8abcb388bb77"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16641.31" y="18836.0"/> </glyph> <glyph class="state variable" id="_f04725b5-7194-4e7a-a259-d38dfaa407a4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16561.314" y="18836.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa311_akt1_akt1_sa311" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa311_akt1_akt1_sa311"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK4"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDK6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="13115.061" y="18504.402"/> </glyph> <glyph class="complex" id="s_id_in_csa179_in_csa179" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s1007"/> <bbox w="100.0" h="120.0" x="13110.0" y="1945.0"/> <glyph class="macromolecule" id="s_id_in_sa1191_in_sa1191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="S100A8"/> <bbox w="80.0" h="40.0" x="13120.0" y="2005.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1192_in_sa1192"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="S100A9"/> <bbox w="80.0" h="40.0" x="13120.0" y="1955.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa53_te_csa53" compartmentRef="s_id_te_ca3_te_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HSP90*/PTGES3/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa53_te_csa53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10197982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90*/PTGES3/TERT"/> <bbox w="228.0" h="143.0" x="5191.56" y="21690.5"/> <glyph class="macromolecule multimer" id="s_id_te_sa368_te_sa368"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="5298.56" y="21707.5"/> <glyph class="unit of information" id="_4ef73a8f-1c0d-4499-943b-a97c430d5464"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="5331.56" y="21702.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa369_te_sa369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <bbox w="80.0" h="40.0" x="5261.56" y="21760.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa367_te_sa367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="5201.56" y="21710.5"/> <glyph class="state variable" id="_1ea77c5d-b4c9-4e94-9676-0e5f90a73f2d"> <state value="P" variable="S227"/> <bbox w="35.0" h="10.0" x="5221.689" y="21705.5"/> </glyph> <glyph class="state variable" id="_57daa05a-b81e-49d2-abaa-2d1ad14ea7de"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5196.56" y="21725.469"/> </glyph> <glyph class="state variable" id="_0f518711-21dc-4aa6-9b56-0e79393e43c4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5234.061" y="21745.5"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa950_ca_sa950" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa950_ca_sa950"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGF*"/> <bbox w="90.0" h="25.0" x="4195.0" y="4673.5"/> <glyph class="unit of information" id="_f9c79593-c3c8-41a5-a9a2-827335cdad7a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="4230.0" y="4668.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa48_ca_csa48" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:PDPK1:PIP3*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>CASCADE:PDGF</p> </body> </html> </notes> <label text="ca_s1115"/> <bbox w="100.0" h="120.0" x="4000.0" y="2620.0"/> <glyph class="simple chemical" id="s_id_ca_sa442_ca_sa442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:NK</p> <p>PMID:12040186</p> <p>The activated PI3K converts the plasma membrane lipid phosphatidylinositol-4,5-bisphosphate [PI(4,5)P2] to phosphatidylinositol-3,4,5-trisphosphate [PI(3,4,5)P3].</p> <p>PMID:9438848</p> <p>PI3K product phosphatidylinositol-3,4,5-trisphosphate enhanced phosphorylation and activation of Vav proteins</p> <p>PMID:12393695 </p> <p>SHIP1 inhinits NK cells activation via bloking of PI3K pathway. It hydrolyzes the 5′-phosphate of PI3,4,5P3l eading to its conversion to PI3,4P2.</p> <p>PMID:20363967, PMID:16204085</p> </body> </html> </notes> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="4015.0" y="2687.5"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa441_ca_sa441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase kinase 1</p> <p>HUGO:PDK1 hgnc_id:HGNC:8809 HGNC:8809 ENTREZ:5163 UNIPROT:Q15118</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>CASCADE:PDGF</p> <p>PMID:11687500</p> <p>Binding to second messenger lipids allows PDK1 and AKT (PKB) to interact with each other, resulting in the phosphorylation and consequent activation of AKT (PKB).</p> <p>PMID:11747822</p> <p>Akt but not SGK promotes cell motility downstream of the PI3-K-PDK1 pathway.</p> </body> </html> </notes> <label text="PDPK1"/> <bbox w="80.0" h="40.0" x="4010.0" y="2630.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1187_ad_sa1187" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:22573807</p> <p>The cytoskeletal adaptor protein IQGAP1 regulates TCR-mediated signaling and filamentous actin dynamics.</p> <p>IQGAP1 deficiency increases cytokine (IL2, IFNG) gene expression and</p> <p>signaling</p> <p>IQGAP1-suppresssed Jurkat T cells showed increased F-actin after</p> <p>TCR ligation, so IQGAP1 negatively regulates</p> <p>F-actin accumulation at the IS.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa313_mo_sa313"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP9"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP9"/> <bbox w="80.0" h="40.0" x="4662.0" y="12289.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2581_in_sa2581" compartmentRef="s_id_in_ca12_in_ca12"> <label text="GSK3β*"/> <bbox w="80.0" h="40.0" x="17820.0" y="4060.0"/> <glyph 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<glyph class="phenotype" id="s_id_ce_sa161_ce_sa161" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE</p> </body> </html> </notes> <label text="M phase"/> <bbox w="135.0" h="25.0" x="12143.27" y="13627.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca4_csa7_wca1_wca4_csa7" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR374A:WIF1</p> <p>References:</p> <p>s_wca4_re11:(MAP:survival) PMID:23321667</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>HUGO:CD58</p> <p>PMID:26794910</p> <p>CD48:CD2 interactions promote immune synapse organization, adhesion, and TCR signaling</p> <p>CD48:CD244 interactions control NK and CTL activation and cytolytic function</p> </body> </html> </notes> <label text="CD58"/> <bbox w="80.0" h="50.0" x="29296.0" y="2675.0"/> <glyph class="unit of information" id="_2b8b5d72-acab-4f01-83ac-45e81ddbd70d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="29313.5" y="2670.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa624_ad_sa624"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC, MODULE:ACTIVATING_CHECKPOINTS</p> <p>HUGO:CD2</p> <p>PMID:23886063 </p> <p>For a successful T cell activation the TcR signal alone is insufficient, a second, co-stimulatory signaling is also necessary The immunological synapse (A.Kupfer and M. Dustin) is the attachment surface between the T cell and the APC; a Supramolecular Activation Complex (SMAC) consisting of a central (c) region containing the TcR complex, CD4 CD8, CD28 peripheral (p) region containing adhesion molecules e.g. LFA-1 and many cytoskeletal link</p> <p>er proteins (such as talin) . 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<rdf:Description rdf:about="#s_id_shh1_shh2_sa253_shh1_shh2_sa253"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR17"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR17"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR17-3P*"/> <bbox w="90.0" h="25.0" x="26997.06" y="21962.5"/> <glyph class="unit of information" id="_2b72cedd-1828-4158-8356-7c486551a7b8"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27027.06" y="21957.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_akt1_akt1_sa15_akt1_akt1_sa15" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <label text="RAS activation"/> <bbox w="93.0" h="37.0" x="11870.061" y="17645.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa318_emtc_em_csa318" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FZD*:LRP5_6*:WNT*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Class I: WNT-1,3a,7,8a,8b activates canonical </p> <p>PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa318_emtc_em_csa318"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14747478"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15265686"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8655584"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22017973"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17127310"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Frizzled/WNT/LRP)"/> <bbox w="154.0" h="96.0" x="1363.0" y="18462.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2224_emtc_em_sa2224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197</p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:075581</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> <p>PMID:19072724</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="63.0" h="49.0" x="1451.5" y="18487.25"/> <glyph class="unit of information" id="_eeee5c00-dcac-4ca8-9c80-5eb4ca97f4b5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1460.5" y="18482.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2223_emtc_em_sa2223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628</p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544</p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097</p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703</p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704</p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705</p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221</p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7</p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9</p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755</p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706</p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5</p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098</p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904</p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905</p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5</p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744</p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014</p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC/16267 ENTREZ:51384 UNIPROT:Q9UBV4</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 </p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Class I: WNT-1,3a,7,8a,8b activates canonical </p> <p>PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="1425.5" y="18465.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2225_emtc_em_sa2225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38</p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332</p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1</p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1</p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467</p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353</p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084</p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461</p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144</p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="1368.0" y="18485.75"/> <glyph class="unit of information" id="_20dcaafa-15a0-4c43-a55a-8973b69474b6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1385.5" y="18480.75"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa248_rc_csa248" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Caspase7_cl_uncl*:NAIP</p> </body> </html> </notes> <label text="CASP7:NAIP"/> <bbox w="99.0" h="118.0" x="25279.06" y="13499.0"/> <glyph class="macromolecule" id="s_id_rc_sa1859_rc_sa1859"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NLR family, apoptosis inhibitory protein</p> <p>HUGO:NAIP HGNC:7634 ENTREZ:4671 UNIPROT:Q13075</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:23940371</p> <p>humans express different isoforms from a single NAIP</p> <p>gene that detect flagellin and T3SS components, respectively</p> </body> </html> </notes> <label text="NAIP"/> <bbox w="80.0" h="40.0" x="25289.06" y="13552.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1867_rc_sa1867"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>caspase 7, apoptosis-related cysteine peptidase</p> <p>HUGO:CASP7 HGNC:1508 ENTREZ:840 UNIPROT:P55210</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS</p> <p>References:</p> <p>Generic entity</p> <p>NOTE: include cleaved and non-cleaved form</p> </body> </html> </notes> <label text="Caspase7_cl_uncl*"/> <bbox w="80.0" h="40.0" x="25289.06" y="13508.0"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_rc_sa1939_rc_sa1939" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <label text="rc_s3309"/> <bbox w="30.0" h="30.0" x="25444.06" y="12654.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa706_mpk1_mpk1_sa706" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa706_mpk1_mpk1_sa706"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:STAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> 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</annotation> </extension> <label text="MHC_class_II*"/> <bbox w="80.0" h="40.0" x="22143.125" y="6757.5"/> <glyph class="state variable" id="_b46e0e02-bc32-40e2-a203-758219b356d5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22138.125" y="6772.5"/> </glyph> <glyph class="unit of information" id="_db421ad9-4fb2-415c-9aad-d5becaba8d08"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22160.625" y="6752.5"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_emtc_em_sa687_emtc_em_sa687" compartmentRef="s_id_emtc_em_ca36_emtc_em_ca36"> <label text="Degradation of PALS1"/> <bbox w="30.0" h="30.0" x="4136.0" y="13708.5"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa16_wnc1_wnc3_csa16" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AP-1_ARRE binding sites*:FOS:JUN:NFAT*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:11402342</p> <p>s_wnc3_re31(MAP:survival):</p> <p>Phosphorylation of NFAT leads to increased DNA binding of NFAT -> increased gene transcription</p> <p>PMID15657416</p> <p>Not sure if dissociation of calcineurin and ERK/MEK occurs</p> <p>s_wnc3_re27(MAP:survival):</p> <p>NFAT1 together with JUN/FOS=AP-1 activates the promoter of GPC6</p> <p>PMID:21871017</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa16_wnc1_wnc3_csa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11402342"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21871017"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(NFAT/AP-1)"/> <clone/> <bbox w="187.0" h="139.0" x="16136.061" y="20987.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa103_wnc1_wnc3_sa103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> <p>PMID:11274345</p> <p>cJun, JunB and JunD bind to AP-1 regulatory elements</p> </body> </html> </notes> <label text="JUN"/> <clone/> <bbox w="80.0" h="40.0" x="16144.061" y="21062.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa104_wnc1_wnc3_sa104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FBJ murine osteosarcoma viral oncogene homolog</p> <p>"v-fos FBJ murine osteosarcoma viral oncogene homolog"</p> <p>HUGO:FOS HGNC:3796 ENTREZ:2353 UNIPROT:P01100 GENECARDS:FOS REACTOME:54964 KEGG:2353 ATLASONC:GC_FOS WIKI:FOS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>c-FOS is activated by ERK and RSK through phosphorylation.</p> <p>PMID:16393692</p> <p>cFos, FosB, Fra1 and Fra2 bind to AP-1 regulatory elements</p> </body> </html> </notes> <label text="FOS"/> <clone/> <bbox w="80.0" h="40.0" x="16231.061" y="21062.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa106_wnc1_wnc3_sa106"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <clone/> <bbox w="80.0" h="40.0" x="16188.561" y="20995.5"/> <glyph class="state variable" id="_07a4dd49-7fdd-4077-9283-6f2d9a93908f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16263.561" y="21010.5"/> </glyph> <glyph class="state variable" id="_f819db85-4731-453a-8501-8ea4d5cfe5e0"> <state 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factorReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factorReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factor </body> </html> </notes> <label text="AP-1_ARRE binding sites*"/> <clone/> <bbox w="167.0" h="22.0" x="16145.061" y="21038.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa16_wnc1_wnc3_csa1" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AP-1_ARRE binding sites*:FOS:JUN:NFAT*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:11402342</p> <p>s_wnc3_re31(MAP:survival):</p> <p>Phosphorylation of NFAT leads to increased DNA binding of NFAT -> increased gene transcription</p> <p>PMID15657416</p> <p>Not sure if dissociation of calcineurin and ERK/MEK occurs</p> <p>s_wnc3_re27(MAP:survival):</p> <p>NFAT1 together with JUN/FOS=AP-1 activates the promoter of GPC6</p> <p>PMID:21871017</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc3_csa16_wnc1_wnc3_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11402342"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21871017"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(NFAT/AP-1)"/> <clone/> <bbox w="187.0" h="139.0" x="15375.061" y="20928.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa103_wnc1_wnc3_sa12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Jun</p> <p>HUGO:JUN HGNC:6204 ENTREZ:3725 UNIPROT:P05412 GENECARDS:JUN REACTOME:50080 KEGG:3725 ATLASONC:JUNID151 WIKI:JUN </p> <p>jun proto-oncogene</p> <p>"jun oncogene" "v-jun avian sarcoma virus 17 oncogene homolog" "v-jun sarcoma virus 17 oncogene homolog (avian)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17439715</p> <p>PMID:8545107</p> <p>Jun proto-oncogene</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> <p>PMID:11274345</p> <p>cJun, JunB and JunD bind to AP-1 regulatory elements</p> </body> </html> </notes> <label text="JUN"/> <clone/> <bbox w="80.0" h="40.0" x="15383.061" y="21003.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa105_wnc1_wnc3_sa14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factorReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factorReferences:This is not a gene but used to indicate binding DNA sequence for AP-1 transcription factor </body> </html> </notes> <label text="AP-1_ARRE binding sites*"/> <clone/> <bbox w="167.0" h="22.0" x="15384.061" y="20978.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa104_wnc1_wnc3_sa13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>FBJ murine osteosarcoma viral oncogene homolog</p> <p>"v-fos FBJ murine osteosarcoma viral oncogene homolog"</p> <p>HUGO:FOS HGNC:3796 ENTREZ:2353 UNIPROT:P01100 GENECARDS:FOS REACTOME:54964 KEGG:2353 ATLASONC:GC_FOS WIKI:FOS</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>c-FOS is activated by ERK and RSK through phosphorylation.</p> <p>PMID:16393692</p> <p>cFos, FosB, Fra1 and Fra2 bind to AP-1 regulatory elements</p> </body> </html> </notes> <label text="FOS"/> <clone/> <bbox w="80.0" h="40.0" x="15470.061" y="21003.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa106_wnc1_wnc3_sa15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <clone/> <bbox w="80.0" h="40.0" x="15427.561" y="20936.0"/> <glyph class="state variable" id="_7ba20bc0-eacb-49d0-91f9-b22f23b49226"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15502.561" y="20951.0"/> </glyph> <glyph class="state variable" id="_ed752b63-6750-4723-83d2-47fd2d6f3aac"> <state 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variable="S289"/> <bbox w="30.0" h="10.0" x="15426.217" y="20971.0"/> </glyph> <glyph class="state variable" id="_6b790629-99d0-4bd4-9524-7856305b5010"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="15446.417" y="20971.0"/> </glyph> <glyph class="state variable" id="_125c30ca-efd4-4f08-a15e-84b710e04a7c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15462.561" y="20971.0"/> </glyph> <glyph class="state variable" id="_f76e047c-07c1-401f-aeaa-7a95a6393724"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15445.992" y="20971.0"/> </glyph> <glyph class="state variable" id="_36df5118-119b-4524-beb9-3e588832583f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15422.564" y="20971.0"/> </glyph> <glyph class="state variable" id="_ada8722e-a72d-4842-8fc3-9e2194ba8ee5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15422.561" y="20951.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1995_in_sa1995" compartmentRef="s_id_in_ca12_in_ca12"> <label text="NFKB1_p105*"/> <bbox w="130.0" h="80.0" x="19920.0" y="3180.0"/> <glyph class="state variable" id="_59d15bf6-a309-48b0-80b3-3902fde5c7af"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="19915.0" y="3215.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa290_emtc_em_csa290" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MDM2:p53*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:15140942</p> <p>Phosphorylations on p53 prevent its binding to MDM2.</p> <p>PMID:15574337</p> <p>S186 phosphorylation of MDM2 by AKT favors the binding of MDM2 to p53 and its following degradation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa290_emtc_em_csa290"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140942"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15574337"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2/p53*"/> <bbox w="80.0" h="97.0" x="4675.5" y="14176.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1936_emtc_em_sa1936"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mdm2 p53 binding protein homolog (mouse)</p> <p>HUGO:MDM2, HGNC:6973, ENTREZ:4193, UNIPROT:Q00987</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE</p> <p>References:</p> <p>MDM2 = ubiquitin-ligase, regulates p53 stability: induce its degradation via the proteasome.</p> <p>PMID:15024084</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MDM2"/> <bbox w="50.0" h="48.0" x="4692.5" y="14201.0"/> <glyph class="state variable" id="_49912ac5-2424-4510-890c-3974dfa17805"> <state value="P" variable="S186"/> <bbox w="35.0" h="10.0" x="4675.0" y="14240.982"/> </glyph> <glyph class="state variable" id="_4f9ee4c2-f888-46ab-936d-007dabd92c47"> <state value="" variable="S395"/> <bbox w="30.0" h="10.0" x="4677.5" y="14198.883"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1937_emtc_em_sa1937"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein p53 </p> <p>HUGO:TP53, HGNC:11998, ENTREZ:7157, UNIPROT:P04637, GENECARDS:GC17M007565</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:SENESCENCE, MODULE:MITOCHONDRIA_OXIDATIVE_STRESS, MODULE:SENESCENCE</p> <p>References:</p> <p>PMID:21518799</p> <p>p53 activates MIR200C</p> <p>PMID:21483453</p> <p>p53 activates microRNAs</p> <p>PMID:21336307</p> <p>p53 activates MIR34</p> <p>PMID:17823410</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="p53*"/> <bbox w="39.0" h="19.0" x="4701.0" y="14179.0"/> <glyph class="state variable" id="_2b527446-a8dd-45a8-b623-1a0cca279dae"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4735.0" y="14179.565"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa517_rc_sa517" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa517_rc_sa517"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TSC2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TSC2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TSC2"/> <bbox w="90.0" h="25.0" x="20689.06" y="16010.75"/> <glyph class="unit of information" id="_e2de0529-b293-4ec1-9ac1-6c0bc6e10ce4"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20724.06" y="16005.75"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2688_in_sa2688" compartmentRef="s_id_in_ca12_in_ca12"> <label text="IFNA*"/> <bbox w="80.0" h="40.0" x="21746.25" y="5395.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa58_wnc1_wnc1_csa58" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DACT1:YWHAB</p> <p>References:</p> <p>s_wnc1_re94:(MAP:survival) PMID:21262972</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa58_wnc1_wnc1_csa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21262972"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DACT1:YWHAB"/> <bbox w="100.0" h="120.0" x="16236.061" y="18791.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa468_wnc1_wnc1_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dapper antagonist of beta-catenin homolog 1 (Xenopus laevis)</p> <p>"dapper homolog 1 antagonist of beta-catenin (xenopus)"</p> <p>HUGO:DACT1 HGNC:17748 ENTREZ:51339 UNIPROT:Q9NYF0 GENECARDS:DACT1 KEGG:51339 ATLASONC:GC_DACT1 WIKI:DACT1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="DACT1"/> <bbox w="80.0" h="40.0" x="16247.561" y="18843.0"/> <glyph class="state variable" id="_de697576-d054-497e-b22d-cf0f31d4ba0b"> <state value="P" variable="S237"/> <bbox w="35.0" h="10.0" x="16230.553" y="18838.0"/> </glyph> <glyph class="state variable" id="_482f9f37-d29e-46c9-b94d-a7626f5f2b3d"> <state value="P" variable="S827"/> <bbox w="35.0" h="10.0" x="16309.442" y="18878.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa736_wnc1_wnc1_sa736"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>"tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, alpha polypeptide", YWHAA</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:CASPASES, MAP:survival / MODULE:WNT_NON_CANONICAL</p> </body> </html> </notes> <label text="YWHAB"/> <bbox w="80.0" h="40.0" x="16249.561" y="18800.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc2_csa23_wnc1_wnc2_csa23" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Ca2+:Calmodulin*:KPNB1:NFAT*:PPP3CB:PPP3R*:Tubulin-_alpha_*</p> <p>References:</p> <p>s_wnc2_re43:(MAP:survival) PMID:19136967</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_csa23_wnc1_wnc2_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Calcineurin/Calmodulin/Ca2+_BR_KPNB1/Tubulin-α)"/> <bbox w="186.0" h="266.0" x="18622.31" y="19206.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa103_wnc1_wnc2_sa103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="PPP3R*"/> <bbox w="80.0" h="40.0" x="18631.81" y="19256.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa101_wnc1_wnc2_sa101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="18631.81" y="19366.5"/> <glyph class="state variable" id="_39f0307d-69d0-4cf5-bebe-8c3ef1e10913"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18706.81" y="19381.5"/> </glyph> <glyph class="state variable" id="_5b3dd5ae-0491-4292-a7a2-c7574eb07f5b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18706.81" y="19389.785"/> </glyph> <glyph class="state variable" id="_c0a18356-8907-48b0-b384-c4c65995c30d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18706.81" y="19401.5"/> </glyph> <glyph class="state variable" id="_e70adb6b-d2a3-4bc1-b045-d7dc3356503d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18666.81" y="19361.5"/> </glyph> <glyph class="state variable" id="_bf0ecbca-f8cf-4afb-9871-f71f8fa00a1c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18683.379" y="19361.5"/> </glyph> <glyph class="state variable" id="_499b7e2b-dc09-4790-b57c-019a97e304c3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18683.379" y="19401.5"/> </glyph> <glyph class="state variable" id="_f75f4e83-6c0f-4b64-92f9-c6272933c19f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18706.81" y="19361.5"/> </glyph> <glyph class="state variable" id="_21e23d6a-8ec0-418c-9d3c-100866630ec0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18706.81" y="19373.215"/> </glyph> <glyph class="state variable" id="_26169c9f-8b01-4d37-94ab-a9d0f796efde"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18650.242" y="19361.5"/> </glyph> <glyph class="state variable" id="_dce79ff4-343a-4500-9bc8-128ff58cfb4b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.814" y="19361.5"/> </glyph> <glyph class="state variable" id="_fd6dd443-a162-4e82-a358-8d60b256f99d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.814" y="19361.5"/> </glyph> <glyph class="state variable" id="_ccc4a3a6-e9c7-47c6-b7d0-cb4879454323"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.81" y="19373.217"/> </glyph> <glyph class="state variable" id="_e9e4aa47-a643-4b90-ab42-5a2360603327"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.81" y="19389.783"/> </glyph> <glyph class="state variable" id="_931b8a15-74f7-4033-b2c8-b3d75cdce8b9"> <state value="" variable="S289"/> <bbox w="30.0" h="10.0" x="18630.467" y="19401.5"/> </glyph> <glyph class="state variable" id="_10d2cf38-2e5c-4907-b22e-987bc049a0a8"> <state value="" variable="S272"/> <bbox w="30.0" h="10.0" x="18650.668" y="19401.5"/> </glyph> <glyph class="state variable" id="_e1160325-2977-4e84-886d-2da78b12222e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18666.81" y="19401.5"/> </glyph> <glyph class="state variable" id="_5219ed1d-59d7-4869-b6b6-aa55d4bb6ab3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18650.242" y="19401.5"/> </glyph> <glyph class="state variable" id="_cd45a310-cb36-4496-84c5-46e104375658"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.814" y="19401.5"/> </glyph> <glyph class="state variable" id="_3dba3a06-acf4-46e9-bd03-1f15f457b59f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.81" y="19381.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc2_sa105_wnc1_wnc2_sa105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Ca2+"/> <bbox w="25.0" h="25.0" x="18659.56" y="19339.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa104_wnc1_wnc2_sa104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>calmodulin 1 (phosphorylase kinase, delta)</p> <p>CALML2</p> <p>HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 2 (phosphorylase kinase, delta)</p> <p>HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 </p> <p>calmodulin 3 (phosphorylase kinase, delta)</p> <p>HUGO:CALM3 HGNC:1449 ENTREZ:808 UNIPROT:P62158 GENECARDS:CALM3 REACTOME:51306 KEGG:808 ATLASONC:GC_CALM3 WIKI:CALM3 HUGO:CALM1 HGNC:1442 ENTREZ:801 UNIPROT:P62158 GENECARDS:CALM1 REACTOME:51306 KEGG:801 ATLASONC:GC_CALM1 WIKI:CALM1 HUGO:CALM2 HGNC:1445 ENTREZ:805 UNIPROT:P62158 GENECARDS:CALM2 REACTOME:51306 KEGG:805 WIKI:CALM2</p> <p>Map modules:</p> </body> </html> </notes> <label text="Calmodulin*"/> <bbox w="80.0" h="40.0" x="18631.81" y="19298.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa126_wnc1_wnc2_sa126"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tubulin, alpha 1a </p> <p>HUGO:TUBA1A HGNC:20766 ENTREZ:7846 UNIPROT:Q71U36 GENECARDS:TUBA1A REACTOME:191692 KEGG:7846 ATLASONC:GC_TUBA1A WIKI:TUBA1A </p> <p>SwissProt: Q71U36</p> <p>tubulin, alpha 1b</p> <p>HUGO:TUBA1B HGNC:18809 ENTREZ:10376 UNIPROT:P68363 GENECARDS:TUBA1B REACTOME:191693 KEGG:10376 ATLASONC:GC_TUBA1B WIKI:TUBA1B </p> <p>SwissProt: P68363</p> <p>tubulin, alpha 1c</p> <p>HUGO:TUBA1C HGNC:20768 ENTREZ:84790 UNIPROT:Q9BQE3 GENECARDS:TUBA1C REACTOME:65667 KEGG:84790 ATLASONC:GC_TUBA1C WIKI:TUBA1C </p> <p>SwissProt: Q9BQE3</p> <p>tubulin, alpha 3c </p> <p>HUGO:TUBA3C HGNC:12408 ENTREZ:7278 UNIPROT:Q13748 GENECARDS:TUBA3C REACTOME:154750 KEGG:7278 WIKI:TUBA3C </p> <p>SwissProt: Q13748</p> <p>tubulin, alpha 3d </p> <p>HUGO:TUBA3D HGNC:24071 ENTREZ:113457 UNIPROT:Q13748 GENECARDS:TUBA3D REACTOME:154750 KEGG:113457 WIKI:TUBA3D </p> <p>tubulin, alpha 3e </p> <p>HUGO:TUBA3E HGNC:20765 ENTREZ:112714 UNIPROT:Q6PEY2 GENECARDS:TUBA3E WIKI:TUBA3E </p> <p>SwissProt: Q6PEY2</p> <p>tubulin, alpha 4a </p> <p>HUGO:TUBA4A HGNC:12407 ENTREZ:7277 UNIPROT:P68366 GENECARDS:TUBA4A REACTOME:191690 KEGG:7277 ATLASONC:GC_TUBA4A WIKI:TUBA4A </p> <p>SwissProt: P68366</p> <p>tubulin, alpha 8 </p> <p>HUGO:TUBA8 HGNC:12410 ENTREZ:51807 UNIPROT:Q9NY65 GENECARDS:TUBA8 KEGG:51807 WIKI:TUBA8 </p> <p>SwissProt: Q9NY65</p> <p>Map modules:</p> </body> </html> </notes> <label text="Tubulin-α*"/> <bbox w="80.0" h="40.0" x="18716.56" y="19255.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa102_wnc1_wnc2_sa102"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="PPP3CB"/> <bbox w="80.0" h="40.0" x="18631.81" y="19213.0"/> <glyph class="state variable" id="_85037919-7314-4cf6-bc9b-81631df94e06"> <state value="" variable="S197"/> <bbox w="30.0" h="10.0" x="18696.81" y="19208.213"/> </glyph> <glyph class="state variable" id="_97d784d6-7e9c-4a61-831a-6a2badca8e07"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.81" y="19228.0"/> </glyph> <glyph class="state variable" id="_3d9fca53-5ffe-427c-b2a2-8309570e3dc8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.814" y="19248.0"/> </glyph> <glyph class="state variable" id="_8bef6662-6655-4e7a-84b3-feb91cd7828d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="18626.814" y="19208.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa125_wnc1_wnc2_sa125"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>karyopherin (importin) beta 1</p> <p>HUGO:KPNB1 HGNC:6400 ENTREZ:3837 UNIPROT:Q14974 GENECARDS:KPNB1 REACTOME:57343 KEGG:3837 ATLASONC:GC_KPNB1 WIKI:KPNB1</p> <p>Map modules:</p> </body> </html> </notes> <label text="KPNB1"/> <bbox w="80.0" h="40.0" x="18716.56" y="19213.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa79_akt1_akt1_csa79" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CDK4_6*:CyclinD*:p27KIP1*</p> <p>References:</p> <p>s_akt1_re183(MAP:survival):</p> <p>PMID:18414028</p> <p>PMID:9106657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa79_akt1_akt1_csa79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18414028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9106657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDK4_6*:CyclinD*:p27KIP1*"/> <bbox w="102.0" h="161.0" x="12805.561" y="18776.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa491_akt1_akt1_sa491"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase inhibitor 1B (p27 Kip1)</p> <p>HUGO:CDKN1B HGNC:1785 ENTREZ:1027 UNIPROT:P46527 GENECARDS:CDKN1B REACTOME:198633 KEGG:1027 ATLASONC:CDKN1BID116 WIKI:CDKN1B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:cellcycle / MODULE:CYCLINA, MAP:cellcycle / MODULE:CYCLINE, MAP:cellcycle / MODULE:P27KIP, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <label text="p27KIP1*"/> <bbox w="80.0" h="40.0" x="12814.061" y="18871.5"/> <glyph class="state 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 4</p> <p>HUGO:CDK4 HGNC:1773 ENTREZ:1019 UNIPROT:P11802 GENECARDS:CDK4 REACTOME:68329 KEGG:1019 ATLASONC:CDK4ID238ch12q14 WIKI:CDK4 </p> <p>cyclin-dependent kinase 6</p> <p>HUGO:CDK6 HGNC:1777 ENTREZ:1021 UNIPROT:Q00534 GENECARDS:CDK6 REACTOME:68335 KEGG:1021 ATLASONC:GC_CDK6 WIKI:CDK6</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> </body> </html> </notes> <label text="CDK4_6*"/> <bbox w="80.0" h="40.0" x="12811.061" y="18782.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa489_akt1_akt1_sa489"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CX3CL1"/> <bbox w="80.0" h="40.0" x="15072.5" y="1750.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa366_rc_csa366" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:MRE11*:NBS1*:RAD50</p> </body> </html> </notes> <label text="MRN complex"/> <bbox w="100.0" h="156.0" x="18044.06" y="16666.0"/> <glyph class="macromolecule" id="s_id_rc_sa3462_rc_sa3462"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD50 homolog (S. cerevisiae)</p> <p>HUGO:RAD50 HGNC:9816 ENTREZ:10111 UNIPROT:Q92878</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="RAD50"/> <bbox w="80.0" h="40.0" x="18055.201" y="16762.396"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3463_rc_sa3463"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MRE11 meiotic recombination 11 homolog A (S. cerevisiae)</p> <p>HUGO:MRE11A HGNC:7230 ENTREZ:4361 UNIPROT:P49959</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:MRE11</p> </body> </html> </notes> <label text="MRE11*"/> <bbox w="80.0" h="40.0" x="18054.201" y="16719.396"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3464_rc_sa3464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nibrin</p> <p>HUGO:NBN HGNC:7652 ENTREZ:4683 UNIPROT:O60934</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:NBS1</p> </body> </html> </notes> <label text="NBS1*"/> <bbox w="80.0" h="40.0" x="18055.201" y="16675.396"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1067_emtc_em_sa1067" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1067_emtc_em_sa1067"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SRGAP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP14*"/> <bbox w="75.0" h="16.0" x="5920.5" y="14236.0"/> </glyph> <glyph class="phenotype" id="s_id_ce_sa1553_ce_sa1553" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Link to Telomere maintenance map</p> <p>Map modules:</p> <p>MODULE:REGULATORS</p> <p>References:</p> <p>PMID:21818122, PMID:21076181, PMID:21037379</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1553_ce_sa1553"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21818122"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21076181"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21037379"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Telomere maintenance"/> <bbox w="158.0" h="27.0" x="10785.77" y="17285.498"/> </glyph> <glyph class="phenotype" id="s_id_rc_sa4846_rc_sa4846" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:26587781</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4846_rc_sa4846"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26587781"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="hyperoxidation"/> <bbox w="120.0" h="35.0" x="27119.06" y="13541.5"/> </glyph> <glyph class="complex" id="s_id_ca_csa97_ca_csa97" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:RAS*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> </body> </html> </notes> <label text="ca_s4556"/> <bbox w="100.0" h="120.0" x="4830.0" y="2630.0"/> <glyph class="simple chemical" id="s_id_ca_sa856_ca_sa856"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="63.0" h="27.0" x="4858.75" y="2706.875"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa850_ca_sa850"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NRAS proto-oncogene, GTPase</p> <p>HUGO:NRAS hgnc_id:HGNC:7989 HGNC:7989 ENTREZ:4893 UNIPROT:P01111 </p> <p>KRAS proto-oncogene, GTPase</p> <p>HUGO:KRAS hgnc_id:HGNC:6407 HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>HRas proto-oncogene, GTPase</p> <p>HUGO:HRAS hgnc_id:HGNC:5173 HGNC:5173 ENTREZ:3265 UNIPROT:P01112</p> <p>Map modules:</p> <p>MODULE:CORE </p> <p>References:</p> <p>CASCADE:FGF, CASCADE:EGFR</p> <p>GASCADE:IGF1R</p> <p>PMID:12419216</p> <p>FGF activares RAS in fibroblasts</p> <p>PMID:16227978</p> <p>Ras GTPases comprise a large family of mostly membrane-resident proteins that shuttle between an inactive GDP-bound and active GTP-bound conformation105. The best-characterized family members are K-Ras, H-Ras and N-Ras.</p> <p>RasGTP can bind to a number of effector molecules, including the serine/threonine kinase Raf, phosphatidylinositol 3-kinase, RalGDS and others106. RasGTP recruits these proteins to the membrane compartment, which is crucial for their activation and signalling function. All three Raf family members, A-Raf, B-Raf and Raf-1, bind RasGTP as the first step in their activation process. Whereas RasGTP association might suffice to activate B-Raf, both Raf-1 and A-Raf undergo a complex series of activation steps that have not been entirely elucidated and involve changes in phosphorylation levels and protein interactions. For recent reviews on Raf isoforms and their activation mechanisms see Refs 1–3. All Raf isoforms can activate MAPK and ERK kinase (MEK) by phosphorylating two serines in the MEK ACTIVATION LOOP,</p> <p>PMID:10567412; PMID:15567848</p> <p>EGFR activates ERK via GRB2/SOS/RAS/RAF pathway</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="80.0" h="40.0" x="4840.0" y="2650.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4969_rc_sa4969" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4969_rc_sa4969"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRIB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRIB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRIB3"/> <bbox w="70.0" h="25.0" x="27246.326" y="16131.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa26_wca1_wca1_csa26" compartmentRef="s_id_wca1_wca1_ca4_wca1_wca1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:E-Cadherin*:FZD*:GTP:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20940130 PMID:21606194</p> <p>s_wca1_re25:(MAP:survival) PMID:21606194 PMID:19705439</p> <p>s_wca1_re28(MAP:survival):</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. Activation of CK1 epsilon by unknown factor</p> <p>An acidic environment is required for phosphorylation of DVL and LRP5/6</p> <p>s_wca1_re51(MAP:survival):</p> <p>PMID:16547521 </p> <p>In the presence of WNT3a DVL-3 forms complex with KLHL12/CUL3/RBX1-complex</p> <p>s_wca1_re57(MAP:survival):</p> <p>PMID:19718039 PMID:21602792 </p> <p>In presence of WNT ligand</p> <p>s_wca1_re68(MAP:survival):</p> <p>PMID:20093472</p> <p>PRR binds to subunits ATP6V0C and D those are subunits of the V-ATPase.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa26_wca1_wca1_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20940130"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19705439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20006983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16965538"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:210606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547521"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19718039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21602792"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:E-Cadherin*:FZD*:GTP:Gαo*:Gβ*:Gγ*:LRP5_6*:PRR*:WNT*:p120*"/> <bbox w="282.0" h="232.0" x="21526.56" y="17574.5"/> <glyph class="simple chemical" id="s_id_wca1_wca1_sa173_wca1_wca1_sa173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="25.0" h="25.0" x="21579.06" y="17757.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa151_wca1_wca1_sa151"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="21585.06" y="17685.5"/> <glyph class="unit of information" id="_59cc2504-1302-42c0-b4dd-871ac7f44322"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21602.56" y="17680.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa149_wca1_wca1_sa149"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="21606.06" y="17621.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa148_wca1_wca1_sa148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="21717.56" y="17710.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa150_wca1_wca1_sa150"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="21585.06" y="17641.5"/> <glyph class="state variable" id="_3e2e82dc-dfe4-4f6b-a13e-a28c8557279c"> <state value="" variable="T1479"/> <bbox w="35.0" h="10.0" x="21567.56" y="17661.46"/> </glyph> <glyph class="state variable" id="_f4c94a0a-58ae-400e-b5a7-041d9f5dae77"> <state value="" variable="T1493"/> <bbox w="35.0" h="10.0" x="21647.56" y="17636.766"/> </glyph> <glyph class="state variable" id="_57ac2c54-ac0f-40c8-a960-7a01c2936671"> <state value="" variable="S1496"/> <bbox w="35.0" h="10.0" x="21646.941" y="17686.5"/> </glyph> <glyph class="state variable" id="_75509085-6fd4-4880-8509-99789ac6a4fd"> <state value="" variable="T1530"/> <bbox w="35.0" h="10.0" x="21606.664" y="17686.5"/> </glyph> <glyph class="state variable" id="_d6cc257b-831b-44be-869f-383912ffc71b"> <state value="" variable="S1533"/> <bbox w="35.0" h="10.0" x="21567.8" y="17686.5"/> </glyph> <glyph class="state variable" id="_f7d599bf-f3fa-4f2c-9695-22909c0e5d59"> <state value="" variable="S1490"/> <bbox w="35.0" h="10.0" x="21607.592" y="17636.5"/> </glyph> <glyph class="unit of information" id="_d65afa8e-b44b-4549-94e2-e4d1506b28b0"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21602.56" y="17636.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa146_wca1_wca1_sa146"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="21665.56" y="17589.5"/> <glyph class="state variable" id="_c94a7470-7157-487a-9979-08f2a254ba60"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21713.56" y="17584.5"/> </glyph> <glyph class="state variable" id="_fb688e45-6697-407f-942c-a02af2a27454"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="21703.56" y="17585.152"/> </glyph> <glyph class="state variable" id="_2753804a-5b20-496f-a346-73ab6919c6e8"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="21701.629" y="17707.5"/> </glyph> <glyph class="state variable" id="_8bb9f716-db3f-4def-83ee-f86ccfb5d729"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="21651.404" y="17584.5"/> </glyph> <glyph class="state variable" id="_10f922d7-0e0e-4f6a-9255-6d87f07be605"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="21650.719" y="17707.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa169_wca1_wca1_sa169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="21571.06" y="17735.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa170_wca1_wca1_sa170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="21612.56" y="17735.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa147_wca1_wca1_sa147"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="21719.56" y="17670.5"/> <glyph class="state variable" id="_a0e7a6a3-1355-4c1f-8981-380fcf43941d"> <state value="" variable="S268"/> <bbox w="30.0" h="10.0" x="21705.053" y="17665.5"/> </glyph> <glyph class="state variable" id="_0c3e0127-477a-4198-9c71-0c8aff2ccbf9"> <state value="" variable="S269"/> <bbox w="30.0" h="10.0" x="21744.592" y="17665.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa649_wca1_wca1_sa649"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="21529.56" y="17667.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa171_wca1_wca1_sa171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="21654.06" y="17735.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa345_in_sa345" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR34A"/> <bbox w="70.0" h="25.0" x="20967.5" y="520.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa368_rc_csa368" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAZ1B:SMARCA5</p> </body> </html> </notes> <label text="WICH complex"/> <bbox w="100.0" h="120.0" x="17909.56" y="16395.0"/> <glyph class="macromolecule" id="s_id_rc_sa3489_rc_sa3489"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5</p> <p>HUGO:SMARCA5 HGNC:11101 ENTREZ:8467 UNIPROT:O60264</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:SNF2H</p> </body> </html> </notes> <label text="SMARCA5"/> <bbox w="80.0" h="40.0" x="17916.701" y="16453.143"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3488_rc_sa3488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>bromodomain adjacent to zinc finger domain, 1B</p> <p>HUGO:BAZ1B HGNC:961 ENTREZ:9031 UNIPROT:Q9UIG0</p> <p>Map modules:</p> <p>MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>synonym:WSTF</p> </body> </html> </notes> <label text="BAZ1B"/> <bbox w="80.0" h="40.0" x="17917.701" y="16406.143"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5502_rc_sa5502" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C3 toxin*</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="C3 toxin*"/> <bbox w="70.0" h="25.0" x="28854.06" y="9106.5"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa363_mpk1_mpk1_sa363" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa363_mpk1_mpk1_sa363"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="β-Catenin*"/> <bbox w="72.0" h="26.0" x="7707.56" y="20263.0"/> <glyph class="state variable" id="_0ba04e1c-fdce-4d03-a490-2ac677485bf5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="7700.06" y="20271.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa774_in_sa774" compartmentRef="s_id_in_ca12_in_ca12"> <label text="B7H3*"/> <bbox w="80.0" h="40.0" x="9750.0" y="6660.0"/> </glyph> <glyph class="source and sink" id="s_id_rc_sa1334_rc_sa1334" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="rc_s1413"/> <bbox w="30.0" h="30.0" x="21526.56" y="16759.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa533_in_sa533" compartmentRef="s_id_in_ca12_in_ca12"> <label text="PLA2G2A"/> <bbox w="80.0" h="40.0" x="18310.0" y="4390.0"/> <glyph class="state variable" id="_9357b46d-62d1-4f10-bc34-7fc51adcbff4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18302.5" y="4405.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2556_emtc_em_sa2556" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2556_emtc_em_sa2556"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MAP3K5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MAP3K5"/> <bbox w="67.0" h="21.0" x="2359.0" y="18197.5"/> <glyph class="state variable" id="_a60e8019-da35-4dd3-92b6-bbd4216046d6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2354.0" y="18202.982"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc2_sa220_wnc1_wnc2_sa220" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc2_sa220_wnc1_wnc2_sa220"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MDM2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MDM2"/> <bbox w="80.0" h="40.0" x="17814.06" y="19365.0"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa6_wnc1_wnc4_csa6" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN*:HIPK2:p53*</p> <p>References:</p> <p>s_wnc4_re9:(MAP:survival) PMID:15526030</p> <p>s_wnc4_re11(MAP:survival):</p> <p>Increased transcription of p53-target genes</p> <p>PMID:15526030</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa6_wnc1_wnc4_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15526030"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15526030"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AXIN*:HIPK2:p53*"/> <bbox w="99.0" h="160.0" x="18653.06" y="21452.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa34_wnc1_wnc4_sa34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor protein P53</p> <p>HUGO:TP53 HGNC:11998 ENTREZ:7157 UNIPROT:P04637 GENECARDS:TP53 REACTOME:69487 KEGG:7157 ATLASONC:P53ID88 WIKI:TP53</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:EMT_REGULATORS, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:cellcycle / MODULE:APOPTOSIS_ENTRY, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>P53 is a nuclear P38 target.</p> <p>PMID:20506250</p> <p>PMID:10721693</p> <p>PMID:19459846</p> <p>Phosphorylation of S46 increases stability of p53</p> </body> </html> </notes> <label text="p53*"/> <bbox w="80.0" h="40.0" x="18664.06" y="21504.0"/> <glyph class="state variable" id="_67f43b37-c034-4fdd-9f8d-73231e23fdfc"> <state value="P" variable="S46"/> <bbox w="30.0" h="10.0" x="18729.06" y="21499.213"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa33_wnc1_wnc4_sa33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="18664.06" y="21461.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa35_wnc1_wnc4_sa35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>homeodomain interacting protein kinase 2</p> <p>"homeodomain-interacting protein kinase 2"</p> <p>HUGO:HIPK2 HGNC:14402 ENTREZ:28996 UNIPROT:Q9H2X6 GENECARDS:HIPK2 KEGG:28996 ATLASONC:HIPK2ID40824ch7q34 WIKI:HIPK2</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>HIPK2 is pre-dominantly present in the nucleus</p> </body> </html> </notes> <label text="HIPK2"/> <bbox w="80.0" h="40.0" x="18664.06" y="21547.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa168_ca_sa168" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:PMID:27216177PMID:24531940Cancer-associated fibroblasts (CAFs) have been described to play critical roles in initiation, progression and metastasis of various cancers. However, the involvement of CAFs in oral cancer (OC) has not been well addressed. In this study, we demonstrate that CAFs, when cocultured with OC cells (OCCs), produce high levels of chemokine (C-C motif) ligand 2 (CCL2) and, subsequently, enhance endogenous reactive oxygen species production in cells. Oxidative stress stimulates expression of cell cycle progression proteins in OCCs, leading to promotion of OCC proliferation, migration, invasion and, OC tumor growth. On the other hand, oxidative stress triggered the activation of nuclear factor-kappaB (NF-κB) and STAT3 in CAFs, resulting in accelerating CCL2 expression. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF References:PMID:27216177PMID:24531940Cancer-associated fibroblasts (CAFs) have been described to play critical roles in initiation, progression and metastasis of various cancers. However, the involvement of CAFs in oral cancer (OC) has not been well addressed. In this study, we demonstrate that CAFs, when cocultured with OC cells (OCCs), produce high levels of chemokine (C-C motif) ligand 2 (CCL2) and, subsequently, enhance endogenous reactive oxygen species production in cells. Oxidative stress stimulates expression of cell cycle progression proteins in OCCs, leading to promotion of OCC proliferation, migration, invasion and, OC tumor growth. On the other hand, oxidative stress triggered the activation of nuclear factor-kappaB (NF-κB) and STAT3 in CAFs, resulting in accelerating CCL2 expression. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa168_ca_sa168"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27216177"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24531940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27216177"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24531940"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL2"/> <bbox w="70.0" h="25.0" x="1095.0" y="3441.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1495_emtc_em_sa1495" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1495_emtc_em_sa1495"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACTC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="α-Actin*"/> <bbox w="60.0" h="17.0" x="6032.0" y="15420.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2468_emtc_em_sa2468" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2468_emtc_em_sa2468"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PDGFRB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PDGFR family*"/> <bbox w="97.0" h="21.0" x="2943.0" y="17020.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1432_in_sa1432"> <label text="CX3CL1"/> <bbox w="80.0" h="40.0" x="15062.5" y="1130.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa37_shh1_shh2_csa37" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CyclinD*:MIR17-5P*</p> <p>References:</p> <p>s_shh2_re154:(MAP:survival) PMID:18695042</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa37_shh1_shh2_csa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18695042"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-17-5p_CYCLIND"/> <bbox w="100.0" h="120.0" x="27603.06" y="22083.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa270_shh1_shh2_sa270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997</p> <p>microRNA 17</p> <p>HUGO:MIR17 HGNC:31547 ENTREZ:406952 GENECARDS:MIR17 KEGG:406952 ATLASONC:GC_MIR17 WIKI:MIR17</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR17-5P*"/> <bbox w="90.0" h="25.0" x="27607.56" y="22094.0"/> <glyph class="unit of information" id="_c39a3dbc-01c1-443b-9223-5b0d62b72259"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27637.56" y="22089.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa269_shh1_shh2_sa269"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:dnarepair / MODULE:G1_CC_PHASE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18414028</p> <p>PMID:19887899</p> <p>PMID:20673124</p> <p>cyclin D1</p> <p>HUGO:CCND1 HGNC:1582 ENTREZ:595 UNIPROT:P24385 GENECARDS:CCND1 REACTOME:68327 KEGG:595 ATLASONC:BCL1 WIKI:CCND1 </p> <p>cyclin D2</p> <p>HUGO:CCND2 HGNC:1583 ENTREZ:894 UNIPROT:P30279 GENECARDS:CCND2 REACTOME:68339 KEGG:894 ATLASONC:GC_CCND2 WIKI:CCND2 </p> <p>cyclin D3</p> <p>HUGO:CCND3 HGNC:1585 ENTREZ:896 UNIPROT:P30281 GENECARDS:CCND3 REACTOME:68332 ATLASONC:GC_CCND3 WIKI:CCND3</p> <p>Map modules:</p> <p>References:</p> <p>PMID:18414028</p> <p>PMID:19887899</p> </body> </html> </notes> <label text="CyclinD*"/> <bbox w="90.0" h="25.0" x="27607.56" y="22121.0"/> <glyph class="unit of information" id="_4e7a38fc-38ec-4b81-ac84-180c396b6213"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27642.56" y="22116.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa341_mpk1_mpk1_sa341" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa341_mpk1_mpk1_sa341"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD"/> <bbox w="50.0" h="25.0" x="8687.061" y="19327.5"/> <glyph class="state variable" id="_70837f27-afb5-4d67-bea9-01ed60fe8290"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8679.561" y="19335.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa797_ca_sa797" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>References:MODULE:GROWTH_FACTORS_PRODUCTION PMID:23010081 Celecoxib (specific COX-2 inhibitor)increases EGF signaling in colon tumor associated fibroblasts, modulating EGFR expression and degradation and increase colon TAFs proliferation in the presence of EGF.Also it induces neo-expression and release of Amphiregulin (AREG), a well known EGFR agonist;EGF signaling induces AREG release. ----- content merged by Celldesigner to SBGN-ML translation ------ References:MODULE:GROWTH_FACTORS_PRODUCTION PMID:23010081 Celecoxib (specific COX-2 inhibitor)increases EGF signaling in colon tumor associated fibroblasts, modulating EGFR expression and degradation and increase colon TAFs proliferation in the presence of EGF.Also it induces neo-expression and release of Amphiregulin (AREG), a well known EGFR agonist;EGF signaling induces AREG release. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa797_ca_sa797"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AREG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010081"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AREG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010081"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AREG"/> <bbox w="90.0" h="25.0" x="3465.0" y="4342.5"/> <glyph class="unit of information" id="_41eb93c7-16c9-4049-bd8f-e1897ed0c2f9"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3500.0" y="4337.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa35_te_csa35" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:HSP90*/PTGES3/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa35_te_csa35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10197982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HSP90*/PTGES3/TERT"/> <bbox w="210.0" h="130.0" x="6102.06" y="20257.0"/> <glyph class="macromolecule" id="s_id_te_sa280_te_sa280"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prostaglandin E synthase 3 (cytosolic)</p> <p>HUGO:PTGES3</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10197982</p> </body> </html> </notes> <label text="PTGES3"/> <bbox w="80.0" h="40.0" x="6172.06" y="20327.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa278_te_sa278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="6112.06" y="20277.0"/> <glyph class="state variable" id="_981ba7ff-3d93-4675-acf0-02599e37d9dc"> <state value="P" variable="S227"/> <bbox w="35.0" h="10.0" x="6132.189" y="20272.0"/> </glyph> <glyph class="state variable" id="_e86ed917-d73b-4161-8672-9467aeea9a55"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6107.06" y="20291.969"/> </glyph> <glyph class="state variable" id="_4fcdc91f-cfb1-4992-b408-d5f743053947"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6144.561" y="20312.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa279_te_sa279"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock protein 90kDa alpha (cytosolic), class A member 1</p> <p>HUGO:HSP90AA1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:21945180</p> </body> </html> </notes> <label text="HSP90*"/> <bbox w="86.0" h="46.0" x="6209.06" y="20274.0"/> <glyph class="unit of information" id="_d4c2317e-634d-4e2e-8a81-c46190116e44"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="6242.06" y="20269.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1318_rc_sa1318" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1318_rc_sa1318"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN2A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p14ARF*"/> <bbox w="80.0" h="40.0" x="20991.56" y="16854.0"/> <glyph class="state variable" id="_1af4ad3d-8137-49b5-b2ea-81c38c239cd7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="21043.129" y="16849.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa188_ce_sa188" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa188_ce_sa188"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EME1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EME1"/> <bbox w="80.0" h="40.0" x="14763.606" y="17200.998"/> </glyph> <glyph class="unspecified entity" id="s_id_akt1_akt1_sa177_akt1_akt1_sa177" compartmentRef="s_id_akt1_akt1_ca4_akt1_akt1_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_akt1_re56(MAP:survival):</p> <p>PMID:19864431</p> <p>PMID:12150925</p> <p>PMID:15755954</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_sa177_akt1_akt1_sa177"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19864431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12150925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15755954"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Unknown kinase"/> <bbox w="70.0" h="25.0" x="14208.061" y="19325.5"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2099_rc_sa2099" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:15904 KEGGCOMPOUND:C00638</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="long-chain fatty acid"/> <bbox w="145.0" h="23.0" x="18345.803" y="12025.875"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa186_emtc_em_csa186" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Actin cytoskeletal*:Afadin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Actin*/Afadin*"/> <bbox w="166.0" h="41.0" x="1880.25" y="14416.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1249_emtc_em_sa1249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Actin cytoskeletal*</p> <p>actin, alpha 1, skeletal muscle</p> <p>ACTA</p> <p>HUGO:ACTA1 HGNC:129 ENTREZ:58 UNIPROT:P68133</p> <p>actin, alpha 2, smooth muscle, aorta</p> <p>HUGO:ACTA2 HGNC:130 ENTREZ:59 UNIPROT:P62736</p> <p>actin, beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709</p> <p>actin, alpha, cardiac muscle 1</p> <p>ACTC, "actin, alpha, cardiac muscle"</p> <p>HUGO:ACTC1 HGNC:143 ENTREZ:70 UNIPROT:P68032</p> <p>actin, gamma 1</p> <p>ACTG, "deafness, autosomal dominant 20; deafness, autosomal dominant 26", DFNA20, DFNA26</p> <p>HUGO:ACTG1 HGNC:144 ENTREZ:71 UNIPROT:P63261</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="Actin cytoskeletal*"/> <bbox w="105.0" h="20.0" x="1937.25" y="14417.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1250_emtc_em_sa1250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4</p> <p>HUGO:MLLT4, HGNC:7137, ENTREZ:4301, UNIPROT:P55196, GENECARDS:GC06P168227  </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:9334353</p> <p>MLLT4 is so-called Afadin or AF-6</p> <p>Afadin serves as a linker of the Actin cytoskeleton to the plasma membrane at the TJ sites</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Afadin*"/> <bbox w="47.0" h="19.0" x="1887.25" y="14417.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_em_sa2032_em_sa2032" compartmentRef="s_id_em_ca12_em_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2032_em_sa2032"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-Cadherin*"/> <bbox w="80.0" h="20.0" x="1456.0" y="12966.0"/> <glyph class="state variable" id="_744b0da9-39d2-43b2-9ab4-41c1a8e1c6cd"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1528.5" y="12962.2295"/> </glyph> <glyph class="state variable" id="_f8f88cee-9315-4107-b861-d5eee79907fe"> <state value="" variable="Y"/> <bbox w="15.0" h="10.0" x="1448.5" y="12961.84"/> </glyph> <glyph class="state variable" id="_1b2a1323-dc2d-48c1-8582-1fa062320024"> <state value="" variable="S"/> <bbox w="15.0" h="10.0" x="1527.8818" y="12981.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa18_wnc1_wnc1_csa18" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:p101*:p110_beta__gamma_*</p> </body> </html> </notes> <label text="p101*:p110βγ*"/> <bbox w="100.0" h="120.0" x="15238.061" y="18429.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa118_wnc1_wnc1_sa118"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Phosphoinositide-3-kinase, regulatory subunit 5, p101</p> <p>HUGO:PIK3R5 HGNC:30035 ENTREZ:23533 UNIPROT:Q8WYR1 GENECARDS:PIK3R5 REACTOME:242723 KEGG:23533 ATLASONC:GC_PIK3R5 WIKI:PIK3R5 </p> <p>phosphoinositide-3-kinase, regulatory subunit 5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p101*"/> <bbox w="80.0" h="40.0" x="15247.061" y="18438.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa119_wnc1_wnc1_sa119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta</p> <p>"phosphoinositide-3-kinase, catalytic, beta polypeptide", PIK3C1</p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma</p> <p>"phosphoinositide-3-kinase, catalytic, gamma polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p110βγ*"/> <bbox w="80.0" h="40.0" x="15247.061" y="18479.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5003_rc_sa5003" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5003_rc_sa5003"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNAJB11"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DNAJB11"/> <bbox w="80.0" h="40.0" x="28379.06" y="15809.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5364_rc_sa5364" compartmentRef="s_id_emtc_em_ca39_rc_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5364_rc_sa5364"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CKMT2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CKMT2"/> <bbox w="80.0" h="40.0" x="23429.06" y="12699.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa308_emtc_em_csa308" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:DLL1:NOTCH1</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="DLL1/NOTCH1"/> <bbox w="125.0" h="48.0" x="1051.0" y="14304.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2103_emtc_em_sa2103"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>delta-like protein 1</p> <p>HUGO:DLL1, HGNC:2908, ENTREZ:28514, UNIPROT:O00548, GENECARDS:GC06M170591</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="DLL1"/> <bbox w="41.0" h="24.0" x="1056.0" y="14306.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2104_emtc_em_sa2104"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Notch homolog 1</p> <p>NOTCH intracellular domains NICD</p> <p>HUGO:NOTCH1, HGNC:7881, ENTREZ:4851, GENECARDS:GC09M139388</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:20351093</p> <p>PMID:22363487</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="NOTCH1"/> <bbox w="60.0" h="29.0" x="1111.0" y="14306.5"/> <glyph class="unit of information" id="_b072b7a3-4f89-4e79-a633-d6073451c4b7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="1118.5" y="14301.5"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_in_csa146_in_csa146" compartmentRef="s_id_in_ca12_in_ca12"> <label text="SMAD3:SMAD4"/> <bbox w="100.0" h="120.0" x="10090.0" y="2405.0"/> <glyph class="macromolecule" id="s_id_in_sa957_in_sa957"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SMAD3"/> <bbox w="80.0" h="40.0" x="10100.0" y="2415.0"/> <glyph class="state variable" id="_b2b2c102-e1c3-4aaf-98ef-9c400b0408dc"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="10092.5" y="2430.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa958_in_sa958"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="SMAD4"/> <bbox w="80.0" h="40.0" x="10100.0" y="2465.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa480_emtc_em_sa480" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa480_emtc_em_sa480"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD1*"/> <bbox w="59.0" h="20.0" x="3338.0" y="14083.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa481_emtc_em_sa481" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa481_emtc_em_sa481"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDKN1B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p27KIP1*"/> <bbox w="64.0" h="20.0" x="3865.5" y="14330.5"/> <glyph class="state variable" id="_a6f93245-0ead-4040-97af-0a35dc71226c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="3860.5" y="14345.361"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa468_ca_sa468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS MODULE:CAF </p> <p>References:</p> <p>PMID:26777421</p> <p>Tumour cell-derived Wnt7a recruits and activates fibroblasts to promote tumour aggressiveness.</p> <p>Wnt7a does not signal through the classical Wnt pathways to trigger CAF conversion but potentiates TGFβ receptor signalling.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa468_ca_sa468"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:WNT7"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26777421"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="WNT7"/> <bbox w="80.0" h="40.0" x="3170.0" y="510.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1639_rc_sa1639" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1639_rc_sa1639"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MCL1"/> <bbox w="80.0" h="40.0" x="22375.31" y="14391.0"/> <glyph class="state variable" id="_b321709f-2d46-4612-99c5-2671cd79f1b5"> <state value="?" variable="S159"/> <bbox w="35.0" h="10.0" x="22376.475" y="14386.0"/> </glyph> <glyph class="state variable" id="_8aaf4f27-f947-4f54-af29-58a86d247620"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22430.305" y="14386.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa16_an_sa16" compartmentRef="s_id_an_ca4_an_ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:5464</p> <p>PMID:17145802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa16_an_sa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IGF1"/> <bbox w="80.0" h="40.0" x="7712.0" y="7215.0"/> </glyph> <glyph class="complex" id="s_id_in_csa17_in_csa17" compartmentRef="s_id_in_ca15_in_ca15"> <label text="MHC_class_II*:Tumor_antigen_fragment"/> <bbox w="100.0" h="130.0" x="20233.125" y="6782.5"/> <glyph class="macromolecule" id="s_id_in_sa153_in_sa153"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="MHC_class_II*"/> <bbox w="80.0" h="40.0" x="20243.125" y="6842.5"/> <glyph class="state variable" id="_f996146e-63ff-40a8-8875-c73bb0fa55a6"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20238.125" y="6857.5"/> </glyph> <glyph class="unit of information" id="_0294cce1-9e6c-4cd9-b7ac-eb995cd4f298"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20260.625" y="6837.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa154_in_sa154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Tumor_antigen_fragment"/> <bbox w="80.0" h="40.0" x="20243.125" y="6792.5"/> <glyph class="unit of information" id="_2e59fdb5-9eb2-47cd-8330-efad32952fc1"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="20258.125" y="6787.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4508_rc_sa4508" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> </body> </html> </notes> <label text="Lipid synthesis"/> <bbox w="80.0" h="30.0" x="18379.303" y="12129.125"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa13_wnc1_wnc3_csa13" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CNA*:CNB*</p> <p>References:</p> <p>s_wnc3_re31(MAP:survival):</p> <p>Phosphorylation of NFAT leads to increased DNA binding of NFAT -> increased gene transcription</p> <p>PMID15657416</p> <p>Not sure if dissociation of calcineurin and ERK/MEK occurs</p> </body> </html> </notes> <label text="(Calcineurin)"/> <bbox w="96.0" h="113.0" x="15649.061" y="21383.5"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa89_wnc1_wnc3_sa89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, regulatory subunit B, alpha</p> <p>"protein phosphatase 3 (formerly 2B), regulatory subunit B (19kD), alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, 19kDa, alpha isoform (calcineurin B, type I)", "protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform"</p> <p>HUGO:PPP3R1 HGNC:9317 ENTREZ:5534 UNIPROT:P63098 GENECARDS:PPP3R1 REACTOME:51292 KEGG:5534 ATLASONC:GC_PPP3R1 WIKI:PPP3R1 </p> <p>protein phosphatase 3, regulatory subunit B, beta</p> <p>HUGO:PPP3PR2 GENECARDS:PPP3PR2 WIKI:PPP3PR2 HUGO:PPP3R2 HGNC:9318 ENTREZ:5535 UNIPROT:Q96LZ3 GENECARDS:PPP3R2 KEGG:5535 ATLASONC:GC_PPP3R2 WIKI:PPP3R2</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNB*"/> <bbox w="80.0" h="40.0" x="15658.061" y="21433.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa88_wnc1_wnc3_sa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein phosphatase 3, catalytic subunit, alpha isozyme</p> <p>CALN, CALNA, "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform (calcineurin A alpha)"</p> <p>HUGO:PPP3CA HGNC:9314 ENTREZ:5530 UNIPROT:Q08209 GENECARDS:PPP3CA REACTOME:61110 KEGG:5530 ATLASONC:GC_PPP3CA WIKI:PPP3CA </p> <p>protein phosphatase 3, catalytic subunit, beta isozyme</p> <p>CALNB, "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, beta isoform (calcineurin A beta)"</p> <p>HUGO:PPP3CB HGNC:9315 ENTREZ:5532 UNIPROT:P16298 GENECARDS:PPP3CB REACTOME:403037 KEGG:5532 ATLASONC:GC_PPP3CB WIKI:PPP3CB </p> <p>protein phosphatase 3, catalytic subunit, gamma isozyme</p> <p>"protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform", "protein phosphatase 3 (formerly 2B), catalytic subunit, gamma isoform (calcineurin A gamma)"</p> <p>HUGO:PPP3CC HGNC:9316 ENTREZ:5533 UNIPROT:P48454 GENECARDS:PPP3CC REACTOME:61114 KEGG:5533 ATLASONC:GC_PPP3CC WIKI:PPP3CC</p> <p>Map modules:</p> </body> </html> </notes> <label text="CNA*"/> <bbox w="80.0" h="40.0" x="15658.061" y="21390.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1336_ad_sa1336" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:INHIBITING_CHECKPOINTS</p> <p>CASCADE:AR2A</p> <p>PMID:19290918 </p> <p>Both Lck and Fyn have C-terminal tyrosine residues (Tyr505 for Lck and Tyr528 for Fyn) that, when phosphorylated by C-terminal src kinase (Csk), act to inhibit kinase function and are therefore referred to as regulatory or inhibitory Tyr residues</p> <p>PMID:10790433 </p> <p> PAG is expressed as a constitutively tyrosine-phosphorylated protein and binds the major negative regulator of Src kinases, the tyrosine kinase Csk. After activation of peripheral blood alpha/beta T cells, PAG becomes rapidly dephosphorylated and dissociates from Csk.</p> <p>PMID:12485116</p> <p>REW</p> <p>PMID:11181701</p> <p>Activation of the COOH-terminal Src kinase (Csk) by cAMP-dependent protein kinase inhibits signaling through the T cell receptor.</p> <p>PKA phosphorylates Csk at S364 in vitro and in vivo leading to a two- to fourfold increase in Csk activity that is necessary for cAMP-mediated inhibition of TCR-induced interleukin 2 secretion.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1336_ad_sa1336"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSK"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19290918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10790433"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12485116"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11181701"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSK"/> <bbox w="80.0" h="40.0" x="27266.0" y="3175.0"/> <glyph class="state variable" id="_5c7b2e33-7d4e-4f51-8293-34cb291ecaa1"> <state value="P" variable="S364"/> <bbox w="35.0" h="10.0" x="27248.5" y="3172.402"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa613_ad_sa613" compartmentRef="s_id_ad_ca3_ad_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>PMID:15356110, PMID:19454690 </p> <p>ICAM1 assosiation with LAF-1 provides NK cell cytotoxicity</p> <p>PMID:14662834 </p> <p>IL-18 up-regulated most strikingly the surface expression of CD54 (ICAM1) and induces F-actin polymerization</p> <p>PMID:11592085</p> <p>ICAM-1 regulates the migration of dendritic cells into regional lymph nodes</p> <p> via polarization of perforin cytotoxic granules. This signaling is</p> <p>very sensitive to inhibition of actin polymerization by cytochalasin D, of Src family tyrosine kinases by PP1, and was partially sensitive to inhibition of PI3K by wortmannin.</p> <p>LFA-1-dependent cytotoxicity is sensitive to inhibition by killer cell Ig-like receptors ( CD158a and CD158b).</p> <p>PMID:12413632</p> <p>CD18/CD11-ICAM-1 adhesion between effector and target cells plays an</p> <p>important role in macrophage-mediated tumor cytotox-</p> <p>icity</p> <p>PMID:1673988</p> <p>Both IFN-gamma and TNF induced large increases in the ICAM-1 expression on both cell lines and increased the susceptibility of the tumor cells to monocyte-mediated killing.</p> <p>PMID:23364881</p> <p>Intercellular adhesion molecule-1 (ICAM-1) expression correlates with oral cancer progression and induces macrophage/cancer cell adhesion</p> <p>PMID:7512027</p> <p>INFG up-regulates ICAM1 and CD80 (B7) surface expression in monocytes. And IL10 inhibit it.</p> <p>PMID:20231889</p> <p> Dcs Stat5-Tg mice are expressing ot surface high levels of MHC-II and costimulatory molecules such as CD80, CD86 and CD54 (ICAM1) and have increased level of I12 secretion (.</p> <p>PMID:25384214</p> <p>the stimulatory effect of TANs was partially abrogated in the presence of anti-CD54 and -CD86 blocking AbsIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa613_ad_sa613"> 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4717_rc_sa4717"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="XBP1"/> <bbox w="80.0" h="40.0" x="25999.06" y="15729.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa80_mpk1_mpk1_csa80" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:TGFBR1:TGFBR2</p> </body> </html> </notes> <label text="TGFBR1:TGFBR2"/> <bbox w="130.0" h="64.0" x="10863.057" y="18831.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa454_mpk1_mpk1_sa454"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor II (70/80kDa)</p> <p>MFS2 "transforming growth factor beta receptor II (70-80kD)"</p> <p>HUGO:TGFBR2 HGNC:11773 ENTREZ:7048 UNIPROT:P37173</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-beta is known to cause a hetero-oligomerisation of the TGFBR1/TGFBR2 complex consisting of two TGFBR1 and two TGFBR2 molecules to activate it (not modelled).</p> <p>Besides cellular stresses the SAPK pathways are also activated by cytokines such as TGF-beta. Smad-dependent gene expression can provoke P38 activation in response to TGFbeta.</p> </body> </html> </notes> <label text="TGFBR2"/> <bbox w="55.0" h="25.0" x="10929.057" y="18843.0"/> <glyph class="unit of information" id="_5c5ca126-3663-4478-a58c-be8871b4aab7"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="10934.057" y="18838.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa453_mpk1_mpk1_sa453"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transforming growth factor beta receptor 1</p> <p>"transforming growth factor beta receptor I (activin A receptor type II-like kinase 53kD)"</p> <p>HUGO:TGFBR1 HGNC:11772 ENTREZ:7046 UNIPROT:P36897</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>TGF-beta is known to cause a hetero-oligomerisation of the TGFBR1/TGFBR2 complex consisting of two TGFBR1 and two TGFBR2 molecules to activate it (not modelled).</p> <p>Besides cellular stresses the SAPK pathways are also activated by cytokines such as TGF-beta. 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dynein, light chain, LC8-type 1</p> <p>HUGO:DYNLL1 HGNC:15476 ENTREZ:8655 UNIPROT:P63167</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>part of cytoskeletal structures with heavy and intermediary chains</p> </body> </html> </notes> <label text="DYNLL1"/> <bbox w="80.0" h="40.0" x="22527.512" y="12209.23"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1301_rc_sa1301"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11415936</p> <p>eNOS</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa476_an_sa476"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11415936"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NOS3"/> <bbox w="80.0" h="40.0" x="6876.0" y="7105.0"/> <glyph class="state variable" id="_080857b3-fd31-4c05-a1ef-9bc3e55f1c84"> <state value="P" variable="S1179"/> <bbox w="40.0" h="10.0" x="6912.949" y="7100.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4948_rc_sa4948" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4948_rc_sa4948"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RELB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NFKB1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:REL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NFKB*"/> <bbox w="80.0" h="40.0" x="25731.326" y="16274.0"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa250_ce_sa250" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa250_ce_sa250"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FANCM"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FANCM"/> <bbox w="80.0" h="40.0" x="16358.961" y="15459.05"/> <glyph class="state variable" id="_7cb89353-8010-48f9-a557-a3baf7af6317"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16391.46" y="15454.05"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2862_rc_sa2862" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2862_rc_sa2862"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC20B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDC20B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CDC20B"/> <bbox w="90.0" h="25.0" x="21904.06" y="15896.5"/> <glyph class="unit of information" id="_b27c6996-0ecb-4b1d-a5d3-7c4097e41fb0"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21939.06" y="15891.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1166_in_sa1166" compartmentRef="s_id_in_ca12_in_ca12"> <label text="CCR2"/> <bbox w="80.0" h="50.0" x="13880.0" y="1850.0"/> <glyph class="unit of information" id="_d9a2bbc4-a181-4fbd-a2ba-44e4db1f0d4d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13897.5" y="1845.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc3_csa3_wnc1_wnc3_csa3" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GATA binding site*:GATA*:NFAT*</p> </body> </html> </notes> <label text="GATA binding site*:GATA*:NFAT*"/> <bbox w="184.0" h="104.0" x="15377.061" y="21204.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa19_wnc1_wnc3_sa19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GATA binding protein 1 (globin transcription factor 1) </p> <p>HUGO:GATA1 HGNC:4170 ENTREZ:2623 UNIPROT:P15976 GENECARDS:GATA1 REACTOME:55334 KEGG:2623 ATLASONC:GATA1ID40689chXp11 WIKI:GATA1 </p> <p>GATA binding protein 2 </p> <p>HUGO:GATA2 HGNC:4171 ENTREZ:2624 UNIPROT:P23769 GENECARDS:GATA2 REACTOME:55336 KEGG:2624 ATLASONC:GATA2ID44160ch3q21 WIKI:GATA2 </p> <p>GATA binding protein 3 </p> <p>HUGO:GATA3 HGNC:4172 ENTREZ:2625 UNIPROT:P23771 GENECARDS:GATA3 REACTOME:55338 KEGG:2625 ATLASONC:GATA3ID107ch10p14 WIKI:GATA3 </p> <p>GATA binding protein 4 </p> <p>HUGO:GATA4 HGNC:4173 ENTREZ:2626 UNIPROT:P43694 GENECARDS:GATA4 REACTOME:55340 KEGG:2626 ATLASONC:GC_GATA4 WIKI:GATA4 </p> <p>GATA binding protein 5 </p> <p>HUGO:GATA5 HGNC:15802 ENTREZ:140628 UNIPROT:Q9BWX5 GENECARDS:GATA5 REACTOME:55342 KEGG:140628 ATLASONC:GC_GATA5 WIKI:GATA5 </p> <p>GATA binding protein 6 </p> <p>HUGO:GATA6 HGNC:4174 ENTREZ:2627 UNIPROT:Q92908 GENECARDS:GATA6 REACTOME:55344 ATLASONC:GATA6ID40690ch18q11 WIKI:GATA6</p> <p>Map modules:</p> </body> </html> </notes> <label text="GATA*"/> <bbox w="80.0" h="40.0" x="15469.061" y="21212.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_wnc1_wnc3_sa21_wnc1_wnc3_sa21"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for GATAReferences: ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:WNT_NON_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICALReferences:This is not a gene but used to indicate binding DNA sequence for GATAReferences:This is not a gene but used to indicate binding DNA sequence for GATA </body> </html> </notes> <label text="GATA binding site*"/> <bbox w="166.0" h="25.0" x="15384.061" y="21256.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc3_sa20_wnc1_wnc3_sa20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 1</p> <p>HUGO:NFATC1 HGNC:7775 ENTREZ:4772 UNIPROT:O95644 GENECARDS:NFATC1 REACTOME:60119 KEGG:4772 ATLASONC:GC_NFATC1 WIKI:NFATC1 </p> <p>nuclear factor of activated T-cells cytoplasmic calcineurin-dependent 3</p> <p>HUGO:NFATC3 HGNC:7777 ENTREZ:4775 UNIPROT:Q12968 GENECARDS:NFATC3 REACTOME:60123 KEGG:4775 ATLASONC:GC_NFATC3 WIKI:NFATC3 </p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2</p> <p>NF-ATP, NFAT1, NFATp</p> <p>HUGO:NFATC2 HGNC:7776 ENTREZ:4773 UNIPROT:Q13469 GENECARDS:NFATC2 REACTOME:60121 KEGG:4773 ATLASONC:NFATC2ID44004ch20q13 WIKI:NFATC2 </p> <p>NF-ATC, NFAT2, NFATc</p> <p>nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4</p> <p>NFAT3</p> <p>HUGO:NFATC4 HGNC:7778 ENTREZ:4776 UNIPROT:Q14934 GENECARDS:NFATC4 KEGG:4776 ATLASONC:GC_NFATC4 WIKI:NFATC4 </p> <p>UNIIPROT:Q149934</p> <p>nuclear factor of activated T-cells 5, tonicity-responsive</p> <p>NFAT5</p> <p>HUGO:NFAT5 HGNC:7774 ENTREZ:10725 UNIPROT:O94916 GENECARDS:NFAT5 KEGG:10725 ATLASONC:GC_NFAT5 WIKI:NFAT5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT sites are often located close to AP-1 sites in many promoters allowing for cooperative binding and synergistic trans-activation of numerous genes. NFATc1 is crucial to the differentiation of Th cells to the Th2 effector phenotype.</p> <p>PMID:11274345</p> <p>NFAT1 has at least 21 phosphorylation sites, 18 are located within the regulatory domain, 14 are conserved in the NFAT family 13 are dephosphorylated upon stimulation which is required to cause full exposure of NLS, mask an NES, needed for full activation: 7 serine residues in SRR1 domain of which 5 are phosphorylated (S170, S173, S174, S176, S177, S179, and S182), S215, S219, S223, S238, S245, S270, S276, S278, S282, and S2328.</p> <p>PMID:11030334</p> <p>NFAT5 activity is not regulated by phosphorylation but osmotic stress</p> </body> </html> </notes> <label text="NFAT*"/> <bbox w="80.0" h="40.0" x="15383.561" y="21212.0"/> <glyph class="state variable" id="_6efd5a99-cb97-4cf1-8bf9-2f2e3cc0272d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15458.561" y="21227.0"/> </glyph> <glyph class="state variable" id="_25946280-a6b2-4163-a78f-284d6ea802c3"> <state value="" 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<head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TBL1X"/> <bbox w="80.0" h="40.0" x="11450.0" y="3890.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1158_emtc_em_sa1158" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1158_emtc_em_sa1158"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MTDH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LYRIC*"/> <bbox w="46.0" h="16.0" x="1836.0" y="15265.5"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1102_ad_sa1102" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:19592273 </p> <p>Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. DTX1</p> <p> PMID:12415267 </p> <p>c-Cbl and Cbl-b regulate T cell responsiveness by promoting ligand-induced TCR down-modulation. </p> <p>PMID:10646608 </p> <p>Negative regulation of lymphocyte activation and autoimmunity by the molecular adaptor Cbl-b</p> <p>Cbl-b negatively regulates Vav1 tyrosine phosphorylation.</p> <p>PMID:11526404</p> <p>Proteolysis-independent regulation of PI3K by Cbl-b-mediated ubiquitination in T cells.</p> <p>The p85 regulatory subunit of phosphatidylinositol 3 kinase (PI3K) was identified as a substrate for Cbl-b. We have shown that Cbl-b negatively regulated p85 recruitment of p85 to CD28 and T cell antigen receptor through its E3 ubiquitin ligase activity. The enhanced activation of Cbl-b-/- T cells was suppressed by the inhibition of PI3K.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1102_ad_sa1102"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CBLB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592273"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12415267"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10646608"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11526404"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CBLB"/> <bbox w="80.0" h="40.0" x="28076.0" y="7695.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5342_rc_sa5342" compartmentRef="s_id_rc_ca5_rc_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Acyl-CoA synthetase family member 2</p> <p>Map modules:</p> <p>MODULE:FERROPTOSIS</p> <p>References:</p> <p>PMID:27048822</p> <p>PMID:26653790</p> <p>PMID:26794443</p> <p>ACSF2 and CS are required for mitochondrial fatty-acid metabolism in ferroptosis. </p> <p>Knockdown of ACSF2 and CS inhibits erastin-induced ferroptosis</p> <p>PMID:28645028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5342_rc_sa5342"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ACSF2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048822"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26653790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26794443"/> 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rdf:resource="urn:miriam:pubmed:16278308"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25043024"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23506875"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="lactic acid "/> <bbox w="70.0" h="25.0" x="9555.0" y="5747.5"/> </glyph> <glyph class="complex" id="s_id_ce_csa116_ce_csa116" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CDK2:CyclinA1*:p107*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="CDK2/CycA*/p107"/> <bbox w="108.0" h="152.0" x="12587.473" y="9176.356"/> <glyph class="macromolecule" id="s_id_ce_sa781_ce_sa781"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin-dependent kinase 2</p> <p>HUGO:CDK2, HGNC:1771, ENTREZ:1017, UNIPROT:P24941</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:17303408, PMID:18590585, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CDK2"/> <bbox w="80.0" h="40.0" x="12603.973" y="9225.106"/> <glyph class="state variable" id="_64b000ff-5f95-4278-9650-d4bd0b4ba1da"> <state value="" variable="T160"/> <bbox w="30.0" h="10.0" x="12588.973" y="9240.074"/> </glyph> <glyph class="state variable" id="_6697e10a-690c-4176-80be-6c3a03306754"> <state value="" variable="Y14/15"/> <bbox w="40.0" h="10.0" x="12603.798" y="9220.106"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa780_ce_sa780"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cyclin A1</p> <p>HUGO:CCNA1, HGNC:1577, ENTREZ:8900, UNIPROT:P78396</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="CyclinA1*"/> <bbox w="80.0" h="40.0" x="12603.973" y="9182.606"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa782_ce_sa782"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma-like 1 (p107)</p> <p>HUGO:RBL1, HGNC:9893, ENTREZ:5933, UNIPROT:P28749</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:REGULATORS, MODULE:G1_S_CHECKPOINT, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_sa86_wca1_wca2_sa126"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNNA3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="α-Catenin*"/> <clone/> <bbox w="80.0" h="40.0" x="23364.06" y="18585.0"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa68_mpk1_mpk1_csa68" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:RAF1:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:RAF1:RAS*:RTK*:SOS*"/> <bbox w="185.0" h="106.0" x="8593.061" y="19158.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa333_mpk1_mpk1_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8714.061" y="19191.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa337_mpk1_mpk1_sa337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-raf-1 murine leukemia viral oncogene homolog 1</p> <p>HUGO:RAF1 HGNC:9829 ENTREZ:5894 UNIPROT:P04049</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Active KRas (on late endosomes) recruits Raf1 (C-Raf) to elicit a MODULE:MAPK signalling pathway.</p> <p>Raf1 MEK1/2 and ERK1/2 may act in the outer side of the Golgi apparatus and attenuate proliferation.</p> </body> </html> </notes> <label text="RAF1"/> <bbox w="66.0" h="26.0" x="8609.061" y="19216.0"/> <glyph class="state variable" id="_3dd79e4a-a016-4674-a5d8-f08bb03d49b3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8601.561" y="19224.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa619_mpk1_mpk1_sa619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="8670.436" y="19215.5"/> <glyph class="state variable" id="_3412ecf1-5207-4c21-9838-6d404e53320c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8662.936" y="19223.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa585_mpk1_mpk1_sa585"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="8714.061" y="19168.0"/> <glyph class="unit of information" id="_192df0a7-6d93-4762-87d0-d4a2376e4e3d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8716.561" y="19163.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa334_mpk1_mpk1_sa334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>son of sevenless homolog 1 (Drosophila)</p> <p>GINGF "gingival fibromatosis hereditary 1"</p> <p>HUGO:SOS1 HGNC:11187 ENTREZ:6654 UNIPROT:Q07889 </p> <p>son of sevenless homolog 2 (Drosophila)</p> <p>"son of sevenless (Drosophilia) homolog 2"</p> <p>HUGO:SOS2 HGNC:11188 ENTREZ:6655 UNIPROT:Q07890</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. 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rdf:resource="urn:miriam:hgnc.symbol:COL28A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Collagens*"/> <bbox w="90.0" h="25.0" x="5615.0" y="4317.5"/> <glyph class="unit of information" id="_fa488bc0-b4e9-490a-a56c-8b94e383b974"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5650.0" y="4312.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa259_ca_sa259" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa259_ca_sa259"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFBR1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TGFBR1"/> <bbox w="80.0" h="50.0" x="3699.0" y="1155.0"/> <glyph class="unit of information" id="_088d1374-b833-45f1-b359-71840a64b5ab"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="3716.5" y="1150.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa58_akt1_akt1_csa58" compartmentRef="s_id_akt1_akt1_ca7_akt1_akt1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DEPTOR:MAPKAP1:MLST8:MTOR:PROTOR*:RAC1:RICTOR</p> </body> </html> </notes> <label text="(mTORC2)"/> <bbox w="177.0" h="196.0" x="12778.561" y="17846.375"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa341_akt1_akt1_sa341"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="12786.061" y="17898.125"/> <glyph class="state variable" id="_8bdbade6-8faa-427d-847c-dde0f9488d09"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="12766.061" y="17932.072"/> </glyph> <glyph class="state variable" id="_884461b4-e66c-4ab4-bbd7-2082e6a15bb4"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12845.143" y="17893.125"/> </glyph> <glyph class="state variable" id="_1627b4b3-11b1-4d71-8a79-9b8a2114203b"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="12847.942" y="17933.125"/> </glyph> <glyph class="state variable" id="_3f6ed9b6-18fd-4c0f-8edf-1634c9ee6a0f"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="12771.061" y="17913.125"/> </glyph> <glyph class="state variable" id="_335d6408-c904-45a0-ba21-e32866b24e6f"> <state value="" variable="S1261"/> <bbox w="35.0" h="10.0" x="12772.096" y="17893.125"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa343_akt1_akt1_sa343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PROTOR</p> <p>HUGO:PRR5 HGNC:31682 ENTREZ:55615 UNIPROT:P85299 GENECARDS:PRR5 KEGG:55615 ATLASONC:GC_PRR5 WIKI:PRR5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="PROTOR*"/> <bbox w="80.0" h="40.0" x="12785.811" y="17980.625"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa342_akt1_akt1_sa342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Mitogen-activated protein kinase associated protein 1</p> <p>HUGO:MAPKAP1 HGNC:18752 ENTREZ:79109 UNIPROT:Q9BPZ7 GENECARDS:MAPKAP1 REACTOME:413323 KEGG:79109 ATLASONC:GC_MAPKAP1 WIKI:MAPKAP1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="MAPKAP1"/> <bbox w="80.0" h="40.0" x="12786.061" y="17939.375"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa344_akt1_akt1_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RPTOR independent companion of MTOR complex 2</p> <p>HUGO:RICTOR HGNC:28611 ENTREZ:253260 UNIPROT:Q6R327 GENECARDS:RICTOR REACTOME:245693 KEGG:253260 ATLASONC:GC_RICTOR WIKI:RICTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="RICTOR"/> <bbox w="80.0" h="40.0" x="12869.311" y="17939.375"/> <glyph class="state variable" id="_d77be2f6-a31d-4088-91a6-e7e303311d11"> <state value="" variable="T1135"/> <bbox w="35.0" h="10.0" x="12871.371" y="17974.375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa345_akt1_akt1_sa345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12868.311" y="17898.125"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa346_akt1_akt1_sa346"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>DEP domain containing MTOR-interacting protein</p> <p>HUGO:DEPTOR HGNC:22953 ENTREZ:64798 UNIPROT:Q8TB45 GENECARDS:DEPTOR KEGG:64798 ATLASONC:GC_DEPTOR WIKI:DEPTOR</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19446321</p> </body> </html> </notes> <label text="DEPTOR"/> <bbox w="80.0" h="40.0" x="12867.561" y="17982.875"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa531_akt1_akt1_sa531"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Ras-related C3 botulin toxin substrate 1 (rho family, small GTP binding protein Rac1</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000 GENECARDS:RAC1 REACTOME:404635 KEGG:5879 ATLASONC:GC_RAC1 WIKI:RAC1 </p> <p>ras-related C3 botulinum toxin substrate 1 (rho family small GTP binding protein RAC1)</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18000759</p> <p>PMID:19151919</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="12818.561" y="17856.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5227_rc_sa5227" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>3,4-Dihydro-5-[4-(1-piperidinyl)butoxyl]-1(2H)-isoquinolinone</p> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> </body> </html> </notes> <label text="DPQ"/> <bbox w="80.0" h="30.0" x="19239.06" y="16374.0"/> <glyph class="unit of information" id="_88f309ea-6a54-4953-817f-e7a2c6885c70"> <label text="drug"/> <bbox w="25.0" h="10.0" x="19266.56" y="16369.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4492_rc_sa4492" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23846383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4492_rc_sa4492"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Decreased Amino acid availability"/> <bbox w="253.0" h="30.0" x="28285.06" y="10816.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa41_wca1_wca1_csa41" compartmentRef="s_id_wca1_wca1_ca9_wca1_wca1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:AXIN*:CK1_alpha_*:CK1_epsilon_*:CK1_gamma_*:DVL*:E-Cadherin*:FZD*:GSK3*:G_alpha_o*:G_beta_*:G_gamma_*:LRP5_6*:PRR*:WNT*:_beta_-Arrestin2*:p120*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:52226983 PMID:21606194 PMID:20460648</p> <p>s_wca1_re41(MAP:survival):</p> <p>PMID:21606194 </p> <p>ANNOTATION:CK1alpha phosphorylates E-CADHERIN on unkown residue and p-120 catenin</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa41_wca1_wca1_csa41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:52226983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Signalosome)"/> <bbox w="517.0" h="357.0" x="22059.56" y="19053.0"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa340_wca1_wca1_sa333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22129.06" y="19162.0"/> <glyph class="unit of information" id="_9f973c59-3182-415b-8867-f6780fc40669"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22146.56" y="19157.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa568_wca1_wca1_sa567"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22385.56" y="19340.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa420_wca1_wca1_sa420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22478.56" y="19105.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa568_wca1_wca1_sa568"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="22215.56" y="19343.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa660_wca1_wca1_sa660"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="50.0" h="40.0" x="22075.242" y="19144.727"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa345_wca1_wca1_sa345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="22217.06" y="19264.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa498_wca1_wca1_sa498"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22427.31" y="19231.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa497_wca1_wca1_sa497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22253.31" y="19230.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa616_wca1_wca1_sa616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22367.06" y="19096.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa356_wca1_wca1_sa357"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22345.06" y="19120.0"/> <glyph class="state variable" id="_4ebbfaf3-8cef-407c-abff-ebae669f948a"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22325.06" y="19139.96"/> </glyph> <glyph class="state variable" id="_278659f6-28f9-4ed6-af87-d2df6624af73"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22405.06" y="19115.266"/> </glyph> <glyph class="state variable" id="_079b7e81-f3ed-4dfd-a567-c3fe68d5dea7"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22404.441" y="19165.0"/> </glyph> <glyph class="state variable" id="_b635b924-e618-4901-9f5e-93e1de289efb"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="22364.164" y="19165.0"/> </glyph> <glyph class="state variable" id="_6ede808b-ea9f-4a72-9983-bc6e8f0c9da0"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="22325.3" y="19165.0"/> </glyph> <glyph class="state variable" id="_3bccbc80-6ace-403e-927e-7af7128c8703"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22365.092" y="19115.0"/> </glyph> <glyph class="unit of information" id="_a28eb3ed-2e46-481f-b0dd-6a4ad6ffd76e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22362.56" y="19115.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa338_wca1_wca1_sa338"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22479.56" y="19149.0"/> <glyph class="state variable" id="_37a0c33a-9eb2-4279-a0fd-a19af25ecef5"> <state value="P" variable="S268"/> <bbox w="35.0" h="10.0" x="22462.553" y="19144.0"/> </glyph> <glyph class="state variable" id="_548e8c3b-64e0-41be-9797-6b9e4170079a"> <state value="P" variable="S269"/> <bbox w="35.0" h="10.0" x="22502.092" y="19144.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa355_wca1_wca1_sa349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22303.06" y="19266.0"/> <glyph class="state variable" id="_37d920d7-35eb-4857-be21-b1b9f28a8aea"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22296.053" y="19261.0"/> </glyph> <glyph class="state variable" id="_305420d3-eac6-42f9-baa4-035657f593e7"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22375.56" y="19261.213"/> </glyph> <glyph class="state variable" id="_3c3758f1-51b7-48b5-9ba4-178a03253749"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22290.56" y="19300.72"/> </glyph> <glyph class="state variable" id="_ab4a3334-fb61-49ac-9bcf-7e4884107105"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22368.06" y="19261.213"/> </glyph> <glyph class="state variable" id="_e4798a7f-e5ed-4762-b712-071a65bbfed8"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22367.441" y="19301.0"/> </glyph> <glyph class="state variable" id="_30c89bd0-eff3-4ec6-81a0-1cd442aa894a"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22330.465" y="19301.0"/> </glyph> <glyph class="state variable" id="_ecdc9a64-a591-4959-9d46-70d3d5f764a7"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="22327.965" y="19301.0"/> </glyph> <glyph class="state variable" id="_75b890cb-0be6-43a4-a969-d21f930360ed"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="22288.06" y="19300.72"/> </glyph> <glyph class="state variable" id="_ff6b7c14-64e7-4dce-9fd7-552fac3135e0"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="22330.592" y="19261.0"/> </glyph> <glyph class="state variable" id="_18ad08ff-4098-4f52-a85b-bf59584ddb28"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="22291.053" y="19261.0"/> </glyph> <glyph class="state variable" id="_685dd1f2-00c8-44a8-af49-3651938b1214"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22369.941" y="19301.0"/> </glyph> <glyph class="state variable" id="_765f58a9-f7e4-46aa-811b-2f47e6677058"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22298.064" y="19261.0"/> </glyph> <glyph class="state variable" id="_aff62177-9184-4eea-b3d3-433844885734"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22378.06" y="19261.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa332_wca1_wca1_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22261.56" y="19187.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa498_wca1_wca1_sa496"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="22212.31" y="19230.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa343_wca1_wca1_sa389"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="22214.81" y="19318.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa332_wca1_wca1_sa339"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="22477.56" y="19189.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa595_wca1_wca1_sa595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22477.06" y="19066.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa340_wca1_wca1_sa340"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="22345.06" y="19164.0"/> <glyph class="unit of information" id="_b628bce0-95c2-4373-8cf8-fd5a17c0911c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22362.56" y="19159.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa355_wca1_wca1_sa344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22132.06" y="19264.5"/> <glyph class="state variable" id="_33086a47-2bee-4f5a-97ec-162821b123ae"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22125.053" y="19259.5"/> </glyph> <glyph class="state variable" id="_7f5eae7a-d927-43ad-9b8d-585d5b28e9b6"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22204.56" y="19259.713"/> </glyph> <glyph class="state variable" id="_c9df5190-aeea-4bbc-9d3f-a99b682d0d41"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22119.56" y="19299.22"/> </glyph> <glyph class="state variable" id="_1a9dcc88-7c2c-4245-ab23-4c4f541cd2aa"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22197.06" y="19259.713"/> </glyph> <glyph class="state variable" id="_93a4e965-7108-4727-9455-f781050cee9d"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22196.441" y="19299.5"/> </glyph> <glyph class="state variable" id="_303ad9a2-ba70-471c-afdb-9ac8e2ecb195"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22159.465" y="19299.5"/> </glyph> <glyph class="state variable" id="_965fd21f-9678-431a-986d-a9c78e46a722"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="22156.965" y="19299.5"/> </glyph> <glyph class="state variable" id="_53573a82-0f70-40f0-8cb9-140a297edebf"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="22117.06" y="19299.22"/> </glyph> <glyph class="state variable" id="_a3c0edc9-2130-469c-9cd9-3e29d12dfb12"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="22159.592" y="19259.5"/> </glyph> <glyph class="state variable" id="_1def5062-5880-41e7-9347-6e39d50963cb"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="22120.053" y="19259.5"/> </glyph> <glyph class="state variable" id="_72364d6b-0ba3-4cf0-9047-2076fa466d03"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22198.941" y="19299.5"/> </glyph> <glyph class="state variable" id="_e8416e6e-fe92-4493-addc-0ba042426ed3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22127.064" y="19259.5"/> </glyph> <glyph class="state variable" id="_198368bc-5e85-4d6e-beeb-118eab2deffe"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22207.06" y="19259.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa343_wca1_wca1_sa343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein) alpha 11 (Gq class)</p> <p>HUGO:GNA11 HGNC:4379 ENTREZ:2767 UNIPROT:P29992 GENECARDS:GNA11 REACTOME:55354 KEGG:2767 ATLASONC:GNA11ID43272ch19p13 WIKI:GNA11 </p> <p>guanine nucleotide binding protein (G protein) alpha 12</p> <p>HUGO:GNA12 HGNC:4380 ENTREZ:2768 UNIPROT:Q03113 GENECARDS:GNA12 REACTOME:55356 KEGG:2768 ATLASONC:GC_GNA12 WIKI:GNA12 </p> <p>guanine nucleotide binding protein (G protein) alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13 </p> <p>guanine nucleotide binding protein (G protein) alpha 14</p> <p>HUGO:GNA14 HGNC:4382 ENTREZ:9630 UNIPROT:O95837 GENECARDS:GNA14 REACTOME:55360 ATLASONC:GC_GNA14 WIKI:GNA14 </p> <p>guanine nucleotide binding protein (G protein) alpha 15 (Gq class)</p> <p>HUGO:GNA15 HGNC:4383 ENTREZ:2769 UNIPROT:P30679 GENECARDS:GNA15 REACTOME:55362 KEGG:2769 ATLASONC:GC_GNA15 WIKI:GNA15 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 1</p> <p>HUGO:GNAI1 HGNC:4384 ENTREZ:2770 UNIPROT:P63096 GENECARDS:GNAI1 REACTOME:55432 KEGG:2770 ATLASONC:GC_GNAI1 WIKI:GNAI1 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 2</p> <p>HUGO:GNAI2 HGNC:4385 ENTREZ:2771 UNIPROT:P04899 GENECARDS:GNAI2 REACTOME:55436 KEGG:2771 ATLASONC:GC_GNAI2 WIKI:GNAI2 </p> <p>guanine nucleotide binding protein (G protein) alpha inhibiting activity polypeptide 3</p> <p>HUGO:GNAI3 HGNC:4387 ENTREZ:2773 UNIPROT:P08754 GENECARDS:GNAI3 REACTOME:55366 KEGG:2773 ATLASONC:GC_GNAI3 WIKI:GNAI3 </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide olfactory type</p> <p>HUGO:GNAL HGNC:4388 ENTREZ:2774 UNIPROT:P38405 GENECARDS:GNAL REACTOME:55364 ATLASONC:GC_GNAL WIKI:GNAL </p> <p>guanine nucleotide binding protein (G protein) alpha activating activity polypeptide O</p> <p>HUGO:GNAO1 HGNC:4389 ENTREZ:2775 UNIPROT:P09471 GENECARDS:GNAO1 REACTOME:55350 KEGG:2775 ATLASONC:GC_GNAO1 WIKI:GNAO1 </p> <p>guanine nucleotide binding protein (G protein) q polypeptide</p> <p>HUGO:GNAQ HGNC:4390 ENTREZ:2776 UNIPROT:P50148 GENECARDS:GNAQ REACTOME:55454 KEGG:2776 ATLASONC:GNAQID43280ch9q21 WIKI:GNAQ</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="Gαo*"/> <bbox w="40.0" h="20.0" x="22382.56" y="19316.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa346_wca1_wca1_sa350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22299.56" y="19309.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa595_wca1_wca1_sa594"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="22258.56" y="19061.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa346_wca1_wca1_sa346"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22131.56" y="19312.5"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa338_wca1_wca1_sa331"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein) delta 1</p> <p>HUGO:CTNND1 HGNC:2515 ENTREZ:1500 UNIPROT:O60716 GENECARDS:CTNND1 REACTOME:52998 KEGG:1500 ATLASONC:CTNND1ID40197ch11q11 WIKI:CTNND1 </p> <p>catenin (cadherin-associated protein) delta 2 (neural plakophilin-related arm-repeat protein)</p> <p>HUGO:CTNND2 HGNC:2516 ENTREZ:1501 UNIPROT:Q9UQB3 GENECARDS:CTNND2 KEGG:1501 ATLASONC:GC_CTNND2 WIKI:CTNND2 </p> <p>catenin (cadherin-associated protein) delta 2</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p120*"/> <bbox w="80.0" h="40.0" x="22263.56" y="19147.0"/> <glyph class="state variable" id="_6106e5d4-be61-42d3-9b54-668828c26981"> <state value="P" variable="S268"/> <bbox w="35.0" h="10.0" x="22246.553" y="19142.0"/> </glyph> <glyph class="state variable" id="_dd2a9b96-588c-497d-a2bb-80a0fa910c9f"> <state value="P" variable="S269"/> <bbox w="35.0" h="10.0" x="22286.092" y="19142.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa420_wca1_wca1_sa421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 gamma 1</p> <p>HUGO:CSNK1G1 HGNC:2454 ENTREZ:53944 UNIPROT:Q9HCP0 GENECARDS:CSNK1G1 KEGG:53944 ATLASONC:GC_CSNK1G1 WIKI:CSNK1G1 </p> <p>casein kinase 1 gamma 2</p> <p>HUGO:CSNK1G2 HGNC:2455 ENTREZ:1455 UNIPROT:P78368 GENECARDS:CSNK1G2 REACTOME:57863 KEGG:1455 ATLASONC:GC_CSNK1G2 WIKI:CSNK1G2 </p> <p>casein kinase 1 gamma 3</p> <p>HUGO:CSNK1G3 HGNC:2456 ENTREZ:1456 UNIPROT:Q9Y6M4 GENECARDS:CSNK1G3 KEGG:1456 ATLASONC:GC_CSNK1G3 WIKI:CSNK1G3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1γ*"/> <bbox w="80.0" h="40.0" x="22263.56" y="19103.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa616_wca1_wca1_sa617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="22147.06" y="19096.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa346_wca1_wca1_sa354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="22466.56" y="19310.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa345_wca1_wca1_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="22387.06" y="19266.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa355_wca1_wca1_sa355"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="22468.06" y="19266.0"/> <glyph class="state variable" id="_cc79dc15-d3e1-481e-9373-088ad3fddb7a"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22461.053" y="19261.0"/> </glyph> <glyph class="state variable" id="_7ddc03e1-1835-4bf1-80ab-a38c9b4cfce0"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="22540.56" y="19261.213"/> </glyph> <glyph class="state variable" id="_42836af2-e549-40e0-833c-6821ee43c8c9"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="22455.56" y="19300.72"/> </glyph> <glyph class="state variable" id="_d71c1e0d-fdbc-4855-b3b3-b69ca676415b"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="22533.06" y="19261.213"/> </glyph> <glyph class="state variable" id="_4b2027bf-d779-4efc-8673-8bbea4eb4823"> <state value="" variable="S473"/> <bbox w="30.0" h="10.0" x="22532.441" y="19301.0"/> </glyph> <glyph class="state variable" id="_9cda15f8-d1e8-4702-b5a1-c7b1a0be539e"> <state value="" variable="K48"/> <bbox w="25.0" h="10.0" x="22495.465" y="19301.0"/> </glyph> <glyph class="state variable" id="_49a22f42-1f9d-4928-ba54-cb95f171e24a"> <state value="" variable="S614"/> <bbox w="30.0" h="10.0" x="22492.965" y="19301.0"/> </glyph> <glyph class="state variable" id="_05432b9d-50f4-46b7-b75f-ee95cc7ea72f"> <state value="" variable="S621"/> <bbox w="30.0" h="10.0" x="22453.06" y="19300.72"/> </glyph> <glyph class="state variable" id="_efdbee8d-6c7a-4eb6-a1f9-8b1ac6c214bf"> <state value="" variable="S82"/> <bbox w="25.0" h="10.0" x="22495.592" y="19261.0"/> </glyph> <glyph class="state variable" id="_44259f42-d984-4df1-b96d-f258d92d7ed5"> <state value="" variable="S80"/> <bbox w="25.0" h="10.0" x="22456.053" y="19261.0"/> </glyph> <glyph class="state variable" id="_a43cb620-2b6e-4afb-86d9-a8ebd213a0fd"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="22534.941" y="19301.0"/> </glyph> <glyph class="state variable" id="_4e53eb70-9edf-4878-be42-dbe389b6482c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22463.064" y="19261.0"/> </glyph> <glyph class="state variable" id="_227e94d8-454d-479c-b1a0-3df49f47b8ec"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22543.06" y="19261.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa497_wca1_wca1_sa499"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="22468.31" y="19231.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa337_wca1_wca1_sa330"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22209.56" y="19066.0"/> <glyph class="state variable" id="_9d19b374-3725-43e8-a0e2-d3c2d6d16285"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22255.06" y="19061.0"/> </glyph> <glyph class="state variable" id="_e6921c24-8ca1-44f6-b08d-990cabbfa755"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22247.56" y="19061.652"/> </glyph> <glyph class="state variable" id="_c0caf320-5e9a-4770-8e21-a92640226cf4"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22245.629" y="19184.0"/> </glyph> <glyph class="state variable" id="_4d9c6a98-1b6f-40e6-b4e0-9eb3c53ee0c4"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22195.404" y="19061.0"/> </glyph> <glyph class="state variable" id="_6b14e9c9-5fd3-4a3d-abdd-37b6400b75f8"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22194.719" y="19184.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa342_wca1_wca1_sa342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22345.81" y="19212.0"/> <glyph class="state variable" id="_b760c307-4c71-48bc-aab7-2b418a8920a6"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22418.31" y="19207.0"/> </glyph> <glyph class="state variable" id="_473b567c-e40e-42c3-a3e2-e8a4bfa7ad73"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="22328.31" y="19246.72"/> </glyph> <glyph class="state variable" id="_1bd2cda3-0d25-4817-830f-86c4e9957f99"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22340.814" y="19207.0"/> </glyph> <glyph class="state variable" id="_47afa2c8-c563-4326-875f-2649ae536855"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22407.691" y="19247.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa342_wca1_wca1_sa335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="22129.81" y="19210.0"/> <glyph class="state variable" id="_20404dbf-3bdf-4447-bec9-f4110423095f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22202.31" y="19205.0"/> </glyph> <glyph class="state variable" id="_4e16e665-90cb-434c-b5ce-64ce65b4ff3a"> <state value="P" variable="S142"/> <bbox w="35.0" h="10.0" x="22112.31" y="19244.72"/> </glyph> <glyph class="state variable" id="_b049fd09-b215-401d-a927-42a5e5bc9d5e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22124.814" y="19205.0"/> </glyph> <glyph class="state variable" id="_cb52c663-f3a4-45fe-b5da-0e11afe00315"> <state value="P" variable="S139"/> <bbox w="35.0" h="10.0" x="22191.691" y="19245.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa337_wca1_wca1_sa337"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1 type 1 E-CADHERIN (epithelial)</p> <p>HUGO:CDH1 HGNC:1748 ENTREZ:999 UNIPROT:P12830 GENECARDS:CDH1 REACTOME:51210 KEGG:999 ATLASONC:CDH1ID166ch16q22 WIKI:CDH1 </p> <p>UVO</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:dnarepair / MODULE:M_CC_PHASE, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19029934</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="53.0" h="123.0" x="22425.56" y="19068.0"/> <glyph class="state variable" id="_20b79771-b739-416d-874c-bbeb1e6de9e7"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="22471.06" y="19063.0"/> </glyph> <glyph class="state variable" id="_32cb6d23-0c77-4dfc-8a49-9efd7e212c13"> <state value="" variable="S853"/> <bbox w="30.0" h="10.0" x="22463.56" y="19063.652"/> </glyph> <glyph class="state variable" id="_7618bcf4-29ee-43c6-8dff-24151fb2fab5"> <state value="" variable="S855"/> <bbox w="30.0" h="10.0" x="22461.629" y="19186.0"/> </glyph> <glyph class="state variable" id="_fde70d5f-50a5-4395-b891-d85c98960320"> <state value="" variable="S849"/> <bbox w="30.0" h="10.0" x="22411.404" y="19063.0"/> </glyph> <glyph class="state variable" id="_cb5efd87-a3ee-4f3c-9766-c695629606fe"> <state value="" variable="S840"/> <bbox w="30.0" h="10.0" x="22410.719" y="19186.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa356_wca1_wca1_sa356"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>low density lipoprotein receptor-related protein 5</p> <p>HUGO:LRP5 HGNC:6697 ENTREZ:4041 UNIPROT:O75197 GENECARDS:LRP5 KEGG:4041 ATLASONC:LRP5ID44282ch11q13 WIKI:LRP5 </p> <p>low density lipoprotein receptor-related protein 6</p> <p>HUGO:LRP6 HGNC:6698 ENTREZ:4040 UNIPROT:O75581 GENECARDS:LRP6 KEGG:4040 ATLASONC:GC_LRP6 WIKI:LRP6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>PMID:16443747</p> <p>WNT3a requires LRP6 to activate wnt PMID:22433869</p> </body> </html> </notes> <label text="LRP5_6*"/> <bbox w="80.0" h="50.0" x="22129.06" y="19118.0"/> <glyph class="state variable" id="_8813dc91-cda5-4a6b-8765-68e42c0576b7"> <state value="P" variable="T1479"/> <bbox w="40.0" h="10.0" x="22109.06" y="19137.96"/> </glyph> <glyph class="state variable" id="_c1eed1f3-012e-45c6-afc3-d09ae40742c6"> <state value="P" variable="T1493"/> <bbox w="40.0" h="10.0" x="22189.06" y="19113.266"/> </glyph> <glyph class="state variable" id="_cebae1f2-8f36-41f5-8a60-b7e956bcfd34"> <state value="P" variable="S1496"/> <bbox w="40.0" h="10.0" x="22188.441" y="19163.0"/> </glyph> <glyph class="state variable" id="_f456411e-4bab-429e-bd7d-647ce63640fa"> <state value="P" variable="T1530"/> <bbox w="40.0" h="10.0" x="22148.164" y="19163.0"/> </glyph> <glyph class="state variable" id="_a641cb86-3e52-49dd-b33d-9a8cf4276b38"> <state value="P" variable="S1533"/> <bbox w="40.0" h="10.0" x="22109.3" y="19163.0"/> </glyph> <glyph class="state variable" id="_1b372ab7-fe71-4bc4-bec3-fb1477971aeb"> <state value="P" variable="S1490"/> <bbox w="40.0" h="10.0" x="22149.092" y="19113.0"/> </glyph> <glyph class="unit of information" id="_6be3197a-36a3-4e9b-acb3-6aed8c516e0e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22146.56" y="19113.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa59_ce_sa59" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa59_ce_sa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ABL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ABL1"/> <bbox w="80.0" h="40.0" x="10225.287" y="11139.0"/> <glyph class="state variable" id="_177fc452-433e-46e3-a338-190251d92553"> <state value="" variable="S465"/> <bbox w="30.0" h="10.0" x="10210.287" y="11153.968"/> </glyph> </glyph> <glyph class="source and sink" id="s_id_ad_sa876_ad_sa876" compartmentRef="s_id_ad_ca2_ad_ca2"> <label text="ad_sa822_degraded"/> <bbox w="30.0" h="30.0" x="28991.0" y="5970.0"/> </glyph> <glyph class="phenotype" id="s_id_ca_sa19_ca_sa19"> <label text="GROWTH_FACTORS_PRODUCTION"/> <bbox w="275.0" h="63.0" x="3712.5" y="5088.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa277_rc_sa277" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa277_rc_sa277"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:NDUFAF2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NDUFAF2"/> <bbox w="80.0" h="40.0" x="18213.31" y="13844.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa533_ca_sa533" compartmentRef="s_id_te_ca4_ca_ca5"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa533_ca_sa533"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IRAK4"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IRAK4"/> <bbox w="80.0" h="40.0" x="1930.0" y="1370.0"/> </glyph> <glyph class="complex" id="s_id_ce_csa10_ce_csa10" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:CETN2:RAD23*:XPC</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="CETN2/RAD23*/XPC"/> <bbox w="122.0" h="169.0" x="8789.473" y="15771.356"/> <glyph class="macromolecule" id="s_id_ce_sa424_ce_sa424"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RAD23 homolog A (S. cerevisiae)</p> <p>HUGO:RAD23A, HGNC:9812, ENTREZ:5886, UNIPROT:P54725</p> <p>RAD23 homolog B</p> <p>HUGO:RAD23B, HGNC:9813, ENTREZ:5887, UNIPROT:P54727</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="RAD23*"/> <bbox w="80.0" h="40.0" x="8809.973" y="15821.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa423_ce_sa423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>xeroderma pigmentosum, complementation group C</p> <p>HUGO:XPC, HGNC:12816, ENTREZ:7508, UNIPROT:Q01831</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER, MODULE:BER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="XPC"/> <bbox w="80.0" h="40.0" x="8814.973" y="15776.856"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa425_ce_sa425"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Centrin, EF-hand protein, 2</p> <p>HUGO:CETN2, HGNC:1867, ENTREZ:1069, UNIPROT:P41208</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> <p>References:</p> <p>PMID:20211143, PMID:19809470, PMID:15703371, PMID:19847258, PMID:16697054, PMID:12648680, PMID:17884153, PMID:11900249</p> </body> </html> </notes> <label text="CETN2"/> <bbox w="80.0" h="40.0" x="8807.973" y="15862.856"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa7_wca1_wca3_csa7" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAF*:BAF155*:BAF180*:BAF250*:BAF45A*:BAF47*:BAF53A*:BAF57*:BAF60A*:BRD7:BRG1*:_beta_-actin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>ATP-dependent chromatin-remodeling complex</p> <p>PMID:21358755</p> <p>s_wca3_re44(MAP:survival):</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> <p>SWI/SNF</p> <p>s_wca3_re116(MAP:survival):</p> <p>PMID:22761862</p> <p>Swi/SNF complex </p> <p>NuRD complex:</p> <p>b-catenin/CTBP/Hipk2/LEF1 complex</p> <p>PMID:17666529</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa7_wca1_wca3_csa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21358755"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17666529"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(SWI/SNF)"/> <bbox w="262.0" h="198.0" x="22049.06" y="22410.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa62_wca1_wca3_sa62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SWI/SNF related matrix associated actin dependent regulator of chromatin subfamily e member 1</p> <p>HUGO:SMARCE1 HGNC:11109 ENTREZ:6605 UNIPROT:Q969G3 GENECARDS:SMARCE1 KEGG:6605 ATLASONC:GC_SMARCE1 WIKI:SMARCE1</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF57*"/> <bbox w="80.0" h="40.0" x="22061.06" y="22539.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa58_wca1_wca3_sa58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SWI/SNF related matrix associated actin dependent regulator of chromatin subfamily d member 1</p> <p>HUGO:SMARCD1 HGNC:11106 ENTREZ:6602 UNIPROT:Q96GM5 GENECARDS:SMARCD1 KEGG:6602 ATLASONC:GC_SMARCD1 WIKI:SMARCD1</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF60A*"/> <bbox w="80.0" h="40.0" x="22222.06" y="22456.334"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa55_wca1_wca3_sa55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>AT rich interactive domain 1A (SWI-like)</p> <p>"AT rich interactive domain 1A (SWI- like)" C1orf4 SMARCF1 "SWI/SNF related matrix associated actin dependent regulator of chromatin subfamily f member 1"</p> <p>HUGO:ARID1A HGNC:11110 ENTREZ:8289 UNIPROT:O14497 GENECARDS:ARID1A KEGG:8289 ATLASONC:GC_ARID1A WIKI:ARID1A</p> <p>Map modules:</p> <p>MAP:cellcycle / MODULE:RB</p> </body> </html> </notes> <label text="BAF250*"/> <bbox w="80.0" h="40.0" x="22222.06" y="22415.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa59_wca1_wca3_sa59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>actin-like 6A</p> <p>HUGO:ACTL6A HGNC:24124 ENTREZ:86 UNIPROT:O96019 GENECARDS:ACTL6A KEGG:86 ATLASONC:GC_ACTL6A WIKI:ACTL6A</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF53A*"/> <bbox w="80.0" h="40.0" x="22061.06" y="22497.666"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa60_wca1_wca3_sa60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SWI/SNF related matrix associated actin dependent regulator of chromatin subfamily b member 1</p> <p>SNF5L1</p> <p>HUGO:SMARCB1 HGNC:11103 ENTREZ:6598 UNIPROT:Q12824 GENECARDS:SMARCB1 KEGG:6598 ATLASONC:SMARCB1ID169 WIKI:SMARCB1</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF47*"/> <bbox w="80.0" h="40.0" x="22141.06" y="22497.666"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa54_wca1_wca3_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SWI/SNF related matrix associated actin dependent regulator of chromatin subfamily a member 4</p> <p>SNF2L4</p> <p>HUGO:SMARCA4 HGNC:11100 ENTREZ:6597 UNIPROT:P51532 GENECARDS:SMARCA4 KEGG:6597 ATLASONC:SMARCA4ID42333ch19p13 WIKI:SMARCA4</p> <p>Map modules:</p> </body> </html> </notes> <label text="BRG1*"/> <bbox w="80.0" h="40.0" x="22141.06" y="22415.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa53_wca1_wca3_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>barrier to autointegration factor 1</p> <p>HUGO:BANF1 HGNC:17397 ENTREZ:8815 UNIPROT:O75531 GENECARDS:BANF1 REACTOME:50669 KEGG:8815 WIKI:BANF1</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF*"/> <bbox w="80.0" h="40.0" x="22061.06" y="22415.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa64_wca1_wca3_sa64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>bromodomain containing 7</p> <p>"bromodomain-containing 7"</p> <p>HUGO:BRD7 HGNC:14310 ENTREZ:29117 UNIPROT:Q9NPI1 GENECARDS:BRD7 KEGG:29117 ATLASONC:GC_BRD7 WIKI:BRD7</p> <p>Map modules:</p> </body> </html> </notes> <label text="BRD7"/> <bbox w="80.0" h="40.0" x="22222.06" y="22539.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa57_wca1_wca3_sa57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SWI/SNF related matrix associated actin dependent regulator of chromatin subfamily c member 1</p> <p>HUGO:SMARCC1 HGNC:11104 ENTREZ:6599 UNIPROT:Q92922 GENECARDS:SMARCC1 KEGG:6599 ATLASONC:GC_SMARCC1 WIKI:SMARCC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF155*"/> <bbox w="80.0" h="40.0" x="22141.06" y="22456.334"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa56_wca1_wca3_sa56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polybromo 1</p> <p>HUGO:PBRM1 HGNC:30064 ENTREZ:55193 UNIPROT:Q86U86 GENECARDS:PBRM1 KEGG:55193 ATLASONC:GC_PBRM1 WIKI:PBRM1</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF180*"/> <bbox w="80.0" h="40.0" x="22061.06" y="22456.334"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa61_wca1_wca3_sa61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PHD finger protein 10</p> <p>HUGO:PHF10 HGNC:18250 ENTREZ:55274 UNIPROT:Q8WUB8 GENECARDS:PHF10 KEGG:55274 ATLASONC:GC_PHF10 WIKI:PHF10</p> <p>Map modules:</p> </body> </html> </notes> <label text="BAF45A*"/> <bbox w="80.0" h="40.0" x="22222.06" y="22497.666"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa63_wca1_wca3_sa63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>actin beta</p> <p>HUGO:ACTB HGNC:132 ENTREZ:60 UNIPROT:P60709 GENECARDS:ACTB REACTOME:49576 KEGG:60 ATLASONC:ACTBID42959ch7p22 WIKI:ACTB</p> <p>Map modules:</p> </body> </html> </notes> <label text="β-actin*"/> <bbox w="80.0" h="40.0" x="22141.06" y="22539.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3497_rc_sa3497" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3497_rc_sa3497"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:USP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="USP3"/> <bbox w="80.0" h="40.0" x="19141.56" y="16434.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa3344_rc_sa3344" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3344_rc_sa3344"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CRADD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CRADD"/> <bbox w="80.0" h="40.0" x="24339.06" y="12459.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ad_sa1099_ad_sa1099" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. DTX1 ----- content merged by Celldesigner to SBGN-ML translation ------ MODULE:TCR_SIGNALINGPMID:19592273 Dtx1 was a transcription target of nuclear factor of activated T cells (NFAT) and participated in T cell anergy. DTX1 protein was upregulated during T cell anergy, and transgenic expression of Dtx1 attenuated T cell activation. DTX1 inhibited T cell activation by both E3-dependent and E3-independent mechanisms. In addition, DTX1 suppressed T cell activation in the absence of its Notch-binding domain. Importantly, DTX1 regulated the expression of two anergy-associated molecules, growth arrest and DNA-damage-inducible 45 beta (Gadd45 beta) and Cbl-b. DTX1 interacted with early growth response 2 (Egr-2) for optimum expression of Cbl-b. Furthermore, deficiency of DTX1 augmented T cell activation, conferred resistance to anergy induction, enhanced autoantibody generation, and increased inflammation. DTX1 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1099_ad_sa1099"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CBLB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592273"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CBLB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592273"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CBLB"/> <bbox w="70.0" h="25.0" x="28081.0" y="7552.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa2697_in_sa2697" compartmentRef="s_id_in_ca12_in_ca12"> <label text="trVEGFR1*"/> <bbox w="80.0" h="40.0" x="9900.0" y="6180.0"/> <glyph class="unit of information" id="_3379ded7-dc8c-491f-a0c8-d15894b2359b"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="9915.0" y="6175.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_ce_sa1612_ce_sa1612" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:PMID:23892398For A_NHEJ:PMID:22258607, PMID:22918414, PMID:21376743, PMID:24050180, PMID:22743550, PMID:23897299Double strand break trigers MRN complex association, the first step in DNA damage recognition and initiation of G2/M checkpointPMID:17303408 ----- content merged by Celldesigner to SBGN-ML translation ------ DNA with double strand breakNode_Type:GenericMap modules:MODULE:DNA_REPAIR, MODULE:A_NHEJReferences:PMID:23892398For A_NHEJ:PMID:22258607, PMID:22918414, PMID:21376743, PMID:24050180, PMID:22743550, PMID:23897299Double strand break trigers MRN complex association, the first step in DNA damage recognition and initiation of G2/M checkpointPMID:17303408 </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa1612_ce_sa1612"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23897299"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23892398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22918414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743550"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23897299"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="A_NHEJ_DNA_st1*"/> <bbox w="150.0" h="26.0" x="13566.926" y="15502.0"/> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa6_wca1_wca3_csa6" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ASH2L:DPY30:HCF2*:MLL2:Menin*:RBBP5:RPB2*:WDR5</p> <p>References:</p> <p>PMID:17168535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa6_wca1_wca3_csa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17168535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(MLL2)"/> <bbox w="184.0" h="190.0" x="22295.06" y="22155.0"/> <glyph class="macromolecule" id="s_id_wca1_wca3_sa48_wca1_wca3_sa48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>myeloid/lymphoid or mixed-lineage leukemia 2</p> <p>TNRC21 "trinucleotide repeat containing 21"</p> <p>HUGO:MLL2 GENECARDS:MLL2 KEGG:9757 ATLASONC:GC_MLL2 WIKI:MLL2</p> <p>Map modules:</p> </body> </html> </notes> <label text="MLL2"/> <bbox w="80.0" h="40.0" x="22304.06" y="22200.334"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa51_wca1_wca3_sa51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dpy-30 homolog (C. elegans)</p> <p>HUGO:DPY30 HGNC:24590 ENTREZ:84661 UNIPROT:Q9C005 GENECARDS:DPY30 KEGG:84661 WIKI:DPY30</p> <p>Map modules:</p> </body> </html> </notes> <label text="DPY30"/> <bbox w="80.0" h="40.0" x="22304.06" y="22242.666"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa50_wca1_wca3_sa50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>host cell factor C2</p> <p>HUGO:HCFC2 HGNC:24972 ENTREZ:29915 UNIPROT:Q9Y5Z7 GENECARDS:HCFC2 KEGG:29915 WIKI:HCFC2</p> <p>Map modules:</p> </body> </html> </notes> <label text="HCF2*"/> <bbox w="80.0" h="40.0" x="22387.06" y="22285.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa47_wca1_wca3_sa47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>WD repeat domain 5</p> <p>HUGO:WDR5 HGNC:12757 ENTREZ:11091 UNIPROT:P61964 GENECARDS:WDR5 KEGG:11091 ATLASONC:GC_WDR5 WIKI:WDR5</p> <p>Map modules:</p> </body> </html> </notes> <label text="WDR5"/> <bbox w="80.0" h="40.0" x="22304.06" y="22285.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa49_wca1_wca3_sa49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>polymerase (RNA) II (DNA directed) polypeptide B 140kDa</p> <p>"polymerase (RNA) II (DNA directed) polypeptide B (140kD)"</p> <p>HUGO:POLR2B HGNC:9188 ENTREZ:5431 UNIPROT:P30876 GENECARDS:POLR2B REACTOME:63505 KEGG:5431 ATLASONC:GC_POLR2B WIKI:POLR2B</p> <p>Map modules:</p> </body> </html> </notes> <label text="RPB2*"/> <bbox w="80.0" h="40.0" x="22387.06" y="22242.666"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa46_wca1_wca3_sa46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma binding protein 5</p> <p>"retinoblastoma-binding protein 5"</p> <p>HUGO:RBBP5 HGNC:9888 ENTREZ:5929 UNIPROT:Q15291 GENECARDS:RBBP5 KEGG:5929 ATLASONC:GC_RBBP5 WIKI:RBBP5</p> <p>Map modules:</p> </body> </html> </notes> <label text="RBBP5"/> <bbox w="80.0" h="40.0" x="22387.06" y="22158.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa45_wca1_wca3_sa45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ash2 (absent small or homeotic)-like (Drosophila)</p> <p>"ash2 (absent small or homeotic Drosophila homolog)-like" ASH2L1</p> <p>HUGO:ASH2L HGNC:744 ENTREZ:9070 UNIPROT:Q9UBL3 GENECARDS:ASH2L KEGG:9070 ATLASONC:ASH2LID44404ch8p11 WIKI:ASH2L</p> <p>Map modules:</p> </body> </html> </notes> <label text="ASH2L"/> <bbox w="80.0" h="40.0" x="22304.06" y="22158.0"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca3_sa52_wca1_wca3_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>multiple endocrine neoplasia I</p> <p>HUGO:MEN1 HGNC:7010 ENTREZ:4221 UNIPROT:O00255 GENECARDS:MEN1 REACTOME:59151 KEGG:4221 ATLASONC:MEN1ID148 WIKI:MEN1</p> <p>Map modules:</p> </body> </html> </notes> <label text="Menin*"/> <bbox w="80.0" h="40.0" x="22387.06" y="22200.334"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa183_wca1_wca1_sa183" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re31(MAP:survival):</p> <p>PMID:19561074 </p> <p>PI4KIIalpha and PIP5KIbeta are in complex together with DVL. To keep complex clear the enzymes are left outside of this complex</p> <p>s_wca1_re59:(MAP:survival) PMID:21304492</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_sa183_wca1_wca1_sa183"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="22696.06" y="18166.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_an_sa327_an_sa327" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="ANGPT2"/> <bbox w="90.0" h="25.0" x="7206.0" y="7763.0"/> <glyph class="unit of information" id="_f8747c05-b88d-4c55-b1ca-6f8399a60c08"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="7241.0" y="7758.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa976_in_sa976" compartmentRef="s_id_in_ca12_in_ca12"> <label text="KLF4"/> <bbox w="80.0" h="40.0" x="12650.0" y="4800.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa359_emtc_em_csa359" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MMP1*:TIMP1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="(MMP1/TIMP1)"/> <bbox w="102.0" h="83.0" x="1986.0" y="19101.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa2519_emtc_em_sa2519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TIMP metallopeptidase inhibitor 1</p> <p>"tissue inhibitor of metalloproteinase 1"</p> <p>HUGO:TIMP1 HGNC:11820 ENTREZ:7076 UNIPROT:P01033</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="TIMP1"/> <bbox w="38.0" h="18.0" x="2016.5" y="19105.625"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2520_emtc_em_sa2520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MMP1 </p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> 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compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1094_emtc_em_sa1094"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGAP5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGAP5"/> <bbox w="66.0" h="16.0" x="5704.5" y="14236.0"/> </glyph> <glyph class="complex" id="s_id_ad_csa59_ad_csa59" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:</p> <p>depletion of NMII (nonmuscle myosin II) reduced CTL-mediated cytotoxicity, implying that myosin-dependent forces contribute to mechanopotentiation during target cell killing.</p> <p>PMID:19349987</p> <p>Myosin IIA is activated during T cell stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa59_ad_csa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19349987"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYOSIN_IIA"/> <bbox w="100.0" h="170.0" x="30218.5" y="6135.0"/> <glyph class="macromolecule" id="s_id_ad_sa552_ad_sa552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MYL6, </p> <p>HUGO:MYL6B</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B</p> <p>PMID:19349987</p> </body> </html> </notes> <label text="ELC_MYOSIN_II*"/> <bbox w="80.0" h="40.0" x="30228.5" y="6190.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa553_ad_sa553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MYL9, </p> <p>HUGO:MYL12A</p> <p>HUGO:MYL12B</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:25712372</p> <p>In mammals,</p> <p>three genes (MYH9, MYH10, MYH14) encode for three</p> <p>non-muscle myosin-2 isoforms referred to as -2A, -2B, and -</p> <p>2C, respectively. Most cells simultaneously express two or</p> <p>three non-muscle myosin-2 paralogs and their splice variants</p> <p>in a strictly regulated manner. Each mammalian non-muscle</p> <p>myosin-2 heavy chain associates with one ELC encoded by</p> <p>one of two genes (MYL6, MYL6B) and with one RLC</p> <p>encoded by either MYL9, MYL12A, or MYL12B.</p> <p>MLCK and ROCK phosphorylares RLC</p> <p>PMID:19349987</p> </body> </html> </notes> <label text="RLC_MYOSIN_II*"/> <bbox w="80.0" h="40.0" x="30228.5" y="6235.0"/> <glyph class="state variable" id="_72715298-ab94-4409-8e38-00373438691c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="30221.0" y="6250.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_ad_sa551_ad_sa551"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MYH9</p> <p>MODULE:TCR_SIGNALING</p> <p>CASCADE:CR3</p> <p>PMID:16606694</p> <p>Phosphorylated WIPF1 provides recruitment of of F-actin and MYH9 (myosin IIA) to multiprotein WASP :WIPF1 complexs.</p> <p>PMID:19349987</p> <p>T cell antigen receptor signaling and immunological synapse stability require myosin IIA.</p> <p>Three genes encode mammalian non-muscle myosin II heavy chains, referred to as MyH9 {http://www.signaling-gateway.org/molecule/query?afcsid=A004003}, MyH10 and MyH14 (refs. 21, 22)21, 22. Of these three isoforms, only MyH9 is dominant in T cells</p> </body> </html> </notes> <label text="MYH9"/> <bbox w="86.0" h="46.0" x="30225.5" y="6142.0"/> <glyph class="unit of information" id="_80882385-bd16-450a-96a2-29ea5af78ec5"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="30258.5" y="6137.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa37_ad_sa37" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CELL:TCD4</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:1825141; PMID:2965306</p> <p>The stacks contact the plasma membrane (Stinchcombe et al., 2006), which would lead to very focused secretion of cytokines. Interleukin 2 (IL2), IL4, IL5, and interferon-g are all secreted in a polarized manner toward the target APC</p> <p>by T-helpers</p> <p>PMID:26755705</p> <p> the combinatory blockade of CD112R and TIGIT significantly promoted the secretion of cytokines, including IL-2, IL-5, IL-10, IL-13, and IFN-γ</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa37_ad_sa37"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1825141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2965306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26755705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL5"/> <bbox w="80.0" h="40.0" x="26606.0" y="7970.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4769_rc_sa4769" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4769_rc_sa4769"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EIF2S1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EIF2S1"/> <bbox w="80.0" h="40.0" x="27329.06" y="15389.0"/> <glyph class="state variable" id="_3ae74ca6-1f0b-4d42-a2f0-00b9596ca5e1"> <state value="" variable="Ser51"/> <bbox w="35.0" h="10.0" x="27368.51" y="15384.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa305_rc_csa305" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2-XL*:TMBIM6</p> </body> </html> </notes> <label text="BCL2L1:TMBIM6"/> <bbox w="99.0" h="124.0" x="23019.81" y="14207.0"/> <glyph class="macromolecule" id="s_id_rc_sa2596_rc_sa2596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>transmembrane BAX inhibitor motif containing 6</p> <p>HUGO:TMBIM6 HGNC:11723 ENTREZ:7009 UNIPROT:P55061</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <label text="TMBIM6"/> <bbox w="80.0" h="40.0" x="23028.31" y="14258.5"/> <glyph class="unit of information" id="_94eb88cb-4fc7-4c94-b113-6d707e7886b6"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23045.81" y="14253.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2595_rc_sa2595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="23029.31" y="14215.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa2506_emtc_em_sa2506" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2506_emtc_em_sa2506"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MMP14"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MMP14*"/> <bbox w="63.0" h="16.0" x="1814.0" y="18884.0"/> <glyph class="unit of information" id="_0e58fc56-30d0-4099-982f-e86d044b7ea4"> <label text="truncated"/> <bbox w="50.0" h="10.0" x="1820.5" y="18879.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa3683_rc_sa3683" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ChEBI: 37550</p> <p>PMID:23563662 </p> <p>Regulation of the sphingosine kinase/sphingosine 1-phosphate pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa3683_rc_sa3683"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23563662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Sphingosine-1-P"/> <bbox w="120.0" h="27.0" x="20149.06" y="11062.75"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc4_csa14_wnc1_wnc4_csa14" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER2:PtdIns-</p> <p>References:</p> <p>PMID:22898821</p> <p>s_wnc4_re36:(MAP:survival) PMID:22898821,</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc4_csa14_wnc1_wnc4_csa14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22898821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22898821"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AMER2:PtdIns-"/> <bbox w="100.0" h="120.0" x="18216.06" y="20428.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc4_sa115_wnc1_wnc4_sa115"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>APC membrane recruitment protein 2</p> <p>FAM123A, "family with sequence similarity 123A"</p> <p>HUGO:AMER2 HGNC:26360 ENTREZ:219287 UNIPROT:Q8N7J2 GENECARDS:AMER2 KEGG:219287 WIKI:AMER2</p> <p>Map modules:</p> </body> </html> </notes> <label text="AMER2"/> <bbox w="80.0" h="40.0" x="18229.06" y="20470.0"/> </glyph> <glyph class="simple chemical" id="s_id_wnc1_wnc4_sa116_wnc1_wnc4_sa116"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns-(4,5)-P2"/> <bbox w="70.0" h="25.0" x="18233.06" y="20439.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2666_in_sa2666" compartmentRef="s_id_in_ca13_in_ca13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 10705574, 20644254, 11306493 Charge: 0 <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:GSF1, CASCADE:IL4</p> <p>References:</p> <p>PMID:10705574</p> <p>CSF1 acts via CSF1R</p> <p>PMID:20644254</p> <p>HIF2a induces macrophage migration via upregulation of CXCR4, FN1 expression and upregulation of CSF1R protein level.</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <p>and blocks gp130 and CSF1R (CD115)surface expression.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa2666_in_sa2666"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CSF1R"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10705574"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20644254"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11306493"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSF1R"/> <bbox w="80.0" h="50.0" x="9370.0" y="2475.0"/> <glyph class="unit of information" id="_ec224977-7d70-4c44-849a-a28ba4d4e506"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9387.5" y="2470.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa48_gf1_sa48" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:20430953</p> <p>All EGF family members bind to a group of four receptor tyrosine kinases, namely ErbB-1/EGFR through -4 (also called HER1???4). Like other tyrosine kinases, each ErbB molecule comprises an extracellular domain to allow ligand binding, a single transmembrane part, and an intracellular protein tyrosine kinase domain. It is important noting that not all ErbB receptors act autonomously: ErbB-2 (also called HER2 and Neu) binds no known EGF-like ligand (56), and ErbB-3 shows no tyrosine kinase activity (40).</p> <p>PMID:28513565 </p> <p>Epidermal growth factor receptor (EGFR) signaling pathways leading to G1/S cell cycle progression activated by EGF activation. Depicted are the RAS-RAF-MEK-ERK MAPK and PI3K-AKT-mTOR pathways.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa48_gf1_sa48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:EGFR"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20430953"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28513565"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EGFR"/> <bbox w="80.0" h="50.0" x="9135.561" y="17934.5"/> <glyph class="unit of information" id="_68759dde-bf4e-4245-a5bd-8f4c0657f56b"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9153.061" y="17929.5"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_in_sa510_in_sa510" compartmentRef="s_id_in_ca12_in_ca12"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa510_in_sa510"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11385609"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16204085"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12393695"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9438848"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11062502"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20363967"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536084"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11907067"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11777960"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PIP3*"/> <bbox w="70.0" h="25.0" x="16930.0" y="3457.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1380_in_sa1380" compartmentRef="s_id_in_ca12_in_ca12"> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="12360.0" y="6730.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa222_te_sa222" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa222_te_sa222"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GAR1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GAR1"/> <bbox w="80.0" h="40.0" x="5369.06" y="21920.0"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1073_emtc_em_sa1073" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1073_emtc_em_sa1073"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ARHGDIB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ARHGDIB"/> <bbox w="60.0" h="17.0" x="5451.5" y="14331.0"/> </glyph> <glyph class="complex" id="s_id_in_csa163_in_csa163" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa163_in_csa163"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10705574"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CSF1R:CSF1"/> <bbox w="100.0" h="120.0" x="9090.0" y="2290.0"/> <glyph class="macromolecule" id="s_id_in_sa1067_in_sa1067"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:GSF1, CASCADE:IL4</p> <p>References:</p> <p>PMID:10705574</p> <p>CSF1 acts via CSF1R</p> <p>PMID:20644254</p> <p>HIF2a induces macrophage migration via upregulation of CXCR4, FN1 expression and upregulation of CSF1R protein level.</p> <p>PMID:11306493</p> <p>IL4 signaling prevents CSF2RA(CD116) lost on DC surface in tumor microenviroment.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF1R"/> <bbox w="80.0" h="50.0" x="9100.0" y="2345.0"/> <glyph class="unit of information" id="_aa893de2-6b3f-4e31-afb6-5f43efd64427"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9117.5" y="2340.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1066_in_sa1066"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:GSF1, CASCADE:IL4</p> <p>References:</p> <p>PMID:11306493</p> <p>IL4 signaling blocks CSF (M-CSF) production in DC induced by tumor cells.</p> <p>PMID:24669294</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="CSF1"/> <bbox w="80.0" h="40.0" x="9100.0" y="2300.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa105_ce_csa105" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:E2F1:RB1</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE</p> </body> </html> </notes> <label text="E2F1/RB1"/> <bbox w="105.0" h="115.0" x="12121.473" y="9852.356"/> <glyph class="macromolecule" id="s_id_ce_sa756_ce_sa756"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>E2F transcription factor 1</p> <p>HUGO:E2F1, HGNC:3113, ENTREZ:1869, UNIPROT:Q01094</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E2F1"/> <bbox w="80.0" h="40.0" x="12131.473" y="9858.356"/> <glyph class="state variable" id="_c197f5c2-2959-4fe1-adb8-7e7cb7861e73"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="12206.473" y="9873.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa757_ce_sa757"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>retinoblastoma 1</p> <p>HUGO:RB1, HGNC:9884, ENTREZ:5925, UNIPROT:P06400</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:G1_CC_PHASE, MODULE:S_CC_PHASE, MODULE:G1_S_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786, PMID:7935440</p> </body> </html> </notes> <label text="RB1"/> <bbox 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:BAD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD"/> <bbox w="70.0" h="25.0" x="21437.215" y="16294.071"/> </glyph> <glyph class="complex" id="s_id_in_csa307_in_csa307" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa307_in_csa307"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15081523"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s3757"/> <bbox w="100.0" h="180.0" x="18227.5" y="1590.0"/> <glyph class="macromolecule" id="s_id_in_sa2238_in_sa2238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FCER1G"/> <bbox w="80.0" h="50.0" x="18237.5" y="1695.0"/> <glyph class="state variable" id="_17909486-0281-4b56-8b80-6c0cfadc1974"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18230.0" y="1715.0"/> </glyph> <glyph class="unit of information" id="_108c44ad-4a64-4f22-9cbf-554f96e6a5ea"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18255.0" y="1690.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2226_in_sa2226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="FCAR"/> <bbox w="80.0" h="50.0" x="18237.5" y="1645.0"/> <glyph class="unit of information" id="_537bf2b8-40bb-4b47-b0e1-6ce3fabd1cd9"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="18255.0" y="1640.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2228_in_sa2228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Immunoglobulins*"/> <bbox w="80.0" h="40.0" x="18237.5" y="1600.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa40_wnc1_wnc1_csa40" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:FZD*:PAR6*:PRICKLE1:PRR*:RACK1*:ROR2:SYN4*:VANGL*:WNT*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re64(MAP:survival):</p> <p>For the Fzl receptor, probably same mechanism as for the canonical MODULE.</p> <p>CK1 epsilon is activated upon Wnt-5 stimulation, however, the mechanism is unknown.</p> <p>PMID:17244647</p> <p>PMID:20215527</p> <p>s_wnc1_re66(MAP:survival):</p> <p>Polymerisation of Dvl-proteins is not associated with endosomes or other vesicles. Polymerization of Dvl acts as scaffold for recruiting Rac1</p> <p>PMID:20457807</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa40_wnc1_wnc1_csa40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17244647"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20457807"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CK1ε*:CTHRC1:FZD*:PAR6*:PRICKLE1:PRR*:RACK1*:ROR2:SYN4*:VANGL*:WNT*"/> <bbox w="371.0" h="168.0" x="16849.06" y="19300.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa405_wnc1_wnc1_sa405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="16941.56" y="19375.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa248_wnc1_wnc1_sa248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="17101.56" y="19328.5"/> <glyph class="state variable" id="_04443ee5-8d03-4db1-a7d2-cb82fdd45336"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="17166.56" y="19323.766"/> </glyph> <glyph class="state variable" id="_9d517cc5-a912-4647-85d4-d2f807528f3f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17136.56" y="19373.5"/> </glyph> <glyph class="state variable" id="_689f6bd6-713f-4de6-9be6-77e62879d9b4"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17096.564" y="19323.5"/> </glyph> <glyph class="state variable" id="_f48b02f5-4b3e-4531-a369-e5333dc4acef"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="17176.56" y="19373.5"/> </glyph> <glyph class="unit of information" id="_0eb64da2-7202-4e40-9e6d-4a1c0266adad"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17119.06" y="19323.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa247_wnc1_wnc1_sa247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="17020.56" y="19328.5"/> <glyph class="unit of information" id="_5f07e459-fcb6-4ab0-b7da-f27a1be870bd"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="17038.06" y="19323.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa613_wnc1_wnc1_sa613"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="17051.56" y="19385.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa289_wnc1_wnc1_sa289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="17123.56" y="19309.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa250_wnc1_wnc1_sa250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="17133.06" y="19384.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa401_wnc1_wnc1_sa401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>prickle homolog 1 (Drosophila)</p> <p>"prickle-like 1 (Drosophila)"</p> <p>HUGO:PRICKLE1 HGNC:17019 ENTREZ:144165 UNIPROT:Q96MT3 GENECARDS:PRICKLE1 KEGG:144165 ATLASONC:GC_PRICKLE1 WIKI:PRICKLE1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="PRICKLE1"/> <bbox w="80.0" h="40.0" x="16859.56" y="19417.0"/> <glyph class="state variable" id="_c643d923-a47a-4250-aead-e78dc25dc36c"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16932.06" y="19412.0"/> </glyph> <glyph class="state variable" id="_8e409d34-dd9a-4c91-b58f-8739d54e0bee"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16854.564" y="19412.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa315_wnc1_wnc1_sa315"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="16858.56" y="19373.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa249_wnc1_wnc1_sa249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="17082.56" y="19305.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa311_wnc1_wnc1_sa311"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="16857.56" y="19322.0"/> <glyph class="state variable" id="_71a05357-63b5-4554-bd64-9c0e70ca71fb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16852.564" y="19317.0"/> </glyph> <glyph class="state variable" id="_cd402982-8ba1-41ba-b1e8-7a5f39b68c4a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16932.56" y="19317.0"/> </glyph> <glyph class="state variable" id="_0e8da0ef-4178-45fa-8457-eed67610f61e"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16932.56" y="19342.0"/> </glyph> <glyph class="state variable" id="_30382725-81a7-40b5-b8a0-5db9e9153ccb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16852.56" y="19342.0"/> </glyph> <glyph class="unit of information" id="_a3a6beb1-85b6-457a-8fe1-4b32b483bfaf"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16875.06" y="19317.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa295_wnc1_wnc1_sa295"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="16938.56" y="19323.0"/> <glyph class="unit of information" id="_01099c20-d3f6-4e21-b68c-a62bb0754f35"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16956.06" y="19318.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2540_rc_sa2540" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2540_rc_sa2540"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CYCS"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="20889.06" y="13249.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1036_ad_sa1036" compartmentRef="s_id_ad_ca2_ad_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:10807788; PMID:24027568; PMID:14764585 </p> <p> RasGRP, a Ras activator that contains calcium-binding EF hands and a DAG-binding domain, is expressed in T cells. A PLC-gamma1 inhibitor diminished activation of Ras following TCR stimulation. Membranes from TCR-stimulated Jurkat T cells exhibited increased RasGRP and increased Ras-guanyl nucleotide association activity that was inhibited by antibodies directed against RasGRP. Overexpression of RasGRP in T cells enhanced TCR-Ras-Erk signaling and augmented interleukin-2 secretion in response to calcium ionophore plus DAG analogues phorbol ester myristate or bryostatin-1. Thus, RasGRP links TCR and PLC-gamma1 to Ras-Erk signaling, a pathway amenable to pharmacologic manipulation.</p> <p>Biochemical Synergy between SOS1 and RasGRP1 in Ras activation</p> <p>both the phosphorylation of ERK and the activation of Ras were reduced by treatment with U73122 (PLCG inhibitor) to a level similar to that observed in Vav1–/– cells</p> <p>In contrast to the effects of U73122, treatment of wild-type DP thymocytes with BAPTA, which blocks the intracellular calcium flux by chelating Ca2+, had no effect on TCR-induced ERK phosphorylation</p> <p>PMID:15184873 </p> <p>The action of Vav and Rac1 proteins on RasGRP1 is specifically dependent on PLCG activity</p> <p>The effect of the Vav/Rac pathway on RasGRP1 is independent of the kinase activity of PI3-K</p> <p>Vav and Rac1 proteins promote constitutive tyrosine phosphorylation and increased membrane localization of PLC- in Jurkat cells</p> <p>The interaction between Vav and RasGRP1 results in enhanced activation of Ras- and Rac-dependent biological responses</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1036_ad_sa1036"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RASGRP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10807788"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24027568"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14764585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15184873"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RASGRP1"/> <bbox w="80.0" h="40.0" x="28356.0" y="4105.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa409_rc_csa409" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:FAS:FASLG</p> <p>References:</p> <p>22075988</p> </body> </html> </notes> <label text="FAS:FASLG"/> <bbox w="100.0" h="130.0" x="25729.06" y="9104.0"/> <glyph class="macromolecule" id="s_id_rc_sa4050_rc_sa4050"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas ligand (TNF superfamily, member 6)</p> <p>HUGO:FASLG HGNC:11936 ENTREZ:356 UNIPROT:P48023</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>HUGo:FASLG</p> </body> </html> </notes> <label text="FASLG"/> <bbox w="80.0" h="40.0" x="25739.06" y="9114.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4000_rc_sa4000"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Fas cell surface death receptor</p> <p>HUGO:FAS HGNC:11920 ENTREZ:355 UNIPROT:P25445</p> <p>Map modules:</p> <p>MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:FAS_RESPONSE, MODULE:RCD_GENES</p> <p>References:</p> <p>PMID:12724420</p> <p>PMID:23069999 </p> <p>Fas is a death receptor, upon ligation of his ligand, it trigger apoptosis</p> <p>PMID:19597341</p> <p>PMID:16498403</p> </body> </html> </notes> <label text="FAS"/> <bbox w="80.0" h="50.0" x="25739.06" y="9159.0"/> <glyph class="state variable" id="_1d25ae0d-68b9-4c37-aa08-901955ad26c7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="25814.06" y="9168.644"/> </glyph> <glyph class="unit of information" id="_f48b4dea-daaa-4489-8691-81093c6cfc96"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="25756.56" y="9154.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1194_in_sa1194"> <label text="CCL5"/> <bbox w="80.0" h="40.0" x="14060.0" y="1105.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa985_ca_sa985" compartmentRef="s_id_ca_ca6_ca_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa985_ca_sa985"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCL5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CCL5"/> <bbox w="80.0" h="40.0" x="1082.5" y="4595.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4198_rc_sa4198" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4198_rc_sa4198"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CA"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TrkA*"/> <bbox w="80.0" h="50.0" x="21159.06" y="9154.0"/> <glyph class="unit of information" id="_4f8aa1e6-9aa6-4030-a99c-afbdd87e6894"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="21176.56" y="9149.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4995_rc_sa4995" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4995_rc_sa4995"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HYOU1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GRP170*"/> <bbox w="80.0" h="40.0" x="28199.06" y="15809.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2650_rc_sa2650" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2650_rc_sa2650"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GPX2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GPX2"/> <bbox w="80.0" h="40.0" x="26889.06" y="9429.0"/> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc1_sa56_wnc1_wnc1_sa56" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wnc1_re16(MAP:survival):</p> <p>It is possible that the signalling downstream occurs as for the canonical MODULE</p> <p>PMID:20223821</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="ARF4"/> <bbox w="80.0" h="40.0" x="2058.0" y="12972.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa265_emtc_em_sa265" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa265_emtc_em_sa265"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ITGB5"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ITGB5"/> <bbox w="40.0" h="20.0" x="5085.21" y="17647.5"/> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa73_mpk1_mpk1_csa73" compartmentRef="s_id_mpk1_mpk1_ca2_mpk1_mpk1_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:TNFRSF1A:TRADD</p> </body> </html> </notes> <label text="TNFRSF1A:TRADD"/> <bbox w="126.0" h="83.0" x="9865.057" y="18909.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa434_mpk1_mpk1_sa434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>TNFRSF1A-associated via death domain</p> <p>HUGO:TRADD HGNC:12030 ENTREZ:8717 UNIPROT:Q15628</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TRADD"/> <bbox w="50.0" h="25.0" x="9902.557" y="18941.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa592_mpk1_mpk1_sa592"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tumor necrosis factor receptor superfamily member 1A</p> <p>TNFR1</p> <p>HUGO:TNFRSF1A HGNC:11916 ENTREZ:7132 UNIPROT:P19438</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> </body> </html> </notes> <label text="TNFRSF1A"/> <bbox w="70.0" h="25.0" x="9893.061" y="18918.0"/> <glyph class="unit of information" id="_2df6a9fd-6dec-4e3c-bc9a-9cbf4e0d0926"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="9905.561" y="18913.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa756_ad_sa756" compartmentRef="s_id_ad_ca8_ad_ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR</p> <p>MODULE:SMAC</p> <p>PMID:20828560</p> <p>In T cells, a dimer of the TCR interacting molecule (TRIM) is also part of the receptor complex (Fig. 1a). However, it is not known what percentage of TCRs contain TRIM. TRIM-deficient mice produce a functional, surface-expressed TCR, demonstrating that TRIM is dispensable for a functional TCR in vivo</p> <p> PMID:9687533 </p> <p>TRAT1 (TRIM)after T cell activation, TRIM becomes rapidly phosphorylated on tyrosine residues and then associates with the 85-kD regulatory subunit of PI3-kinase via an YxxM motif. Thus, TRIM represents a TCR-associated transmembrane adaptor protein which is likely involved in targeting of intracellular signaling proteins to the plasma membrane after triggering of the TCR.</p> <p>TRIM becomes tyrosine phosphorylated by lck and fyn but not by ZAP70. In addition, concomitant expression of lck and ZAP70 does not induce higher levels of TRIM tyrosine phosphorylation than expression of lck alone. Also, coexpression of TRIM and Syk in COS cells did not result in tyrosine phosphorylation of TRIM (not shown). These data indicate that TRIM could represent a protein that is preferentially phosphorylated by tyrosine kinases of the src family. To further substantiate this assumption, TCR-mediated tyrosine phosphorylation of TRIM was analyzed in wild-type Jurkat cells and in a Jurkat variant lacking expression of both ZAP70 and Syk tyrosine kinases (P116 cells [12]). As shown in Fig. ​Fig.1010 C, TRIM becomes strongly tyrosine phosphorylated in P116 cells after engagement of the TCR or upon Pervanadate stimulation. In addition, preincubation of P116 cells with the recently described inhibitor for src-kinases, PP1 (15), completely abrogates TCR-mediated tyrosine phosphorylation of TRIM. Thus, tyrosine phosphorylation of TRIM can occur independently of expression of members of the Syk family PTKs and can be prevented by an inhibitor with a proposed specificity for src-kinases.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa756_ad_sa756"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TRAT1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20828560"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9687533"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TRAT1"/> <bbox w="80.0" h="40.0" x="28636.0" y="2965.0"/> <glyph class="state variable" id="_05c86896-90c2-49e3-8291-e63c19b408a0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="28628.5" y="2980.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa2062_emtc_em_sa2062" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa2062_emtc_em_sa2062"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIN3A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SIN3A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SIN3A"/> <bbox w="44.0" h="21.0" x="3019.0" y="16014.0"/> </glyph> <glyph class="complex" id="s_id_ca_csa102_ca_csa102" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:IGF2:IGF2R</p> </body> </html> </notes> <label text="ca_s4594"/> <bbox w="100.0" h="120.0" x="5510.0" y="1050.0"/> <glyph class="macromolecule" id="s_id_ca_sa909_ca_sa909"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>insulin like growth factor 2</p> <p>HUGO:IGF2 hgnc_id:HGNC:5466 HGNC:5466 ENTREZ:3481 UNIPROT:P01344</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_PRODUCTION MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:17600088 </p> <p>IIntegrin alpha 11 regulates IGF2 expression in fibroblasts to enhance tumorigenicity of human non-small-cell lung cancer cells.</p> <p>PMID:24668028 </p> <p>IGF2 expressed by CAFs promotes tumor growth</p> <p>PMID:11237532 </p> <p>In breast cancers, both IGF-I and IGF-II</p> <p>are expressed in the stromal fibroblasts and expression</p> <p>of IGF-II in particular correlates with tumor progression</p> <p>PMID:15003992 </p> <p>TGF-β induced the myofibroblast phenotype via a CTGF-dependent pathway,</p> <p>CTGF mediates EGF-stimulated proliferation and IGF-2-induced differentiation of fibroblasts</p> </body> </html> </notes> <label text="IGF2"/> <bbox w="80.0" h="40.0" x="5520.0" y="1070.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa908_ca_sa908"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:IGF2R</p> <p>Map modules:</p> <p>MODULE:GROWTH_FACTORS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>PMID:27548915 </p> <p>One function of IGF2R is to bind to the ligand IGF2, leading to IGF2 degradation and consequently an inhibition of the growth stimulation that results from the interaction between IGF2 and IGF1R48, 49. IGF2 is upregulated in CAFs50, suggesting that IGF2R is inhibited. Therefore, reduction in IGF2R following treatment with miR-211 or melanosomes may increase IGF2 levels, promoting its binding to IGF1R, and thus leading to hyperactivation of this pathway and increased proliferation.</p> </body> </html> </notes> <label text="IGF2R"/> <bbox w="80.0" h="50.0" x="5520.0" y="1115.0"/> <glyph class="unit of information" id="_c2755638-9874-4e8b-b685-e613053fd60d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="5537.5" y="1110.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa295_emtc_em_csa295" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:SMAD2:SMAD3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="SMAD2/SMAD3"/> <bbox w="131.0" h="137.0" x="6374.5" y="17112.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1994_emtc_em_sa1994"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 3</p> <p>HUGO:SMAD3, HGNC:6769, ENTREZ:4088, UNIPROT:P84022, GENECARDS:GC15P067358</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD3"/> <bbox w="110.0" h="55.0" x="6387.0" y="17165.5"/> <glyph class="state variable" id="_8c1ed031-bc28-403b-9a03-b495d015dc81"> <state value="" variable="S213"/> <bbox w="30.0" h="10.0" x="6372.0" y="17163.803"/> </glyph> <glyph class="state variable" id="_87a6dce3-5077-4270-a91f-dc55b8ad2969"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="6430.7686" y="17215.5"/> </glyph> <glyph class="state variable" id="_ff067eee-bf6f-496d-8af0-e4443ccb2e86"> <state value="P" variable="S423"/> <bbox w="35.0" h="10.0" x="6479.5" y="17195.41"/> </glyph> <glyph class="state variable" id="_85591b24-63b3-403c-83c7-2de830af8d0f"> <state value="" variable="S422"/> <bbox w="30.0" h="10.0" x="6482.0" y="17184.404"/> </glyph> <glyph class="state variable" id="_84adfde9-b403-4503-90dd-a64ae3d9ee8e"> <state value="" variable="T179"/> <bbox w="30.0" h="10.0" x="6372.0" y="17210.166"/> </glyph> <glyph class="state variable" id="_012991cd-28a0-43d9-8e21-6526d5cce6c7"> <state value="" variable="S204"/> <bbox w="30.0" h="10.0" x="6372.0" y="17192.111"/> </glyph> <glyph class="state variable" id="_64c41a1f-80c9-49cd-bb90-42d138d7df2e"> <state value="" variable="S208"/> <bbox w="30.0" h="10.0" x="6372.0" y="17179.445"/> </glyph> <glyph class="state variable" id="_a8774ba5-671c-43ac-b0ea-dca7f945cdb1"> <state value="P" variable="S425"/> <bbox w="35.0" h="10.0" x="6479.5" y="17210.383"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1993_emtc_em_sa1993"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>HUGO:SMAD2, HGNC:6768, ENTREZ:4087, UNIPROT:Q15796, GENECARDS:GC18M045357</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9670020</p> <p>Smad2 and Smad3 form homo-oligomers upon phosphorylation by the constitutively active TGFBR1</p> <p>This oligomerization does not require Smad4.</p> <p>PMID:11074002</p> <p>Upon TGFB signaling, complex formation between Smad4 and activated Smad2 or -3 leads to nuclear accumulation of Smad4 through inhibition of its nuclear export. </p> <p>After prolonged TGFB signaling Smad2 becomes dephosphorylated and Smad2 and Smad4 accumulate back in the cytoplasm</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="110.0" h="46.0" x="6381.25" y="17113.0"/> <glyph class="state variable" id="_1fcd8fbc-b38e-4df4-bb30-65c7f4a3f364"> <state value="P" variable="S467"/> <bbox w="35.0" h="10.0" x="6473.75" y="17149.72"/> </glyph> <glyph class="state variable" id="_32ea4625-c4eb-4402-836b-b4e48a493085"> <state value="" variable="S464"/> <bbox w="30.0" h="10.0" x="6476.25" y="17129.156"/> </glyph> <glyph class="state variable" id="_97957ff7-0cdd-4572-93fb-e5229944f9a6"> <state value="" variable="T8"/> <bbox w="20.0" h="10.0" x="6427.2188" y="17154.0"/> </glyph> <glyph class="state variable" id="_2dc9f41e-5a85-409d-8458-149a07a8cff2"> <state value="P" variable="S465"/> <bbox w="35.0" h="10.0" x="6473.75" y="17138.195"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa449_rc_csa449" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:ATG101*:ATG13:FIP200*:ULK*</p> <p>References:</p> <p>23301705</p> <p>23725295</p> <p>24070470</p> <p>22166994</p> <p>23030059</p> </body> </html> </notes> <label text="ULK*:FIP200*:ATG13"/> <bbox w="213.0" h="139.0" x="28475.06" y="10972.5"/> <glyph class="macromolecule" id="s_id_rc_sa4374_rc_sa4374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>RB1-inducible coiled-coil 1</p> <p>HUGO:RB1CC1 HGNC:15574 ENTREZ:9821 UNIPROT:Q8TDY2</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:23301705</p> <p>PMID:23725295</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="FIP200*"/> <bbox w="80.0" h="40.0" x="28489.06" y="11042.333"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4505_rc_sa4505"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>chromosome 12 open reading frame 44</p> <p>HUGO:C12orf44 HGNC:25679 ENTREZ:60673 UNIPROT:Q9BSB4</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:23725295</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="ATG101*"/> <bbox w="80.0" h="40.0" x="28579.81" y="11041.917"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4373_rc_sa4373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>autophagy related 13</p> <p>HUGO:ATG13 HGNC:29091 ENTREZ:9776 UNIPROT:O75143</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:23301705</p> <p>PMID:23725295</p> <p>PMID:24070470</p> </body> </html> </notes> <label text="ATG13"/> <bbox w="80.0" h="40.0" x="28489.06" y="10993.333"/> <glyph class="state variable" id="_2d6aaeef-7531-4750-83a6-70c7fdb9af68"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28484.06" y="11000.049"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4372_rc_sa4372"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>unc-51 like autophagy activating kinase 1</p> <p>HUGO:ULK1 HGNC:12558 ENTREZ:8408 UNIPROT:O75385</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY</p> <p>References:</p> <p>PMID:23301705</p> <p>PMID:23725295</p> <p>PMID:22166994</p> <p>PMID:23030059</p> </body> </html> </notes> <label text="ULK*"/> <bbox w="80.0" h="40.0" x="28589.393" y="10992.667"/> <glyph class="state variable" id="_8eab31cf-f17a-4471-b9e8-8b8feef91e37"> <state value="P" variable="Ser 317"/> <bbox w="50.0" h="10.0" x="28644.025" y="10987.667"/> </glyph> <glyph class="state variable" id="_69a32cac-ebd7-41c9-9576-7e73acc7026d"> <state value="" variable="Ser 757"/> <bbox w="45.0" h="10.0" x="28570.428" y="10987.667"/> </glyph> <glyph class="state variable" id="_d7284af6-c759-4fab-b721-cc6d52ea677e"> <state value="P" variable="Ser 777"/> <bbox w="50.0" h="10.0" x="28640.742" y="11027.667"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2006_rc_sa2006" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2006_rc_sa2006"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C9orf3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:C9orf3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="pre-mRNA~APO*"/> <bbox w="90.0" h="25.0" x="24748.56" y="16068.5"/> <glyph class="unit of information" id="_8876ab82-5542-4597-b883-41010ef28254"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="24783.56" y="16063.5"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4894_rc_sa4894" compartmentRef="s_id_rc_ca38_rc_ca38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>References:</p> <p>loss of homeostasis</p> </body> </html> </notes> <label text="accumulation of misfolded protein in ER"/> <bbox w="250.0" h="25.0" x="27974.06" y="13097.5"/> </glyph> <glyph class="complex" id="s_id_in_csa192_in_csa192" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa192_in_csa192"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9295024"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9763615"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s1931"/> <bbox w="100.0" h="130.0" x="16332.5" y="1295.0"/> <glyph class="macromolecule" id="s_id_in_sa1457_in_sa1457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGAV"/> <bbox w="80.0" h="50.0" x="16342.5" y="1300.0"/> <glyph class="unit of information" id="_67f3e2f9-7e66-46f4-88ff-b13e5746116d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16360.0" y="1295.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1458_in_sa1458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="ITGB3"/> <bbox w="80.0" h="50.0" x="16342.5" y="1350.0"/> <glyph class="unit of information" id="_a0461f2b-2288-4a1f-bfbd-6682ae452af1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16360.0" y="1345.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa41_mpk1_mpk1_csa41" compartmentRef="s_id_mpk1_mpk1_ca5_mpk1_mpk1_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:MEK*:SEF*</p> </body> </html> </notes> <label text="ERK*:MEK*:SEF*"/> <bbox w="112.0" h="87.0" x="7868.06" y="19953.0"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa224_mpk1_mpk1_sa224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="50.0" h="25.0" x="7917.935" y="19988.75"/> <glyph class="state variable" id="_066f5761-32eb-4ad1-9a32-1816315f29aa"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7912.935" y="20000.605"/> </glyph> <glyph class="state variable" id="_501ad8b7-0f1e-48b3-b8d4-c8f966829619"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7912.935" y="19991.3"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa215_mpk1_mpk1_sa215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="50.0" h="25.0" x="7917.3213" y="19963.158"/> <glyph class="state variable" id="_6ade9746-40bd-48ab-b249-92c89175d998"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7912.3213" y="19974.824"/> </glyph> <glyph class="state variable" id="_912c0c44-fc6c-4464-b208-c668afe24d3c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7912.3213" y="19966.283"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa217_mpk1_mpk1_sa217"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 17 receptor D</p> <p>HUGO:IL17RD HGNC:17616 ENTREZ:54756 UNIPROT:Q8NFM7</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sef1 which is a putative transmembrane protein of the Golgi apparatus seems to be a scaffold protein that recruits ERK1/2 and MEK1/2 to its vicinity and probably allows their activation by Golgi-localised Ras proteins.</p> <p>Unlike many other scaffolds ERK1/2 do not dissociate from Sef1 upon stimulation and therefore nuclear translocation of the Sef1 anchored fraction of ERK1/2 molecules is blocked.</p> </body> </html> </notes> <label text="SEF*"/> <bbox w="50.0" h="25.0" x="7879.935" y="19963.75"/> </glyph> </glyph> <glyph class="complex" id="s_id_te_csa48_te_csa48" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ABL1/TERT</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10837221</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa48_te_csa48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10837221"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ABL1/TERT"/> <bbox w="100.0" h="120.0" x="5262.8936" y="19972.5"/> <glyph class="macromolecule" id="s_id_te_sa351_te_sa351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ABL proto-oncongene 1, non receptor tyrosine-kinase</p> <p>HUGO:ABL1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:10837221</p> </body> </html> </notes> <label text="ABL1"/> <bbox w="80.0" h="40.0" x="5276.8936" y="20033.5"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa350_te_sa350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>telomerase reverse transcriptase</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="TERT"/> <bbox w="80.0" h="40.0" x="5275.8936" y="19983.5"/> <glyph class="state variable" id="_52fead56-b717-49af-9df9-3807fa32a9b1"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="5268.3936" y="19998.469"/> </glyph> <glyph class="state variable" id="_24b1713c-1c36-44f5-97b9-1fdc11dc5d78"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5308.3945" y="20018.5"/> </glyph> <glyph class="state variable" id="_9e90b87b-c706-4e06-ad48-4efb35cf5185"> <state value="" variable="S227"/> <bbox w="30.0" h="10.0" x="5298.5225" y="19978.5"/> </glyph> </glyph> </glyph> <glyph class="phenotype" id="s_id_wnc1_wnc2_sa175_wnc1_wnc2_sa175" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <label text="TGF-β pathway"/> <bbox w="80.0" h="30.0" x="19504.06" y="18227.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa181_emtc_em_csa181" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ZO1*:ZO2_3*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="ZO1*/ZO2_3*"/> <bbox w="93.0" h="42.0" x="1479.5" y="15106.75"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1345_emtc_em_sa1345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ZO2_3*</p> <p>tight junction protein 2</p> <p>HUGO:TJP2, HGNC:11828, ENTREZ:9414, GENECARDS:GC09P071766, UNIPROT:Q9UDY2 </p> <p>tight junction protein 3</p> <p>HUGO:TJP3, HGNC:11829, ENTREZ:27134, GENECARDS:GC19P003659, UNIPROT:O95049</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO2_3*"/> <bbox w="50.0" h="17.0" x="1520.5" y="15109.75"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1237_emtc_em_sa1237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tight junction protein 1</p> <p>HUGO:TJP1, HGNC:11827, ENTREZ:7082, GENECARDS:GC15M029991, UNIPROT:Q07157 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15558297</p> <p>The localization of ZO-1 at gap junctions serves in part to resolve reports of ZO-1 expression in non-epithelial cells such as fibroblasts that lack tight junctions</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ZO1*"/> <bbox w="40.0" h="16.0" x="1480.5" y="15110.25"/> </glyph> </glyph> <glyph class="complex" id="s_id_an_csa1_an_csa1" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_csa1_an_csa1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="an_s23"/> <bbox w="182.0" h="121.0" x="4469.0" y="5912.0"/> <glyph class="macromolecule" id="s_id_an_sa516_an_sa516"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:12680</p> </body> </html> </notes> <label text="VEGFA"/> <bbox w="80.0" h="40.0" x="4475.4546" y="5916.8184"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa25_an_sa25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:8004</p> <p>PMID:25922287;PMID:24217602</p> <p>comments: Neuropilin (NRP)1 and NRP2 are VEGF coreceptors. NRP1 is expressed by blood endothelial cells whereas NRP2</p> <p>is expressed by venous and lymphatic endothelial cells.</p> </body> </html> </notes> <label text="NRP1"/> <bbox w="80.0" h="40.0" x="4475.0" y="5970.0"/> </glyph> <glyph class="macromolecule" id="s_id_an_sa24_an_sa24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:3763</p> <p>synonyms : VEGFR1</p> </body> </html> </notes> <label text="FLT1"/> <bbox w="80.0" h="50.0" x="4559.0" y="5968.0"/> <glyph class="unit of information" id="_9cd40864-5496-4f97-819d-12cbc67a0dd1"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="4576.5" y="5963.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa517_an_sa517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:VEGFB HGNC:12681</p> <p>Map modules:</p> 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modules:</p> <p>MODULE:CAF, MODULE:CAF_INHIBITION_ANTITUMOR</p> <p>References:</p> <p>PMID:26405600</p> <p>CAFs express MHC class II but do not provide costimulation through CD80 as normal fibroblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1072_ca_sa1072"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CD80"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26405600"/> </rdf:Bag> 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:TCR, CASCADE:AR2A</p> <p>MODULE:SMAC</p> <p>PMID:23620508</p> <p>ZAP70 (ζ-chain-associated protein of 70 kDa) is a tyrosine-protein kinase from the Syk family that docks at phosphorylated ITAMs of the TCR. Docking, subsequent phosphorylation by Lck and trans-autophosphorylation all increase kinase activity. ZAP70 phosphorylates a number of signaling proteins, including LAT and SLP-76</p> <p>PMID:7600293; PMID:8642247 </p> <p>ZAP-70 is constitutively associated with tyrosine-phosphorylated TCR zeta</p> <p>TCR ligation promotes a large increase in the tyrosine phosphorylation of ZAP-70 by Lck</p> <p>PMID:15735648 </p> <p>T cell Src family kinases (lck and fyn) and Zap70 activate p38 by phosphorylating Tyr323 downstream of TCR.</p> <p>Lck is required for activation of Zap70, which in turn phosphorylates and activates p38.</p> <p>PMID:12415267 </p> <p>c-Cbl and Cbl-b regulate T cell responsiveness by promoting ligand-induced TCR down-modulation.</p> <p>c-Cbl was highly expressed in thymocytes, whereas Cbl-b was preferentially expressed in mature T cells.</p> <p>In the TCR signaling pathway, c-Cbl inhibits ZAP-70 activation in thymocytes</p> <p>PMID:17371980</p> <p>AR2A agonist ATL313 inhibited the phosphorylation of Zap70, an effect that was reversed by the protein kinase A inhibitor H-89.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa686_ad_sa686"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ZAP70"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23620508"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7600293"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8642247"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15735648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12415267"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17371980"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ZAP70"/> <bbox w="80.0" h="40.0" x="28186.0" y="3030.0"/> <glyph class="state variable" id="_2485ea1f-bb7a-4be6-8b56-74b7e43ebec7"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="28181.0" y="3045.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2966_rc_sa2966" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:16332 KEGGCOMPOUND:C00231 CAS:60802-29-1</p> </body> </html> </notes> <label text="xylulose-5P"/> <bbox w="88.0" h="28.0" x="18425.31" y="9845.25"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa46_akt1_akt2_sa46" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa46_akt1_akt2_sa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IKBKB"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IKKβ*"/> <bbox w="80.0" h="40.0" x="12908.061" y="21175.0"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa128_emtc_em_csa128" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:AXIN2:MIR34*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="MIR34/AXIN2"/> <bbox w="80.0" h="60.0" x="3101.988" y="18178.0"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa750_emtc_em_sa750"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 34b</p> <p>HUGO:MIR34B, HGNC:31636, ENTREZ:407041, GENECARDS:GC11P111383</p> <p>microRNA 34c</p> <p>HUGO:MIR34C, HGNC:31637, ENTREZ:407042, GENECARDS:GC11P111384</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22024162</p> <p>PMID:21909380</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR34*"/> <bbox w="75.0" h="20.0" x="3105.988" y="18179.0"/> <glyph class="unit of information" id="_d1b69bc1-85ee-49b3-8569-a915ba6f2863"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3128.488" y="18174.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa749_emtc_em_sa749"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 2</p> <p>HUGO:AXIN2, HGNC:904, ENTREZ:8313, GENECARDS:GC17M063524</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="AXIN2"/> <bbox w="60.0" h="20.0" x="3120.988" y="18199.0"/> <glyph class="unit of information" id="_45fcb392-18e0-4fa1-aa28-025a2d5abfc7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3140.988" y="18194.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4716_rc_sa4716" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4716_rc_sa4716"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XBP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="uXBP1"/> <bbox w="90.0" h="25.0" x="25866.326" y="16041.5"/> <glyph class="unit of information" id="_5a5816ee-9c71-42e5-84c7-0442829c5982"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25901.326" y="16036.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa109_rc_sa109" compartmentRef="s_id_rc_ca4_rc_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa109_rc_sa109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MCL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MCL1"/> <bbox w="80.0" h="40.0" x="22379.06" y="14519.0"/> <glyph class="state variable" id="_0cd4506b-e9ec-4949-a80f-d97dd15282be"> <state value="P" variable="S159"/> <bbox w="35.0" h="10.0" x="22380.225" y="14514.0"/> </glyph> <glyph class="state variable" id="_e7b020f3-6fd5-4510-917a-32ca245cb259"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="22434.055" y="14514.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5401_rc_sa5401" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>synonyms:interleukin 18</p> <p>Map modules:</p> <p>MODULE:ER_STRESS, MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5401_rc_sa5401"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL18"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL18"/> <bbox w="80.0" h="40.0" x="28539.06" y="10219.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa318_wnc1_wnc1_sa318" compartmentRef="s_id_wnc1_wnc1_ca6_wnc1_wnc1_ca6"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_sa318_wnc1_wnc1_sa318"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VANGL2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:VANGL1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="15986.561" y="18643.0"/> <glyph class="state variable" id="_2be9fb1f-6a74-49de-8379-256fdc653bda"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15981.564" y="18638.0"/> </glyph> <glyph class="state variable" id="_fe0f956b-45d6-4db8-9371-2d16a1039b55"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16061.561" y="18638.0"/> </glyph> <glyph class="state variable" id="_82dc2323-8d3c-4fd6-89a3-2a457fae2fe0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16061.561" y="18663.0"/> </glyph> <glyph class="state variable" id="_67e50214-0adf-4a7d-8acb-83a0d9348969"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15981.561" y="18663.0"/> </glyph> <glyph class="unit of information" id="_dfca2b4f-4c4b-41c6-b4c2-ac7d2ab6ecb8"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16004.061" y="18638.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2233_rc_sa2233" compartmentRef="s_id_rc_ca3_rc_ca3"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2233_rc_sa2233"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FECH"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FECH"/> <bbox w="80.0" h="40.0" x="18919.31" y="13132.842"/> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa85_mo_sa85" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Charge: 0cadherin 1, type 1, E-cadherin (epithelial) ----- content merged by Celldesigner to SBGN-ML translation ------ Charge: 0cadherin 1, type 1, E-cadherin (epithelial) </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa85_mo_sa85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CDH1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="E-cadherin*"/> <bbox w="90.0" h="25.0" x="2858.0" y="10262.5"/> <glyph class="unit of information" id="_02bbcd5d-fe55-4a3c-a06f-893c1b5d22d6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2893.0" y="10257.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa74_in_sa74" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CD40"/> <bbox w="80.0" h="40.0" x="22756.875" y="7962.5"/> <glyph class="unit of information" id="_562946fe-c6ba-47f7-b32b-35306ec44118"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="22774.375" y="7957.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa76_ca_csa76" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LAMA*:LAMB*:LAMC*</p> <p>References:</p> <p>PMID:26519775 </p> <p>a3b1 integrin is a Laminin receptor</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_csa76_ca_csa76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26519775"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAMININS"/> <bbox w="130.0" h="140.0" x="7755.0" y="1690.0"/> <glyph class="macromolecule" id="s_id_ca_sa647_ca_sa647"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>laminin subunit gamma 1</p> <p>HUGO:LAMC1 hgnc_id:HGNC:6492 HGNC:6492 ENTREZ:3915 UNIPROT:P11047 </p> <p>laminin subunit gamma 2</p> <p>HUGO:LAMC2 hgnc_id:HGNC:6493 HGNC:6493 ENTREZ:3918 UNIPROT:Q13753 </p> <p>laminin subunit gamma 3</p> <p>HUGO:LAMC3 hgnc_id:HGNC:6494 HGNC:6494 ENTREZ:10319 UNIPROT:Q9Y6N6</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:CAF MODULE:MATRIX_REGULATION </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:26519775 </p> <p>a3b1 integrin is a Laminin receptor</p> <p>PMID:16572188 </p> <p>Fibroblasts synthesize many of the constituents of the fibrillar ECM such as type I (genes COL1A1, COL1A2), type III (COL3A1) and type V collagen (COL5A1, COL5A2, COL5A3), and fibronectin.</p> <p>They also contribute to the formation of basement membranes by secreting type IV collagen (COL4A1, COL4A2, COL4A3, COL4A4, COL4A5, COL4A6) and laminin.</p> </body> </html> </notes> <label text="LAMC*"/> <bbox w="80.0" h="40.0" x="7775.0" y="1770.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa646_ca_sa646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>laminin subunit beta 1</p> <p>HUGO:LAMB1 hgnc_id:HGNC:6486 HGNC:6486 ENTREZ:3912 UNIPROT:P07942 </p> <p>laminin subunit beta 2</p> <p>HUGO:LAMB2 hgnc_id:HGNC:6487 HGNC:6487 ENTREZ:3913 UNIPROT:P55268 </p> <p>laminin subunit beta 3</p> <p>HUGO:LAMB3 hgnc_id:HGNC:6490 HGNC:6490 ENTREZ:3914 UNIPROT:Q13751 </p> <p>laminin subunit beta 4</p> <p>HUGO:LAMB4 hgnc_id:HGNC:6491 HGNC:6491 ENTREZ:22798 UNIPROT:A4D0S4</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:MATRIX_REGULATION MODULE:INTEGRINS_SIGNALING_PATHWAYS </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:26519775 </p> <p>a3b1 integrin is a Laminin receptor</p> <p>PMID:16572188 </p> <p>Fibroblasts synthesize many of the constituents of the fibrillar ECM such as type I (genes COL1A1, COL1A2), type III (COL3A1) and type V collagen (COL5A1, COL5A2, COL5A3), and fibronectin.</p> <p>They also contribute to the formation of basement membranes by secreting type IV collagen (COL4A1, COL4A2, COL4A3, COL4A4, COL4A5, COL4A6) and laminin.</p> </body> </html> </notes> <label text="LAMB*"/> <bbox w="80.0" h="40.0" x="7775.0" y="1730.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa645_ca_sa645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>laminin subunit alpha 1</p> <p>HUGO:LAMA1 hgnc_id:HGNC:6481 HGNC:6481 ENTREZ:284217 UNIPROT:P25391 </p> <p>laminin subunit alpha 2</p> <p>HUGO:LAMA2 hgnc_id:HGNC:6482 HGNC:6482 ENTREZ:3908 UNIPROT:P24043 </p> <p>laminin subunit alpha 3</p> <p>HUGO:LAMA3 hgnc_id:HGNC:6483 HGNC:6483 ENTREZ:3909 UNIPROT:Q16787 </p> <p>laminin subunit alpha 4</p> <p>HUGO:LAMA4 hgnc_id:HGNC:6484 HGNC:6484 ENTREZ:3910 UNIPROT:Q16363 </p> <p>laminin subunit alpha 5</p> <p>HUGO:LAMA5 hgnc_id:HGNC:6485 HGNC:6485 ENTREZ:3911 UNIPROT:O15230</p> <p>Map modules:</p> <p>MODULE:INTEGRINS_SIGNALING_PATHWAYS MODULE:MATRIX_REGULATION MODULE:CAF </p> <p>References:</p> <p>CASCADE:INTEGRIN</p> <p>PMID:26519775 </p> <p>a3b1 integrin is a Laminin receptor</p> <p>PMID:16572188 </p> <p>Fibroblasts synthesize many of the constituents of the fibrillar ECM such as type I (genes COL1A1, COL1A2), type III (COL3A1) and type V collagen (COL5A1, COL5A2, COL5A3), and fibronectin.</p> <p>They also contribute to the formation of basement membranes by secreting type IV collagen (COL4A1, COL4A2, COL4A3, COL4A4, COL4A5, COL4A6) and laminin.</p> </body> </html> </notes> <label text="LAMA*"/> <bbox w="80.0" h="40.0" x="7775.0" y="1700.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa223_rc_csa223" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BCL2-XL*:HRK</p> </body> </html> </notes> <label text="BCL2L1:HRK"/> <bbox w="100.0" h="125.0" x="22209.936" y="14066.0"/> <glyph class="macromolecule" id="s_id_rc_sa1691_rc_sa1691"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>harakiri, BCL2 interacting protein (contains only BH3 domain)</p> <p>HUGO:HRK HGNC:5185 ENTREZ:8739 UNIPROT:O00198</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> </body> </html> </notes> <label text="HRK"/> <bbox w="80.0" h="40.0" x="22219.936" y="14123.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1690_rc_sa1690"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:BCL2-XL</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="22219.936" y="14073.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2437_in_sa2437" compartmentRef="s_id_in_ca13_in_ca13"> <label text="B7H2*"/> <bbox w="80.0" h="40.0" x="9570.0" y="7997.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt2_sa38_akt1_akt2_sa38" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2441_rc_sa2441"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX6A1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:COX6A1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="COX6A1"/> <bbox w="70.0" h="25.0" x="19702.06" y="16279.5"/> </glyph> <glyph class="phenotype" id="s_id_wca1_wca3_sa360_wca1_wca3_sa360" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <label text="Stem cell/progenitor cell maintenance and proliferation"/> <bbox w="80.0" h="30.0" x="22145.06" y="22087.25"/> </glyph> <glyph class="complex" id="s_id_in_csa249_in_csa249" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa249_in_csa249"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20856220"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23124025"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4/Receptor-TYPE_2"/> <bbox w="222.0" h="177.0" x="23774.0" y="5141.75"/> <glyph class="macromolecule" id="s_id_in_sa1881_in_sa1881"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:IL12, CASCADE:IFNAB</p> <p>PMID:14610620</p> <p>TYK2 is a member of the Janus kinase family.</p> <p>TYK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:21115385, PMID:7543512</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="TYK2"/> <bbox w="80.0" h="40.0" x="23890.0" y="5155.0"/> <glyph class="state variable" id="_43fc9950-12aa-4214-a314-d98d9d7d2537"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23885.0" y="5170.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1882_in_sa1882"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAP:MACROPHAGE, MAP:DENDRITIC_CELL, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL10, CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:GSF3, CASCADE:IL15, CASCADE:IL21, CASCADE:IL2, CASCADE:IFNAB</p> <p>21115385</p> <p>JAK1 is a member of the Janus kinase family.</p> <p>The binding of IL-10 to its receptor activates two members of the Janus kinase family: Jak1 (associated with the IL-1OR1 and</p> <p>Tyk2 (associated with the IL-10R2)</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:7512720, PMID:7521688</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK1"/> <bbox w="80.0" h="40.0" x="23900.0" y="5245.0"/> <glyph class="state variable" id="_0a02cde7-30d8-4815-b8fb-a2bcc4b47cf5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="23892.5" y="5260.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1886_in_sa1886"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC</p> <p>MODULE:MARKERS_MDSC, MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL10, CASCADE:SCF2</p> <p>References:</p> <p>PMID:14610620, PMID:12223527</p> <p>IL13 acts via IL4 receptor type 2, which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="23794.0" y="5243.25"/> <glyph class="state variable" id="_5226bdb4-93ab-4991-86c1-cefc13ed5ac2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23869.0" y="5277.639"/> </glyph> <glyph class="unit of information" id="_81b5ed6b-c9f9-43f9-ab3b-4c81074c2e8e"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23811.5" y="5238.25"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1884_in_sa1884"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> <p>References:</p> <p>PMID:12401408</p> <p>IL4 is assosiated with M2 polarization of macrophages</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:12496409</p> <p>Arg1 is up-regulated in MDSC by IL-4.</p> <p>Arg1 increases superoxide production in myeloid cells through a pathway that likely utilizes the reductase domain of inducible NO synthase (iNOS), and that superoxide is required for Arg1-dependent suppression of T cell function.</p> <p>PMID:18250477</p> <p>LIL-4 or IL-13 stimulated the release of galectin-3</p> <p>into the culture media in both BMDMs and PBMs.</p> <p>PMID:11870632, PMID:9834059</p> <p>Stimulation of NK cells with IL-4 inhibited IFN-gamma, but increased IL5, IL-13 production.</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4"/> <bbox w="80.0" h="40.0" x="23790.0" y="5145.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1883_in_sa1883"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:NATURAL_KILLER</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS</p> <p>CASCADE:IL4, CASCADE:IL13, CASCADE:IL6, CASCADE:CSF3, CASCADE:CSF2, CASCADE:IL12</p> <p>References:</p> <p>PMID:14610620</p> <p>JAK2 is a member of the Janus kinase family.</p> <p>JAK2 associated with IL13RA1 participates in signal transduction.</p> <p>PMID:19833085</p> <p>IFNG receptor is assosiated with kinases JAK1 and JAK2</p> <p>PMID:20406969, PMID:24091328, PMID:11867689</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="JAK2"/> <bbox w="80.0" h="40.0" x="23890.0" y="5205.0"/> <glyph class="state variable" id="_e3f461ca-2963-487c-8e5b-fa5dfa67dcea"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23885.0" y="5220.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa1885_in_sa1885"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL13RA1"/> <bbox w="80.0" h="50.0" x="23800.0" y="5200.0"/> <glyph class="state variable" id="_6244eb47-3fc3-4294-992b-56c882847660"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23875.0" y="5233.757"/> </glyph> <glyph class="unit of information" id="_335fff07-d4d6-4ef2-b312-26f7bee065cb"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23817.5" y="5195.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa39_akt1_akt1_csa39" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:EIF3*:EIF4E*:M7GTP*:MLST8:MTOR:RPTOR:mRNA generic*:p70_alpha_*</p> <p>References:</p> <p>s_akt1_re65:(MAP:survival) PMID:16286006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa39_akt1_akt1_csa39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(eIF3/mRNA/mTOR)"/> <bbox w="360.0" h="233.0" x="11934.686" y="18726.5"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa219_akt1_akt1_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 3 subunit A</p> <p>HUGO:EIF3A HGNC:3271 ENTREZ:8661 UNIPROT:Q14152 GENECARDS:EIF3A REACTOME:72545 KEGG:3692 ATLASONC:EIF3AID40425ch10q26 WIKI:EIF3A </p> <p>eukaryotic translation initiation factor 3 subunit B</p> <p>HUGO:EIF3B HGNC:3280 ENTREZ:8662 UNIPROT:P55884 GENECARDS:EIF3B REACTOME:72541 KEGG:8662 ATLASONC:GC_EIF3B WIKI:EIF3B </p> <p>eukaryotic translation initiation factor 3 subunit C</p> <p>HUGO:EIF3C HGNC:3279 ENTREZ:8663 UNIPROT:Q99613 GENECARDS:EIF3C REACTOME:72549 KEGG:8663 ATLASONC:EIF3CID44187ch16p11 WIKI:EIF3C </p> <p>eukaryotic translation initiation factor 3 subunit D</p> <p>HUGO:EIF3D HGNC:3278 ENTREZ:8664 UNIPROT:O15371 GENECARDS:EIF3D REACTOME:72547 KEGG:8664 WIKI:EIF3D </p> <p>eukaryotic translation initiation factor 3 subunit E</p> <p>HUGO:EIF3E HGNC:3277 ENTREZ:3646 UNIPROT:P60228 GENECARDS:EIF3E REACTOME:72551 KEGG:3646 ATLASONC:GC_EIF3E WIKI:EIF3E </p> <p>eukaryotic translation initiation factor 3 subunit F</p> <p>HUGO:EIF3F HGNC:3275 ENTREZ:8665 UNIPROT:O00303 GENECARDS:EIF3F REACTOME:72539 KEGG:8665 ATLASONC:EIF3FID44407ch11p15 WIKI:EIF3F </p> <p>eukaryotic translation initiation factor 3 subunit G</p> <p>HUGO:EIF3G HGNC:3274 ENTREZ:8666 UNIPROT:O75821 GENECARDS:EIF3G REACTOME:72537 KEGG:8666 WIKI:EIF3G </p> <p>eukaryotic translation initiation factor 3 subunit H</p> <p>HUGO:EIF3H HGNC:3273 ENTREZ:8667 UNIPROT:O15372 GENECARDS:EIF3H REACTOME:72543 KEGG:8667 ATLASONC:GC_EIF3H WIKI:EIF3H </p> <p>eukaryotic translation initiation factor 3 subunit I</p> <p>HUGO:EIF3I HGNC:3272 ENTREZ:8668 UNIPROT:Q13347 GENECARDS:EIF3I REACTOME:72535 KEGG:8668 ATLASONC:GC_EIF3I WIKI:EIF3I </p> <p>eukaryotic translation initiation factor 3 subunit J</p> <p>HUGO:EIF3J HGNC:3270 ENTREZ:8669 UNIPROT:O75822 GENECARDS:EIF3J REACTOME:72533 KEGG:8669 WIKI:EIF3J </p> <p>eukaryotic translation initiation factor 3 subunit K</p> <p>HUGO:EIF3K HGNC:24656 ENTREZ:27335 UNIPROT:Q9UBQ5 GENECARDS:EIF3K REACTOME:72553 KEGG:27335 ATLASONC:GC_EIF3K WIKI:EIF3K </p> <p>eukaryotic translation initiation factor 3 subunit L</p> <p>HUGO:EIF3L HGNC:18138 ENTREZ:51386 UNIPROT:Q9Y262 GENECARDS:EIF3L KEGG:51386 WIKI:EIF3L </p> <p>eukaryotic translation initiation factor 3 subunit M</p> <p>HUGO:EIF3M HGNC:24460 ENTREZ:10480 UNIPROT:Q7L2H7 GENECARDS:EIF3M KEGG:10480 ATLASONC:GC_EIF3M WIKI:EIF3M</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <label text="EIF3*"/> <bbox w="80.0" h="40.0" x="12058.686" y="18847.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa216_akt1_akt1_sa216"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E family member 2</p> <p>4EHP IF4e</p> <p>HUGO:EIF4E2 HGNC:3293 ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> </body> </html> </notes> <label text="M7GTP*"/> <bbox w="49.0" h="45.0" x="11943.686" y="18887.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa457_akt1_akt1_sa457"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>regulatory associated protein of MTOR complex 1</p> <p>HUGO:RPTOR HGNC:30287 ENTREZ:57521 UNIPROT:Q8N122 GENECARDS:RPTOR REACTOME:153287 KEGG:57521 ATLASONC:GC_RPTOR WIKI:RPTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="140.0" h="46.0" x="12136.582" y="18740.47"/> <glyph class="state variable" id="_934bc2e7-5958-42ab-8944-12f14ab40a35"> <state value="P" variable="S696"/> <bbox w="35.0" h="10.0" x="12119.082" y="18758.434"/> </glyph> <glyph class="state variable" id="_884b4e11-58ad-473c-b397-841263f1547d"> <state value="P" variable="S855"/> <bbox w="35.0" h="10.0" x="12218.743" y="18735.47"/> </glyph> <glyph class="state variable" id="_09000b6c-d0e6-4996-8480-6b891cc21f7c"> <state value="P" variable="S863"/> <bbox w="35.0" h="10.0" x="12218.48" y="18781.47"/> </glyph> <glyph class="state variable" id="_5d7a8289-3811-4d5f-bbf6-a50ce9f133de"> <state value="P" variable="S877"/> <bbox w="35.0" h="10.0" x="12155.923" y="18781.47"/> </glyph> <glyph class="state variable" id="_9c180cc8-802a-4f44-9b52-4cf025b17c9a"> <state value="P" variable="S859"/> <bbox w="35.0" h="10.0" x="12259.082" y="18755.93"/> </glyph> <glyph class="state variable" id="_a060a10f-40d0-4d11-98aa-0bad8dcd3fa9"> <state value="P" variable="T706"/> <bbox w="35.0" h="10.0" x="12153.595" y="18735.47"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa458_akt1_akt1_sa458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mechanistic target of rapamycin (serine/threonine kinase)</p> <p>HUGO:MTOR HGNC:3942 ENTREZ:2475 UNIPROT:P42345 GENECARDS:MTOR REACTOME:54978 KEGG:2475 ATLASONC:FRAP1ID40639ch1p36 WIKI:MTOR</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19568798</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="160.0" h="62.0" x="12060.082" y="18784.47"/> <glyph class="state variable" id="_4f3292ad-81c2-4d4d-81b3-1574f6cd503a"> <state value="P" variable="S1261"/> <bbox w="40.0" h="10.0" x="12047.151" y="18779.47"/> </glyph> <glyph class="state variable" id="_12f5f561-2283-40ef-8bc0-3c0ec189f138"> <state value="P" variable="S2481"/> <bbox w="40.0" h="10.0" x="12040.082" y="18839.838"/> </glyph> <glyph class="state variable" id="_f9033fc7-83ed-46c7-96eb-7d91debeff55"> <state value="" variable="T2446"/> <bbox w="35.0" h="10.0" x="12195.746" y="18779.47"/> </glyph> <glyph class="state variable" id="_191a3a38-fdf9-4b25-8a91-ae4c5f47ee7f"> <state value="" variable="Y631"/> <bbox w="30.0" h="10.0" x="12045.082" y="18810.47"/> </glyph> <glyph class="state variable" id="_d8be7fb9-de59-4a2c-ad96-ff87a60500c9"> <state value="" variable="S2448"/> <bbox w="35.0" h="10.0" x="12201.346" y="18841.47"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa456_akt1_akt1_sa456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MTOR associated protein LST8 homolog (S. cerevisiae)</p> <p>HUGO:MLST8 HGNC:24825 ENTREZ:64223 UNIPROT:Q9BVC4 GENECARDS:MLST8 REACTOME:355793 KEGG:64223 WIKI:MLST8</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17680028</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="12052.832" y="18743.47"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa217_akt1_akt1_sa217"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E</p> <p>HUGO:EIF4E HGNC:3287 ENTREZ:1977 UNIPROT:P06730 GENECARDS:EIF4E REACTOME:72577 KEGG:1977 ATLASONC:EIF4EID40431ch4q23 WIKI:EIF4E </p> <p>eukaryotic translation initiation factor 4E family member 1B</p> <p>HUGO:EIF4E1B HGNC:33179 ENTREZ:253314 UNIPROT:A6NMX2 GENECARDS:EIF4E1B WIKI:EIF4E1B </p> <p>eukaryotic translation initiation factor 4E family member 2</p> <p>HUGO:EIF4E2 HGNC:3293 ENTREZ:9470 UNIPROT:O60573 GENECARDS:EIF4E2 REACTOME:92953 KEGG:9470 ATLASONC:GC_EIF4E2 WIKI:EIF4E2 </p> <p>eukaryotic translation initiation factor 4E family member 3</p> <p>HUGO:EIF4E3 HGNC:31837 ENTREZ:317649 UNIPROT:Q8N5X7 GENECARDS:EIF4E3 REACTOME:232515 WIKI:EIF4E3</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19597330</p> <p>PMID:19339977</p> </body> </html> </notes> <label text="EIF4E*"/> <bbox w="113.0" h="38.0" x="11943.686" y="18849.5"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa214_akt1_akt1_sa214"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ribosomal protein S6 kinase 70kDa polypeptide 1</p> <p>"ribosomal protein S6 kinase 70kD polypeptide 1" STK14A</p> <p>HUGO:RPS6KB1 HGNC:10436 ENTREZ:6198 UNIPROT:P23443 GENECARDS:RPS6KB1 REACTOME:57803 KEGG:6198 ATLASONC:GC_RPS6KB1 WIKI:RPS6KB1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> <p>PMID:20647036</p> </body> </html> </notes> <label text="p70α*"/> <bbox w="80.0" h="40.0" x="12140.686" y="18847.5"/> <glyph class="state variable" id="_319e9a37-daa8-4fd0-9419-f38045412cb7"> <state value="P" variable="T389"/> <bbox w="35.0" h="10.0" x="12203.186" y="18880.156"/> </glyph> <glyph class="state variable" id="_904c3b55-5f0e-499b-a9cb-013a6ebb8224"> <state value="" variable="T229"/> <bbox w="30.0" h="10.0" x="12125.686" y="18844.904"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt1_sa215_akt1_akt1_sa215"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MAP:survival / MODULE:PI3K_AKT_MTOR ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR </body> </html> </notes> <label text="mRNA generic*"/> <bbox w="318.0" h="29.0" x="11969.686" y="18890.0"/> <glyph class="unit of information" id="_5a959133-8781-408b-a7d5-cabd9129140a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="12118.686" y="18885.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_akt1_sa699_akt1_sa699"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>eukaryotic translation initiation factor 4E binding protein 1</p> <p>HUGO:EIF4EBP1 HGNC:3288 ENTREZ:1978 UNIPROT:Q13541 GENECARDS:EIF4EBP1 REACTOME:84152 KEGG:1978 ATLASONC:EIF4EBP1ID40432ch8p12 WIKI:EIF4EBP1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19339977</p> <p>PMID:15314020</p> </body> </html> </notes> <label text="4E-BP*"/> <bbox w="80.0" h="40.0" x="11960.561" y="18803.0"/> <glyph class="state variable" id="_6f6ad5f7-63a4-40d1-9384-7c0aeb6aa3c9"> <state value="" variable="T37"/> <bbox w="25.0" h="10.0" x="11948.061" y="18800.404"/> </glyph> <glyph class="state variable" id="_8ec22e9d-fd3a-4f81-9ea0-a4e7fdb68e42"> <state value="" variable="S65"/> <bbox w="25.0" h="10.0" x="11948.061" y="18835.484"/> </glyph> <glyph class="state variable" id="_a4917a34-c16c-4c61-bf36-089447d1667a"> <state value="" variable="T70"/> <bbox w="25.0" h="10.0" x="12027.442" y="18838.0"/> </glyph> <glyph class="state variable" id="_71e4e41b-1d68-48c1-8380-ec0e00d96aee"> <state value="" variable="T46"/> <bbox w="25.0" h="10.0" x="12028.061" y="18798.99"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa370_in_sa370" compartmentRef="s_id_in_ca47_in_ca47"> <label text="ULBP3"/> <bbox w="80.0" h="40.0" x="20830.0" y="670.0"/> </glyph> <glyph class="macromolecule" id="s_id_mo_sa256_mo_sa256" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="Ca2+_channel"/> <bbox w="130.0" h="40.0" x="2155.0" y="8881.0"/> <glyph class="unit of information" id="_d73c274f-509f-48a4-9e8d-5e22529c7bdb"> <label text="ion channel"/> <bbox w="60.0" h="10.0" x="2190.0" y="8876.0"/> </glyph> <glyph class="state variable" id="_b61ee8d7-038b-49a9-9d1f-b4c6b8ec4366"> <state value="open" variable=""/> <bbox w="30.0" h="10.0" x="2205.0" y="8916.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa5504_rc_sa5504" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Flagellin of bacterial flagelium</p> <p>Map modules:</p> <p>MODULE:PYROPTOSIS</p> <p>References:</p> <p>PMID:26885855</p> <p>PMID:27048821</p> <p>PMID:27066895</p> <p>PMID:23702978</p> <p>PMID:24919149</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5504_rc_sa5504"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26885855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27048821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27066895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23702978"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24919149"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Vibrio parahaemolyticus"/> <bbox w="150.0" h="25.0" x="29244.06" y="9066.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa111_rc_sa111" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa111_rc_sa111"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR133B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MIR133B"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR133B"/> <bbox w="90.0" h="25.0" x="19644.736" y="15603.992"/> <glyph class="unit of information" id="_61bf02a1-bf8e-431a-a909-446d55f896f0"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="19674.736" y="15598.992"/> </glyph> </glyph> <glyph class="complex" id="s_id_emtc_em_csa282_emtc_em_csa282" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR30E:SMAD2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22753312</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa282_emtc_em_csa282"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22753312"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MIR30E/SMAD2"/> <bbox w="98.0" h="61.0" x="3817.0" y="17811.5"/> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1865_emtc_em_sa1865"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SMAD family member 2</p> <p>"MAD, mothers against decapentaplegic homolog 2 (Drosophila)", MADH2, "SMAD, mothers against DPP homolog 2 (Drosophila)"</p> <p>HUGO:SMAD2 HGNC:6768 ENTREZ:4087 UNIPROT:Q15796</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="SMAD2"/> <bbox w="80.0" h="20.0" x="3826.5" y="17833.5"/> <glyph class="unit of information" id="_40caaca0-0fce-488d-8562-523a193bfd3a"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="3856.5" y="17828.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1864_emtc_em_sa1864"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 30E</p> <p>HUGO:MIR30E, HGNC:31629, ENTREZ:407034, GENECARDS:GC01P041220</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:22753312</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="MIR30E"/> <bbox w="82.0" h="20.0" x="3826.5" y="17813.5"/> <glyph class="unit of information" id="_8cae8548-8687-4d19-91f3-5f35ea91b213"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="3852.5" y="17808.5"/> </glyph> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_te_sa46_te_sa46" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_sa46_te_sa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TERF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TERF1*"/> <bbox w="86.0" h="46.0" x="3522.06" y="20767.0"/> <glyph class="unit of information" id="_f913e636-1252-4192-b37d-cc43eee807a1"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="3555.06" y="20762.0"/> </glyph> <glyph class="state variable" id="_6c950fa8-1f96-4da6-b431-dcbf1650af49"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="3514.56" y="20785.0"/> </glyph> <glyph class="state variable" id="_a26c8897-8c98-40f4-85d6-28e83bd0b52f"> <state value="Ub" variable=""/> <bbox w="20.0" h="10.0" x="3598.06" y="20785.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4701_rc_sa4701" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:PARTHANATOS</p> <p>References:</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4701_rc_sa4701"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22841746"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Oxidative Phosphorylation"/> <bbox w="191.0" h="36.0" x="20459.31" y="14084.0"/> </glyph> <glyph class="simple chemical" id="s_id_rc_sa2183_rc_sa2183" compartmentRef="s_id_rc_ca3_rc_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:15346 KEGGCOMPOUND:C00010</p> <p>References:</p> <p>charge:0</p> <p>85-61-0</p> </body> </html> </notes> <label text="coenzyme A"/> <bbox w="70.0" h="25.0" x="18707.787" y="12902.146"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa771_in_sa771" compartmentRef="s_id_in_ca13_in_ca13"> <label text="ITGA5"/> <bbox w="80.0" h="50.0" x="16730.0" y="1735.0"/> <glyph class="unit of information" id="_049ac41b-006e-440e-9125-fc6ff12cfb64"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16747.5" y="1730.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa551_rc_sa551" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa551_rc_sa551"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PYCARD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PYCARD"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PYCARD"/> <bbox w="70.0" h="25.0" x="21100.5" y="16300.961"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1131_ca_sa1131" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:METABOLIC </p> <p>References:</p> <p>PMID:27833036</p> <p>GLUL, Glutamate ammonia ligase, the key enzyme in glutamine synthesis, is upregulated in CAFs</p> <p>PMID:20861672 </p> <p>CAF pdoduce a lot of glutamine for cancer cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1131_ca_sa1131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27833036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20861672"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GLUL"/> <bbox w="80.0" h="40.0" x="2970.0" y="3480.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_ca_sa1035_ca_sa1035" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PDGFPMID:23243022Quantitative real-time PCR (qRT-PCR) analyses of STC1 expression confirmed a 15-fold STC1-induction upon PDGF stimulation of fibroblastsSTC1 expression by cancer-associated fibroblasts drives metastasis of colorectal cancerSTC1-deficient fibroblasts displayed reduced intravasation of tumor cells along with fewer and smaller distant metastases formed. ----- content merged by Celldesigner to SBGN-ML translation ------ Map modules:MODULE:GROWTH_FACTORS_PRODUCTION References:CASCADE:PDGFPMID:23243022Quantitative real-time PCR (qRT-PCR) analyses of STC1 expression confirmed a 15-fold STC1-induction upon PDGF stimulation of fibroblastsSTC1 expression by cancer-associated fibroblasts drives metastasis of colorectal cancerSTC1-deficient fibroblasts displayed reduced intravasation of tumor cells along with fewer and smaller distant metastases formed. </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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y="14851.0"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3420_rc_sa3420"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>isocitrate dehydrogenase 3 (NAD+) alpha</p> <p>HUGO:IDH3A HGNC:5384 ENTREZ:3419 UNIPROT:P50213</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="IDH3A"/> <bbox w="86.0" h="46.0" x="18742.436" y="14855.125"/> <glyph class="unit of information" id="_10055058-69ce-441b-b391-305fae659f82"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="18775.436" y="14850.125"/> </glyph> </glyph> <glyph class="simple chemical" id="s_id_rc_sa5534_rc_sa5534"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="18806.06" y="14857.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa168_rc_sa168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>isocitrate dehydrogenase 3 (NAD+) gamma</p> <p>HUGO:IDH3G HGNC:5386 ENTREZ:3421 UNIPROT:P51553</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="IDH3C"/> <bbox w="80.0" h="40.0" x="18742.81" y="14945.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa167_rc_sa167"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>isocitrate dehydrogenase 3 (NAD+) beta</p> <p>HUGO:IDH3B HGNC:5385 ENTREZ:3420 UNIPROT:O43837</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE</p> </body> </html> </notes> <label text="IDH3B"/> <bbox w="80.0" h="40.0" x="18743.81" y="14902.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mo_sa250_mo_sa250" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatase and tensin homolog</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mo_sa250_mo_sa250"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PTEN"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTEN"/> <bbox w="80.0" h="40.0" x="6264.0" y="10249.0"/> <glyph class="state variable" id="_abb1f9b0-94f1-459f-b3a4-ec31e7f919e9"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="6339.0" y="10272.284"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4668_rc_sa4668" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</glyph> <glyph class="macromolecule" id="s_id_ad_sa471_ad_sa471" compartmentRef="s_id_ad_ca15_ad_ca15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:TCR_SIGNALING</p> <p>PMID:15603439; PMID:19380804; PMID:14580882</p> <p>LAMP1 (CD107a) and LAMP2 surface presentation is a marker of T cell degranulation</p> <p>the exposure of CD107a and b, present in the membrane of cytotoxic granules, onto the cell surface as a result of degranulation. 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</rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15603439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19380804"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14580882"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="LAMP*"/> <bbox w="80.0" h="40.0" x="29046.0" y="8210.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa1905_rc_sa1905" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa1905_rc_sa1905"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CASP3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Caspase3*"/> <bbox w="90.0" h="25.0" x="22594.06" y="16042.5"/> <glyph class="unit of information" id="_9c77a27e-62a4-4521-8222-612827a5f1a2"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="22629.06" y="16037.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa85_ce_csa85" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:hMutS*</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="hMutS*"/> <bbox w="95.0" h="71.0" x="11514.473" y="15815.356"/> <glyph class="macromolecule" id="s_id_ce_sa1251_ce_sa1251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hMutS* </p> <p>Node_Type:Generic</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:MMR</p> </body> </html> </notes> <label text="hMutS*"/> <bbox w="80.0" h="40.0" x="11523.973" y="15824.856"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa92_emtc_em_sa92" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa92_emtc_em_sa92"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJB3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GJB3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GJB3"/> <bbox w="38.0" h="19.0" x="3002.0" y="16960.5"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4789_rc_sa4789" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4789_rc_sa4789"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DDIT3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GADD153*"/> <bbox w="80.0" h="40.0" x="27939.06" y="15209.0"/> </glyph> <glyph class="complex" id="s_id_rc_csa462_rc_csa462" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAX:BIF1*</p> <p>References:</p> <p>PMID:16227588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa462_rc_csa462"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16227588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAX*:BIF1*"/> <bbox w="100.0" h="120.0" x="27959.56" y="11074.5"/> <glyph class="macromolecule" id="s_id_rc_sa4441_rc_sa4441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated X protein</p> <p>HUGO:BAX HGNC:959 ENTREZ:581 UNIPROT:Q07812</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:RCD_GENES, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:23430059</p> <p>Bax and Bak positively modulate the amplitude of IRE1asignaling by interacting at the ER with the cytoplasmic domains of IRE1a resulting in increased XBP1s and JNK phosphorylation</p> <p>PMID:23377657</p> </body> </html> </notes> <label text="BAX"/> <bbox w="80.0" h="40.0" x="27970.31" y="11086.5"/> <glyph class="state variable" id="_ffa75ce4-1991-483c-b920-8f6ac8987e0a"> <state value="?" variable="S163"/> <bbox w="35.0" h="10.0" x="28013.895" y="11081.5"/> </glyph> <glyph class="state variable" id="_5415d1e3-c075-42a8-8b72-04b8a823b1b6"> <state value="" variable="S184"/> <bbox w="30.0" h="10.0" x="28016.63" y="11121.5"/> </glyph> <glyph class="state variable" id="_34f31e3e-4072-4176-81e4-664fb32613e6"> <state value="?" variable="T167"/> <bbox w="35.0" h="10.0" x="27968.889" y="11081.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4437_rc_sa4437"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>SH3-domain GRB2-like endophilin B1</p> <p>HUGO:SH3GLB1 HGNC:10833 ENTREZ:51100 UNIPROT:Q9Y371</p> <p>Map modules:</p> <p>MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:16227588</p> <p>PMID:19265852</p> <p>PMID:17891140</p> </body> </html> </notes> <label text="BIF1*"/> <bbox w="80.0" h="40.0" x="27972.06" y="11139.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa387_in_sa387" compartmentRef="s_id_in_ca47_in_ca47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="BAG6"/> <bbox w="90.0" h="25.0" x="19025.0" y="542.5"/> <glyph class="unit of information" id="_66337f38-1a2a-467e-9863-06274fe436ab"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="19060.0" y="537.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1970_in_sa1970" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="TNIP3"/> <bbox w="70.0" h="25.0" x="20690.0" y="3297.5"/> </glyph> <glyph class="simple chemical" id="s_id_in_sa340_in_sa340" compartmentRef="s_id_in_ca47_in_ca47"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_sa340_in_sa340"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22006996"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18559521"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NO"/> <bbox w="70.0" h="25.0" x="19895.0" y="602.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4993_rc_sa4993" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4993_rc_sa4993"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNAJC3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:DNAJC3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p58IPK*"/> <bbox w="70.0" h="25.0" x="28016.326" y="16121.5"/> </glyph> <glyph class="complex" id="s_id_wca1_wca1_csa3_wca1_wca1_csa3" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AMER1*:APC:AXIN*:CK1_alpha_*:GSK3*:PtdIns:_beta_-Catenin*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17143292</p> <p>s_wca1_re2:(MAP:survival) PMID:12000790</p> <p>s_wca1_re3:(MAP:survival) PMID:11955436</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca1_csa3_wca1_wca1_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143292"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12000790"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(Destruction_complex)"/> <bbox w="192.0" h="183.0" x="20020.06" y="18446.625"/> <glyph class="macromolecule" id="s_id_wca1_wca1_sa13_wca1_wca1_sa13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="20115.06" y="18456.625"/> </glyph> <glyph class="simple chemical" id="s_id_wca1_wca1_sa701_wca1_wca1_sa701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="PtdIns(4,5)-P2"/> <bbox w="70.0" h="25.0" x="20125.06" y="18544.75"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa12_wca1_wca1_sa12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> 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id="s_id_wca1_wca1_sa15_wca1_wca1_sa15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Catenin (cadherin-associated protein) beta 1 88 kDa</p> <p>HUGO:CTNNB1 HGNC:2514 ENTREZ:1499 UNIPROT:P35222 GENECARDS:CTNNB1 REACTOME:53048 KEGG:1499 ATLASONC:CTNNB1ID71 WIKI:CTNNB1 </p> <p>"catenin (cadherin-associated protein) beta 1 (88kD)" CTNNB</p> <p>catenin (cadherin-associated protein) beta 1</p> <p>armadillo, beta-catenin</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19619488</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586 PMID:16039586</p> <p>PMID:17143292</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="80.0" h="40.0" x="20116.56" y="18500.125"/> <glyph class="state variable" id="_eda92ee6-9487-457f-82ac-f35c3d4430ed"> <state value="" variable="Y654"/> <bbox w="30.0" h="10.0" x="20181.56" y="18495.338"/> </glyph> <glyph class="state variable" id="_df266d20-7003-4b79-a0ad-e34fa33f86df"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="20130.777" y="18495.125"/> </glyph> <glyph class="state variable" id="_c78530cb-7a0a-4681-859b-c76fa4509de4"> <state value="" variable="K394"/> <bbox w="30.0" h="10.0" x="20102.053" y="18495.125"/> </glyph> <glyph class="state variable" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>family with sequence similarity 123B</p> <p>HUGO:FAM123B GENECARDS:FAM123B KEGG:139285 WIKI:FAM123B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AMER1*"/> <bbox w="80.0" h="40.0" x="20117.06" y="18573.25"/> </glyph> <glyph class="macromolecule" id="s_id_wca1_wca1_sa75_wca1_wca1_sa75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:LEF1_TCF3_4*:_beta_-Catenin*</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>-In the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>-In the presence of Wnt lignads, upon ligand binding, DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa169_emtc_em_csa169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19751508"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22270359"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16940750"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(β-Catenin*/LEF/TCF*)"/> <bbox w="188.0" h="54.0" x="2701.0" y="15875.0"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1765_emtc_em_sa1765"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>LEF/TCF3*</p> <p>transcription factor 4</p> <p>HUGO:TCF4, HGNC:11634, ENTREZ:6925, UNIPROT:P15884, GENECARDS:GC18M052889</p> <p>lymphoid enhancer-binding factor 1</p> <p>HUGO:LEF1, HGNC:6551, ENTREZ:51176, UNIPROT:Q9UJU2, GENECARDS:GC04M108968</p> <p>transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47)</p> <p>HUGO:TCF3, HGNC:11633, ENTREZ:6929, UNIPROT:P15923, GENECARDS:GC19M001609 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="LEF1_TCF3_4*"/> <bbox w="98.0" h="25.0" x="2703.5" y="15878.5"/> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa988_emtc_em_sa988"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>catenin (cadherin-associated protein), beta 1, 88kDa</p> <p>HUGO:CTNNB1, HGNC:2514, ENTREZ:1499, UNIPROT:P35222, GENECARDS:GC03P041236</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has been shown that the GSK-3 dependent phosphorylation of b-catenin requires prior priming through phosphorylation of Ser45</p> <p>GSK-3b was found to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and APC. </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I, alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="β-Catenin*"/> <bbox w="69.0" h="28.0" x="2812.916" y="15881.953"/> <glyph class="state variable" id="_f35bc07e-e4e3-4e2d-97c4-9d52d84d4810"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2876.913" y="15876.953"/> </glyph> <glyph class="state variable" id="_dad556c9-38a0-46b5-a16d-9920b7ea49f3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2807.916" y="15878.634"/> </glyph> <glyph class="state variable" id="_8dac65a3-34b4-4a18-a1bc-b39499d1a531"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2842.4436" y="15876.953"/> </glyph> <glyph class="state variable" id="_05045b6f-f2ce-4e63-b76b-83ce69841ab3"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2827.8618" y="15876.953"/> </glyph> <glyph class="state variable" id="_0185e4f1-1f21-4510-a2fc-5bd366e781d5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2876.916" y="15903.311"/> </glyph> <glyph class="state variable" id="_788ed435-26a4-491d-9336-8a2370426853"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="2856.2278" y="15876.953"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa133_rc_csa133" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:Cytochrome_C*:HSPB1</p> </body> </html> </notes> <label text="CYCS:HSPB1"/> <bbox w="104.0" h="140.0" x="24102.31" y="14405.0"/> <glyph class="macromolecule" id="s_id_rc_sa1400_rc_sa1400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>heat shock 27kDa protein 1</p> <p>HUGO:HSPB1 HGNC:5246 ENTREZ:3315 UNIPROT:P04792</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:NECROPTOSIS</p> <p>References:</p> <p>synonym:HSP27PMID:11003656</p> </body> </html> </notes> <label text="HSPB1"/> <bbox w="80.0" h="40.0" x="24112.81" y="14471.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa2178_rc_sa2178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cytochrome c, somatic</p> <p>HUGO:CYCS HGNC:19986 ENTREZ:54205 UNIPROT:P99999</p> <p>Map modules:</p> <p>MODULE:ANTIOXIDANT_RESPONSE, MODULE:APOPTOSIS, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_GENES, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:ER_STRESS</p> <p>References:</p> <p>PMID:23850759</p> <p>synonym:cytochrome_c</p> </body> </html> </notes> <label text="Cytochrome_C*"/> <bbox w="80.0" h="40.0" x="24110.81" y="14424.0"/> <glyph class="state variable" id="_21e6928f-7a50-4724-a75d-58ea8389da89"> <state value="ferroheme" variable=""/> <bbox w="55.0" h="10.0" x="24123.31" y="14419.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa1017_ad_sa1017" compartmentRef="s_id_ad_ca9_ad_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>MODULE:SMAC</p> <p>PMID:18760924 </p> <p>ADAP binds to SKAP1 in a pathway linked to the activation of integrin adhesion </p> <p>SKAP-55, SKAP-55-related and ADAP</p> <p>adaptors modulate integrin-mediated</p> <p>immune-cell adhesion</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_sa1017_ad_sa1017"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SKAP1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18760924"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SKAP1"/> <bbox w="80.0" h="40.0" x="29576.0" y="2975.0"/> </glyph> <glyph class="macromolecule" id="s_id_ca_sa1134_ca_sa1134" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:CYTOKINES_CHEMOKINES_PRODUCTION </p> <p>References:</p> <p>PMID:20184663</p> <p> CAFs may also directly influence the polarization of macrophages toward an M2 phenotype: IL-13, one of the key cytokines driving M2-like polarization of macrophages, was shown to be secreted by CAFs</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa1134_ca_sa1134"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:IL13"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20184663"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL13"/> <bbox w="80.0" h="40.0" x="620.0" y="3690.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_emtc_em_sa1952_emtc_em_sa1952" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1952_emtc_em_sa1952"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:ID1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="ID1"/> <bbox w="32.0" h="18.0" x="4454.0" y="16788.0"/> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4760_rc_sa4760" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4760_rc_sa4760"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CREB3L3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CREB-H*"/> <bbox w="80.0" h="40.0" x="27669.06" y="14909.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa312_in_sa312" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="MIR223"/> <bbox w="70.0" h="25.0" x="12859.375" y="4316.875"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa392_in_sa392" compartmentRef="s_id_in_ca48_in_ca48"> <label text="VCAM1"/> <bbox w="80.0" h="40.0" x="16660.0" y="970.0"/> </glyph> <glyph class="macromolecule" id="s_id_em_sa2021_em_sa2021" compartmentRef="s_id_emtc_em_ca24_rc_ca30"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_em_sa2021_em_sa2021"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CTNND1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p120*"/> <bbox w="52.0" h="16.0" x="1869.5" y="13671.85"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa46_wnc1_wnc1_csa46" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:_beta_-Arrestin2*</p> <p>References:</p> <p>s_wnc1_re70:(MAP:survival) PMID:12958364</p> <p>s_wnc1_re66(MAP:survival):</p> <p>Polymerisation of Dvl-proteins is not associated with endosomes or other vesicles. Polymerization of Dvl acts as scaffold for recruiting Rac1</p> <p>PMID:20457807</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa46_wnc1_wnc1_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12958364"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20457807"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:β-Arrestin2*"/> <bbox w="100.0" h="120.0" x="16666.06" y="19490.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa298_wnc1_wnc1_sa298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="16674.81" y="19506.0"/> <glyph class="state variable" id="_a3550102-6071-4e08-862e-ca293d75376f"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16669.814" y="19541.0"/> </glyph> <glyph class="state variable" id="_6cdd1a35-7e25-4c40-8490-cbab127d2ba0"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="16746.943" y="19501.0"/> </glyph> <glyph class="state variable" id="_c170ba0a-44fd-4b20-aef3-7c80a94fb86d"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="16739.191" y="19541.0"/> </glyph> <glyph class="state variable" id="_a1a18e39-3103-42ff-bda0-92666ffae7bc"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16669.814" y="19501.0"/> </glyph> <glyph class="state variable" id="_2a0bcd95-72a5-4227-b67b-73e4c50ea727"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16749.81" y="19501.0"/> </glyph> <glyph class="state variable" id="_9b4b1bbf-7c29-4eb2-8a7b-8eabd511fab1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16749.81" y="19541.0"/> </glyph> <glyph class="state variable" id="_4b8769dc-74c3-41e9-9f78-8a159f4a2f5a"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="16659.81" y="19540.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa299_wnc1_wnc1_sa299"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="16675.56" y="19549.0"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4812_rc_sa4812" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> <p>PMID:27558815</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4812_rc_sa4812"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27558815"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell death"/> <bbox w="115.0" h="38.0" x="28071.56" y="14520.0625"/> </glyph> <glyph class="complex" id="s_id_in_csa168_in_csa168" compartmentRef="s_id_in_ca12_in_ca12"> <label text="in_s1054"/> <bbox w="100.0" h="120.0" x="14083.594" y="6235.9375"/> <glyph class="simple chemical" id="s_id_in_sa1128_in_sa1128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="14098.594" y="6303.4375"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1129_in_sa1129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="RAC1_2*"/> <bbox w="80.0" h="40.0" x="14093.594" y="6255.9375"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2381_in_sa2381" compartmentRef="s_id_in_ca47_in_ca47"> <label text="CD163"/> <bbox w="80.0" h="40.0" x="10121.75" y="645.625"/> </glyph> <glyph class="complex" id="s_id_in_csa345_in_csa345" compartmentRef="s_id_in_ca13_in_ca13"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_in_csa345_in_csa345"> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17398124"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21307131"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19913445"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17459805"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="in_s4164"/> <bbox w="100.0" h="120.0" x="24400.0" y="3885.0"/> <glyph class="macromolecule" id="s_id_in_sa2686_in_sa2686"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL15RA"/> <bbox w="80.0" h="50.0" x="24410.0" y="3940.0"/> <glyph class="unit of information" id="_8a318edb-acbb-4823-9e04-3110bcb2954d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="24427.5" y="3935.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2687_in_sa2687"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL15"/> <bbox w="80.0" h="40.0" x="24410.0" y="3895.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4334_rc_sa4334" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4334_rc_sa4334"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RB1CC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="FIP200*"/> <bbox w="80.0" h="40.0" x="28301.31" y="11191.083"/> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa19_wnc1_wnc1_csa19" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:G_beta_*:G_gamma_*:p101*:p110_beta__gamma_*</p> </body> </html> </notes> <label text="Gβ*:Gγ*:p101*:p110βγ*"/> <bbox w="99.0" h="152.0" x="15405.561" y="18428.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa121_wnc1_wnc1_sa121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoinositide-3-kinase, catalytic, beta polypeptide</p> <p>HUGO:PIK3CB HGNC:8976 ENTREZ:5291 UNIPROT:P42338 GENECARDS:PIK3CB REACTOME:61076 KEGG:5291 ATLASONC:GC_PIK3CB WIKI:PIK3CB </p> <p>phosphoinositide-3-kinase, catalytic, gamma polypeptide</p> <p>HUGO:PIK3CG HGNC:8978 ENTREZ:5294 UNIPROT:P48736 GENECARDS:PIK3CG REACTOME:61080 KEGG:5294 ATLASONC:GC_PIK3CG WIKI:PIK3CG </p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta</p> <p>"phosphoinositide-3-kinase, catalytic, beta polypeptide", PIK3C1</p> <p>phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma</p> <p>"phosphoinositide-3-kinase, catalytic, gamma polypeptide"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p110βγ*"/> <bbox w="80.0" h="40.0" x="15414.561" y="18478.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa123_wnc1_wnc1_sa123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), gamma 2</p> <p>HUGO:GNG2 HGNC:4404 ENTREZ:54331 UNIPROT:P59768 GENECARDS:GNG2 REACTOME:91080 ATLASONC:GC_GNG2 WIKI:GNG2 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 3</p> <p>HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 4</p> <p>HUGO:GNG4 HGNC:4407 ENTREZ:2786 UNIPROT:P50150 GENECARDS:GNG4 REACTOME:55404 ATLASONC:GC_GNG4 WIKI:GNG4 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 5</p> <p>HUGO:GNG5 HGNC:4408 ENTREZ:2787 UNIPROT:P63218 GENECARDS:GNG5 REACTOME:55406 ATLASONC:GC_GNG5 WIKI:GNG5 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 7</p> <p>HUGO:GNG7 HGNC:4410 ENTREZ:2788 UNIPROT:O60262 GENECARDS:GNG7 REACTOME:55414 ATLASONC:GC_GNG7 WIKI:GNG7 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 8</p> <p>HUGO:GNG8 HGNC:19664 ENTREZ:94235 UNIPROT:Q9UK08 GENECARDS:GNG8 REACTOME:55416 KEGG:2793 ATLASONC:GC_GNG8 WIKI:GNG8 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 10</p> <p>HUGO:GNG10 HGNC:4402 ENTREZ:2790 UNIPROT:P50151 GENECARDS:GNG10 REACTOME:55418 ATLASONC:GC_GNG10 WIKI:GNG10 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 11</p> <p>HUGO:GNG11 HGNC:4403 ENTREZ:2791 UNIPROT:P61952 GENECARDS:GNG11 REACTOME:55420 KEGG:2791 ATLASONC:GC_GNG11 WIKI:GNG11 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 12</p> <p>HUGO:GNG12 HGNC:19663 ENTREZ:55970 UNIPROT:Q9UBI6 GENECARDS:GNG12 REACTOME:55426 ATLASONC:GC_GNG12 WIKI:GNG12 </p> <p>Guanine nucleotide binding protein (G-protein), gamma 13</p> <p>HUGO:GNG13 GENECARDS:GNG13 KEGG:51764 ATLASONC:GC_GNG13 WIKI:GNG13 </p> <p>HUGO:GNG GENECARDS:GNG WIKI:GNG HUGO:GNG3 HGNC:4405 ENTREZ:2785 UNIPROT:P63215 GENECARDS:GNG3 REACTOME:55398 ATLASONC:GC_GNG3 WIKI:GNG3 </p> <p>guanine nucleotide binding protein (G protein) gamma transducing activity polypeptide 1</p> <p>HUGO:GNGT1 HGNC:4411 ENTREZ:2792 UNIPROT:P63211 GENECARDS:GNGT1 REACTOME:55394 KEGG:2792 ATLASONC:GC_GNGT1 WIKI:GNGT1 </p> <p>guanine nucleotide binding protein (G protein) gamma 6</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gγ*"/> <bbox w="40.0" h="20.0" x="15455.561" y="18519.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa122_wnc1_wnc1_sa122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 1</p> <p>HUGO:GNB1 HGNC:4396 ENTREZ:2782 UNIPROT:P62873 GENECARDS:GNB1 REACTOME:55374 ATLASONC:GC_GNB1 WIKI:GNB1 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 2</p> <p>HUGO:GNB2 HGNC:4398 ENTREZ:2783 UNIPROT:P62879 GENECARDS:GNB2 REACTOME:55382 ATLASONC:GC_GNB2 WIKI:GNB2 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 3</p> <p>HUGO:GNB3 HGNC:4400 ENTREZ:2784 UNIPROT:P16520 GENECARDS:GNB3 REACTOME:55386 ATLASONC:GC_GNB3 WIKI:GNB3 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 4</p> <p>HUGO:GNB4 HGNC:20731 ENTREZ:59345 UNIPROT:Q9HAV0 GENECARDS:GNB4 REACTOME:55388 ATLASONC:GC_GNB4 WIKI:GNB4 </p> <p>Guanine nucleotide binding protein (G-protein), beta polypeptide 5</p> <p>HUGOGNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775</p> <p>guanine nucleotide binding protein (G protein) beta 5</p> <p>HUGO:GNB GENECARDS:GNB WIKI:GNB HUGO:GNB5 HGNC:4401 ENTREZ:10681 UNIPROT:O14775 GENECARDS:GNB5 REACTOME:401258 KEGG:10681 ATLASONC:GC_GNB5 WIKI:GNB5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <label text="Gβ*"/> <bbox w="40.0" h="20.0" x="15415.561" y="18519.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa120_wnc1_wnc1_sa120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Phosphoinositide-3-kinase, regulatory subunit 5, p101</p> <p>HUGO:PIK3R5 HGNC:30035 ENTREZ:23533 UNIPROT:Q8WYR1 GENECARDS:PIK3R5 REACTOME:242723 KEGG:23533 ATLASONC:GC_PIK3R5 WIKI:PIK3R5 </p> <p>phosphoinositide-3-kinase, regulatory subunit 5</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="p101*"/> <bbox w="80.0" h="40.0" x="15414.561" y="18437.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_wca1_wca3_csa69_wca1_wca3_csa69" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DKK1:MIR373</p> <p>References:</p> <p>s_wca3_re162:(MAP:survival) PMID:22020335</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wca1_wca3_csa69_wca1_wca3_csa69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22020335"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKK1:MIR373"/> <bbox w="99.0" h="94.0" x="21179.06" y="22534.0"/> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa451_wca1_wca3_sa451"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dickkopf 1 homolog (Xenopus laevis)</p> <p>"dickkopf (Xenopus laevis) homolog 1"</p> <p>HUGO:DKK1 HGNC:2891 ENTREZ:22943 UNIPROT:O94907 GENECARDS:DKK1 KEGG:22943 ATLASONC:DKK1ID44007ch10q11 WIKI:DKK1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>dickkopf 1 homolog (Xenopus laevis)</p> <p>"dickkopf (Xenopus laevis) homolog 1"</p> <p>HUGO:DKK1 HGNC:2891 ENTREZ:22943 UNIPROT:O94907 GENECARDS:DKK1 KEGG:22943 ATLASONC:DKK1ID44007ch10q11 WIKI:DKK1</p> <p>Map modules:</p> </body> </html> </notes> <label text="DKK1"/> <bbox w="90.0" h="25.0" x="21185.06" y="22550.0"/> <glyph class="unit of information" id="_3e350d26-e2e7-4199-bed4-841548872bf8"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="21220.06" y="22545.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_wca1_wca3_sa453_wca1_wca3_sa453"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 373</p> <p>HUGO:MIR373 HGNC:31787 ENTREZ:442918 GENECARDS:MIR373 KEGG:442918 ATLASONC:GC_MIR373 WIKI:MIR373</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>microRNA 373</p> <p>HUGO:MIR373 HGNC:31787 ENTREZ:442918 GENECARDS:MIR373 KEGG:442918 ATLASONC:GC_MIR373 WIKI:MIR373</p> <p>Map modules:</p> </body> </html> </notes> <label text="MIR373"/> <bbox w="90.0" h="25.0" x="21184.06" y="22577.0"/> <glyph class="unit of information" id="_976b6b09-36c3-4a66-a616-4db87a8ee37c"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="21214.06" y="22572.0"/> </glyph> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa4883_rc_sa4883" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4883_rc_sa4883"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MACC1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MACC1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Met-tRNA*"/> <bbox w="90.0" h="25.0" x="27614.06" y="15376.5"/> <glyph class="unit of information" id="_41aa2c0b-ed1b-4aa2-bd1c-e78f866c5eea"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27649.06" y="15371.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ca_sa975_ca_sa975" compartmentRef="s_id_ca_ca6_ca_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:TREG_MODULATORS MODULE:CYTOKINES_CHEMOKINES_PRODUCTION MODULE:CAF </p> <p>References:</p> <p>PMID:18514095</p> <p>CXCL10 and CXCL11 ligands fo CXCR3 receptor are expressed in fibroblasts after TNF stimulation, and CXCL9 after IFNG stimulation</p> <p>PMID:22798340</p> <p>3-CXCR3 ligands (such as CXCL9, 10, and 11), also reportedly contribute to Treg-cell infiltration</p> <p>PMID:23567181</p> <p>CAF-mediated recruitment of T lymphocytes is facilitated by secretion of chemokines and cytokines that promote the recruitment of tumor-promoting T cells, including CXCL9, CXCL10, and CXCL12 (SDF-1α)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ca_sa975_ca_sa975"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CXCL10"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18514095"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22798340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23567181"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CXCL10"/> <bbox w="80.0" h="40.0" x="872.5" y="4675.0"/> </glyph> <glyph class="complex" id="s_id_shh1_shh2_csa25_shh1_shh2_csa25" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:MIR29B*:PTEN</p> <p>References:</p> <p>s_shh2_re123:(MAP:survival) PMID:21359530</p> <p>s_shh2_re158:(MAP:survival) PMID:18460397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh2_csa25_shh1_shh2_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21359530"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18460397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="miR-29b_PTEN"/> <bbox w="100.0" h="120.0" x="27454.06" y="21503.0"/> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa219_shh1_shh2_sa219"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphatase and tensin homolog</p> <p>HUGO:PTEN HGNC:9588 ENTREZ:5728 UNIPROT:P60484 GENECARDS:PTEN REACTOME:62405 KEGG:5728 ATLASONC:PTENID158 WIKI:PTEN </p> <p>phosphatase and tensin homo</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:16288286</p> <p>PMID:17218262</p> <p>phosphatase and tensin homolog</p> <p>HUGO:PTEN HGNC:9588 ENTREZ:5728 UNIPROT:P60484 GENECARDS:PTEN REACTOME:62405 KEGG:5728 ATLASONC:PTENID158 WIKI:PTEN </p> <p>phosphatase and tensin homo</p> <p>Map modules:</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:16288286</p> </body> </html> </notes> <label text="PTEN"/> <bbox w="90.0" h="25.0" x="27461.56" y="21551.0"/> <glyph class="unit of information" id="_dfd5e378-1295-4eed-9a0d-9f5a49f9ead7"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="27496.56" y="21546.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_shh1_shh2_sa218_shh1_shh2_sa218"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21359530</p> <p>microRNA 29b-1</p> <p>HUGO:MIR29B1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B1 KEGG:407024 ATLASONC:GC_MIR29B1 WIKI:MIR29B1 HUGO:MIR29B*1 HGNC:31619 ENTREZ:407024 GENECARDS:MIR29B*1 WIKI:MIR29B*1 </p> <p>microRNA 29b-2</p> <p>HUGO:MIR29B2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B2 KEGG:407025 ATLASONC:GC_MIR29B2 WIKI:MIR29B2 HUGO:MIR29B*2 HGNC:31620 ENTREZ:407025 GENECARDS:MIR29B*2 WIKI:MIR29B*2</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="MIR29B*"/> <bbox w="90.0" h="25.0" x="27461.56" y="21518.0"/> <glyph class="unit of information" id="_fe4ac7f4-e22e-46be-9fad-32c4b4d801c1"> <label text="asRNA"/> <bbox w="30.0" h="10.0" x="27491.56" y="21513.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s_id_wnc1_wnc1_csa68_wnc1_wnc1_csa68" compartmentRef="s_id_wca1_wca2_ca3_wnc1_wnc1_ca9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK1_epsilon_*:CTHRC1:DVL*:FZD*:PAR6*:PRR*:RACK1*:ROR2:RSPO3:SYN4*:VANGL*:WNT*:_beta_-Arrestin2*</p> <p>References:</p> <p>PCP MODULE</p> <p>s_wnc1_re112(MAP:survival):</p> <p>Clathrin-mediated endocytosis</p> <p>PMID:21397842</p> <p>PMID:20947020</p> <p>PMID:19910923</p> <p>PCP MODULE splits in Rac1 branch when Dvl is not hyper-phosphorylated</p> <p>PMID:18953287</p> <p>s_wnc1_re108(MAP:survival):</p> <p>Rac1 found to be associated with polymerised Dvl.</p> <p>PMID:20215527</p> <p>DEP domain in Dvl is enough to activate Rac</p> <p>PMID:12533515</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa68_wnc1_wnc1_csa68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20947020"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19910923"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18953287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12533515"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Fzl/ROR/Wnt/CK1ε/Dvl/Axin/GSK3"/> <bbox w="363.0" h="202.0" x="15714.811" y="19382.0"/> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa603_wnc1_wnc1_sa603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Arrestin beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>Arrestin beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2 </p> <p>ARR2</p> <p>arrestin 3", BARR2, DKFZp686L0365</p> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19853559</p> <p>PMID:18497258</p> <p>PMID:15618519</p> <p>Beta-ARRESTIN 2 bind to both GRK-phosphorylated receptor and to the component kinases of the ERK cascade resulting in assembly of an ERK activation complex that is targeted into endosomal vesicles.</p> <p>MEK1/2 and ERK1/2 were reported to be localised in early endosomes to which they are recruited mainly by beta-ARRESTIN.</p> </body> </html> </notes> <label text="β-Arrestin2*"/> <bbox w="80.0" h="40.0" x="15810.811" y="19506.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa596_wnc1_wnc1_sa596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>wingless-type MMTV integration site family member 1</p> <p>HUGO:WNT1 HGNC:12774 ENTREZ:7471 UNIPROT:P04628 GENECARDS:WNT1 REACTOME:67376 KEGG:7471 ATLASONC:GC_WNT1 WIKI:WNT1 </p> <p>wingless-type MMTV integration site family member 2</p> <p>HUGO:WNT2 HGNC:12780 ENTREZ:7472 UNIPROT:P09544 GENECARDS:WNT2 REACTOME:67378 KEGG:7472 ATLASONC:GC_WNT2 WIKI:WNT2 </p> <p>wingless-type MMTV integration site family member 2B</p> <p>HUGO:WNT2B HGNC:12781 ENTREZ:7482 UNIPROT:Q93097 GENECARDS:WNT2B REACTOME:67360 KEGG:7482 ATLASONC:GC_WNT2B WIKI:WNT2B </p> <p>wingless-type MMTV integration site family member 3</p> <p>HUGO:WNT3 HGNC:12782 ENTREZ:7473 UNIPROT:P56703 GENECARDS:WNT3 REACTOME:67380 KEGG:7473 ATLASONC:GC_WNT3 WIKI:WNT3 </p> <p>wingless-type MMTV integration site family member 3A</p> <p>HUGO:WNT3A HGNC:15983 ENTREZ:89780 UNIPROT:P56704 GENECARDS:WNT3A REACTOME:67362 ATLASONC:GC_WNT3A WIKI:WNT3A </p> <p>wingless-type MMTV integration site family member 4</p> <p>HUGO:WNT4 HGNC:12783 ENTREZ:54361 UNIPROT:P56705 GENECARDS:WNT4 REACTOME:67382 KEGG:54361 ATLASONC:GC_WNT4 WIKI:WNT4 </p> <p>wingless-type MMTV integration site family member 5A</p> <p>HUGO:WNT5A HGNC:12784 ENTREZ:7474 UNIPROT:P41221 GENECARDS:WNT5A REACTOME:67364 KEGG:7474 ATLASONC:WNT5AID42825ch3p14 WIKI:WNT5A </p> <p>wingless-type MMTV integration site family member 5B</p> <p>HUGO:WNT5B HGNC:16265 ENTREZ:81029 UNIPROT:Q9H1J7 GENECARDS:WNT5B ATLASONC:GC_WNT5B WIKI:WNT5B </p> <p>wingless-type MMTV integration site family member 6</p> <p>HUGO:WNT6 HGNC:12785 ENTREZ:7475 UNIPROT:Q9Y6F9 GENECARDS:WNT6 REACTOME:67384 ATLASONC:GC_WNT6 WIKI:WNT6 </p> <p>wingless-type MMTV integration site family member 7A</p> <p>HUGO:WNT7A HGNC:12786 ENTREZ:7476 UNIPROT:O00755 GENECARDS:WNT7A REACTOME:67368 ATLASONC:GC_WNT7A WIKI:WNT7A </p> <p>wingless-type MMTV integration site family member 7B</p> <p>HUGO:WNT7B HGNC:12787 ENTREZ:7477 UNIPROT:P56706 GENECARDS:WNT7B REACTOME:67370 ATLASONC:GC_WNT7B WIKI:WNT7B </p> <p>wingless-type MMTV integration site family member 8A</p> <p>HUGO:WNT8A HGNC:12788 ENTREZ:7478 UNIPROT:Q9H1J5 GENECARDS:WNT8A REACTOME:67372 KEGG:7478 ATLASONC:GC_WNT8A WIKI:WNT8A </p> <p>wingless-type MMTV integration site family member 8B</p> <p>HUGO:WNT8B HGNC:12789 ENTREZ:7479 UNIPROT:Q93098 GENECARDS:WNT8B REACTOME:67374 ATLASONC:GC_WNT8B WIKI:WNT8B </p> <p>wingless-type MMTV integration site family member 9A</p> <p>HUGO:WNT9A HGNC:12778 ENTREZ:7483 UNIPROT:O14904 GENECARDS:WNT9A REACTOME:67350 KEGG:7483 ATLASONC:GC_WNT9A WIKI:WNT9A </p> <p>wingless-type MMTV integration site family member 9B</p> <p>HUGO:WNT9B HGNC:12779 ENTREZ:7484 UNIPROT:O14905 GENECARDS:WNT9B REACTOME:67352 KEGG:7484 ATLASONC:GC_WNT9B WIKI:WNT9B </p> <p>wingless-type MMTV integration site family member 10A</p> <p>HUGO:WNT10A HGNC:13829 ENTREZ:80326 UNIPROT:Q9GZT5 GENECARDS:WNT10A REACTOME:67356 KEGG:80326 ATLASONC:GC_WNT10A WIKI:WNT10A </p> <p>wingless-type MMTV integration site family member 10B</p> <p>HUGO:WNT10B HGNC:12775 ENTREZ:7480 UNIPROT:O00744 GENECARDS:WNT10B REACTOME:67358 KEGG:7480 ATLASONC:GC_WNT10B WIKI:WNT10B </p> <p>wingless-type MMTV integration site family member 11</p> <p>HUGO:WNT11 HGNC:12776 ENTREZ:7481 UNIPROT:O96014 GENECARDS:WNT11 REACTOME:67348 KEGG:7481 ATLASONC:GC_WNT11 WIKI:WNT11 </p> <p>wingless-type MMTV integration site family member 16</p> <p>HUGO:WNT16 HGNC:16267 ENTREZ:51384 UNIPROT:Q9UBV4 GENECARDS:WNT16 REACTOME:67354 ATLASONC:GC_WNT16 WIKI:WNT16 </p> <p>HGNC/16267</p> <p>wingless-type MMTV integration site family member 5</p> <p>WNT5A antisense RNA 1</p> <p>HUGO:WNT5A-AS1 HGNC:40616 ENTREZ:100874008 GENECARDS:WNT5A-AS1 WIKI:WNT5A-AS1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Class I: WNT-1/3a/7/8a/8b activates canonical PMID:14747478</p> <p>PMID:15265686</p> <p>PMID:8655584</p> <p>PMID:22017973</p> </body> </html> </notes> <label text="WNT*"/> <bbox w="40.0" h="20.0" x="15900.311" y="19387.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa599_wnc1_wnc1_sa599"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Syndecan 4</p> <p>HUGO:SDC4 HGNC:10661 ENTREZ:6385 UNIPROT:P31431 GENECARDS:SDC4 REACTOME:64234 KEGG:6385 ATLASONC:GC_SDC4 WIKI:SDC4 </p> <p>"syndecan 4 (amphiglycan, ryudocan)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="SYN4*"/> <bbox w="80.0" h="50.0" x="15818.811" y="19406.5"/> <glyph class="unit of information" id="_5c891922-1446-4c3e-8412-6777446c625c"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15836.311" y="19401.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa598_wnc1_wnc1_sa598"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>collagen triple helix repeat containing 1</p> <p>HUGO:CTHRC1 HGNC:18831 ENTREZ:115908 UNIPROT:Q96CG8 GENECARDS:CTHRC1 ATLASONC:CTHRC1ID40193ch8q22 WIKI:CTHRC1</p> <p>Map modules:</p> </body> </html> </notes> <label text="CTHRC1"/> <bbox w="50.0" h="20.0" x="15940.811" y="19392.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa595_wnc1_wnc1_sa595"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>receptor tyrosine kinase-like orphan receptor 2</p> <p>BDB BDB1 NTRKR2</p> <p>HUGO:ROR2 HGNC:10257 ENTREZ:4920 UNIPROT:Q01974 GENECARDS:ROR2 KEGG:6095 ATLASONC:ROR2ID43476ch9q22 WIKI:ROR2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="ROR2"/> <bbox w="80.0" h="50.0" x="15985.311" y="19412.5"/> <glyph class="state variable" id="_66b2e874-972c-4c1d-8b9b-fbe87b820443"> <state value="" variable="S864"/> <bbox w="30.0" h="10.0" x="16050.311" y="19407.766"/> </glyph> <glyph class="state variable" id="_a336cdd6-0d75-4539-a6c4-bdd412660c65"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16020.311" y="19457.5"/> </glyph> <glyph class="state variable" id="_d61fe125-8416-4a0c-9303-f8517bc6ce33"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15980.314" y="19407.5"/> </glyph> <glyph class="state variable" id="_704cd571-5351-4511-addb-b5432671bf58"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="16060.311" y="19457.5"/> </glyph> <glyph class="unit of information" id="_2519414e-8095-4a7c-8763-03d1b652eb8d"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="16002.811" y="19407.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa604_wnc1_wnc1_sa605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15897.561" y="19508.0"/> <glyph class="state variable" id="_33111aa5-4a12-441f-90c7-61fbeb505567"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15892.564" y="19543.0"/> </glyph> <glyph class="state variable" id="_204e0617-89d3-4dd0-a6d5-55ce0a304297"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15969.694" y="19503.0"/> </glyph> <glyph class="state variable" id="_312e9fe8-7079-4d7c-9592-634677b693ad"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="15961.942" y="19543.0"/> </glyph> <glyph class="state variable" id="_ceee0290-0e67-4f65-861e-fe88b03c9989"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15892.564" y="19503.0"/> </glyph> <glyph class="state variable" id="_25a76e6d-cbd9-48eb-8428-4d8c03f59ecd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15972.561" y="19503.0"/> </glyph> <glyph class="state variable" id="_52a96d42-8a53-4ec8-bd55-d158fc980ce5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15972.561" y="19543.0"/> </glyph> <glyph class="state variable" id="_9f2a1c28-9172-4887-ac84-9e187d4ed097"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="15882.561" y="19542.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa606_wnc1_wnc1_sa606"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>R-spondin 3</p> <p>"R-spondin 3 homolog (Xenopus laevis)", "thrombospondin, type I, domain containing 2", THSD2</p> <p>HUGO:RSPO3 HGNC:20866 ENTREZ:84870 UNIPROT:Q9BXY4 GENECARDS:RSPO3 KEGG:84870 ATLASONC:GC_RSPO3 WIKI:RSPO3</p> <p>Map modules:</p> </body> </html> </notes> <label text="RSPO3"/> <bbox w="50.0" h="40.0" x="15985.811" y="19505.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa601_wnc1_wnc1_sa601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1</p> <p>HUGO:GNB2L1 HGNC:4399 ENTREZ:10399 UNIPROT:P63244 GENECARDS:GNB2L1 KEGG:10399 ATLASONC:GNB2L1ID43285ch5q35 WIKI:GNB2L1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:HIF1, MAP:apoptosis / MODULE:MOMP_REGULATION</p> </body> </html> </notes> <label text="RACK1*"/> <bbox w="80.0" h="40.0" x="15722.811" y="19459.5"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa604_wnc1_wnc1_sa604"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="15897.561" y="19461.0"/> <glyph class="state variable" id="_d03db43b-16cd-4194-aadf-ffb5a7c0484a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15892.564" y="19496.0"/> </glyph> <glyph class="state variable" id="_4c15cf41-b2d0-448d-b505-ce76106342e5"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="15969.694" y="19456.0"/> </glyph> <glyph class="state variable" id="_0a3ee93a-5ad2-438a-8dd9-7bcd2a19c53b"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="15961.942" y="19496.0"/> </glyph> <glyph class="state variable" id="_01c3ced9-cf41-4e2e-8a4c-7de626b622fb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15892.564" y="19456.0"/> </glyph> <glyph class="state variable" id="_8d95e128-f1a6-4030-aa0a-6ca04c9dd277"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15972.561" y="19456.0"/> </glyph> <glyph class="state variable" id="_f5e77ce7-bc48-4d87-bd34-8cd6ad79929b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15972.561" y="19496.0"/> </glyph> <glyph class="state variable" id="_386c8155-092c-456d-b28f-9f8d7761191a"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="15882.561" y="19495.72"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa597_wnc1_wnc1_sa597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 epsilon</p> <p>HUGO:CSNK1E HGNC:2453 ENTREZ:1454 UNIPROT:P49674 GENECARDS:CSNK1E REACTOME:57871 KEGG:1454 ATLASONC:GC_CSNK1E WIKI:CSNK1E</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1ε*"/> <bbox w="80.0" h="40.0" x="15805.811" y="19461.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa594_wnc1_wnc1_sa594"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>frizzled family receptor 1</p> <p>HUGO:FZD1 HGNC:4038 ENTREZ:8321 UNIPROT:Q9UP38 GENECARDS:FZD1 REACTOME:55166 ATLASONC:GC_FZD1 WIKI:FZD1 </p> <p>frizzled family receptor 2</p> <p>HUGO:FZD2 HGNC:4040 ENTREZ:2535 UNIPROT:Q14332 GENECARDS:FZD2 REACTOME:55168 KEGG:2535 ATLASONC:GC_FZD2 WIKI:FZD2 </p> <p>frizzled family receptor 3</p> <p>HUGO:FZD3 HGNC:4041 ENTREZ:7976 UNIPROT:Q9NPG1 GENECARDS:FZD3 REACTOME:55170 KEGG:7976 ATLASONC:GC_FZD3 WIKI:FZD3 </p> <p>frizzled family receptor 4</p> <p>HUGO:FZD4 HGNC:4042 ENTREZ:8322 UNIPROT:Q9ULV1 GENECARDS:FZD4 REACTOME:55172 KEGG:8322 ATLASONC:GC_FZD4 WIKI:FZD4 </p> <p>frizzled family receptor 5</p> <p>HUGO:FZD5 HGNC:4043 ENTREZ:7855 UNIPROT:Q13467 GENECARDS:FZD5 REACTOME:55174 KEGG:7855 ATLASONC:GC_FZD5 WIKI:FZD5 </p> <p>frizzled family receptor 6</p> <p>HUGO:FZD6 HGNC:4044 ENTREZ:8323 UNIPROT:O60353 GENECARDS:FZD6 REACTOME:55176 KEGG:8323 ATLASONC:GC_FZD6 WIKI:FZD6 </p> <p>frizzled family receptor 7</p> <p>HUGO:FZD7 HGNC:4045 ENTREZ:8324 UNIPROT:O75084 GENECARDS:FZD7 REACTOME:55178 KEGG:8324 ATLASONC:GC_FZD7 WIKI:FZD7 </p> <p>frizzled family receptor 8</p> <p>HUGO:FZD8 HGNC:4046 ENTREZ:8325 UNIPROT:Q9H461 GENECARDS:FZD8 REACTOME:55180 KEGG:8325 ATLASONC:GC_FZD8 WIKI:FZD8 </p> <p>frizzled family receptor 9</p> <p>HUGO:FZD9 HGNC:4047 ENTREZ:8326 UNIPROT:O00144 GENECARDS:FZD9 REACTOME:55182 KEGG:8326 ATLASONC:GC_FZD9 WIKI:FZD9 </p> <p>frizzled family receptor 10</p> <p>HUGOFZD10 HGNC:4039 ENTREZ:11211 UNIPROT:Q9ULW2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17884187</p> <p>Activators: Fz1 Fz4</p> <p>PMID:19020754</p> <p>PMID:14704854</p> <p>PMID:17127310</p> </body> </html> </notes> <label text="FZD*"/> <bbox w="80.0" h="50.0" x="15904.311" y="19406.5"/> <glyph class="unit of information" id="_3c5e13ad-9f4c-4378-b6b2-9cdb95068f7f"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15921.811" y="19401.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa600_wnc1_wnc1_sa600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>VANGL planar cell polarity protein 2</p> <p>"vang (van gogh, Drosophila)-like 2, vang, van gogh-like 2 (Drosophila)", "vang-like 2 (van gogh, Drosophila)"</p> <p>HUGO:VANGL2 HGNC:15511 ENTREZ:57216 UNIPROT:Q9ULK5 GENECARDS:VANGL2 KEGG:57216 ATLASONC:GC_VANGL2 WIKI:VANGL2 </p> <p>VANGL planar cell polarity protein 1</p> <p>"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"</p> <p>HUGO:VANGL1 HGNC:15512 ENTREZ:81839 UNIPROT:Q8TAA9 GENECARDS:VANGL1 KEGG:81839 ATLASONC:GC_VANGL1 WIKI:VANGL1</p> <p>Map modules:</p> </body> </html> </notes> <label text="VANGL*"/> <bbox w="80.0" h="50.0" x="15735.811" y="19405.5"/> <glyph class="state variable" id="_2dd4e566-1cb3-443e-8e57-9e385ed7e64c"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15730.814" y="19400.5"/> </glyph> <glyph class="state variable" id="_bc1253ab-e9a3-4f26-8e90-02173d777d72"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15810.811" y="19400.5"/> </glyph> <glyph class="state variable" id="_e2125002-7daa-45ca-bbe7-9c3479d7d6a5"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15810.811" y="19425.5"/> </glyph> <glyph class="state variable" id="_e5a90615-923b-483f-bcf8-9c8d5e1d681a"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="15730.811" y="19425.5"/> </glyph> <glyph class="unit of information" id="_0d0acec9-8d6a-47e0-bb78-8d3e0068fa10"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15753.311" y="19400.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa618_wnc1_wnc1_sa618"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ATPase H+ transporting lysosomal accessory protein 2</p> <p>HUGO:ATP6AP2 HGNC:18305 ENTREZ:10159 UNIPROT:O75787 GENECARDS:ATP6AP2 REACTOME:67126 KEGG:10159 ATLASONC:GC_ATP6AP2 WIKI:ATP6AP2 </p> <p>ATPase, H+ transporting, lysosomal accessory protein 1</p> <p>ATP6IP1, ATP6S1, "ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"</p> <p>HUGO:ATP6AP1 HGNC:868 ENTREZ:537 UNIPROT:Q15904 GENECARDS:ATP6AP1 KEGG:537 ATLASONC:GC_ATP6AP1 WIKI:ATP6AP1</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to Fz8 and LRP6</p> </body> </html> </notes> <label text="PRR*"/> <bbox w="80.0" h="40.0" x="15986.561" y="19468.0"/> </glyph> <glyph class="macromolecule" id="s_id_wnc1_wnc1_sa602_wnc1_wnc1_sa602"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>par-6 partitioning defective 6 homolog alpha (C. elegans)</p> <p>"par-6 (partitioning defective 6, C.elegans) homolog alpha"</p> <p>HUGO:PARD6A HGNC:15943 ENTREZ:50855 UNIPROT:Q9NPB6 GENECARDS:PARD6A REACTOME:97684 KEGG:50855 ATLASONC:GC_PARD6A WIKI:PARD6A</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CYTOSKELETON_POLARITY</p> </body> </html> </notes> <label text="PAR6*"/> <bbox w="80.0" h="40.0" x="15723.811" y="19509.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_in_sa2803_in_sa2803" compartmentRef="s_id_in_ca13_in_ca13"> <label text="KIT"/> <bbox w="80.0" h="50.0" x="13800.0" y="1300.0"/> <glyph class="unit of information" id="_7436a2f8-39fe-47a8-9670-1a2ded5c4ace"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="13817.5" y="1295.0"/> </glyph> </glyph> <glyph 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y="21308.508"/> </glyph> <glyph class="state variable" id="_23616b8e-09e0-4023-b1c6-aa1b69146bad"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13723.061" y="21313.338"/> </glyph> <glyph class="state variable" id="_5ad514d1-e35a-4f47-a32d-bc218049582d"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="13723.061" y="21339.72"/> </glyph> <glyph class="state variable" id="_97b6a1cd-e262-4d50-9b9d-282e1b2bbefc"> <state value="" variable="T146"/> <bbox w="30.0" h="10.0" x="13753.093" y="21300.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa63_mpk1_mpk1_csa63" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ERK*:MEK*:SEF*</p> </body> </html> </notes> <label text="ERK*:MEK*:SEF*"/> <bbox w="126.0" h="89.0" x="8140.06" y="20082.5"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa309_mpk1_mpk1_sa309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> </body> </html> </notes> <label text="MEK*"/> <bbox w="66.0" h="26.0" x="8196.561" y="20094.834"/> <glyph class="state variable" id="_980a0b56-7f59-4cc2-bff6-2cd7219e46a3"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8189.0605" y="20107.166"/> </glyph> <glyph class="state variable" id="_02b4e9e0-1ff6-4748-9d1e-20dd06172c93"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8189.0605" y="20098.285"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_mpk1_mpk1_sa310_mpk1_mpk1_sa310"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase 1</p> <p>PRKM1 PRKM2</p> <p>HUGO:MAPK1 HGNC:6871 ENTREZ:5594 UNIPROT:P28482</p> <p>mitogen-activated protein kinase 3</p> <p>PRKM3</p> <p>HUGO:MAPK3 HGNC:6877 ENTREZ:5595 UNIPROT:P27361</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Phosphorylated ERK negatively regulates KSR1/B-Raf interaction downregulating signal transmission.</p> <p>In restig cells ERK1/2 are localised in the cytoplasm due to binding to many cytoplasmic anchors or scaffold proteins.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. (Activation on late endosomes)</p> <p>PMID:19541618 PMID:19565474 PMID:15547943</p> </body> </html> </notes> <label text="ERK*"/> <bbox w="66.0" h="26.0" x="8196.977" y="20120.334"/> <glyph class="unit of information" id="_c453b436-43bc-41a7-902d-9856eb8c1458"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="8219.977" y="20115.334"/> </glyph> <glyph class="state variable" id="_eaf14da5-b235-4cc8-9d96-9e3e1d38f46e"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8189.4766" y="20132.865"/> </glyph> <glyph class="state variable" id="_1e86d0a2-6865-4243-b523-3bf7a1dc45f4"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8189.4766" y="20123.186"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa308_mpk1_mpk1_sa308"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>interleukin 17 receptor D</p> <p>HUGO:IL17RD HGNC:17616 ENTREZ:54756 UNIPROT:Q8NFM7</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Sef1 which is a putative transmembrane protein of the Golgi apparatus seems to be a scaffold protein that recruits ERK1/2 and MEK1/2 to its vicinity and probably allows their activation by Golgi-localised Ras proteins.</p> <p>Unlike many other scaffolds ERK1/2 do not dissociate from Sef1 upon stimulation and therefore nuclear translocation of the Sef1 anchored fraction of ERK1/2 molecules is blocked.</p> </body> </html> </notes> <label text="SEF*"/> <bbox w="66.0" h="26.0" x="8160.56" y="20092.834"/> </glyph> </glyph> <glyph class="complex" id="s_id_shh1_shh1_csa4_shh1_shh1_csa4" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CUL1:RBX1:SKP1:_beta_TRCP*</p> <p>References:</p> <p>s_shh1_re59(MAP:survival):</p> <p>PMID:16371461</p> <p>PMID:16651270</p> <p>Gli3 ubi by bTrCP1</p> <p>PMID:18813803</p> <p>s_shh1_re64(MAP:survival):</p> <p>PMID:16611981</p> <p>Gli2 ubi by bTrCP2</p> <p>s_akt1_re75:(MAP:survival) PMID:17053147</p> <p>s_akt1_re158:(MAP:survival) PMID:19797085</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_csa4_shh1_shh1_csa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16371461"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16651270"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16611981"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17053147"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19797085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SCF"/> <bbox w="176.0" h="117.0" x="26419.06" y="18766.5"/> <glyph class="macromolecule" id="s_id_shh1_shh1_sa27_shh1_shh1_sa27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Beta-transducin repeat domain</p> <p>HUGO:BTRC HGNC:1144 ENTREZ:8945 UNIPROT:Q9Y297 GENECARDS:BTRC REACTOME:55056 KEGG:8945 ATLASONC:BTRCID451ch10q24 WIKI:BTRC </p> <p>F-box and WD repeat domain containing 11</p> <p>BTRC2, BTRCP2, Fbw1b, Fbw11, Hos, KIAA0696</p> <p>HUGO:FBXW11 HGNC:13607 ENTREZ:23291 UNIPROT:Q9UKB1 GENECARDS:FBXW11 REACTOME:55058 KEGG:23291 WIKI:FBXW11</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="βTRCP*"/> <bbox w="80.0" h="40.0" x="26425.06" y="18779.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa29_shh1_shh1_sa29"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Cullin 1</p> <p>HUGO:CUL1 HGNC:2551 ENTREZ:8454 UNIPROT:Q13616 GENECARDS:CUL1 REACTOME:69762 ATLASONC:GC_CUL1 WIKI:CUL1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G1_S_CHECKPOINT, MAP:dnarepair / MODULE:S_PHASE_CHECKPOINT, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15340381</p> <p>PMID:15071497</p> </body> </html> </notes> <label text="CUL1"/> <bbox w="80.0" h="40.0" x="26427.06" y="18822.5"/> </glyph> <glyph class="macromolecule" id="s_id_shh1_shh1_sa30_shh1_shh1_sa30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ring-box 1 E3 ubiquitin protein ligase</p> <p>HUGO:RBX1 HGNC:9928 ENTREZ:9978 UNIPROT:P62877 GENECARDS:RBX1 REACTOME:99731 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MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y 474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Occludin*"/> <bbox w="59.0" h="16.0" x="1097.0" y="15043.5"/> <glyph class="state variable" id="_b7f51ec1-2798-4c54-b3bf-a582f6e698ac"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1151.0" y="15046.525"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1228_emtc_em_sa1228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>claudin 1</p> <p>HUGO:CLDN1, HGNC:2032, ENTREZ:9076, UNIPROT:O95832, GENECARDS:GC03M190023</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="Claudin1*"/> 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<bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14610620"/> </rdf:Bag> </bqbiol:isDescribedBy> <bqbiol:isDescribedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223527"/> </rdf:Bag> </bqbiol:isDescribedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="IL4/IL13_receptor- TYPE 2:IL4"/> <bbox w="110.0" h="190.0" x="9005.0" y="4710.2188"/> <glyph class="macromolecule" id="s_id_in_sa2351_in_sa2351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL</p> <p>MODULE:INPUT_INHIBITORS, MODULE:IMMUNE_SUPPRESSION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_PATHWAYS, MODULE:INPUT_ACTIVATORS, MODULE:IMMUNE_STIMULATION, MODULE:IMMUNOSTIMULATORY_CYTOKINE_PATHWAYS, MODULE:EFFECTOR_INHIBITION, MODULE:IMMUNOSUPPRESSIVE_CYTOKINE_EXPRESSION</p> <p>CASCADE:IL4, CASCADE:Fc_gamma_RIII</p> 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which contains two subunits IL4R and IL13RA1</p> <p>PMID:23124025, PMID:20856220</p> <p>In human monocytes, IL-4 mediates its effect through the</p> <p> type I IL-4R, composed of the IL-4Ra and common gamma-chain (IL-2Rg);</p> <p>And, probably through type II IL-4Ris composed of the</p> <p> IL-4Ra chain and IL-13Ra1</p> <p>PMID:24030977</p> <p>SCF2 (GM-CSF) promotes the immunosuppressive activity of glioma-infiltrating myeloid cells (MDSC) through upregulation of expression of interleukin-4 receptor-a</p> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IL4R"/> <bbox w="80.0" h="50.0" x="9020.0" y="4773.9062"/> <glyph class="state variable" 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<annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2315_rc_sa2315"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PRDX1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PRDX1"/> <bbox w="90.0" h="25.0" x="25001.56" y="16039.5"/> <glyph class="unit of information" id="_9b56a684-07de-4636-8153-bc3688e9c49b"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="25036.56" y="16034.5"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa121_rc_csa121" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:14-3-3*:BimEL*</p> </body> </html> </notes> <label text="14-3-3:BimEL"/> <bbox w="97.0" h="128.0" x="22119.56" y="11514.0"/> <glyph class="macromolecule" id="s_id_rc_sa1303_rc_sa1303"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 </p> <p>stratifin</p> <p>HUGO:SFN HGNC:10773 ENTREZ:2810 UNIPROT:P31947 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:CASPASES, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:RCD_GENES</p> <p>References:</p> <p>synonym:14-3-3 theta</p> <p>synonym:14-3-3 zeta</p> <p>synonym:14-3-3 epsilon</p> <p>for known differences between these different proteins, cf. notes for each individual reaction</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="22126.56" y="11524.0"/> <glyph class="state variable" id="_2ed687f1-43c9-4099-969d-75d8f59b7caa"> <state value="?" variable=""/> <bbox w="15.0" h="10.0" x="22175.658" y="11519.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa1302_rc_sa1302"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 11 (apoptosis facilitator)</p> <p>HUGO:BCL2L11 HGNC:994 ENTREZ:10018 UNIPROT:O43521 </p> <p>BCL2-like 12 (proline rich)</p> <p>HUGO:BCL2L12 HGNC:13787 ENTREZ:83596 UNIPROT:Q9HB09</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:STARVATION_AUTOPHAGY, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>BCL2L11 splice variant</p> </body> </html> </notes> <label text="BimEL*"/> <bbox w="80.0" h="40.0" x="22126.56" y="11574.0"/> <glyph class="state variable" 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class="macromolecule" id="s_id_in_sa1524_in_sa1524" compartmentRef="s_id_in_ca12_in_ca12"> <label text="HDAC*"/> <bbox w="80.0" h="40.0" x="22850.0" y="3160.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_akt1_akt2_sa202_akt1_akt2_sa202" compartmentRef="s_id_wca1_wca1_ca3_wnc1_wnc4_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt2_sa202_akt1_akt2_sa202"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CG"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CA"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CB"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CD"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:PIK3CG"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="p110*"/> <bbox w="70.0" h="25.0" x="12591.561" y="21581.5"/> </glyph> <glyph class="complex" id="s_id_emtc_em_csa266_emtc_em_csa266" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC:AXIN1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:10581160</p> <p>PMID:17318175</p> <p>PMID:10421629</p> <p>Recruitment of CTNNB1 via the degradation complex of APC/AXIN1 is regulated by a series of ordered phosphorylation events.</p> <p>Phosphorylation of AXIN1 by CSNK1 (casein kinase 1) and GSK3B can increase axin binding to CTNNB1.</p> <p>PMID:8638126</p> <p>PMID:11487578</p> <p>PMID:15327768</p> <p>AXIN1 also promotes phosphorylation of APC by CSNK1 and GSK3B.</p> <p>Phosphorylated APC has higher affinity to CTNNB1.</p> <p>PMID:12554650</p> <p>Finally, these phosphorylation events allo CTNNB1 to be a more efficient substrate of both CSNK1 (at S45) and the GSK3B (at T41, S33, S37).</p> <p>The affinity of phosphorylated APC to CTNNB1 is higher than that of phosphorylated AXIN1. </p> <p>Therefore upon phosphorylation, APC can displace AXIN1 from CTNNB1, allowing AXIN1 to bind another molecule of CTNNB1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_csa266_emtc_em_csa266"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10421629"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8638126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11487578"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327768"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12554650"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="APC/AXIN1"/> <bbox w="88.0" h="44.0" x="1549.0" y="16067.5"/> <glyph class="macromolecule" id="s_id_emtc_em_sa1750_emtc_em_sa1750"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1, HGNC:903, ENTREZ:8312, UNIPROT:O15169 , GENECARDS:GC16M000338</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding (right panel), DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="AXIN1"/> <bbox w="40.0" h="20.0" x="1593.5" y="16071.0"/> <glyph class="state variable" id="_3fc3940e-cc71-46eb-84c5-29526dc57cb1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1608.916" y="16066.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_emtc_em_sa1749_emtc_em_sa1749"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>adenomatous polyposis coli</p> <p>HUGO:APC, HGNC:583, ENTREZ:324, UNIPROT:P25054 , GENECARDS:GC05P112101</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding (right panel), DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> <p>Confidence_endIdentifiers_begin:</p> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="APC"/> <bbox w="40.0" h="20.0" x="1552.5" y="16071.0"/> <glyph class="state variable" id="_a789694b-dd1b-4085-9cf5-48cb67e470eb"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="1567.916" y="16066.0"/> </glyph> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa4172_rc_sa4172" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4172_rc_sa4172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:UNC5A"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="UNC5A"/> <bbox w="80.0" h="50.0" x="20297.111" y="9143.431"/> <glyph class="unit of information" id="_e21753a6-1bba-41ef-89b7-cbb4d864e3e5"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="20314.611" y="9138.431"/> </glyph> </glyph> <glyph class="complex" id="s_id_akt1_akt1_csa59_akt1_akt1_csa59" compartmentRef="s_id_wnc1_wnc2_ca3_mpk1_mpk1_ca7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:BAD:BCL2-XL*</p> <p>References:</p> <p>s_akt1_re123:(MAP:survival) PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_akt1_akt1_csa59_akt1_akt1_csa59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="BAD:BCL2-XL*"/> <bbox w="100.0" h="118.0" x="14019.061" y="18177.0"/> <glyph class="macromolecule" id="s_id_akt1_akt1_sa352_akt1_akt1_sa352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-like 1BCL2-associated agonist of cell death</p> <p>HUGO:BCL2L1 HGNC:992 ENTREZ:598 UNIPROT:Q07817 GENECARDS:BCL2L1 REACTOME:50772 KEGG:598 ATLASONC:BCL2L1ID129ch20q11 WIKI:BCL2L1 </p> <p>BCL2-like 1</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <label text="BCL2-XL*"/> <bbox w="80.0" h="40.0" x="14027.061" y="18233.0"/> </glyph> <glyph class="macromolecule" id="s_id_akt1_akt1_sa351_akt1_akt1_sa351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>BCL2-associated agonist of cell death</p> <p>HUGO:BAD HGNC:936 ENTREZ:572 UNIPROT:Q92934 GENECARDS:BAD REACTOME:50663 KEGG:572 ATLASONC:BADID130ch11q13 WIKI:BAD</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:G_alpha__sub_s_endsub_*</p> <p>References:</p> <p>s_wnc1_re46:(MAP:survival) PMID:21406690</p> <p>s_wnc1_re40:(MAP:survival) PMID:9228084</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_wnc1_wnc1_csa26_wnc1_wnc1_csa26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GNAS complex locus</p> <p>GNAS1, "guanine nucleotide binding protein (G protein), alpha stimulating activity polypeptide 1"</p> <p>HUGO:GNAS HGNC:4392 ENTREZ:2778 UNIPROT:O95467 GENECARDS:GNAS KEGG:2778 ATLASONC:GNASID40727ch20q13 WIKI:GNAS</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gαs*"/> <bbox w="40.0" h="20.0" x="16515.06" y="17957.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa28_mo_csa28" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="ARF1_GTP"/> <bbox w="100.0" h="120.0" x="5330.0" y="12050.0"/> <glyph class="macromolecule" id="s_id_mo_sa433_mo_sa433"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ADP ribosylation factor 1 </p> </body> </html> </notes> <label text="ARF1"/> <bbox w="80.0" h="40.0" x="5343.3335" 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w="10.0" h="10.0" x="21501.06" y="21135.96"/> </glyph> </glyph> <glyph class="complex" id="s_id_mo_csa55_mo_csa55" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="Histone H3*/LEO1 promoter*"/> <bbox w="160.0" h="130.0" x="2527.0" y="10761.0"/> <glyph class="macromolecule" id="s_id_mo_sa507_mo_sa507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>histone cluster 1 H3 family member a </p> <p>HUGO:HIST1H3A </p> <p>histone cluster 1 H3 family member b </p> <p>HUGO:HIST1H3B </p> <p>histone cluster 1 H3 family member c </p> <p>HUGO:HIST1H3C </p> <p>histone cluster 1 H3 family member d </p> <p>HUGO:HIST1H3D </p> <p>histone cluster 1 H3 family member e </p> <p>HUGO:HIST1H3E </p> <p>histone cluster 1 H3 family member f </p> <p>HUGO:HIST1H3F </p> <p>histone cluster 1 H3 family member g</p> <p>HUGO:HIST1H3G</p> <p>histone cluster 1 H3 family member h </p> <p>HUGO:HIST1H3H </p> <p>histone cluster 1 H3 family member i </p> <p>HUGO:HIST1H3I</p> <p>histone cluster 1 H3 family member j</p> <p>HUGO:HIST1H3J </p> <p>histone cluster 1 H3 pseudogene 1</p> </body> </html> </notes> <label text="Histone H3*"/> <bbox w="101.0" h="36.0" x="2556.5" y="10783.0"/> <glyph class="state variable" id="_ddbce8ff-cc99-4be4-a68b-b4ed0cce723d"> <state value="Me" variable="K9"/> <bbox w="30.0" h="10.0" x="2571.2888" y="10778.0"/> </glyph> <glyph class="state variable" id="_342f7321-701f-4f02-ac23-ae753596daae"> <state value="Me" variable="K9"/> <bbox w="30.0" h="10.0" x="2613.3984" y="10778.0"/> </glyph> <glyph class="state variable" id="_36873217-124d-4f19-9fea-d1fd6016e594"> <state value="Me" variable="K9"/> <bbox w="30.0" h="10.0" x="2592.0403" y="10778.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_mo_sa506_mo_sa506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="LEO1 promoter*"/> <bbox w="135.0" h="23.0" x="2539.5" y="10829.75"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa2404_rc_sa2404" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa2404_rc_sa2404"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFB2M"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TFB2M"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TFB2M"/> <bbox w="70.0" h="25.0" x="20023.56" y="16281.0"/> </glyph> <glyph class="macromolecule" id="s_id_gf1_sa58_gf1_sa58" compartmentRef="s_id_gf1_ca1_gf1_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>MODULE:GROWTH_FACTORS_LIGANDS_RECEPTORS</p> <p>PMID:12175651; PMID:10086337 </p> <p>Upon IGF-IR autophosphorylation the protein Shc is recruited to the receptor and becomes phosphorylated on tyrosine residues.36 Activated Shc then binds the adaptor Grb2 in an IRS-1-independent manner, leading to activation of the Ras-ERK pathway.36 This pathway of IGF-IR signaling has been most closely associated with cell differentiation and migration, but in some cases also can regulate the machinery of apoptosis, for example, in detachment-induced death, or anoikis, in fibroblasts.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_gf1_sa58_gf1_sa58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<title/> </head> <body> <p>Charge: 0</p> <p>CHEBI:33184 KEGGCOMPOUND:C02843</p> </body> </html> </notes> <label text="long-chain acyl-CoAs"/> <bbox w="151.0" h="28.0" x="18303.81" y="9575.0"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1376_in_sa1376" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Pubmed_ID: 22461508, 22067385, 20644162, 25043024, 18776941, 20237412, 21372296, 23390297 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NEUTROPHILMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORSCASCADE:LACTIC, CASCADE:MIF, CASCADE:IL4, CASCADE:CSF2, CASCADE:IFNABReferences:PMID:21372296HMGB1 markedly increased the expression of the genes for VEGF, and TGFB1 inperitoneal macrophages.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis provavly via upregulation of MMP9, VEGF expression.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.PMID:18776941Myeloid-derived suppressor cells and macrophages isolated from mouse tumors displayed activated Stat3 and induced angiogenesis in an in vitro tube formation assay via Stat3 induction of angiogenic factors, including VEGF and bFGF.PMID:25043024Lactic acid is sufficient to induce Vegf and Arg1 via HIF1a.Lactic acid, probably via HIF1A polarizes macrophages to an M2-Iike state that is critical for tumour growthMIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasionPMID:20237412IFN-B regulates expression of homing and angiogenic factors in neutrophils.IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophilsadditionally Stat3 and c-myc are downregulated by IFN-B.(STAT3 is known to be required for full activation of the Cxcr4 gene ) ----- content merged by Celldesigner to SBGN-ML translation ------ Pubmed_ID: 22461508, 22067385, 20644162, 25043024, 18776941, 20237412, 21372296, 23390297 Map modules:MAP:MACROPHAGE, MAP:MDSC, MAP:DENDRITIC_CELL, MAP:NEUTROPHILMODULE:EFFECTOR_INHIBITION, MODULE:TUMOR_GROWTH, MODULE:ANGIOGENIC_FACTORSCASCADE:LACTIC, CASCADE:MIF, CASCADE:IL4, CASCADE:CSF2, CASCADE:IFNABReferences:PMID:21372296HMGB1 markedly increased the expression of the genes for VEGF, and TGFB1 inperitoneal macrophages.PMID:23390297, PMID:22461508MIF signaling induces angiogenesis provavly via upregulation of MMP9, VEGF expression.PMID:22067385c-MYC is expressed in tumor-associated macrophages, and its inhibition blocks the expression of protumoral genes including VEGF, MMP9, HIF-1A, and TGFB.PMID:20644162Cytokine-induced CD33+ human MDSCs have upregulated iNOS, TGFB, VEGF.PMID:18776941Myeloid-derived suppressor cells and macrophages isolated from mouse tumors displayed activated Stat3 and induced angiogenesis in an in vitro tube formation assay via Stat3 induction of angiogenic factors, including VEGF and bFGF.PMID:25043024Lactic acid is sufficient to induce Vegf and Arg1 via HIF1a.Lactic acid, probably via HIF1A polarizes macrophages to an M2-Iike state that is critical for tumour growthMIF signaling induces angiogenesis probavly via upregulation of MMP9, VEGF expression in macrophages and activates tumor invasionPMID:20237412IFN-B regulates expression of homing and angiogenic factors in neutrophils.IFNB downregulates expression Cxcr4, Vegf, and Mmp9 in neutrophilsadditionally Stat3 and c-myc are downregulated by IFN-B.(STAT3 is known to be required for full activation of the Cxcr4 gene ) </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> <p> PI3K signaling results in the activation of both mTOR-dependent and independent pathways in T cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ad_csa73_ad_csa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16469695"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26159692"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23087689"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="mTORC1*"/> <bbox w="210.0" h="210.0" x="30031.0" y="5020.0"/> <glyph class="macromolecule" id="s_id_ad_sa670_ad_sa670"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MLST8</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> </body> </html> </notes> <label text="MLST8"/> <bbox w="80.0" h="40.0" x="30136.0" y="5085.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa671_ad_sa671"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:DEPTOR</p> <p>CASCADE:TCR</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> </body> </html> </notes> <label text="DEPTOR"/> <bbox w="80.0" h="40.0" x="30136.0" y="5145.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa668_ad_sa668"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:MTOR</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> <p> PI3K signaling results in the activation of both mTOR-dependent and independent pathways in T cells.</p> </body> </html> </notes> <label text="MTOR"/> <bbox w="80.0" h="40.0" x="30046.0" y="5145.0"/> <glyph class="state variable" id="_48bf4eba-06f0-4b2d-bbfc-52daa979434b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="30041.0" y="5160.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ad_sa669_ad_sa669"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:RPTOR</p> <p>CASCADE:TCR</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> </body> </html> </notes> <label text="RPTOR"/> <bbox w="80.0" h="40.0" x="30046.0" y="5085.0"/> </glyph> <glyph class="macromolecule" id="s_id_ad_sa672_ad_sa672"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:AKT1S1</p> <p>CASCADE:TCR</p> <p>MODULE:TCR_SIGNALING</p> <p>PMID:16469695, PMID:26159692</p> <p>mTOR Complex 1 (mTORC1) is composed of mTOR itself, regulatory-associated protein of mTOR (Raptor), mammalian lethal with SEC13 protein 8 (MLST8) and the recently identified PRAS40 and DEPTOR</p> <p>PMID:23087689</p> </body> </html> </notes> <label text="PRAS40*"/> <bbox w="80.0" h="40.0" x="30136.0" y="5035.0"/> </glyph> </glyph> <glyph class="complex" id="s_id_mpk1_mpk1_csa18_mpk1_mpk1_csa18" compartmentRef="s_id_mpk1_mpk1_ca3_mpk1_mpk1_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GRB2:LAMTOR2:MEK*:MP1*:RAF1:RAS*:RTK*:SOS*</p> </body> </html> </notes> <label text="GRB2:LAMTOR2:MEK*:MP1*:RAF1:RAS*:RTK*:SOS*"/> <bbox w="312.0" h="146.0" x="8347.561" y="20054.5"/> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa610_mpk1_mpk1_sa610"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 2</p> <p>"roadblock domain containing 3" ROBLD3</p> <p>HUGO:LAMTOR2 HGNC:29796 ENTREZ:28956 UNIPROT:Q9Y2Q5</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>P14 is an adaptor protein responsible for the recruitment of MP1 to late endosomes.</p> <p>P14 is peripherally associated with the cytoplasmic face of late endosomes.</p> </body> </html> </notes> <label text="LAMTOR2"/> <bbox w="59.0" h="26.0" x="8496.436" y="20135.023"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa606_mpk1_mpk1_sa606"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>epidermal growth factor receptor</p> <p>"epidermal growth factor receptor (avian erythroblastic leukemia viral (v-erb-b) oncogene homolog)" ERBB</p> <p>HUGO:EGFR HGNC:3236 ENTREZ:1956 UNIPROT:P00533 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 neuro/glioblastoma derived oncogene homolog (avian)</p> <p>NGL "v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"</p> <p>HUGO:ERBB2 HGNC:3430 ENTREZ:2064 UNIPROT:P04626 </p> <p>v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)</p> <p>LCCS2 "lethal congenital contracture syndrome 2"</p> <p>HUGO:ERBB3 HGNC:3431 ENTREZ:2065 UNIPROT:P21860</p> <p>v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)</p> <p>"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"</p> <p>HUGO:ERBB4 HGNC:3432 ENTREZ:2066 UNIPROT:Q15303 </p> <p>fibroblast growth factor receptor 1</p> <p>FLT2 "fms-related tyrosine kinase 2" KAL2</p> <p>HUGO:FGFR1 HGNC:3688 ENTREZ:2260 UNIPROT:P11362 </p> <p>fibroblast growth factor receptor 2</p> <p>"bacteria-expressed kinase" BEK CFD1 "craniofacial dysostosis 1" "Jackson-Weiss syndrome" JWS "keratinocyte growth factor receptor" KGFR</p> <p>HUGO:FGFR2 HGNC:3689 ENTREZ:2263 UNIPROT:P21802 </p> <p>fibroblast growth factor receptor 3</p> <p>ACH "achondroplasia thanatophoric dwarfism"</p> <p>HUGO:FGFR3 HGNC:3690 ENTREZ:2261 UNIPROT:P22607 </p> <p>fibroblast growth factor receptor 4</p> <p>HUGO:FGFR4 HGNC:3691 ENTREZ:2264 UNIPROT:P22455 </p> <p>fms-related tyrosine kinase 1</p> <p>FLT "fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"</p> <p>HUGO:FLT1 HGNC:3763 ENTREZ:2321 UNIPROT:P17948 </p> <p>fms-related tyrosine kinase 3</p> <p>HUGO:FLT3 HGNC:3765 ENTREZ:2322 UNIPROT:P36888 </p> <p>fms-related tyrosine kinase 4</p> <p>HUGO:FLT4 HGNC:3767 ENTREZ:2324 UNIPROT:P35916 </p> <p>platelet-derived growth factor receptor alpha polypeptide</p> <p>HUGO:PDGFRA HGNC:8803 ENTREZ:5156 UNIPROT:P16234 </p> <p>platelet-derived growth factor receptor beta polypeptide</p> <p>PDGFR</p> <p>HUGO:PDGFRB HGNC:8804 ENTREZ:5159 UNIPROT:P09619</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RTKs exist as inactive monomers; after binding to their ligands they form dimers and their intracellular domains are activated.</p> </body> </html> </notes> <label text="RTK*"/> <bbox w="50.0" h="25.0" x="8538.503" y="20062.977"/> <glyph class="unit of information" id="_4034e81e-bc4b-4cb5-bd17-e5e998832509"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="8541.003" y="20057.977"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa611_mpk1_mpk1_sa611"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>late endosomal/lysosomal adaptor MODULE:MAPK and MTOR activator 3</p> <p>MAP2K1IP1 "MODULE:MAPK scaffold protein 1" MAPKSP1 "mitogen-activated protein kinase kinase 1 interacting protein 1"</p> <p>HUGO:LAMTOR3 HGNC:15606 ENTREZ:8649 UNIPROT:Q9UHA4</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>MP1 is localised in late endosomes by P14 forming a very stable heterodimeric complex that is required for ERK activation.</p> <p>It is required for efficient and sustained EGF-induced MEK and ERK activation (in late endosomes)</p> </body> </html> </notes> <label text="MP1*"/> <bbox w="66.0" h="26.0" x="8460.061" y="20084.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa607_mpk1_mpk1_sa607"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>growth factor receptor-bound protein 2</p> <p>HUGO:GRB2 HGNC:4566 ENTREZ:2885 UNIPROT:P62993</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>Grb2 is an adaptor protein normally present in cytosol. It is recruited to the plasma membrane by activated RTK.</p> </body> </html> </notes> <label text="GRB2"/> <bbox w="50.0" h="25.0" x="8538.186" y="20085.273"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa613_mpk1_mpk1_sa613"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>v-Ha-ras Harvey rat sarcoma viral oncogene homolog</p> <p>HRAS1</p> <p>HUGO:HRAS HGNC:5173 ENTREZ:3265 UNIPROT:P01112 </p> <p>v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog</p> <p>KRAS2 "v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog"</p> <p>HUGO:KRAS HGNC:6407 ENTREZ:3845 UNIPROT:P01116 </p> <p>neuroblastoma RAS viral (v-ras) oncogene homolog</p> <p>HUGO:NRAS HGNC:7989 ENTREZ:4893 UNIPROT:P01111</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>RasGDP binds to Sos and RasGTP is generated. RasGTP keeps Sos inactive enhancing duration and amplitude of the output.</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>K-Ras is found exclusively at the PM. H- and N-Ras are also present in endomembrane compartments such as the endoplasmic reticulum and the Golgi apparatus.</p> <p>Processed K-Ras is confined primarily to the PM; however when its polybasic region is phosphorylated or targeted by Ca2+/calmodulin K-Ras relocalises to other endomembrane compartments including Golgi endoplasmic reticulum and mitochondria. In contrast H-Ras and N-Ras constantly shuttle between the Golgi and PM as a result of a constitutive depalmitoylation/repalmitoylation cycle.</p> <p>H-Ras but not K-Ras signalling was dependent on endocytosis.</p> </body> </html> </notes> <label text="RAS*"/> <bbox w="50.0" h="25.0" x="8498.186" y="20110.0"/> <glyph class="state variable" id="_f056af38-4b49-47ae-abdd-69244611fbcf"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="8490.686" y="20117.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa267_mpk1_mpk1_sa267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>mitogen-activated protein kinase kinase 1</p> <p>PRKMK1</p> <p>HUGO:MAP2K1 HGNC:6840 ENTREZ:5604 UNIPROT:Q02750 </p> <p>mitogen-activated protein kinase kinase 2</p> <p>PRKMK2</p> <p>HUGO:MAP2K2 HGNC:6842 ENTREZ:5605 UNIPROT:P36507</p> <p>Map modules:</p> <p>MAP:mpk1 / MODULE:MAPK</p> <p>References:</p> <p>In resting cells MEK1/2 are localised in the cytoplasm and this may be induced by two molecular mechanisms (i.e.: the presence of a nuclear export domain (NES) in their N-terminal domain; the binding to cytoplasmic anchors such as KSR MP1 beta-ARRESTIN-2 Sef1).</p> <p>MEK1 forms a complex with P14 and MP1 on late endosomes necessary for the activation of ERK pathway in this location of the cell.</p> <p>MP1 specifically binds MEK1 and ERK1 but not MEK2 or ERK2. 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text="PDH"/> <bbox w="100.0" h="120.0" x="19894.06" y="14944.0"/> <glyph class="macromolecule multimer" id="s_id_rc_sa3428_rc_sa3428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) beta</p> <p>HUGO:PDHB HGNC:8808 ENTREZ:5162 UNIPROT:P11177</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PDHB"/> <bbox w="86.0" h="46.0" x="19900.06" y="14999.0"/> <glyph class="unit of information" id="_423100e4-1bc1-419a-a275-804b3f2dc1b7"> <label text="N:2"/> <bbox w="20.0" h="10.0" x="19933.06" y="14994.0"/> </glyph> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3427_rc_sa3427"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>pyruvate dehydrogenase (lipoamide) alpha 1</p> <p>HUGO:PDHA1 HGNC:8806 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:BAK1:TMBIM6</p> <p>Map modules:</p> <p>MODULE:ER_STRESS </p> <p>References:</p> <p>PMID:23850759</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_csa478_rc_csa478"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23850759"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4610_rc_sa4610"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:AIFM1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="AIFM1"/> <bbox w="80.0" h="40.0" x="23629.06" y="15879.0"/> <glyph class="state variable" id="_fc9fd2b3-998d-4509-af5d-2ad3f03d6a87"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="23665.498" y="15874.0"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_an_sa326_an_sa326" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <label text="ANGPT1"/> <bbox w="70.0" h="25.0" x="7126.0" y="7853.0"/> </glyph> <glyph class="complex" id="s_id_te_csa30_te_csa30" compartmentRef="s_id_te_ca3_te_ca3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> <p>NAME:DKC1/GAR1/NHP2/NOP10/TERC/WRAP53</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_te_csa30_te_csa30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23551398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DKC1/GAR1/NHP2/NOP10/TERC/WRAP53"/> <bbox w="305.0" h="130.0" x="4792.06" y="21700.0"/> <glyph class="nucleic acid feature" id="s_id_te_sa244_te_sa244"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>telomerase RNA componentHUGO:TERCModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 ----- content merged by Celldesigner to SBGN-ML translation ------ telomerase RNA componentModules_begin:MODULE:TELOMERASEModules_endReferences:PMID:23551398 </body> </html> </notes> <label text="TERC"/> <bbox w="90.0" h="25.0" x="4997.06" y="21727.5"/> <glyph class="state variable" id="_d2d021fb-7464-4258-afb6-c10cea04f9f2"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="5032.56" y="21722.5"/> </glyph> <glyph class="unit of information" id="_2be645bb-aeef-418e-847c-2f262febcbf6"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="5032.06" y="21722.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_te_sa243_te_sa243"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>GAR1 homolog, ribonucleoprotein</p> <p>HUGO:GAR1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> <p>Modules_end</p> <p>References:</p> <p>PMID:23551398</p> </body> </html> </notes> <label text="GAR1"/> <bbox w="80.0" h="40.0" x="4902.06" y="21770.0"/> </glyph> <glyph class="macromolecule" id="s_id_te_sa241_te_sa241"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dyskeratosis congenita 1, dyskerin</p> <p>HUGO:DKC1</p> <p>Modules_begin:</p> <p>MODULE:TELOMERASE</p> 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_emtc_em_sa1293_emtc_em_sa1293"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CLDN2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Claudin2*"/> <bbox w="78.0" h="17.0" x="2710.0" y="15228.0"/> <glyph class="unit of information" id="_ce77482a-1763-4dac-82c6-d3feb977d3eb"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="2739.0" y="15223.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_rc_sa5542_rc_sa5542" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_shh1_shh1_sa267_shh1_shh1_sa267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCNB1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinB*"/> <bbox w="80.0" h="40.0" x="27030.56" y="19368.0"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa1200_in_sa1200" compartmentRef="s_id_in_ca13_in_ca13"> <label text="CCR7"/> <bbox w="80.0" h="50.0" x="14240.0" y="1560.0"/> <glyph class="unit of information" id="_834cda97-1800-4570-b12d-5d1c92590cde"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="14257.5" y="1555.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa275_ce_sa275" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_ce_sa275_ce_sa275"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TP53BP1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="TP53BP1"/> <bbox w="80.0" h="40.0" x="14426.019" y="14105.714"/> <glyph class="state variable" id="_e390345d-a1c0-441c-90d5-92733eba5652"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14421.019" y="14120.714"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_rc_sa4535_rc_sa4535" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:PARTHANATOS, MODULE:DNA_DAMAGE_RESPONSE</p> <p>References:</p> <p>PMID:23110147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa4535_rc_sa4535"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23110147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="NAD and ATP depletion"/> <bbox w="155.0" h="31.0" x="19191.56" y="16513.5"/> </glyph> <glyph class="macromolecule" id="s_id_in_sa551_in_sa551" compartmentRef="s_id_in_ca12_in_ca12"> <label text="MEK*"/> <bbox w="80.0" h="40.0" x="18226.5" y="3888.0"/> <glyph class="state variable" id="_d963ff43-e067-4f06-98a1-6178529e9576"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="18219.0" y="3902.9683"/> </glyph> </glyph> <glyph class="complex" id="s_id_rc_csa266_rc_csa266" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:Mg2+:PPAT</p> <p>Map modules:</p> <p>MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PPAT"/> <bbox w="120.0" h="104.0" x="18645.31" y="12109.5"/> <glyph class="simple chemical" id="s_id_rc_sa2068_rc_sa2068"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="Mg2+"/> <bbox w="25.0" h="25.0" x="18728.81" y="12119.0"/> </glyph> <glyph class="macromolecule multimer" id="s_id_rc_sa3401_rc_sa3401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>phosphoribosyl pyrophosphate amidotransferase</p> <p>HUGO:PPAT HGNC:9238 ENTREZ:5471 UNIPROT:Q06203</p> <p>Map modules:</p> <p>MODULE:FATTY_ACID_BIOSYNTHESIS, MODULE:GLUTAMINE_METABOLISM, MODULE:MITOCHONDRIAL_METABOLISM</p> </body> </html> </notes> <label text="PPAT"/> <bbox w="86.0" h="46.0" x="18650.31" y="12140.5"/> <glyph class="state variable" id="_d12afc3e-bab3-4769-b57e-23b1d96ce7f4"> <state value="4Fe-4S" variable=""/> <bbox w="40.0" h="10.0" x="18673.31" y="12135.5"/> </glyph> <glyph class="unit of information" id="_851721fd-0d44-424d-b4d0-8faa8eff7bfa"> <label text="N:4"/> <bbox w="20.0" h="10.0" x="18683.31" y="12181.5"/> </glyph> </glyph> </glyph> <glyph class="source and sink" id="s_id_te_sa187_te_sa187" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="te_s197"/> <bbox w="30.0" h="30.0" x="6394.06" y="22312.0"/> </glyph> <glyph class="macromolecule" id="s_id_mpk1_mpk1_sa326_mpk1_mpk1_sa326" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_mpk1_mpk1_sa326_mpk1_mpk1_sa326"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RPS6KA6"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RSK*"/> <bbox w="50.0" h="25.0" x="9265.561" y="20225.666"/> <glyph class="state variable" id="_b4c0b8d9-91ab-46ab-8002-1248d3ab6500"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="9258.061" y="20233.166"/> </glyph> </glyph> <glyph class="complex" id="s_id_ce_csa111_ce_csa111" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:APC1*:APC10*:APC11*:APC12*:APC2*:APC3*:APC4*:APC5*:APC6*:APC7*:APC8*:E-Cadherin*</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> </body> </html> </notes> <label text="APC1*/APC2*/APC3*/APC4*/APC5*/APC6*/APC7*/APC8*/APC9*/APC10*/APC11*/APC12/CDH1"/> <bbox w="267.0" h="240.0" x="11081.473" y="10488.356"/> <glyph class="macromolecule" id="s_id_ce_sa770_ce_sa770"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cadherin 1, type 1, E-cadherin (epithelial)</p> <p>HUGO:CDH1, HGNC:1748, ENTREZ:999, UNIPROT:P12830</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="E-Cadherin*"/> <bbox w="80.0" h="40.0" x="11092.223" y="10492.356"/> <glyph class="state variable" id="_a924e304-0f9a-4228-89fd-4c1f370ffecd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11087.223" y="10507.356"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_ce_sa966_ce_sa966"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC1, HGNC:19988, ENTREZ:64682, UNIPROT:Q9H1A4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC1*"/> <bbox w="80.0" h="40.0" x="11092.223" y="10534.735"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa973_ce_sa973"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 26 homolog (S. cerevisiae)</p> <p>HUGO:CDC26, HGNC:17839, ENTREZ:246184, UNIPROT:Q8NHZ8</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC12*"/> <bbox w="80.0" h="40.0" x="11258.473" y="10663.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa975_ce_sa975"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 10</p> <p>HUGO:ANAPC10, HGNC:24077, ENTREZ:10393, UNIPROT:Q9UM13</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC10*"/> <bbox w="80.0" h="40.0" x="11260.473" y="10579.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa965_ce_sa965"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 2</p> <p>HUGO:ANAPC2, HGNC:19989, ENTREZ:29882, UNIPROT:Q9UJX6</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC2*"/> <bbox w="80.0" h="40.0" x="11092.223" y="10577.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa970_ce_sa970"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 16 homolog (S. cerevisiae)</p> <p>HUGO:CDC16, HGNC:1720, ENTREZ:8881, UNIPROT:Q13042</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC6*"/> <bbox w="80.0" h="40.0" x="11175.473" y="10578.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa974_ce_sa974"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 11</p> <p>HUGO:ANAPC11, HGNC:14452, ENTREZ:51529, UNIPROT:Q9NYG5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC11*"/> <bbox w="80.0" h="40.0" x="11260.473" y="10622.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa967_ce_sa967"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 27 homolog (S. cerevisiae)</p> <p>HUGO:CDC27, HGNC:1728, ENTREZ:996, UNIPROT:P30260</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC3*"/> <bbox w="80.0" h="40.0" x="11092.223" y="10623.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa968_ce_sa968"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 4</p> <p>HUGO:ANAPC4, HGNC:19990, ENTREZ:29945, UNIPROT:Q9UJX5</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC4*"/> <bbox w="80.0" h="40.0" x="11092.223" y="10663.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa971_ce_sa971"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 7</p> <p>HUGO:ANAPC7, HGNC:17380, ENTREZ:51434, UNIPROT:Q9UJX3</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC7*"/> <bbox w="80.0" h="40.0" x="11175.473" y="10621.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa972_ce_sa972"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>cell division cycle 23 homolog (S. cerevisiae)</p> <p>HUGO:CDC23, HGNC:1724, ENTREZ:8697, UNIPROT:Q9UJX2</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC8*"/> <bbox w="80.0" h="40.0" x="11175.473" y="10663.356"/> </glyph> <glyph class="macromolecule" id="s_id_ce_sa969_ce_sa969"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>anaphase promoting complex subunit 5</p> <p>HUGO:ANAPC5, HGNC:15713, ENTREZ:51433, UNIPROT:Q9UJX4</p> <p>Map modules:</p> <p>MODULE:CELL_CYCLE, MODULE:M_CC_PHASE, MODULE:SPINDLE_CHECKPOINT</p> <p>References:</p> <p>PMID:18590585, PMID:17303408, PMID:17660363, PMID:7575488, PMID:15279786</p> </body> </html> </notes> <label text="APC5*"/> <bbox w="80.0" h="40.0" x="11175.473" y="10534.356"/> </glyph> </glyph> <glyph class="complex" id="s_id_ca_csa111_ca_csa111" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DAG:PKC*</p> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> </body> </html> </notes> <label text="ca_s4879"/> <bbox w="100.0" h="120.0" x="5030.0" y="2100.0"/> <glyph class="macromolecule" id="s_id_ca_sa1022_ca_sa1022"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:CAF MODULE:CORE </p> <p>References:</p> <p>PRKCA_B_E_G*</p> <p>protein kinase C, alpha</p> <p>PRKCA REACTOME:58197 KEGG:5578 ATLASONC:GC_PRKCA WIKI:PRKCA </p> <p>protein kinase C, beta</p> <p>PRKCB REACTOME:58199 KEGG:5579 ATLASONC:GC_PRKCB WIKI:PRKCB </p> <p>protein kinase C, epsilon</p> <p>PRKCE REACTOME:58203 KEGG:5581 ATLASONC:GC_PRKCE WIKI:PRKCE </p> <p>protein kinase C, gamma</p> <p>PRKCG REACTOME:58205 KEGG:5582 ATLASONC:GC_PRKCG WIKI:PRKCG </p> <p>protein kinase C, zeta</p> <p>PRKCZ REACTOME:58219 KEGG:5590 ATLASONC:GC_PRKCZ WIKI:PRKCZ</p> <p>protein kinase C, delta</p> <p>PRKCD REACTOME:58201 KEGG:5580 ATLASONC:PRKCDID42901ch3p21 WIKI:PRKCD </p> <p>protein kinase C, eta</p> <p>PRKCH REACTOME:58209 KEGG:5583 ATLASONC:GC_PRKCH WIKI:PRKCH </p> <p>protein kinase C, theta</p> <p>PRKCQ REACTOME:58217 KEGG:5588 ATLASONC:GC_PRKCQ WIKI:PRKCQ </p> <p>protein kinase C, iota</p> <p>PRKCI REACTOME:58207 KEGG:5584 ATLASONC:PRKCIID41857ch3q26 WIKI:PRKCI</p> <p>PKCA</p> <p>PKCB PRKCB1 PRKCB2 “protein kinase C beta 1″</p> <p>PKCG SCA14</p> <p>CASCADE:GAST</p> <p>PMID:24584707</p> <p>Receptor activation of PLC induces the breakdown of membrane phosphatidylinositol4,5-bisphosphate (PIP2), leading to the formation of two second messengers, IP3 and 1,2-diacylglycerol (DG) [6] and [88]. IP3 induces Ca2+ release from the internal storage pool [6], or probably affects membrane ion channels [57], and DG activates the protein kinase C (PKC) enzyme system</p> </body> </html> </notes> <label text="PKC*"/> <bbox w="80.0" h="40.0" x="5040.0" y="2110.0"/> </glyph> <glyph class="simple chemical" id="s_id_ca_sa1023_ca_sa1023"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CASCADE:IFNAB</p> <p>PMID:18784374, PMID:23077238</p> </body> </html> </notes> <label text="DAG"/> <bbox w="70.0" h="25.0" x="5045.0" y="2167.5"/> </glyph> </glyph> <glyph class="macromolecule" id="s_id_an_sa299_an_sa299" compartmentRef="s_id_an_ca1_an_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HGNC:4037</p> <p>PMID:21378271</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_an_sa299_an_sa299"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21378271"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SYN"/> <bbox w="80.0" h="40.0" x="4332.0" y="6295.0"/> <glyph class="state variable" id="_26354033-d4b6-4b8a-beba-c35f70c47ab8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="4407.0" y="6301.716"/> </glyph> </glyph> <glyph class="phenotype" id="s_id_emtc_em_sa139_emtc_em_sa139" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY, MODULE:CELL_CELL_ADHESIONS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:TIGHT_JUNCTIONS, MODULE:GAP_JUNCTIONS, MODULE:ADHERENS_JUNCTIONS, MODULE:DESMOSOMES</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="Gap junctions"/> <bbox w="100.0" h="20.0" x="1261.0" y="17839.5"/> </glyph> <glyph class="nucleic acid feature" id="s_id_in_sa1340_in_sa1340" compartmentRef="s_id_in_ca12_in_ca12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Charge: 0</p> </body> </html> </notes> <label text="IL2"/> <bbox w="90.0" h="25.0" x="20031.25" y="5292.5"/> <glyph class="unit of information" id="_94eafa4d-84ed-48eb-b706-f9f44087e062"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="20066.25" y="5287.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_rc_sa5017_rc_sa5017" compartmentRef="s_id_shh1_shh2_ca2_mo_ca2"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s_id_rc_sa5017_rc_sa5017"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDF2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:SDF2L1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="SDF2L1"/> <bbox w="90.0" h="25.0" x="28816.326" y="16041.5"/> <glyph class="unit of information" id="_c7d22aa3-044a-493c-88be-bac14b90b6be"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="28851.326" y="16036.5"/> </glyph> </glyph> <glyph class="nucleic acid feature" id="s_id_te_sa509_te_sa509" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body>Modules_begin:MODULE:REPLICATIONModules_end ----- content merged by Celldesigner to SBGN-ML translation ------ Modules_begin:MODULE:REPLICATIONModules_end </body> </html> </notes> <label text="Telomeric G-Strand"/> <bbox w="193.0" h="30.0" x="3176.06" y="22282.5"/> </glyph> <glyph class="complex" id="s16324_emtc_em_csa105" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAL:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21270398</p> <p>The aLb2 integrin (so-called LFA-1) is important for the adhesion of T cells and NK (natural killer) cells to target cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16324_emtc_em_csa105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21270398"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aLb2*"/> <bbox w="43.0" h="57.0" x="4922.145" y="18012.125"/> <glyph class="macromolecule" id="s16325_emtc_em_sa643"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4925.361" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s16326_emtc_em_sa645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha L (antigen CD11A (p180), lymphocyte function-associated antigen 1; alpha polypeptide)</p> <p>CD11A</p> <p>HUGO:ITGAL HGNC:6148 ENTREZ:3683 UNIPROT:P20701</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAL"/> <bbox w="40.0" h="20.0" x="4925.361" y="18015.125"/> </glyph> </glyph> <glyph class="complex" id="s16327_emtc_em_csa66" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA3:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22203675</p> <p>EMT and pulmonary fibrogenesis require epithelial integrin a3b1-mediated crosstalk betweenTGFB1 and Wntsignaling pathways</p> <p>PMID:22118458</p> <p>Integrins a3b1, a6b1, a6b4 and a7b1 engage with laminins</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16327_emtc_em_csa66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22118458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a3b1*"/> <bbox w="40.0" h="60.0" x="4226.32" y="18012.125"/> <glyph class="macromolecule" id="s16328_emtc_em_sa529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)</p> <p>"antigen identified by monoclonal antibody J143", MSK18</p> <p>HUGO:ITGA3 HGNC:6139 ENTREZ:3675 UNIPROT:P26006</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA3"/> <bbox w="40.0" h="20.0" x="4226.32" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16329_emtc_em_sa530"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4226.32" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16330_mo_csa24" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="a1b1*"/> <clone/> <bbox w="100.0" h="120.0" x="3334.0" y="11985.0"/> <glyph class="macromolecule" id="s16331_mo_sa421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 1</p> </body> </html> </notes> <label text="ITGA1"/> <clone/> <bbox w="80.0" h="40.0" x="3344.0" y="11995.0"/> </glyph> <glyph class="macromolecule" id="s16332_mo_sa422"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="3344.0" y="12045.0"/> <glyph class="state variable" id="_2497cd37-c9c1-4882-bd6d-e5b60a6daf7d"> <state value="" variable="Y783"/> <bbox w="30.0" h="10.0" x="3385.9492" y="12040.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s16330_mo_csa22" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="a1b1*"/> <clone/> <bbox w="100.0" h="120.0" x="3536.0" y="11405.0"/> <glyph class="macromolecule" id="s16331_mo_sa416"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 1</p> </body> </html> </notes> <label text="ITGA1"/> <clone/> <bbox w="80.0" h="40.0" x="3547.0" y="11466.0"/> </glyph> <glyph class="macromolecule" id="s16332_mo_sa418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> </body> </html> </notes> <label text="ITGB1"/> <clone/> <bbox w="80.0" h="40.0" x="3548.0" y="11416.0"/> <glyph class="state variable" id="_44989427-2af8-46d8-83c0-2d0fc7743088"> <state value="" variable="Y783"/> <bbox w="30.0" h="10.0" x="3589.9492" y="11411.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s16333_mo_csa25" compartmentRef="s_id_te_ca4_ca_ca5"> <label text="a2b1*"/> <bbox w="100.0" h="120.0" x="3701.0" y="12211.0"/> <glyph class="macromolecule" id="s16334_mo_sa424"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> </body> </html> </notes> <label text="ITGA2"/> <bbox w="80.0" h="40.0" x="3711.0" y="12271.0"/> </glyph> <glyph class="macromolecule" id="s16335_mo_sa423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="80.0" h="40.0" x="3711.0" y="12221.0"/> <glyph class="state variable" id="_08888ca6-8cb4-45b8-8d5a-86dfb08007b4"> <state value="" variable="Y783"/> <bbox w="30.0" h="10.0" x="3752.9492" y="12216.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s16336_wca1_wca2_csa21" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*</p> </body> </html> </notes> <label text="(CK2)"/> <bbox w="84.0" h="88.0" x="23499.06" y="18758.0"/> <glyph class="macromolecule" id="s16337_wca1_wca2_sa141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="40.0" h="30.0" x="23542.06" y="18797.0"/> </glyph> <glyph class="macromolecule" id="s16338_wca1_wca2_sa138"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <bbox w="40.0" h="30.0" x="23509.06" y="18765.0"/> </glyph> <glyph class="macromolecule" id="s16337_wca1_wca2_sa140"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <bbox w="40.0" h="30.0" x="23509.06" y="18797.0"/> </glyph> <glyph class="macromolecule" id="s16339_wca1_wca2_sa139"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <bbox w="40.0" h="30.0" x="23542.06" y="18765.0"/> </glyph> </glyph> <glyph class="complex" id="s16344_emtc_em_csa108" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAX:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="aXb2*"/> <bbox w="40.0" h="60.0" x="4974.025" y="18485.125"/> <glyph class="macromolecule" id="s16345_emtc_em_sa651"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha X (complement component 3 receptor 4 subunit)</p> <p>CD11C, "integrin, alpha X (antigen CD11C (p150), alpha polypeptide)"</p> <p>HUGO:ITGAX HGNC:6152 ENTREZ:3687 UNIPROT:P20702</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAX"/> <bbox w="40.0" h="20.0" x="4974.025" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s16346_emtc_em_sa652"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4974.025" y="18508.125"/> </glyph> </glyph> <glyph class="complex" id="s16347_emtc_em_csa81" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA10:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16347_emtc_em_csa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a10b1*"/> <bbox w="40.0" h="60.0" x="4671.4" y="18485.125"/> <glyph class="macromolecule" id="s16348_emtc_em_sa569"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4671.4" y="18508.125"/> </glyph> <glyph class="macromolecule" id="s16349_emtc_em_sa570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 10</p> <p>HUGO:ITGA10 HGNC:6135 ENTREZ:8515 UNIPROT:O75578</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA10"/> <bbox w="40.0" h="20.0" x="4671.4" y="18488.125"/> </glyph> </glyph> <glyph class="complex" id="s16350_emtc_em_csa20" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB6</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for aVb6: Latent TGFB, fibronectin, osteopontin, ADAM</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16350_emtc_em_csa20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb6*"/> <bbox w="40.0" h="60.0" x="5171.793" y="18012.125"/> <glyph class="macromolecule" id="s16351_emtc_em_sa351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5171.793" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16352_emtc_em_sa322"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 6</p> <p>HUGO:ITGB6 HGNC:6161 ENTREZ:3694 UNIPROT:P18564</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB6"/> <bbox w="40.0" h="20.0" x="5171.793" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16353_emtc_em_csa78" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA11:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16353_emtc_em_csa78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a11b1*"/> <bbox w="40.0" h="60.0" x="4722.05" y="18012.125"/> <glyph class="macromolecule" id="s16354_emtc_em_sa563"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 11</p> <p>HUGO:ITGA11 HGNC:6136 ENTREZ:22801 UNIPROT:Q9UKX5</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA11"/> <bbox w="40.0" h="20.0" x="4722.05" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16355_emtc_em_sa561"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4722.05" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16359_emtc_em_csa70" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA6:ITGB4</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrins a3b1, a6b1, a6b4 and a7b1 engage with laminins</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16359_emtc_em_csa70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22118458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a6b4*"/> <bbox w="40.0" h="60.0" x="4472.686" y="18012.125"/> <glyph class="macromolecule" id="s16360_emtc_em_sa539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 6</p> <p>HUGO:ITGA6 HGNC:6142 ENTREZ:3655 UNIPROT:P23229</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA6"/> <bbox w="40.0" h="20.0" x="4472.729" y="18016.125"/> </glyph> <glyph class="macromolecule" id="s16361_emtc_em_sa540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 4</p> <p>HUGO:ITGB4 HGNC:6158 ENTREZ:3691 UNIPROT:P16144</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB4"/> <bbox w="38.0" h="18.0" x="4473.729" y="18037.125"/> </glyph> </glyph> <glyph class="complex" id="s16362_wnc1_wnc1_csa9" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:DVL*:G_alpha__sub_13q_endsub_*:_beta_-Arrestin*</p> <p>References:</p> <p>s_wnc1_re11:(MAP:survival) PMID:20223821</p> <p>s_wnc1_re16(MAP:survival):</p> <p>It is possible that the signalling downstream occurs as for the canonical MODULE</p> <p>PMID:20223821</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16362_wnc1_wnc1_csa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20223821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20223821"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="DVL*:Gα13q*:β-Arrestin*"/> <bbox w="104.0" h="142.0" x="14712.561" y="17961.0"/> <glyph class="macromolecule" id="s16363_wnc1_wnc1_sa54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>arrestin, beta 1</p> <p>HUGO:ARRB1 HGNC:711 ENTREZ:408 UNIPROT:P49407 GENECARDS:ARRB1 REACTOME:404181 KEGG:408 ATLASONC:GC_ARRB1 WIKI:ARRB1 </p> <p>arrestin, beta 2</p> <p>HUGO:ARRB2 HGNC:712 ENTREZ:409 UNIPROT:P32121 GENECARDS:ARRB2 REACTOME:50317 KEGG:409 ATLASONC:GC_ARRB2 WIKI:ARRB2</p> <p>Map modules:</p> </body> </html> </notes> <label text="β-Arrestin*"/> <bbox w="80.0" h="40.0" x="14725.061" y="18040.0"/> </glyph> <glyph class="macromolecule" id="s16364_wnc1_wnc1_sa53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>guanine nucleotide binding protein (G protein), alpha 13</p> <p>HUGO:GNA13 HGNC:4381 ENTREZ:10672 UNIPROT:Q14344 GENECARDS:GNA13 REACTOME:55358 KEGG:10672 ATLASONC:GC_GNA13 WIKI:GNA13</p> <p>Map modules:</p> </body> </html> </notes> <label text="Gα13q*"/> <bbox w="50.0" h="20.0" x="14739.061" y="17974.0"/> </glyph> <glyph class="macromolecule" id="s16365_wnc1_wnc1_sa52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>dishevelled dsh homolog 1 (Drosophila)</p> <p>HUGO:DVL1 HGNC:3084 ENTREZ:1855 UNIPROT:O14640 GENECARDS:DVL1 KEGG:1855 ATLASONC:DVL1ID463ch1p36 WIKI:DVL1 </p> <p>dishevelled dsh homolog 2 (Drosophila)</p> <p>HUGO:DVL2 HGNC:3086 ENTREZ:1856 UNIPROT:O14641 GENECARDS:DVL2 REACTOME:53996 ATLASONC:GC_DVL2 WIKI:DVL2 </p> <p>dishevelled dsh homolog 3 (Drosophila)</p> <p>HUGO:DVL3 HGNC:3087 ENTREZ:1857 UNIPROT:Q92997 GENECARDS:DVL3 ATLASONC:GC_DVL3 WIKI:DVL3 </p> <p>"dishevelled 1 (homologous to Drosophila dsh)"</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="DVL*"/> <bbox w="80.0" h="40.0" x="14723.311" y="17998.0"/> <glyph class="state variable" id="_deb6f0a1-432f-4018-b384-974bf4d3aca1"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14718.314" y="18033.0"/> </glyph> <glyph class="state variable" id="_d0e2cb77-880c-4636-9d00-71b99dad945f"> <state value="P" variable=""/> <bbox w="15.0" h="10.0" x="14795.444" y="17993.0"/> </glyph> <glyph class="state variable" id="_d08e7e6d-4cec-4a48-bbde-f8c2ebd3a561"> <state value="" variable="S139"/> <bbox w="30.0" h="10.0" x="14787.692" y="18033.0"/> </glyph> <glyph class="state variable" id="_9c93d7d0-e915-4dc0-9e2a-b5ce5ab6a760"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14718.314" y="17993.0"/> </glyph> <glyph class="state variable" id="_e6e49f76-c6e5-40e3-97f9-83eb278332a0"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14798.311" y="17993.0"/> </glyph> <glyph class="state variable" id="_53369462-4f89-4a70-bb39-2d2f208f61bd"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="14798.311" y="18033.0"/> </glyph> <glyph class="state variable" id="_300d68c8-36de-45fb-86fa-a24bee2f4029"> <state value="" variable="S142"/> <bbox w="30.0" h="10.0" x="14708.311" y="18032.72"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s16366_emtc_em_csa244" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA1:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16366_emtc_em_csa244"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a1b1*"/> <bbox w="40.0" h="60.0" x="4075.5" y="18485.125"/> <glyph class="macromolecule" id="s16367_emtc_em_sa1565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4075.5" y="18505.125"/> </glyph> <glyph class="macromolecule" id="s16368_emtc_em_sa1566"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 1</p> <p>HUGO:ITGA1 HGNC:6134 ENTREZ:3672 UNIPROT:P56199</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA1"/> <bbox w="40.0" h="20.0" x="4075.5" y="18488.125"/> </glyph> </glyph> <glyph class="complex" id="s16369_emtc_em_csa23" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for aVb1: Latent TGFB, fibronectin, osteopontin, vitronectin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16369_emtc_em_csa23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb1*"/> <bbox w="40.0" h="60.0" x="5023.975" y="18012.125"/> <glyph class="macromolecule" id="s16370_emtc_em_sa350"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5023.975" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16371_emtc_em_sa348"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="5023.975" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16372_emtc_em_csa90" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA5:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16372_emtc_em_csa90"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19487819"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a5b1*"/> <bbox w="40.0" h="60.0" x="4374.951" y="18485.125"/> <glyph class="macromolecule" id="s16373_emtc_em_sa599"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 5 (fibronectin receptor, alpha polypeptide)</p> <p>HUGO:ITGA5, HGNC:6141, ENTREZ:3678, UNIPROT:P08648, GENECARDS:GC12M054789</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA5"/> <bbox w="40.0" h="20.0" x="4374.951" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s16374_emtc_em_sa600"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4374.951" y="18508.125"/> </glyph> </glyph> <glyph class="complex" id="s16375_wca1_wca2_csa27" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:AXIN*:CK1_alpha_*:GSK3*</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="AXIN*:CK1α*:GSK3*"/> <bbox w="211.0" h="121.0" x="24119.06" y="18663.0"/> <glyph class="macromolecule" id="s16376_wca1_wca2_sa174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>glycogen synthase kinase 3 alpha</p> <p>HUGO:GSK3A HGNC:4616 ENTREZ:2931 UNIPROT:P49840 GENECARDS:GSK3A REACTOME:69666 ATLASONC:GC_GSK3A WIKI:GSK3A </p> <p>glycogen synthase kinase 3 beta</p> <p>HUGO:GSK3B HGNC:4617 ENTREZ:2932 UNIPROT:P49841 GENECARDS:GSK3B REACTOME:404223 ATLASONC:GSK3BID40761ch3q13 WIKI:GSK3B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="GSK3*"/> <bbox w="80.0" h="40.0" x="24219.06" y="18675.0"/> </glyph> <glyph class="macromolecule" id="s16377_wca1_wca2_sa175"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 1 alpha 1</p> <p>HUGO:CSNK1A1 HGNC:2451 ENTREZ:1452 UNIPROT:P48729 GENECARDS:CSNK1A1 REACTOME:57867 KEGG:1452 ATLASONC:CSNK1A1ID40168ch5q32 WIKI:CSNK1A1</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="CK1α*"/> <bbox w="80.0" h="40.0" x="24222.06" y="18719.0"/> </glyph> <glyph class="macromolecule" id="s16378_wca1_wca2_sa173"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>axin 1</p> <p>HUGO:AXIN1 HGNC:903 ENTREZ:8312 UNIPROT:O15169 GENECARDS:AXIN1 REACTOME:50579 KEGG:8312 ATLASONC:AXIN1ID379ch16p13 WIKI:AXIN1 </p> <p>axin 2</p> <p>HUGO:AXIN2 HGNC:904 ENTREZ:8313 UNIPROT:Q9Y2T1 GENECARDS:AXIN2 KEGG:8313 ATLASONC:AXIN2ID456ch17q24 WIKI:AXIN2</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> </body> </html> </notes> <label text="AXIN*"/> <bbox w="80.0" h="40.0" x="24134.06" y="18677.0"/> <glyph class="state variable" id="_672f16c7-c9c0-4b6e-826c-9dfe4fecfd89"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="24127.053" y="18672.0"/> </glyph> <glyph class="state variable" id="_01b29ad4-f680-4622-9972-122ffbd5666c"> <state value="" variable="E"/> <bbox w="15.0" h="10.0" x="24206.56" y="18672.213"/> </glyph> <glyph class="state variable" id="_fe7f9c3a-5ad7-4ab3-a74a-3195a5aff4d2"> <state value="" variable="K63"/> <bbox w="25.0" h="10.0" x="24121.56" y="18711.72"/> </glyph> <glyph class="state variable" id="_a29932d4-59c0-4042-b619-e9d847fc764d"> <state value="" variable="S222"/> <bbox w="30.0" h="10.0" x="24199.06" y="18672.213"/> </glyph> <glyph class="state variable" 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variable" id="_a3adfe33-c798-4d88-a79f-1a85aa40c1d5"> <state value="" variable="K11"/> <bbox w="25.0" h="10.0" x="24200.941" y="18712.0"/> </glyph> <glyph class="state variable" id="_3615a44c-d8fd-4619-823f-6d478a12556b"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24129.064" y="18672.0"/> </glyph> <glyph class="state variable" id="_cfbad3dc-91c5-4829-8616-699989d51cad"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="24209.06" y="18672.0"/> </glyph> </glyph> </glyph> <glyph class="complex" id="s16379_emtc_em_csa82" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAE:ITGB7</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:17325197</p> <p>Integrin aEb7 binds to E-Cadherin</p> <p>This interaction promotes antitumor "killer T cell" activity by triggering lytic granule polarization and exocytosis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16379_emtc_em_csa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17325197"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aEb7*"/> <bbox w="40.0" h="60.0" x="4823.598" y="18012.125"/> <glyph class="macromolecule" id="s16380_emtc_em_sa573"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha E (antigen CD103, human mucosal lymphocyte antigen 1; alpha polypeptide)</p> <p>HUGO:ITGAE HGNC:6147 ENTREZ:3682 UNIPROT:P38570</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAE"/> <bbox w="40.0" h="20.0" x="4823.598" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16381_emtc_em_sa574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 7</p> <p>HUGO:ITGB7 HGNC:6162 ENTREZ:3695 UNIPROT:P26010</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB7"/> <bbox w="40.0" h="20.0" x="4823.598" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16382_emtc_em_csa25" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB5</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for aVb5: Latent TGFB, Osteopontin, vitronectin,</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16382_emtc_em_csa25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb5*"/> <bbox w="40.0" h="60.0" x="5122.25" y="18485.125"/> <glyph class="macromolecule" id="s16383_emtc_em_sa332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 5</p> <p>HUGO:ITGB5 HGNC:6160 ENTREZ:3693 UNIPROT:P18084</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB5"/> <bbox w="40.0" h="20.0" x="5122.25" y="18508.125"/> </glyph> <glyph class="macromolecule" id="s16384_emtc_em_sa354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5122.25" y="18488.125"/> </glyph> </glyph> <glyph class="complex" id="s16385_emtc_em_csa85" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA8:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for a8b1: Latent TGFb, tenascin, fibronectin, osteoponitin, vitronectin, nephronectin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16385_emtc_em_csa85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a8b1*"/> <bbox w="40.0" h="60.0" x="4572.584" y="18485.375"/> <glyph class="macromolecule" id="s16386_emtc_em_sa580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4572.584" y="18508.125"/> </glyph> <glyph class="macromolecule" id="s16387_emtc_em_sa581"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 8</p> <p>HUGO:ITGA8 HGNC:6144 ENTREZ:8516 UNIPROT:P53708</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA8"/> <bbox w="40.0" h="20.0" x="4572.584" y="18488.125"/> </glyph> </glyph> <glyph class="complex" id="s16388_emtc_em_csa87" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA4:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="a4b1*"/> <bbox w="40.0" h="60.0" x="4275.592" y="18012.125"/> <glyph class="macromolecule" id="s16389_emtc_em_sa593"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 4 (antigen CD49D, alpha 4 subunit of VLA-4 receptor)</p> <p>CD49D</p> <p>HUGO:ITGA4 HGNC:6140 ENTREZ:3676 UNIPROT:P13612</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA4"/> <bbox w="40.0" h="20.0" x="4275.592" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16390_emtc_em_sa591"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4275.592" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16391_emtc_em_csa93" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:8636223</p> <p>Integrin aVb3 is distinct in its capacity to recognize the sequence Arg-Gly-Asp (RGD) in many extra-cellular matrix (ECM) components. </p> <p>aVb3 can also interact with the neural cell adhesion molecule L1CAM; a member of the immunoglobulin superfamily (IgSF). In other words, aVb3 undergoes heterophilic binding with L1CAM</p> <p>M21 cells display some aVb3-dependent adhesion and spreading on immunopurified human L1. Ligation between this ligand and aVb3 was also observed to promote significant haptotactic cell migration. </p> <p>Significant aVb3-dependent adhesion and spreading was evident on a L1 fragment containing Ig-like domains 4, 5, and 6. </p> <p>Importantly, mutation of an RGD sequence present in the sixth Ig-like domain of L1 abrogated M21 cell adhesion. </p> <p>Despite high levels of L1 expression the M21 melanoma cells did not display significant adhesion via a homophilic L1-L1 interaction. </p> <p>These data suggest that M21 melanoma cells recognize and adhere to L1 through a mechanism that is primarily heterophilic and integrin dependent. </p> <p>Finally, we present evidence that melanoma cells can shed and deposit L1 in occluding ECM. </p> <p>aVb3 may recognize L1 in a cell-cell or cell-substrate interaction.</p> <p>PMID:11553709</p> <p>Tumor metastasis involves many stage-specific adhesive interactions. The expression of several cell adhesion molecules, notably the integrin aVb3 has been associated with the metastatic potential of tumor cells. </p> <p>In the context of in vitro monolayer of human lung microvascular, L1CAM was shown to serve as a potential ligand for aVb3 during melanoma transendothelial migration.</p> <p>Also, polyclonal antibodies against L1 partially inhibited the transendothelial migration of melanoma cells. </p> <p>However, addition of both L1 and aVb3 antibodies did not show additive effects, suggesting that they are components of the same adhesion system.</p> <p>Together, the data suggest that interactions between the integrin aVb3 on melanoma cells and L1 on endothelial cells play an important role in the transendothelial migration of melanoma cells.</p> <p>PMID:10022831</p> <p>Interaction between integrin avb3 and extracellular matrix,as the most important survival system for nascent vessels, is crucial for endothelial cells sprouting from capillaries and for angiogenesis.</p> <p>Tyrosine-phosphorylated VEGFR2 co-immunoprecipitated with b3 integrin subunit, but not with b1 or b5, from cells stimulated with VEGFA (165 amino acid isoform)</p> <p>VEGFR2 phosphorylation and mitogenicity induced by VEGFA were enhanced in cells plated on the avb3 ligand, vitronectin, compared with cells plated on the a5b1 ligand, fibronectin or the a2b1 ligand, collagen.</p> <p>A new role for avb3 integrin in the activation of an in vitro angiogenic program in endothelial cells. </p> <p>Besides being the most important survival system for nascent vessels by regulating cell adhesion to matrix, avb3 integrin participates in the full activation of VEGFR2 triggered by VEGFA.</p> <p>PMID:7512751</p> <p>PMID:8755653</p> <p>Integrin avb3 is expressed in high quantities on angiogenic endothelial cells where it suppresses the activity of p53 and the p53-inducible cell-cycle inhibitor p21WAF1/CIP1 and increases the BCL2/Bax ratio, with a consequent antiapoptotic effect</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16391_emtc_em_csa93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8636223"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11553709"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10022831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7512751"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8755653"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb3*"/> <bbox w="40.0" h="60.0" x="5073.248" y="18012.125"/> <glyph class="macromolecule" id="s16392_emtc_em_sa637"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5073.248" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16393_emtc_em_sa639"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)</p> <p>GP3A</p> <p>HUGO:ITGB3 HGNC:6156 ENTREZ:3690 UNIPROT:P05106 GENECARDS:GC17P045331</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB3"/> <bbox w="40.0" h="20.0" x="5073.248" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16394_akt1_akt2_csa5" compartmentRef="s_id_akt1_akt2_ca1_wca1_wca2_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:14-3-3*:FOXO3</p> <p>References:</p> <p>s_akt2_re9:(MAP:survival) PMID:11864996</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16394_akt1_akt2_csa5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11864996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="14-3-3*:FOXO3"/> <bbox w="100.0" h="120.0" x="11883.561" y="20600.0"/> <glyph class="macromolecule" id="s16395_akt1_akt2_sa24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>forkhead box O3</p> <p>FKHRL1 FOXO3A</p> <p>HUGO:FOXO3 HGNC:3821 ENTREZ:2309 UNIPROT:O43524 GENECARDS:FOXO3 REACTOME:199273 KEGG:2309 ATLASONC:AF6q21ID125 WIKI:FOXO3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:survival / MODULE:MAPK, MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16288288</p> </body> </html> </notes> <label text="FOXO3"/> <bbox w="80.0" h="40.0" x="11890.311" y="20653.5"/> <glyph class="state variable" id="_f1ca4375-af59-4354-8fba-2d3dc7302212"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11885.311" y="20666.057"/> </glyph> <glyph class="state variable" id="_314fad26-0c1e-4050-8057-4ced369a3820"> <state value="" variable="S644"/> <bbox w="30.0" h="10.0" x="11875.311" y="20688.22"/> 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y="20687.633"/> </glyph> </glyph> <glyph class="macromolecule" id="s16396_akt1_akt2_sa23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta polypeptide</p> <p>HUGO:YWHAB HGNC:12849 ENTREZ:7529 UNIPROT:P31946 GENECARDS:YWHAB REACTOME:48889 KEGG:7529 ATLASONC:GC_YWHAB WIKI:YWHAB </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon polypeptide</p> <p>HUGO:YWHAE HGNC:12851 ENTREZ:7531 UNIPROT:P62258 GENECARDS:YWHAE REACTOME:48891 KEGG:7531 ATLASONC:GC_YWHAE WIKI:YWHAE </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma polypeptide</p> <p>HUGO:YWHAG HGNC:12852 ENTREZ:7532 UNIPROT:P61981 GENECARDS:YWHAG REACTOME:48907 KEGG:7532 ATLASONC:GC_YWHAG WIKI:YWHAG </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta polypeptide</p> <p>HUGO:YWHAH HGNC:12853 ENTREZ:7533 UNIPROT:Q04917 GENECARDS:YWHAH REACTOME:48905 KEGG:7533 ATLASONC:GC_YWHAH WIKI:YWHAH </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta polypeptide</p> <p>HUGO:YWHAQ HGNC:12854 ENTREZ:10971 UNIPROT:P27348 GENECARDS:YWHAQ REACTOME:48915 KEGG:10971 ATLASONC:GC_YWHAQ WIKI:YWHAQ </p> <p>tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta polypeptide</p> <p>HUGO:YWHAZ HGNC:12855 ENTREZ:7534 UNIPROT:P63104 GENECARDS:YWHAZ REACTOME:48917 KEGG:7534 ATLASONC:GC_YWHAZ WIKI:YWHAZ</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:dnarepair / MODULE:G2_M_CHECKPOINT, MAP:survival / MODULE:HEDGEHOG, MAP:survival / MODULE:PI3K_AKT_MTOR, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18481918</p> </body> </html> </notes> <label text="14-3-3*"/> <bbox w="80.0" h="40.0" x="11891.061" y="20606.5"/> </glyph> </glyph> <glyph class="complex" id="s16397_emtc_em_csa69" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA6:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrins a3b1, a6b1, a6b4 and a7b1 engage with laminins</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16397_emtc_em_csa69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22118458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a6b1*"/> <bbox w="40.0" h="61.0" x="4424.36" y="18485.066"/> <glyph class="macromolecule" id="s16398_emtc_em_sa536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4424.36" y="18508.125"/> </glyph> <glyph class="macromolecule" id="s16399_emtc_em_sa537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 6</p> <p>HUGO:ITGA6 HGNC:6142 ENTREZ:3655 UNIPROT:P23229</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA6"/> <bbox w="40.0" h="20.0" x="4424.36" y="18488.125"/> </glyph> </glyph> <glyph class="complex" id="s16400_emtc_em_csa100" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAD:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="aDb2*"/> <bbox w="40.0" h="60.0" x="4776.219" y="18485.125"/> <glyph class="macromolecule" id="s16401_emtc_em_sa629"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha D</p> <p>HUGO:ITGAD HGNC:6146 ENTREZ:3681 UNIPROT:Q13349</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAD"/> <bbox w="40.0" h="20.0" x="4776.219" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s16402_emtc_em_sa628"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4776.219" y="18508.125"/> </glyph> </glyph> <glyph class="complex" id="s16403_emtc_em_csa104" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAM:ITGB2</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="aMb2*"/> <bbox w="40.0" h="60.0" x="4875.035" y="18485.125"/> <glyph class="macromolecule" id="s16404_emtc_em_sa642"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha M (complement component 3 receptor 3 subunit)</p> <p>CD11B, CR3A, "integrin, alpha M (complement component receptor 3, alpha; also known as CD11b (p170), macrophage antigen alpha polypeptide)"</p> <p>HUGO:ITGAM HGNC:6149 ENTREZ:3684 UNIPROT:P11215</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAM"/> <bbox w="40.0" h="20.0" x="4875.035" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s16405_emtc_em_sa641"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 2 (complement component 3 receptor 3 and 4 subunit)</p> <p>synonym CD18, "integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; macrophage antigen 1 (mac-1) beta subunit)", MFI7</p> <p>HUGO:ITGB2, HGNC:6155, ENTREZ:3689, GENECARDS:GC21M046305, UNIPROT:P05107 </p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB2"/> <bbox w="40.0" h="20.0" x="4875.035" y="18508.125"/> </glyph> </glyph> <glyph class="complex" id="s16406_emtc_em_csa91" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA9:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="a9b1*"/> <bbox w="40.0" h="60.0" x="4620.504" y="18012.125"/> <glyph class="macromolecule" id="s16407_emtc_em_sa603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 9</p> <p>HUGO:ITGA9 HGNC:6145 ENTREZ:3680 UNIPROT:Q13797</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA9"/> <bbox w="40.0" h="20.0" x="4620.504" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16408_emtc_em_sa601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4620.504" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16409_emtc_em_csa73" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA7:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrins a3b1, a6b1, a6b4 and a7b1 engage with laminins</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16409_emtc_em_csa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22118458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a7b1*"/> <bbox w="40.0" h="60.0" x="4523.176" y="18485.125"/> <glyph class="macromolecule" id="s16410_emtc_em_sa545"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4523.176" y="18508.125"/> </glyph> <glyph class="macromolecule" id="s16411_emtc_em_sa560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 7</p> <p>HUGO:ITGA7 HGNC:6143 ENTREZ:3679 UNIPROT:Q13683</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA7"/> <bbox w="40.0" h="20.0" x="4523.176" y="18488.125"/> </glyph> 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x="14996.561" y="18395.0"/> <glyph class="unit of information" id="_6f61143c-43a1-4ecc-b299-2e849a4f69e4"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="15014.061" y="18390.0"/> </glyph> </glyph> <glyph class="simple chemical" id="s16417_wnc1_wnc1_sa113"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="IP3"/> <bbox w="70.0" h="25.0" x="14999.561" y="18373.0"/> </glyph> </glyph> <glyph class="complex" id="s16418_emtc_em_csa96" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA4:ITGB7</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <label text="a4b7*"/> <bbox w="40.0" h="60.0" x="4325.543" y="18485.125"/> <glyph class="macromolecule" id="s16419_emtc_em_sa615"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 4 (antigen CD49D, alpha 4 subunit of VLA-4 receptor)</p> <p>CD49D</p> <p>HUGO:ITGA4 HGNC:6140 ENTREZ:3676 UNIPROT:P13612</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA4"/> <bbox w="40.0" h="20.0" x="4325.543" y="18488.125"/> </glyph> <glyph class="macromolecule" id="s16420_emtc_em_sa614"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 7</p> <p>HUGO:ITGB7 HGNC:6162 ENTREZ:3695 UNIPROT:P26010</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB7"/> <bbox w="40.0" h="20.0" x="4325.543" y="18508.125"/> </glyph> </glyph> <glyph class="complex" id="s16421_emtc_em_csa97" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA2B:ITGB3</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16421_emtc_em_csa97"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a2bb3*"/> <bbox w="40.0" h="60.0" x="4174.047" y="18012.125"/> <glyph class="macromolecule" id="s16422_emtc_em_sa617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)</p> <p>GP3A</p> <p>HUGO:ITGB3 HGNC:6156 ENTREZ:3690 UNIPROT:P05106 GENECARDS:GC17P045331</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB3"/> <bbox w="40.0" h="20.0" x="4174.047" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s16423_emtc_em_sa618"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 2b (platelet glycoprotein IIb of IIb/IIIa complex, antigen CD41)</p> <p>GP2B, "integrin, alpha 2b (platelet glycoprotein IIb of IIb/IIIa complex, antigen CD41B)"</p> <p>HUGO:ITGA2B HGNC:6138 ENTREZ:3674 UNIPROT:P08514</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA2B"/> <bbox w="40.0" h="20.0" x="4174.047" y="18015.125"/> </glyph> </glyph> <glyph class="complex" id="s16424_emtc_em_csa21" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGAV:ITGB8</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:21909923</p> <p>Ligands for aVb8: Latent TGFB, vitronectin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16424_emtc_em_csa21"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="aVb8*"/> <bbox w="40.0" h="60.0" x="5221.066" y="18012.125"/> <glyph class="macromolecule" id="s16425_emtc_em_sa326"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 8</p> <p>HUGO:ITGB8 HGNC:6163 ENTREZ:3696 UNIPROT:P26012</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB8"/> <bbox w="40.0" h="20.0" x="5221.066" y="18035.125"/> </glyph> <glyph class="macromolecule" id="s16426_emtc_em_sa353"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha V</p> <p>"antigen identified by monoclonal antibody L230", "integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)", MSK8, "vitronectin receptor", VNRA, VTNR</p> <p>HUGO:ITGAV HGNC:6150 ENTREZ:3685 UNIPROT:P06756 GENECARDS:GC02P187418</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGAV"/> <bbox w="40.0" h="20.0" x="5221.066" y="18015.125"/> </glyph> </glyph> <glyph class="complex" id="s16434_mo_csa2" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GTP:RAC1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:12480336</p> <p>PMID:16212495</p> <p>Rac1 is a member of the Ras superfamily of small GTPases.</p> <p>It plays essential role in control of the cell polarity, actin cytoskeleton rearrangements, protein trafficking and directed motility in a wide variety of mammalian cells</p> <p>PMID:11152757</p> <p>Rac1 belongs to the Rho supgroup of small GTPases protein family.</p> <p>This subgroup is involved in cytoskeletal control, regulation of stress fibers formation, focal adhesions, cell growth, membrane trafficking, development.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16434_mo_csa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12480336"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16212495"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11152757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC1_GTP"/> <bbox w="100.0" h="120.0" x="5738.0" y="8949.714"/> <glyph class="simple chemical" id="s16435_mo_sa373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> </body> </html> </notes> <label text="GTP"/> <bbox w="70.0" h="25.0" x="5755.0" y="9021.214"/> </glyph> <glyph class="macromolecule" id="s16436_mo_sa372"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="RAC1"/> <bbox w="80.0" h="40.0" x="5748.7144" y="8979.714"/> </glyph> </glyph> <glyph class="complex" id="s16437_emtc_em_csa74" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ITGA2:ITGB1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM, MODULE:CELL_MATRIX_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:22118458</p> <p>Integrin a2b1 predominantly binds to fibrillar collagen</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16437_emtc_em_csa74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22118458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="a2b1*"/> <bbox w="40.0" h="60.0" x="4124.773" y="18012.125"/> <glyph class="macromolecule" id="s16438_emtc_em_sa552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)</p> <p>CD49B</p> <p>HUGO:ITGA2 HGNC:6137 ENTREZ:3673 UNIPROT:P17301</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM</p> <p>References:</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGA2"/> <bbox w="40.0" h="20.0" x="4124.773" y="18015.125"/> </glyph> <glyph class="macromolecule" id="s16439_emtc_em_sa551"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)</p> <p>HUGO:ITGB1, HGNC:6153, ENTREZ:3688, UNIPROT:P05556, GENECARDS:GC10M033189</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_MATRIX_ADHESIONS, MODULE:ECM, MODULE:CELL_CELL_ADHESIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:19487819</p> <p>During gastrulation, type 1 EMT is associated with de novo expression of a5b1, which is a receptor for fibronectin. </p> <p>Type 2 EMT in experimental kidney fibrosis is associated with increased a5 integrin expression.</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> </body> </html> </notes> <label text="ITGB1"/> <bbox w="40.0" h="20.0" x="4124.773" y="18035.125"/> </glyph> </glyph> <glyph class="complex" id="s16440_mo_csa3" compartmentRef="s_id_te_ca4_ca_ca5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:GDP:RAC1</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:12480336</p> <p>PMID:16212495</p> <p>Rac1 is a member of the Ras superfamily of small GTPases.</p> <p>It plays essential role in control of the cell polarity, actin cytoskeleton rearrangements, protein trafficking and directed motility in a wide variety of mammalian cells</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16440_mo_csa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12480336"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16212495"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RAC1_GDP"/> <bbox w="100.0" h="120.0" x="6017.0" y="8949.714"/> <glyph class="simple chemical" id="s16441_mo_sa375"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#"/> </rdf:RDF> </body> </html> </notes> <label text="GDP"/> <bbox w="70.0" h="25.0" x="6030.0" y="9019.214"/> </glyph> <glyph class="macromolecule" id="s16442_mo_sa374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)</p> <p>HUGO:RAC1 HGNC:9801 ENTREZ:5879 UNIPROT:P63000</p> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY, MODULE:LYSOSOME_ENDOSOME</p> <p>References:</p> <p>Confidence_begin:</p> 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<body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>s_wca2_re44(MAP:survival):</p> <p>Only Y654-phosphorylated isoform of beta-catenin was able to indcue EMT</p> <p>PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16452_ce_sa1545"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="EMT"/> <bbox 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x="14840.6875" y="14582.407"/> </glyph> <glyph class="phenotype" id="s16456_ce_sa156" compartmentRef="s_id_te_ca5_ce_ca1"> <label text="G1 phase"/> <bbox w="130.0" h="29.0" x="11767.27" y="13310.0"/> </glyph> <glyph class="macromolecule" id="s16457_ce_sa1191" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Transcription complex </p> <p>Node_Type:Generic</p> <p>Map modules:</p> <p>MODULE:DNA_REPAIR, MODULE:NER</p> </body> </html> </notes> <label text="Transcription machine_BR_(RNAPII)*"/> <bbox w="123.0" h="40.0" x="7343.2695" y="15721.5"/> <glyph class="state variable" id="_a1fa8625-b9ee-47b2-b828-3a52b3ae4f07"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="7338.2695" y="15737.269"/> </glyph> </glyph> <glyph class="macromolecule" id="s16458_ce_sa258" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16458_ce_sa258"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:HES1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="HES1"/> <bbox w="80.0" h="40.0" x="16375.443" y="16579.889"/> </glyph> <glyph class="nucleic acid feature" id="s16459_ce_sa1126" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16459_ce_sa1126"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND1"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND2"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:CCND3"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="CyclinD*"/> <bbox w="70.0" h="25.0" x="15106.769" y="9491.75"/> </glyph> <glyph class="macromolecule" id="s16460_ce_sa195" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16460_ce_sa195"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:RNF8"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="RNF8"/> <bbox w="80.0" h="40.0" x="14679.269" y="15109.0"/> </glyph> <glyph class="simple chemical" id="s16461_ce_sa1494" compartmentRef="s_id_te_ca5_ce_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CHEBI:26523</p> </body> </html> </notes> <label text="ROS"/> <bbox w="88.0" h="29.0" x="11508.436" y="14398.5"/> </glyph> <glyph class="nucleic acid feature" id="s16462_ce_sa280" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16462_ce_sa280"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45A"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45B"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:GADD45G"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GADD45*"/> <bbox w="90.0" h="25.0" x="15248.269" y="10271.908"/> <glyph class="unit of information" id="_d2bc43cf-16e3-4e6e-ad33-c95f927630cd"> <label text="RNA"/> <bbox w="20.0" h="10.0" x="15283.269" y="10266.908"/> </glyph> </glyph> <glyph class="macromolecule" id="s16463_ce_sa1115" compartmentRef="s_id_te_ca5_ce_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16463_ce_sa1115"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="MYC"/> <bbox w="80.0" h="40.0" x="11701.27" y="11217.262"/> <glyph class="state variable" id="_97e739fc-bc15-402e-bc7c-b759b449e2e8"> <state value="" variable=""/> <bbox w="10.0" h="10.0" x="11696.27" y="11232.2295"/> </glyph> </glyph> <glyph class="phenotype" id="s16464_emtc_em_sa1432" compartmentRef="s_id_em_ca14_em_ca14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_wca1_re76(MAP:survival):</p> <p>PMID:21498506</p> <p>Cell contacts has positive influence on the function of membrane bound AMER1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16464_emtc_em_sa1432"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="Cell-cell adhesions"/> <bbox w="137.0" h="38.0" x="895.0" y="14364.0"/> </glyph> <glyph class="simple chemical" id="s16475_akt1_akt1_sa47" compartmentRef="s_id_mpk1_mpk1_ca11_wca1_wca2_ca6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>s_akt1_re11(MAP:survival):</p> <p>PMID:15584861</p> <p>PMID:10648629</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16475_akt1_akt1_sa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15584861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648629"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="GF"/> <bbox w="70.0" h="25.0" x="13888.561" y="17524.0"/> </glyph> <glyph class="complex" id="s16476_wnc1_wnc1_csa82" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PKA_C*:PKA_R*</p> <p>References:</p> <p>s_wca3_re82(MAP:survival):</p> <p>High-cell density has positive influence on phosphorylation of APC by PKA thereby blocking nuclear import.</p> <p>PMID:11689703</p> <p>s_wca3_re101(MAP:survival):</p> <p>References:</p> <p>PMID:15649893</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16476_wnc1_wnc1_csa82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15649893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PKA)"/> <clone/> <bbox w="123.0" h="94.0" x="16459.06" y="18103.0"/> <glyph class="macromolecule" id="s16477_wnc1_wnc1_sa732"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="25.0" x="16473.06" y="18118.5"/> </glyph> <glyph class="macromolecule" id="s16478_wnc1_wnc1_sa733"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="25.0" x="16473.06" y="18147.0"/> </glyph> <glyph class="macromolecule" id="s16478_wnc1_wnc1_sa735"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="25.0" x="16525.06" y="18147.0"/> </glyph> <glyph class="macromolecule" id="s16477_wnc1_wnc1_sa734"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="25.0" x="16525.06" y="18118.5"/> </glyph> </glyph> <glyph class="complex" id="s16476_wnc1_wnc1_csa81" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PKA_C*:PKA_R*</p> <p>References:</p> <p>s_wca3_re82(MAP:survival):</p> <p>High-cell density has positive influence on phosphorylation of APC by PKA thereby blocking nuclear import.</p> <p>PMID:11689703</p> <p>s_wca3_re101(MAP:survival):</p> <p>References:</p> <p>PMID:15649893</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16476_wnc1_wnc1_csa81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15649893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PKA)"/> <clone/> <bbox w="123.0" h="94.0" x="16460.06" y="18222.0"/> <glyph class="macromolecule" id="s16478_wnc1_wnc1_sa729"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="25.0" x="16474.06" y="18266.0"/> </glyph> <glyph class="macromolecule" id="s16477_wnc1_wnc1_sa728"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="25.0" x="16474.06" y="18237.5"/> </glyph> <glyph class="macromolecule" id="s16478_wnc1_wnc1_sa731"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="25.0" x="16526.06" y="18266.0"/> </glyph> <glyph class="macromolecule" id="s16477_wnc1_wnc1_sa730"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="25.0" x="16526.06" y="18237.5"/> </glyph> </glyph> <glyph class="complex" id="s16476_wca1_wca3_csa73" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PKA_C*:PKA_R*</p> <p>References:</p> <p>s_wca3_re82(MAP:survival):</p> <p>High-cell density has positive influence on phosphorylation of APC by PKA thereby blocking nuclear import.</p> <p>PMID:11689703</p> <p>s_wca3_re101(MAP:survival):</p> <p>References:</p> <p>PMID:15649893</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16476_wca1_wca3_csa73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15649893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PKA)"/> <clone/> <bbox w="113.0" h="109.0" x="20552.06" y="21374.0"/> <glyph class="macromolecule" id="s16478_wca1_wca3_sa487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="35.0" x="20609.06" y="21424.5"/> </glyph> <glyph class="macromolecule" id="s16477_wca1_wca3_sa484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="35.0" x="20559.06" y="21383.0"/> </glyph> <glyph class="macromolecule" id="s16478_wca1_wca3_sa485"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="35.0" x="20559.06" y="21424.0"/> </glyph> <glyph class="macromolecule" id="s16477_wca1_wca3_sa486"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="35.0" x="20609.06" y="21383.5"/> </glyph> </glyph> <glyph class="complex" id="s16476_wnc1_wnc2_csa46" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:PKA_C*:PKA_R*</p> <p>References:</p> <p>s_wca3_re82(MAP:survival):</p> <p>High-cell density has positive influence on phosphorylation of APC by PKA thereby blocking nuclear import.</p> <p>PMID:11689703</p> <p>s_wca3_re101(MAP:survival):</p> <p>References:</p> <p>PMID:15649893</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16476_wnc1_wnc2_csa46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15649893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="(PKA)"/> <clone/> <bbox w="110.0" h="92.0" x="18923.06" y="18037.0"/> <glyph class="macromolecule" id="s16478_wnc1_wnc2_sa257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="25.0" x="18980.06" y="18077.0"/> </glyph> <glyph class="macromolecule" id="s16478_wnc1_wnc2_sa256"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:PRKAA1 HGNC:9376 ENTREZ:5562 UNIPROT:Q13131 GENECARDS:PRKAA1 REACTOME:49380 KEGG:5562 ATLASONC:GC_PRKAA1 WIKI:PRKAA1 </p> <p>HUGO:PRKAA2 HGNC:9377 ENTREZ:5563 UNIPROT:P54646 GENECARDS:PRKAA2 REACTOME:49382 KEGG:5563 ATLASONC:GC_PRKAA2 WIKI:PRKAA2 </p> <p>HUGO:PRKACA HGNC:9380 ENTREZ:5566 UNIPROT:P17612 GENECARDS:PRKACA REACTOME:57845 KEGG:5566 ATLASONC:GC_PRKACA WIKI:PRKACA </p> <p>HUGO:PRKACB HGNC:9381 ENTREZ:5567 UNIPROT:P22694 GENECARDS:PRKACB REACTOME:57847 KEGG:5567 ATLASONC:GC_PRKACB WIKI:PRKACB </p> <p>HUGO:PRKACG HGNC:9382 ENTREZ:5568 UNIPROT:P22612 GENECARDS:PRKACG REACTOME:57849 KEGG:5568 ATLASONC:GC_PRKACG WIKI:PRKACG</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:TNF_RESPONSE, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_C*"/> <clone/> <bbox w="45.0" h="25.0" x="18932.06" y="18077.0"/> </glyph> <glyph class="macromolecule" id="s16477_wnc1_wnc2_sa255"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="25.0" x="18977.06" y="18048.0"/> </glyph> <glyph class="macromolecule" id="s16477_wnc1_wnc2_sa250"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>protein kinase AMP-activated beta 1 non-catalytic subunit </p> <p>HUGO:PRKAB1 HGNC:9378 ENTREZ:5564 UNIPROT:Q9Y478 GENECARDS:PRKAB1 REACTOME:49384 KEGG:5564 ATLASONC:PRKAB1ID44100ch12q24 WIKI:PRKAB1 </p> <p>protein kinase AMP-activated beta 2 non-catalytic subunit </p> <p>HUGO:PRKAB2 HGNC:9379 ENTREZ:5565 UNIPROT:O43741 GENECARDS:PRKAB2 REACTOME:49386 ATLASONC:GC_PRKAB2 WIKI:PRKAB2 </p> <p>protein kinase AMP-activated gamma 1 non-catalytic subunit </p> <p>HUGO:PRKAG1 HGNC:9385 ENTREZ:5571 UNIPROT:P54619 GENECARDS:PRKAG1 REACTOME:49388 KEGG:5571 ATLASONC:GC_PRKAG1 WIKI:PRKAG1 </p> <p>protein kinase AMP-activated gamma 2 non-catalytic subunit </p> <p>HUGO:PRKAG2 HGNC:9386 ENTREZ:51422 UNIPROT:Q9UGJ0 GENECARDS:PRKAG2 REACTOME:49390 KEGG:51422 ATLASONC:GC_PRKAG2 WIKI:PRKAG2 </p> <p>HUGO:PRKAG3 HGNC:9387 ENTREZ:53632 UNIPROT:Q9UGI9 GENECARDS:PRKAG3 REACTOME:49392 KEGG:53632 ATLASONC:GC_PRKAG3 WIKI:PRKAG3 </p> <p>protein kinase cAMP-dependent regulatory type I alpha </p> <p>HUGO:PRKAR1A HGNC:9388 ENTREZ:5573 UNIPROT:P10644 GENECARDS:PRKAR1A REACTOME:57837 KEGG:5573 ATLASONC:PRKAR1AID387 WIKI:PRKAR1A </p> <p>protein kinase cAMP-dependent regulatory type I beta </p> <p>HUGO:PRKAR1B HGNC:9390 ENTREZ:5575 UNIPROT:P31321 GENECARDS:PRKAR1B REACTOME:57839 KEGG:5575 ATLASONC:GC_PRKAR1B WIKI:PRKAR1B </p> <p>protein kinase cAMP-dependent regulatory type II alpha </p> <p>HUGO:PRKAR2A HGNC:9391 ENTREZ:5576 UNIPROT:P13861 GENECARDS:PRKAR2A REACTOME:57841 KEGG:5576 ATLASONC:GC_PRKAR2A WIKI:PRKAR2A </p> <p>protein kinase cAMP-dependent regulatory type II beta </p> <p>HUGO:PRKAR2B HGNC:9392 ENTREZ:5577 UNIPROT:P31323 GENECARDS:PRKAR2B REACTOME:57843 KEGG:5577 ATLASONC:GC_PRKAR2B WIKI:PRKAR2B</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:AKT_MTOR, MAP:apoptosis / MODULE:APOPTOSIS_GENES, MAP:apoptosis / MODULE:CASPASES, MAP:apoptosis / MODULE:MITOCH_METABOLISM, MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <label text="PKA_R*"/> <clone/> <bbox w="45.0" h="25.0" x="18930.06" y="18048.0"/> </glyph> </glyph> <glyph class="complex" id="s16479_rc_csa382" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ANT*:PTPC</p> <p>ALT_NAME:ANT*:PPID:VDAC*:HK*:CK*TSPO</p> <p>synonyms:Permeability Transition Pore Complex</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>PMID:18309324</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16479_rc_csa382"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18309324"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTPC"/> <clone/> <bbox w="260.0" h="250.0" x="23489.06" y="13329.0"/> <glyph class="macromolecule" id="s16480_rc_sa3762"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 4</p> <p>HUGO:SLC25A4 HGNC:10990 ENTREZ:291 UNIPROT:P12235 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5</p> <p>HUGO:SLC25A5 HGNC:10991 ENTREZ:292 UNIPROT:P05141 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6</p> <p>HUGO:SLC25A6 HGNC:10992 ENTREZ:293 UNIPROT:P12236</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>PMID:20823910</p> <p>PMID:18309324</p> </body> </html> </notes> <label text="ANT*"/> <clone/> <bbox w="80.0" h="40.0" x="23569.06" y="13449.0"/> </glyph> <glyph class="macromolecule" id="s16481_rc_sa5371"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hexokinase 1</p> <p>HUGO:HK1 hgnc_id:HGNC:4922 HGNC:4922 ENTREZ:3098 UNIPROT:P19367 </p> <p>hexokinase 2</p> <p>HUGO:HK2 hgnc_id:HGNC:4923 HGNC:4923 ENTREZ:3099 UNIPROT:P52789</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:15033708</p> <p>PMID:18309324</p> <p>PMID:25486353</p> </body> </html> </notes> <label text="HK*"/> <clone/> <bbox w="80.0" h="40.0" x="23569.06" y="13339.0"/> </glyph> <glyph class="macromolecule" id="s16482_rc_sa5366"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-C motif chemokine ligand 19</p> <p>HUGO:CCL19 hgnc_id:HGNC:10617 HGNC:10617 ENTREZ:6363 UNIPROT:Q99731</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:15033708</p> <p>PMID:18309324</p> <p>PMID:25486353</p> </body> </html> </notes> <label text="CK*"/> <clone/> <bbox w="80.0" h="40.0" x="23649.06" y="13339.0"/> </glyph> <glyph class="macromolecule" id="s16483_rc_sa5374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TPSO</p> <p>synonyms:peripheral benzodiazepine receptor,PBR</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:15033708</p> <p>PMID:18309324</p> <p>PMID:25486353</p> </body> </html> </notes> <label text="TSPO"/> <clone/> <bbox w="80.0" h="50.0" x="23649.06" y="13504.0"/> <glyph class="unit of information" id="_79d2923a-9b69-4946-b468-3a1b51b16d90"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23666.56" y="13499.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s16484_rc_sa3760"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>voltage-dependent anion channel 1</p> <p>HUGO:VDAC1 HGNC:12669 ENTREZ:7416 UNIPROT:P21796 </p> <p>voltage-dependent anion channel 2</p> <p>HUGO:VDAC2 HGNC:12672 ENTREZ:7417 UNIPROT:P45880 </p> <p>voltage-dependent anion channel 3</p> <p>HUGO:VDAC3 HGNC:12674 ENTREZ:7419 UNIPROT:Q9Y277</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:21887410</p> <p>PMID:18309324</p> <p>PMID:17568748</p> </body> </html> </notes> <label text="VDAC*"/> <clone/> <bbox w="80.0" h="40.0" x="23649.06" y="13449.0"/> </glyph> <glyph class="macromolecule" id="s16480_rc_sa3764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 4</p> <p>HUGO:SLC25A4 HGNC:10990 ENTREZ:291 UNIPROT:P12235 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5</p> <p>HUGO:SLC25A5 HGNC:10991 ENTREZ:292 UNIPROT:P05141 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6</p> <p>HUGO:SLC25A6 HGNC:10992 ENTREZ:293 UNIPROT:P12236</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>PMID:20823910</p> <p>PMID:18309324</p> </body> </html> </notes> <label text="ANT*"/> <clone/> <bbox w="80.0" h="40.0" x="23569.06" y="13389.0"/> </glyph> <glyph class="macromolecule" id="s16485_rc_sa3761"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peptidylprolyl isomerase D</p> <p>HUGO:PPID HGNC:9257 ENTREZ:5481 UNIPROT:Q08752</p> <p>synonyms:cyclophilin D, cypD</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>peptidylprolyl isomerase D</p> <p>PMID:20823910</p> <p>PMID:18309324</p> </body> </html> </notes> <label text="PPID"/> <clone/> <bbox w="80.0" h="40.0" x="23519.06" y="13494.0"/> </glyph> <glyph class="macromolecule" id="s16484_rc_sa3763"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>voltage-dependent anion channel 1</p> <p>HUGO:VDAC1 HGNC:12669 ENTREZ:7416 UNIPROT:P21796 </p> <p>voltage-dependent anion channel 2</p> <p>HUGO:VDAC2 HGNC:12672 ENTREZ:7417 UNIPROT:P45880 </p> <p>voltage-dependent anion channel 3</p> <p>HUGO:VDAC3 HGNC:12674 ENTREZ:7419 UNIPROT:Q9Y277</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:21887410</p> <p>PMID:18309324</p> <p>PMID:17568748</p> </body> </html> </notes> <label text="VDAC*"/> <clone/> <bbox w="80.0" h="40.0" x="23649.06" y="13389.0"/> </glyph> </glyph> <glyph class="complex" id="s16479_rc_csa381" compartmentRef="s_id_rc_ca4_rc_ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:ANT*:PTPC</p> <p>ALT_NAME:ANT*:PPID:VDAC*:HK*:CK*TSPO</p> <p>synonyms:Permeability Transition Pore Complex</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:FERROPTOSIS, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>PMID:18309324</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16479_rc_csa381"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18309324"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="PTPC"/> <clone/> <bbox w="260.0" h="230.0" x="23489.06" y="12999.0"/> <glyph class="macromolecule" id="s16484_rc_sa3752"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>voltage-dependent anion channel 1</p> <p>HUGO:VDAC1 HGNC:12669 ENTREZ:7416 UNIPROT:P21796 </p> <p>voltage-dependent anion channel 2</p> <p>HUGO:VDAC2 HGNC:12672 ENTREZ:7417 UNIPROT:P45880 </p> <p>voltage-dependent anion channel 3</p> <p>HUGO:VDAC3 HGNC:12674 ENTREZ:7419 UNIPROT:Q9Y277</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:21887410</p> <p>PMID:18309324</p> <p>PMID:17568748</p> </body> </html> </notes> <label text="VDAC*"/> <clone/> <bbox w="80.0" h="40.0" x="23649.06" y="13119.0"/> </glyph> <glyph class="macromolecule" id="s16484_rc_sa3758"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>voltage-dependent anion channel 1</p> <p>HUGO:VDAC1 HGNC:12669 ENTREZ:7416 UNIPROT:P21796 </p> <p>voltage-dependent anion channel 2</p> <p>HUGO:VDAC2 HGNC:12672 ENTREZ:7417 UNIPROT:P45880 </p> <p>voltage-dependent anion channel 3</p> <p>HUGO:VDAC3 HGNC:12674 ENTREZ:7419 UNIPROT:Q9Y277</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:NECROPTOSIS</p> <p>References:</p> <p>PMID:21887410</p> <p>PMID:18309324</p> <p>PMID:17568748</p> </body> </html> </notes> <label text="VDAC*"/> <clone/> <bbox w="80.0" h="40.0" x="23649.06" y="13059.0"/> </glyph> <glyph class="macromolecule" id="s16485_rc_sa3753"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>peptidylprolyl isomerase D</p> <p>HUGO:PPID HGNC:9257 ENTREZ:5481 UNIPROT:Q08752</p> <p>synonyms:cyclophilin D, cypD</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>peptidylprolyl isomerase D</p> <p>PMID:20823910</p> <p>PMID:18309324</p> </body> </html> </notes> <label text="PPID"/> <clone/> <bbox w="80.0" h="40.0" x="23529.06" y="13159.0"/> </glyph> <glyph class="macromolecule" id="s16480_rc_sa3759"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 4</p> <p>HUGO:SLC25A4 HGNC:10990 ENTREZ:291 UNIPROT:P12235 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5</p> <p>HUGO:SLC25A5 HGNC:10991 ENTREZ:292 UNIPROT:P05141 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6</p> <p>HUGO:SLC25A6 HGNC:10992 ENTREZ:293 UNIPROT:P12236</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>PMID:20823910</p> <p>PMID:18309324</p> </body> </html> </notes> <label text="ANT*"/> <clone/> <bbox w="80.0" h="40.0" x="23569.06" y="13059.0"/> </glyph> <glyph class="macromolecule" id="s16483_rc_sa5373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>HUGO:TPSO</p> <p>synonyms:peripheral benzodiazepine receptor,PBR</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:15033708</p> <p>PMID:18309324</p> <p>PMID:25486353</p> </body> </html> </notes> <label text="TSPO"/> <clone/> <bbox w="80.0" h="50.0" x="23639.06" y="13164.0"/> <glyph class="unit of information" id="_c3504269-6ac0-4841-969b-03f643800b73"> <label text="receptor"/> <bbox w="45.0" h="10.0" x="23656.56" y="13159.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s16482_rc_sa5365"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>C-C motif chemokine ligand 19</p> <p>HUGO:CCL19 hgnc_id:HGNC:10617 HGNC:10617 ENTREZ:6363 UNIPROT:Q99731</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:15033708</p> <p>PMID:18309324</p> <p>PMID:25486353</p> </body> </html> </notes> <label text="CK*"/> <clone/> <bbox w="80.0" h="40.0" x="23649.06" y="13009.0"/> </glyph> <glyph class="macromolecule" id="s16480_rc_sa3754"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 4</p> <p>HUGO:SLC25A4 HGNC:10990 ENTREZ:291 UNIPROT:P12235 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5</p> <p>HUGO:SLC25A5 HGNC:10991 ENTREZ:292 UNIPROT:P05141 </p> <p>solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6</p> <p>HUGO:SLC25A6 HGNC:10992 ENTREZ:293 UNIPROT:P12236</p> <p>Map modules:</p> <p>MODULE:APOPTOSIS, MODULE:DEATH_RECEPTOR_PATHWAYS, MODULE:MITOCHONDRIAL_METABOLISM, MODULE:MOMP_REGULATION, MODULE:NECROPTOSIS, MODULE:OXIDATIVE_PHOSPHOYLATION_AND_TCA_CYCLE, MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION</p> <p>References:</p> <p>PMID:20823910</p> <p>PMID:18309324</p> </body> </html> </notes> <label text="ANT*"/> <clone/> <bbox w="80.0" h="40.0" x="23569.06" y="13119.0"/> </glyph> <glyph class="macromolecule" id="s16481_rc_sa5370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>hexokinase 1</p> <p>HUGO:HK1 hgnc_id:HGNC:4922 HGNC:4922 ENTREZ:3098 UNIPROT:P19367 </p> <p>hexokinase 2</p> <p>HUGO:HK2 hgnc_id:HGNC:4923 HGNC:4923 ENTREZ:3099 UNIPROT:P52789</p> <p>Map modules:</p> <p>MODULE:MITOCHONDRIAL_PERMEABILITY_TRANSITION, MODULE:MOMP_REGULATION</p> <p>References:</p> <p>PMID:15033708</p> <p>PMID:18309324</p> <p>PMID:25486353</p> </body> </html> </notes> <label text="HK*"/> <clone/> <bbox w="80.0" h="40.0" x="23569.06" y="13009.0"/> </glyph> </glyph> <glyph class="complex" id="s16486_wca1_wca3_csa42" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*</p> </body> </html> </notes> <label text="(CK2)"/> <clone/> <bbox w="93.0" h="107.0" x="20800.06" y="20916.5"/> <glyph class="macromolecule" id="s16487_wca1_wca3_sa263"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <clone/> <bbox w="40.0" h="30.0" x="20846.06" y="20931.5"/> </glyph> <glyph class="macromolecule" id="s16488_wca1_wca3_sa265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <clone/> <bbox w="40.0" h="30.0" x="20848.06" y="20966.5"/> </glyph> <glyph class="macromolecule" id="s16488_wca1_wca3_sa264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <clone/> <bbox w="40.0" h="30.0" x="20805.06" y="20966.5"/> </glyph> <glyph class="macromolecule" id="s16489_wca1_wca3_sa262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <clone/> <bbox w="40.0" h="30.0" x="20805.06" y="20931.5"/> </glyph> </glyph> <glyph class="complex" id="s16486_wca1_wca3_csa32" compartmentRef="s_id_wnc1_wnc2_ca1_wnc1_wnc3_ca1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:CK2_alpha_:CK2_alpha_*:CK2_beta_*</p> </body> </html> </notes> <label text="(CK2)"/> <clone/> <bbox w="95.0" h="108.0" x="20650.06" y="20917.0"/> <glyph class="macromolecule" id="s16488_wca1_wca3_sa224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <clone/> <bbox w="40.0" h="30.0" x="20654.06" y="20967.0"/> </glyph> <glyph class="macromolecule" id="s16487_wca1_wca3_sa223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha prime polypeptide</p> <p>HUGO:CSNK2A2 HGNC:2459 ENTREZ:1459 UNIPROT:P19784 GENECARDS:CSNK2A2 REACTOME:57879 KEGG:1459 ATLASONC:GC_CSNK2A2 WIKI:CSNK2A2 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α'*"/> <clone/> <bbox w="40.0" h="30.0" x="20698.06" y="20932.0"/> </glyph> <glyph class="macromolecule" id="s16489_wca1_wca3_sa222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 alpha 1 polypeptide</p> <p>HUGO:CSNK2A1 HGNC:2457 ENTREZ:1457 UNIPROT:P68400 GENECARDS:CSNK2A1 REACTOME:201673 KEGG:1457 ATLASONC:GC_CSNK2A1 WIKI:CSNK2A1 </p> <p>casein kinase 2 alpha 3 polypeptide</p> <p>HUGO:CSNK2A3 HGNC:2458 ENTREZ:283106 UNIPROT:Q8NEV1 GENECARDS:CSNK2A3 KEGG:283106 WIKI:CSNK2A3</p> <p>Map modules:</p> <p>MAP:emtcellmotility / MODULE:CELL_CELL_ADHESIONS, MAP:apoptosis / MODULE:MOMP_REGULATION, MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2α*"/> <clone/> <bbox w="40.0" h="30.0" x="20654.06" y="20932.0"/> </glyph> <glyph class="macromolecule" id="s16488_wca1_wca3_sa225"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>casein kinase 2 beta polypeptide</p> <p>HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B </p> <p>HUGO:CSKN2B GENECARDS:CSKN2B WIKI:CSKN2B HUGO:CSNK2B HGNC:2460 ENTREZ:1460 UNIPROT:P67870 GENECARDS:CSNK2B REACTOME:57881 KEGG:1460 ATLASONC:GC_CSNK2B WIKI:CSNK2B</p> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL, MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20976471</p> </body> </html> </notes> <label text="CK2β*"/> <clone/> <bbox w="40.0" h="30.0" x="20698.06" y="20967.0"/> </glyph> </glyph> <glyph class="macromolecule" id="s16490_emtc_em_sa85" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16490_emtc_em_sa85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:F11R"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label 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class="macromolecule" id="s16492_emtc_em_sa885" compartmentRef="s_id_emtc_em_ca6_rc_ca1"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#s16492_emtc_em_sa885"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:KDR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <label text="VEGFR2*"/> <bbox w="55.0" h="26.0" x="6695.0" y="17435.068"/> <glyph class="state variable" id="_1a4b595a-bd5d-4cc9-8813-925fd8487e56"> <state value="" variable="Y"/> <bbox 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id="pr_d333aec3-536f-4b9a-a9c5-ff20cff6ac25_p1" x="4504.757" y="16682.89"/> <port id="pr_d333aec3-536f-4b9a-a9c5-ff20cff6ac25_p2" x="4474.757" y="16682.89"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1785531d-76d8-4c35-8136-568941feaae5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3938.7998" y="16815.223"/> <port id="pr_1785531d-76d8-4c35-8136-568941feaae5_p1" x="3958.7998" y="16820.223"/> <port id="pr_1785531d-76d8-4c35-8136-568941feaae5_p2" x="3928.7998" y="16820.223"/> </glyph> <glyph class="process" orientation="vertical" id="pr_52fe1a7e-e799-4276-9f0d-930b10c32b37"> <bbox w="10.0" h="10.0" x="23239.375" y="15974.75"/> <port id="pr_52fe1a7e-e799-4276-9f0d-930b10c32b37_p1" x="23244.375" y="15994.75"/> <port 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<p>PMID:19448627</p> <p>Wild-type p53 inhibits Slug protein expression.</p> <p>Slug protein levels were significantly decreased in parallel with increased wtp53 accumulation.</p> <p>Slug mRNA levels did not change indicating that Slug is not transcriptionally regulated by wtp53</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a3235b7e-1063-4171-8d9b-6d17e885ee3b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19448627"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3903.0" y="16499.0"/> <port id="pr_a3235b7e-1063-4171-8d9b-6d17e885ee3b_p1" x="3893.0" y="16504.0"/> <port id="pr_a3235b7e-1063-4171-8d9b-6d17e885ee3b_p2" x="3923.0" y="16504.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e2358d9-8d3d-4b73-8ee8-ba53c4dece67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27526109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2e2358d9-8d3d-4b73-8ee8-ba53c4dece67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27526109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1842.0" y="10447.0"/> <port id="pr_2e2358d9-8d3d-4b73-8ee8-ba53c4dece67_p1" x="1832.0" y="10452.0"/> <port id="pr_2e2358d9-8d3d-4b73-8ee8-ba53c4dece67_p2" x="1862.0" y="10452.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_880ae011-58ef-47d2-a657-61ec0d465157"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5241.9746" y="17690.0"/> <port id="pr_880ae011-58ef-47d2-a657-61ec0d465157_p1" x="5246.9746" y="17680.0"/> <port id="pr_880ae011-58ef-47d2-a657-61ec0d465157_p2" x="5246.9746" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_17bf6568-cc58-47fb-bdf9-3f0d63dde9bc"> <bbox w="10.0" h="10.0" x="2798.75" y="2861.25"/> <port id="pr_17bf6568-cc58-47fb-bdf9-3f0d63dde9bc_p1" x="2788.75" y="2866.25"/> <port id="pr_17bf6568-cc58-47fb-bdf9-3f0d63dde9bc_p2" x="2818.75" y="2866.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_168efd73-5ab4-4c28-a139-17fccaec4d07"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17404574</p> <p>in human immortalized non malignant H69 cholangiocyte and malignant KMCH cholangiocarcinoma cell lines, MIR29B1 targets MCL1</p> <p>PMID:19155302</p> <p>MCL1 is a target of MIR101</p> <p>PMID:19676043</p> <p>in DBTRG-05MG human glioblastoma cell line, MCL1 targeted by MIR153</p> <p>PMID:19654003</p> <p>in H2009 human lung adenocarcinoma cells, MCL1 is a target of MIR133B</p> <p>PMID:19966861</p> <p>in Jurkat, HeLa, U937, glycolysis inhibition by 2deoxy glucose causes a specific block in transltion of MCL1, through a AMPK - TOR pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_168efd73-5ab4-4c28-a139-17fccaec4d07"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17404574"/> 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x="19847.266" y="15563.667"/> <port id="logicglyph_3d5ede4d-9513-4fb6-b099-1008c1e60569_p2" x="19887.266" y="15563.667"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_410eff1a-09fa-4797-b477-4eec909de800"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4194.25" y="18124.719"/> <port id="pr_410eff1a-09fa-4797-b477-4eec909de800_p1" x="4184.25" y="18129.719"/> <port id="pr_410eff1a-09fa-4797-b477-4eec909de800_p2" x="4214.25" y="18129.719"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4bee6f02-5145-44cf-9289-c0dc74b7caaf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> 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orientation="vertical" id="pr_fc13e783-d472-4a6f-a915-88d459610b87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1270.0483" y="15494.25"/> <port id="pr_fc13e783-d472-4a6f-a915-88d459610b87_p1" x="1275.0483" y="15484.25"/> <port id="pr_fc13e783-d472-4a6f-a915-88d459610b87_p2" x="1275.0483" y="15514.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_78bbfb9c-0828-4344-9e69-5eae072aa52f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18057099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2417.0" y="16772.223"/> <port id="pr_da997078-904e-4aee-bbba-62e0dc40f8ba_p1" x="2407.0" y="16777.223"/> <port id="pr_da997078-904e-4aee-bbba-62e0dc40f8ba_p2" x="2437.0" y="16777.223"/> </glyph> <glyph class="process" orientation="vertical" id="pr_93be50cb-1a0b-4ef6-bac1-76c4456e2583"> <bbox w="10.0" h="10.0" x="20356.031" y="6940.625"/> <port id="pr_93be50cb-1a0b-4ef6-bac1-76c4456e2583_p1" x="20361.031" y="6930.625"/> <port id="pr_93be50cb-1a0b-4ef6-bac1-76c4456e2583_p2" x="20361.031" y="6960.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_854dec17-f01e-4b1f-b6fb-cac128a1e029"> <bbox w="10.0" h="10.0" x="20980.0" y="6230.0"/> <port id="pr_854dec17-f01e-4b1f-b6fb-cac128a1e029_p1" x="20970.0" y="6235.0"/> <port id="pr_854dec17-f01e-4b1f-b6fb-cac128a1e029_p2" x="21000.0" y="6235.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3db0c2cc-7dd7-4697-bc0a-f5d70846370f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16332722</p> <p>Auto-phosphorylation of ATM in response to DNA DSB:</p> <p>PMID:17303408, PMID:12556884, PMID:16858402</p> <p>Amplification of ATM auto-phosphorylation by the complex ATM:MRNcomplex:H2AX:MDC1CDK5 phosphorylates and activates ATM</p> <p>PMID:19151707</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>S phase checkpoint controls and induces FANCD2 monoubiquitusation to start Fanconi and HR</p> <p>PMID:12239151</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_df693795-92f5-4540-929d-c8d7077f6512"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12239151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15020.305" y="15742.659"/> <port id="pr_df693795-92f5-4540-929d-c8d7077f6512_p1" x="15040.305" y="15747.659"/> <port id="pr_df693795-92f5-4540-929d-c8d7077f6512_p2" x="15010.305" y="15747.659"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_606f09c3-536d-44ca-bee3-06c772c83d22"> <bbox w="20.0" h="20.0" x="15845.679" y="16857.553"/> <port id="logicglyph_606f09c3-536d-44ca-bee3-06c772c83d22_p1" x="15855.679" y="16887.553"/> <port id="logicglyph_606f09c3-536d-44ca-bee3-06c772c83d22_p2" x="15855.679" y="16847.553"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9481b5d-a54e-4e0d-a386-b1f6661b6ac0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11528470</p> <p>EG-VEGF is induced by hypoxia through a potential HIF1-dependent mechanis</p> <p>It indicates that this gene is in the same homeostatic cascade as VEGF, VEGFR1, and Erythoproietin</p> <p>PMID:16887934</p> <p>VEGF, EG-VEGF, TGFB3 are target genes of HIF1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a9481b5d-a54e-4e0d-a386-b1f6661b6ac0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11528470"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887934"/> </rdf:Bag> 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id="pr_350cac25-6e9c-4b45-8fa0-5b58f93fe972"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1641.75" y="13753.425"/> <port id="pr_350cac25-6e9c-4b45-8fa0-5b58f93fe972_p1" x="1661.75" y="13758.425"/> <port id="pr_350cac25-6e9c-4b45-8fa0-5b58f93fe972_p2" x="1631.75" y="13758.425"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f9320a65-c1a2-44cc-aa70-8d9a5f245448"> <bbox w="10.0" h="10.0" x="27818.766" y="13676.125"/> <port id="pr_f9320a65-c1a2-44cc-aa70-8d9a5f245448_p1" x="27823.766" y="13666.125"/> <port id="pr_f9320a65-c1a2-44cc-aa70-8d9a5f245448_p2" x="27823.766" y="13696.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_016fe762-de90-4553-a7d1-8636d4174e95"> <bbox w="10.0" h="10.0" x="15405.447" y="1489.5"/> <port id="pr_016fe762-de90-4553-a7d1-8636d4174e95_p1" x="15410.447" y="1479.5"/> <port id="pr_016fe762-de90-4553-a7d1-8636d4174e95_p2" x="15410.447" y="1509.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4fadee0b-4601-4a47-9750-e968f2716e8e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>RasGRP1 activates Golgi-associated Ras on this compartment.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_ec3a0940-592b-40b0-94c7-774e91b59568_p1" x="20706.31" y="9636.0"/> <port id="pr_ec3a0940-592b-40b0-94c7-774e91b59568_p2" x="20706.31" y="9666.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c76c4d43-628f-4930-9035-d0a7c56b9094"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4983.047" y="17986.125"/> <port id="pr_c76c4d43-628f-4930-9035-d0a7c56b9094_p1" x="4988.047" y="17976.125"/> <port id="pr_c76c4d43-628f-4930-9035-d0a7c56b9094_p2" x="4988.047" y="18006.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8db2491a-891a-4d07-8d34-277016284a93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17550342</p> <p>SNAI2 induces HDAC2 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8db2491a-891a-4d07-8d34-277016284a93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17550342"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3085.5" y="15965.981"/> <port id="pr_8db2491a-891a-4d07-8d34-277016284a93_p1" x="3075.5" y="15970.981"/> <port id="pr_8db2491a-891a-4d07-8d34-277016284a93_p2" x="3105.5" y="15970.981"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3db83bb1-681f-4261-b089-762da7bcf29f"> <bbox w="10.0" h="10.0" x="5875.0" y="1591.25"/> <port id="pr_3db83bb1-681f-4261-b089-762da7bcf29f_p1" x="5880.0" y="1581.25"/> <port id="pr_3db83bb1-681f-4261-b089-762da7bcf29f_p2" x="5880.0" y="1611.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f38735d-765a-491b-8daf-f1b1399f7d76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27588115</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f38735d-765a-491b-8daf-f1b1399f7d76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27588115"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3558.9143" y="12026.5"/> <port id="pr_5f38735d-765a-491b-8daf-f1b1399f7d76_p1" x="3563.9143" y="12016.5"/> <port id="pr_5f38735d-765a-491b-8daf-f1b1399f7d76_p2" x="3563.9143" y="12046.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5ac21a36-f291-428c-8628-e730dba07101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>For activation by Dbait </p> <p>PMID:22068457, PMID:22815765, PMID:22042585, PMID:19621083</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ac21a36-f291-428c-8628-e730dba07101"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19267553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18256616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22068457"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22815765"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22042585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19621083"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12889.793" y="15173.0"/> <port id="pr_5ac21a36-f291-428c-8628-e730dba07101_p1" x="12879.793" y="15178.0"/> <port id="pr_5ac21a36-f291-428c-8628-e730dba07101_p2" x="12909.793" y="15178.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9d4534bb-1a6f-4b40-8629-474ad2d48a78"> <bbox w="10.0" h="10.0" x="22447.436" y="15258.998"/> <port id="pr_9d4534bb-1a6f-4b40-8629-474ad2d48a78_p1" x="22467.436" y="15263.998"/> <port id="pr_9d4534bb-1a6f-4b40-8629-474ad2d48a78_p2" x="22437.436" y="15263.998"/> </glyph> <glyph class="process" orientation="vertical" id="pr_df275b31-432c-481e-b765-65b02137e06b"> <bbox w="10.0" h="10.0" x="11235.0" y="3400.5024"/> <port id="pr_df275b31-432c-481e-b765-65b02137e06b_p1" x="11240.0" y="3390.5024"/> <port id="pr_df275b31-432c-481e-b765-65b02137e06b_p2" x="11240.0" y="3420.5024"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f1cc0f08-c7f3-45de-9cf4-2d6cf32e2101"> <bbox w="10.0" h="10.0" x="14001.282" y="18688.55"/> <port id="pr_f1cc0f08-c7f3-45de-9cf4-2d6cf32e2101_p1" x="13991.282" y="18693.55"/> <port id="pr_f1cc0f08-c7f3-45de-9cf4-2d6cf32e2101_p2" x="14021.282" y="18693.55"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_c12e42fa-1fba-4589-993c-8d6e6b9d61f9"> <bbox w="10.0" h="10.0" x="6407.0" y="6210.0"/> <port id="pr_c12e42fa-1fba-4589-993c-8d6e6b9d61f9_p1" x="6412.0" y="6200.0"/> <port id="pr_c12e42fa-1fba-4589-993c-8d6e6b9d61f9_p2" x="6412.0" y="6230.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8454408-822b-498d-a9df-95813a3eb62a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d8454408-822b-498d-a9df-95813a3eb62a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4165.25" y="10972.0"/> <port id="pr_d8454408-822b-498d-a9df-95813a3eb62a_p1" x="4170.25" y="10962.0"/> <port id="pr_d8454408-822b-498d-a9df-95813a3eb62a_p2" x="4170.25" y="10992.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a4842242-7521-451a-b72d-bf7b1c5ccfb8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4520.755" y="17150.758"/> <port id="pr_a4842242-7521-451a-b72d-bf7b1c5ccfb8_p1" x="4510.755" y="17155.758"/> <port id="pr_a4842242-7521-451a-b72d-bf7b1c5ccfb8_p2" x="4540.755" y="17155.758"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e5ffee1a-526c-4ab9-a37d-ab9e659973d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15668399</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e5ffee1a-526c-4ab9-a37d-ab9e659973d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15668399"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12409.561" y="21470.668"/> <port id="pr_e5ffee1a-526c-4ab9-a37d-ab9e659973d7_p1" x="12429.561" y="21475.668"/> <port id="pr_e5ffee1a-526c-4ab9-a37d-ab9e659973d7_p2" x="12399.561" y="21475.668"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db9bc158-9991-4d3f-a231-7ec4a8018877"> <bbox w="10.0" h="10.0" x="29551.0" y="5225.0"/> <port id="pr_db9bc158-9991-4d3f-a231-7ec4a8018877_p1" x="29556.0" y="5245.0"/> <port id="pr_db9bc158-9991-4d3f-a231-7ec4a8018877_p2" x="29556.0" y="5215.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1502b08d-9cd4-46a4-8596-d03071a9dcd6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylated Rev1 is the activator and the modulator of the TLC pathway in response to DNA damage and by cell cycle regulation</p> <p>PMID:17035102</p> <p>Several TLS polymerases participate in Fanconi in combination with HR and NER</p> <p>PoL iota bypasses T-T adducts and dA-N6_BPDE, but only with assistance of Polkappa or Pol zeta:</p> <p>PMID:15189446, PMID:12466554 (major)</p> <p>Depending on the DNA damage, different TLS polymerases will be activated:</p> <p>PMID:19225445</p> <p>REV1 interacts with many TLS polymerases:</p> <p>PMID:14657033</p> <p>Polyubiquitination of PCNA activates prone-free mechanisms of lesions by-pass </p> <p>PMID:19217833, PMID:18157158, </p> <p>For TLS PMID:19258535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1502b08d-9cd4-46a4-8596-d03071a9dcd6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17035102"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15189446"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12466554"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19225445"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14657033"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217833"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18157158"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19258535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12115.27" y="15954.749"/> <port id="pr_1502b08d-9cd4-46a4-8596-d03071a9dcd6_p1" x="12120.27" y="15944.749"/> <port id="pr_1502b08d-9cd4-46a4-8596-d03071a9dcd6_p2" x="12120.27" y="15974.749"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2b2793cd-52e8-4b5a-b511-52a32224edf0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>source UNIPROT and KEGGPATHWAY</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18678.395" y="10076.926"/> <port id="pr_2b2793cd-52e8-4b5a-b511-52a32224edf0_p1" x="18683.395" y="10066.926"/> <port id="pr_2b2793cd-52e8-4b5a-b511-52a32224edf0_p2" x="18683.395" y="10096.926"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e6339f57-a4b6-484d-aa56-f0d6426fbee0"> <bbox w="10.0" h="10.0" x="10535.879" y="16946.0"/> <port id="pr_e6339f57-a4b6-484d-aa56-f0d6426fbee0_p1" x="10525.879" y="16951.0"/> <port id="pr_e6339f57-a4b6-484d-aa56-f0d6426fbee0_p2" x="10555.879" y="16951.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bafabbee-10db-40ba-81a6-8f7beba6d026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>RAC1 binds directly to PARD6 that activates PRKCZ.</p> <p>This leads to establishment of the cell polarity and promotes cellular transformation.</p> <p>PMID:10873802</p> <p>PARD6 links Rac1 and Cdc42 to PKCzeta signaling and cell transformation.</p> <p>PMID:10934475</p> <p>PARD6 binds to Cdc42; Rac1; PARD3; PRKC isoforms. </p> <p>In vitro, PARD3 acts as a substrate and an inhibitor of PRKC. </p> <p>PARD3 and PARD6 have a scaffolding function, coordinating the activities of several signalling proteins that are implicated in mammalian cell polarity.</p> <p>PMID:10954424</p> <p>PARD6 is a binding partner for the Rho GTPases Cdc42 and Rac1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_769482c5-9435-4b65-bb03-dc1209c2f922"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4410.75" y="11137.0"/> <port id="pr_769482c5-9435-4b65-bb03-dc1209c2f922_p1" x="4415.75" y="11127.0"/> <port id="pr_769482c5-9435-4b65-bb03-dc1209c2f922_p2" x="4415.75" y="11157.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60538365-6686-4149-9577-a11a09b1f1bd"> <bbox w="10.0" h="10.0" x="13058.561" y="20588.75"/> <port id="pr_60538365-6686-4149-9577-a11a09b1f1bd_p1" x="13063.561" y="20578.75"/> <port id="pr_60538365-6686-4149-9577-a11a09b1f1bd_p2" x="13063.561" y="20608.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_afea42d8-dfc0-410c-a6f4-f350baf6136b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:9609833 PMID:16413481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5121.839" y="18616.062"/> <port id="pr_43c6dcdd-b968-4643-9866-63644b0ee985_p1" x="5126.839" y="18636.062"/> <port id="pr_43c6dcdd-b968-4643-9866-63644b0ee985_p2" x="5126.839" y="18606.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d44dc36-b178-4b01-adf2-5c5534d6f145"> <bbox w="10.0" h="10.0" x="5295.0" y="7841.0"/> <port id="pr_0d44dc36-b178-4b01-adf2-5c5534d6f145_p1" x="5300.0" y="7861.0"/> <port id="pr_0d44dc36-b178-4b01-adf2-5c5534d6f145_p2" x="5300.0" y="7831.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0ca871c8-fe4e-45e9-a741-26f2951c58bd"> <bbox w="10.0" h="10.0" x="15955.0" y="5982.5"/> <port id="pr_0ca871c8-fe4e-45e9-a741-26f2951c58bd_p1" x="15960.0" y="6002.5"/> <port id="pr_0ca871c8-fe4e-45e9-a741-26f2951c58bd_p2" x="15960.0" y="5972.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9a30f5e9-f1f4-4e7f-b007-a06850dbd61c"> <bbox w="10.0" h="10.0" x="6740.0" y="3119.0"/> <port id="pr_9a30f5e9-f1f4-4e7f-b007-a06850dbd61c_p1" x="6760.0" y="3124.0"/> <port id="pr_9a30f5e9-f1f4-4e7f-b007-a06850dbd61c_p2" x="6730.0" y="3124.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e9d7d849-180f-4fba-b5e5-181c0ad9ea64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:12711682 PMID:15834423 PMID:16510874 PMID:15327769 PMID:16547505</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9d7d849-180f-4fba-b5e5-181c0ad9ea64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12711682"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15834423"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327769"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547505"/> </rdf:Bag> 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<bbox w="10.0" h="10.0" x="940.19116" y="4174.75"/> <port id="pr_49d3fffa-7066-4519-a3f3-f9534a966354_p1" x="960.19116" y="4179.75"/> <port id="pr_49d3fffa-7066-4519-a3f3-f9534a966354_p2" x="930.19116" y="4179.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1a64cd7b-fac5-454f-8de8-27d4468834ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1578.6198" y="16390.5"/> <port id="pr_1a64cd7b-fac5-454f-8de8-27d4468834ea_p1" x="1583.6198" y="16410.5"/> <port id="pr_1a64cd7b-fac5-454f-8de8-27d4468834ea_p2" x="1583.6198" y="16380.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_161fc67d-70a2-4d88-ad9d-5337a6f778f6"> <bbox w="10.0" h="10.0" x="30691.217" y="2130.0"/> <port id="pr_161fc67d-70a2-4d88-ad9d-5337a6f778f6_p1" x="30696.217" y="2120.0"/> <port id="pr_161fc67d-70a2-4d88-ad9d-5337a6f778f6_p2" x="30696.217" y="2150.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a62df73d-898f-4862-a492-bd054a03981d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a62df73d-898f-4862-a492-bd054a03981d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3457.0" y="11824.0"/> <port id="pr_a62df73d-898f-4862-a492-bd054a03981d_p1" x="3477.0" y="11829.0"/> <port id="pr_a62df73d-898f-4862-a492-bd054a03981d_p2" x="3447.0" y="11829.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1ded3329-730e-44a4-a02f-cb29b43be5dd"> <bbox w="10.0" h="10.0" x="10110.939" y="4188.071"/> <port id="pr_1ded3329-730e-44a4-a02f-cb29b43be5dd_p1" x="10115.939" y="4178.071"/> <port id="pr_1ded3329-730e-44a4-a02f-cb29b43be5dd_p2" x="10115.939" y="4208.071"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_876b83b9-a379-4764-b0a1-8554f4b85d19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20925119</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_876b83b9-a379-4764-b0a1-8554f4b85d19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20925119"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22116.06" y="21326.207"/> <port id="pr_876b83b9-a379-4764-b0a1-8554f4b85d19_p1" x="22106.06" y="21331.207"/> <port id="pr_876b83b9-a379-4764-b0a1-8554f4b85d19_p2" x="22136.06" y="21331.207"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cee95857-50ea-408b-b081-25eeb55b1b3b"> <bbox w="10.0" h="10.0" x="22410.227" y="11758.334"/> <port id="pr_cee95857-50ea-408b-b081-25eeb55b1b3b_p1" x="22430.227" y="11763.334"/> <port id="pr_cee95857-50ea-408b-b081-25eeb55b1b3b_p2" x="22400.227" y="11763.334"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4cd4a65e-c5ec-485b-bc8c-9add15123b81"> <bbox w="10.0" h="10.0" x="12075.973" y="9554.4"/> <port id="pr_4cd4a65e-c5ec-485b-bc8c-9add15123b81_p1" x="12065.973" y="9559.4"/> <port id="pr_4cd4a65e-c5ec-485b-bc8c-9add15123b81_p2" x="12095.973" y="9559.4"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a6586687-a657-4cbf-89f8-702171b8c4f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3192.0" y="18500.82"/> <port id="pr_a6586687-a657-4cbf-89f8-702171b8c4f3_p1" x="3212.0" y="18505.82"/> <port id="pr_a6586687-a657-4cbf-89f8-702171b8c4f3_p2" x="3182.0" y="18505.82"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b0bbd8a7-aede-41e4-ad1b-b2795275fff3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25808.31" y="15636.25"/> <port id="pr_b0bbd8a7-aede-41e4-ad1b-b2795275fff3_p1" x="25813.31" y="15626.25"/> <port id="pr_b0bbd8a7-aede-41e4-ad1b-b2795275fff3_p2" x="25813.31" y="15656.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_8f995fcc-1422-49ae-9b84-71f5e67afc2d"> <bbox w="10.0" h="10.0" x="15721.859" y="18676.5"/> <port id="pr_8f995fcc-1422-49ae-9b84-71f5e67afc2d_p1" x="15726.859" y="18696.5"/> <port id="pr_8f995fcc-1422-49ae-9b84-71f5e67afc2d_p2" x="15726.859" y="18666.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_91c6c6c9-5def-48c9-96f9-7b0b150397ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17318175</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_91c6c6c9-5def-48c9-96f9-7b0b150397ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20623.838" y="18269.863"/> <port id="pr_91c6c6c9-5def-48c9-96f9-7b0b150397ac_p1" x="20628.838" y="18289.863"/> <port id="pr_91c6c6c9-5def-48c9-96f9-7b0b150397ac_p2" x="20628.838" y="18259.863"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b75c3a21-76df-4b58-b8d2-ed3960387371"> <bbox w="10.0" h="10.0" x="23242.797" y="3723.75"/> <port id="pr_b75c3a21-76df-4b58-b8d2-ed3960387371_p1" x="23247.797" y="3743.75"/> <port id="pr_b75c3a21-76df-4b58-b8d2-ed3960387371_p2" x="23247.797" y="3713.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ba2ee10-66a0-4c4b-93ab-d6207287a117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12445508</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ba2ee10-66a0-4c4b-93ab-d6207287a117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12445508"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22030.676" y="13265.75"/> <port id="pr_5ba2ee10-66a0-4c4b-93ab-d6207287a117_p1" x="22035.676" y="13285.75"/> <port id="pr_5ba2ee10-66a0-4c4b-93ab-d6207287a117_p2" x="22035.676" y="13255.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_911cdf8d-da20-423c-a505-9bab736d4b2f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18680434</p> <p>About regulation by GNL3 and GNL3L</p> <p>PMID:19487455, PMID:22045740</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_911cdf8d-da20-423c-a505-9bab736d4b2f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18680434"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19487455"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045740"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2358.56" y="21238.5"/> <port id="pr_911cdf8d-da20-423c-a505-9bab736d4b2f_p1" x="2348.56" y="21243.5"/> <port id="pr_911cdf8d-da20-423c-a505-9bab736d4b2f_p2" x="2378.56" y="21243.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_36f8062a-cf49-455f-bd32-45740bc928b5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_36f8062a-cf49-455f-bd32-45740bc928b5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3078.25" y="10125.25"/> <port id="pr_36f8062a-cf49-455f-bd32-45740bc928b5_p1" x="3083.25" y="10115.25"/> <port id="pr_36f8062a-cf49-455f-bd32-45740bc928b5_p2" x="3083.25" y="10145.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df4571be-573d-446c-95d5-bb6881d5f33f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24919.06" y="14949.0"/> <port id="pr_df4571be-573d-446c-95d5-bb6881d5f33f_p1" x="24909.06" y="14954.0"/> <port id="pr_df4571be-573d-446c-95d5-bb6881d5f33f_p2" x="24939.06" y="14954.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_17116c19-fe0f-4aad-9f8d-e8f7b61e5f4e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_17116c19-fe0f-4aad-9f8d-e8f7b61e5f4e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6633.0" y="12002.5"/> <port id="pr_17116c19-fe0f-4aad-9f8d-e8f7b61e5f4e_p1" x="6653.0" y="12007.5"/> <port id="pr_17116c19-fe0f-4aad-9f8d-e8f7b61e5f4e_p2" x="6623.0" y="12007.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_625ca033-8f23-46a7-83cd-0d327c2817a7"> <bbox w="10.0" h="10.0" x="20086.525" y="16154.936"/> <port id="pr_625ca033-8f23-46a7-83cd-0d327c2817a7_p1" x="20091.525" y="16144.936"/> <port id="pr_625ca033-8f23-46a7-83cd-0d327c2817a7_p2" x="20091.525" y="16174.936"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b76fff83-3ad8-4777-85c3-6e0d8475f7ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14536078</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b76fff83-3ad8-4777-85c3-6e0d8475f7ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13551.311" y="20982.5"/> <port id="pr_b76fff83-3ad8-4777-85c3-6e0d8475f7ae_p1" x="13541.311" y="20987.5"/> <port id="pr_b76fff83-3ad8-4777-85c3-6e0d8475f7ae_p2" x="13571.311" y="20987.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0bc8d314-7f07-4305-93b5-acfa618087bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21536646</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0bc8d314-7f07-4305-93b5-acfa618087bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21536646"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23190.06" y="19482.5"/> <port id="pr_0bc8d314-7f07-4305-93b5-acfa618087bc_p1" x="23195.06" y="19472.5"/> <port id="pr_0bc8d314-7f07-4305-93b5-acfa618087bc_p2" x="23195.06" y="19502.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf1e8ad2-933b-4351-a137-eaedc82ffa3d"> <bbox w="10.0" h="10.0" x="22923.012" y="10451.203"/> <port id="pr_bf1e8ad2-933b-4351-a137-eaedc82ffa3d_p1" x="22913.012" y="10456.203"/> <port id="pr_bf1e8ad2-933b-4351-a137-eaedc82ffa3d_p2" x="22943.012" y="10456.203"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15219472-07ba-4d87-b3cf-b3a9dbd913b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>PMID:9894606</p> <p>in Jurkat</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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id="pr_48d63092-6d75-4c48-9f87-7a551883d926_p1" x="29855.326" y="6650.75"/> <port id="pr_48d63092-6d75-4c48-9f87-7a551883d926_p2" x="29855.326" y="6680.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_63309447-dde7-40ae-9dfc-0876e5ffb334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20731704</p> <p>PMID:21317430</p> <p>In NMuMG cells treated with TGFB1 Snail1 RNA and protein are induced 1 h after addition of the cytokine preceding Zeb1 up-regulation that requires 6–8 h. </p> <p>Zeb1 gene expression is caused by increased RNA levels but also by enhanced protein stability and is markedly dependent on Snail1 because depletion of this protein prevents Zeb1 protein and RNA up-regulation</p> <p>PMID:22406545</p> <p>TGFB can activate both SNAI1 and SNAI2 and thus promote EMT via both SMAD-dependent and -independent pathways</p> <p>PMID:16617148</p> <p>Negative feedback by SNAI1 itself</p> <p>PMID:17671186</p> <p>KLF8 directly bound to the promotor of Snail and repressed Snail expression</p> <p>PMID:17563753</p> <p>Snail promoter is regulated positively by NFkB_p65</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_63309447-dde7-40ae-9dfc-0876e5ffb334"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20731704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21317430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22406545"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16617148"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17671186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17563753"/> 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<port id="pr_17a3b26e-1bda-4bfa-b551-b1412ebd9c91_p1" x="5567.0" y="6325.0"/> <port id="pr_17a3b26e-1bda-4bfa-b551-b1412ebd9c91_p2" x="5597.0" y="6325.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a93e746b-f34d-4597-8fcd-f237b3de9c42"> <bbox w="10.0" h="10.0" x="9280.0" y="2067.5"/> <port id="pr_a93e746b-f34d-4597-8fcd-f237b3de9c42_p1" x="9300.0" y="2072.5"/> <port id="pr_a93e746b-f34d-4597-8fcd-f237b3de9c42_p2" x="9270.0" y="2072.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9f7d2557-f93f-43f1-9769-6a1b7920367e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11509732</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9f7d2557-f93f-43f1-9769-6a1b7920367e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11509732"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12636.526" y="11572.238"/> <port id="pr_9f7d2557-f93f-43f1-9769-6a1b7920367e_p1" x="12641.526" y="11562.238"/> <port id="pr_9f7d2557-f93f-43f1-9769-6a1b7920367e_p2" x="12641.526" y="11592.238"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cbe46e2a-161c-4018-a438-c0065dd48200"> <bbox w="10.0" h="10.0" x="27280.914" y="15935.75"/> <port id="pr_cbe46e2a-161c-4018-a438-c0065dd48200_p1" x="27285.914" y="15955.75"/> <port id="pr_cbe46e2a-161c-4018-a438-c0065dd48200_p2" x="27285.914" y="15925.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_553b7f7f-35b7-453f-b7a6-615c2367add8"> <bbox w="10.0" h="10.0" x="18280.0" y="4565.0"/> <port id="pr_553b7f7f-35b7-453f-b7a6-615c2367add8_p1" x="18285.0" y="4555.0"/> <port id="pr_553b7f7f-35b7-453f-b7a6-615c2367add8_p2" x="18285.0" y="4585.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d89da49d-1144-43a9-92b1-8cf178bc249c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12234250</p> <p>in G361 human melanoma cells, upon ionizing radiations</p> <p>in vitro by ATM and DNAPK</p> <p>in Hela, ectopically expressed LKB1 T366-phosphorylated is located in the nucleus</p> <p>PMID:20160076</p> <p>in HeLa S3 cells that lack functional LKB1, reexpression of wild-type but not T366A LKB1 restored the ability to repress mTORC1 in response to H2O2</p> <p>in MCF7, LKB1 is located in the cytoplasm, together with a proportion of ATM. H2O2 induces phosphorylation of cytoplasmic LKB1, but not other DNA damaging agents (etoposide). This supports a possible H2O2-induced and DNA damage-independent activation of the cytoplasmic of ATM responsible for LKB1 phosphorylation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d89da49d-1144-43a9-92b1-8cf178bc249c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12234250"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20160076"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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id="pr_08ea4877-bd86-4b47-a240-cf6636cb240d_p1" x="15753.665" y="18696.5"/> <port id="pr_08ea4877-bd86-4b47-a240-cf6636cb240d_p2" x="15753.665" y="18666.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_701edcf1-0fca-41c4-9a55-dc92b12b41b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18955971</p> <p>LMP causes the proteolytic activation of Bid (which is cleaved by the two lysosomal cathepsins B and D), which then induces MOMP</p> <p>PMID:16966373</p> <p>PMID:17670831</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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id="pr_30259d3b-7506-4c08-b597-47525b8d3dca_p1" x="12410.0" y="5876.25"/> <port id="pr_30259d3b-7506-4c08-b597-47525b8d3dca_p2" x="12410.0" y="5906.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_03d22c1d-4677-44f8-b45a-6aada642aaf0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2178.087" y="17203.25"/> <port id="pr_03d22c1d-4677-44f8-b45a-6aada642aaf0_p1" x="2168.087" y="17208.25"/> <port id="pr_03d22c1d-4677-44f8-b45a-6aada642aaf0_p2" x="2198.087" y="17208.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_17ab7396-5baa-42d6-b5a6-0b6c329d6ecf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>FANCM is phosphorylated by PLK1 and beta-TRCP in response to G2/M checkpoint. Phosphorylated FANCM is degraded and FANCONI pathway is inhibited during mitosis. </p> <p>PMID:19270156</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_17ab7396-5baa-42d6-b5a6-0b6c329d6ecf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19270156"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16471.906" y="15693.846"/> <port id="pr_17ab7396-5baa-42d6-b5a6-0b6c329d6ecf_p1" x="16476.906" y="15683.846"/> <port id="pr_17ab7396-5baa-42d6-b5a6-0b6c329d6ecf_p2" x="16476.906" y="15713.846"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6289bb24-268e-436b-8dcc-b438a00fde13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3770.962" y="18603.25"/> <port id="pr_6289bb24-268e-436b-8dcc-b438a00fde13_p1" x="3775.962" y="18623.25"/> <port id="pr_6289bb24-268e-436b-8dcc-b438a00fde13_p2" x="3775.962" y="18593.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_36b721b5-2a17-4594-be1f-75c56ee7acc6"> <bbox w="10.0" h="10.0" x="19834.06" y="15540.994"/> <port id="pr_36b721b5-2a17-4594-be1f-75c56ee7acc6_p1" x="19854.06" y="15545.994"/> <port id="pr_36b721b5-2a17-4594-be1f-75c56ee7acc6_p2" x="19824.06" y="15545.994"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13ec704d-f7d9-4367-880e-d6826301750e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16158046</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_13ec704d-f7d9-4367-880e-d6826301750e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16158046"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26805.465" y="21150.25"/> <port id="pr_13ec704d-f7d9-4367-880e-d6826301750e_p1" x="26810.465" y="21170.25"/> <port id="pr_13ec704d-f7d9-4367-880e-d6826301750e_p2" x="26810.465" y="21140.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b3a3fdca-0fed-4129-89bb-0e8a829082fd"> <bbox w="10.0" h="10.0" x="2232.9985" y="4314.5"/> <port id="pr_b3a3fdca-0fed-4129-89bb-0e8a829082fd_p1" x="2222.9985" y="4319.5"/> <port id="pr_b3a3fdca-0fed-4129-89bb-0e8a829082fd_p2" x="2252.9985" y="4319.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ec8314b3-250b-4770-8362-58900159eabb"> <bbox w="10.0" h="10.0" x="22253.0" y="7997.5713"/> <port id="pr_ec8314b3-250b-4770-8362-58900159eabb_p1" x="22273.0" y="8002.5713"/> <port id="pr_ec8314b3-250b-4770-8362-58900159eabb_p2" x="22243.0" y="8002.5713"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_9d3040f0-c39e-407c-bc76-8e6dc0d5a4cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Binding of Wnt5 and LRP5/6 leads to phosphorylation of Dvl. Most likely the same residues as picture shows same speed of migration on gel compared to Wnt3 stimulation. No phosphorylation of LRP5/6 by Wnt5. This complex formation sequesters away Wnt5 from the non-canonical pathway receptors</p> <p>PMID:19056682</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9d3040f0-c39e-407c-bc76-8e6dc0d5a4cf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19056682"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17664.498" y="17900.625"/> <port id="pr_9d3040f0-c39e-407c-bc76-8e6dc0d5a4cf_p1" x="17654.498" y="17905.625"/> <port id="pr_9d3040f0-c39e-407c-bc76-8e6dc0d5a4cf_p2" x="17684.498" y="17905.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_33a3aa79-6642-4312-aca5-4ddb40c44f48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> <p>PMID:19440036</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_33a3aa79-6642-4312-aca5-4ddb40c44f48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3073.0" y="9793.0"/> <port id="pr_33a3aa79-6642-4312-aca5-4ddb40c44f48_p1" x="3093.0" y="9798.0"/> <port id="pr_33a3aa79-6642-4312-aca5-4ddb40c44f48_p2" x="3063.0" y="9798.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56f74f1e-9918-4fcc-bfbc-c2110563f7d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> 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y="10445.5"/> <port id="pr_49adc6e3-c7b5-4372-9648-be45421d0b1b_p2" x="18589.06" y="10415.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_976347e8-95a3-4ee6-a500-2f43c0ca5fc6"> <bbox w="10.0" h="10.0" x="17802.5" y="1060.0"/> <port id="pr_976347e8-95a3-4ee6-a500-2f43c0ca5fc6_p1" x="17807.5" y="1050.0"/> <port id="pr_976347e8-95a3-4ee6-a500-2f43c0ca5fc6_p2" x="17807.5" y="1080.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_186e3630-a624-4d00-9d30-622c31225b05"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4673.748" y="17787.5"/> <port id="pr_186e3630-a624-4d00-9d30-622c31225b05_p1" x="4678.748" y="17777.5"/> <port id="pr_186e3630-a624-4d00-9d30-622c31225b05_p2" x="4678.748" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9caf167b-6b0f-404a-a164-94f00afd70c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>RAC1 modulates cytoskeleton remodeling by activating ARFP2 and PIP5K1</p> <p>PMID:9312003</p> <p>ARFP2 functions as an important regulatory element in orchestrating cytoskeletal rearrangements at the cell periphery induced by ARF6 and Rac1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9caf167b-6b0f-404a-a164-94f00afd70c9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9312003"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6224.75" y="15027.5"/> <port id="pr_9caf167b-6b0f-404a-a164-94f00afd70c9_p1" x="6214.75" y="15032.5"/> <port id="pr_9caf167b-6b0f-404a-a164-94f00afd70c9_p2" x="6244.75" y="15032.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99af4ff2-7246-4011-b8cc-8def4d85f373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:14551205</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_3cb28b4d-350c-4e9f-ba7b-025d2eb1df01"> <bbox w="10.0" h="10.0" x="2205.0" y="4249.0"/> <port id="pr_3cb28b4d-350c-4e9f-ba7b-025d2eb1df01_p1" x="2210.0" y="4239.0"/> <port id="pr_3cb28b4d-350c-4e9f-ba7b-025d2eb1df01_p2" x="2210.0" y="4269.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_352c67f2-8eb4-4072-a5c2-c9ac251c9886"> <bbox w="10.0" h="10.0" x="27323.5" y="6997.5"/> <port id="pr_352c67f2-8eb4-4072-a5c2-c9ac251c9886_p1" x="27343.5" y="7002.5"/> <port id="pr_352c67f2-8eb4-4072-a5c2-c9ac251c9886_p2" x="27313.5" y="7002.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3b899ea4-ffdb-4e08-8f39-3c17537b13d8"> <bbox w="10.0" h="10.0" x="11523.473" y="9615.856"/> <port id="pr_3b899ea4-ffdb-4e08-8f39-3c17537b13d8_p1" x="11513.473" y="9620.856"/> <port id="pr_3b899ea4-ffdb-4e08-8f39-3c17537b13d8_p2" x="11543.473" y="9620.856"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_39cb03e2-46e3-4549-8d35-fe4406ac05fc"> <bbox w="10.0" h="10.0" x="3872.0" y="1440.4167"/> <port id="pr_39cb03e2-46e3-4549-8d35-fe4406ac05fc_p1" x="3862.0" y="1445.4167"/> <port id="pr_39cb03e2-46e3-4549-8d35-fe4406ac05fc_p2" x="3892.0" y="1445.4167"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e0441879-7da7-4cb5-b02c-bafa94aa65ac"> <bbox w="10.0" h="10.0" x="19599.06" y="10444.0"/> <port id="pr_e0441879-7da7-4cb5-b02c-bafa94aa65ac_p1" x="19604.06" y="10464.0"/> <port id="pr_e0441879-7da7-4cb5-b02c-bafa94aa65ac_p2" x="19604.06" y="10434.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4798c36f-eead-4700-8925-79eb0c1f304d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3989.2646" y="18913.25"/> <port id="pr_4798c36f-eead-4700-8925-79eb0c1f304d_p1" x="3994.2646" y="18903.25"/> <port id="pr_4798c36f-eead-4700-8925-79eb0c1f304d_p2" x="3994.2646" y="18933.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f245589b-7932-4539-ad26-30ab9a41bbf9"> <bbox w="10.0" h="10.0" x="16685.0" y="7905.0"/> <port id="pr_f245589b-7932-4539-ad26-30ab9a41bbf9_p1" x="16690.0" y="7895.0"/> <port id="pr_f245589b-7932-4539-ad26-30ab9a41bbf9_p2" x="16690.0" y="7925.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b7291e49-5145-4142-8692-8953f96dd83f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25687758</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b7291e49-5145-4142-8692-8953f96dd83f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6346.0" y="10002.0"/> <port id="pr_b7291e49-5145-4142-8692-8953f96dd83f_p1" x="6336.0" y="10007.0"/> <port id="pr_b7291e49-5145-4142-8692-8953f96dd83f_p2" x="6366.0" y="10007.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1b3dd450-57c3-4140-8c15-f088bd17fafc"> <bbox w="10.0" h="10.0" x="15999.426" y="17048.96"/> <port id="pr_1b3dd450-57c3-4140-8c15-f088bd17fafc_p1" x="16004.426" y="17038.96"/> <port id="pr_1b3dd450-57c3-4140-8c15-f088bd17fafc_p2" x="16004.426" y="17068.96"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_91fb7525-1f2e-45f9-9e2d-f6e09f2d3613"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>This complex does not contain HDAC but do contain LEF1</p> <p>PMID:17666529</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_91fb7525-1f2e-45f9-9e2d-f6e09f2d3613"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17666529"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21152.56" y="21428.0"/> <port id="pr_91fb7525-1f2e-45f9-9e2d-f6e09f2d3613_p1" x="21172.56" y="21433.0"/> <port id="pr_91fb7525-1f2e-45f9-9e2d-f6e09f2d3613_p2" x="21142.56" y="21433.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a2d39df4-7987-4f69-b6ca-0ca3c9d4bcda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6359.45" y="14279.187"/> <port id="pr_a2d39df4-7987-4f69-b6ca-0ca3c9d4bcda_p1" x="6349.45" y="14284.187"/> <port id="pr_a2d39df4-7987-4f69-b6ca-0ca3c9d4bcda_p2" x="6379.45" y="14284.187"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ddb97487-5b5f-4c78-954f-3c7b72ef6f90"> <bbox w="10.0" h="10.0" x="20175.645" y="10919.25"/> <port id="pr_ddb97487-5b5f-4c78-954f-3c7b72ef6f90_p1" x="20180.645" y="10909.25"/> <port id="pr_ddb97487-5b5f-4c78-954f-3c7b72ef6f90_p2" x="20180.645" y="10939.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_850f7f6f-e3ff-44b1-abfc-8d13b34df410"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23073834</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_850f7f6f-e3ff-44b1-abfc-8d13b34df410"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19864.31" y="10048.75"/> <port id="pr_850f7f6f-e3ff-44b1-abfc-8d13b34df410_p1" x="19869.31" y="10038.75"/> <port id="pr_850f7f6f-e3ff-44b1-abfc-8d13b34df410_p2" x="19869.31" y="10068.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_07c2c74f-742b-49e1-9875-b25f5b7fdb5a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6102.5" y="14965.5"/> <port id="pr_07c2c74f-742b-49e1-9875-b25f5b7fdb5a_p1" x="6122.5" y="14970.5"/> <port id="pr_07c2c74f-742b-49e1-9875-b25f5b7fdb5a_p2" x="6092.5" y="14970.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5b6a6603-835f-4a24-a49a-b7f2b031e358"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15668399</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b6a6603-835f-4a24-a49a-b7f2b031e358"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15668399"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11933.311" y="22410.0"/> <port id="pr_5b6a6603-835f-4a24-a49a-b7f2b031e358_p1" x="11938.311" y="22400.0"/> <port id="pr_5b6a6603-835f-4a24-a49a-b7f2b031e358_p2" x="11938.311" y="22430.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_0ea262c9-26f8-4417-ba5e-42c8689f031b"> <bbox w="20.0" h="20.0" x="12174.061" y="22426.25"/> <port id="logicglyph_0ea262c9-26f8-4417-ba5e-42c8689f031b_p1" x="12204.061" y="22436.25"/> <port id="logicglyph_0ea262c9-26f8-4417-ba5e-42c8689f031b_p2" x="12164.061" y="22436.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c93deb4b-9b23-4163-8a27-3a7fd599f00c"> <bbox w="10.0" h="10.0" x="6759.436" y="3030.8125"/> <port id="pr_c93deb4b-9b23-4163-8a27-3a7fd599f00c_p1" x="6764.436" y="3050.8125"/> <port id="pr_c93deb4b-9b23-4163-8a27-3a7fd599f00c_p2" x="6764.436" y="3020.8125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ad49dab4-a5aa-4ac5-b222-1641d7bc5e20"> <bbox w="10.0" h="10.0" x="700.0" y="2430.75"/> <port id="pr_ad49dab4-a5aa-4ac5-b222-1641d7bc5e20_p1" x="705.0" y="2450.75"/> <port id="pr_ad49dab4-a5aa-4ac5-b222-1641d7bc5e20_p2" x="705.0" y="2420.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_fd36e3dd-6d8f-4abd-814f-a38e3dfa3574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1349.9885" y="17479.0"/> <port id="pr_fd36e3dd-6d8f-4abd-814f-a38e3dfa3574_p1" x="1354.9885" y="17499.0"/> <port id="pr_fd36e3dd-6d8f-4abd-814f-a38e3dfa3574_p2" x="1354.9885" y="17469.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_53d7de23-344b-4915-884f-4414201289bf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> <p>logical:rc_re631_rc_s3146_rc_re638=FALSE</p> <p>logical:rc_re633_rc_s3146_rc_re638=FALSE</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20743.436" y="11965.195"/> <port id="pr_53d7de23-344b-4915-884f-4414201289bf_p1" x="20748.436" y="11955.195"/> <port id="pr_53d7de23-344b-4915-884f-4414201289bf_p2" x="20748.436" y="11985.195"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e8b4e388-878d-4c74-ab67-1503cedd9fd3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> 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PS-form.</p> <p>PMID:12958364</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_776cc2f2-dde4-4ae7-9085-5916dd63c667"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12958364"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16776.06" y="19372.0"/> <port id="pr_776cc2f2-dde4-4ae7-9085-5916dd63c667_p1" x="16781.06" y="19362.0"/> <port id="pr_776cc2f2-dde4-4ae7-9085-5916dd63c667_p2" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5757.5" y="14658.571"/> <port id="pr_13ef8d60-f391-4170-855d-c0d51c242218_p1" x="5747.5" y="14663.571"/> <port id="pr_13ef8d60-f391-4170-855d-c0d51c242218_p2" x="5777.5" y="14663.571"/> </glyph> <glyph class="process" orientation="vertical" id="pr_14904df8-3103-4cc9-bb7f-c2bc542276e2"> <bbox w="10.0" h="10.0" x="5578.06" y="20409.5"/> <port id="pr_14904df8-3103-4cc9-bb7f-c2bc542276e2_p1" x="5583.06" y="20399.5"/> <port id="pr_14904df8-3103-4cc9-bb7f-c2bc542276e2_p2" x="5583.06" y="20429.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_108da516-3246-4bf9-a49c-e902d87de47c"> <bbox w="10.0" h="10.0" x="12065.311" y="20587.75"/> <port id="pr_108da516-3246-4bf9-a49c-e902d87de47c_p1" x="12055.311" y="20592.75"/> <port 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24954210</p> <p>ROS induces MAPK3 and MAPK6 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ffe478c7-9fe0-4e31-b890-d4d9a27abfb1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24954210"/> </rdf:Bag> 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id="pr_c6ea9962-3b1b-4c83-9f42-579f4d712181_p2" x="28135.06" y="12276.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dc987409-57af-41db-b7b9-a3aebd17cfe4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activation by PLK phosphorylation at S191, S198</p> <p>Activation by CDC2 phosphorylation at S214</p> <p>PMID:17596790</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2177.9746" y="17029.0"/> <port id="pr_1dc439ef-521b-42b2-abcf-b34592315d01_p1" x="2167.9746" y="17034.0"/> <port id="pr_1dc439ef-521b-42b2-abcf-b34592315d01_p2" x="2197.9746" y="17034.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8e5a110d-ac90-400d-86b2-4df24db81632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19359.123" y="11528.0625"/> <port id="pr_8e5a110d-ac90-400d-86b2-4df24db81632_p1" x="19379.123" y="11533.0625"/> <port id="pr_8e5a110d-ac90-400d-86b2-4df24db81632_p2" x="19349.123" y="11533.0625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1208d5c9-c62c-43a4-8ab2-bed13a0985b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16252010</p> <p>NRIF is a substrate for TRAF6-mediated K63 polyubiquitination and that this modification is necessary for its nuclear translocation.</p> <p>PMID:16630834</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1208d5c9-c62c-43a4-8ab2-bed13a0985b8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16252010"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16630834"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21594.31" y="9242.125"/> <port id="pr_1208d5c9-c62c-43a4-8ab2-bed13a0985b8_p1" x="21584.31" y="9247.125"/> <port id="pr_1208d5c9-c62c-43a4-8ab2-bed13a0985b8_p2" x="21614.31" y="9247.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e32887dd-44ac-48a7-ac52-000e8fbf5d63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID :10402472</p> <p>We conclude that a pool of surface E-cadherin is constantly trafficked through an endocytic, recycling pathway and that this may provide a mechanism for regulating the availability of E-cadherin for junction formation in development, tissue remodeling, and tumorigenesis.</p> <p>PMID:22674073</p> <p>Clathrin-mediated endocytosis appears to be responsible for two types of growth factor-induced cadherin internalization, FGF-mediated internalization of E-cadherin () and VEGF-mediated internalization of VE-cadherin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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oxygen. </p> <p>PMID:7539918</p> <p>In normoxia, the HIF-1A proteins are rapidly degraded, resulting in essentially no detectable HIF-1A protein.</p> <p>PMID:8943284</p> <p>During hypoxia, HIF-1A becomes stabilized and translocates from the cytoplasm to the nucleus, where it dimerizes with HIF-1B and the HIF complex formed becomes transcriptionally active</p> <p>PMID:1823643</p> <p>The activated HIF complex then associates with HREs in the regulatory regions of target genes and binds the transcriptional coactivators to induce gene expression.</p> <p>PMID:15451019</p> <p>Tight regulation of the stability and subsequent transactivational function of HIF-1A is chiefly controlled by its post-translation modifications, such as hydroxylation, ubiquitination, acetylation, and phosphorylation</p> <p>The modification of HIF-1A occurs within several domains.</p> <p>PMID:10403805</p> <p>PMID:11566883</p> <p>PMID:12829734</p> <p>In normoxia, hydroxylation of 2 proline residues and acetylation of a lysine residue in its ODDD promote interaction of HIF-1A with the von Hippel-Lindau (pVHL) ubiquitin E3 ligase complex (Srinivas et al., 1999; Masson et al., 2001).</p> <p>PMID:12080085</p> <p>pVHL complex tags HIF-1A with ubiquitin and thereby marks it for degradation by the 26S proteasome. </p> <p>In addition, hydroxylation of an asparagine residue in the C-TAD inhibits the association of HIF-1A with CBP/p300 and thus inhibits its transcriptional activity (Lando et al., 2002a).</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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y="15139.266"/> <port id="pr_1670dd28-b56a-4d50-9b25-3af26c3734d2_p2" x="5413.0" y="15139.266"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00481588-3c31-4899-9647-cef353d7b697"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Rac1 binds to BAIAP2 which in turn associates with WASF2.</p> <p>This stimulates ARP2/3 and leads to actin cytoskeleal polymerization.</p> <p>PMID:16702231</p> <p>WAVE2 (so-called WASF2) activates the ARP2/3 complex for Rac-induced actin polymerization during lamellipodium formation</p> <p>PMID:9843499</p> <p>WASF (WAVE) as regulator of actin reorganization downstream of Rac.</p> <p>Expressed WAVE induces the formation of actin filament clusters.</p> <p>WAVE plays a critical role downstream of Rac in regulating the actin cytoskeleton required for mem- brane ruffling</p> <p>PMID:12054568</p> <p>WAVE2 serves a functional partner of IRSp53 by regulating its interaction with Rac.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_00481588-3c31-4899-9647-cef353d7b697"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16702231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9843499"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_92bd9399-503a-4a00-816a-7ba97299914a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18979497"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26804.057" y="21154.75"/> <port id="pr_92bd9399-503a-4a00-816a-7ba97299914a_p1" x="26809.057" y="21174.75"/> <port id="pr_92bd9399-503a-4a00-816a-7ba97299914a_p2" x="26809.057" y="21144.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0a756e55-8002-42fc-a401-d3c9428b8856"> <bbox w="10.0" h="10.0" x="9782.606" y="5388.75"/> <port id="pr_0a756e55-8002-42fc-a401-d3c9428b8856_p1" x="9787.606" y="5378.75"/> <port 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_936bc1ce-3996-4d92-942c-3d6bbff52153"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5263.75" y="10410.373"/> <port id="pr_936bc1ce-3996-4d92-942c-3d6bbff52153_p1" x="5253.75" y="10415.373"/> <port id="pr_936bc1ce-3996-4d92-942c-3d6bbff52153_p2" x="5283.75" y="10415.373"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_57c9b4f9-33a3-45ee-ad1c-070f042b76cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_57c9b4f9-33a3-45ee-ad1c-070f042b76cf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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id="pr_f0fcaa13-3639-4efd-acb6-08b9c105a59f_p1" x="1001.3125" y="17785.0"/> <port id="pr_f0fcaa13-3639-4efd-acb6-08b9c105a59f_p2" x="1001.3125" y="17815.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_eb731ad7-3f8c-430d-ad69-cf124106c652"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5991.5" y="14548.191"/> <port id="pr_eb731ad7-3f8c-430d-ad69-cf124106c652_p1" x="6011.5" y="14553.191"/> <port id="pr_eb731ad7-3f8c-430d-ad69-cf124106c652_p2" x="5981.5" y="14553.191"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b9ceefeb-f7e9-4118-9d31-c6b64835e97f"> <bbox w="10.0" h="10.0" x="28806.326" y="16314.0"/> <port id="pr_b9ceefeb-f7e9-4118-9d31-c6b64835e97f_p1" x="28811.326" y="16334.0"/> <port id="pr_b9ceefeb-f7e9-4118-9d31-c6b64835e97f_p2" x="28811.326" y="16304.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_577e3db7-57e4-4fca-9d9d-7d5d143713f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PFK is a tetramer of the 1 to 3 of the different isoforms. Its exact composition depends on the cell type.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19102.06" y="10037.689"/> <port id="pr_577e3db7-57e4-4fca-9d9d-7d5d143713f0_p1" x="19107.06" y="10027.689"/> <port id="pr_577e3db7-57e4-4fca-9d9d-7d5d143713f0_p2" x="19107.06" y="10057.689"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0df99692-3773-432a-b67d-8805b72714e2"> <bbox w="10.0" h="10.0" x="14519.5" y="3217.976"/> <port id="pr_0df99692-3773-432a-b67d-8805b72714e2_p1" x="14509.5" y="3222.976"/> <port id="pr_0df99692-3773-432a-b67d-8805b72714e2_p2" x="14539.5" y="3222.976"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa0e848f-9bb0-4e20-b7a4-aa66e2714129"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ELK1 induces c-fos expression.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa0e848f-9bb0-4e20-b7a4-aa66e2714129"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8840.786" y="20702.828"/> <port id="pr_aa0e848f-9bb0-4e20-b7a4-aa66e2714129_p1" x="8845.786" y="20692.828"/> <port id="pr_aa0e848f-9bb0-4e20-b7a4-aa66e2714129_p2" x="8845.786" y="20722.828"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5b45c89b-a574-4ca3-9767-095fc63b5dcf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15369676</p> <p>inhibition of PHD by ROS</p> <p>PMID:20675386</p> <p>questions the hypothesis of mitochondrial derived ROS inhibiting directly PHD upon hypoxia</p> <p>proposes HIF1A stabilization upon respiratory chain inhibition would rather result from enhanced oxygen availability</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b45c89b-a574-4ca3-9767-095fc63b5dcf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15369676"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20675386"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25165.56" y="14879.75"/> <port id="pr_5b45c89b-a574-4ca3-9767-095fc63b5dcf_p1" x="25170.56" y="14899.75"/> <port id="pr_5b45c89b-a574-4ca3-9767-095fc63b5dcf_p2" x="25170.56" y="14869.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_149f708e-a934-4c9d-92c0-d50f485d8362"> <bbox w="10.0" h="10.0" x="11394.074" y="6883.75"/> <port id="pr_149f708e-a934-4c9d-92c0-d50f485d8362_p1" x="11399.074" y="6873.75"/> <port id="pr_149f708e-a934-4c9d-92c0-d50f485d8362_p2" x="11399.074" y="6903.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f218aa6c-c49d-44c5-b9d3-a77d53a1d5a0"> <bbox w="10.0" h="10.0" x="9164.75" y="4820.6064"/> <port id="pr_f218aa6c-c49d-44c5-b9d3-a77d53a1d5a0_p1" x="9154.75" y="4825.6064"/> <port id="pr_f218aa6c-c49d-44c5-b9d3-a77d53a1d5a0_p2" x="9184.75" y="4825.6064"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f5e4e4d9-a678-43b8-a223-24bbff187136"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14536078</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f5e4e4d9-a678-43b8-a223-24bbff187136"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13087.561" y="20917.0"/> <port id="pr_f5e4e4d9-a678-43b8-a223-24bbff187136_p1" x="13077.561" y="20922.0"/> <port id="pr_f5e4e4d9-a678-43b8-a223-24bbff187136_p2" x="13107.561" y="20922.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b99122e9-b971-42f7-8dfd-b10695335a37"> <bbox w="10.0" h="10.0" x="18734.06" y="10441.125"/> <port id="pr_b99122e9-b971-42f7-8dfd-b10695335a37_p1" x="18739.06" y="10431.125"/> <port id="pr_b99122e9-b971-42f7-8dfd-b10695335a37_p2" x="18739.06" y="10461.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6b8f0c76-7a16-4793-a211-4eec51fb87f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19203584</p> <p>involvment of CRADD is doubtful</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6b8f0c76-7a16-4793-a211-4eec51fb87f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19203584"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18156.56" y="16149.0"/> <port id="pr_6b8f0c76-7a16-4793-a211-4eec51fb87f0_p1" x="18161.56" y="16169.0"/> <port id="pr_6b8f0c76-7a16-4793-a211-4eec51fb87f0_p2" x="18161.56" y="16139.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_21722274-1da5-4485-bc3d-766bf130ae3c"> <bbox w="10.0" h="10.0" x="6375.0" y="4341.875"/> <port id="pr_21722274-1da5-4485-bc3d-766bf130ae3c_p1" x="6380.0" y="4331.875"/> <port id="pr_21722274-1da5-4485-bc3d-766bf130ae3c_p2" x="6380.0" y="4361.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fdb98071-04c8-43b4-b299-b8411271f22c"> <bbox w="10.0" h="10.0" x="11705.0" y="4481.875"/> <port id="pr_fdb98071-04c8-43b4-b299-b8411271f22c_p1" x="11710.0" y="4471.875"/> <port id="pr_fdb98071-04c8-43b4-b299-b8411271f22c_p2" x="11710.0" y="4501.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f0d66038-cfd9-43fb-9450-82edf57f176f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16325583</p> <p>Monomeric CTNNA1 binds more strongly to E-cadherin/CTNNB1, whereas the dimer preferentially binds actin filaments</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f0d66038-cfd9-43fb-9450-82edf57f176f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16325583"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1967.5" y="15915.0"/> <port id="pr_f0d66038-cfd9-43fb-9450-82edf57f176f_p1" x="1957.5" y="15920.0"/> <port id="pr_f0d66038-cfd9-43fb-9450-82edf57f176f_p2" x="1987.5" y="15920.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5f7efef5-74a3-44c8-9cdb-e6f87416ba79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>VAV1,2 are GEFs for Rac1.</p> <p>PMID:11080163</p> <p>VAV2 is recruited by the CD19 co-receptor of the B cells and participates in the B cell receptor signaling.</p> <p>PMID:12165654</p> <p>in the T cell, VAV1 forms complex with LCP2. </p> <p>This complex is involved in the T cell receptor and CD28 signaling cascades.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f7efef5-74a3-44c8-9cdb-e6f87416ba79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11080163"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12165654"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5999.653" y="14654.609"/> <port id="pr_5f7efef5-74a3-44c8-9cdb-e6f87416ba79_p1" x="6019.653" y="14659.609"/> <port id="pr_5f7efef5-74a3-44c8-9cdb-e6f87416ba79_p2" x="5989.653" y="14659.609"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f847b062-04dd-4d2e-b4ce-cc52bf34dd7f"> <bbox w="10.0" h="10.0" x="1475.0" y="4029.25"/> <port id="pr_f847b062-04dd-4d2e-b4ce-cc52bf34dd7f_p1" x="1480.0" y="4019.25"/> <port id="pr_f847b062-04dd-4d2e-b4ce-cc52bf34dd7f_p2" x="1480.0" y="4049.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2a68f6d4-c50c-478f-a0ef-567a32b4790b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4685.5884" y="18273.625"/> <port id="pr_2a68f6d4-c50c-478f-a0ef-567a32b4790b_p1" x="4690.5884" y="18263.625"/> <port id="pr_2a68f6d4-c50c-478f-a0ef-567a32b4790b_p2" x="4690.5884" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15428b48-cb09-4f98-a7c1-f7d06d5a6d35"> <bbox w="10.0" h="10.0" x="24746.184" y="16015.75"/> <port id="pr_15428b48-cb09-4f98-a7c1-f7d06d5a6d35_p1" x="24751.184" y="16035.75"/> <port id="pr_15428b48-cb09-4f98-a7c1-f7d06d5a6d35_p2" x="24751.184" y="16005.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b843b1a4-129d-40a3-87e6-2722615c58b3"> <bbox w="10.0" h="10.0" x="12096.061" y="17948.688"/> <port id="pr_b843b1a4-129d-40a3-87e6-2722615c58b3_p1" x="12116.061" y="17953.688"/> <port id="pr_b843b1a4-129d-40a3-87e6-2722615c58b3_p2" x="12086.061" y="17953.688"/> </glyph> <glyph class="process" orientation="vertical" id="pr_467dddbb-ad38-4f82-acf1-2db325f3c371"> <bbox w="10.0" h="10.0" x="26347.967" y="13550.25"/> <port id="pr_467dddbb-ad38-4f82-acf1-2db325f3c371_p1" x="26352.967" y="13570.25"/> <port id="pr_467dddbb-ad38-4f82-acf1-2db325f3c371_p2" x="26352.967" y="13540.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_703aebe0-41a1-4d84-8727-5a152dbe6fc7"> <bbox w="10.0" h="10.0" x="22820.588" y="8234.855"/> <port id="pr_703aebe0-41a1-4d84-8727-5a152dbe6fc7_p1" x="22840.588" y="8239.855"/> <port id="pr_703aebe0-41a1-4d84-8727-5a152dbe6fc7_p2" x="22810.588" y="8239.855"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9cd0e132-22d3-4fc2-9d12-1135ae3483ab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14660645, PMID:18264787, PMID:11460167</p> <p>Activated TAK1 phosphorylates IKK-beta proteins </p> <p>leading to activation of NF-κB downstream of HMGB1. </p> <p>PMID:21232017, PMID:21133840, PMID:17301840</p> <p>PMID:24958845, PMID:24699077</p> <p>The LUBAC complex ubiquitinates NEMO, a subunit of the IKK complex downstream of TNF and upregulates IkBa degradetion.</p> <p>PMID:11280761</p> <p> VEGF signaling blocs TNF-α induced activation of IκB kinase (IKK complex).This decreased IKK activation correlated with the inhibition of IκBα phosphorylation and degradation of IκBα and IκBε in HPCs, and this inhibition is inhdependent or FLT1 and KDR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9cd0e132-22d3-4fc2-9d12-1135ae3483ab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_9cd0e132-22d3-4fc2-9d12-1135ae3483ab_p1" x="2170.0" y="2230.0"/> <port id="pr_9cd0e132-22d3-4fc2-9d12-1135ae3483ab_p2" x="2170.0" y="2260.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_d6221b51-90d7-4464-90ca-cb9e47cb5a53"> <bbox w="20.0" h="20.0" x="1600.0" y="1980.0"/> <port id="logicglyph_d6221b51-90d7-4464-90ca-cb9e47cb5a53_p1" x="1590.0" y="1990.0"/> <port id="logicglyph_d6221b51-90d7-4464-90ca-cb9e47cb5a53_p2" x="1630.0" y="1990.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_88e2ea43-753b-4875-aec5-1708cb7f74dd"> <bbox w="10.0" h="10.0" x="21910.684" y="1692.0"/> <port id="pr_88e2ea43-753b-4875-aec5-1708cb7f74dd_p1" x="21915.684" y="1682.0"/> <port id="pr_88e2ea43-753b-4875-aec5-1708cb7f74dd_p2" x="21915.684" y="1712.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e389422c-dc4e-423e-b2cd-63b6f4416f4a"> <bbox w="10.0" h="10.0" x="12113.125" y="4732.5"/> <port id="pr_e389422c-dc4e-423e-b2cd-63b6f4416f4a_p1" x="12103.125" y="4737.5"/> <port id="pr_e389422c-dc4e-423e-b2cd-63b6f4416f4a_p2" x="12133.125" y="4737.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_665a5cf8-dc29-42e1-b3ef-0c8dcfe14636"> <bbox w="10.0" h="10.0" x="27521.0" y="4680.0"/> <port id="pr_665a5cf8-dc29-42e1-b3ef-0c8dcfe14636_p1" x="27526.0" y="4670.0"/> <port id="pr_665a5cf8-dc29-42e1-b3ef-0c8dcfe14636_p2" x="27526.0" y="4700.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e33da3cf-4a5a-4ca3-a4f4-4031b9d5fdc6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Link between Fanconi and HR:</p> <p>PMID:15650050, PMID:19686080</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3673.9395" y="16329.098"/> <port id="pr_3eaac866-c16a-4775-bcb9-c9d23fa759cb_p1" x="3693.9395" y="16334.098"/> <port id="pr_3eaac866-c16a-4775-bcb9-c9d23fa759cb_p2" x="3663.9395" y="16334.098"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a7897173-b44a-4089-90a5-27eefe3349c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18182.81" y="16304.0"/> <port id="pr_a7897173-b44a-4089-90a5-27eefe3349c9_p1" x="18202.81" y="16309.0"/> <port id="pr_a7897173-b44a-4089-90a5-27eefe3349c9_p2" x="18172.81" y="16309.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_38b52006-e5df-4e94-b537-876f2c9cff99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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<title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17662023</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5bd11d99-45ca-4385-ab1d-c8f94513e416"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18562.81" y="18332.0"/> <port 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PMID:10837221, PMID:16756500</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a1fde234-3dcc-4bd8-b0fc-a7053d953045"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22032831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10837221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16756500"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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id="pr_ac0272ec-21a7-4089-9d5d-ba099ae6de3c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19887899</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ac0272ec-21a7-4089-9d5d-ba099ae6de3c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19887899"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12986.801" y="18556.0"/> <port id="pr_ac0272ec-21a7-4089-9d5d-ba099ae6de3c_p1" x="12991.801" y="18546.0"/> <port id="pr_ac0272ec-21a7-4089-9d5d-ba099ae6de3c_p2" x="12991.801" y="18576.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cd32fda8-e410-4c0f-a484-a311af989388"> <bbox w="10.0" h="10.0" x="13920.417" y="1951.25"/> <port id="pr_cd32fda8-e410-4c0f-a484-a311af989388_p1" x="13925.417" y="1971.25"/> <port id="pr_cd32fda8-e410-4c0f-a484-a311af989388_p2" x="13925.417" y="1941.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a19e5b3-48d0-4651-b931-74d99472cac5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4633.534" y="17989.191"/> <port id="pr_4a19e5b3-48d0-4651-b931-74d99472cac5_p1" x="4638.534" y="17979.191"/> <port id="pr_4a19e5b3-48d0-4651-b931-74d99472cac5_p2" x="4638.534" y="18009.191"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_411c2624-d5a4-40b1-92f3-bc2f28f52265"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2864.5" y="14953.5"/> <port id="pr_411c2624-d5a4-40b1-92f3-bc2f28f52265_p1" x="2884.5" y="14958.5"/> <port id="pr_411c2624-d5a4-40b1-92f3-bc2f28f52265_p2" x="2854.5" y="14958.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6c112c26-185d-466c-a0da-b600bd2724b7"> <bbox w="10.0" h="10.0" x="28898.023" y="12345.083"/> <port id="pr_6c112c26-185d-466c-a0da-b600bd2724b7_p1" x="28888.023" y="12350.083"/> <port id="pr_6c112c26-185d-466c-a0da-b600bd2724b7_p2" x="28918.023" y="12350.083"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1356da3d-e0d5-4990-8597-99f7909da50a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFAT1 together with JUN/FOS=AP-1 activates the promoter of GPC6</p> <p>PMID:21871017</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1356da3d-e0d5-4990-8597-99f7909da50a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21871017"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15740.061" y="21127.0"/> <port id="pr_1356da3d-e0d5-4990-8597-99f7909da50a_p1" x="15730.061" y="21132.0"/> <port id="pr_1356da3d-e0d5-4990-8597-99f7909da50a_p2" x="15760.061" y="21132.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2b3678f1-e3f6-4a91-bc84-962f056bd3f0"> <bbox w="10.0" h="10.0" x="23075.56" y="9508.875"/> <port id="pr_2b3678f1-e3f6-4a91-bc84-962f056bd3f0_p1" x="23080.56" y="9498.875"/> <port id="pr_2b3678f1-e3f6-4a91-bc84-962f056bd3f0_p2" x="23080.56" y="9528.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dfe35a04-5997-465e-901b-c414afc996ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Most likely, the complex will dissociates </p> <p>PMID:16648474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dfe35a04-5997-465e-901b-c414afc996ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16648474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18511.31" y="18332.0"/> <port id="pr_dfe35a04-5997-465e-901b-c414afc996ae_p1" x="18516.31" y="18352.0"/> <port id="pr_dfe35a04-5997-465e-901b-c414afc996ae_p2" x="18516.31" y="18322.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_439bc89c-448c-4375-9087-ec79f0266ab4"> <bbox w="10.0" h="10.0" x="23398.402" y="9618.775"/> <port id="pr_439bc89c-448c-4375-9087-ec79f0266ab4_p1" x="23403.402" y="9608.775"/> <port id="pr_439bc89c-448c-4375-9087-ec79f0266ab4_p2" x="23403.402" y="9638.775"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d8cad5b4-151a-4dba-98b2-03e66cb8fd9a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2268.48" y="16705.414"/> <port id="pr_d8cad5b4-151a-4dba-98b2-03e66cb8fd9a_p1" x="2258.48" y="16710.414"/> <port id="pr_d8cad5b4-151a-4dba-98b2-03e66cb8fd9a_p2" x="2288.48" y="16710.414"/> </glyph> <glyph class="process" orientation="vertical" id="pr_86d8ed9e-80e3-4f51-a126-2561c7f1a238"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12011429</p> <p>in human 2091 primary fibroblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_86d8ed9e-80e3-4f51-a126-2561c7f1a238"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12011429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24937.152" y="16196.898"/> <port id="pr_86d8ed9e-80e3-4f51-a126-2561c7f1a238_p1" x="24942.152" y="16216.898"/> <port id="pr_86d8ed9e-80e3-4f51-a126-2561c7f1a238_p2" x="24942.152" y="16186.898"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52f011fa-77d3-485b-9d77-ca01a5f84e1e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3423.0" y="16699.215"/> <port id="pr_52f011fa-77d3-485b-9d77-ca01a5f84e1e_p1" x="3443.0" y="16704.215"/> <port id="pr_52f011fa-77d3-485b-9d77-ca01a5f84e1e_p2" x="3413.0" y="16704.215"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f2b4d5b7-b66f-465f-b384-83e3ce552ea6"> <bbox w="10.0" h="10.0" x="22621.56" y="16196.5"/> <port id="pr_f2b4d5b7-b66f-465f-b384-83e3ce552ea6_p1" x="22641.56" y="16201.5"/> <port id="pr_f2b4d5b7-b66f-465f-b384-83e3ce552ea6_p2" x="22611.56" y="16201.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c82d3fcc-6f7b-45b7-a9f5-614ffac5f972"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16054021</p> <p>PMID:18372913</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c82d3fcc-6f7b-45b7-a9f5-614ffac5f972"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054021"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372913"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14700.061" y="18804.0"/> <port id="pr_c82d3fcc-6f7b-45b7-a9f5-614ffac5f972_p1" x="14720.061" y="18809.0"/> <port id="pr_c82d3fcc-6f7b-45b7-a9f5-614ffac5f972_p2" x="14690.061" y="18809.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_08c24032-245d-4a5d-a59c-22dd3dc3e3d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4438.8857" y="18273.596"/> <port id="pr_08c24032-245d-4a5d-a59c-22dd3dc3e3d5_p1" x="4443.8857" y="18263.596"/> <port id="pr_08c24032-245d-4a5d-a59c-22dd3dc3e3d5_p2" x="4443.8857" y="18293.596"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64cbf27e-27d2-4f10-a006-897fb4d3d6c6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17404308</p> <p>CSF1 induces acomulation of p50 homodimer and inhibition of p65/p50 NF-kB signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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id="pr_7d0ec1ef-c594-4051-be55-5e4463507012_p1" x="18476.17" y="11617.18"/> <port id="pr_7d0ec1ef-c594-4051-be55-5e4463507012_p2" x="18506.17" y="11617.18"/> </glyph> <glyph class="process" orientation="vertical" id="pr_407d9de5-16ac-4a0a-a0b3-830c0ab2630d"> <bbox w="10.0" h="10.0" x="30321.0" y="6835.0"/> <port id="pr_407d9de5-16ac-4a0a-a0b3-830c0ab2630d_p1" x="30326.0" y="6825.0"/> <port id="pr_407d9de5-16ac-4a0a-a0b3-830c0ab2630d_p2" x="30326.0" y="6855.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_651076d3-da00-4d78-bf44-bba305c6a7de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_651076d3-da00-4d78-bf44-bba305c6a7de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9592087"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1109.5046" y="18092.75"/> <port id="pr_651076d3-da00-4d78-bf44-bba305c6a7de_p1" x="1114.5046" y="18082.75"/> <port id="pr_651076d3-da00-4d78-bf44-bba305c6a7de_p2" x="1114.5046" y="18112.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_7dc0fdfa-f014-473f-ac18-3245edbcffb2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2422.2017" y="16959.75"/> <port id="pr_7dc0fdfa-f014-473f-ac18-3245edbcffb2_p1" x="2427.2017" y="16979.75"/> <port id="pr_7dc0fdfa-f014-473f-ac18-3245edbcffb2_p2" x="2427.2017" y="16949.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c933ac9b-76db-41b4-966f-c91491759883"> <bbox w="10.0" h="10.0" x="21288.25" y="4192.886"/> <port id="pr_c933ac9b-76db-41b4-966f-c91491759883_p1" x="21308.25" y="4197.886"/> <port id="pr_c933ac9b-76db-41b4-966f-c91491759883_p2" x="21278.25" y="4197.886"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_65a27370-9396-42bc-9b53-a21a819ca9f5"> <bbox w="10.0" h="10.0" x="18979.777" y="11119.898"/> <port id="pr_65a27370-9396-42bc-9b53-a21a819ca9f5_p1" x="18999.777" y="11124.898"/> <port id="pr_65a27370-9396-42bc-9b53-a21a819ca9f5_p2" x="18969.777" y="11124.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5b54a6da-c326-4f3e-9757-9c521eb3515c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:16288286</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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orientation="horizontal" id="pr_6c2e4462-9ed0-48f9-934a-1092f2715a9a"> <bbox w="10.0" h="10.0" x="14225.125" y="2129.9458"/> <port id="pr_6c2e4462-9ed0-48f9-934a-1092f2715a9a_p1" x="14245.125" y="2134.9458"/> <port id="pr_6c2e4462-9ed0-48f9-934a-1092f2715a9a_p2" x="14215.125" y="2134.9458"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_682539cc-ed27-409f-88f9-e0c597e6205d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11463392</p> <p>BBC3 (so-called PUMA, p53 upregulated modulator of apoptosis) as a target for activation by p53. </p> <p>This gene encodes two BH3 domain–containing proteins that are induced in cells following p53 activation. </p> <p>BBC3 binds to BCL2, localize to the mitochondria to induce cytochrome c release, and activate the rapid induction of programmed cell death. </p> <p>Antisense inhibition of PUMA expression reduced the apoptotic response to p53, and PUMA is likely to play a role inmediating p53-induced cell death through the cytochrome c/Apaf-1–dependent pathway.</p> <p>PMID:11463391</p> <p>PUMA was found to be exclusively mitochondrial and to bind to BCL2 and BCL2L1 through a BH3 domain.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_682539cc-ed27-409f-88f9-e0c597e6205d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463391"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4789.859" y="13614.244"/> <port id="pr_682539cc-ed27-409f-88f9-e0c597e6205d_p1" x="4809.859" y="13619.244"/> <port id="pr_682539cc-ed27-409f-88f9-e0c597e6205d_p2" x="4779.859" y="13619.244"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e7831fea-669a-4c0a-84a3-d148f4eb77a3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21500.56" y="15621.0"/> <port id="pr_e7831fea-669a-4c0a-84a3-d148f4eb77a3_p1" x="21505.56" y="15611.0"/> <port id="pr_e7831fea-669a-4c0a-84a3-d148f4eb77a3_p2" x="21505.56" y="15641.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a301403-d94e-4dcf-a3fe-a4e26e5a7e49"> <bbox w="10.0" h="10.0" x="28104.426" y="14421.5"/> <port id="pr_4a301403-d94e-4dcf-a3fe-a4e26e5a7e49_p1" x="28109.426" y="14411.5"/> <port id="pr_4a301403-d94e-4dcf-a3fe-a4e26e5a7e49_p2" x="28109.426" y="14441.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_93c71bc9-23e7-4fa3-bbe0-fca7fa402884"> <bbox w="10.0" h="10.0" x="26231.498" y="21779.668"/> <port id="pr_93c71bc9-23e7-4fa3-bbe0-fca7fa402884_p1" x="26221.498" y="21784.668"/> <port id="pr_93c71bc9-23e7-4fa3-bbe0-fca7fa402884_p2" x="26251.498" y="21784.668"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0671eff0-8f53-496a-b8e8-0b062fd5df37"> <bbox w="10.0" h="10.0" x="14616.243" y="5371.8125"/> <port id="pr_0671eff0-8f53-496a-b8e8-0b062fd5df37_p1" x="14621.243" y="5361.8125"/> <port id="pr_0671eff0-8f53-496a-b8e8-0b062fd5df37_p2" x="14621.243" y="5391.8125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_47b49ba7-5fa0-4873-86e4-646d7a57ef0f"> <bbox w="10.0" h="10.0" x="29601.0" y="3905.0"/> <port id="pr_47b49ba7-5fa0-4873-86e4-646d7a57ef0f_p1" x="29606.0" y="3895.0"/> <port id="pr_47b49ba7-5fa0-4873-86e4-646d7a57ef0f_p2" x="29606.0" y="3925.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4fafc5a8-147b-437a-bbc7-27b861d80edf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21224848</p> <p>PMID:20706219</p> <p>BIM1 and TGFB2 are targeted by MIR200C</p> <p>PMID:22753312</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4fafc5a8-147b-437a-bbc7-27b861d80edf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21224848"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22753312"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3530.2397" y="17763.75"/> <port id="pr_4fafc5a8-147b-437a-bbc7-27b861d80edf_p1" x="3535.2397" y="17753.75"/> <port id="pr_4fafc5a8-147b-437a-bbc7-27b861d80edf_p2" x="3535.2397" y="17783.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d2c945a-e57b-4208-bca5-062c885d8489"> <bbox w="10.0" h="10.0" x="21273.31" y="10933.552"/> <port id="pr_4d2c945a-e57b-4208-bca5-062c885d8489_p1" x="21263.31" y="10938.552"/> <port id="pr_4d2c945a-e57b-4208-bca5-062c885d8489_p2" x="21293.31" y="10938.552"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3bae8cd1-5b7b-4094-9a42-32920cd95f27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21059263</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3bae8cd1-5b7b-4094-9a42-32920cd95f27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21059263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21406.0"/> <port id="pr_3bae8cd1-5b7b-4094-9a42-32920cd95f27_p1" x="26547.56" y="21411.0"/> <port id="pr_3bae8cd1-5b7b-4094-9a42-32920cd95f27_p2" x="26577.56" y="21411.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a53cb0d6-77bb-4e84-b940-6183cdcd0abf"> <bbox w="10.0" h="10.0" x="18696.559" y="12553.83"/> <port id="pr_a53cb0d6-77bb-4e84-b940-6183cdcd0abf_p1" x="18701.559" y="12573.83"/> <port id="pr_a53cb0d6-77bb-4e84-b940-6183cdcd0abf_p2" x="18701.559" y="12543.83"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b69fa626-748e-464e-b826-cf86a76bac94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19498109</p> <p>RIP3, an energy metabolism regulator that switches TNF-induced cell death from apoptosis to necrosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b69fa626-748e-464e-b826-cf86a76bac94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19498109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21356.81" y="9710.0"/> <port id="pr_b69fa626-748e-464e-b826-cf86a76bac94_p1" x="21376.81" y="9715.0"/> <port id="pr_b69fa626-748e-464e-b826-cf86a76bac94_p2" x="21346.81" y="9715.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b562f670-c860-4ea4-bd40-5f714ce077a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12747838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b562f670-c860-4ea4-bd40-5f714ce077a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12747838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15028.561" y="18502.203"/> <port id="pr_b562f670-c860-4ea4-bd40-5f714ce077a6_p1" x="15033.561" y="18492.203"/> <port id="pr_b562f670-c860-4ea4-bd40-5f714ce077a6_p2" x="15033.561" y="18522.203"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8fcd714c-44c2-4dfd-9e6b-1e15bb859e1b"> <bbox w="10.0" h="10.0" x="20629.736" y="15252.75"/> <port id="pr_8fcd714c-44c2-4dfd-9e6b-1e15bb859e1b_p1" x="20634.736" y="15272.75"/> <port id="pr_8fcd714c-44c2-4dfd-9e6b-1e15bb859e1b_p2" x="20634.736" y="15242.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_34bb2d57-8f02-48d2-8ab0-bab5b5ebb570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_34bb2d57-8f02-48d2-8ab0-bab5b5ebb570"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19476.326" y="16174.25"/> <port id="pr_34bb2d57-8f02-48d2-8ab0-bab5b5ebb570_p1" x="19481.326" y="16194.25"/> <port id="pr_34bb2d57-8f02-48d2-8ab0-bab5b5ebb570_p2" x="19481.326" y="16164.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_cf61c741-e9b5-46c8-a465-f536e5fb340b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5747.3994" y="14900.25"/> <port id="pr_cf61c741-e9b5-46c8-a465-f536e5fb340b_p1" x="5752.3994" y="14890.25"/> <port id="pr_cf61c741-e9b5-46c8-a465-f536e5fb340b_p2" x="5752.3994" y="14920.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_584446e2-25e5-4a9f-a077-a558cc47c6e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Cadherin internalization can occur through either clathrin-mediated, caveolin-mediated, or macropinocytosis-like pathways. Internalized cadherin is then sorted either for lysosomal degradation or recycling back to the plasma membrane.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_584446e2-25e5-4a9f-a077-a558cc47c6e1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1690.875" y="13329.0"/> <port id="pr_584446e2-25e5-4a9f-a077-a558cc47c6e1_p1" x="1695.875" y="13319.0"/> <port id="pr_584446e2-25e5-4a9f-a077-a558cc47c6e1_p2" x="1695.875" y="13349.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6241671c-6c91-42d9-af90-751ca86ad181"> <bbox w="10.0" h="10.0" x="26049.06" y="10178.0"/> <port id="pr_6241671c-6c91-42d9-af90-751ca86ad181_p1" x="26054.06" y="10198.0"/> <port id="pr_6241671c-6c91-42d9-af90-751ca86ad181_p2" x="26054.06" y="10168.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ebbe57c-0a07-40d6-aa15-9aa7f3f6631e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11940658</p> <p>in vitro cleavage of BID by m-calpain</p> <p>in human metastatic melanoma cell line, 224, in CASP3 deficient MCF-7 breast carcinoma cells, cleavage of BID by calpains and apoptosis in response to cisplatin</p> <p>use of calpain inhibitors</p> <p>involvment of mu-calpain cannot be ruled out</p> <p>PMID:11404357</p> <p>in rabbit heart mounted onto a Langendorff's perfusion apparatus, upon ischemia/reperfusion, cleavage of BID by calpains</p> <p>in vitro cleavage of BID by recombinant mu-calpain</p> <p>PMID:17264306</p> <p>in human neutrophils, upon bacteria-induced lysosomal permeabilization, BID cleavage and apoptosis are reversed by cathepsin but not caspase inhibition</p> <p>PMID:18469004</p> <p>in different human cell lines (HeLa, MCF-7, SH-SY5Y, HaCaT, CaCo-2,HepG2), upon LeuLeuOMe-induced lysosomal membrane permeabilisation, cleavage of Bid and apoptosis, rescued by E-64d cathepsin inhibitor</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ebbe57c-0a07-40d6-aa15-9aa7f3f6631e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11940658"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11404357"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17264306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18469004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24493.436" y="11505.25"/> <port id="pr_9ebbe57c-0a07-40d6-aa15-9aa7f3f6631e_p1" x="24498.436" y="11525.25"/> <port id="pr_9ebbe57c-0a07-40d6-aa15-9aa7f3f6631e_p2" x="24498.436" y="11495.25"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_89b2b7a1-f17f-4dda-a6fb-ac603a6462c4"> <bbox w="20.0" h="20.0" x="24459.79" y="11409.793"/> <port id="logicglyph_89b2b7a1-f17f-4dda-a6fb-ac603a6462c4_p1" x="24469.79" y="11399.793"/> <port id="logicglyph_89b2b7a1-f17f-4dda-a6fb-ac603a6462c4_p2" x="24469.79" y="11439.793"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bdbfe2c1-1006-42a9-9674-c30b175075ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18265.16" y="11776.324"/> <port id="pr_bdbfe2c1-1006-42a9-9674-c30b175075ac_p1" x="18255.16" y="11781.324"/> <port id="pr_bdbfe2c1-1006-42a9-9674-c30b175075ac_p2" x="18285.16" y="11781.324"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c8976076-fde1-4b70-95cc-5f0cce15976a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997 PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c8976076-fde1-4b70-95cc-5f0cce15976a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20851997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19351822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26932.56" y="22104.502"/> <port id="pr_c8976076-fde1-4b70-95cc-5f0cce15976a_p1" x="26922.56" y="22109.502"/> <port id="pr_c8976076-fde1-4b70-95cc-5f0cce15976a_p2" x="26952.56" y="22109.502"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_9e3565ca-da8b-461c-aba7-ba2928dca565"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5930.75" y="14277.162"/> <port id="pr_9e3565ca-da8b-461c-aba7-ba2928dca565_p1" x="5920.75" y="14282.162"/> <port id="pr_9e3565ca-da8b-461c-aba7-ba2928dca565_p2" x="5950.75" y="14282.162"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_108ca3e7-c5c9-429d-9c96-5b06d9a7376c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12376548</p> <p>NRAGE may act to sequester and inactivate XIAP, leading to a potentiation of caspase-mediated cell death in a promyeloid leukemic cell line</p> <p>PMID:11546791</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_108ca3e7-c5c9-429d-9c96-5b06d9a7376c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12376548"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11546791"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20289.111" y="9293.431"/> <port id="pr_108ca3e7-c5c9-429d-9c96-5b06d9a7376c_p1" x="20279.111" y="9298.431"/> <port id="pr_108ca3e7-c5c9-429d-9c96-5b06d9a7376c_p2" x="20309.111" y="9298.431"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_75f24ba0-2627-49a1-861d-c4e5667e0993"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4277.0" y="16662.75"/> <port id="pr_75f24ba0-2627-49a1-861d-c4e5667e0993_p1" x="4267.0" y="16667.75"/> <port id="pr_75f24ba0-2627-49a1-861d-c4e5667e0993_p2" x="4297.0" y="16667.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_714697d6-e9ff-4b08-a5be-1391008d6237"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29556339</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_714697d6-e9ff-4b08-a5be-1391008d6237"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29556339"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4044.0625" y="11120.25"/> <port id="pr_714697d6-e9ff-4b08-a5be-1391008d6237_p1" x="4049.0625" y="11110.25"/> <port id="pr_714697d6-e9ff-4b08-a5be-1391008d6237_p2" x="4049.0625" y="11140.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_c0582054-f116-4415-843c-d297d5f163be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5641.9336" y="16095.033"/> <port id="pr_c0582054-f116-4415-843c-d297d5f163be_p1" x="5631.9336" y="16100.033"/> <port id="pr_c0582054-f116-4415-843c-d297d5f163be_p2" x="5661.9336" y="16100.033"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e6cfa97c-dd10-4d97-a84c-37833ff93e4c"> <bbox w="10.0" h="10.0" x="20939.06" y="11314.0"/> <port id="pr_e6cfa97c-dd10-4d97-a84c-37833ff93e4c_p1" x="20929.06" y="11319.0"/> <port id="pr_e6cfa97c-dd10-4d97-a84c-37833ff93e4c_p2" x="20959.06" y="11319.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4958b806-17b3-48fb-8ab6-2b595d883be6"> <bbox w="10.0" h="10.0" x="2647.5" y="10261.5"/> <port id="pr_4958b806-17b3-48fb-8ab6-2b595d883be6_p1" x="2652.5" y="10251.5"/> <port id="pr_4958b806-17b3-48fb-8ab6-2b595d883be6_p2" x="2652.5" y="10281.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5a5ab6b1-6016-4d51-9bc2-84a3281933d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Upon activation scaffold proteins serve as platforms in which ERK dimers are assembled forming complexes capable of interacting with and activating cognate cytoplasmic substrates.</p> <p>PMID:18775330</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5a5ab6b1-6016-4d51-9bc2-84a3281933d5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_80535776-f22f-47e7-87eb-44708a3838ab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4682.0" y="12441.5"/> <port id="pr_80535776-f22f-47e7-87eb-44708a3838ab_p1" x="4672.0" y="12446.5"/> <port id="pr_80535776-f22f-47e7-87eb-44708a3838ab_p2" x="4702.0" y="12446.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_592a3c66-389d-480c-bb4d-ccdc1ef8ceb4"> <bbox w="10.0" h="10.0" x="12766.568" y="17947.938"/> <port id="pr_592a3c66-389d-480c-bb4d-ccdc1ef8ceb4_p1" x="12771.568" y="17967.938"/> <port id="pr_592a3c66-389d-480c-bb4d-ccdc1ef8ceb4_p2" x="12771.568" y="17937.938"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b0a78ead-0de1-4351-8f16-320db9942862"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12620219</p> <p>MyD88 mediates a close interaction of the two related IRAK molecules, </p> <p>which is essential to allow IRAK-4 to phosphorylate IRAK-1. Phosphorylation of IRAK-1 </p> <p>reduces its affinity for MyD88, while increasing its affinity for TRAF6</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b0a78ead-0de1-4351-8f16-320db9942862"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12620219"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2105.0" y="1505.0"/> <port id="pr_b0a78ead-0de1-4351-8f16-320db9942862_p1" x="2125.0" y="1510.0"/> <port id="pr_b0a78ead-0de1-4351-8f16-320db9942862_p2" x="2095.0" y="1510.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3282a718-e909-4cb4-b173-620aed5c69f8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:9108473</p> <p>purification of DFFA:DFFB activity from Hela cells cytosol</p> <p>in vitro, CASP3 mediated of DFFA necessary for nucleosomal DNA fragmentation</p> <p>in U937 monocyte cells, in Hela cells, in SV589 human fibroblasts, upon staurosporin, DFFA cleaved into the same fragments as in vitro</p> <p>PMID:9422506</p> <p>purification and cloning of ICAD:CAD (mouse homologs) from mouse T-cell lymphoma cytosol</p> <p>CASP3-mediated cleavage of ICAD releases CAD, leading to activation of its enzymatic activity and its nuclear localization</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3282a718-e909-4cb4-b173-620aed5c69f8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9108473"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9422506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18584.06" y="15668.0"/> <port id="pr_3282a718-e909-4cb4-b173-620aed5c69f8_p1" x="18574.06" y="15673.0"/> <port id="pr_3282a718-e909-4cb4-b173-620aed5c69f8_p2" x="18604.06" y="15673.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fab0fe97-890e-40c1-b014-2dead5c97062"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2939.75" y="17551.2"/> <port id="pr_fab0fe97-890e-40c1-b014-2dead5c97062_p1" x="2959.75" y="17556.2"/> <port id="pr_fab0fe97-890e-40c1-b014-2dead5c97062_p2" x="2929.75" y="17556.2"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a09da2bd-b591-4341-885e-6a8db73ed15b"> <bbox w="10.0" h="10.0" x="12583.03" y="806.25"/> <port id="pr_a09da2bd-b591-4341-885e-6a8db73ed15b_p1" x="12588.03" y="796.25"/> <port id="pr_a09da2bd-b591-4341-885e-6a8db73ed15b_p2" x="12588.03" y="826.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4fd11f75-1bc3-46c6-a208-26398d0ad66e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6106.2666" y="14872.0"/> <port id="pr_4fd11f75-1bc3-46c6-a208-26398d0ad66e_p1" x="6126.2666" y="14877.0"/> <port id="pr_4fd11f75-1bc3-46c6-a208-26398d0ad66e_p2" x="6096.2666" y="14877.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1f0a9512-a4a0-4b3c-b8b8-7ee5a4d69485"> <bbox w="10.0" h="10.0" x="25541.0" y="2615.0"/> <port id="pr_1f0a9512-a4a0-4b3c-b8b8-7ee5a4d69485_p1" x="25546.0" y="2635.0"/> <port id="pr_1f0a9512-a4a0-4b3c-b8b8-7ee5a4d69485_p2" x="25546.0" y="2605.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6b8fbd95-3e0a-4be9-8b97-b4210208e2d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16585195</p> <p>in Hela cells, PGK1 expression upon hypoxia is impaired by siRNA against HIF1</p> <p>PMID:8089148</p> <p>in Hela and HepG3</p> <p>PMID:8702901</p> <p>in mouse hepatoma cell line Hepa1rc_c1c7, but not in an ARNT defective conterpart</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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</glyph> <glyph class="process" orientation="horizontal" id="pr_54c598ad-eb27-4dc9-abaf-edc1a7e2c740"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_54c598ad-eb27-4dc9-abaf-edc1a7e2c740"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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x="23625.0" y="3204.5835"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_209f7e0a-4011-4c2b-83f8-649a8ea7a5f4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19575820</p> <p>PMID:17052453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_209f7e0a-4011-4c2b-83f8-649a8ea7a5f4"> 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id="pr_810b2a6b-d31a-48de-bbc9-6309dac6cbe1_p1" x="10003.27" y="2419.5"/> <port id="pr_810b2a6b-d31a-48de-bbc9-6309dac6cbe1_p2" x="10003.27" y="2389.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d7ecc24f-0f6c-45d7-8e7d-89e3b00e36f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21228116</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d7ecc24f-0f6c-45d7-8e7d-89e3b00e36f7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21228116"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26804.367" y="21367.75"/> <port id="pr_d7ecc24f-0f6c-45d7-8e7d-89e3b00e36f7_p1" x="26809.367" y="21387.75"/> <port id="pr_d7ecc24f-0f6c-45d7-8e7d-89e3b00e36f7_p2" x="26809.367" y="21357.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1cd64108-7ff3-4688-b7d2-b2896e304d76"> <bbox w="10.0" h="10.0" x="995.0" y="2765.0"/> <port id="pr_1cd64108-7ff3-4688-b7d2-b2896e304d76_p1" x="1000.0" y="2755.0"/> <port id="pr_1cd64108-7ff3-4688-b7d2-b2896e304d76_p2" x="1000.0" y="2785.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d9df3c39-a2aa-4584-a65e-9b2a2deab179"> <bbox w="10.0" h="10.0" x="21565.219" y="1645.0"/> <port id="pr_d9df3c39-a2aa-4584-a65e-9b2a2deab179_p1" x="21570.219" y="1635.0"/> <port id="pr_d9df3c39-a2aa-4584-a65e-9b2a2deab179_p2" x="21570.219" y="1665.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4df1d666-9c6c-48c3-ab07-01acb9885cff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19641494</p> <p>RFK in TNF-induced activation of NADPH oxidase</p> <p>PMID:12440767</p> <p>review NADPH oxidases</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4df1d666-9c6c-48c3-ab07-01acb9885cff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19641494"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12440767"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23896.81" y="10586.5"/> <port id="pr_4df1d666-9c6c-48c3-ab07-01acb9885cff_p1" x="23886.81" y="10591.5"/> <port id="pr_4df1d666-9c6c-48c3-ab07-01acb9885cff_p2" x="23916.81" y="10591.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2e2de26f-39f6-4b05-adbc-b572918b7dec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20865015</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2e2de26f-39f6-4b05-adbc-b572918b7dec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20865015"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22563.9" y="15505.77"/> <port id="pr_2e2de26f-39f6-4b05-adbc-b572918b7dec_p1" x="22568.9" y="15495.77"/> <port id="pr_2e2de26f-39f6-4b05-adbc-b572918b7dec_p2" x="22568.9" y="15525.77"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e7fbe84-0cfe-46ea-ab97-b0d1fe524b17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11099414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2e7fbe84-0cfe-46ea-ab97-b0d1fe524b17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11099414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24604.06" y="11444.0"/> <port id="pr_2e7fbe84-0cfe-46ea-ab97-b0d1fe524b17_p1" x="24594.06" y="11449.0"/> <port id="pr_2e7fbe84-0cfe-46ea-ab97-b0d1fe524b17_p2" x="24624.06" y="11449.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1bdb6fad-a962-4933-af76-5c81506cc012"> <bbox w="10.0" h="10.0" x="4167.0" y="6765.0"/> <port id="pr_1bdb6fad-a962-4933-af76-5c81506cc012_p1" x="4172.0" y="6755.0"/> <port id="pr_1bdb6fad-a962-4933-af76-5c81506cc012_p2" x="4172.0" y="6785.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0e93f655-a1c6-4836-b7fb-bd6c90bdc9ac"> <bbox w="10.0" h="10.0" x="20030.56" y="10983.0"/> <port id="pr_0e93f655-a1c6-4836-b7fb-bd6c90bdc9ac_p1" x="20020.56" y="10988.0"/> <port id="pr_0e93f655-a1c6-4836-b7fb-bd6c90bdc9ac_p2" x="20050.56" y="10988.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3fa0c2f4-a6c7-4505-bcef-85d16dfbea07"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22761862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3fa0c2f4-a6c7-4505-bcef-85d16dfbea07"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22503.56" y="21952.0"/> <port id="pr_3fa0c2f4-a6c7-4505-bcef-85d16dfbea07_p1" x="22493.56" y="21957.0"/> <port id="pr_3fa0c2f4-a6c7-4505-bcef-85d16dfbea07_p2" x="22523.56" y="21957.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d7bf2352-192f-4e4f-8894-9a7bc51b5488"> <bbox w="10.0" h="10.0" x="24548.486" y="13843.432"/> <port id="pr_d7bf2352-192f-4e4f-8894-9a7bc51b5488_p1" x="24553.486" y="13833.432"/> <port id="pr_d7bf2352-192f-4e4f-8894-9a7bc51b5488_p2" x="24553.486" y="13863.432"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c41f2e73-5ba4-4bcd-901b-a0a668e026f8"> <bbox w="10.0" h="10.0" x="27174.06" y="14684.0"/> <port id="pr_c41f2e73-5ba4-4bcd-901b-a0a668e026f8_p1" x="27194.06" y="14689.0"/> <port id="pr_c41f2e73-5ba4-4bcd-901b-a0a668e026f8_p2" x="27164.06" y="14689.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a28bd607-0ea4-4437-a56a-33624ddb3689"> <bbox w="10.0" h="10.0" x="19235.06" y="10063.689"/> <port id="pr_a28bd607-0ea4-4437-a56a-33624ddb3689_p1" x="19255.06" y="10068.689"/> <port id="pr_a28bd607-0ea4-4437-a56a-33624ddb3689_p2" x="19225.06" y="10068.689"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1aa6e5ff-071b-4633-bb96-5ffe32ca448c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18762249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1aa6e5ff-071b-4633-bb96-5ffe32ca448c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18762249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17389.06" y="19680.0"/> <port id="pr_1aa6e5ff-071b-4633-bb96-5ffe32ca448c_p1" x="17394.06" y="19670.0"/> <port id="pr_1aa6e5ff-071b-4633-bb96-5ffe32ca448c_p2" x="17394.06" y="19700.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6fa7c31d-2d32-42a2-a2ac-fd05efaab63e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18308511</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6fa7c31d-2d32-42a2-a2ac-fd05efaab63e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18308511"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13493.311" y="18487.5"/> <port id="pr_6fa7c31d-2d32-42a2-a2ac-fd05efaab63e_p1" x="13483.311" y="18492.5"/> <port id="pr_6fa7c31d-2d32-42a2-a2ac-fd05efaab63e_p2" x="13513.311" y="18492.5"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_8878dd94-f008-4827-9b8b-a6378cb0ce10"> <bbox w="20.0" h="20.0" x="13407.394" y="18515.334"/> <port id="logicglyph_8878dd94-f008-4827-9b8b-a6378cb0ce10_p1" x="13397.394" y="18525.334"/> <port id="logicglyph_8878dd94-f008-4827-9b8b-a6378cb0ce10_p2" x="13437.394" y="18525.334"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2c5cbf62-6281-4328-9636-cb2a3e5e6169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21693646</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2c5cbf62-6281-4328-9636-cb2a3e5e6169"> <bqbiol:isEncodedBy> <rdf:Bag> 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</glyph> <glyph class="process" orientation="vertical" id="pr_87b376c0-9edf-45cd-be17-322c611249b5"> <bbox w="10.0" h="10.0" x="15867.311" y="19740.5"/> <port id="pr_87b376c0-9edf-45cd-be17-322c611249b5_p1" x="15872.311" y="19730.5"/> <port id="pr_87b376c0-9edf-45cd-be17-322c611249b5_p2" x="15872.311" y="19760.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_42150f3b-af85-4744-8c15-322d33edf6c4"> <bbox w="10.0" h="10.0" x="5179.0" y="7416.0"/> <port id="pr_42150f3b-af85-4744-8c15-322d33edf6c4_p1" x="5184.0" y="7436.0"/> <port id="pr_42150f3b-af85-4744-8c15-322d33edf6c4_p2" x="5184.0" y="7406.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_166d9525-060c-4eba-bc54-3b46352bcd1e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:17012742</p> <p>Knock down of LIN7 results in loss of expression of PATJ*</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_166d9525-060c-4eba-bc54-3b46352bcd1e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17012742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2872.75" y="14768.962"/> <port id="pr_166d9525-060c-4eba-bc54-3b46352bcd1e_p1" x="2892.75" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK4 and MEK7 can activate all JNK isoforms (by phosphorylation).</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4c9c30cc-28c9-431a-8b29-2606224cb6e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10479.375" y="20105.75"/> <port id="pr_4c9c30cc-28c9-431a-8b29-2606224cb6e2_p1" x="10499.375" y="20110.75"/> <port id="pr_4c9c30cc-28c9-431a-8b29-2606224cb6e2_p2" x="10469.375" y="20110.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_09bf3a90-b731-4b9b-a692-c347e935d9ad"> <bbox w="10.0" h="10.0" x="23975.738" y="2481.25"/> <port id="pr_09bf3a90-b731-4b9b-a692-c347e935d9ad_p1" x="23965.738" y="2486.25"/> <port id="pr_09bf3a90-b731-4b9b-a692-c347e935d9ad_p2" x="23995.738" y="2486.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_aaa1906c-78a3-4f35-b458-60519b954a7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5747.25" y="14576.698"/> <port id="pr_aaa1906c-78a3-4f35-b458-60519b954a7e_p1" x="5737.25" y="14581.698"/> <port id="pr_aaa1906c-78a3-4f35-b458-60519b954a7e_p2" x="5767.25" y="14581.698"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6d91dd6b-8527-4a94-b97e-5609cfaa0d3c"> <bbox w="10.0" h="10.0" x="9332.936" y="18453.164"/> <port id="pr_6d91dd6b-8527-4a94-b97e-5609cfaa0d3c_p1" x="9322.936" y="18458.164"/> <port id="pr_6d91dd6b-8527-4a94-b97e-5609cfaa0d3c_p2" x="9352.936" y="18458.164"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_b4c47e62-cb69-4da9-a959-b369667cc42c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1257.25" y="16159.5"/> <port id="pr_b4c47e62-cb69-4da9-a959-b369667cc42c_p1" x="1262.25" y="16149.5"/> <port id="pr_b4c47e62-cb69-4da9-a959-b369667cc42c_p2" x="1262.25" y="16179.5"/> 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id="pr_b9d1defe-24ff-4458-887c-b73df597e7f1_p1" x="7052.0" y="7249.0"/> <port id="pr_b9d1defe-24ff-4458-887c-b73df597e7f1_p2" x="7022.0" y="7249.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1e25c75-b456-4119-bcc2-cd4eaf0c258a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1100.3811" y="15308.214"/> <port id="pr_f1e25c75-b456-4119-bcc2-cd4eaf0c258a_p1" x="1105.3811" y="15298.214"/> <port id="pr_f1e25c75-b456-4119-bcc2-cd4eaf0c258a_p2" x="1105.3811" y="15328.214"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dff13a91-8aff-4c1d-9297-a4706560a62a"> <bbox w="10.0" h="10.0" x="2600.81" y="21695.75"/> <port id="pr_dff13a91-8aff-4c1d-9297-a4706560a62a_p1" x="2605.81" y="21715.75"/> <port id="pr_dff13a91-8aff-4c1d-9297-a4706560a62a_p2" x="2605.81" y="21685.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_47080d38-c5d0-4ffe-9a1c-2dc45b6d41fb"> <bbox w="10.0" h="10.0" x="4375.0" y="3863.75"/> <port id="pr_47080d38-c5d0-4ffe-9a1c-2dc45b6d41fb_p1" x="4365.0" y="3868.75"/> <port id="pr_47080d38-c5d0-4ffe-9a1c-2dc45b6d41fb_p2" x="4395.0" y="3868.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9d791589-b48e-4665-94c5-bec6d30487b2"> <bbox w="10.0" h="10.0" x="26485.6" y="4827.0"/> <port id="pr_9d791589-b48e-4665-94c5-bec6d30487b2_p1" x="26490.6" y="4817.0"/> <port id="pr_9d791589-b48e-4665-94c5-bec6d30487b2_p2" x="26490.6" y="4847.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ee344496-90ce-4778-8784-253feb30fad1"> <bbox w="10.0" h="10.0" x="29126.326" y="16084.0"/> <port id="pr_ee344496-90ce-4778-8784-253feb30fad1_p1" x="29131.326" y="16104.0"/> <port id="pr_ee344496-90ce-4778-8784-253feb30fad1_p2" x="29131.326" y="16074.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e577fd14-82fc-4570-82a8-05fa5179a7e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19706769</p> <p>in primary foreskin fibroblasts exposed to TNF, G0S2 identified as the most potently induced gene (cDNA microarray). Its expression is confirmed and shown to be abrogated following infection with an Ad-virus encoding an NF-kB super-repressor (RT-PCR).</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e577fd14-82fc-4570-82a8-05fa5179a7e9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19706769"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24360.398" y="16194.91"/> <port 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id="pr_11dcedab-5823-4d33-ab1c-b68a6d8d64d4_p1" x="29946.0" y="4380.0"/> <port id="pr_11dcedab-5823-4d33-ab1c-b68a6d8d64d4_p2" x="29916.0" y="4380.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_48d37500-b54a-49c8-ac50-1ac35a2d1a22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15766528</p> <p>unpublished observation concerning MKP-1/DUSP1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_48d37500-b54a-49c8-ac50-1ac35a2d1a22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15766528"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23094.56" y="11223.0"/> <port id="pr_48d37500-b54a-49c8-ac50-1ac35a2d1a22_p1" x="23084.56" y="11228.0"/> <port id="pr_48d37500-b54a-49c8-ac50-1ac35a2d1a22_p2" x="23114.56" y="11228.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b9c48c32-fe27-4a69-9e3a-2524d3024917"> <bbox w="10.0" h="10.0" x="17649.816" y="18874.5"/> <port id="pr_b9c48c32-fe27-4a69-9e3a-2524d3024917_p1" x="17654.816" y="18894.5"/> <port id="pr_b9c48c32-fe27-4a69-9e3a-2524d3024917_p2" x="17654.816" y="18864.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0c47bd41-6ceb-4d94-908d-012057d34c9b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17472435</p> <p>in human adipocytes and skeletal muscle cells differentiated in vitro, using RNA interference to TXNIP</p> <p>PMID:18458340</p> <p>in HA1ER cells (human embryonic kidney epithelial cells,express hTERT, the early region from simian virus 40, and HA H-RasG12V), knock-down of MondoA induces reduced expression of TXNIP and increased glucose uptake, which is reversed by ectopic expression of TXNIP</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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id="pr_67a66d48-5af7-4181-8d20-2ef12e930713_p1" x="3836.56" y="22180.0"/> <port id="pr_67a66d48-5af7-4181-8d20-2ef12e930713_p2" x="3806.56" y="22180.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f93b159-314c-4bd4-be56-f8617979a3ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1032.7234" y="15867.0"/> <port id="pr_6f93b159-314c-4bd4-be56-f8617979a3ec_p1" x="1037.7234" y="15857.0"/> <port id="pr_6f93b159-314c-4bd4-be56-f8617979a3ec_p2" x="1037.7234" y="15887.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f2e5368c-b17c-41de-932e-2cc1c9e12cc3"> <bbox w="10.0" h="10.0" x="20479.51" y="14372.484"/> <port id="pr_f2e5368c-b17c-41de-932e-2cc1c9e12cc3_p1" x="20484.51" y="14392.484"/> <port 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y="1780.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_72862e0f-ebb4-401f-80d5-ab58b1a0802b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5699.375" y="18143.0"/> <port id="pr_72862e0f-ebb4-401f-80d5-ab58b1a0802b_p1" x="5704.375" y="18163.0"/> <port id="pr_72862e0f-ebb4-401f-80d5-ab58b1a0802b_p2" x="5704.375" y="18133.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b871d7e-2233-44dd-bf07-d6d15df042ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:15901767</p> <p>PMID:20595387</p> </body> </html> </notes> <extension> 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id="pr_3b871d7e-2233-44dd-bf07-d6d15df042ea_p2" x="27999.56" y="22907.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92247257-bf0c-4f5a-84bb-300e542d3b96"> <bbox w="10.0" h="10.0" x="14337.236" y="11277.066"/> <port id="pr_92247257-bf0c-4f5a-84bb-300e542d3b96_p1" x="14342.236" y="11297.066"/> <port id="pr_92247257-bf0c-4f5a-84bb-300e542d3b96_p2" x="14342.236" y="11267.066"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d4704cb7-1c08-4574-8c8d-2cd346433eb4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16647304</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d4704cb7-1c08-4574-8c8d-2cd346433eb4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16647304"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27116.56" y="17674.875"/> <port id="pr_d4704cb7-1c08-4574-8c8d-2cd346433eb4_p1" x="27136.56" y="17679.875"/> <port id="pr_d4704cb7-1c08-4574-8c8d-2cd346433eb4_p2" x="27106.56" y="17679.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a2c5dbd0-ca04-435e-b8b9-631ed9bbbd41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19581926</p> <p>in vitro, SCF FBXO45 complex ubiquitinates TP73</p> <p>in SH-5YSY neuroblastoma cells, FBXO45 mediates proteasome dependent degradation of TP73</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a2c5dbd0-ca04-435e-b8b9-631ed9bbbd41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581926"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" 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orientation="vertical" id="pr_68f0693b-0be2-4a43-84bc-accdd61fa03b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12808044</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_68f0693b-0be2-4a43-84bc-accdd61fa03b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12808044"/> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_60427a4a-06cc-47f7-ab59-ac60254e9894"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10391.641" y="20259.168"/> <port id="pr_60427a4a-06cc-47f7-ab59-ac60254e9894_p1" x="10396.641" y="20249.168"/> <port id="pr_60427a4a-06cc-47f7-ab59-ac60254e9894_p2" x="10396.641" y="20279.168"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0dfd7236-bb98-449a-be43-440bd7b3b090"> <bbox w="10.0" h="10.0" x="26301.0" y="2641.25"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20609352</p> <p>PMID:21053359</p> <p>PMID:22469786</p> <p>PMID:25475733</p> <p>PMID:21811102</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ce213538-ba23-4efb-a144-6f08dc86d243"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20609352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21053359"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22469786"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25475733"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21811102"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5675.583" y="10259.884"/> <port id="pr_ce213538-ba23-4efb-a144-6f08dc86d243_p1" x="5665.583" y="10264.884"/> <port id="pr_ce213538-ba23-4efb-a144-6f08dc86d243_p2" x="5695.583" y="10264.884"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_efa97885-83bb-46fd-b64b-49101cd32c6c"> <bbox w="20.0" h="20.0" x="5808.4214" y="10350.275"/> <port id="logicglyph_efa97885-83bb-46fd-b64b-49101cd32c6c_p1" x="5838.4214" y="10360.275"/> <port id="logicglyph_efa97885-83bb-46fd-b64b-49101cd32c6c_p2" x="5798.4214" y="10360.275"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_9cde3b11-b963-44eb-a911-e028c366bab4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8836113</p> <p>GEFs are essential for CDC42 activation. They promote the exchange of GDP to GTP to generate the activated form of CDC42 capable of recognizing downstram targets.</p> <p>PMID:17145773</p> <p>SPATA13 (Asef2) as a GEF of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9cde3b11-b963-44eb-a911-e028c366bab4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8836113"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145773"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6535.088" y="14394.75"/> <port id="pr_9cde3b11-b963-44eb-a911-e028c366bab4_p1" x="6540.088" y="14384.75"/> <port id="pr_9cde3b11-b963-44eb-a911-e028c366bab4_p2" x="6540.088" y="14414.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_21169414-25e4-4554-82a6-6fa2d56223f6"> <bbox w="10.0" h="10.0" x="24229.111" y="1712.0"/> <port id="pr_21169414-25e4-4554-82a6-6fa2d56223f6_p1" x="24234.111" y="1702.0"/> <port id="pr_21169414-25e4-4554-82a6-6fa2d56223f6_p2" x="24234.111" y="1732.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_fbbc3bb8-1a6c-42c0-87bb-04430957d3d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1111.4463" y="12817.8125"/> <port id="pr_fbbc3bb8-1a6c-42c0-87bb-04430957d3d5_p1" x="1116.4463" y="12807.8125"/> <port id="pr_fbbc3bb8-1a6c-42c0-87bb-04430957d3d5_p2" x="1116.4463" y="12837.8125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_59dd6233-79ba-4c7e-ae8d-34b8438ab0cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20229235 PMID:18077588</p> <p>ANNOTATION:GSK3 phosphorylates first @ S1490 followed by CK1 in the repeat PPSP A</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_59dd6233-79ba-4c7e-ae8d-34b8438ab0cb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21991.56" y="18634.75"/> <port id="pr_59dd6233-79ba-4c7e-ae8d-34b8438ab0cb_p1" x="22011.56" y="18639.75"/> <port id="pr_59dd6233-79ba-4c7e-ae8d-34b8438ab0cb_p2" x="21981.56" y="18639.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba60eb66-122e-45cc-abd0-a4f4636f09d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10816584</p> <p>PMID:17045588</p> <p>CDC42SE1 (SPEC1) binds to CDC42 and supresses CDC42-induced JNK activation and cytoskeleton remodeling.</p> <p>PMID:9113980</p> <p>RhoGDI (so-called ARHGDIA) and GDIG4 (so-called ARHGDIB) are two known GDIs for the Rho-subfamily of GTPases.</p> <p>ARHGDIG is about 50 percent identical to ARHGDIA and ARHGDIB. ARHGFIG binds to CDC42 and RhoA with less affinity compared with ARHGDIA and does not bind with Rac1, Rac2, or Ras.</p> <p>ARHGDIG functions as a GDI for CDC42 but with about 20 times less efficiency than ARHGDIA.</p> <p>PMID:9490022</p> <p>ARHGDIA,B,G are CDC42_GDIs</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ba60eb66-122e-45cc-abd0-a4f4636f09d0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10816584"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17045588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9113980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9490022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6594.125" y="14549.5"/> <port id="pr_ba60eb66-122e-45cc-abd0-a4f4636f09d0_p1" x="6599.125" y="14539.5"/> <port id="pr_ba60eb66-122e-45cc-abd0-a4f4636f09d0_p2" x="6599.125" y="14569.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_08c60cb0-be91-4e54-8751-6904e670969e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21736902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_08c60cb0-be91-4e54-8751-6904e670969e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21736902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15385.686" y="18492.389"/> <port id="pr_08c60cb0-be91-4e54-8751-6904e670969e_p1" x="15375.686" y="18497.389"/> <port id="pr_08c60cb0-be91-4e54-8751-6904e670969e_p2" x="15405.686" y="18497.389"/> </glyph> <glyph class="process" orientation="vertical" id="pr_242f4231-7584-4019-a098-6f7095ffae9d"> <bbox w="10.0" h="10.0" x="15810.928" y="18653.707"/> <port id="pr_242f4231-7584-4019-a098-6f7095ffae9d_p1" x="15815.928" y="18673.707"/> <port id="pr_242f4231-7584-4019-a098-6f7095ffae9d_p2" x="15815.928" y="18643.707"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b7e9dac-9ad5-4cbd-98e1-bb4d177af699"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15501236</p> <p>VEGFR2 and aVb3 were observed to co-associate after stimulation with either L1 (Ig6 domain) or VEGFA (isoform of 165 amino acids)</p> <p>VEGFR2 was tyrosine phosphorylated after stimulation with L1 (via Ig6 domain), even in the absence of exogenous VEGFA ( (isoform of 165 amino acids), indicating close cooperation between VEGFR2 and aVb3</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> 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orientation="vertical" id="pr_9efae3d0-c142-49cf-baff-4e1cd5bd0b81"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2101.21" y="16828.5"/> <port id="pr_9efae3d0-c142-49cf-baff-4e1cd5bd0b81_p1" x="2106.21" y="16848.5"/> <port id="pr_9efae3d0-c142-49cf-baff-4e1cd5bd0b81_p2" x="2106.21" y="16818.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e7717a9a-bebb-4337-885c-e16a00301119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15205477</p> <p>in 293T cells Sirt1 attenuates BAX mediated apoptosis by deacetylating Ku70</p> <p>identification of acetylation sites on Ku70 by use of synthetic acetylated peptides</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e7717a9a-bebb-4337-885c-e16a00301119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15205477"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18446.56" y="16299.0"/> <port id="pr_e7717a9a-bebb-4337-885c-e16a00301119_p1" x="18451.56" y="16319.0"/> <port id="pr_e7717a9a-bebb-4337-885c-e16a00301119_p2" x="18451.56" y="16289.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0da349e5-a833-4f11-80e7-3c82edc0bdac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6406.65" y="14278.99"/> <port id="pr_0da349e5-a833-4f11-80e7-3c82edc0bdac_p1" x="6396.65" y="14283.99"/> <port id="pr_0da349e5-a833-4f11-80e7-3c82edc0bdac_p2" x="6426.65" y="14283.99"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8b75722-98b0-46b0-a919-d312dc67aeb7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17283082</p> <p>PMID:19147008</p> <p>GLI2 ompletely degraded no truncated form present</p> 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orientation="horizontal" id="pr_cd9ee03b-ac27-4b27-8d7c-c283f7f6c8f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16678097</p> <p>ARHGAP17 as a GAP of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cd9ee03b-ac27-4b27-8d7c-c283f7f6c8f3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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activating cognate cytoplasmic substrates.</p> <p>Beta-ARRESTIN prevents the translocation of ERK into the nucleus thereby reducing phosphorylation of nuclear substrates and consequently MODULE:MAPK-dependent gene expression.</p> <p>PMID:18775330 PMID:19091303</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3b05def4-3e9b-4583-b2a3-56b289861ff6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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significantly increased in high ETS-1 expression cells. </p> <p>Low ETS-1 expression cells could not spread on a vitronectin substratum, and the phosphorylation of focal adhesion kinase was markedly impaired because of the reduced expression of integrin b3</p> <p>PMID:15003528 </p> <p>NF-kappaB binds to a polymorphic repressor element in the MMP-3 promoter.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>PMID:16702231</p> <p>WAVE2 (so-called WASF2) activates the ARP2/3 complex for Rac-induced actin polymerization during lamellipodium formation</p> <p>PMID:9843499</p> <p>WASF (WAVE) as regulator of actin reorganization downstream of Rac.</p> <p>Expressed WAVE induces the formation of actin filament clusters.</p> <p>WAVE plays a critical role downstream of Rac in regulating the actin cytoskeleton required for mem- brane rufflin</p> <p>PMID:12054568</p> <p>WAVE2 serves a functional partner of IRSp53 by regulating its interaction with Rac.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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class="process" orientation="horizontal" id="pr_f7c8e163-75e3-4aa6-8373-7ec1cca4f5e0"> <bbox w="10.0" h="10.0" x="25915.057" y="13560.194"/> <port id="pr_f7c8e163-75e3-4aa6-8373-7ec1cca4f5e0_p1" x="25935.057" y="13565.194"/> <port id="pr_f7c8e163-75e3-4aa6-8373-7ec1cca4f5e0_p2" x="25905.057" y="13565.194"/> </glyph> <glyph class="process" orientation="vertical" id="pr_52e4aa66-5255-48d1-81a2-267f1bea9c31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="28349.06" y="10444.0"/> <port id="pr_52e4aa66-5255-48d1-81a2-267f1bea9c31_p1" x="28354.06" y="10434.0"/> <port id="pr_52e4aa66-5255-48d1-81a2-267f1bea9c31_p2" x="28354.06" y="10464.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3f33c43-a64c-4afb-9e1f-f5883c90690c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19465923</p> <p>in the absence of Shh, Ptc recruits a protein complex that includes DRAL, one of the caspase recruitment (CARD)-domain containing proteins TUCAN (family member, 8) or NALP1 (NLR family, pyrin domain containing 1) and apical caspase-9</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3f33c43-a64c-4afb-9e1f-f5883c90690c"> <bqbiol:isEncodedBy> 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orientation="vertical" id="pr_aaeaeee1-d88e-4567-b2ac-81501b3d678d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re333_rc_s2093=FALSE</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25999.666" y="10823.5"/> <port id="pr_aaeaeee1-d88e-4567-b2ac-81501b3d678d_p1" x="26004.666" y="10843.5"/> <port id="pr_aaeaeee1-d88e-4567-b2ac-81501b3d678d_p2" x="26004.666" y="10813.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9c77abff-f13a-4e6f-b4d2-fb7947d637fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17662023</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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h="10.0" x="16020.5" y="6045.5645"/> <port id="pr_cc56d46e-1141-43cf-a82e-2d3e9bceb58e_p1" x="16040.5" y="6050.5645"/> <port id="pr_cc56d46e-1141-43cf-a82e-2d3e9bceb58e_p2" x="16010.5" y="6050.5645"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_783301db-3d36-4c95-a47d-6ac9bb257936"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1260.4199" y="15407.0"/> <port id="pr_783301db-3d36-4c95-a47d-6ac9bb257936_p1" x="1265.4199" y="15397.0"/> <port id="pr_783301db-3d36-4c95-a47d-6ac9bb257936_p2" x="1265.4199" y="15427.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_055c1013-bf17-4bdc-8996-20438527248f"> <bbox w="10.0" h="10.0" x="28961.0" y="8051.25"/> <port id="pr_055c1013-bf17-4bdc-8996-20438527248f_p1" x="28966.0" y="8041.25"/> <port id="pr_055c1013-bf17-4bdc-8996-20438527248f_p2" x="28966.0" y="8071.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4fa8074e-c7c6-41f5-bad7-bf01bab393ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20016067</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4788.5703" y="18638.688"/> <port id="pr_7d4ed201-9728-41a1-8699-2ab70f6d4dfb_p1" x="4808.5703" y="18643.688"/> <port id="pr_7d4ed201-9728-41a1-8699-2ab70f6d4dfb_p2" x="4778.5703" y="18643.688"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f47ce30-2c30-4839-9430-30bf4bd758cb"> <bbox w="10.0" h="10.0" x="22085.936" y="12664.375"/> <port id="pr_5f47ce30-2c30-4839-9430-30bf4bd758cb_p1" x="22090.936" y="12654.375"/> <port id="pr_5f47ce30-2c30-4839-9430-30bf4bd758cb_p2" x="22090.936" y="12684.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4b9f88ab-d18a-4167-99b4-ce3da4cf3a23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15526030</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4b9f88ab-d18a-4167-99b4-ce3da4cf3a23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15526030"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18607.56" y="21527.5"/> <port id="pr_4b9f88ab-d18a-4167-99b4-ce3da4cf3a23_p1" x="18597.56" y="21532.5"/> <port id="pr_4b9f88ab-d18a-4167-99b4-ce3da4cf3a23_p2" x="18627.56" y="21532.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_81731ce7-6e53-47ad-a935-56272758494a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21498506 PMID:17925382</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_81731ce7-6e53-47ad-a935-56272758494a"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16540666</p> <p>PMID:22825514</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_866770ec-5086-4760-88f1-e059a3ac6a48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16540666"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22825514"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5495.667" y="8973.5"/> <port id="pr_866770ec-5086-4760-88f1-e059a3ac6a48_p1" x="5515.667" y="8978.5"/> <port id="pr_866770ec-5086-4760-88f1-e059a3ac6a48_p2" x="5485.667" y="8978.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d33a37f3-bf92-40a1-ab27-302742e9696d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4248.1055" y="17985.125"/> <port id="pr_d33a37f3-bf92-40a1-ab27-302742e9696d_p1" x="4253.1055" y="17975.125"/> <port id="pr_d33a37f3-bf92-40a1-ab27-302742e9696d_p2" x="4253.1055" y="18005.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_03563684-a4f9-4aec-ae55-c3b55ef25f03"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23301705</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03563684-a4f9-4aec-ae55-c3b55ef25f03"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23301705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26295.36" y="13767.291"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4388.304" y="14601.73"/> <port id="pr_baf4dbf1-27ce-4abe-ba4e-30aaf6c49cd9_p1" x="4408.304" y="14606.73"/> <port id="pr_baf4dbf1-27ce-4abe-ba4e-30aaf6c49cd9_p2" x="4378.304" y="14606.73"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b7c53a3f-b80a-46df-9b68-485231719341"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b7c53a3f-b80a-46df-9b68-485231719341"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12107820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8726.061" y="19402.5"/> <port id="pr_b7c53a3f-b80a-46df-9b68-485231719341_p1" x="8731.061" y="19422.5"/> <port id="pr_b7c53a3f-b80a-46df-9b68-485231719341_p2" x="8731.061" y="19392.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_149f79ec-7457-4afe-b69b-4652cbf11342"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12931191</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_149f79ec-7457-4afe-b69b-4652cbf11342"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12931191"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21869.06" y="12936.0"/> <port id="pr_149f79ec-7457-4afe-b69b-4652cbf11342_p1" x="21859.06" y="12941.0"/> <port id="pr_149f79ec-7457-4afe-b69b-4652cbf11342_p2" x="21889.06" y="12941.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4ad087a8-6435-4a3b-b87c-d9c2e68e9170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> <p>PMID:19945467</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4a26b02e-bc6d-4348-b3f5-2f535f580646"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3369.0" y="10299.0"/> <port id="pr_4a26b02e-bc6d-4348-b3f5-2f535f580646_p1" x="3374.0" y="10319.0"/> <port id="pr_4a26b02e-bc6d-4348-b3f5-2f535f580646_p2" x="3374.0" y="10289.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6eb8e137-84d9-4857-b6c4-21462b0dfd41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>DNA with O6-methylguanine adducts, MutSalpha and MutLalpha activate ATR/ATRIP and BER pathways performs the repair:</p> <p>PMID:16713580, PMID:18543256</p> <p>Damaged DNA triggers ATR/ATRIP complex activation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6eb8e137-84d9-4857-b6c4-21462b0dfd41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713580"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18543256"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12402.123" y="11823.684"/> <port id="pr_6eb8e137-84d9-4857-b6c4-21462b0dfd41_p1" x="12407.123" y="11843.684"/> <port id="pr_6eb8e137-84d9-4857-b6c4-21462b0dfd41_p2" x="12407.123" y="11813.684"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_b4088b15-ddc4-4193-adee-50287aa65e2c"> <bbox w="20.0" h="20.0" x="11539.695" y="14827.648"/> <port id="logicglyph_b4088b15-ddc4-4193-adee-50287aa65e2c_p1" x="11549.695" y="14857.648"/> <port id="logicglyph_b4088b15-ddc4-4193-adee-50287aa65e2c_p2" x="11549.695" y="14817.648"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9e28d832-1aa5-4365-a711-8e326474cf15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5039.75" y="14558.5"/> <port id="pr_9e28d832-1aa5-4365-a711-8e326474cf15_p1" x="5044.75" y="14548.5"/> <port id="pr_9e28d832-1aa5-4365-a711-8e326474cf15_p2" x="5044.75" y="14578.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60ef681b-8072-455c-9656-5413ac5972ff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>HSP27 blocked Fas-induced translocation of Daxx from the nucleus to the cytoplasm and Fas-induced Daxx- and Ask1-dependent apoptosis</p> <p>PMID:11003656</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_60ef681b-8072-455c-9656-5413ac5972ff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11003656"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25588.81" y="13221.0"/> <port id="pr_60ef681b-8072-455c-9656-5413ac5972ff_p1" x="25593.81" y="13241.0"/> <port id="pr_60ef681b-8072-455c-9656-5413ac5972ff_p2" x="25593.81" y="13211.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ccc2b47b-d230-4f89-8da6-ead147e53764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> <p>PMID:17409395</p> <p>PMID:24696260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ccc2b47b-d230-4f89-8da6-ead147e53764"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24696260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2918.25" y="10222.75"/> <port id="pr_ccc2b47b-d230-4f89-8da6-ead147e53764_p1" x="2923.25" y="10242.75"/> <port id="pr_ccc2b47b-d230-4f89-8da6-ead147e53764_p2" x="2923.25" y="10212.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b9b1c377-3cd0-47ce-98ad-6193faf1712f"> <bbox w="10.0" h="10.0" x="25844.56" y="11843.91"/> <port id="pr_b9b1c377-3cd0-47ce-98ad-6193faf1712f_p1" x="25864.56" y="11848.91"/> <port id="pr_b9b1c377-3cd0-47ce-98ad-6193faf1712f_p2" x="25834.56" y="11848.91"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7ed35680-6295-4014-a2d3-fe367d36d9a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MLK3 and MLK2 two MAP3Ks of JNK pathway can interact with RAC1 in a GTP-dependent manner.</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways.</p> <p>TAO kinases are novel MAP3Ks that specifically regulate P38s.</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>MEKK1 selectively activates the endogenous JNK pathway. MEKK1 can activate MEK4 and MEK7 in vivo.</p> <p>MEKK4 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> <p>MLK3 has the potential to positively regulate the ERK/MODULE:MAPK pathway by directly phosphorylating and activating MEK.</p> <p>Expression of GADD45 genes in mammalian cells strongly activates co-expressed MTK1 as well as P38 and JNK the MAPKs downstream of MTK1. TAO kinases are MAP3Ks that function upstream of P38 and JNK.</p> <p>PMID:11274345 PMID:12738796 PMID:18855897 PMID:21614932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7ed35680-6295-4014-a2d3-fe367d36d9a8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12738796"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18855897"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10290.091" y="20003.85"/> <port id="pr_7ed35680-6295-4014-a2d3-fe367d36d9a8_p1" x="10280.091" y="20008.85"/> <port id="pr_7ed35680-6295-4014-a2d3-fe367d36d9a8_p2" x="10310.091" y="20008.85"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_199496cd-88e6-44bf-b3bf-78c9704a0ea4"> <bbox w="10.0" h="10.0" x="18981.277" y="11375.398"/> <port id="pr_199496cd-88e6-44bf-b3bf-78c9704a0ea4_p1" x="19001.277" y="11380.398"/> <port id="pr_199496cd-88e6-44bf-b3bf-78c9704a0ea4_p2" x="18971.277" y="11380.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5a9b154d-8e72-4edf-a70a-c2bdcfbc7c05"> <bbox w="10.0" h="10.0" x="21185.967" y="21987.32"/> <port id="pr_5a9b154d-8e72-4edf-a70a-c2bdcfbc7c05_p1" x="21175.967" y="21992.32"/> <port id="pr_5a9b154d-8e72-4edf-a70a-c2bdcfbc7c05_p2" x="21205.967" y="21992.32"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_704d1ae9-3fc3-4e9f-83bd-c04a7b7b9468"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6781.0" y="17300.352"/> <port id="pr_704d1ae9-3fc3-4e9f-83bd-c04a7b7b9468_p1" x="6801.0" y="17305.352"/> <port id="pr_704d1ae9-3fc3-4e9f-83bd-c04a7b7b9468_p2" x="6771.0" y="17305.352"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2a502893-a785-447b-8ce3-f6781ec573e4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3706.25" y="14519.0"/> <port id="pr_2a502893-a785-447b-8ce3-f6781ec573e4_p1" x="3726.25" y="14524.0"/> <port id="pr_2a502893-a785-447b-8ce3-f6781ec573e4_p2" x="3696.25" y="14524.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_119170c6-10fb-4bec-8150-af775ee11825"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3583.0" y="13978.5"/> <port id="pr_119170c6-10fb-4bec-8150-af775ee11825_p1" x="3603.0" y="13983.5"/> <port id="pr_119170c6-10fb-4bec-8150-af775ee11825_p2" x="3573.0" y="13983.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5612f0fe-8c50-4d48-89b4-1f420d010e75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>We postulate a model in which ERK activation inhibits GSK3 activity (by phosphorylation) its association to CYPD and CYPD phosphorylation (by GSK3) leading to PTP desensitisation.</p> <p>PMID:20080742</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5612f0fe-8c50-4d48-89b4-1f420d010e75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20080742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8652.311" y="19565.75"/> <port id="pr_5612f0fe-8c50-4d48-89b4-1f420d010e75_p1" x="8657.311" y="19555.75"/> <port id="pr_5612f0fe-8c50-4d48-89b4-1f420d010e75_p2" x="8657.311" y="19585.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6940c1a2-b7bd-4879-a343-e0294f053a7f"> <bbox w="10.0" h="10.0" x="23625.06" y="21233.0"/> <port id="pr_6940c1a2-b7bd-4879-a343-e0294f053a7f_p1" x="23615.06" y="21238.0"/> <port id="pr_6940c1a2-b7bd-4879-a343-e0294f053a7f_p2" x="23645.06" y="21238.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4b50c2a0-9747-4396-babf-980605a7fdb5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ATR phosphorylates XPA and activates NER during S-phase in response to damaged DNA, but not during other cc phases:</p> <p>PMID:16540648, PMID:19004803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1b880483-75c8-4146-ba51-c64af0e07443"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16540648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19004803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8404.951" y="15697.639"/> <port id="pr_1b880483-75c8-4146-ba51-c64af0e07443_p1" x="8409.951" y="15687.639"/> <port id="pr_1b880483-75c8-4146-ba51-c64af0e07443_p2" x="8409.951" y="15717.639"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_bea7b871-1f08-4375-9cf4-1082d0ce7e89"> <bbox w="20.0" h="20.0" x="10631.311" y="13971.936"/> <port id="logicglyph_bea7b871-1f08-4375-9cf4-1082d0ce7e89_p1" x="10661.311" y="13981.936"/> <port id="logicglyph_bea7b871-1f08-4375-9cf4-1082d0ce7e89_p2" x="10621.311" y="13981.936"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99d25e95-8ae0-4427-ae22-65fec5f188fe"> <bbox w="10.0" h="10.0" x="11408.598" y="15923.991"/> <port id="pr_99d25e95-8ae0-4427-ae22-65fec5f188fe_p1" x="11413.598" y="15943.991"/> <port id="pr_99d25e95-8ae0-4427-ae22-65fec5f188fe_p2" x="11413.598" y="15913.991"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c0a130a8-b4c6-4337-978a-3b7598658ad1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10102273</p> <p>in 293T, EMSA</p> <p>in CCL23 chinese hamster lung fibroblast cell line, gene reporter</p> <p>in cerebellar granule neurones and CCL23 cells, non phosphorylatable FOXO induces apoptosis that is blocked by a Fas decoy receptor</p> <p>in Jurkat, non phosphorylatable FOXO induces apoptosis that is blocked by FAS or FADD mutations</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c0a130a8-b4c6-4337-978a-3b7598658ad1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10102273"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22199.324" y="16197.363"/> <port id="pr_c0a130a8-b4c6-4337-978a-3b7598658ad1_p1" x="22204.324" y="16217.363"/> <port id="pr_c0a130a8-b4c6-4337-978a-3b7598658ad1_p2" x="22204.324" y="16187.363"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1cff57e8-f4e0-4946-9a30-eea0346ee1fa"> <bbox w="10.0" h="10.0" x="22335.0" y="7880.0"/> <port id="pr_1cff57e8-f4e0-4946-9a30-eea0346ee1fa_p1" x="22340.0" y="7870.0"/> <port id="pr_1cff57e8-f4e0-4946-9a30-eea0346ee1fa_p2" x="22340.0" y="7900.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_61e0b779-78c1-49b2-8972-6d56df492acc"> <bbox w="10.0" h="10.0" x="3572.5" y="4052.3442"/> <port id="pr_61e0b779-78c1-49b2-8972-6d56df492acc_p1" x="3562.5" y="4057.3442"/> <port id="pr_61e0b779-78c1-49b2-8972-6d56df492acc_p2" x="3592.5" y="4057.3442"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_28c5b389-fdfb-482c-9c95-9276798cb5e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11972333</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_28c5b389-fdfb-482c-9c95-9276798cb5e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11972333"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9703.434" y="15890.802"/> <port id="pr_28c5b389-fdfb-482c-9c95-9276798cb5e2_p1" x="9693.434" y="15895.802"/> <port id="pr_28c5b389-fdfb-482c-9c95-9276798cb5e2_p2" x="9723.434" y="15895.802"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1a39cf10-dfca-4a4b-b470-70e09d27a3ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:25234227</p> <p>Dynamin 2 act on the actin cytoskeleton by:</p> <p>- Promoting membrane remodeling and endocytosis of cell receptor thanks to NDPKA (NME1) and NDPKB (NME2)</p> <p>DNM2 induces E-cadherin internalisation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1a39cf10-dfca-4a4b-b470-70e09d27a3ea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5322.75" y="18811.5"/> <port id="pr_5032b591-7c82-4350-9510-e1a7ea053734_p1" x="5327.75" y="18801.5"/> <port id="pr_5032b591-7c82-4350-9510-e1a7ea053734_p2" x="5327.75" y="18831.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ef1aff2-d71e-4ba4-8f85-7893c60b6455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:11978007</p> <p>Cx32 Formation and / or Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:19284610</p> <p>Cx32, colocalizes with tight junction proteins ZO-1 and ZO-2 in rat hepatocytes, and small gap junction plaques were found within tight junction strands.</p> <p>It was suggested that Cx32 can participate in the formation of functional tight junctions and in actin organization.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ef1aff2-d71e-4ba4-8f85-7893c60b6455"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11978007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19284610"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1546.4" y="18019.5"/> <port id="pr_2ef1aff2-d71e-4ba4-8f85-7893c60b6455_p1" x="1551.4" y="18009.5"/> <port id="pr_2ef1aff2-d71e-4ba4-8f85-7893c60b6455_p2" x="1551.4" y="18039.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_997c0378-b08e-48e7-a1de-cbfb2dc4e701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15537542</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_997c0378-b08e-48e7-a1de-cbfb2dc4e701"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15537542"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25604.06" y="16279.0"/> <port id="pr_997c0378-b08e-48e7-a1de-cbfb2dc4e701_p1" x="25609.06" y="16299.0"/> <port id="pr_997c0378-b08e-48e7-a1de-cbfb2dc4e701_p2" x="25609.06" y="16269.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_55e938e6-9a87-43eb-ab67-136d397ab77f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> 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x="18709.936" y="19127.75"/> <port id="pr_f1d1cb50-a36b-4584-b9ad-bebc7c2f2502_p1" x="18714.936" y="19117.75"/> <port id="pr_f1d1cb50-a36b-4584-b9ad-bebc7c2f2502_p2" x="18714.936" y="19147.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_85994f72-72ad-4236-878e-24953681654e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1703.3083" y="16357.0"/> <port id="pr_85994f72-72ad-4236-878e-24953681654e_p1" x="1708.3083" y="16377.0"/> <port id="pr_85994f72-72ad-4236-878e-24953681654e_p2" x="1708.3083" y="16347.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d5d1b58-541b-460d-a8ac-4c623ddff203"> <bbox w="10.0" h="10.0" x="12205.0" y="6701.25"/> <port id="pr_5d5d1b58-541b-460d-a8ac-4c623ddff203_p1" x="12210.0" y="6691.25"/> <port id="pr_5d5d1b58-541b-460d-a8ac-4c623ddff203_p2" x="12210.0" y="6721.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_283b0b3e-f16d-4c45-b40d-a6e76c2b33ec"> <bbox w="10.0" h="10.0" x="12540.043" y="4475.0"/> <port id="pr_283b0b3e-f16d-4c45-b40d-a6e76c2b33ec_p1" x="12545.043" y="4465.0"/> <port id="pr_283b0b3e-f16d-4c45-b40d-a6e76c2b33ec_p2" x="12545.043" y="4495.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4e1b637e-903f-4b02-ba42-be244b37228d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19705439 PMID:17426148</p> <p>Beta-ARRESTIN binds to phosphorylated DVL</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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id="pr_a7f32300-8aeb-476a-b577-e23a752f7955"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a7f32300-8aeb-476a-b577-e23a752f7955"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:XIAP"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27387.03" y="15754.625"/> <port id="pr_a7f32300-8aeb-476a-b577-e23a752f7955_p1" x="27392.03" y="15774.625"/> <port id="pr_a7f32300-8aeb-476a-b577-e23a752f7955_p2" x="27392.03" y="15744.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d0b7322-cf78-4d75-bdcd-2734508b6169"> <bbox w="10.0" h="10.0" x="15326.311" y="20755.75"/> <port id="pr_3d0b7322-cf78-4d75-bdcd-2734508b6169_p1" x="15331.311" y="20745.75"/> <port id="pr_3d0b7322-cf78-4d75-bdcd-2734508b6169_p2" x="15331.311" y="20775.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_568d5bff-16fe-43c7-bcb9-3ddb9c0ac770"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>CRB3/PALS1*</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:8365569</p> <p>PMID:18005931</p> <p>PMID:11740559</p> <p>PMID:11740560</p> <p>CRB3 and PALS1* in the same pathway</p> <p>PALS1* binds to CRB3 via its PDZ domain</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation 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id="pr_0c173dae-43f2-424c-8da9-4e05e0eee3c6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15102937</p> <p>in Hela</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0c173dae-43f2-424c-8da9-4e05e0eee3c6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15102937"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_245eb393-c4ba-4a68-a740-f938ec04eaa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20851997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19351822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26932.56" y="22087.986"/> <port id="pr_245eb393-c4ba-4a68-a740-f938ec04eaa6_p1" x="26922.56" y="22092.986"/> <port id="pr_245eb393-c4ba-4a68-a740-f938ec04eaa6_p2" x="26952.56" y="22092.986"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fdbb29ea-7cdb-495e-a790-df40389da044"> <bbox w="10.0" h="10.0" x="21051.799" y="15931.186"/> <port id="pr_fdbb29ea-7cdb-495e-a790-df40389da044_p1" x="21056.799" y="15951.186"/> <port id="pr_fdbb29ea-7cdb-495e-a790-df40389da044_p2" x="21056.799" y="15921.186"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1cb64b99-4fdd-41ae-8f0d-18b7d65699e9"> <bbox w="10.0" h="10.0" x="29059.06" y="10234.0"/> <port id="pr_1cb64b99-4fdd-41ae-8f0d-18b7d65699e9_p1" x="29049.06" y="10239.0"/> <port id="pr_1cb64b99-4fdd-41ae-8f0d-18b7d65699e9_p2" x="29079.06" y="10239.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f57376a8-5f0b-4cc0-8b7e-439c9f0846bd"> <bbox w="10.0" h="10.0" x="14299.5" y="4435.024"/> <port id="pr_f57376a8-5f0b-4cc0-8b7e-439c9f0846bd_p1" x="14289.5" y="4440.024"/> <port id="pr_f57376a8-5f0b-4cc0-8b7e-439c9f0846bd_p2" x="14319.5" y="4440.024"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ba0bbd5-b68b-41b5-be5f-dbac9e8e8148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ba0bbd5-b68b-41b5-be5f-dbac9e8e8148"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3119.0" y="10090.5"/> <port id="pr_9ba0bbd5-b68b-41b5-be5f-dbac9e8e8148_p1" x="3124.0" y="10080.5"/> <port id="pr_9ba0bbd5-b68b-41b5-be5f-dbac9e8e8148_p2" x="3124.0" y="10110.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2b3936b2-1af7-4061-b39b-e79c8172664b"> <bbox w="10.0" h="10.0" x="20415.0" y="455.0"/> <port id="pr_2b3936b2-1af7-4061-b39b-e79c8172664b_p1" x="20420.0" y="445.0"/> <port id="pr_2b3936b2-1af7-4061-b39b-e79c8172664b_p2" x="20420.0" y="475.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fea951d5-9e86-4155-8f9e-0dee3ce3a006"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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w="10.0" h="10.0" x="5217.125" y="6315.5"/> <port id="pr_d75295b9-37ea-4ee1-92e1-01bdee710ef0_p1" x="5222.125" y="6305.5"/> <port id="pr_d75295b9-37ea-4ee1-92e1-01bdee710ef0_p2" x="5222.125" y="6335.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_10d3aa60-6918-4430-9301-21ac2be7c790"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5545.54" y="14907.25"/> <port id="pr_10d3aa60-6918-4430-9301-21ac2be7c790_p1" x="5550.54" y="14897.25"/> <port id="pr_10d3aa60-6918-4430-9301-21ac2be7c790_p2" x="5550.54" y="14927.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0612df0b-e55d-4e5d-85b0-240ad6b5f324"> <bbox w="10.0" h="10.0" x="9700.0" y="2300.0"/> <port id="pr_0612df0b-e55d-4e5d-85b0-240ad6b5f324_p1" x="9705.0" y="2320.0"/> <port id="pr_0612df0b-e55d-4e5d-85b0-240ad6b5f324_p2" x="9705.0" y="2290.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_66720312-9967-4d60-aab9-d932b8a4ff1c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Association of LGR5 w/ Wnt-receptors leads to synergistic TOPFLASH reporter activity</p> <p>PMID:21727895</p> <p>LGR5 antagonises Wnt signalling</p> <p>PMID:21829496</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_66720312-9967-4d60-aab9-d932b8a4ff1c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21727895"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21829496"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16299.561" y="17906.25"/> <port id="pr_66720312-9967-4d60-aab9-d932b8a4ff1c_p1" x="16304.561" y="17896.25"/> <port id="pr_66720312-9967-4d60-aab9-d932b8a4ff1c_p2" x="16304.561" y="17926.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd9a13d2-8f0c-45c6-a2c1-d12c47c0455d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3169.5" y="16373.561"/> <port id="pr_bd9a13d2-8f0c-45c6-a2c1-d12c47c0455d_p1" x="3189.5" y="16378.561"/> <port id="pr_bd9a13d2-8f0c-45c6-a2c1-d12c47c0455d_p2" x="3159.5" y="16378.561"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f1769a4-d400-40ce-83ec-1b2342b3ee4a"> <bbox w="10.0" h="10.0" x="23403.586" y="16580.25"/> <port id="pr_5f1769a4-d400-40ce-83ec-1b2342b3ee4a_p1" x="23408.586" y="16570.25"/> <port id="pr_5f1769a4-d400-40ce-83ec-1b2342b3ee4a_p2" x="23408.586" y="16600.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_9a8724be-472e-4b21-bb27-1b54065dd8ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1868.3943" y="15953.5"/> <port id="pr_9a8724be-472e-4b21-bb27-1b54065dd8ed_p1" x="1873.3943" y="15973.5"/> <port id="pr_9a8724be-472e-4b21-bb27-1b54065dd8ed_p2" x="1873.3943" y="15943.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a103ac75-7747-4cd9-8833-488016b64977"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24814.336" y="13344.285"/> <port id="pr_a103ac75-7747-4cd9-8833-488016b64977_p1" x="24819.336" y="13334.285"/> <port id="pr_a103ac75-7747-4cd9-8833-488016b64977_p2" x="24819.336" y="13364.285"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8313374f-42fe-473e-8480-2809f73764b7"> <bbox w="10.0" h="10.0" x="24049.25" y="2787.3125"/> <port id="pr_8313374f-42fe-473e-8480-2809f73764b7_p1" x="24069.25" y="2792.3125"/> <port id="pr_8313374f-42fe-473e-8480-2809f73764b7_p2" x="24039.25" y="2792.3125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5f5ad2f3-3c37-49f4-a19c-af7998909089"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1890.5" y="16471.0"/> <port id="pr_5f5ad2f3-3c37-49f4-a19c-af7998909089_p1" x="1910.5" y="16476.0"/> <port id="pr_5f5ad2f3-3c37-49f4-a19c-af7998909089_p2" x="1880.5" y="16476.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd3ddb9c-6400-4e3a-86ad-cb584ab54e66"> <bbox w="10.0" h="10.0" x="29143.5" y="5563.788"/> <port id="pr_fd3ddb9c-6400-4e3a-86ad-cb584ab54e66_p1" x="29133.5" y="5568.788"/> <port id="pr_fd3ddb9c-6400-4e3a-86ad-cb584ab54e66_p2" x="29163.5" y="5568.788"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_495cb61c-22ab-4ec4-b5c7-2d40c4a4883b"> <bbox w="10.0" h="10.0" x="21435.521" y="15565.971"/> <port id="pr_495cb61c-22ab-4ec4-b5c7-2d40c4a4883b_p1" x="21455.521" y="15570.971"/> <port id="pr_495cb61c-22ab-4ec4-b5c7-2d40c4a4883b_p2" x="21425.521" y="15570.971"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0f5742d0-7b92-40ec-b9bb-8508a21183c7"> <bbox w="10.0" h="10.0" x="2724.875" y="9893.75"/> <port id="pr_0f5742d0-7b92-40ec-b9bb-8508a21183c7_p1" x="2744.875" y="9898.75"/> <port id="pr_0f5742d0-7b92-40ec-b9bb-8508a21183c7_p2" x="2714.875" y="9898.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13dacb09-b890-47bc-9fb8-cba9ffa97352"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:18347071</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_13dacb09-b890-47bc-9fb8-cba9ffa97352"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21214.512" y="21564.0"/> <port id="pr_13dacb09-b890-47bc-9fb8-cba9ffa97352_p1" x="21219.512" y="21554.0"/> <port id="pr_13dacb09-b890-47bc-9fb8-cba9ffa97352_p2" x="21219.512" y="21584.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_077aa7b7-997e-43d1-a230-6cbeb92f2d9b"> <bbox w="10.0" h="10.0" x="26406.326" y="16089.0"/> <port id="pr_077aa7b7-997e-43d1-a230-6cbeb92f2d9b_p1" x="26411.326" y="16109.0"/> <port id="pr_077aa7b7-997e-43d1-a230-6cbeb92f2d9b_p2" x="26411.326" y="16079.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_66649e9b-2880-440b-a6e1-faa66cde65d9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3720.1235" y="14131.5"/> <port id="pr_66649e9b-2880-440b-a6e1-faa66cde65d9_p1" x="3725.1235" y="14121.5"/> <port id="pr_66649e9b-2880-440b-a6e1-faa66cde65d9_p2" x="3725.1235" y="14151.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e32aa24d-9487-4a77-bb9a-591b3c8be6a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9113980</p> <p>RhoGDI (so-called ARHGDIA) and GDIG4 (so-called ARHGDIB) are two known GDIs for the Rho-subfamily of GTPases.</p> <p>ARHGDIG is about 50 percent identical to ARHGDIA and ARHGDIB. ARHGFIG binds to CDC42 and RhoA with less affinity compared with ARHGDIA and does not bind with Rac1, Rac2, or Ras.</p> <p>ARHGDIG functions as a GDI for CDC42 but with about 20 times less efficiency than ARHGDIA.</p> <p>PMID:9490022</p> <p>ARHGDIA,B,G are CDC42_GDIs</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e32aa24d-9487-4a77-bb9a-591b3c8be6a8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9113980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9490022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5553.25" y="14377.861"/> <port id="pr_e32aa24d-9487-4a77-bb9a-591b3c8be6a8_p1" x="5573.25" y="14382.861"/> <port id="pr_e32aa24d-9487-4a77-bb9a-591b3c8be6a8_p2" x="5543.25" y="14382.861"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cee3abd4-718b-4ffb-91bd-2e940978865a"> <bbox w="10.0" h="10.0" x="24006.812" y="4948.4985"/> <port id="pr_cee3abd4-718b-4ffb-91bd-2e940978865a_p1" x="24026.812" y="4953.4985"/> <port id="pr_cee3abd4-718b-4ffb-91bd-2e940978865a_p2" x="23996.812" y="4953.4985"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8624c4d0-9fc3-41b3-82d2-1b9afc26a6df"> <bbox w="10.0" h="10.0" x="13218.729" y="12233.5"/> <port id="pr_8624c4d0-9fc3-41b3-82d2-1b9afc26a6df_p1" x="13238.729" y="12238.5"/> <port id="pr_8624c4d0-9fc3-41b3-82d2-1b9afc26a6df_p2" x="13208.729" y="12238.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b2c4bdb0-e121-4b58-80e2-c9676f84e26d"> <bbox w="10.0" h="10.0" x="1405.0" y="3558.0"/> <port id="pr_b2c4bdb0-e121-4b58-80e2-c9676f84e26d_p1" x="1410.0" y="3548.0"/> <port id="pr_b2c4bdb0-e121-4b58-80e2-c9676f84e26d_p2" x="1410.0" y="3578.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9746c121-5722-4754-a6ad-b4d86e811917"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14627988</p> <p>in mouse macrophages, by REL (HGNC:9954)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9746c121-5722-4754-a6ad-b4d86e811917"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627988"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23915.56" y="16155.342"/> <port id="pr_9746c121-5722-4754-a6ad-b4d86e811917_p1" x="23920.56" y="16175.342"/> <port id="pr_9746c121-5722-4754-a6ad-b4d86e811917_p2" x="23920.56" y="16145.342"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1e10801-1410-46f3-98dd-a18b6853130a"> <bbox w="10.0" h="10.0" x="16167.893" y="1640.3137"/> <port id="pr_f1e10801-1410-46f3-98dd-a18b6853130a_p1" x="16172.893" y="1660.3137"/> <port id="pr_f1e10801-1410-46f3-98dd-a18b6853130a_p2" x="16172.893" y="1630.3137"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e6a8192f-de18-4418-a039-43450b61b5ae"> <bbox w="10.0" h="10.0" x="11198.973" y="9057.106"/> <port id="pr_e6a8192f-de18-4418-a039-43450b61b5ae_p1" x="11188.973" y="9062.106"/> <port id="pr_e6a8192f-de18-4418-a039-43450b61b5ae_p2" x="11218.973" y="9062.106"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_474913c4-c124-4b85-b48c-67914f52b45a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>cf. Rb pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21813.744" y="16889.0"/> <port id="pr_474913c4-c124-4b85-b48c-67914f52b45a_p1" x="21803.744" y="16894.0"/> <port id="pr_474913c4-c124-4b85-b48c-67914f52b45a_p2" x="21833.744" y="16894.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a4a16419-dfb3-456c-99d5-8719decac074"> <bbox w="10.0" h="10.0" x="20091.56" y="10670.861"/> <port id="pr_a4a16419-dfb3-456c-99d5-8719decac074_p1" x="20111.56" y="10675.861"/> <port id="pr_a4a16419-dfb3-456c-99d5-8719decac074_p2" x="20081.56" y="10675.861"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b759332-0073-40a3-9aed-3f1b976e3c78"> <bbox w="10.0" h="10.0" x="1402.7529" y="3486.75"/> <port id="pr_3b759332-0073-40a3-9aed-3f1b976e3c78_p1" x="1407.7529" y="3476.75"/> <port id="pr_3b759332-0073-40a3-9aed-3f1b976e3c78_p2" x="1407.7529" y="3506.75"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_7be8f80c-36b6-4087-b42d-9981d6d3581b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16079281</p> <p>Phosphorylation of Sp-1 by ERK provokes an increase in the transcriptional activity of Sp1- dependent genes</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7be8f80c-36b6-4087-b42d-9981d6d3581b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16079281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4064.5" y="16064.25"/> <port id="pr_7be8f80c-36b6-4087-b42d-9981d6d3581b_p1" x="4069.5" y="16054.25"/> <port id="pr_7be8f80c-36b6-4087-b42d-9981d6d3581b_p2" x="4069.5" y="16084.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a13a6790-4de4-472e-bd5e-9a622ac7a4a1"> <bbox w="10.0" h="10.0" x="22212.357" y="12179.395"/> <port id="pr_a13a6790-4de4-472e-bd5e-9a622ac7a4a1_p1" x="22217.357" y="12169.395"/> <port id="pr_a13a6790-4de4-472e-bd5e-9a622ac7a4a1_p2" x="22217.357" y="12199.395"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b0b7ab0-71f4-4a1d-929e-65c74dbc9ced"> <bbox w="10.0" h="10.0" x="27108.637" y="13451.25"/> <port id="pr_3b0b7ab0-71f4-4a1d-929e-65c74dbc9ced_p1" x="27113.637" y="13471.25"/> <port id="pr_3b0b7ab0-71f4-4a1d-929e-65c74dbc9ced_p2" x="27113.637" y="13441.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_08ae3099-9a36-4993-a3e3-514399d056c0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15186778</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_08ae3099-9a36-4993-a3e3-514399d056c0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15186778"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18563.482" y="13398.057"/> <port id="pr_08ae3099-9a36-4993-a3e3-514399d056c0_p1" x="18568.482" y="13418.057"/> <port id="pr_08ae3099-9a36-4993-a3e3-514399d056c0_p2" x="18568.482" y="13388.057"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6abcad3d-9215-4a25-824f-a873015b119c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6abcad3d-9215-4a25-824f-a873015b119c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12504.373" y="18529.0"/> <port id="pr_6abcad3d-9215-4a25-824f-a873015b119c_p1" x="12494.373" y="18534.0"/> <port id="pr_6abcad3d-9215-4a25-824f-a873015b119c_p2" x="12524.373" y="18534.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3f99c3f-442d-4c76-8b3f-e06e80eee975"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11359773</p> <p>by DUSP16</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3f99c3f-442d-4c76-8b3f-e06e80eee975"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11359773"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22884.06" y="11094.0"/> <port id="pr_d3f99c3f-442d-4c76-8b3f-e06e80eee975_p1" x="22874.06" y="11099.0"/> <port id="pr_d3f99c3f-442d-4c76-8b3f-e06e80eee975_p2" x="22904.06" y="11099.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ebc953f-d471-491e-a625-b2a248aefd3d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activated TGFBR1/TGFBR2 complex attracts the TAB2/TAB3 proteins which promote activation of TAK1 (by phosphorylation).</p> <p>TAB1 is an essential cofactor required for activation of TAK1 by upstream stimuli. Endogenous TAK1 is activated by TGF-beta IL-1 and TNF.</p> <p>PMID:20060931 PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6ebc953f-d471-491e-a625-b2a248aefd3d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20060931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11291.258" y="19553.574"/> <port id="pr_6ebc953f-d471-491e-a625-b2a248aefd3d_p1" x="11296.258" y="19543.574"/> <port id="pr_6ebc953f-d471-491e-a625-b2a248aefd3d_p2" x="11296.258" y="19573.574"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7a21a792-1e9a-4f8a-aed6-4ba763c0c2f0"> <bbox w="10.0" h="10.0" x="23534.06" y="12699.0"/> <port id="pr_7a21a792-1e9a-4f8a-aed6-4ba763c0c2f0_p1" x="23524.06" y="12704.0"/> <port id="pr_7a21a792-1e9a-4f8a-aed6-4ba763c0c2f0_p2" x="23554.06" y="12704.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_737dc74b-cf66-4829-84be-926f9b101f89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3697.5356" y="19098.0"/> <port id="pr_737dc74b-cf66-4829-84be-926f9b101f89_p1" x="3717.5356" y="19103.0"/> <port id="pr_737dc74b-cf66-4829-84be-926f9b101f89_p2" x="3687.5356" y="19103.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea7bb351-5ffe-43ca-acda-2f71b149dbdc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21416054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ea7bb351-5ffe-43ca-acda-2f71b149dbdc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21416054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21156.06" y="22699.6"/> <port id="pr_ea7bb351-5ffe-43ca-acda-2f71b149dbdc_p1" x="21146.06" y="22704.6"/> <port id="pr_ea7bb351-5ffe-43ca-acda-2f71b149dbdc_p2" x="21176.06" y="22704.6"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f50f630c-23e2-4fac-a4dd-5d1bff6028ec"> <bbox w="10.0" h="10.0" x="27831.0" y="2607.5"/> <port id="pr_f50f630c-23e2-4fac-a4dd-5d1bff6028ec_p1" x="27836.0" y="2597.5"/> <port id="pr_f50f630c-23e2-4fac-a4dd-5d1bff6028ec_p2" x="27836.0" y="2627.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d6e9dbe5-139b-4621-bb77-2b6dbeffc365"> <bbox w="10.0" h="10.0" x="25854.06" y="16464.0"/> <port id="pr_d6e9dbe5-139b-4621-bb77-2b6dbeffc365_p1" x="25859.06" y="16484.0"/> <port id="pr_d6e9dbe5-139b-4621-bb77-2b6dbeffc365_p2" x="25859.06" y="16454.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a0a03d40-828c-436a-9d9c-1f2ce8a69c05"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1945.1455" y="15972.0"/> <port id="pr_a0a03d40-828c-436a-9d9c-1f2ce8a69c05_p1" x="1935.1455" y="15977.0"/> <port id="pr_a0a03d40-828c-436a-9d9c-1f2ce8a69c05_p2" x="1965.1455" y="15977.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bef321a2-fd5e-4961-b23b-4412983a26a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>DVL and RIPK4 form constitutively a complex</p> <p>PMID:23371553</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bef321a2-fd5e-4961-b23b-4412983a26a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23371553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24965.56" y="18965.0"/> <port id="pr_bef321a2-fd5e-4961-b23b-4412983a26a6_p1" x="24955.56" y="18970.0"/> <port id="pr_bef321a2-fd5e-4961-b23b-4412983a26a6_p2" x="24985.56" y="18970.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9be9710a-9e72-4498-85db-a980527bbd3d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex. A direct interaction between P38 and ERK has been proposed as a mechanism to inhibit ERK phosphorylation. AP-1 mediated gene expression inhibits ERK phosphorylation.</p> <p>PMID:18039929</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9be9710a-9e72-4498-85db-a980527bbd3d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18039929"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9228.654" y="19760.5"/> <port id="pr_9be9710a-9e72-4498-85db-a980527bbd3d_p1" x="9233.654" y="19750.5"/> <port 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class="process" orientation="vertical" id="pr_71a68c79-d653-4b62-9973-8dd26fd9544f"> <bbox w="10.0" h="10.0" x="1243.125" y="4170.0"/> <port id="pr_71a68c79-d653-4b62-9973-8dd26fd9544f_p1" x="1248.125" y="4160.0"/> <port id="pr_71a68c79-d653-4b62-9973-8dd26fd9544f_p2" x="1248.125" y="4190.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af232d5c-83db-45dd-9c71-aa3547663844"> <bbox w="10.0" h="10.0" x="22785.0" y="6166.25"/> <port id="pr_af232d5c-83db-45dd-9c71-aa3547663844_p1" x="22790.0" y="6156.25"/> <port id="pr_af232d5c-83db-45dd-9c71-aa3547663844_p2" x="22790.0" y="6186.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_25d017cd-691b-4ae7-9d9b-10c550fb9984"> <bbox w="10.0" h="10.0" x="2040.5" y="9358.25"/> <port id="pr_25d017cd-691b-4ae7-9d9b-10c550fb9984_p1" x="2045.5" y="9348.25"/> <port id="pr_25d017cd-691b-4ae7-9d9b-10c550fb9984_p2" x="2045.5" y="9378.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_31cbc7be-f3e7-43ba-bddb-31dbb18613d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22973052</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_31cbc7be-f3e7-43ba-bddb-31dbb18613d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22973052"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5097.0" y="16814.0"/> <port id="pr_b8e3565e-c98a-4044-8620-8a0f2919de84_p1" x="5102.0" y="16834.0"/> <port id="pr_b8e3565e-c98a-4044-8620-8a0f2919de84_p2" x="5102.0" y="16804.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d7959ad-8219-4a43-ae18-c2cbe1403fdd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19900451</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7d7959ad-8219-4a43-ae18-c2cbe1403fdd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19900451"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18237.56" y="20651.5"/> <port id="pr_7d7959ad-8219-4a43-ae18-c2cbe1403fdd_p1" x="18227.56" y="20656.5"/> <port id="pr_7d7959ad-8219-4a43-ae18-c2cbe1403fdd_p2" x="18257.56" y="20656.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7f563460-bd49-4bbc-82ab-978127c13cc7"> <bbox w="10.0" h="10.0" x="23610.0" y="3365.0"/> <port id="pr_7f563460-bd49-4bbc-82ab-978127c13cc7_p1" x="23615.0" y="3385.0"/> <port id="pr_7f563460-bd49-4bbc-82ab-978127c13cc7_p2" x="23615.0" y="3355.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_0d4ce230-1760-4479-a699-fdf6629e2ec5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2178.9817" y="16879.25"/> <port id="pr_0d4ce230-1760-4479-a699-fdf6629e2ec5_p1" x="2183.9817" y="16869.25"/> <port id="pr_0d4ce230-1760-4479-a699-fdf6629e2ec5_p2" x="2183.9817" y="16899.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1f63f742-21c7-4b89-b43c-1cdc2dc278a0"> <bbox w="10.0" h="10.0" x="28414.086" y="14128.63"/> <port id="pr_1f63f742-21c7-4b89-b43c-1cdc2dc278a0_p1" x="28404.086" y="14133.63"/> <port id="pr_1f63f742-21c7-4b89-b43c-1cdc2dc278a0_p2" x="28434.086" y="14133.63"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d619e5c-baf7-49cf-bb55-6c259c812ec2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12667443</p> <p>p53 induces apoptosis by target gene regulation and transcription-independent signaling.</p> <p>A fraction of induced p53 translocates to the mitochondria of apoptosing tumor cells. Targeting p53 to mitochondria is sufficient to launch apoptosis. </p> <p>Evidence that p53 translocation to the mitochondria occurs in vivo in irradiatedthymocytes was shown.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d619e5c-baf7-49cf-bb55-6c259c812ec2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12667443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4954.296" y="13629.75"/> <port id="pr_0d619e5c-baf7-49cf-bb55-6c259c812ec2_p1" x="4959.296" y="13649.75"/> <port id="pr_0d619e5c-baf7-49cf-bb55-6c259c812ec2_p2" x="4959.296" y="13619.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_bfe77293-11ba-4f5f-b01b-daf0812002a4"> <bbox w="10.0" h="10.0" x="27771.81" y="18104.334"/> <port id="pr_bfe77293-11ba-4f5f-b01b-daf0812002a4_p1" x="27776.81" y="18094.334"/> <port id="pr_bfe77293-11ba-4f5f-b01b-daf0812002a4_p2" x="27776.81" y="18124.334"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b4f11998-aba2-4010-a47b-9cc92cc27a4f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21919891</p> <p>PMID:21733352</p> <p>Direct activation of Bmi1 expression by Twist1 using transient transfection.</p> <p>PMID:20818389</p> <p>Twist1 directly activates BMI1 transcription by binding to the E-box in intron 1 of the BMI1 gene.</p> <p>PMID:17550342</p> <p>SNAI2 induces BMI1 expression</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID : PMID:17055429</p> <p>MYC stimulate P53 and ARF</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b4f11998-aba2-4010-a47b-9cc92cc27a4f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21919891"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21733352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1905.3372" y="14798.5"/> <port id="pr_b5c63848-e1d7-40ae-b2da-d24f5c166c97_p1" x="1910.3372" y="14818.5"/> <port id="pr_b5c63848-e1d7-40ae-b2da-d24f5c166c97_p2" x="1910.3372" y="14788.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2ab0c018-3ba0-43f3-9ed4-cdb246fb5ee5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29051319</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ab0c018-3ba0-43f3-9ed4-cdb246fb5ee5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29051319"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4729.5" y="8880.0"/> <port id="pr_2ab0c018-3ba0-43f3-9ed4-cdb246fb5ee5_p1" x="4719.5" y="8885.0"/> <port id="pr_2ab0c018-3ba0-43f3-9ed4-cdb246fb5ee5_p2" x="4749.5" y="8885.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_18916707-cf0b-495b-ad1c-8dcb0a3d1372"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4989.3633" y="18273.625"/> <port id="pr_18916707-cf0b-495b-ad1c-8dcb0a3d1372_p1" x="4994.3633" y="18263.625"/> <port id="pr_18916707-cf0b-495b-ad1c-8dcb0a3d1372_p2" x="4994.3633" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_14cb969e-4b2c-44de-adf0-31ac5bd1cea5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2108.9844" y="18035.352"/> <port id="pr_14cb969e-4b2c-44de-adf0-31ac5bd1cea5_p1" x="2113.9844" y="18025.352"/> <port id="pr_14cb969e-4b2c-44de-adf0-31ac5bd1cea5_p2" x="2113.9844" y="18055.352"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9027a836-dd8f-4f9e-9ccb-1966ac102e51"> <bbox w="10.0" h="10.0" x="28115.06" y="12326.875"/> <port id="pr_9027a836-dd8f-4f9e-9ccb-1966ac102e51_p1" x="28135.06" y="12331.875"/> <port id="pr_9027a836-dd8f-4f9e-9ccb-1966ac102e51_p2" x="28105.06" y="12331.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8abf981f-e042-4681-9123-33950d0cdf63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19090789</p> <p>Palmitoylation of the TRAIL receptor DR4 confers an efficient TRAIL-induced cell death signalling</p> <p>PMID:17767167</p> <p>Death-receptor O-glycosylation controls tumor-cell sensitivity to the proapoptotic ligand Apo2L/TRAIL.</p> <p>PMID:10894161</p> <p>Apo2L/TRAIL-dependent recruitment of endogenous FADD and caspase-8 to death receptors 4 and 5</p> <p>PMID:28258062</p> <p>The linear ubiquitin chain assembly complex regulates TRAIL-induced gene activation and cell death.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8abf981f-e042-4681-9123-33950d0cdf63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19090789"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17767167"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10894161"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28258062"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24296.56" y="9155.31"/> <port id="pr_8abf981f-e042-4681-9123-33950d0cdf63_p1" x="24286.56" y="9160.31"/> <port id="pr_8abf981f-e042-4681-9123-33950d0cdf63_p2" x="24316.56" y="9160.31"/> </glyph> <glyph class="process" orientation="vertical" id="pr_894cd1d5-7a3a-424b-ba81-386e035f18b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5194.6978" y="17690.0"/> <port id="pr_894cd1d5-7a3a-424b-ba81-386e035f18b0_p1" x="5199.6978" y="17680.0"/> <port id="pr_894cd1d5-7a3a-424b-ba81-386e035f18b0_p2" x="5199.6978" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cbc20497-812a-45b2-a3f6-dace9fe69f00"> <bbox w="10.0" h="10.0" x="13007.686" y="21249.5"/> <port id="pr_cbc20497-812a-45b2-a3f6-dace9fe69f00_p1" x="12997.686" y="21254.5"/> <port id="pr_cbc20497-812a-45b2-a3f6-dace9fe69f00_p2" x="13027.686" y="21254.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57590444-963e-444d-bf0d-8876dbbc614b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9829964</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_57590444-963e-444d-bf0d-8876dbbc614b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9829964"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13702.561" y="21956.5"/> <port id="pr_57590444-963e-444d-bf0d-8876dbbc614b_p1" x="13707.561" y="21976.5"/> <port id="pr_57590444-963e-444d-bf0d-8876dbbc614b_p2" x="13707.561" y="21946.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_863e41f7-a0c6-45fe-9e98-dc88223a81b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:7565670</p> <p>Active Raf-1 phosphorylates MEK-1/2 on Serine residues, converting ATP to ADP. The MEK-1/2 kinase is now active.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_863e41f7-a0c6-45fe-9e98-dc88223a81b3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7565670"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6217.0" y="13447.0"/> <port id="pr_863e41f7-a0c6-45fe-9e98-dc88223a81b3_p1" x="6222.0" y="13437.0"/> <port id="pr_863e41f7-a0c6-45fe-9e98-dc88223a81b3_p2" x="6222.0" y="13467.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_8fa7eacb-51c6-4546-ad6b-8425d7f2d080"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16371504</p> <p>Phosphorylation of N-cadherin at Y860 by SRC decreases its ability to bind to CTNNB1</p> <p>CTNNB1 dissociated from the complex with N-cadherin enters to the nucleus.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8fa7eacb-51c6-4546-ad6b-8425d7f2d080"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16371504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1559.75" y="16314.0"/> <port id="pr_8fa7eacb-51c6-4546-ad6b-8425d7f2d080_p1" x="1549.75" y="16319.0"/> <port id="pr_8fa7eacb-51c6-4546-ad6b-8425d7f2d080_p2" x="1579.75" y="16319.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5224d6c9-befd-4dc4-b3f7-92b1e5afe33a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:18218901</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5224d6c9-befd-4dc4-b3f7-92b1e5afe33a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18218901"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17548.31" y="19233.0"/> <port id="pr_5224d6c9-befd-4dc4-b3f7-92b1e5afe33a_p1" x="17568.31" y="19238.0"/> <port id="pr_5224d6c9-befd-4dc4-b3f7-92b1e5afe33a_p2" x="17538.31" y="19238.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_84adb7db-c6c3-46a8-a885-287c9ba27603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16636147</p> <p>ANNOTATION:THE PHOSPHORYLATION STATE OF TSC2 IS NOT OFF INFLUENCE ON THE GTPase ACTIVITY OF THE PROTEIN</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_84adb7db-c6c3-46a8-a885-287c9ba27603"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16636147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13867.686" y="18816.25"/> <port id="pr_84adb7db-c6c3-46a8-a885-287c9ba27603_p1" x="13887.686" y="18821.25"/> <port id="pr_84adb7db-c6c3-46a8-a885-287c9ba27603_p2" x="13857.686" y="18821.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a599ed39-0305-4b09-b696-efeecdf197fc"> <bbox w="10.0" h="10.0" x="25598.5" y="2068.0935"/> <port id="pr_a599ed39-0305-4b09-b696-efeecdf197fc_p1" x="25618.5" y="2073.0935"/> <port id="pr_a599ed39-0305-4b09-b696-efeecdf197fc_p2" x="25588.5" y="2073.0935"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_5679ceb0-b549-44ea-97e0-dc9a84b6d5b5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4091.625" y="16650.223"/> <port id="pr_5679ceb0-b549-44ea-97e0-dc9a84b6d5b5_p1" x="4096.625" y="16670.223"/> <port id="pr_5679ceb0-b549-44ea-97e0-dc9a84b6d5b5_p2" x="4096.625" y="16640.223"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cd71aefc-3755-4891-95cf-71f506bd81f4"> <bbox w="10.0" h="10.0" x="14112.478" y="2076.25"/> <port id="pr_cd71aefc-3755-4891-95cf-71f506bd81f4_p1" x="14132.478" y="2081.25"/> <port id="pr_cd71aefc-3755-4891-95cf-71f506bd81f4_p2" x="14102.478" y="2081.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f50e2c56-81ca-421c-abd5-0109a0af4a28"> <bbox w="10.0" h="10.0" x="20349.832" y="15944.686"/> <port id="pr_f50e2c56-81ca-421c-abd5-0109a0af4a28_p1" x="20369.832" y="15949.686"/> <port id="pr_f50e2c56-81ca-421c-abd5-0109a0af4a28_p2" x="20339.832" y="15949.686"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c702f72-0dac-4515-9093-d1a3fa1d22e3"> <bbox w="10.0" h="10.0" x="26702.59" y="13232.75"/> <port id="pr_8c702f72-0dac-4515-9093-d1a3fa1d22e3_p1" x="26707.59" y="13252.75"/> <port id="pr_8c702f72-0dac-4515-9093-d1a3fa1d22e3_p2" x="26707.59" y="13222.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4a66dce8-da9c-4e7c-a6a4-e5d6c7453078"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>Each TGFB gene encodes a preproprotein sequence consisting of a signal peptide, a propeptide (LAP) and the mature TGFB</p> <p>After translocation into the endoplamic reticulum, TGFB proprotein monomers form homomdimers liked by disulfide bonds, forming pro-TGFB</p> <p>In the Golgi, the prodomains undergo glycosylation.</p> <p>Also in the Golgi, FURIN hydolyzes the leavage site from LAP, creating TGFB and LAP-derived homodimers</p> <p>The 2 homodimers remain noncovalently associated and are secreted.</p> <p>The LAP-derived homodimer prevents TGFB from binding TGFB receptors.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4a66dce8-da9c-4e7c-a6a4-e5d6c7453078"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20519943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16474430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14557817"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1171.3125" y="18863.26"/> <port id="pr_4a66dce8-da9c-4e7c-a6a4-e5d6c7453078_p1" x="1161.3125" y="18868.26"/> <port id="pr_4a66dce8-da9c-4e7c-a6a4-e5d6c7453078_p2" x="1191.3125" y="18868.26"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb6a69e8-8209-4641-8217-59cb62620caa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17560373</p> <p>PMID:19641494</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cb6a69e8-8209-4641-8217-59cb62620caa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17560373"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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class="process" orientation="horizontal" id="pr_03e7bb70-7eb2-426b-ad9a-7cd81ed7dac2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12376548</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03e7bb70-7eb2-426b-ad9a-7cd81ed7dac2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12376548"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_e4f3fb5f-78ba-45c1-b328-fed8969c6055_p1" x="29105.625" y="4146.2373"/> <port id="pr_e4f3fb5f-78ba-45c1-b328-fed8969c6055_p2" x="29075.625" y="4146.2373"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ab00e333-a470-4764-9a82-2401f9e65ba5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1486.3684" y="14266.959"/> <port id="pr_ab00e333-a470-4764-9a82-2401f9e65ba5_p1" x="1491.3684" y="14286.959"/> <port id="pr_ab00e333-a470-4764-9a82-2401f9e65ba5_p2" x="1491.3684" y="14256.959"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_203db962-507e-40a6-b439-9080c61e84ca"> <bbox w="10.0" h="10.0" x="11795.651" y="15724.027"/> <port id="pr_203db962-507e-40a6-b439-9080c61e84ca_p1" x="11815.651" y="15729.027"/> <port id="pr_203db962-507e-40a6-b439-9080c61e84ca_p2" x="11785.651" y="15729.027"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_879af9d4-a063-4495-8b7c-da827edb57ca"> <bbox w="10.0" h="10.0" x="28777.398" y="14841.879"/> <port id="pr_879af9d4-a063-4495-8b7c-da827edb57ca_p1" x="28767.398" y="14846.879"/> <port id="pr_879af9d4-a063-4495-8b7c-da827edb57ca_p2" x="28797.398" y="14846.879"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b202f47a-b6b5-4a34-bb9c-d0d7a52d5291"> <bbox w="10.0" h="10.0" x="23705.861" y="14562.25"/> <port id="pr_b202f47a-b6b5-4a34-bb9c-d0d7a52d5291_p1" x="23710.861" y="14582.25"/> <port id="pr_b202f47a-b6b5-4a34-bb9c-d0d7a52d5291_p2" x="23710.861" y="14552.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ee092131-b221-4573-bc65-f5401fcbcc67"> <bbox w="10.0" h="10.0" x="26843.096" y="12415.179"/> <port id="pr_ee092131-b221-4573-bc65-f5401fcbcc67_p1" x="26833.096" y="12420.179"/> <port id="pr_ee092131-b221-4573-bc65-f5401fcbcc67_p2" x="26863.096" y="12420.179"/> </glyph> <glyph class="process" orientation="vertical" id="pr_59dd4cec-83af-49dc-a03d-d242360d7a24"> <bbox w="10.0" h="10.0" x="6398.25" y="4143.5"/> <port id="pr_59dd4cec-83af-49dc-a03d-d242360d7a24_p1" x="6403.25" y="4163.5"/> <port id="pr_59dd4cec-83af-49dc-a03d-d242360d7a24_p2" x="6403.25" y="4133.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1c547969-342c-4638-be15-43b1375d1ee2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12176997</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1c547969-342c-4638-be15-43b1375d1ee2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12176997"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25838.602" y="10772.478"/> <port id="pr_1c547969-342c-4638-be15-43b1375d1ee2_p1" x="25843.602" y="10762.478"/> <port id="pr_1c547969-342c-4638-be15-43b1375d1ee2_p2" x="25843.602" y="10792.478"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cececd85-fac8-4f89-80ec-a93fcf9ec9ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21725609</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cececd85-fac8-4f89-80ec-a93fcf9ec9ec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21725609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1922.5" y="8895.5"/> <port id="pr_cececd85-fac8-4f89-80ec-a93fcf9ec9ec_p1" x="1912.5" y="8900.5"/> <port id="pr_cececd85-fac8-4f89-80ec-a93fcf9ec9ec_p2" x="1942.5" y="8900.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ae397fbc-dee4-4145-9d86-fdce5db636e8"> <bbox w="10.0" h="10.0" x="27671.145" y="15522.407"/> <port id="pr_ae397fbc-dee4-4145-9d86-fdce5db636e8_p1" x="27661.145" y="15527.407"/> <port id="pr_ae397fbc-dee4-4145-9d86-fdce5db636e8_p2" x="27691.145" y="15527.407"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9665ed99-f5ec-4ac0-a42f-3632273db678"> <bbox w="10.0" h="10.0" x="15199.893" y="9114.335"/> <port id="pr_9665ed99-f5ec-4ac0-a42f-3632273db678_p1" x="15189.893" y="9119.335"/> <port id="pr_9665ed99-f5ec-4ac0-a42f-3632273db678_p2" x="15219.893" y="9119.335"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83adc4bd-dc1d-4c87-bf1a-7e66814f7fdf"> <bbox w="10.0" h="10.0" x="5583.75" y="7576.25"/> <port id="pr_83adc4bd-dc1d-4c87-bf1a-7e66814f7fdf_p1" x="5573.75" y="7581.25"/> <port id="pr_83adc4bd-dc1d-4c87-bf1a-7e66814f7fdf_p2" x="5603.75" y="7581.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_856d8e40-c520-4eba-a96d-7ab7469b87a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12861.848" y="17037.0"/> <port id="pr_856d8e40-c520-4eba-a96d-7ab7469b87a4_p1" x="12881.848" y="17042.0"/> <port id="pr_856d8e40-c520-4eba-a96d-7ab7469b87a4_p2" x="12851.848" y="17042.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_77276309-d0d1-417f-9f16-11b77ffbf38f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_77276309-d0d1-417f-9f16-11b77ffbf38f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20592490"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3925.5635" y="16926.668"/> <port id="pr_77276309-d0d1-417f-9f16-11b77ffbf38f_p1" x="3915.5635" y="16931.668"/> <port id="pr_77276309-d0d1-417f-9f16-11b77ffbf38f_p2" x="3945.5635" y="16931.668"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9e14dd7-062f-4504-a865-2878d56846bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22439866</p> <p>c-Myb strongly increased the expression/activity of cathepsin D and matrix metalloproteinase (MMP) 9 and significantly downregulated MMP1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a9e14dd7-062f-4504-a865-2878d56846bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22439866"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2686.75" y="17400.531"/> <port id="pr_a9e14dd7-062f-4504-a865-2878d56846bc_p1" x="2706.75" y="17405.531"/> <port id="pr_a9e14dd7-062f-4504-a865-2878d56846bc_p2" x="2676.75" y="17405.531"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f97af8c-f6f3-47f1-ac07-cb42bd4f2658"> <bbox w="10.0" h="10.0" x="23303.12" y="6231.25"/> <port id="pr_6f97af8c-f6f3-47f1-ac07-cb42bd4f2658_p1" x="23308.12" y="6221.25"/> <port id="pr_6f97af8c-f6f3-47f1-ac07-cb42bd4f2658_p2" x="23308.12" y="6251.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_03606099-5cf5-490b-86b8-67c18ed4c04c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>VAV1,2 are GEFs for Rac1.</p> <p>PMID:11080163</p> <p>VAV2 is recruited by the CD19 co-receptor of the B cells and participates in the B cell receptor signaling.</p> <p>PMID:12165654</p> <p>in the T cell, VAV1 forms complex with LCP2. </p> <p>This complex is involved in the T cell receptor and CD28 signaling cascades.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03606099-5cf5-490b-86b8-67c18ed4c04c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11080163"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12165654"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5756.0" y="14686.929"/> <port id="pr_03606099-5cf5-490b-86b8-67c18ed4c04c_p1" x="5746.0" y="14691.929"/> <port id="pr_03606099-5cf5-490b-86b8-67c18ed4c04c_p2" x="5776.0" y="14691.929"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7939caf3-1349-4690-b82a-04c622e7abe3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24319.06" y="14234.0"/> <port id="pr_7939caf3-1349-4690-b82a-04c622e7abe3_p1" x="24324.06" y="14254.0"/> <port id="pr_7939caf3-1349-4690-b82a-04c622e7abe3_p2" x="24324.06" y="14224.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df4451a2-d654-4f0b-9590-295edfc595c4"> <bbox w="10.0" h="10.0" x="9257.0" y="6071.3076"/> <port id="pr_df4451a2-d654-4f0b-9590-295edfc595c4_p1" x="9247.0" y="6076.3076"/> <port id="pr_df4451a2-d654-4f0b-9590-295edfc595c4_p2" x="9277.0" y="6076.3076"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1a0e2fc1-e74f-4db6-ab17-d070fdc36942"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20208519</p> <p>TRIP12 is a E3 ubiquitin ligase for ARF</p> <p>MYC, independently of its DNA binding domain, inhibits TRIP12-mediated ARF degradation through direct interaction with TRIP12</p> <p>Nucleophosmin protects ARF from TRIP12-mediated ubiquitination by targeting it to the nucleolus</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1a0e2fc1-e74f-4db6-ab17-d070fdc36942"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20208519"/> </rdf:Bag> 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id="pr_a2b64d80-5dd6-43b3-a784-aa4512f0ee65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a2b64d80-5dd6-43b3-a784-aa4512f0ee65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28284838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3373.4707" y="11927.0"/> <port id="pr_a2b64d80-5dd6-43b3-a784-aa4512f0ee65_p1" x="3378.4707" y="11917.0"/> <port id="pr_a2b64d80-5dd6-43b3-a784-aa4512f0ee65_p2" x="3378.4707" y="11947.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_70d67a5b-5547-459a-9d8d-45e96cbdd913"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10973499</p> <p>in vitro reconstitution of the E3-ligase activity, with VHL, elonginB/C, RBX1,CUL2</p> <p>PMID:18985005</p> <p>in COS monkey kidney cells and Caki-I human renal carcinoma cells, inhibition of VHL-mediated HIF1A ubiquitinylation and degradation by ectopically expressed constitutively active STAT3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_70d67a5b-5547-459a-9d8d-45e96cbdd913"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10973499"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18985005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24980.164" y="15213.814"/> <port id="pr_70d67a5b-5547-459a-9d8d-45e96cbdd913_p1" x="25000.164" y="15218.814"/> <port id="pr_70d67a5b-5547-459a-9d8d-45e96cbdd913_p2" x="24970.164" y="15218.814"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f8c75c0-148e-466a-83f5-14a9a3c812c6"> <bbox w="10.0" h="10.0" x="17922.5" y="2325.0"/> <port id="pr_6f8c75c0-148e-466a-83f5-14a9a3c812c6_p1" x="17927.5" y="2315.0"/> <port id="pr_6f8c75c0-148e-466a-83f5-14a9a3c812c6_p2" x="17927.5" y="2345.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f00da499-d14d-4ff7-b188-141c823e4adf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15708980 PMID:14567915</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f00da499-d14d-4ff7-b188-141c823e4adf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15708980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14567915"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20857.06" y="21743.0"/> <port id="pr_f00da499-d14d-4ff7-b188-141c823e4adf_p1" x="20862.06" y="21763.0"/> <port id="pr_f00da499-d14d-4ff7-b188-141c823e4adf_p2" x="20862.06" y="21733.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_79cf4857-1786-4eef-9f37-e96e9389b7f3"> <bbox w="10.0" h="10.0" x="28944.06" y="10886.5"/> <port id="pr_79cf4857-1786-4eef-9f37-e96e9389b7f3_p1" x="28949.06" y="10876.5"/> <port id="pr_79cf4857-1786-4eef-9f37-e96e9389b7f3_p2" x="28949.06" y="10906.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50a10986-c921-444a-87a4-1c7d086793f8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17053147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_50a10986-c921-444a-87a4-1c7d086793f8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17053147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12948.061" y="19599.75"/> <port id="pr_50a10986-c921-444a-87a4-1c7d086793f8_p1" x="12953.061" y="19619.75"/> <port id="pr_50a10986-c921-444a-87a4-1c7d086793f8_p2" x="12953.061" y="19589.75"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_27325797-f580-409d-a253-ce9072b8106c"> <bbox w="20.0" h="20.0" x="13085.082" y="18833.262"/> <port id="logicglyph_27325797-f580-409d-a253-ce9072b8106c_p1" x="13095.082" y="18823.262"/> <port id="logicglyph_27325797-f580-409d-a253-ce9072b8106c_p2" x="13095.082" y="18863.262"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1ce825a5-8e83-4d06-bceb-8ba6e21af44d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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x="6381.0" y="15821.598"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_87f7fd07-fa57-4bc7-8309-ed5109ce6f37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2419.0" y="16751.316"/> <port id="pr_87f7fd07-fa57-4bc7-8309-ed5109ce6f37_p1" x="2409.0" y="16756.316"/> <port id="pr_87f7fd07-fa57-4bc7-8309-ed5109ce6f37_p2" x="2439.0" y="16756.316"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8e8a4735-ae2d-4d55-b09f-6a67224b90e5"> <bbox w="10.0" h="10.0" x="1912.8557" y="4727.625"/> <port id="pr_8e8a4735-ae2d-4d55-b09f-6a67224b90e5_p1" x="1917.8557" y="4717.625"/> <port id="pr_8e8a4735-ae2d-4d55-b09f-6a67224b90e5_p2" x="1917.8557" y="4747.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cba1de4b-d7a8-4830-8bce-f96b6f3d40f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cba1de4b-d7a8-4830-8bce-f96b6f3d40f3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6158.5" y="14748.0"/> <port id="pr_cba1de4b-d7a8-4830-8bce-f96b6f3d40f3_p1" x="6148.5" y="14753.0"/> <port id="pr_cba1de4b-d7a8-4830-8bce-f96b6f3d40f3_p2" x="6178.5" y="14753.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b63e84b2-4a7b-47f9-911e-9438470b4135"> <bbox w="10.0" h="10.0" x="11260.581" y="13824.518"/> <port id="pr_b63e84b2-4a7b-47f9-911e-9438470b4135_p1" x="11265.581" y="13844.518"/> <port id="pr_b63e84b2-4a7b-47f9-911e-9438470b4135_p2" x="11265.581" y="13814.518"/> </glyph> <glyph class="process" orientation="vertical" id="pr_faff4a5a-6211-439a-9506-b3ed8ff3dc8f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9443821</p> <p>phingosine potentiates the transduction process of stimulus-PLA2 activation, resulting in enhancement of arachidonic acid liberation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_faff4a5a-6211-439a-9506-b3ed8ff3dc8f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9443821"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20854.06" y="10789.25"/> <port id="pr_faff4a5a-6211-439a-9506-b3ed8ff3dc8f_p1" x="20859.06" y="10779.25"/> <port id="pr_faff4a5a-6211-439a-9506-b3ed8ff3dc8f_p2" x="20859.06" y="10809.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_10b5f9f9-ba85-4271-8af9-264c4b0f5bcf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15611123</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_10b5f9f9-ba85-4271-8af9-264c4b0f5bcf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611123"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23783.56" y="21136.432"/> <port id="pr_10b5f9f9-ba85-4271-8af9-264c4b0f5bcf_p1" x="23773.56" y="21141.432"/> <port id="pr_10b5f9f9-ba85-4271-8af9-264c4b0f5bcf_p2" x="23803.56" y="21141.432"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d81ebab-79ef-4eee-b8bf-8fe0e3c27aec"> <bbox w="10.0" h="10.0" x="11393.139" y="10990.268"/> <port id="pr_0d81ebab-79ef-4eee-b8bf-8fe0e3c27aec_p1" x="11398.139" y="11010.268"/> <port id="pr_0d81ebab-79ef-4eee-b8bf-8fe0e3c27aec_p2" x="11398.139" y="10980.268"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56609f27-d5f7-4ee3-a331-f47f825643d1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3281.4927" y="14403.0"/> <port id="pr_56609f27-d5f7-4ee3-a331-f47f825643d1_p1" x="3286.4927" y="14423.0"/> <port id="pr_56609f27-d5f7-4ee3-a331-f47f825643d1_p2" x="3286.4927" y="14393.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a4faa963-2f18-4e7b-947f-7a39a4dd1db7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activated TGFBR1/TGFBR2 complex attracts the TAB2/TAB3 proteins which promote activation of TAK1 (by phosphorylation).</p> <p>TAB1 is an essential cofactor required for activation of TAK1 by upstream stimuli.</p> <p>PMID:20060931 PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" 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class="process" orientation="horizontal" id="pr_4b9e38aa-dab8-4249-9a98-fff636dbcff4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5192.411" y="17537.0"/> <port id="pr_4b9e38aa-dab8-4249-9a98-fff636dbcff4_p1" x="5182.411" y="17542.0"/> <port id="pr_4b9e38aa-dab8-4249-9a98-fff636dbcff4_p2" x="5212.411" y="17542.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_18ebaed0-722b-41de-a8af-7e8b6858220c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6392.5" y="16889.11"/> <port id="pr_18ebaed0-722b-41de-a8af-7e8b6858220c_p1" x="6382.5" y="16894.11"/> <port id="pr_18ebaed0-722b-41de-a8af-7e8b6858220c_p2" x="6412.5" y="16894.11"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f7b81b80-c827-4c18-8bfa-5c4beada2aa1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1153.0762" y="15856.0"/> <port id="pr_f7b81b80-c827-4c18-8bfa-5c4beada2aa1_p1" x="1158.0762" y="15846.0"/> <port id="pr_f7b81b80-c827-4c18-8bfa-5c4beada2aa1_p2" x="1158.0762" y="15876.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d4ab7242-6a66-45cb-8ebe-e8ed33eda3b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10213689</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d4ab7242-6a66-45cb-8ebe-e8ed33eda3b7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10213689"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24693.035" y="13274.785"/> <port id="pr_d4ab7242-6a66-45cb-8ebe-e8ed33eda3b7_p1" x="24713.035" y="13279.785"/> <port id="pr_d4ab7242-6a66-45cb-8ebe-e8ed33eda3b7_p2" x="24683.035" y="13279.785"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e8be438b-a268-4f6f-80d1-be24a61770e8"> <bbox w="10.0" h="10.0" x="12053.059" y="9913.404"/> <port id="pr_e8be438b-a268-4f6f-80d1-be24a61770e8_p1" x="12073.059" y="9918.404"/> <port id="pr_e8be438b-a268-4f6f-80d1-be24a61770e8_p2" x="12043.059" y="9918.404"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6273ac31-1e09-482c-a0c4-77e6c6253b31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17615296</p> <p>TGFB induces ETS1 transcriptional expression.</p> <p>TGFB represses ID2 and ID3 transcriptional expression (PMID:15121845 and PMID:15181457)</p> <p>ID2 may regulate the function of Ets1 to modulate the transcription of ZEB1 and ZEB2 without alteration of the transcription of Ets1.</p> <p>Ets1 may act as an inducer of ZEB1 in collaboration with E47 (TCF3)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6273ac31-1e09-482c-a0c4-77e6c6253b31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17615296"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="(urn:miriam:pubmed:15121845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15181457)"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4547.5" y="16883.234"/> <port id="pr_6273ac31-1e09-482c-a0c4-77e6c6253b31_p1" x="4537.5" y="16888.234"/> <port id="pr_6273ac31-1e09-482c-a0c4-77e6c6253b31_p2" x="4567.5" y="16888.234"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d6713343-33c7-4e20-ac0a-78dd0a79a6c3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9857026</p> <p>GEF-H1 is so-called ARHGEF2</p> <p>GEFH1, which associates with tubulin in a manner dependent on a Zn-finger motif, is a regulator of the Rho family</p> <p>GEFH1 is known to activate Rho A, B, C, and Rac1 but is inactive toward Cdc42, TC10, or Ras.</p> <p>GEFH1 may have a direct role in activation of Rac and/or Rho and in bringing the activated GTPase to specific target sites such as microtubules.</p> <p>PMID:16917499</p> <p>The activation of GEFH1- RhoB through the TRIF-dependent pathway of LPS in DC might be a critical target for controlling the activation of CD4+ T cells.</p> <p>PMID:12221096</p> <p>XPLN (so-called ARHGEF3) is a guanine nucleotide exchange factor for RhoA and RhoB, but not RhoC.</p> <p>PMID:16112081</p> <p>In vitro, GrinchGEF (ARHGEF10L) induced the GDP/ GTP exchange at RhoA, but not at Rac1 or Cdc42. </p> <p>In intact cells, GrinchGEF induced specifically Rho activation and enhanced RhoA,B,C-specific downstream effect.</p> <p>GrinchGEF, similar to its relative p164-RhoGEF (ARHGEF17), is a Rho-specific GEF. </p> <p>Although RhoA, B, and C have different cellular functions, and some regulators and effectors show preferential interaction with these Rho isoforms, GrinchGEF apparently does not distinguish between RhoA,B,C and similarly activates these Rho proteins</p> <p>PMID:9822605</p> <p>Phosphorylated Vav-2 was found to be active on RhoA, RhoB and the more distantly related RhoG protein</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d6713343-33c7-4e20-ac0a-78dd0a79a6c3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9857026"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16917499"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12221096"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16112081"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9822605"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5999.5" y="14413.5"/> <port id="pr_d6713343-33c7-4e20-ac0a-78dd0a79a6c3_p1" x="6004.5" y="14403.5"/> <port id="pr_d6713343-33c7-4e20-ac0a-78dd0a79a6c3_p2" x="6004.5" y="14433.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9ef503e-170a-46c1-84b4-1e4638f0d4ef"> <bbox w="10.0" h="10.0" x="17865.57" y="4820.5415"/> <port id="pr_a9ef503e-170a-46c1-84b4-1e4638f0d4ef_p1" x="17855.57" y="4825.5415"/> <port id="pr_a9ef503e-170a-46c1-84b4-1e4638f0d4ef_p2" x="17885.57" y="4825.5415"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_8cbce8ab-b8ce-4156-b161-e39a5d841f0a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24335145</p> <p>β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3724.0" y="17762.75"/> <port id="pr_814ffcc1-c9db-47b4-a0df-8c116377be0e_p1" x="3729.0" y="17752.75"/> <port id="pr_814ffcc1-c9db-47b4-a0df-8c116377be0e_p2" x="3729.0" y="17782.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a1bea123-9c94-4c84-8f4b-90efa8543922"> <bbox w="10.0" h="10.0" x="10553.75" y="565.625"/> <port id="pr_a1bea123-9c94-4c84-8f4b-90efa8543922_p1" x="10558.75" y="555.625"/> <port id="pr_a1bea123-9c94-4c84-8f4b-90efa8543922_p2" x="10558.75" y="585.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d3780c36-90d8-4d5e-a4e2-05ac70c0681d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18545270</p> <p>Regulation of TNFR1 and CD95 signalling by receptor compartmentalization</p> <p>PMID:14744430</p> <p>caspase-8 is polyubiquitylated at the DISC in response to Apo2L/TRAIL</p> <p>PMID:20531300</p> <p>PMID:19427028</p> <p>The ubiquitin-binding protein p62/sequestosome-1 promoted aggregation of CUL3-modified caspase-8 within p62-dependent foci, leading to full activation and processing of the enzyme and driving commitment to cell death</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3780c36-90d8-4d5e-a4e2-05ac70c0681d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18545270"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14744430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20531300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19427028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24988.488" y="9546.031"/> <port id="pr_d3780c36-90d8-4d5e-a4e2-05ac70c0681d_p1" x="24993.488" y="9536.031"/> <port id="pr_d3780c36-90d8-4d5e-a4e2-05ac70c0681d_p2" x="24993.488" y="9566.031"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a351fc77-d389-4f28-b3e1-8513fabe56ee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20711444</p> <p>PTM=sumoylation N/A in CellDesigner. </p> <p>Sumoylation not detected on endogenous Gli proteins.</p> <p>PKA antagonise sumoylation due to the consequence of PKA phosphorylation on Gli proteins it is not a direct effect of PKA. Exact</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a351fc77-d389-4f28-b3e1-8513fabe56ee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20711444"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27445.727" y="18333.334"/> <port id="pr_a351fc77-d389-4f28-b3e1-8513fabe56ee_p1" x="27450.727" y="18323.334"/> <port id="pr_a351fc77-d389-4f28-b3e1-8513fabe56ee_p2" x="27450.727" y="18353.334"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_58e7ae47-0f37-4e46-8323-ea4419a8f3c5"> <bbox w="20.0" h="20.0" x="27744.56" y="18326.5"/> <port id="logicglyph_58e7ae47-0f37-4e46-8323-ea4419a8f3c5_p1" x="27774.56" y="18336.5"/> <port id="logicglyph_58e7ae47-0f37-4e46-8323-ea4419a8f3c5_p2" x="27734.56" y="18336.5"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_bdad3819-c1ca-4643-be0d-0b0e45ad800e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15140942</p> <p>Phosphorylations on p53 prevent its binding to MDM2.</p> <p>PMID:15574337</p> <p>S186 phosphorylation of MDM2 by AKT favors the binding of MDM2 to p53 and its following degradation.</p> <p>PMID:19448627</p> <p>Complex of p53, MDM2 and Slug faciliates the proteasomal degradation of Slug by MDM2.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bdad3819-c1ca-4643-be0d-0b0e45ad800e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140942"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15574337"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19448627"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4437.6084" y="14322.93"/> <port id="pr_bdad3819-c1ca-4643-be0d-0b0e45ad800e_p1" x="4442.6084" y="14342.93"/> <port id="pr_bdad3819-c1ca-4643-be0d-0b0e45ad800e_p2" x="4442.6084" y="14312.93"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9bd0cfb4-a844-4a44-a84d-a4fe4114ad94"> <bbox w="10.0" h="10.0" x="9133.994" y="2876.1406"/> <port id="pr_9bd0cfb4-a844-4a44-a84d-a4fe4114ad94_p1" x="9138.994" y="2896.1406"/> <port id="pr_9bd0cfb4-a844-4a44-a84d-a4fe4114ad94_p2" x="9138.994" y="2866.1406"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4ae6e8c9-db16-49c4-bf90-1fc3f71abe20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15059920</p> <p>in Saos2, in human embryonal rhabdomyosarcoma derived RD (ATCC no. CCL-136), in murine skeletal muscle-derived C2C12 myoblasts (ATCC no. CRL-1772), by TP53 (luciferase reporter) upon transfection, but not by mutant TP53</p> <p>in vitro binding of in vitro translated TP53 to the promoter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4ae6e8c9-db16-49c4-bf90-1fc3f71abe20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15059920"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22383.125" y="16191.25"/> <port id="pr_4ae6e8c9-db16-49c4-bf90-1fc3f71abe20_p1" x="22388.125" y="16211.25"/> <port id="pr_4ae6e8c9-db16-49c4-bf90-1fc3f71abe20_p2" x="22388.125" y="16181.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8cb7b0d7-1e5e-4ad4-867b-3bb492cf89f4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1848.7915" y="16677.375"/> <port id="pr_8cb7b0d7-1e5e-4ad4-867b-3bb492cf89f4_p1" x="1853.7915" y="16667.375"/> <port id="pr_8cb7b0d7-1e5e-4ad4-867b-3bb492cf89f4_p2" x="1853.7915" y="16697.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_74f3b257-6e82-46b5-bdbc-f3c4446b4f03"> <bbox w="10.0" h="10.0" x="21364.223" y="8197.563"/> <port id="pr_74f3b257-6e82-46b5-bdbc-f3c4446b4f03_p1" x="21354.223" y="8202.563"/> <port id="pr_74f3b257-6e82-46b5-bdbc-f3c4446b4f03_p2" x="21384.223" y="8202.563"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a3a9fd8f-bb93-4382-bc0c-c83cfe1fe855"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1747.875" y="13694.5"/> <port id="pr_a3a9fd8f-bb93-4382-bc0c-c83cfe1fe855_p1" x="1737.875" y="13699.5"/> <port id="pr_a3a9fd8f-bb93-4382-bc0c-c83cfe1fe855_p2" x="1767.875" y="13699.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f2ec5ddc-da60-4fc2-9ea1-0b9a790faf6b"> <bbox w="10.0" h="10.0" x="25524.06" y="16094.0"/> <port id="pr_f2ec5ddc-da60-4fc2-9ea1-0b9a790faf6b_p1" x="25529.06" y="16114.0"/> <port id="pr_f2ec5ddc-da60-4fc2-9ea1-0b9a790faf6b_p2" x="25529.06" y="16084.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fdca4806-be54-446e-b77c-6441644a57e3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12198491</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fdca4806-be54-446e-b77c-6441644a57e3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12198491"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19081.043" y="15028.091"/> <port id="pr_fdca4806-be54-446e-b77c-6441644a57e3_p1" x="19086.043" y="15018.091"/> <port id="pr_fdca4806-be54-446e-b77c-6441644a57e3_p2" x="19086.043" y="15048.091"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7355b5cb-b41b-4830-baff-b7e6858d9434"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6104.0" y="18140.0"/> <port id="pr_7355b5cb-b41b-4830-baff-b7e6858d9434_p1" x="6094.0" y="18145.0"/> <port id="pr_7355b5cb-b41b-4830-baff-b7e6858d9434_p2" x="6124.0" y="18145.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea1c36dd-a011-45d6-b4ae-5485194fecf1"> <bbox w="10.0" h="10.0" x="17017.5" y="8461.541"/> <port id="pr_ea1c36dd-a011-45d6-b4ae-5485194fecf1_p1" x="17037.5" y="8466.541"/> <port id="pr_ea1c36dd-a011-45d6-b4ae-5485194fecf1_p2" x="17007.5" y="8466.541"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_56698d99-1128-4a6e-9557-74ee5e4e203c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18680.81" y="16476.457"/> <port id="pr_56698d99-1128-4a6e-9557-74ee5e4e203c_p1" x="18670.81" y="16481.457"/> <port id="pr_56698d99-1128-4a6e-9557-74ee5e4e203c_p2" x="18700.81" y="16481.457"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9d2a769c-2784-4e43-a328-419c63dd9f0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18593906</p> <p>in HEK293T with transfected proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9d2a769c-2784-4e43-a328-419c63dd9f0d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18593906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22747.06" y="15315.17"/> <port id="pr_9d2a769c-2784-4e43-a328-419c63dd9f0d_p1" x="22767.06" y="15320.17"/> <port id="pr_9d2a769c-2784-4e43-a328-419c63dd9f0d_p2" x="22737.06" y="15320.17"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_07d1d38a-1b01-4ec3-ac37-07659fa4340f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>PMID:9892620</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_07d1d38a-1b01-4ec3-ac37-07659fa4340f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9892620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22841.086" y="12704.412"/> <port id="pr_07d1d38a-1b01-4ec3-ac37-07659fa4340f_p1" x="22831.086" y="12709.412"/> <port id="pr_07d1d38a-1b01-4ec3-ac37-07659fa4340f_p2" x="22861.086" y="12709.412"/> </glyph> <glyph class="process" orientation="vertical" id="pr_419d4548-3068-4c3e-839e-0ba04638f20d"> <bbox w="10.0" h="10.0" x="29176.0" y="8392.5"/> <port id="pr_419d4548-3068-4c3e-839e-0ba04638f20d_p1" x="29181.0" y="8382.5"/> <port id="pr_419d4548-3068-4c3e-839e-0ba04638f20d_p2" x="29181.0" y="8412.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b8924e63-a54f-4a8b-96f2-ade88f087994"> <bbox w="10.0" h="10.0" x="20895.75" y="2508.5222"/> <port id="pr_b8924e63-a54f-4a8b-96f2-ade88f087994_p1" x="20885.75" y="2513.5222"/> <port id="pr_b8924e63-a54f-4a8b-96f2-ade88f087994_p2" x="20915.75" y="2513.5222"/> </glyph> <glyph class="process" orientation="vertical" id="pr_525dbd7b-456c-463b-83cf-0e2d5871975e"> <bbox w="10.0" h="10.0" x="6417.0" y="6675.0"/> <port id="pr_525dbd7b-456c-463b-83cf-0e2d5871975e_p1" x="6422.0" y="6665.0"/> <port id="pr_525dbd7b-456c-463b-83cf-0e2d5871975e_p2" x="6422.0" y="6695.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_672ad27d-2006-4438-8f92-6778d2d09ccf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18006705</p> <p>RNF8:MDC1 complex recruit HR-related proteins by this shifting from C_NHEJ to HR:</p> <p>PMID:18001825</p> <p>PMID:17303408</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_672ad27d-2006-4438-8f92-6778d2d09ccf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18006705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18001825"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14420.571" y="13769.9"/> <port id="pr_672ad27d-2006-4438-8f92-6778d2d09ccf_p1" x="14425.571" y="13759.9"/> <port id="pr_672ad27d-2006-4438-8f92-6778d2d09ccf_p2" x="14425.571" y="13789.9"/> </glyph> <glyph class="process" orientation="vertical" id="pr_59262de5-1612-46b9-a3bb-50ad588369af"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23377657</p> <p>Cleavage of ATG3 by caspases</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_59262de5-1612-46b9-a3bb-50ad588369af"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28596.186" y="11926.541"/> <port id="pr_59262de5-1612-46b9-a3bb-50ad588369af_p1" x="28601.186" y="11946.541"/> <port id="pr_59262de5-1612-46b9-a3bb-50ad588369af_p2" x="28601.186" y="11916.541"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e6c9f4a2-e199-42a1-838b-d27ab4c4443e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e6c9f4a2-e199-42a1-838b-d27ab4c4443e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613913"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1750.2649" y="15145.348"/> <port id="pr_e6c9f4a2-e199-42a1-838b-d27ab4c4443e_p1" x="1755.2649" y="15135.348"/> <port id="pr_e6c9f4a2-e199-42a1-838b-d27ab4c4443e_p2" x="1755.2649" y="15165.348"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4feff216-affb-45d7-a017-66eb1b3d02d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18586673</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4feff216-affb-45d7-a017-66eb1b3d02d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18586673"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28665.56" y="11541.917"/> <port id="pr_4feff216-affb-45d7-a017-66eb1b3d02d4_p1" x="28655.56" y="11546.917"/> <port id="pr_4feff216-affb-45d7-a017-66eb1b3d02d4_p2" x="28685.56" y="11546.917"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd012807-fcb7-406b-a1e6-a4d9d50930a1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10984057</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fd012807-fcb7-406b-a1e6-a4d9d50930a1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10984057"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20848.248" y="21286.5"/> <port id="pr_fd012807-fcb7-406b-a1e6-a4d9d50930a1_p1" x="20868.248" y="21291.5"/> <port id="pr_fd012807-fcb7-406b-a1e6-a4d9d50930a1_p2" x="20838.248" y="21291.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_94439728-5585-4c49-849b-588f4b003def"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15852005</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_94439728-5585-4c49-849b-588f4b003def"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15852005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20417.703" y="18714.0"/> <port id="pr_94439728-5585-4c49-849b-588f4b003def_p1" x="20422.703" y="18704.0"/> <port id="pr_94439728-5585-4c49-849b-588f4b003def_p2" x="20422.703" y="18734.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7991060c-b820-4fcd-806c-b194197ce9bd"> <bbox w="10.0" h="10.0" x="9219.195" y="4072.6194"/> <port id="pr_7991060c-b820-4fcd-806c-b194197ce9bd_p1" x="9209.195" y="4077.6194"/> <port id="pr_7991060c-b820-4fcd-806c-b194197ce9bd_p2" x="9239.195" y="4077.6194"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8b91fd01-45a3-4f0f-a709-493fe3ad626d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Triple phosphorylation by CDK5 inhibits PARP1</p> <p> PMID:21922195</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b91fd01-45a3-4f0f-a709-493fe3ad626d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21922195"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9885.744" y="16676.336"/> <port id="pr_8b91fd01-45a3-4f0f-a709-493fe3ad626d_p1" x="9875.744" y="16681.336"/> <port id="pr_8b91fd01-45a3-4f0f-a709-493fe3ad626d_p2" x="9905.744" y="16681.336"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_532ffe24-18d1-4d56-acb4-40ab22f2e85a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>For Fanconi</p> <p>PMID:17145857</p> <p>Fanconi is activated by interstrand crosslinking agents </p> <p>PMID:23444773, PMID:21948210, PMID:21701511</p> <p>Topoisomerate inhibitors bloch double strand DNA repair by HR, C_NHEJ and Fanconi pathways</p> <p>PMID:23259582</p> <p>For HR</p> <p>PMID:22123462, PMID:20693240</p> <p>PMID:21414716, PMID:23157317</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_532ffe24-18d1-4d56-acb4-40ab22f2e85a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17145857"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23444773"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21948210"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23259582"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22123462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20693240"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21414716"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23157317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13976.565" y="14961.547"/> <port id="pr_532ffe24-18d1-4d56-acb4-40ab22f2e85a_p1" x="13966.565" y="14966.547"/> <port id="pr_532ffe24-18d1-4d56-acb4-40ab22f2e85a_p2" x="13996.565" y="14966.547"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_1f1d5264-e144-4976-955f-da826c9b0a56"> <bbox w="10.0" h="10.0" x="12685.311" y="21188.586"/> <port id="pr_1f1d5264-e144-4976-955f-da826c9b0a56_p1" x="12675.311" y="21193.586"/> <port id="pr_1f1d5264-e144-4976-955f-da826c9b0a56_p2" x="12705.311" y="21193.586"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1d865461-4e49-4a39-a3de-355d6b8b0f39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>S272 and S89 are PKA sites in NFAT3</p> <p>PMID:10611249</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_a80f26cf-4d93-4418-b889-a532e5e619ab"> <bbox w="10.0" h="10.0" x="14549.16" y="14423.027"/> <port id="pr_a80f26cf-4d93-4418-b889-a532e5e619ab_p1" x="14569.16" y="14428.027"/> <port id="pr_a80f26cf-4d93-4418-b889-a532e5e619ab_p2" x="14539.16" y="14428.027"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e79312c0-5463-4681-a57f-0d7f9d318df8"> <bbox w="10.0" h="10.0" x="7099.424" y="5775.014"/> <port id="pr_e79312c0-5463-4681-a57f-0d7f9d318df8_p1" x="7104.424" y="5765.014"/> <port id="pr_e79312c0-5463-4681-a57f-0d7f9d318df8_p2" x="7104.424" y="5795.014"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3c7551f8-e892-4329-b6ee-1b54ef18a3e3"> <bbox w="10.0" h="10.0" x="625.9463" y="2317.8647"/> <port id="pr_3c7551f8-e892-4329-b6ee-1b54ef18a3e3_p1" x="630.9463" y="2307.8647"/> <port id="pr_3c7551f8-e892-4329-b6ee-1b54ef18a3e3_p2" x="630.9463" y="2337.8647"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_59c898f6-6d9e-4e07-8916-deb2cc8c868b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5350.0" y="16746.25"/> <port id="pr_59c898f6-6d9e-4e07-8916-deb2cc8c868b_p1" x="5340.0" y="16751.25"/> <port id="pr_59c898f6-6d9e-4e07-8916-deb2cc8c868b_p2" x="5370.0" y="16751.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d058c98-d609-41eb-aa2b-3ee2d176363b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20956384</p> <p>PMID:21209912</p> <p>PMID:19549984</p> <p>PMID:19592253</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d058c98-d609-41eb-aa2b-3ee2d176363b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209912"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19549984"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592253"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26711.81" y="17923.25"/> <port id="pr_0d058c98-d609-41eb-aa2b-3ee2d176363b_p1" x="26701.81" y="17928.25"/> <port id="pr_0d058c98-d609-41eb-aa2b-3ee2d176363b_p2" x="26731.81" y="17928.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_86d215a0-8cb8-4503-b73f-fcbeefc5f122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24885.56" y="16915.0"/> <port id="pr_86d215a0-8cb8-4503-b73f-fcbeefc5f122_p1" x="24890.56" y="16935.0"/> <port id="pr_86d215a0-8cb8-4503-b73f-fcbeefc5f122_p2" x="24890.56" y="16905.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c6f86a82-857f-46a9-99ff-699fefd11b2c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19446321</p> <p>mTORC1 and 2 induced phosphorylation, but also transcriptional regulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c6f86a82-857f-46a9-99ff-699fefd11b2c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19446321"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27064.06" y="11469.0"/> <port id="pr_c6f86a82-857f-46a9-99ff-699fefd11b2c_p1" x="27054.06" y="11474.0"/> <port id="pr_c6f86a82-857f-46a9-99ff-699fefd11b2c_p2" x="27084.06" y="11474.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4874e4c3-0f71-4392-b3e7-16936e205657"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16915281</p> <p>in mouse, PML directs mTOR to the nucleus, thereby inhibiting its interaction with Rheb and its ability to promote HIF1A translation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4874e4c3-0f71-4392-b3e7-16936e205657"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16915281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20327.81" y="16792.75"/> <port id="pr_4874e4c3-0f71-4392-b3e7-16936e205657_p1" x="20347.81" y="16797.75"/> <port id="pr_4874e4c3-0f71-4392-b3e7-16936e205657_p2" x="20317.81" y="16797.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_59a815bb-a65c-443d-bdcf-44ff64c12a84"> <bbox w="10.0" h="10.0" x="14829.699" y="16097.642"/> <port id="pr_59a815bb-a65c-443d-bdcf-44ff64c12a84_p1" x="14834.699" y="16087.642"/> <port id="pr_59a815bb-a65c-443d-bdcf-44ff64c12a84_p2" x="14834.699" y="16117.642"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e2f1f5fa-d85e-441e-8ce8-ae846d227c7a"> <bbox w="10.0" h="10.0" x="28906.0" y="3342.5"/> <port id="pr_e2f1f5fa-d85e-441e-8ce8-ae846d227c7a_p1" x="28911.0" y="3362.5"/> <port id="pr_e2f1f5fa-d85e-441e-8ce8-ae846d227c7a_p2" x="28911.0" y="3332.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_778d509e-0607-4a73-b4e7-99d2b3138b59"> <bbox w="10.0" h="10.0" x="28944.719" y="12458.784"/> <port id="pr_778d509e-0607-4a73-b4e7-99d2b3138b59_p1" x="28964.719" y="12463.784"/> <port id="pr_778d509e-0607-4a73-b4e7-99d2b3138b59_p2" x="28934.719" y="12463.784"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4125c027-e12b-470c-9b6c-0d146f7a95cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex. A direct interaction between P38 and ERK has been proposed as a mechanism to inhibit ERK phosphorylation. AP-1 mediated gene expression inhibits ERK phosphorylation.</p> <p>PMID:18039929</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4125c027-e12b-470c-9b6c-0d146f7a95cb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18039929"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9069.953" y="20024.707"/> <port id="pr_4125c027-e12b-470c-9b6c-0d146f7a95cb_p1" x="9059.953" y="20029.707"/> <port id="pr_4125c027-e12b-470c-9b6c-0d146f7a95cb_p2" x="9089.953" y="20029.707"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3d1b15f1-71bf-48d8-b612-c5b1c519103f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24376839</p> <p>PTP4A3 is implicated in cell adhesion and the regulation of focal adhesion components including integrin beta-1, Src, paxillin and p130Cas</p> <p>Similarly, PTP4A3 promotes cell invasion by increasing MMP2 activity and decreasing the expression of the MMP inhibitor, TIMP2. </p> <p>PTP4A3 is also involved in EMT: PTP4A3 overexpression in colorectal carcinoma cells downregulates epithelial markers (E-cadherin, plakoglobin, and integrin beta-3) and upregulates expression of mesenchymal markers (fibronectin and snail1).</p> <p>PMID:23691193</p> <p>Src-mediated phosphorylation of PTP4A3 Is required for Rho activation, motility and invasion promoted by PTP4A3.</p> <p>http://d-scholarship.pitt.edu/18634/1/Zimmerman_ETD-2013.pdf</p> <p>c-MYC activity was able to increase Ptp4a3 gene expression in a fibroblast cell culture model. </p> <p>Tumors from the Ptp4a3-null mice had elevated levels of both IGF1Rβ and c-MYC compared to tumors replete with PTP4A3.</p> <p>Ptp4a3-null cells displayed less migration compared to wildtype cells and loss of VEGF-induced phosphorylation of SRC protein. </p> <p>Reduced migration and SRC activation were also observed when human endothelial cells were treated with a small molecule inhibitor of PTP4A3.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3d1b15f1-71bf-48d8-b612-c5b1c519103f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24376839"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23691193"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2894.5" y="16822.27"/> <port id="pr_3d1b15f1-71bf-48d8-b612-c5b1c519103f_p1" x="2914.5" y="16827.27"/> <port id="pr_3d1b15f1-71bf-48d8-b612-c5b1c519103f_p2" x="2884.5" y="16827.27"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77f58b0c-ac4a-4b30-8c03-ac2dc6697a7f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18171670, PMID:20064462</p> <p>For regulation of HR by cell cycle. CDK1 is essential to switch cells from C_NHEJ to HR during S/G2 phase: PMID:15496928</p> <p>The complex BRCA2:FANCC:FANCG:XRCC3 activates HR:</p> <p>PMID:18212739</p> <p>For role of BLM:TOP3:RMI1 complex in the HR resection step:</p> <p>PMID:19490890</p> <p> For central role of the MRN complex and CtIP in the resection of the DNA that turns on the HR and off C_NHEJ:</p> <p>PMID:20021983 </p> <p>For inhibition of HR by RECQ5:</p> <p>PMID:19270065</p> <p>For role of CDC2 (CDK1) in DNA resection initiation in S/G2 phase, HR initiation:</p> <p>PMID:15655342, PMID:15549137, PMID:15496928</p> <p>RNF8:MDC1 complex recruit HR-related proteins by this shifting from C_NHEJ to HR:</p> <p>PMID:18001825</p> <p>SUMOlated PCNA recognizes stalled replication fork and blocks homologous recombination, re-orients toward TLS</p> <p>PMID:19217833</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_77f58b0c-ac4a-4b30-8c03-ac2dc6697a7f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18171670"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20064462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15496928"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18212739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19490890"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20021983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19270065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15655342"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15549137"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15496928"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18001825"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217833"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14129.832" y="14819.387"/> <port id="pr_77f58b0c-ac4a-4b30-8c03-ac2dc6697a7f_p1" x="14134.832" y="14809.387"/> <port id="pr_77f58b0c-ac4a-4b30-8c03-ac2dc6697a7f_p2" x="14134.832" y="14839.387"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aef7cd53-5450-4f4c-8658-a3689ef81f44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4527.8984" y="17787.5"/> <port id="pr_aef7cd53-5450-4f4c-8658-a3689ef81f44_p1" x="4532.8984" y="17777.5"/> <port id="pr_aef7cd53-5450-4f4c-8658-a3689ef81f44_p2" x="4532.8984" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_43c2fe58-356f-4435-ab83-70095bdc47fe"> <bbox w="10.0" h="10.0" x="4614.0" y="6785.0"/> <port id="pr_43c2fe58-356f-4435-ab83-70095bdc47fe_p1" x="4619.0" y="6775.0"/> <port id="pr_43c2fe58-356f-4435-ab83-70095bdc47fe_p2" x="4619.0" y="6805.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f477be5-6737-4605-b484-cb4d585b607c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEKK1 is significantly activated by TNF. Oligomerisation of TRAFs is sufficient to trigger MEKK1 binding. MEKK1 associates selectively with oligomerised TRAF2 in vivo in a TNF-dependent manner.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6f477be5-6737-4605-b484-cb4d585b607c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10555.488" y="19544.0"/> <port id="pr_6f477be5-6737-4605-b484-cb4d585b607c_p1" 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id="pr_cba07a33-8393-44d5-8ffb-dcf78fc60385_p2" x="22350.06" y="21287.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d7b11f3-b578-451d-b6e7-cfcf4d243145"> <bbox w="10.0" h="10.0" x="29951.0" y="4682.5"/> <port id="pr_7d7b11f3-b578-451d-b6e7-cfcf4d243145_p1" x="29941.0" y="4687.5"/> <port id="pr_7d7b11f3-b578-451d-b6e7-cfcf4d243145_p2" x="29971.0" y="4687.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b88d4d32-f158-4694-9c58-ed6c82b8dfcf"> <bbox w="10.0" h="10.0" x="7061.4" y="5932.0"/> <port id="pr_b88d4d32-f158-4694-9c58-ed6c82b8dfcf_p1" x="7066.4" y="5922.0"/> <port id="pr_b88d4d32-f158-4694-9c58-ed6c82b8dfcf_p2" x="7066.4" y="5952.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_7d80b5d9-730e-43e8-9dee-9e0a4b727c03"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1675.0625" y="16173.0"/> <port id="pr_7d80b5d9-730e-43e8-9dee-9e0a4b727c03_p1" x="1695.0625" y="16178.0"/> <port id="pr_7d80b5d9-730e-43e8-9dee-9e0a4b727c03_p2" x="1665.0625" y="16178.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c24dc0a4-d88d-4fc0-9fad-762c74bda6a2"> <bbox w="10.0" h="10.0" x="23954.56" y="21329.469"/> <port id="pr_c24dc0a4-d88d-4fc0-9fad-762c74bda6a2_p1" x="23944.56" y="21334.469"/> <port id="pr_c24dc0a4-d88d-4fc0-9fad-762c74bda6a2_p2" x="23974.56" y="21334.469"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9655abef-295d-439e-976e-0620edc69f01"> <bbox w="10.0" h="10.0" x="27284.06" y="15404.0"/> <port id="pr_9655abef-295d-439e-976e-0620edc69f01_p1" x="27304.06" y="15409.0"/> <port id="pr_9655abef-295d-439e-976e-0620edc69f01_p2" x="27274.06" y="15409.0"/> </glyph> <glyph class="process" orientation="horizontal" 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id="pr_8ae19d0f-2ad3-49b0-9cc8-423dd5a48667"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2981.0" y="17656.0"/> <port id="pr_8ae19d0f-2ad3-49b0-9cc8-423dd5a48667_p1" x="3001.0" y="17661.0"/> <port id="pr_8ae19d0f-2ad3-49b0-9cc8-423dd5a48667_p2" x="2971.0" y="17661.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9d524402-eb3a-48ee-8a52-5863f9d44fdc"> <bbox w="10.0" h="10.0" x="14062.756" y="16901.41"/> <port id="pr_9d524402-eb3a-48ee-8a52-5863f9d44fdc_p1" x="14082.756" y="16906.41"/> <port id="pr_9d524402-eb3a-48ee-8a52-5863f9d44fdc_p2" x="14052.756" y="16906.41"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_86fe89ba-ed86-4efd-a4e2-95f9997862f5"> <bbox w="10.0" h="10.0" x="24087.5" y="3129.9072"/> <port id="pr_86fe89ba-ed86-4efd-a4e2-95f9997862f5_p1" x="24077.5" y="3134.9072"/> <port id="pr_86fe89ba-ed86-4efd-a4e2-95f9997862f5_p2" x="24107.5" y="3134.9072"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a469985a-1970-4a7b-a206-8a044019bd16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14687661</p> <p>in NIH3T3 mouse embryonic fibroblasts over-expression of human HSP90B1 protects from TNF+CHX-induced apoptosis</p> <p>co-IP experiments in same cells (not very convincing)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218262</p> <p>PMID:17218252</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c0a57d12-3a52-4aed-9484-e40762893a29"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218262"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218252"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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y="19208.5"/> <port id="pr_ccf3e91a-04d1-4d4d-964b-b86506662c8c_p1" x="23731.309" y="19228.5"/> <port id="pr_ccf3e91a-04d1-4d4d-964b-b86506662c8c_p2" x="23731.309" y="19198.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0fa0dd0e-99f9-47bf-86d8-32c21c91d3d0"> <bbox w="10.0" h="10.0" x="3015.0" y="2836.25"/> <port id="pr_0fa0dd0e-99f9-47bf-86d8-32c21c91d3d0_p1" x="3020.0" y="2826.25"/> <port id="pr_0fa0dd0e-99f9-47bf-86d8-32c21c91d3d0_p2" x="3020.0" y="2856.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_da1ab4dd-6de1-416e-925e-9e60c440e1b5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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id="pr_01193149-b97f-4e9d-af63-2735e95b1359_p1" x="29276.0" y="7035.0"/> <port id="pr_01193149-b97f-4e9d-af63-2735e95b1359_p2" x="29276.0" y="7065.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_99623217-ec07-45aa-9f6e-a2365a70c706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:12681518 PMID:16510874</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6dae8b68-c8be-42ef-8027-563842f7806e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22345654"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2946.553" y="11011.772"/> <port id="pr_6dae8b68-c8be-42ef-8027-563842f7806e_p1" x="2936.553" y="11016.772"/> <port id="pr_6dae8b68-c8be-42ef-8027-563842f7806e_p2" x="2966.553" y="11016.772"/> </glyph> <glyph class="process" orientation="vertical" id="pr_771d120c-d7a9-4bee-b3a8-4515498ec058"> <bbox w="10.0" h="10.0" x="1115.0" y="2057.0"/> <port id="pr_771d120c-d7a9-4bee-b3a8-4515498ec058_p1" x="1120.0" y="2047.0"/> <port id="pr_771d120c-d7a9-4bee-b3a8-4515498ec058_p2" x="1120.0" y="2077.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_b62abf4b-6eaa-4eae-99b7-79b9d120e39a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3720.185" y="14108.0"/> <port id="pr_b62abf4b-6eaa-4eae-99b7-79b9d120e39a_p1" x="3725.185" y="14098.0"/> <port id="pr_b62abf4b-6eaa-4eae-99b7-79b9d120e39a_p2" x="3725.185" y="14128.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8e6f38a3-20fa-4e8e-958e-b913a5ce7546"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1713.5" y="18916.785"/> <port id="pr_8e6f38a3-20fa-4e8e-958e-b913a5ce7546_p1" x="1703.5" y="18921.785"/> <port id="pr_8e6f38a3-20fa-4e8e-958e-b913a5ce7546_p2" x="1733.5" y="18921.785"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8ee653e5-c1d5-47b0-a170-606868604c54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Upon WNT3a CRIPTO-1 binds to LRP5/6 this binding is competing with DKK binding</p> <p>PMID:23022962</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8ee653e5-c1d5-47b0-a170-606868604c54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23022962"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25205.56" y="19141.5"/> <port id="pr_8ee653e5-c1d5-47b0-a170-606868604c54_p1" x="25210.56" y="19131.5"/> <port id="pr_8ee653e5-c1d5-47b0-a170-606868604c54_p2" x="25210.56" y="19161.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f0024ba9-6339-4a04-9849-4c5c98c3ffec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> <p>PMID:19945467</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f0024ba9-6339-4a04-9849-4c5c98c3ffec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3395.375" y="9905.375"/> <port id="pr_f0024ba9-6339-4a04-9849-4c5c98c3ffec_p1" x="3385.375" y="9910.375"/> <port id="pr_f0024ba9-6339-4a04-9849-4c5c98c3ffec_p2" x="3415.375" y="9910.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_454746b9-06aa-48be-a9e3-e8cfd86efa65"> <bbox w="10.0" h="10.0" x="13205.0" y="2235.0"/> <port id="pr_454746b9-06aa-48be-a9e3-e8cfd86efa65_p1" x="13210.0" y="2255.0"/> <port id="pr_454746b9-06aa-48be-a9e3-e8cfd86efa65_p2" x="13210.0" y="2225.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1916ab86-886d-4b63-ad71-beaf07b0afe5"> <bbox w="10.0" h="10.0" x="2815.0" y="3395.0"/> <port id="pr_1916ab86-886d-4b63-ad71-beaf07b0afe5_p1" x="2820.0" y="3385.0"/> <port id="pr_1916ab86-886d-4b63-ad71-beaf07b0afe5_p2" x="2820.0" y="3415.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_70b316f7-8ead-4c17-a459-19d583d0e6b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_70b316f7-8ead-4c17-a459-19d583d0e6b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17834.06" y="12914.0"/> <port id="pr_70b316f7-8ead-4c17-a459-19d583d0e6b4_p1" x="17839.06" y="12904.0"/> <port id="pr_70b316f7-8ead-4c17-a459-19d583d0e6b4_p2" x="17839.06" y="12934.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_57cb4d75-51be-462c-afc4-4d38c3ddc4d0"> <bbox w="10.0" h="10.0" x="10349.25" y="5042.5"/> <port id="pr_57cb4d75-51be-462c-afc4-4d38c3ddc4d0_p1" x="10369.25" y="5047.5"/> <port id="pr_57cb4d75-51be-462c-afc4-4d38c3ddc4d0_p2" x="10339.25" y="5047.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_26485c7f-0419-4edc-b8b4-6675134fcc46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1715.25" y="18804.5"/> <port id="pr_26485c7f-0419-4edc-b8b4-6675134fcc46_p1" x="1705.25" y="18809.5"/> <port id="pr_26485c7f-0419-4edc-b8b4-6675134fcc46_p2" x="1735.25" y="18809.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_17dcfab1-de7e-4596-8074-b19459c9f583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MLK3 and MLK2 two MAP3Ks of JNK pathway can interact with RAC1 in a GTP-dependent manner.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_17dcfab1-de7e-4596-8074-b19459c9f583"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10331.428" y="19421.0"/> <port id="pr_17dcfab1-de7e-4596-8074-b19459c9f583_p1" x="10336.428" y="19411.0"/> <port id="pr_17dcfab1-de7e-4596-8074-b19459c9f583_p2" x="10336.428" y="19441.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_72c538ec-775a-46a5-9ff0-573cb0741946"> <bbox w="10.0" h="10.0" x="5221.25" y="2601.25"/> <port id="pr_72c538ec-775a-46a5-9ff0-573cb0741946_p1" x="5226.25" y="2591.25"/> <port id="pr_72c538ec-775a-46a5-9ff0-573cb0741946_p2" x="5226.25" y="2621.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c2569d90-6d66-4230-a001-a1a1c90756c5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19788416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c2569d90-6d66-4230-a001-a1a1c90756c5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788416"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12623.09" y="13739.789"/> <port id="pr_c2569d90-6d66-4230-a001-a1a1c90756c5_p1" x="12628.09" y="13729.789"/> <port id="pr_c2569d90-6d66-4230-a001-a1a1c90756c5_p2" x="12628.09" y="13759.789"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29067502-e06c-43ff-bb0a-92fe5569247c"> <bbox w="10.0" h="10.0" x="4387.3643" y="2605.0"/> <port id="pr_29067502-e06c-43ff-bb0a-92fe5569247c_p1" x="4392.3643" y="2625.0"/> <port id="pr_29067502-e06c-43ff-bb0a-92fe5569247c_p2" x="4392.3643" y="2595.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_043afc8e-9dde-486f-9a8d-1fcdd5fbdd73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16885213</p> <p>PMID:17430994</p> <p>PMID:21474452</p> <p>PMID:20081366</p> </body> </html> 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<p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4427.574" y="14263.5"/> <port id="pr_fc4fab28-c966-46ad-9d0b-5547f2c4089c_p1" x="4432.574" y="14283.5"/> <port id="pr_fc4fab28-c966-46ad-9d0b-5547f2c4089c_p2" x="4432.574" y="14253.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d8db8e5-537b-4f4b-81f9-cd6154976a08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>CBP-mediated transcription effects genes that are involved in stemm cell or progenitor cell maintenance and proliferation</p> <p>PMID:20920541</p> <p>Repressor complex is default present on the enhance of wnt-target genes</p> <p>PMID:16510874</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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w="10.0" h="10.0" x="23639.56" y="16102.0"/> <port id="pr_17037e1d-3ecb-40e3-8cf7-2bcd2139513e_p1" x="23644.56" y="16122.0"/> <port id="pr_17037e1d-3ecb-40e3-8cf7-2bcd2139513e_p2" x="23644.56" y="16092.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc5dd984-1da1-44b1-876c-53f87bf2965e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15084260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8571126</p> <p>PKN1 and RHPN1 as targets of small GTPase Rho.</p> <p>PMID:8662891</p> <p>RTKN is a new putative target for Rho bearing homology to PKN1, and RHPN proteins in the rho-binding domain.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_48c33d0b-a859-4d55-9c35-b82f510bf1a9"> 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orientation="horizontal" id="pr_2338817b-7a43-4e76-86b5-aaf923586e52"> <bbox w="10.0" h="10.0" x="28101.326" y="16349.0"/> <port id="pr_2338817b-7a43-4e76-86b5-aaf923586e52_p1" x="28091.326" y="16354.0"/> <port id="pr_2338817b-7a43-4e76-86b5-aaf923586e52_p2" x="28121.326" y="16354.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2af35fad-30e9-4df9-80ca-4e1a4834b284"> <bbox w="10.0" h="10.0" x="18485.0" y="3945.0"/> <port id="pr_2af35fad-30e9-4df9-80ca-4e1a4834b284_p1" x="18490.0" y="3935.0"/> <port id="pr_2af35fad-30e9-4df9-80ca-4e1a4834b284_p2" x="18490.0" y="3965.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_20958e9a-c511-460c-8b44-9c85823d74bc"> <bbox w="10.0" h="10.0" x="12820.811" y="18739.0"/> <port id="pr_20958e9a-c511-460c-8b44-9c85823d74bc_p1" x="12810.811" y="18744.0"/> <port id="pr_20958e9a-c511-460c-8b44-9c85823d74bc_p2" x="12840.811" y="18744.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff9e8cd1-6708-4104-8ad9-3f111706ba5f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ff9e8cd1-6708-4104-8ad9-3f111706ba5f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19364.422" y="16587.75"/> <port id="pr_ff9e8cd1-6708-4104-8ad9-3f111706ba5f_p1" x="19369.422" y="16577.75"/> <port id="pr_ff9e8cd1-6708-4104-8ad9-3f111706ba5f_p2" x="19369.422" y="16607.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_30f27343-d896-4a5b-9b86-dc76443ec6de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2422.2969" y="16994.25"/> <port id="pr_30f27343-d896-4a5b-9b86-dc76443ec6de_p1" x="2427.2969" y="17014.25"/> <port id="pr_30f27343-d896-4a5b-9b86-dc76443ec6de_p2" x="2427.2969" y="16984.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5296ccdf-fdae-4e0a-a1e2-f6c26db28cb7"> <bbox w="10.0" h="10.0" x="17630.371" y="18122.75"/> <port id="pr_5296ccdf-fdae-4e0a-a1e2-f6c26db28cb7_p1" x="17635.371" y="18112.75"/> <port id="pr_5296ccdf-fdae-4e0a-a1e2-f6c26db28cb7_p2" x="17635.371" y="18142.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8fd8296f-764b-44cc-8347-3e36ae78c4f9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1321.8314" y="18952.5"/> <port id="pr_8fd8296f-764b-44cc-8347-3e36ae78c4f9_p1" x="1326.8314" y="18942.5"/> <port id="pr_8fd8296f-764b-44cc-8347-3e36ae78c4f9_p2" x="1326.8314" y="18972.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb109347-d6e0-4948-8a82-aa32871d34ba"> <bbox w="10.0" h="10.0" x="26092.936" y="21144.75"/> <port id="pr_bb109347-d6e0-4948-8a82-aa32871d34ba_p1" x="26097.936" y="21164.75"/> <port id="pr_bb109347-d6e0-4948-8a82-aa32871d34ba_p2" x="26097.936" y="21134.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_84bac7b0-6b3d-4f3f-9a3d-8f4f40c8ddea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> <p>PMID:17106237</p> <p>PMID:22885520</p> <p>PMID:18612260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_84bac7b0-6b3d-4f3f-9a3d-8f4f40c8ddea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17106237"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22885520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18612260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28086.436" y="11462.213"/> <port id="pr_84bac7b0-6b3d-4f3f-9a3d-8f4f40c8ddea_p1" x="28076.436" y="11467.213"/> <port id="pr_84bac7b0-6b3d-4f3f-9a3d-8f4f40c8ddea_p2" x="28106.436" y="11467.213"/> </glyph> <glyph class="process" orientation="vertical" id="pr_21922646-d217-49df-93dc-bedd30bb3512"> <bbox w="10.0" h="10.0" x="10908.506" y="16049.355"/> <port id="pr_21922646-d217-49df-93dc-bedd30bb3512_p1" x="10913.506" y="16039.355"/> <port id="pr_21922646-d217-49df-93dc-bedd30bb3512_p2" x="10913.506" y="16069.355"/> </glyph> <glyph class="process" orientation="vertical" id="pr_524fe836-0d2a-4f53-bfcc-5a933784e570"> <bbox w="10.0" h="10.0" x="3075.0" y="3655.0"/> <port id="pr_524fe836-0d2a-4f53-bfcc-5a933784e570_p1" x="3080.0" y="3645.0"/> <port id="pr_524fe836-0d2a-4f53-bfcc-5a933784e570_p2" x="3080.0" y="3675.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3508d525-d17c-440b-a1ad-8f3c2503e65f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11387216</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3508d525-d17c-440b-a1ad-8f3c2503e65f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11387216"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25076.059" y="16659.5"/> <port id="pr_3508d525-d17c-440b-a1ad-8f3c2503e65f_p1" x="25081.059" y="16679.5"/> <port id="pr_3508d525-d17c-440b-a1ad-8f3c2503e65f_p2" x="25081.059" y="16649.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_95735ab7-f55c-490c-8470-4bb657db3067"> <bbox w="10.0" h="10.0" x="18019.81" y="16699.547"/> <port id="pr_95735ab7-f55c-490c-8470-4bb657db3067_p1" x="18009.81" y="16704.547"/> <port id="pr_95735ab7-f55c-490c-8470-4bb657db3067_p2" x="18039.81" y="16704.547"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e6ec1d49-778f-4ff6-9465-05ca5c462e66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15808505</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e6ec1d49-778f-4ff6-9465-05ca5c462e66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15808505"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12995.561" y="17841.75"/> <port id="pr_e6ec1d49-778f-4ff6-9465-05ca5c462e66_p1" x="13000.561" y="17861.75"/> <port id="pr_e6ec1d49-778f-4ff6-9465-05ca5c462e66_p2" x="13000.561" y="17831.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_03f64903-119f-47fc-8300-54422d09fcd0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4229.6196" y="18624.062"/> <port id="pr_03f64903-119f-47fc-8300-54422d09fcd0_p1" x="4234.6196" y="18644.062"/> <port id="pr_03f64903-119f-47fc-8300-54422d09fcd0_p2" x="4234.6196" y="18614.062"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6eeb0d78-f47a-4835-ad07-a1c0f38efcb1"> <bbox w="10.0" h="10.0" x="12836.811" y="18461.0"/> <port id="pr_6eeb0d78-f47a-4835-ad07-a1c0f38efcb1_p1" x="12826.811" y="18466.0"/> <port id="pr_6eeb0d78-f47a-4835-ad07-a1c0f38efcb1_p2" x="12856.811" y="18466.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_591b608a-9c35-4a56-856d-938af55ce529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18439900</p> <p>in HEK293</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_591b608a-9c35-4a56-856d-938af55ce529"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18439900"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26399.81" y="11311.25"/> <port id="pr_591b608a-9c35-4a56-856d-938af55ce529_p1" x="26404.81" y="11331.25"/> <port id="pr_591b608a-9c35-4a56-856d-938af55ce529_p2" x="26404.81" y="11301.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_19d71f41-196d-4d6d-8464-89d326239322"> <bbox w="10.0" h="10.0" x="14685.0" y="1870.0"/> <port id="pr_19d71f41-196d-4d6d-8464-89d326239322_p1" x="14690.0" y="1890.0"/> <port id="pr_19d71f41-196d-4d6d-8464-89d326239322_p2" x="14690.0" y="1860.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9792dea-2580-43dc-a9c7-464d59bed1c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a9792dea-2580-43dc-a9c7-464d59bed1c9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6462.5" y="10467.172"/> <port id="pr_a9792dea-2580-43dc-a9c7-464d59bed1c9_p1" x="6452.5" y="10472.172"/> <port id="pr_a9792dea-2580-43dc-a9c7-464d59bed1c9_p2" x="6482.5" y="10472.172"/> </glyph> <glyph class="process" orientation="vertical" id="pr_940280e7-ca4f-4806-8023-fb8e30a3f4d7"> <bbox w="10.0" h="10.0" x="20424.06" y="10669.0"/> <port id="pr_940280e7-ca4f-4806-8023-fb8e30a3f4d7_p1" x="20429.06" y="10659.0"/> <port id="pr_940280e7-ca4f-4806-8023-fb8e30a3f4d7_p2" x="20429.06" y="10689.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cefd51a9-ca74-4946-aaae-816189eeab56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20028863</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cefd51a9-ca74-4946-aaae-816189eeab56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20028863"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23579.715" y="16190.398"/> <port id="pr_cefd51a9-ca74-4946-aaae-816189eeab56_p1" x="23584.715" y="16210.398"/> <port id="pr_cefd51a9-ca74-4946-aaae-816189eeab56_p2" x="23584.715" y="16180.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_10f77a3c-fe29-4c60-911b-677fa7a36757"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2106.5" y="18167.418"/> <port id="pr_10f77a3c-fe29-4c60-911b-677fa7a36757_p1" x="2111.5" y="18157.418"/> <port id="pr_10f77a3c-fe29-4c60-911b-677fa7a36757_p2" x="2111.5" y="18187.418"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_78fd5ab0-b74b-4df0-98d4-72fe9cbf9b9b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17848687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_78fd5ab0-b74b-4df0-98d4-72fe9cbf9b9b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17848687"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27164.06" y="17695.625"/> <port id="pr_78fd5ab0-b74b-4df0-98d4-72fe9cbf9b9b_p1" x="27184.06" y="17700.625"/> <port id="pr_78fd5ab0-b74b-4df0-98d4-72fe9cbf9b9b_p2" x="27154.06" y="17700.625"/> </glyph> <glyph class="process" 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id="pr_4aac02c7-c118-4961-b83d-841164d610ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16054035</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4aac02c7-c118-4961-b83d-841164d610ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054035"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26805.418" y="21162.75"/> <port id="pr_4aac02c7-c118-4961-b83d-841164d610ac_p1" x="26810.418" y="21182.75"/> <port id="pr_4aac02c7-c118-4961-b83d-841164d610ac_p2" x="26810.418" y="21152.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_838f4a81-b9b3-4c47-9b56-70fde17a39bb"> <bbox w="10.0" h="10.0" x="2715.0" y="3355.0"/> <port id="pr_838f4a81-b9b3-4c47-9b56-70fde17a39bb_p1" x="2720.0" y="3345.0"/> <port id="pr_838f4a81-b9b3-4c47-9b56-70fde17a39bb_p2" x="2720.0" y="3375.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9777a141-cd71-434d-882a-62de013302f9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CREB target genes (c-FOS EGR-1 MKP1 BCL2 MMP13).</p> <p>PMID:19815709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9777a141-cd71-434d-882a-62de013302f9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19815709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7961.8486" y="20732.871"/> <port id="pr_9777a141-cd71-434d-882a-62de013302f9_p1" x="7966.8486" y="20722.871"/> <port id="pr_9777a141-cd71-434d-882a-62de013302f9_p2" x="7966.8486" y="20752.871"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d9a310dd-cc23-41fe-a912-fec7e862e429"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>JNK pathway negatively regulates ERK pathway by uncoupling ERK activation from MEK via activation of JUN transcriptional activity.</p> <p>A direct interaction between P38 and ERK has been proposed as a mechanism to inhibit ERK phosphorylation. AP-1 mediated gene expression inhibits ERK phosphorylation.</p> <p>PMID:12738796 PMID:18039929</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d9a310dd-cc23-41fe-a912-fec7e862e429"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12738796"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18039929"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9674.144" y="20129.418"/> <port id="pr_d9a310dd-cc23-41fe-a912-fec7e862e429_p1" x="9694.144" y="20134.418"/> <port id="pr_d9a310dd-cc23-41fe-a912-fec7e862e429_p2" x="9664.144" y="20134.418"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_88ca23cf-ee13-4be5-ae92-4cb3d84297a7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>In response to DNA damage, CHEK1 phosphorylates and activates WEE1, blocks cell cycle and allows DNA repair</p> <p>PMID:23897299, PMID:23508805</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_88ca23cf-ee13-4be5-ae92-4cb3d84297a7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23897299"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23508805"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11944.395" y="9262.4375"/> <port id="pr_88ca23cf-ee13-4be5-ae92-4cb3d84297a7_p1" x="11934.395" y="9267.4375"/> <port id="pr_88ca23cf-ee13-4be5-ae92-4cb3d84297a7_p2" x="11964.395" y="9267.4375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_469302b4-ccd8-4267-8050-acb632e69db5"> <bbox w="10.0" h="10.0" x="14235.0" y="2585.0"/> <port id="pr_469302b4-ccd8-4267-8050-acb632e69db5_p1" x="14240.0" y="2605.0"/> <port id="pr_469302b4-ccd8-4267-8050-acb632e69db5_p2" x="14240.0" y="2575.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_99906524-5c77-4b49-8ccc-e247ae42d623"> <bbox w="10.0" h="10.0" x="21360.31" y="14705.0"/> <port id="pr_99906524-5c77-4b49-8ccc-e247ae42d623_p1" x="21350.31" y="14710.0"/> <port id="pr_99906524-5c77-4b49-8ccc-e247ae42d623_p2" x="21380.31" y="14710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e01d7f42-2afc-4ab8-acf1-f5d4ab468cf6"> <bbox w="10.0" h="10.0" x="10318.75" y="296.25"/> <port id="pr_e01d7f42-2afc-4ab8-acf1-f5d4ab468cf6_p1" x="10323.75" y="286.25"/> <port id="pr_e01d7f42-2afc-4ab8-acf1-f5d4ab468cf6_p2" x="10323.75" y="316.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b004807f-f73f-4b4d-8e79-a50ed191ae98"> <bbox w="10.0" h="10.0" x="23498.56" y="10293.5"/> <port id="pr_b004807f-f73f-4b4d-8e79-a50ed191ae98_p1" x="23503.56" y="10283.5"/> <port id="pr_b004807f-f73f-4b4d-8e79-a50ed191ae98_p2" x="23503.56" y="10313.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_624e0077-93a9-49f1-94dc-17c0d31d99ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Sequential sumoylion of NFAT1, might also occur in NFAT3 and 4. There is no special character for sumoylation in CellDesigner, so this is indicated by a "?". Lys684 is targeted firstly, followed by Lys897.</p> <p>PMID:15117942</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_624e0077-93a9-49f1-94dc-17c0d31d99ba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15117942"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16163.061" y="20709.5"/> <port id="pr_624e0077-93a9-49f1-94dc-17c0d31d99ba_p1" x="16168.061" y="20699.5"/> <port id="pr_624e0077-93a9-49f1-94dc-17c0d31d99ba_p2" x="16168.061" y="20729.5"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_648a03aa-9c4d-4341-8373-ee830977937b"> <bbox w="20.0" h="20.0" x="16268.811" y="20741.75"/> <port id="logicglyph_648a03aa-9c4d-4341-8373-ee830977937b_p1" x="16298.811" y="20751.75"/> <port id="logicglyph_648a03aa-9c4d-4341-8373-ee830977937b_p2" x="16258.811" y="20751.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_c1824da1-2a5e-4859-a688-17990767f0e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1266.4434" y="15472.5"/> <port id="pr_c1824da1-2a5e-4859-a688-17990767f0e1_p1" x="1271.4434" y="15462.5"/> <port id="pr_c1824da1-2a5e-4859-a688-17990767f0e1_p2" x="1271.4434" y="15492.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8b67a7ba-6b45-4a5d-bcc9-913bde9a5773"> <bbox w="10.0" h="10.0" x="2937.5" y="4545.0"/> <port id="pr_8b67a7ba-6b45-4a5d-bcc9-913bde9a5773_p1" x="2957.5" y="4550.0"/> <port id="pr_8b67a7ba-6b45-4a5d-bcc9-913bde9a5773_p2" x="2927.5" y="4550.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8dad2436-a12a-4cf5-b725-8907570ae236"> <bbox w="10.0" h="10.0" x="10747.341" y="6852.5"/> <port id="pr_8dad2436-a12a-4cf5-b725-8907570ae236_p1" x="10752.341" y="6842.5"/> <port id="pr_8dad2436-a12a-4cf5-b725-8907570ae236_p2" x="10752.341" y="6872.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_38d62e15-b241-4ae8-a81d-e9004af2ad79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3889.8037" y="15038.0"/> <port id="pr_38d62e15-b241-4ae8-a81d-e9004af2ad79_p1" x="3894.8037" y="15058.0"/> <port id="pr_38d62e15-b241-4ae8-a81d-e9004af2ad79_p2" x="3894.8037" y="15028.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92596edd-b4ff-4f31-8467-081b4ca5bd85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MKP-1 (DUSP1) preferentially inactivates JNK and P38.</p> <p>PMID:19436832</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_92596edd-b4ff-4f31-8467-081b4ca5bd85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19436832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10357.346" y="20540.5"/> <port id="pr_92596edd-b4ff-4f31-8467-081b4ca5bd85_p1" x="10362.346" y="20530.5"/> <port id="pr_92596edd-b4ff-4f31-8467-081b4ca5bd85_p2" x="10362.346" y="20560.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_46d97257-a75e-4304-98ac-7b59c88424f0"> <bbox w="10.0" h="10.0" x="2857.9688" y="3908.75"/> <port id="pr_46d97257-a75e-4304-98ac-7b59c88424f0_p1" x="2862.9688" y="3898.75"/> <port id="pr_46d97257-a75e-4304-98ac-7b59c88424f0_p2" x="2862.9688" y="3928.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_53008314-165e-4511-833e-091d30ab9694"> <bbox w="10.0" h="10.0" x="29346.0" y="7838.75"/> <port id="pr_53008314-165e-4511-833e-091d30ab9694_p1" x="29336.0" y="7843.75"/> <port id="pr_53008314-165e-4511-833e-091d30ab9694_p2" x="29366.0" y="7843.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bbf244f1-b049-48e7-868e-ea78575af5b9"> <bbox w="10.0" h="10.0" x="30627.348" y="2130.0"/> <port id="pr_bbf244f1-b049-48e7-868e-ea78575af5b9_p1" x="30632.348" y="2120.0"/> <port id="pr_bbf244f1-b049-48e7-868e-ea78575af5b9_p2" x="30632.348" y="2150.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b2865c39-a1ec-440a-a351-b26fdba873da"> <bbox w="10.0" h="10.0" x="6389.0" y="7839.0713"/> <port id="pr_b2865c39-a1ec-440a-a351-b26fdba873da_p1" x="6409.0" y="7844.0713"/> <port id="pr_b2865c39-a1ec-440a-a351-b26fdba873da_p2" x="6379.0" y="7844.0713"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e123d419-cea8-4945-b56c-6dfa718fb8f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16519628</p> <p>ARHGAP31 as a GAP of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e123d419-cea8-4945-b56c-6dfa718fb8f7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16519628"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1207.5" y="15108.26"/> <port id="pr_d2eb8534-5ac4-4a4d-80b3-6e5fa0f50e0f_p1" x="1227.5" y="15113.26"/> <port id="pr_d2eb8534-5ac4-4a4d-80b3-6e5fa0f50e0f_p2" x="1197.5" y="15113.26"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d680cfe-d4e2-4ab2-97b2-c2a94e11af4e"> <bbox w="10.0" h="10.0" x="20785.0" y="830.0"/> <port id="pr_1d680cfe-d4e2-4ab2-97b2-c2a94e11af4e_p1" x="20790.0" y="820.0"/> <port id="pr_1d680cfe-d4e2-4ab2-97b2-c2a94e11af4e_p2" x="20790.0" y="850.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_469a939b-ca44-4f2f-8fc1-935ee7784e52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:23022962</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_469a939b-ca44-4f2f-8fc1-935ee7784e52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23022962"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25227.06" y="19079.0"/> <port id="pr_469a939b-ca44-4f2f-8fc1-935ee7784e52_p1" x="25217.06" y="19084.0"/> <port 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</glyph> <glyph class="omitted process" orientation="vertical" id="pr_83ffb7e1-74ab-4191-a1f7-878bf11a902e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19751508</p> <p>PMID:22270359</p> <p>PMID:16940750</p> <p>in the absence of Wnt ligands, b-catenin is phosphorylated by CK1 and GSK-3 in the context of a destruction complex with APC and Axin.</p> <p>Phosphorylated b-catenin is consequently targeted for ubiquitination and degraded. </p> <p>Upon ligand binding (right panel), DVL1 (dishevelled) recruits the Axin-GSK-3 complex, resulting in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83ffb7e1-74ab-4191-a1f7-878bf11a902e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19751508"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22270359"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16940750"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3159.5308" y="15017.5"/> <port id="pr_83ffb7e1-74ab-4191-a1f7-878bf11a902e_p1" x="3164.5308" y="15037.5"/> <port id="pr_83ffb7e1-74ab-4191-a1f7-878bf11a902e_p2" x="3164.5308" y="15007.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fe2b6a64-a083-486a-b22f-33efc496589d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Not sure if ubiquitination by XIAP is necessary for replacement of TLE by b-catenin upon canonical WNT signaling</p> <p>PMID:22304967</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<p>References:</p> <p>PMID:15119951</p> <p>SURF1 mutations are associated with Leigh syndrome (cytochrome oxidase deficiency)</p> <p>PMID:11389896</p> <p>SURF1 Homolog of Yeast (Shy) is necessary for COX assembly and stability</p> <p>PMID:19625251</p> <p>Paroccocus denitrificans SURF1 homologs were proposed to promote heme a insertion into COX subunit 1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4ffa99c1-27c6-4eef-a14b-1f8667bbb203"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15119951"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11389896"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19625251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19760.81" y="13824.0"/> <port id="pr_4ffa99c1-27c6-4eef-a14b-1f8667bbb203_p1" x="19765.81" y="13844.0"/> <port id="pr_4ffa99c1-27c6-4eef-a14b-1f8667bbb203_p2" x="19765.81" y="13814.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f88cdaab-5bc2-4a09-b64d-59a16e525c48"> <bbox w="10.0" h="10.0" x="11979.529" y="17696.75"/> <port id="pr_f88cdaab-5bc2-4a09-b64d-59a16e525c48_p1" x="11984.529" y="17686.75"/> <port id="pr_f88cdaab-5bc2-4a09-b64d-59a16e525c48_p2" x="11984.529" y="17716.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16e205bc-e74e-4f0e-b7a3-51c88a838f6f"> <bbox w="10.0" h="10.0" x="3325.0" y="3745.0"/> <port id="pr_16e205bc-e74e-4f0e-b7a3-51c88a838f6f_p1" x="3330.0" y="3735.0"/> <port id="pr_16e205bc-e74e-4f0e-b7a3-51c88a838f6f_p2" x="3330.0" y="3765.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fe7e42fd-1166-4068-acef-a7a46776331f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1910.8969" y="15808.574"/> <port id="pr_fe7e42fd-1166-4068-acef-a7a46776331f_p1" x="1900.8969" y="15813.574"/> <port id="pr_fe7e42fd-1166-4068-acef-a7a46776331f_p2" x="1930.8969" y="15813.574"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7eea60c9-d45c-476f-82b7-6db1d5a8c8af"> <bbox w="10.0" h="10.0" x="18481.145" y="12792.441"/> <port id="pr_7eea60c9-d45c-476f-82b7-6db1d5a8c8af_p1" x="18486.145" y="12782.441"/> <port id="pr_7eea60c9-d45c-476f-82b7-6db1d5a8c8af_p2" x="18486.145" y="12812.441"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_019ed244-23ab-4b43-ab58-f74aa1533aae"> <bbox w="10.0" h="10.0" x="17674.023" y="20567.0"/> <port id="pr_019ed244-23ab-4b43-ab58-f74aa1533aae_p1" x="17679.023" y="20557.0"/> <port id="pr_019ed244-23ab-4b43-ab58-f74aa1533aae_p2" x="17679.023" y="20587.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8811cf02-2b8a-4927-9c92-ef8c95f87808"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20932932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8811cf02-2b8a-4927-9c92-ef8c95f87808"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20932932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12174.561" y="19928.0"/> <port id="pr_8811cf02-2b8a-4927-9c92-ef8c95f87808_p1" x="12164.561" y="19933.0"/> <port id="pr_8811cf02-2b8a-4927-9c92-ef8c95f87808_p2" x="12194.561" y="19933.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3b0376a5-c1a0-44a1-b86a-4aa7ddd3a54c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20043986</p> <p>in isolated mitochondria, Ca2+-dependent and ROS-mediated carbonylation of AIF.</p> <p>carbonylated AIF as a prefered substrate for calpains</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3b0376a5-c1a0-44a1-b86a-4aa7ddd3a54c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20043986"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19112.873" y="13486.3125"/> <port id="pr_3b0376a5-c1a0-44a1-b86a-4aa7ddd3a54c_p1" x="19102.873" y="13491.3125"/> <port id="pr_3b0376a5-c1a0-44a1-b86a-4aa7ddd3a54c_p2" x="19132.873" y="13491.3125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c5d3221a-8b79-476e-9002-ab50c9a84743"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19324.123" y="11528.0625"/> <port id="pr_c5d3221a-8b79-476e-9002-ab50c9a84743_p1" x="19314.123" y="11533.0625"/> <port id="pr_c5d3221a-8b79-476e-9002-ab50c9a84743_p2" x="19344.123" y="11533.0625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9edbef43-6ec0-4cc3-bed1-389499e531d3"> <bbox w="10.0" h="10.0" x="21045.31" y="10666.5"/> <port id="pr_9edbef43-6ec0-4cc3-bed1-389499e531d3_p1" x="21065.31" y="10671.5"/> <port id="pr_9edbef43-6ec0-4cc3-bed1-389499e531d3_p2" x="21035.31" y="10671.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_98b2b044-2306-4e22-bd1f-7d0fb29fb29c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16885023, PMID:17303408</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_98b2b044-2306-4e22-bd1f-7d0fb29fb29c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13221.706" y="12182.453"/> <port id="pr_98b2b044-2306-4e22-bd1f-7d0fb29fb29c_p1" x="13241.706" y="12187.453"/> <port id="pr_98b2b044-2306-4e22-bd1f-7d0fb29fb29c_p2" x="13211.706" y="12187.453"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_69f2c560-f156-4d57-adc6-581173f51f37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6123.1396" y="14762.0"/> <port id="pr_69f2c560-f156-4d57-adc6-581173f51f37_p1" x="6128.1396" y="14782.0"/> <port id="pr_69f2c560-f156-4d57-adc6-581173f51f37_p2" x="6128.1396" y="14752.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_337cc1f1-4615-478b-828a-b6916a45d574"> <bbox w="10.0" h="10.0" x="9009.354" y="4630.2383"/> <port id="pr_337cc1f1-4615-478b-828a-b6916a45d574_p1" x="9014.354" y="4650.2383"/> <port id="pr_337cc1f1-4615-478b-828a-b6916a45d574_p2" x="9014.354" y="4620.2383"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b52f5293-6e5c-4220-bb35-80543fc6946b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Regulation of HR DNA repair foci formation regulation by UBc13:</p> <p>PMID:17349954</p> <p>For role of SMARCAL1/RPA in stalled relication fork repair and in the homologous recombination:</p> <p>PMID:19841479, PMID:19793861, PMID:19793862</p> <p>MCM8*/MCM9* colocolize at RAD51 filament and reqired for interstrand crosslinks repair</p> <p>PMID:22771115</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b52f5293-6e5c-4220-bb35-80543fc6946b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17349954"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19841479"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22771115"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14129.832" y="15979.909"/> <port id="pr_b52f5293-6e5c-4220-bb35-80543fc6946b_p1" x="14134.832" y="15969.909"/> <port id="pr_b52f5293-6e5c-4220-bb35-80543fc6946b_p2" x="14134.832" y="15999.909"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_622d34c3-e1ce-451c-bf49-06b9ab882e7a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19960022</p> <p>by MIR34A and MIR449A</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_622d34c3-e1ce-451c-bf49-06b9ab882e7a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19960022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23475.863" y="15501.76"/> <port id="pr_622d34c3-e1ce-451c-bf49-06b9ab882e7a_p1" x="23465.863" y="15506.76"/> <port id="pr_622d34c3-e1ce-451c-bf49-06b9ab882e7a_p2" x="23495.863" y="15506.76"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_53442695-665a-47ac-a6ad-e3c6c898af4a"> <bbox w="20.0" h="20.0" x="21197.305" y="15760.728"/> <port id="logicglyph_53442695-665a-47ac-a6ad-e3c6c898af4a_p1" x="21187.305" y="15770.728"/> <port id="logicglyph_53442695-665a-47ac-a6ad-e3c6c898af4a_p2" x="21227.305" y="15770.728"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5e3bb9d8-b5f6-4b53-b4df-6c42bc9b1f39"> <bbox w="10.0" h="10.0" x="24556.56" y="12427.125"/> <port id="pr_5e3bb9d8-b5f6-4b53-b4df-6c42bc9b1f39_p1" x="24576.56" y="12432.125"/> <port id="pr_5e3bb9d8-b5f6-4b53-b4df-6c42bc9b1f39_p2" x="24546.56" y="12432.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_82890072-5b80-45b1-b05c-510e219361ab"> <bbox w="10.0" h="10.0" x="3844.3406" y="4471.75"/> <port id="pr_82890072-5b80-45b1-b05c-510e219361ab_p1" x="3849.3406" y="4461.75"/> <port id="pr_82890072-5b80-45b1-b05c-510e219361ab_p2" x="3849.3406" y="4491.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e1d1238e-0ee8-4b03-a1ea-c7d0d4ca1eab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1089.6078" y="17953.314"/> <port id="pr_e1d1238e-0ee8-4b03-a1ea-c7d0d4ca1eab_p1" x="1094.6078" y="17943.314"/> <port id="pr_e1d1238e-0ee8-4b03-a1ea-c7d0d4ca1eab_p2" x="1094.6078" y="17973.314"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1f41a0da-67a0-4b9a-a90c-9bbf48cdbdff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15584861</p> <p>PMID:10648629</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1f41a0da-67a0-4b9a-a90c-9bbf48cdbdff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15584861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10648629"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13470.311" y="17809.236"/> <port id="pr_1f41a0da-67a0-4b9a-a90c-9bbf48cdbdff_p1" x="13490.311" y="17814.236"/> <port id="pr_1f41a0da-67a0-4b9a-a90c-9bbf48cdbdff_p2" x="13460.311" y="17814.236"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_274ca235-bace-4fc2-8e3e-649496eb1889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:11796223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_274ca235-bace-4fc2-8e3e-649496eb1889"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11796223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18063.81" y="19430.0"/> <port id="pr_274ca235-bace-4fc2-8e3e-649496eb1889_p1" x="18053.81" y="19435.0"/> <port id="pr_274ca235-bace-4fc2-8e3e-649496eb1889_p2" x="18083.81" y="19435.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_420cfdbe-907f-4db9-a5ba-c80d70c652d7"> <bbox w="10.0" h="10.0" x="18347.625" y="1582.0"/> <port id="pr_420cfdbe-907f-4db9-a5ba-c80d70c652d7_p1" x="18352.625" y="1602.0"/> <port id="pr_420cfdbe-907f-4db9-a5ba-c80d70c652d7_p2" x="18352.625" y="1572.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3f6554d7-3b6c-4fe5-a790-83452ca49524"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4036.75" y="16351.15"/> <port id="pr_3f6554d7-3b6c-4fe5-a790-83452ca49524_p1" x="4056.75" y="16356.15"/> <port id="pr_3f6554d7-3b6c-4fe5-a790-83452ca49524_p2" x="4026.75" y="16356.15"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2b8bec2d-c387-4a2b-90d1-057678505026"> <bbox w="10.0" h="10.0" x="26160.31" y="10013.375"/> <port id="pr_2b8bec2d-c387-4a2b-90d1-057678505026_p1" x="26150.31" y="10018.375"/> <port id="pr_2b8bec2d-c387-4a2b-90d1-057678505026_p2" x="26180.31" y="10018.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4443fd02-7bcb-47a3-83b2-c4d2de88183b"> <bbox w="10.0" h="10.0" x="24183.06" y="15623.5"/> <port id="pr_4443fd02-7bcb-47a3-83b2-c4d2de88183b_p1" x="24203.06" y="15628.5"/> <port id="pr_4443fd02-7bcb-47a3-83b2-c4d2de88183b_p2" x="24173.06" y="15628.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4357a9d8-371e-4ebb-91aa-d85365d8d79d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20956384</p> <p>PMID:20643644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4357a9d8-371e-4ebb-91aa-d85365d8d79d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Calpain might be involved in EMT as it can proteolyse many proteins that are involved in cell adhesion.</p> <p>PMID:16129881</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_816167fb-8775-4f2e-8b53-9cc8d8a7eb1e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16129881"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17764.395" y="18150.0"/> <port id="pr_816167fb-8775-4f2e-8b53-9cc8d8a7eb1e_p1" x="17769.395" y="18140.0"/> <port id="pr_816167fb-8775-4f2e-8b53-9cc8d8a7eb1e_p2" x="17769.395" y="18170.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eacbf5d8-638e-4e35-a6d3-a57c936fc4c6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:TLS</p> <p>References:</p> <p>For hyper-phosphotyration of REV1 in cell cycle and DNA damage-dependent manner. Hyper-phosphorylation makes REV1 regulatory molecule for activating TLS pathway</p> <p>PMID:17035102, PMID:19258535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eacbf5d8-638e-4e35-a6d3-a57c936fc4c6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17035102"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19258535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17046.518" y="15381.147"/> <port id="pr_eacbf5d8-638e-4e35-a6d3-a57c936fc4c6_p1" x="17066.518" y="15386.147"/> <port id="pr_eacbf5d8-638e-4e35-a6d3-a57c936fc4c6_p2" x="17036.518" y="15386.147"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_610a188e-0b1f-483c-9832-4d59d0bd6be7"> <bbox w="20.0" h="20.0" x="14936.114" y="15271.811"/> <port id="logicglyph_610a188e-0b1f-483c-9832-4d59d0bd6be7_p1" x="14926.114" y="15281.811"/> <port id="logicglyph_610a188e-0b1f-483c-9832-4d59d0bd6be7_p2" x="14966.114" y="15281.811"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_19e009ab-27d6-4d49-8745-13fa81202dfb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15525785 GSK3B mediated phosphorylation of Bax S163</p> <p>in HEK293 human cells</p> <p>in rat cerebellar granule neurons</p> <p>PMID:16709574 JNK- and p38- dependent phosphrylation of BAX, most probably on T167</p> <p>in HepG2 human hepatoma cell line</p> <p>in LLC-PK1 porcine kidney cell line</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_19e009ab-27d6-4d49-8745-13fa81202dfb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15525785"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16709574"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23579.06" y="11754.0"/> <port id="pr_19e009ab-27d6-4d49-8745-13fa81202dfb_p1" x="23569.06" y="11759.0"/> <port id="pr_19e009ab-27d6-4d49-8745-13fa81202dfb_p2" x="23599.06" y="11759.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f2b40e37-0547-4bd8-8a5f-71792b451d5c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22753312</p> <p>direct regulation of ZEB2 by miR-30e</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f2b40e37-0547-4bd8-8a5f-71792b451d5c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22753312"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3965.7805" y="17758.25"/> <port id="pr_f2b40e37-0547-4bd8-8a5f-71792b451d5c_p1" x="3970.7805" y="17748.25"/> <port id="pr_f2b40e37-0547-4bd8-8a5f-71792b451d5c_p2" x="3970.7805" y="17778.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4becdefa-0d5f-4ef8-be3a-d118e0627ab0"> <bbox w="10.0" h="10.0" x="23625.06" y="21375.0"/> <port id="pr_4becdefa-0d5f-4ef8-be3a-d118e0627ab0_p1" x="23615.06" y="21380.0"/> <port id="pr_4becdefa-0d5f-4ef8-be3a-d118e0627ab0_p2" x="23645.06" y="21380.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6727c954-8467-4273-9d99-1d0c6af333e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16680151</p> <p>PMID:20452955</p> <p>PMID:19216069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6727c954-8467-4273-9d99-1d0c6af333e2"> <bqbiol:isEncodedBy> 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id="pr_5ac6492b-e8aa-4f15-9994-2a3119f9ebc8"> <bbox w="10.0" h="10.0" x="27659.06" y="14384.0"/> <port id="pr_5ac6492b-e8aa-4f15-9994-2a3119f9ebc8_p1" x="27679.06" y="14389.0"/> <port id="pr_5ac6492b-e8aa-4f15-9994-2a3119f9ebc8_p2" x="27649.06" y="14389.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_de940cc5-5962-4b8a-a632-86b450a05c22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3729.0" y="13935.931"/> <port id="pr_de940cc5-5962-4b8a-a632-86b450a05c22_p1" x="3734.0" y="13955.931"/> <port id="pr_de940cc5-5962-4b8a-a632-86b450a05c22_p2" x="3734.0" y="13925.931"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0b2f54db-ef15-4592-807d-225ea89fbe1f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1756.0" y="12811.0"/> <port id="pr_0b2f54db-ef15-4592-807d-225ea89fbe1f_p1" x="1746.0" y="12816.0"/> <port id="pr_0b2f54db-ef15-4592-807d-225ea89fbe1f_p2" x="1776.0" y="12816.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_babe78dd-b6ac-4707-a68e-f8a19179d3ca"> <bbox w="10.0" h="10.0" x="30531.0" y="2560.0"/> <port id="pr_babe78dd-b6ac-4707-a68e-f8a19179d3ca_p1" x="30536.0" y="2550.0"/> <port id="pr_babe78dd-b6ac-4707-a68e-f8a19179d3ca_p2" x="30536.0" y="2580.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_719147ac-dea5-4fcc-9c29-2d17fed797a8"> <bbox w="10.0" h="10.0" x="27576.56" y="11411.5"/> <port id="pr_719147ac-dea5-4fcc-9c29-2d17fed797a8_p1" x="27581.56" y="11431.5"/> <port id="pr_719147ac-dea5-4fcc-9c29-2d17fed797a8_p2" x="27581.56" y="11401.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_62bc9ae0-8462-4b0b-a6e2-2bd82b820b4a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11283614</p> <p>Miz1: a Myc-interacting Zinc-finger protein that recognizes certain transcriptional initiator elements</p> <p>One of this transcriptional initiator element contains the sequence 5'-CCCACTCTGC corresponding to the p15INK4B transcriptional intiator</p> <p>Physical interaction between Smad proteins and Miz-1:</p> <p>-Immunoprecipitation of endogenous Smad2 and Smad3 followed by anti-Miz western bloting provided evidence for an association</p> <p>-This association was stimulated by addition of TGFB</p> <p>-Interaction was observed between Miz1 and Smad3 and Smad4 but no clear interaction was observed between Miz1 and Smad2</p> <p>-Smad3 and weakly Smad4 can directly and selectively bind to Miz1 through the MH1 domain</p> <p>-Although Sp1-Smad interactions have been reported, Sp1 does not directly bind to Miz1, even in the presence of TGFB.</p> <p>-The Smad-interaction region of Miz1 does not overlap with the Myc-interaction region.</p> <p>-Myc did not inhibit the Smad-Miz1 interaction</p> <p>-Miz1 can bridge Smad proteins and Myc when these proteins coexist.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_7ea25935-5d63-487e-8215-13799956a46e_p1" x="18940.0" y="6810.0"/> <port id="pr_7ea25935-5d63-487e-8215-13799956a46e_p2" x="18940.0" y="6840.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_2daccb93-7180-4406-b1b9-7f3e063eb178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5216.8237" y="18392.312"/> <port id="pr_2daccb93-7180-4406-b1b9-7f3e063eb178_p1" x="5236.8237" y="18397.312"/> <port id="pr_2daccb93-7180-4406-b1b9-7f3e063eb178_p2" x="5206.8237" y="18397.312"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f4a566f5-ca70-4472-8a91-74cf7bb74ef4"> <bbox w="10.0" h="10.0" x="18609.895" y="10400.5"/> <port id="pr_f4a566f5-ca70-4472-8a91-74cf7bb74ef4_p1" x="18614.895" y="10420.5"/> <port id="pr_f4a566f5-ca70-4472-8a91-74cf7bb74ef4_p2" x="18614.895" y="10390.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_95d21882-16a7-4c3e-8232-41054d9ed991"> <bbox w="10.0" h="10.0" x="22154.969" y="21245.5"/> <port id="pr_95d21882-16a7-4c3e-8232-41054d9ed991_p1" x="22144.969" y="21250.5"/> <port id="pr_95d21882-16a7-4c3e-8232-41054d9ed991_p2" x="22174.969" y="21250.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69cb396b-bcca-49d2-9e07-717dc593ccee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P53 target genes: P21WAF1 MDM2 PERP NOXA GADD45 DDB2.</p> <p>PMID:15856024</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_69cb396b-bcca-49d2-9e07-717dc593ccee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15856024"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10808.115" y="20700.111"/> <port id="pr_69cb396b-bcca-49d2-9e07-717dc593ccee_p1" x="10813.115" y="20690.111"/> <port id="pr_69cb396b-bcca-49d2-9e07-717dc593ccee_p2" x="10813.115" y="20720.111"/> </glyph> <glyph class="process" orientation="vertical" id="pr_35042195-b52e-4d49-9a08-02503bf7ed2d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_35042195-b52e-4d49-9a08-02503bf7ed2d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6128.5" y="10194.25"/> <port id="pr_35042195-b52e-4d49-9a08-02503bf7ed2d_p1" x="6133.5" y="10214.25"/> <port id="pr_35042195-b52e-4d49-9a08-02503bf7ed2d_p2" x="6133.5" y="10184.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0acf69eb-5f5c-4959-8ed3-cf1df3b3eabc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2643.5" y="16636.5"/> <port id="pr_0acf69eb-5f5c-4959-8ed3-cf1df3b3eabc_p1" x="2663.5" y="16641.5"/> <port id="pr_0acf69eb-5f5c-4959-8ed3-cf1df3b3eabc_p2" x="2633.5" y="16641.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_de4493d8-7c36-4a91-837b-31716e0b7595"> <bbox w="10.0" h="10.0" x="27669.84" y="12500.625"/> <port id="pr_de4493d8-7c36-4a91-837b-31716e0b7595_p1" x="27674.84" y="12520.625"/> <port id="pr_de4493d8-7c36-4a91-837b-31716e0b7595_p2" x="27674.84" y="12490.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fe36ee62-bfc1-4f30-90b2-f335d283daf2"> <bbox w="10.0" h="10.0" x="16823.79" y="6061.926"/> <port id="pr_fe36ee62-bfc1-4f30-90b2-f335d283daf2_p1" x="16828.79" y="6051.926"/> <port id="pr_fe36ee62-bfc1-4f30-90b2-f335d283daf2_p2" x="16828.79" y="6081.926"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_03f51363-0858-4cc8-99e3-ba0521b3f952"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27036022</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03f51363-0858-4cc8-99e3-ba0521b3f952"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27036022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4827.5" y="9706.75"/> <port id="pr_03f51363-0858-4cc8-99e3-ba0521b3f952_p1" x="4847.5" y="9711.75"/> <port id="pr_03f51363-0858-4cc8-99e3-ba0521b3f952_p2" x="4817.5" y="9711.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_820a3cd2-93a3-4389-b351-f7364e90b5a4"> <bbox w="10.0" h="10.0" x="29528.5" y="3325.0"/> <port id="pr_820a3cd2-93a3-4389-b351-f7364e90b5a4_p1" x="29548.5" y="3330.0"/> <port id="pr_820a3cd2-93a3-4389-b351-f7364e90b5a4_p2" x="29518.5" y="3330.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0481168a-6729-42c0-bf34-07884b4e23d4"> <bbox w="10.0" h="10.0" x="24700.992" y="15162.75"/> <port id="pr_0481168a-6729-42c0-bf34-07884b4e23d4_p1" x="24705.992" y="15182.75"/> <port id="pr_0481168a-6729-42c0-bf34-07884b4e23d4_p2" x="24705.992" y="15152.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7785fd86-b0ed-4e42-ba7d-ed2dd2325379"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:9812896</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7785fd86-b0ed-4e42-ba7d-ed2dd2325379"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9812896"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13658.811" y="18249.5"/> <port id="pr_7785fd86-b0ed-4e42-ba7d-ed2dd2325379_p1" x="13648.811" y="18254.5"/> <port id="pr_7785fd86-b0ed-4e42-ba7d-ed2dd2325379_p2" x="13678.811" y="18254.5"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_26e02e53-c13e-43a0-b639-9944b4b56de6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>cf. Rb pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21886.56" y="16509.0"/> <port id="pr_26e02e53-c13e-43a0-b639-9944b4b56de6_p1" x="21891.56" y="16499.0"/> <port id="pr_26e02e53-c13e-43a0-b639-9944b4b56de6_p2" x="21891.56" y="16529.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aab04502-5374-47f1-8128-23498c84daa2"> <bbox w="10.0" h="10.0" x="7105.0" y="3263.5"/> <port id="pr_aab04502-5374-47f1-8128-23498c84daa2_p1" x="7110.0" y="3253.5"/> <port id="pr_aab04502-5374-47f1-8128-23498c84daa2_p2" x="7110.0" y="3283.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d05e697c-46a8-4a65-b079-81a60c8e81d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20643644</p> <p>PMID:19878745</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d05e697c-46a8-4a65-b079-81a60c8e81d5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20643644"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19878745"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27639.52" y="18052.773"/> <port id="pr_d05e697c-46a8-4a65-b079-81a60c8e81d5_p1" x="27644.52" y="18042.773"/> <port id="pr_d05e697c-46a8-4a65-b079-81a60c8e81d5_p2" x="27644.52" y="18072.773"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4bda926f-f24f-4170-8475-271eb091aa56"> <bbox w="10.0" h="10.0" x="378.50433" y="2490.75"/> <port id="pr_4bda926f-f24f-4170-8475-271eb091aa56_p1" x="383.50433" y="2510.75"/> <port id="pr_4bda926f-f24f-4170-8475-271eb091aa56_p2" x="383.50433" y="2480.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ef1b3f57-14b5-4594-9c3c-cdc2a3f4e71e"> <bbox w="10.0" h="10.0" x="24499.06" y="14239.0"/> <port id="pr_ef1b3f57-14b5-4594-9c3c-cdc2a3f4e71e_p1" x="24504.06" y="14259.0"/> <port id="pr_ef1b3f57-14b5-4594-9c3c-cdc2a3f4e71e_p2" x="24504.06" y="14229.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ba9d9b03-bef7-45c5-aee5-67fd22239026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20265.676" y="13509.468"/> <port id="pr_ba9d9b03-bef7-45c5-aee5-67fd22239026_p1" x="20255.676" y="13514.468"/> <port id="pr_ba9d9b03-bef7-45c5-aee5-67fd22239026_p2" x="20285.676" y="13514.468"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c5d3cf16-8f49-4886-9533-f91b4f5c24a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21883379</p> <p>PMID:18297062</p> <p>TWIST is a downstream target of HIF-1</p> <p>Hypoxia or HIF-1 induces EMT through the direct activation of TWIST expression</p> <p>PMID:19412634</p> <p>Twist is a target of Snail1</p> <p>PMID:22945800</p> <p>PMID:21317430</p> <p>Expression of Twist1 and Snail1 are mutually dependent</p> <p>Knock-down of Snail1 downregulates Twist1 protein and mRNA</p> <p>Knock- down of Twist1 interferes with TGFb-mediated induction of Snail1.</p> <p>PMID:22006115</p> <p>Alternatively, it has also been reported that Snail1 transcriptionally represses Twist1</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>PMID:17403902</p> <p>Twist1 is a direct downstream target of NKFB.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Upon recruitment to the IL-1R complex IRAK1 binds TRAF6 forming a MyD88-IRAK1-TRAF6 complex analogous to the TNFR-associated complex of TRADD RIP and TRAF2.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_21c7a4e8-9ba1-4dda-8cf6-7f2741e19b0a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4548369c-e84c-4063-a045-881e4921747c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16131541"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18320.31" y="18016.5"/> <port id="pr_4548369c-e84c-4063-a045-881e4921747c_p1" x="18310.31" y="18021.5"/> <port id="pr_4548369c-e84c-4063-a045-881e4921747c_p2" x="18340.31" y="18021.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_84e91f66-500f-4fb4-8136-5dbaecb8b2ed"> <bbox w="10.0" h="10.0" x="26721.0" y="2535.0"/> <port id="pr_84e91f66-500f-4fb4-8136-5dbaecb8b2ed_p1" x="26726.0" y="2525.0"/> <port id="pr_84e91f66-500f-4fb4-8136-5dbaecb8b2ed_p2" x="26726.0" y="2555.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a5515c44-2bae-41c8-8a8c-c4204e17495d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4203.5" y="14408.5"/> <port id="pr_a5515c44-2bae-41c8-8a8c-c4204e17495d_p1" x="4208.5" y="14428.5"/> <port id="pr_a5515c44-2bae-41c8-8a8c-c4204e17495d_p2" x="4208.5" y="14398.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_37528bde-b85d-4a3f-a8b9-de2ec15dd55a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15851026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_37528bde-b85d-4a3f-a8b9-de2ec15dd55a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15851026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25908.31" y="11764.916"/> <port id="pr_37528bde-b85d-4a3f-a8b9-de2ec15dd55a_p1" x="25928.31" y="11769.916"/> <port id="pr_37528bde-b85d-4a3f-a8b9-de2ec15dd55a_p2" x="25898.31" y="11769.916"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e9926257-8acc-4253-8f2f-214408c1ae9f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18042541 PMID:18077353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9926257-8acc-4253-8f2f-214408c1ae9f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18042541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13228.436" y="17856.75"/> <port id="pr_e9926257-8acc-4253-8f2f-214408c1ae9f_p1" x="13218.436" y="17861.75"/> <port id="pr_e9926257-8acc-4253-8f2f-214408c1ae9f_p2" x="13248.436" y="17861.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5a9d24c0-b96d-46c5-ad9b-3f9945b00267"> <bbox w="10.0" h="10.0" x="10600.797" y="16081.271"/> <port id="pr_5a9d24c0-b96d-46c5-ad9b-3f9945b00267_p1" x="10620.797" y="16086.271"/> <port id="pr_5a9d24c0-b96d-46c5-ad9b-3f9945b00267_p2" x="10590.797" y="16086.271"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bde0e4cc-590f-4b06-b3aa-640f35aa9543"> <bbox w="10.0" h="10.0" x="12068.352" y="15881.502"/> <port id="pr_bde0e4cc-590f-4b06-b3aa-640f35aa9543_p1" x="12073.352" y="15871.502"/> <port id="pr_bde0e4cc-590f-4b06-b3aa-640f35aa9543_p2" x="12073.352" y="15901.502"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8ef8b8f0-3589-486f-8a6b-f585c607cdcb"> <bbox w="10.0" h="10.0" x="9702.5" y="6202.339"/> <port id="pr_8ef8b8f0-3589-486f-8a6b-f585c607cdcb_p1" x="9692.5" y="6207.339"/> <port id="pr_8ef8b8f0-3589-486f-8a6b-f585c607cdcb_p2" x="9722.5" y="6207.339"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf2514e6-cd32-4cab-bb39-6d09f145d8ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11546872</p> <p>in HEK293T, coIP</p> <p>Y2H</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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id="pr_d2a6c006-fedb-4e84-8f69-6d4ec13125ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BRIT1*/E2F1 complex activates BRCA1 and CHEK1 transcription during S-phase and G2/M checkpoints:</p> <p>PMID:15220350, PMID:18660752, PMID:20376879</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2a6c006-fedb-4e84-8f69-6d4ec13125ec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_58f01f12-8d41-4b6b-a7b7-3db002a1abe4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20731704</p> <p>PMID:19208835</p> <p>TCF8 (ZEB1) is up-regulated in endothelial cells during angiogenesis, acting as a negative regulator.</p> <p>PMID:21317430</p> <p>In NMuMG cells treated with TGFB1 Snail1 RNA and protein are induced 1 h after addition of the cytokine preceding Zeb1 up-regulation that requires 6–8 h. </p> <p>Zeb1 gene expression is caused by increased RNA levels but also by enhanced protein stability and is markedly dependent on Snail1 because depletion of this protein prevents Zeb1 protein and RNA up-regulation</p> <p>Snail1 controls Zeb1 expression at multiple levels and acts cooperatively with Twist in the ZEB1 gene transcription induction</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_58f01f12-8d41-4b6b-a7b7-3db002a1abe4"> <bqbiol:isEncodedBy> 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id="logicglyph_71802852-cc28-4a98-8a95-02b6c1af5a36_p1" x="4097.496" y="16245.652"/> <port id="logicglyph_71802852-cc28-4a98-8a95-02b6c1af5a36_p2" x="4137.496" y="16245.652"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e2db664a-bb83-484b-b385-124916316d7d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2252.5" y="16919.0"/> <port id="pr_e2db664a-bb83-484b-b385-124916316d7d_p1" x="2242.5" y="16924.0"/> <port id="pr_e2db664a-bb83-484b-b385-124916316d7d_p2" x="2272.5" y="16924.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_22c82599-31b9-4a56-80f1-dbf62b1a3783"> <bbox w="10.0" h="10.0" x="22753.56" y="10181.0"/> <port id="pr_22c82599-31b9-4a56-80f1-dbf62b1a3783_p1" x="22773.56" y="10186.0"/> <port id="pr_22c82599-31b9-4a56-80f1-dbf62b1a3783_p2" x="22743.56" y="10186.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7babd573-bcd2-4916-bcbc-396b56f8aeea"> <bbox w="10.0" h="10.0" x="1969.5986" y="1271.25"/> <port id="pr_7babd573-bcd2-4916-bcbc-396b56f8aeea_p1" x="1974.5986" y="1291.25"/> <port id="pr_7babd573-bcd2-4916-bcbc-396b56f8aeea_p2" x="1974.5986" y="1261.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_280662f8-1afb-4b69-99b7-4a95452f8536"> <bbox w="10.0" h="10.0" x="9098.285" y="5162.88"/> <port id="pr_280662f8-1afb-4b69-99b7-4a95452f8536_p1" x="9103.285" y="5152.88"/> <port id="pr_280662f8-1afb-4b69-99b7-4a95452f8536_p2" x="9103.285" y="5182.88"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64a9b805-11f8-42a2-a612-2359b7f3a09a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>SUMOlated PCNA recognizes stalled replication fork and blocks homologous recombination, re-orients toward TLS</p> <p>PMID:19217833, PMID:18157158, PMID:19851286</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64a9b805-11f8-42a2-a612-2359b7f3a09a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217833"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18157158"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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</glyph> <glyph class="uncertain process" orientation="vertical" id="pr_53c4005c-b9c4-48a7-a6ce-0315851e32f9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4235.959" y="16845.75"/> <port id="pr_53c4005c-b9c4-48a7-a6ce-0315851e32f9_p1" x="4240.959" y="16865.75"/> <port id="pr_53c4005c-b9c4-48a7-a6ce-0315851e32f9_p2" x="4240.959" y="16835.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb1f8609-8a72-442d-91bf-8ac5864749cc"> <bbox w="10.0" h="10.0" x="28490.375" y="2786.1875"/> <port id="pr_fb1f8609-8a72-442d-91bf-8ac5864749cc_p1" x="28495.375" y="2806.1875"/> <port id="pr_fb1f8609-8a72-442d-91bf-8ac5864749cc_p2" x="28495.375" y="2776.1875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_47bdb39e-4d4c-4cbf-9396-1386ade90d34"> <bbox w="10.0" h="10.0" x="25435.06" y="15945.25"/> <port id="pr_47bdb39e-4d4c-4cbf-9396-1386ade90d34_p1" x="25440.06" y="15965.25"/> <port id="pr_47bdb39e-4d4c-4cbf-9396-1386ade90d34_p2" x="25440.06" y="15935.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f91f6606-d178-477a-ac10-2e71cc918bab"> <bbox w="10.0" h="10.0" x="21440.0" y="6315.866"/> <port id="pr_f91f6606-d178-477a-ac10-2e71cc918bab_p1" x="21460.0" y="6320.866"/> <port id="pr_f91f6606-d178-477a-ac10-2e71cc918bab_p2" x="21430.0" y="6320.866"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_aed03751-51b5-4ba6-9a34-9b0c0bb17588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5128.497" y="18638.562"/> <port id="pr_aed03751-51b5-4ba6-9a34-9b0c0bb17588_p1" x="5118.497" y="18643.562"/> <port id="pr_aed03751-51b5-4ba6-9a34-9b0c0bb17588_p2" x="5148.497" y="18643.562"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_03df78b7-7c25-4c1c-aeb4-c6c1cb957e20"> <bbox w="10.0" h="10.0" x="19265.06" y="16970.75"/> <port id="pr_03df78b7-7c25-4c1c-aeb4-c6c1cb957e20_p1" x="19285.06" y="16975.75"/> <port id="pr_03df78b7-7c25-4c1c-aeb4-c6c1cb957e20_p2" x="19255.06" y="16975.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_81c61398-95b7-4002-91f0-998396b114d6"> <bbox w="10.0" h="10.0" x="15227.828" y="960.625"/> <port id="pr_81c61398-95b7-4002-91f0-998396b114d6_p1" x="15232.828" y="950.625"/> <port id="pr_81c61398-95b7-4002-91f0-998396b114d6_p2" x="15232.828" y="980.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d13fb2db-ae5c-4b54-89f2-92906872a9a2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19057.277" y="10968.398"/> <port id="pr_d13fb2db-ae5c-4b54-89f2-92906872a9a2_p1" x="19077.277" y="10973.398"/> <port id="pr_d13fb2db-ae5c-4b54-89f2-92906872a9a2_p2" x="19047.277" y="10973.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_544ecf8d-d8b4-4e65-a5c9-ed4ba634bbba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16093244</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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orientation="vertical" id="pr_4f998a20-9365-4c40-a11e-d2fe7a5d2c79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2364.8906" y="16493.0"/> <port id="pr_4f998a20-9365-4c40-a11e-d2fe7a5d2c79_p1" x="2369.8906" y="16513.0"/> <port id="pr_4f998a20-9365-4c40-a11e-d2fe7a5d2c79_p2" x="2369.8906" y="16483.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_556109a5-cd0c-4ec8-9d56-3bf1a4f8ad42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10654.272" y="15084.65"/> <port id="pr_556109a5-cd0c-4ec8-9d56-3bf1a4f8ad42_p1" x="10644.272" y="15089.65"/> <port id="pr_556109a5-cd0c-4ec8-9d56-3bf1a4f8ad42_p2" x="10674.272" y="15089.65"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7a8097b7-e2ed-48c7-9712-826547516998"> <bbox w="10.0" h="10.0" x="26151.0" y="2915.0"/> <port id="pr_7a8097b7-e2ed-48c7-9712-826547516998_p1" x="26156.0" y="2935.0"/> <port id="pr_7a8097b7-e2ed-48c7-9712-826547516998_p2" x="26156.0" y="2905.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a679aa84-85c7-4c3b-9774-867fddeb7dae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3890.609" y="14874.25"/> <port id="pr_a679aa84-85c7-4c3b-9774-867fddeb7dae_p1" x="3895.609" y="14894.25"/> <port id="pr_a679aa84-85c7-4c3b-9774-867fddeb7dae_p2" x="3895.609" y="14864.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bcd91375-1b22-4c8c-b633-791f2ce32a9f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24619.06" y="13704.5"/> <port id="pr_bcd91375-1b22-4c8c-b633-791f2ce32a9f_p1" x="24624.06" y="13694.5"/> <port id="pr_bcd91375-1b22-4c8c-b633-791f2ce32a9f_p2" x="24624.06" y="13724.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_184d8c19-2ef7-41aa-a4dc-ff03078f7a4a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_184d8c19-2ef7-41aa-a4dc-ff03078f7a4a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26146.436" y="17692.145"/> <port id="pr_184d8c19-2ef7-41aa-a4dc-ff03078f7a4a_p1" x="26166.436" y="17697.145"/> <port id="pr_184d8c19-2ef7-41aa-a4dc-ff03078f7a4a_p2" x="26136.436" y="17697.145"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d466cfe2-ef56-4a34-8a4c-1d1604e8b314"> <bbox w="10.0" h="10.0" x="12054.78" y="9398.436"/> <port id="pr_d466cfe2-ef56-4a34-8a4c-1d1604e8b314_p1" x="12074.78" y="9403.436"/> <port id="pr_d466cfe2-ef56-4a34-8a4c-1d1604e8b314_p2" x="12044.78" y="9403.436"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1187c004-2c87-470e-ad07-4406a5e1abea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2253.2295" y="16867.0"/> <port id="pr_1187c004-2c87-470e-ad07-4406a5e1abea_p1" x="2243.2295" y="16872.0"/> <port id="pr_1187c004-2c87-470e-ad07-4406a5e1abea_p2" x="2273.2295" y="16872.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9e5bb8ba-66e6-4b46-ba96-75791b8feaeb"> <bbox w="10.0" h="10.0" x="11444.784" y="15490.1455"/> <port id="pr_9e5bb8ba-66e6-4b46-ba96-75791b8feaeb_p1" x="11434.784" y="15495.1455"/> <port id="pr_9e5bb8ba-66e6-4b46-ba96-75791b8feaeb_p2" x="11464.784" y="15495.1455"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fcef740a-d55d-443a-a1c5-59b21e42bedd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19424602</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fcef740a-d55d-443a-a1c5-59b21e42bedd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19424602"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26791.56" y="20629.8"/> <port id="pr_fcef740a-d55d-443a-a1c5-59b21e42bedd_p1" x="26781.56" y="20634.8"/> <port id="pr_fcef740a-d55d-443a-a1c5-59b21e42bedd_p2" x="26811.56" y="20634.8"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_25322c26-70b9-4286-91c9-ce2aaadc5658"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11410595</p> <p>ATPAF1 role in assembly of mitochondrial ATP synthase inferred from yeast, on the basis that ATPAF1 interacts with ATP5B (Y2H) and complements the yeast mutant</p> <p>similar function suggested for ATPAF2</p> <p>PMID:14701807</p> <p>in vitro, human ATPAF2 functions as a protein chaperone</p> <p>PMID:14757859</p> <p>a mutation found in gene ATPAF2 from a patient with mitochondrial encephalomyopathies supports the role of ATPAF2 as an ATPase assembly gene</p> <p>PMID:18953340</p> <p>TMEM70 is involved in mitochondrial ATP synthase biogenesis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_25322c26-70b9-4286-91c9-ce2aaadc5658"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11410595"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14701807"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14757859"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18953340"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20292.738" y="13792.755"/> <port id="pr_25322c26-70b9-4286-91c9-ce2aaadc5658_p1" x="20282.738" y="13797.755"/> <port id="pr_25322c26-70b9-4286-91c9-ce2aaadc5658_p2" x="20312.738" y="13797.755"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2049ff9f-f8a5-412a-83d1-da881fdb0e25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20562908</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2049ff9f-f8a5-412a-83d1-da881fdb0e25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20562908"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26556.56" y="20508.0"/> <port id="pr_2049ff9f-f8a5-412a-83d1-da881fdb0e25_p1" x="26546.56" y="20513.0"/> <port id="pr_2049ff9f-f8a5-412a-83d1-da881fdb0e25_p2" x="26576.56" y="20513.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5f2a493b-945f-48cd-8440-a8eea8c0ab2a"> <bbox w="10.0" h="10.0" x="16341.752" y="16448.297"/> <port id="pr_5f2a493b-945f-48cd-8440-a8eea8c0ab2a_p1" x="16361.752" y="16453.297"/> <port id="pr_5f2a493b-945f-48cd-8440-a8eea8c0ab2a_p2" x="16331.752" y="16453.297"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3cd2c274-0f0d-4fd9-ab68-e6045e7c7560"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK/ERK cascade activation is the upstream signal required for phosphorylation.</p> <p>PMID:21751375</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3cd2c274-0f0d-4fd9-ab68-e6045e7c7560"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21751375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22606.81" y="21138.0"/> <port id="pr_3cd2c274-0f0d-4fd9-ab68-e6045e7c7560_p1" x="22626.81" y="21143.0"/> <port id="pr_3cd2c274-0f0d-4fd9-ab68-e6045e7c7560_p2" x="22596.81" y="21143.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f293d893-6b42-4d6c-83b1-18a775582505"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18379348</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f293d893-6b42-4d6c-83b1-18a775582505"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18379348"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27407.059" y="20980.25"/> <port id="pr_f293d893-6b42-4d6c-83b1-18a775582505_p1" x="27427.059" y="20985.25"/> <port id="pr_f293d893-6b42-4d6c-83b1-18a775582505_p2" x="27397.059" y="20985.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c3a983e3-104b-46f9-8d16-7830c99718a6"> <bbox w="10.0" h="10.0" x="12352.777" y="10590.582"/> <port id="pr_c3a983e3-104b-46f9-8d16-7830c99718a6_p1" x="12357.777" y="10580.582"/> <port id="pr_c3a983e3-104b-46f9-8d16-7830c99718a6_p2" x="12357.777" y="10610.582"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_18f71180-06de-409b-804a-26c3e143f28f"> <bbox w="10.0" h="10.0" x="27989.0" y="7496.5"/> <port id="pr_18f71180-06de-409b-804a-26c3e143f28f_p1" x="28009.0" y="7501.5"/> <port id="pr_18f71180-06de-409b-804a-26c3e143f28f_p2" x="27979.0" y="7501.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c791473f-dfaf-4627-af87-18967ed9037c"> <bbox w="10.0" h="10.0" x="20028.56" y="16509.0"/> <port id="pr_c791473f-dfaf-4627-af87-18967ed9037c_p1" x="20018.56" y="16514.0"/> <port id="pr_c791473f-dfaf-4627-af87-18967ed9037c_p2" x="20048.56" y="16514.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fbb9aab6-36d4-4586-ae8e-6b416f446612"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>FAP-1 association with Fas (Apo-1) inhibits Fas expression on the cell surface</p> <p>PMID:12724420</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fbb9aab6-36d4-4586-ae8e-6b416f446612"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12724420"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25615.508" y="9246.5"/> <port id="pr_fbb9aab6-36d4-4586-ae8e-6b416f446612_p1" x="25635.508" y="9251.5"/> <port id="pr_fbb9aab6-36d4-4586-ae8e-6b416f446612_p2" x="25605.508" y="9251.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9d17f3a2-543a-41b3-b38f-742313f14aff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17466953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9d17f3a2-543a-41b3-b38f-742313f14aff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17466953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26804.238" y="21517.25"/> <port id="pr_9d17f3a2-543a-41b3-b38f-742313f14aff_p1" x="26809.238" y="21537.25"/> <port id="pr_9d17f3a2-543a-41b3-b38f-742313f14aff_p2" x="26809.238" y="21507.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_74f45be1-1441-4b50-af84-f33caa5fbd09"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19684618</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_74f45be1-1441-4b50-af84-f33caa5fbd09"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19684618"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27797.66" y="21800.25"/> <port id="pr_74f45be1-1441-4b50-af84-f33caa5fbd09_p1" x="27802.66" y="21820.25"/> <port id="pr_74f45be1-1441-4b50-af84-f33caa5fbd09_p2" x="27802.66" y="21790.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_05ca56ca-e80a-4fb1-a5cf-54de47f9d9a0"> <bbox w="10.0" h="10.0" x="7001.4062" y="6136.1875"/> <port id="pr_05ca56ca-e80a-4fb1-a5cf-54de47f9d9a0_p1" x="7021.4062" y="6141.1875"/> <port id="pr_05ca56ca-e80a-4fb1-a5cf-54de47f9d9a0_p2" x="6991.4062" y="6141.1875"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_7c038d97-f463-4d14-8819-44c18d9034d3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5713.164" y="13689.5"/> <port id="pr_7c038d97-f463-4d14-8819-44c18d9034d3_p1" x="5718.164" y="13679.5"/> <port id="pr_7c038d97-f463-4d14-8819-44c18d9034d3_p2" x="5718.164" y="13709.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7616f912-68fa-4bac-9f5c-f770c0848d0e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7616f912-68fa-4bac-9f5c-f770c0848d0e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3384.0" y="10038.0"/> <port id="pr_7616f912-68fa-4bac-9f5c-f770c0848d0e_p1" x="3374.0" y="10043.0"/> <port id="pr_7616f912-68fa-4bac-9f5c-f770c0848d0e_p2" x="3404.0" y="10043.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7c919077-f9e6-4c7f-a412-7303b5d10a94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9488723, PMID:19772495</p> <p>PMID:17303408</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7c919077-f9e6-4c7f-a412-7303b5d10a94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9488723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19772495"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13643.519" y="11229.703"/> <port id="pr_7c919077-f9e6-4c7f-a412-7303b5d10a94_p1" x="13648.519" y="11249.703"/> <port id="pr_7c919077-f9e6-4c7f-a412-7303b5d10a94_p2" x="13648.519" y="11219.703"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fb69a362-89d0-4db6-aa9f-495a09d5ecaf"> <bbox w="10.0" h="10.0" x="4170.0" y="2865.0"/> <port id="pr_fb69a362-89d0-4db6-aa9f-495a09d5ecaf_p1" x="4190.0" y="2870.0"/> <port id="pr_fb69a362-89d0-4db6-aa9f-495a09d5ecaf_p2" x="4160.0" y="2870.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d25c932d-73db-48f6-a76a-b6d8f69bab76"> <bbox w="10.0" h="10.0" x="15797.5" y="1497.0"/> <port id="pr_d25c932d-73db-48f6-a76a-b6d8f69bab76_p1" x="15802.5" y="1487.0"/> <port id="pr_d25c932d-73db-48f6-a76a-b6d8f69bab76_p2" x="15802.5" y="1517.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_59d39cc5-48e2-495a-a749-8674332c17f8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15545625</p> <p>PMID:11884613</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_59d39cc5-48e2-495a-a749-8674332c17f8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15545625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11884613"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23419.168" y="16186.75"/> <port id="pr_59d39cc5-48e2-495a-a749-8674332c17f8_p1" x="23424.168" y="16206.75"/> <port id="pr_59d39cc5-48e2-495a-a749-8674332c17f8_p2" x="23424.168" y="16176.75"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_dccf53cf-063d-4be9-abf5-de79c8c6ab45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6640.75" y="13710.0"/> <port id="pr_dccf53cf-063d-4be9-abf5-de79c8c6ab45_p1" x="6645.75" y="13730.0"/> <port id="pr_dccf53cf-063d-4be9-abf5-de79c8c6ab45_p2" x="6645.75" y="13700.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_edf80981-edf4-4455-9593-7d061768d8c9"> <bbox w="10.0" h="10.0" x="10978.141" y="7027.5"/> <port id="pr_edf80981-edf4-4455-9593-7d061768d8c9_p1" x="10983.141" y="7017.5"/> <port id="pr_edf80981-edf4-4455-9593-7d061768d8c9_p2" x="10983.141" y="7047.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b11c1b77-6a10-44f4-a336-dacc37d9b723"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12624093</p> <p>in mouse embryonic cells, with targeted disruption of either MAP2K4 or MAP2K7, the phosphorylation pattern of JNK reveals sequential phosphorylation by these MAP2Ks</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b11c1b77-6a10-44f4-a336-dacc37d9b723"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12624093"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21934.06" y="11111.0"/> <port id="pr_b11c1b77-6a10-44f4-a336-dacc37d9b723_p1" x="21939.06" y="11101.0"/> <port id="pr_b11c1b77-6a10-44f4-a336-dacc37d9b723_p2" x="21939.06" y="11131.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_680bd517-33dc-4648-8c31-de1b5e457431"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TNF treatment is thought to result in the formation of a TRADD-RIP-TRAF2 complex at the membrane.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_680bd517-33dc-4648-8c31-de1b5e457431"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9869.494" y="19181.25"/> <port id="pr_680bd517-33dc-4648-8c31-de1b5e457431_p1" x="9874.494" y="19171.25"/> <port id="pr_680bd517-33dc-4648-8c31-de1b5e457431_p2" x="9874.494" y="19201.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_00515b15-dc89-4ca1-b07f-6d8b8d307c82"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:16288286</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_00515b15-dc89-4ca1-b07f-6d8b8d307c82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16288286"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12795.561" y="17631.838"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c7d90f48-6699-4679-9af9-020963e8549a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12055.311" y="21418.5"/> <port id="pr_c7d90f48-6699-4679-9af9-020963e8549a_p1" x="12075.311" y="21423.5"/> <port id="pr_c7d90f48-6699-4679-9af9-020963e8549a_p2" x="12045.311" y="21423.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_50c60858-c55b-43e2-bf27-938ab792d704"> <bbox w="10.0" h="10.0" x="24025.75" y="3707.0642"/> <port id="pr_50c60858-c55b-43e2-bf27-938ab792d704_p1" x="24015.75" y="3712.0642"/> <port id="pr_50c60858-c55b-43e2-bf27-938ab792d704_p2" x="24045.75" y="3712.0642"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_e11b7bd2-32d2-4865-9e94-596ff5874121"> <bbox w="10.0" h="10.0" x="5134.083" y="6662.5"/> <port id="pr_e11b7bd2-32d2-4865-9e94-596ff5874121_p1" x="5139.083" y="6652.5"/> <port id="pr_e11b7bd2-32d2-4865-9e94-596ff5874121_p2" x="5139.083" y="6682.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_470a0d3e-7e3f-4324-a237-e413ea4dc368"> <bbox w="10.0" h="10.0" x="23992.688" y="1662.3237"/> <port id="pr_470a0d3e-7e3f-4324-a237-e413ea4dc368_p1" x="23997.688" y="1682.3237"/> <port id="pr_470a0d3e-7e3f-4324-a237-e413ea4dc368_p2" x="23997.688" y="1652.3237"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_91cb1487-d749-4e04-acd1-a2095dd5a249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1889.5" y="16295.5"/> <port id="pr_91cb1487-d749-4e04-acd1-a2095dd5a249_p1" x="1909.5" y="16300.5"/> <port id="pr_91cb1487-d749-4e04-acd1-a2095dd5a249_p2" x="1879.5" y="16300.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_0a14452f-7a25-49c1-8b14-bb9e25e00f00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1255.25" y="16263.0"/> <port id="pr_0a14452f-7a25-49c1-8b14-bb9e25e00f00_p1" x="1260.25" y="16253.0"/> <port id="pr_0a14452f-7a25-49c1-8b14-bb9e25e00f00_p2" x="1260.25" y="16283.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3a5cc636-5d93-4774-80b7-ff217ae79cfb"> <bbox w="10.0" h="10.0" x="13450.0" y="1755.0"/> <port id="pr_3a5cc636-5d93-4774-80b7-ff217ae79cfb_p1" x="13455.0" y="1775.0"/> <port id="pr_3a5cc636-5d93-4774-80b7-ff217ae79cfb_p2" x="13455.0" y="1745.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9fedb67c-3801-49dc-b037-b72e39b2b1b7"> <bbox w="10.0" h="10.0" x="22824.06" y="10551.39"/> <port id="pr_9fedb67c-3801-49dc-b037-b72e39b2b1b7_p1" x="22829.06" y="10571.39"/> <port id="pr_9fedb67c-3801-49dc-b037-b72e39b2b1b7_p2" x="22829.06" y="10541.39"/> </glyph> <glyph class="process" orientation="vertical" id="pr_065954e4-0268-4944-9c52-991cf7a5769a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1089.5046" y="17512.75"/> <port id="pr_065954e4-0268-4944-9c52-991cf7a5769a_p1" x="1094.5046" y="17502.75"/> <port id="pr_065954e4-0268-4944-9c52-991cf7a5769a_p2" x="1094.5046" y="17532.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c06ef566-7911-4ad5-bfdb-000c8dea1686"> <bbox w="10.0" h="10.0" x="8420.561" y="18383.875"/> <port id="pr_c06ef566-7911-4ad5-bfdb-000c8dea1686_p1" x="8425.561" y="18373.875"/> <port id="pr_c06ef566-7911-4ad5-bfdb-000c8dea1686_p2" x="8425.561" y="18403.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_88882e33-b7c6-46cb-abba-0c55ea9f80d3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12591950</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_88882e33-b7c6-46cb-abba-0c55ea9f80d3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12591950"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21406.395" y="11931.25"/> <port 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id="pr_2934cd56-6b1a-408f-94ed-20f62e7ea369_p2" x="5214.0" y="18842.164"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fba88aed-cccd-45bd-a402-fdd75725b0ef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fba88aed-cccd-45bd-a402-fdd75725b0ef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6333.5" y="11875.75"/> <port id="pr_fba88aed-cccd-45bd-a402-fdd75725b0ef_p1" x="6338.5" y="11895.75"/> <port id="pr_fba88aed-cccd-45bd-a402-fdd75725b0ef_p2" x="6338.5" y="11865.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c1a0ed4-81b2-48c7-9114-01ba48764453"> <bbox w="10.0" h="10.0" x="4402.5" y="3037.5"/> <port id="pr_9c1a0ed4-81b2-48c7-9114-01ba48764453_p1" x="4392.5" y="3042.5"/> <port id="pr_9c1a0ed4-81b2-48c7-9114-01ba48764453_p2" x="4422.5" y="3042.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5c14c193-81c7-45c0-bcd1-40a5783dee1a"> <bbox w="10.0" h="10.0" x="11165.0" y="4480.625"/> <port id="pr_5c14c193-81c7-45c0-bcd1-40a5783dee1a_p1" x="11170.0" y="4470.625"/> <port id="pr_5c14c193-81c7-45c0-bcd1-40a5783dee1a_p2" x="11170.0" y="4500.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_48ba52cc-5f32-4314-83e7-17de5c1e2808"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Tankyrase for WNT activation</p> <p>PMID:23197039, PMID:22738915, PMID:23144924, PMID:23148305, PMID:22440753</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_48ba52cc-5f32-4314-83e7-17de5c1e2808"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23197039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22738915"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23144924"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23148305"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22440753"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10592.666" y="16946.0"/> <port id="pr_48ba52cc-5f32-4314-83e7-17de5c1e2808_p1" x="10582.666" y="16951.0"/> <port id="pr_48ba52cc-5f32-4314-83e7-17de5c1e2808_p2" x="10612.666" y="16951.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6744172c-5c3d-4743-ab91-4896ebd2b3e1"> <bbox w="10.0" h="10.0" x="7590.0" y="2720.0"/> <port id="pr_6744172c-5c3d-4743-ab91-4896ebd2b3e1_p1" x="7610.0" y="2725.0"/> <port id="pr_6744172c-5c3d-4743-ab91-4896ebd2b3e1_p2" x="7580.0" y="2725.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_467bb332-667c-4016-8c27-43d32121e632"> <bbox w="10.0" h="10.0" x="12518.766" y="9176.69"/> <port id="pr_467bb332-667c-4016-8c27-43d32121e632_p1" x="12538.766" y="9181.69"/> <port id="pr_467bb332-667c-4016-8c27-43d32121e632_p2" x="12508.766" y="9181.69"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9cc6f1ab-5f26-4958-bcea-5883dce0b012"> <bbox w="10.0" h="10.0" x="23550.314" y="16000.75"/> <port id="pr_9cc6f1ab-5f26-4958-bcea-5883dce0b012_p1" x="23540.314" y="16005.75"/> <port id="pr_9cc6f1ab-5f26-4958-bcea-5883dce0b012_p2" x="23570.314" y="16005.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dcb72a97-b360-4ef0-b977-b00dfa6ffcbc"> <bbox w="10.0" h="10.0" x="5987.1787" y="7082.5"/> <port id="pr_dcb72a97-b360-4ef0-b977-b00dfa6ffcbc_p1" x="6007.1787" y="7087.5"/> <port id="pr_dcb72a97-b360-4ef0-b977-b00dfa6ffcbc_p2" x="5977.1787" y="7087.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9a942478-1acc-4f8d-94c8-facb75aa2bf4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19446321</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9a942478-1acc-4f8d-94c8-facb75aa2bf4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19446321"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26863.06" y="11304.264"/> <port id="pr_9a942478-1acc-4f8d-94c8-facb75aa2bf4_p1" x="26853.06" y="11309.264"/> <port id="pr_9a942478-1acc-4f8d-94c8-facb75aa2bf4_p2" x="26883.06" y="11309.264"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b947b74e-5892-4476-b5af-2437bf9156a0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11801735</p> <p>PMID:19082481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b947b74e-5892-4476-b5af-2437bf9156a0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11801735"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19082481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27314.56" y="23005.5"/> <port id="pr_b947b74e-5892-4476-b5af-2437bf9156a0_p1" x="27319.56" y="22995.5"/> <port id="pr_b947b74e-5892-4476-b5af-2437bf9156a0_p2" x="27319.56" y="23025.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e758d472-7a22-45d5-98a4-5b7fbb9b7408"> <bbox w="10.0" h="10.0" x="9690.5" y="4491.25"/> <port id="pr_e758d472-7a22-45d5-98a4-5b7fbb9b7408_p1" x="9710.5" y="4496.25"/> <port id="pr_e758d472-7a22-45d5-98a4-5b7fbb9b7408_p2" x="9680.5" y="4496.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6fc1f2e9-9163-4a6f-933f-e8a3cd7f49ac"> <bbox w="10.0" h="10.0" x="11645.0" y="7745.0"/> <port id="pr_6fc1f2e9-9163-4a6f-933f-e8a3cd7f49ac_p1" x="11650.0" y="7735.0"/> <port id="pr_6fc1f2e9-9163-4a6f-933f-e8a3cd7f49ac_p2" x="11650.0" y="7765.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15ad0938-4392-4112-925f-dd46f795a0ed"> <bbox w="10.0" h="10.0" x="20617.625" y="5437.5"/> <port id="pr_15ad0938-4392-4112-925f-dd46f795a0ed_p1" x="20622.625" y="5427.5"/> <port id="pr_15ad0938-4392-4112-925f-dd46f795a0ed_p2" x="20622.625" y="5457.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f26ac434-6be1-4246-bf0f-64b66549843f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12456881</p> <p>in Hela, knocking down BLVRA knock down induces oxidative stress</p> <p>in vitro, with recombinant catalytic BLVRA</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f26ac434-6be1-4246-bf0f-64b66549843f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12456881"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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<rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_74338cb0-34c3-49c2-b52c-f431ec173124"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23589330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16760.44" y="16278.945"/> <port id="pr_74338cb0-34c3-49c2-b52c-f431ec173124_p1" x="16765.44" y="16268.945"/> <port id="pr_74338cb0-34c3-49c2-b52c-f431ec173124_p2" x="16765.44" y="16298.945"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_09c738a1-6acf-41e9-a38d-c856c82b4bfc"> <bbox w="10.0" h="10.0" x="5904.5" y="7139.8867"/> <port id="pr_09c738a1-6acf-41e9-a38d-c856c82b4bfc_p1" x="5894.5" y="7144.8867"/> <port id="pr_09c738a1-6acf-41e9-a38d-c856c82b4bfc_p2" x="5924.5" y="7144.8867"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df8bf2b6-92fa-4da6-a5b1-49906ab9b4c9"> <bbox w="10.0" h="10.0" x="9216.348" y="15893.404"/> <port id="pr_df8bf2b6-92fa-4da6-a5b1-49906ab9b4c9_p1" x="9236.348" y="15898.404"/> <port id="pr_df8bf2b6-92fa-4da6-a5b1-49906ab9b4c9_p2" x="9206.348" y="15898.404"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92d1a1a5-40a7-4b37-acca-9eec6e1a5857"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20580290</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_a3067be3-a388-4425-945c-ba9772568b0f"> <bbox w="10.0" h="10.0" x="19198.875" y="4791.7764"/> <port id="pr_a3067be3-a388-4425-945c-ba9772568b0f_p1" x="19188.875" y="4796.7764"/> <port id="pr_a3067be3-a388-4425-945c-ba9772568b0f_p2" x="19218.875" y="4796.7764"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3f6412fb-cd24-4361-8c8b-fcea96334f0a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3641.0" y="17294.078"/> <port id="pr_3f6412fb-cd24-4361-8c8b-fcea96334f0a_p1" x="3631.0" y="17299.078"/> <port id="pr_3f6412fb-cd24-4361-8c8b-fcea96334f0a_p2" x="3661.0" y="17299.078"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_12d91999-fe03-429a-ab12-d62e3fcc5597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_12d91999-fe03-429a-ab12-d62e3fcc5597"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4136.125" y="9312.5"/> <port id="pr_12d91999-fe03-429a-ab12-d62e3fcc5597_p1" x="4126.125" y="9317.5"/> <port id="pr_12d91999-fe03-429a-ab12-d62e3fcc5597_p2" x="4156.125" y="9317.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4033d592-fbc6-4d45-8920-56b3155c780a"> <bbox w="10.0" h="10.0" x="22494.56" y="9769.25"/> <port id="pr_4033d592-fbc6-4d45-8920-56b3155c780a_p1" x="22514.56" y="9774.25"/> <port id="pr_4033d592-fbc6-4d45-8920-56b3155c780a_p2" x="22484.56" y="9774.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ff011e3c-0317-4488-9528-6de1ea4e988f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CAK phosphorylation of CDC2 is the first step toward complex activation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13057.473" y="10726.106"/> <port id="pr_ff011e3c-0317-4488-9528-6de1ea4e988f_p1" x="13047.473" y="10731.106"/> <port id="pr_ff011e3c-0317-4488-9528-6de1ea4e988f_p2" x="13077.473" y="10731.106"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5ec089b1-134b-43a7-9939-4fd927dfcdef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>JNK could phosphorylate NFAT4 and NFAT2 inhibiting their nuclear translocation.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ec089b1-134b-43a7-9939-4fd927dfcdef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9704.172" y="20341.137"/> <port id="pr_5ec089b1-134b-43a7-9939-4fd927dfcdef_p1" x="9724.172" y="20346.137"/> <port id="pr_5ec089b1-134b-43a7-9939-4fd927dfcdef_p2" x="9694.172" y="20346.137"/> </glyph> <glyph class="process" orientation="vertical" id="pr_760f44cb-e205-4532-992d-64e447e4a81a"> <bbox w="10.0" h="10.0" x="12652.977" y="10987.875"/> <port id="pr_760f44cb-e205-4532-992d-64e447e4a81a_p1" x="12657.977" y="10977.875"/> <port id="pr_760f44cb-e205-4532-992d-64e447e4a81a_p2" x="12657.977" y="11007.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a27d1b8-4f4c-45cc-b366-1a16d4038bf1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17533374</p> <p>HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expression</p> <p>PMID:23869868</p> <p>Chemokine receptor CXCR2 is transactivated by p53</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9a27d1b8-4f4c-45cc-b366-1a16d4038bf1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17533374"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23869868"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3597.1418" y="13841.75"/> <port id="pr_9a27d1b8-4f4c-45cc-b366-1a16d4038bf1_p1" x="3602.1418" y="13861.75"/> <port id="pr_9a27d1b8-4f4c-45cc-b366-1a16d4038bf1_p2" x="3602.1418" y="13831.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_96e1ad13-8db2-4e61-9064-412e05edf5f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3741.75" y="14578.0"/> <port id="pr_96e1ad13-8db2-4e61-9064-412e05edf5f2_p1" x="3746.75" y="14598.0"/> <port id="pr_96e1ad13-8db2-4e61-9064-412e05edf5f2_p2" x="3746.75" y="14568.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69c63c24-ff0b-4fb0-8d24-9ae62f98da12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Cadherin internalization can occur through either clathrin-mediated, caveolin-mediated, or macropinocytosis-like pathways. Internalized cadherin is then sorted either for lysosomal degradation or recycling back to the plasma membrane.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_69c63c24-ff0b-4fb0-8d24-9ae62f98da12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1690.875" y="13348.012"/> <port id="pr_69c63c24-ff0b-4fb0-8d24-9ae62f98da12_p1" x="1695.875" y="13338.012"/> <port id="pr_69c63c24-ff0b-4fb0-8d24-9ae62f98da12_p2" x="1695.875" y="13368.012"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_be3d4983-05c2-4dd2-962b-e321c09f258f"> <bbox w="10.0" h="10.0" x="18671.797" y="14700.959"/> <port id="pr_be3d4983-05c2-4dd2-962b-e321c09f258f_p1" x="18691.797" y="14705.959"/> <port id="pr_be3d4983-05c2-4dd2-962b-e321c09f258f_p2" x="18661.797" y="14705.959"/> </glyph> <glyph class="process" orientation="vertical" id="pr_49d8f1b1-f97c-4507-9b0f-b7ddc1a905ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> <p>by NRF1</p> <p>PMID:11955626</p> <p>by YY1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_49d8f1b1-f97c-4507-9b0f-b7ddc1a905ad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955626"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20002.012" y="16178.75"/> <port id="pr_49d8f1b1-f97c-4507-9b0f-b7ddc1a905ad_p1" x="20007.012" y="16198.75"/> <port id="pr_49d8f1b1-f97c-4507-9b0f-b7ddc1a905ad_p2" x="20007.012" y="16168.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d35fabb-4344-40f1-9542-9c79afcf67ef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16310392</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1d35fabb-4344-40f1-9542-9c79afcf67ef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16310392"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_36593050-9bdc-4ace-929c-722404684bca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21806020"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3209.5" y="9225.5"/> <port id="pr_36593050-9bdc-4ace-929c-722404684bca_p1" x="3214.5" y="9245.5"/> <port id="pr_36593050-9bdc-4ace-929c-722404684bca_p2" x="3214.5" y="9215.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_dc4ad896-b2a7-4a83-92ec-55a5f1c73e10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1865.75" y="15064.449"/> <port id="pr_dc4ad896-b2a7-4a83-92ec-55a5f1c73e10_p1" x="1885.75" y="15069.449"/> <port id="pr_dc4ad896-b2a7-4a83-92ec-55a5f1c73e10_p2" x="1855.75" y="15069.449"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b7bfae74-660e-42d5-a982-2fb7f0a53c43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8805275</p> <p>PMID:8910277</p> <p>PMID:9744077</p> <p>PMID:10023776</p> <p>PMID:11728826</p> <p>GTP-bound Rac1 activates PAK1,2,3.</p> <p>The binding of the active GTP form of Rac1 and the PBD domain of PAK1,2,3 promotes autophosphorylation of PAK1,2,3 and activation of JNK pathway.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b7bfae74-660e-42d5-a982-2fb7f0a53c43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8805275"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8910277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9744077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10023776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11728826"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6260.5" y="14808.0"/> <port id="pr_b7bfae74-660e-42d5-a982-2fb7f0a53c43_p1" x="6250.5" y="14813.0"/> <port id="pr_b7bfae74-660e-42d5-a982-2fb7f0a53c43_p2" x="6280.5" y="14813.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ec40a92-b6a3-4c5a-b94a-a4c14619f7c0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18328430</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ec40a92-b6a3-4c5a-b94a-a4c14619f7c0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18328430"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22105.617" y="16193.848"/> <port id="pr_5ec40a92-b6a3-4c5a-b94a-a4c14619f7c0_p1" x="22110.617" y="16213.848"/> <port id="pr_5ec40a92-b6a3-4c5a-b94a-a4c14619f7c0_p2" x="22110.617" y="16183.848"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_be74a84c-0b2c-4428-abe8-7387294188c3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15262985</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_be74a84c-0b2c-4428-abe8-7387294188c3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15262985"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24221.06" y="15084.0"/> <port id="pr_be74a84c-0b2c-4428-abe8-7387294188c3_p1" x="24211.06" y="15089.0"/> <port id="pr_be74a84c-0b2c-4428-abe8-7387294188c3_p2" x="24241.06" y="15089.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_6195ffcf-cabc-4be8-af27-7c52fac1f9e5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6195ffcf-cabc-4be8-af27-7c52fac1f9e5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25072.06" y="18690.5"/> <port id="pr_6195ffcf-cabc-4be8-af27-7c52fac1f9e5_p1" x="25062.06" y="18695.5"/> <port id="pr_6195ffcf-cabc-4be8-af27-7c52fac1f9e5_p2" x="25092.06" y="18695.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0f299b57-5fe0-4f7b-a750-03c23d852c21"> <bbox w="10.0" h="10.0" x="19332.732" y="11832.125"/> <port id="pr_0f299b57-5fe0-4f7b-a750-03c23d852c21_p1" x="19337.732" y="11822.125"/> <port id="pr_0f299b57-5fe0-4f7b-a750-03c23d852c21_p2" x="19337.732" y="11852.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9638b602-3be9-4b2f-9128-2ecb86424955"> <bbox w="10.0" h="10.0" x="17090.0" y="7910.0"/> <port id="pr_9638b602-3be9-4b2f-9128-2ecb86424955_p1" x="17095.0" y="7900.0"/> <port id="pr_9638b602-3be9-4b2f-9128-2ecb86424955_p2" x="17095.0" y="7930.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a7ccdc5f-d917-4f7a-919e-98927f5bb6c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> <p>by NRF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a7ccdc5f-d917-4f7a-919e-98927f5bb6c2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19844.3" y="16181.75"/> <port id="pr_a7ccdc5f-d917-4f7a-919e-98927f5bb6c2_p1" x="19849.3" y="16201.75"/> <port id="pr_a7ccdc5f-d917-4f7a-919e-98927f5bb6c2_p2" x="19849.3" y="16171.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_caaa40e8-76d1-4fb5-b7f0-72f69d2d5c22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MP1 is localised on late endosomes by P14.</p> <p>PMID:17178906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_caaa40e8-76d1-4fb5-b7f0-72f69d2d5c22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17178906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8744.924" y="19737.953"/> <port id="pr_caaa40e8-76d1-4fb5-b7f0-72f69d2d5c22_p1" x="8764.924" y="19742.953"/> <port id="pr_caaa40e8-76d1-4fb5-b7f0-72f69d2d5c22_p2" x="8734.924" y="19742.953"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9f777bb5-57e2-4e44-b479-5b9bda15bb49"> <bbox w="10.0" h="10.0" x="28685.967" y="13351.875"/> <port id="pr_9f777bb5-57e2-4e44-b479-5b9bda15bb49_p1" x="28705.967" y="13356.875"/> <port id="pr_9f777bb5-57e2-4e44-b479-5b9bda15bb49_p2" x="28675.967" y="13356.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fb1749eb-30a3-480e-89d4-c3ef4c2b6783"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17549397</p> <p>PMID:19082481</p> <p>PMID:11801735</p> <p>PMID:12514186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb1749eb-30a3-480e-89d4-c3ef4c2b6783"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17549397"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19082481"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11801735"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12514186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27152.56" y="22896.5"/> <port id="pr_fb1749eb-30a3-480e-89d4-c3ef4c2b6783_p1" x="27142.56" y="22901.5"/> <port id="pr_fb1749eb-30a3-480e-89d4-c3ef4c2b6783_p2" x="27172.56" y="22901.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f3575c4c-e7a8-4666-9528-9b192c8e0c3c"> <bbox w="10.0" h="10.0" x="19432.438" y="15964.186"/> <port id="pr_f3575c4c-e7a8-4666-9528-9b192c8e0c3c_p1" x="19437.438" y="15984.186"/> <port id="pr_f3575c4c-e7a8-4666-9528-9b192c8e0c3c_p2" x="19437.438" y="15954.186"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77dc46dc-fb35-416e-8d4a-5854e8a275af"> <bbox w="10.0" h="10.0" x="23570.61" y="2790.0"/> <port id="pr_77dc46dc-fb35-416e-8d4a-5854e8a275af_p1" x="23575.61" y="2810.0"/> <port id="pr_77dc46dc-fb35-416e-8d4a-5854e8a275af_p2" x="23575.61" y="2780.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d299487-57c9-4f20-a5ed-16006a65d5fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12402042</p> <p>in mouse splenic red pulp and colonic epithelium, upon irradiation</p> <p>in human, the p53 binding element is conserved</p> <p>PMID:15024076</p> <p>in HT29 and CHO, HIF1-dependent hypoxia-induced repression of BID expression</p> <p>in SW480 upon hypoxia, interaction between HIF1 and BID promoter, by EMSA</p> <p>PMID:15240700</p> <p>in mouse T cells, by E2F1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5d299487-57c9-4f20-a5ed-16006a65d5fb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12402042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15024076"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240700"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21400.52" y="16163.279"/> <port id="pr_5d299487-57c9-4f20-a5ed-16006a65d5fb_p1" x="21405.52" y="16183.279"/> <port id="pr_5d299487-57c9-4f20-a5ed-16006a65d5fb_p2" x="21405.52" y="16153.279"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f164e51-cde9-483e-b3fc-63d19946919c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Akt phosphorylates POSH in the Rac1 binding domain, preventing binding of Rac1 w/ POSH</p> <p>PMID:17535800</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f164e51-cde9-483e-b3fc-63d19946919c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17535800"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15739.311" y="18994.5"/> <port id="pr_8f164e51-cde9-483e-b3fc-63d19946919c_p1" x="15729.311" y="18999.5"/> <port id="pr_8f164e51-cde9-483e-b3fc-63d19946919c_p2" x="15759.311" y="18999.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4f81890d-8ad5-4b00-a679-b431a5eaee20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14699081</p> <p>in Saos-2, direct transactivation of NOXA by HIF1A during hypoxia, role of NOXA in hypoxia-induced cell death</p> <p>PMID:16888645</p> <p>in SH-EP, in NB15 neuroblastoma cell lines expressing a FOXO3-ER fusion, upon 4OHT. PMAIP knock down protects from apoptosis</p> <p>PMID:12676992</p> <p>in MEF by CTBP1 and CTBP2 (RT-PCR, double knocked out)</p> <p>PMID:14684737</p> <p>in NIH3T3, by E2F1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4f81890d-8ad5-4b00-a679-b431a5eaee20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14699081"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16888645"/> </rdf:Bag> 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y="16139.199"/> <port id="logicglyph_a9789266-aed9-4492-a4dc-043390d51a74_p1" x="7579.2686" y="16169.199"/> <port id="logicglyph_a9789266-aed9-4492-a4dc-043390d51a74_p2" x="7579.2686" y="16129.199"/> </glyph> <glyph class="process" orientation="vertical" id="pr_35d6290d-97ff-4f95-ab8f-1a733663f4ca"> <bbox w="10.0" h="10.0" x="20720.0" y="3260.0"/> <port id="pr_35d6290d-97ff-4f95-ab8f-1a733663f4ca_p1" x="20725.0" y="3280.0"/> <port id="pr_35d6290d-97ff-4f95-ab8f-1a733663f4ca_p2" x="20725.0" y="3250.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2ec22f21-5009-4e85-bb74-8fddeb8ec20a"> <bbox w="10.0" h="10.0" x="11797.637" y="15886.535"/> <port id="pr_2ec22f21-5009-4e85-bb74-8fddeb8ec20a_p1" x="11817.637" y="15891.535"/> <port id="pr_2ec22f21-5009-4e85-bb74-8fddeb8ec20a_p2" x="11787.637" y="15891.535"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d939b242-6540-4e5c-b44b-c2ad1b2e472f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20449.31" y="11733.608"/> <port id="pr_d939b242-6540-4e5c-b44b-c2ad1b2e472f_p1" x="20439.31" y="11738.608"/> <port id="pr_d939b242-6540-4e5c-b44b-c2ad1b2e472f_p2" x="20469.31" y="11738.608"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15313637-32fa-48ae-af1f-6e6180539009"> <bbox w="10.0" h="10.0" x="5711.5" y="7681.125"/> <port id="pr_15313637-32fa-48ae-af1f-6e6180539009_p1" x="5716.5" y="7671.125"/> <port id="pr_15313637-32fa-48ae-af1f-6e6180539009_p2" x="5716.5" y="7701.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_72b9bd46-81bc-402e-b9a1-94c9b3c1a41b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> <p>PMID:19440036</p> </body> </html> 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x="29369.06" y="9349.0"/> <port id="pr_e52f2eef-a64a-4bfe-a9ef-d065ff2841de_p2" x="29369.06" y="9379.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_23684b15-9c0d-4d68-9531-8f05f6791017"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17435549</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_23684b15-9c0d-4d68-9531-8f05f6791017"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17435549"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24284.762" y="16192.383"/> <port id="pr_23684b15-9c0d-4d68-9531-8f05f6791017_p1" x="24289.762" y="16212.383"/> <port id="pr_23684b15-9c0d-4d68-9531-8f05f6791017_p2" x="24289.762" y="16182.383"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ffee9b2e-0a22-4e5b-b1ed-ab43ed0f2d6b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:25845889</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ffee9b2e-0a22-4e5b-b1ed-ab43ed0f2d6b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25845889"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2847.7002" y="22172.75"/> <port id="pr_ffee9b2e-0a22-4e5b-b1ed-ab43ed0f2d6b_p1" x="2852.7002" y="22192.75"/> <port id="pr_ffee9b2e-0a22-4e5b-b1ed-ab43ed0f2d6b_p2" x="2852.7002" y="22162.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8d35bcf6-facb-4fb9-86ea-fc93f369c694"> <bbox w="10.0" h="10.0" x="27019.0" y="2435.0"/> <port id="pr_8d35bcf6-facb-4fb9-86ea-fc93f369c694_p1" x="27039.0" y="2440.0"/> <port id="pr_8d35bcf6-facb-4fb9-86ea-fc93f369c694_p2" x="27009.0" y="2440.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00677914-ec47-4eae-b950-1631a7fcc07d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15140942</p> <p>Phosphorylations on p53 prevent its binding to MDM2.</p> <p>PMID:15574337</p> <p>S186 phosphorylation of MDM2 by AKT favors the binding of MDM2 to p53 and its following degradation.</p> <p>PMID:19336515</p> <p>TWIST1 physically promotes interaction between p53 and MDM2</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_00677914-ec47-4eae-b950-1631a7fcc07d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140942"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15574337"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19336515"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4710.768" y="14646.0"/> <port id="pr_00677914-ec47-4eae-b950-1631a7fcc07d_p1" x="4715.768" y="14666.0"/> <port id="pr_00677914-ec47-4eae-b950-1631a7fcc07d_p2" x="4715.768" y="14636.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_acd2eba8-ac94-4123-8e1b-728c4ffd80b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11121431</p> <p>PMID:15157156</p> <p>PMID:15229651</p> <p>Nischarin binds preferentially to the cytoplasmic tail of ITGA5 subunit ti inhibit cell migration.</p> <p>Nischarin is not found in focal adhesion sites.</p> <p>Once integrins enter into adhesion sites, Nischarin is released, allowing it to bind to the activated PAK1 in order to inactive PAK1..</p> <p>This binding is enhaced by active Rac1.</p> <p>The ability of Nischarin to inhibit PAK1 is related to its ability to inhibit cell motility.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_acd2eba8-ac94-4123-8e1b-728c4ffd80b8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11121431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15157156"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15229651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5376.0" y="16034.316"/> <port id="pr_acd2eba8-ac94-4123-8e1b-728c4ffd80b8_p1" x="5366.0" y="16039.316"/> <port 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<p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1781.875" y="13864.5"/> <port id="pr_8a525ea5-34fa-46c4-9b2f-aa1d0d193671_p1" x="1801.875" y="13869.5"/> <port id="pr_8a525ea5-34fa-46c4-9b2f-aa1d0d193671_p2" x="1771.875" y="13869.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e828d05b-830e-4742-bda5-80a66352e2ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17446862</p> <p>BAD reduces the extent of autophagy in response to starvation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e828d05b-830e-4742-bda5-80a66352e2ea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17446862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28098.06" y="12118.0"/> <port id="pr_e828d05b-830e-4742-bda5-80a66352e2ea_p1" x="28103.06" y="12108.0"/> <port id="pr_e828d05b-830e-4742-bda5-80a66352e2ea_p2" x="28103.06" y="12138.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_457bbe7b-30ac-4fb7-ac46-9866428ca51a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> 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id="pr_f1e28f32-62dc-47fd-bdf7-254aebe54b0d_p2" x="3525.0" y="19009.99"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_49605c30-258d-4b7b-93ac-58c2404df0e6"> <bbox w="10.0" h="10.0" x="22337.06" y="13737.083"/> <port id="pr_49605c30-258d-4b7b-93ac-58c2404df0e6_p1" x="22357.06" y="13742.083"/> <port id="pr_49605c30-258d-4b7b-93ac-58c2404df0e6_p2" x="22327.06" y="13742.083"/> </glyph> <glyph class="process" orientation="vertical" id="pr_249a3c7e-873e-4a4d-9a03-adb1a7c951c5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Rac1 found to be associated with polymerised Dvl.</p> <p>PMID:20215527</p> <p>PMID:18953287</p> <p>DEP domain in Dvl is enough to activate Rac</p> <p>PMID:12533515</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_249a3c7e-873e-4a4d-9a03-adb1a7c951c5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18953287"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12533515"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15903.952" y="19311.25"/> <port id="pr_249a3c7e-873e-4a4d-9a03-adb1a7c951c5_p1" x="15908.952" y="19331.25"/> <port id="pr_249a3c7e-873e-4a4d-9a03-adb1a7c951c5_p2" x="15908.952" y="19301.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fdae6eb1-0c02-4b06-bc3d-337f68727660"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19104148</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fdae6eb1-0c02-4b06-bc3d-337f68727660"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19104148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23769.56" y="19352.0"/> <port id="pr_fdae6eb1-0c02-4b06-bc3d-337f68727660_p1" x="23759.56" y="19357.0"/> <port id="pr_fdae6eb1-0c02-4b06-bc3d-337f68727660_p2" x="23789.56" y="19357.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8b80babb-3b44-49b3-8e09-240d62448a9f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b80babb-3b44-49b3-8e09-240d62448a9f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3869.625" y="10501.375"/> <port id="pr_8b80babb-3b44-49b3-8e09-240d62448a9f_p1" x="3859.625" y="10506.375"/> <port id="pr_8b80babb-3b44-49b3-8e09-240d62448a9f_p2" x="3889.625" y="10506.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_946dc21b-172a-4fbb-b2af-e9d090e0d8ab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PDK1 is a PI3K target leading to activation of P70 and subsequent cell growth. Signaling proteins with pleckstrin-homology (PH) domains accumulate at sites of PI3K activation by directly binding to PI(345)P3. Of particular interest are the protein serine-threonine kinases Akt and phosphoinositide-dependent kinase 1 (PDK1). Association with PI(345)P3 at the membrane brings these proteins into proximity and facilitates phosphorylation of Akt by PDK1. This phosphorylation stimulates the catalytic activity of Akt resulting in the phosphorylation of a host of other proteins that affect cell growth cell cycle entry and cell survival.</p> <p>PMID:12040186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_946dc21b-172a-4fbb-b2af-e9d090e0d8ab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" 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x="17487.582" y="1640.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e435bb48-1074-4b2d-a598-f728d68aacc1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3696.1914" y="16347.0"/> <port id="pr_e435bb48-1074-4b2d-a598-f728d68aacc1_p1" x="3686.1914" y="16352.0"/> <port id="pr_e435bb48-1074-4b2d-a598-f728d68aacc1_p2" x="3716.1914" y="16352.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4d143c78-fbbd-4577-9051-6825c4e76a60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22753312</p> <p>direct regulation of SMAD2 by miR-141/200c/30e</p> <p>Confidence_begin:</p> 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x="4502.0" y="6400.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_590d5983-2035-4ef5-9421-3add4ded3b99"> <bbox w="10.0" h="10.0" x="11347.473" y="9057.856"/> <port id="pr_590d5983-2035-4ef5-9421-3add4ded3b99_p1" x="11337.473" y="9062.856"/> <port id="pr_590d5983-2035-4ef5-9421-3add4ded3b99_p2" x="11367.473" y="9062.856"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d0ab85ec-b64d-4ee9-a10e-ecd273d17690"> <bbox w="10.0" h="10.0" x="8992.686" y="18481.148"/> <port id="pr_d0ab85ec-b64d-4ee9-a10e-ecd273d17690_p1" x="8982.686" y="18486.148"/> <port id="pr_d0ab85ec-b64d-4ee9-a10e-ecd273d17690_p2" x="9012.686" y="18486.148"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bfe0e095-d5a2-45a3-a5c9-7b4d9741f4a0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4254.3076" y="14531.0"/> <port id="pr_bfe0e095-d5a2-45a3-a5c9-7b4d9741f4a0_p1" x="4244.3076" y="14536.0"/> <port id="pr_bfe0e095-d5a2-45a3-a5c9-7b4d9741f4a0_p2" x="4274.3076" y="14536.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8eaa4c24-ea95-48c4-a75a-879443dd660a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:14551205</p> <p>PMID:17693255</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<head> <title/> </head> <body> <p>References:</p> <p>PMID:14747474</p> <p>in U937</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5cf2836f-e1b9-40d5-a9a2-01b26a843fa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14747474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21381.81" y="13196.938"/> <port id="pr_5cf2836f-e1b9-40d5-a9a2-01b26a843fa3_p1" x="21371.81" y="13201.938"/> <port id="pr_5cf2836f-e1b9-40d5-a9a2-01b26a843fa3_p2" x="21401.81" y="13201.938"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9cdfe4c6-bcb8-4402-a7c6-8ae2dfb06f8f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11279008</p> <p>in K562 human myelogenous leukaemia line, by NFE2L2, upon hemin</p> <p>PMID:17512463</p> <p>in mouse photoreceptor-derived 661W cells, by NFE2L2, upon 4-HNE</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9cdfe4c6-bcb8-4402-a7c6-8ae2dfb06f8f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11279008"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17512463"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25104.154" y="16194.898"/> <port id="pr_9cdfe4c6-bcb8-4402-a7c6-8ae2dfb06f8f_p1" x="25109.154" y="16214.898"/> <port id="pr_9cdfe4c6-bcb8-4402-a7c6-8ae2dfb06f8f_p2" x="25109.154" y="16184.898"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d74a0166-98f2-456d-9ac2-5c385a7070cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6253.172" y="14279.75"/> <port id="pr_d74a0166-98f2-456d-9ac2-5c385a7070cf_p1" x="6243.172" y="14284.75"/> <port id="pr_d74a0166-98f2-456d-9ac2-5c385a7070cf_p2" x="6273.172" y="14284.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8a0a8c5-ee5f-4b35-9d7f-32df090cb01e"> <bbox w="10.0" h="10.0" x="1035.0" y="2570.75"/> <port id="pr_d8a0a8c5-ee5f-4b35-9d7f-32df090cb01e_p1" x="1040.0" y="2590.75"/> <port id="pr_d8a0a8c5-ee5f-4b35-9d7f-32df090cb01e_p2" x="1040.0" y="2560.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1855a1cb-644c-4660-b10b-500e64ba848f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20823910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1855a1cb-644c-4660-b10b-500e64ba848f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23169.336" y="12764.833"/> <port id="pr_1855a1cb-644c-4660-b10b-500e64ba848f_p1" x="23189.336" y="12769.833"/> <port id="pr_1855a1cb-644c-4660-b10b-500e64ba848f_p2" x="23159.336" y="12769.833"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d303d01a-729b-446d-8998-3d3f430b1ee0"> <bbox w="10.0" h="10.0" x="13875.561" y="18314.5"/> <port id="pr_d303d01a-729b-446d-8998-3d3f430b1ee0_p1" x="13865.561" y="18319.5"/> <port id="pr_d303d01a-729b-446d-8998-3d3f430b1ee0_p2" x="13895.561" y="18319.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61b5b531-9b29-45fb-bc11-07a84a667fd4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19945467</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_61b5b531-9b29-45fb-bc11-07a84a667fd4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4504.875" y="10309.375"/> <port id="pr_61b5b531-9b29-45fb-bc11-07a84a667fd4_p1" x="4509.875" y="10329.375"/> <port id="pr_61b5b531-9b29-45fb-bc11-07a84a667fd4_p2" x="4509.875" y="10299.375"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_ce8cd6c3-2697-48a7-8869-e9d47a73e988"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10671552</p> <p>PMID:11348595</p> <p>PMID:17928543</p> <p>in vitro phosphorylation of Cadherin at S834, 836, 842 significantly enhances the affinity with which beta-catenin binds cadherins.</p> <p>GSK3B and CSNK2 (casein kinase II) have been shown to phosphorylate these sites in vitro.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ce8cd6c3-2697-48a7-8869-e9d47a73e988"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10671552"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11348595"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17928543"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1409.75" y="15806.0"/> <port id="pr_ce8cd6c3-2697-48a7-8869-e9d47a73e988_p1" x="1399.75" y="15811.0"/> <port id="pr_ce8cd6c3-2697-48a7-8869-e9d47a73e988_p2" x="1429.75" y="15811.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_859d5e12-0d9e-431d-9661-c0899106c5f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15637053</p> <p>in human fibrosarcoma HT1080 cells, phosphorylation of GPI by CK2 decreases its enzymatic activity and (non-phosphorylatable or phospho-mimetic mutants)</p> <p>in HT1080, knock-down of CK2 promotes GPI activity</p> <p>in vitro, in HT1080 cells, phosphomimetic GPI mutant forms tetramers</p> <p>in vitro, CK2 triggers GPI tetramerisation</p> <p>PMID:11004567</p> <p>in vitro CK2 mediated phosphorylation of GPI on S185</p> <p>in HT1080 cells, Ser phosphorylation of GPI</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_859d5e12-0d9e-431d-9661-c0899106c5f2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15637053"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11004567"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18584.06" y="9634.0"/> <port id="pr_859d5e12-0d9e-431d-9661-c0899106c5f2_p1" x="18589.06" y="9654.0"/> <port id="pr_859d5e12-0d9e-431d-9661-c0899106c5f2_p2" x="18589.06" y="9624.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a8047abd-56de-4d52-9ada-f3b416cc093f"> <bbox w="10.0" h="10.0" x="18684.06" y="15079.0"/> <port id="pr_a8047abd-56de-4d52-9ada-f3b416cc093f_p1" x="18674.06" y="15084.0"/> <port id="pr_a8047abd-56de-4d52-9ada-f3b416cc093f_p2" x="18704.06" y="15084.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bd2275c6-f047-4419-b236-3957be27dce8"> <bbox w="10.0" h="10.0" x="29281.0" y="6320.0"/> <port id="pr_bd2275c6-f047-4419-b236-3957be27dce8_p1" x="29286.0" y="6310.0"/> <port id="pr_bd2275c6-f047-4419-b236-3957be27dce8_p2" x="29286.0" y="6340.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dff44234-0bd4-48b6-9cc9-84004c02fb05"> <bbox w="10.0" h="10.0" x="12812.974" y="16743.994"/> <port id="pr_dff44234-0bd4-48b6-9cc9-84004c02fb05_p1" x="12817.974" y="16733.994"/> <port id="pr_dff44234-0bd4-48b6-9cc9-84004c02fb05_p2" x="12817.974" y="16763.994"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_893abcaa-10e1-4ee9-bc19-6441b308ce34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9430228</p> <p>TRAIL receptors 1 (DR4) and 2 (DR5) signal FADD-dependent apoptosis and activate NF-kappaB.</p> <p>PMID:16166346</p> <p>TRAIL promotes cell migration and invasion via a NF-kappaB-dependent pathway in human cholangiocarcinoma cell lines</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_893abcaa-10e1-4ee9-bc19-6441b308ce34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9430228"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16166346"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24489.06" y="9459.25"/> <port id="pr_893abcaa-10e1-4ee9-bc19-6441b308ce34_p1" x="24509.06" y="9464.25"/> <port id="pr_893abcaa-10e1-4ee9-bc19-6441b308ce34_p2" x="24479.06" y="9464.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cc998f27-d416-4dec-8c39-ec1c08003b23"> <bbox w="10.0" h="10.0" x="5215.0" y="4705.0"/> <port id="pr_cc998f27-d416-4dec-8c39-ec1c08003b23_p1" x="5205.0" y="4710.0"/> <port id="pr_cc998f27-d416-4dec-8c39-ec1c08003b23_p2" x="5235.0" y="4710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7a74e072-94e0-47ac-bfeb-fb3391cb8e98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17942906</p> <p>in Burkitt lymphoma cells</p> <p>PMID:9804616</p> <p>in human rhabdomyosarcoma Rh30 but not Rh1 cells, rapamycin inhibits serum-induced expression of MYC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7a74e072-94e0-47ac-bfeb-fb3391cb8e98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17942906"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9804616"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23609.475" y="16407.25"/> <port id="pr_7a74e072-94e0-47ac-bfeb-fb3391cb8e98_p1" x="23599.475" y="16412.25"/> <port id="pr_7a74e072-94e0-47ac-bfeb-fb3391cb8e98_p2" x="23629.475" y="16412.25"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_94d98497-a445-4ab6-a3d2-1b88c26fa3b7"> <bbox w="20.0" h="20.0" x="25810.06" y="15203.915"/> <port id="logicglyph_94d98497-a445-4ab6-a3d2-1b88c26fa3b7_p1" x="25840.06" y="15213.915"/> <port id="logicglyph_94d98497-a445-4ab6-a3d2-1b88c26fa3b7_p2" x="25800.06" y="15213.915"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d81e1d8-1428-4289-b6eb-9b50fe1e0d40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23110147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4d81e1d8-1428-4289-b6eb-9b50fe1e0d40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23110147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19401.31" y="16891.5"/> <port id="pr_4d81e1d8-1428-4289-b6eb-9b50fe1e0d40_p1" x="19391.31" y="16896.5"/> <port id="pr_4d81e1d8-1428-4289-b6eb-9b50fe1e0d40_p2" x="19421.31" y="16896.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2b09a592-0c70-4882-85a7-8db33ad90bf0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10753867</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2b09a592-0c70-4882-85a7-8db33ad90bf0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10753867"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13939.061" y="21989.0"/> <port id="pr_2b09a592-0c70-4882-85a7-8db33ad90bf0_p1" x="13929.061" y="21994.0"/> <port id="pr_2b09a592-0c70-4882-85a7-8db33ad90bf0_p2" x="13959.061" y="21994.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4ff09111-a827-4e2e-8b3b-348878752154"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17724475</p> <p>in Hela</p> </body> </html> </notes> <extension> 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orientation="horizontal" id="pr_a3a99daa-b81e-49e5-91fb-8dc2f3d41684"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11875494</p> <p>IL10-induced p38 phosphorylation.</p> <p>PMID:20435894</p> <p>SHIP inhibit MAPKp38 activation and prevent </p> <p>MKNK1 phosphorylation by inhibiting the p38MAPK </p> <p>pathway downstream of IL10.</p> <p>PMID:10925299</p> <p>IL13 induces p38 MAPK phosphorilation and activation, p38 MAPK participates in arginase activation downstream of IL13.</p> <p>PMID:23508573</p> <p>HMGB1 induces activation (phosphorylation) of p38 via TLR4.</p> <p>PMID:12811837, PMID:16713974</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:16713974</p> <p>TLR2 activates (induces phosphorylation of) ERKs, JNKs, and p38 rapidly and transiently in control macrophages.</p> <p>This activation is inhibited by IFNG signaling.</p> <p>PMID:11438547, PMID:24378531</p> <p>Both TNFR1 and TNFR2 signaling pathways are needed for activation of p38 MAPK.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a3a99daa-b81e-49e5-91fb-8dc2f3d41684"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11875494"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20435894"/> </rdf:Bag> </bqbiol:isEncodedBy> 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<port id="pr_a3a99daa-b81e-49e5-91fb-8dc2f3d41684_p2" x="26851.0" y="5640.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5e1e0b2d-5b45-4bd0-8d0d-74b575337b48"> <bbox w="10.0" h="10.0" x="2505.0" y="4116.25"/> <port id="pr_5e1e0b2d-5b45-4bd0-8d0d-74b575337b48_p1" x="2510.0" y="4106.25"/> <port id="pr_5e1e0b2d-5b45-4bd0-8d0d-74b575337b48_p2" x="2510.0" y="4136.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5360e537-7a1f-43c7-8446-09a6306e91ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3534.5" y="18989.0"/> <port id="pr_5360e537-7a1f-43c7-8446-09a6306e91ec_p1" x="3554.5" y="18994.0"/> <port id="pr_5360e537-7a1f-43c7-8446-09a6306e91ec_p2" x="3524.5" y="18994.0"/> </glyph> <glyph class="process" 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h="10.0" x="11395.732" y="8137.673"/> <port id="pr_396e70ea-a291-4c54-b5e0-382d93ee82db_p1" x="11415.732" y="8142.673"/> <port id="pr_396e70ea-a291-4c54-b5e0-382d93ee82db_p2" x="11385.732" y="8142.673"/> </glyph> <glyph class="process" orientation="vertical" id="pr_07bf337b-36b6-4980-8d29-423124e91dcd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14536078</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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y="15955.75"/> <port id="pr_77d79155-f7c8-4631-a8d8-03149803780d_p2" x="26975.387" y="15925.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8ee9ec17-6e2e-417f-94b8-8ddc1a58d27e"> <bbox w="10.0" h="10.0" x="2154.2627" y="4806.375"/> <port id="pr_8ee9ec17-6e2e-417f-94b8-8ddc1a58d27e_p1" x="2159.2627" y="4796.375"/> <port id="pr_8ee9ec17-6e2e-417f-94b8-8ddc1a58d27e_p2" x="2159.2627" y="4826.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_df9416a6-9ff9-4259-b266-c0d9bd210f0b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Negative feedback: MAPK1/ERK2 phosphorylates RAF1 on Ser 29, 43, 289, 296, 301, 642, generating an inactive kinase.</p> <p>PIN1, a prolyl isomerase converts pSer and pThr residues from the cis to the trans conformation, which is preferentially recognized and dephosphorylated by PPP2R1A.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6640.5" y="13846.75"/> <port id="pr_df9416a6-9ff9-4259-b266-c0d9bd210f0b_p1" x="6645.5" y="13866.75"/> <port id="pr_df9416a6-9ff9-4259-b266-c0d9bd210f0b_p2" x="6645.5" y="13836.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d26197bd-7033-4df4-bd0e-ed00d0e1a08f"> <bbox w="10.0" h="10.0" x="13417.533" y="1644.5"/> <port id="pr_d26197bd-7033-4df4-bd0e-ed00d0e1a08f_p1" x="13422.533" y="1634.5"/> <port id="pr_d26197bd-7033-4df4-bd0e-ed00d0e1a08f_p2" x="13422.533" y="1664.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60005dd2-4708-41ac-85c0-32a542536d96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16705156</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_60005dd2-4708-41ac-85c0-32a542536d96"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16705156"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10566.986" y="10611.353"/> <port id="pr_60005dd2-4708-41ac-85c0-32a542536d96_p1" x="10571.986" y="10601.353"/> <port id="pr_60005dd2-4708-41ac-85c0-32a542536d96_p2" x="10571.986" y="10631.353"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8547fc2b-bdd9-4d52-9aeb-62c5d2a9ce39"> <bbox w="10.0" h="10.0" x="12068.352" y="16524.145"/> <port id="pr_8547fc2b-bdd9-4d52-9aeb-62c5d2a9ce39_p1" x="12073.352" y="16514.145"/> <port id="pr_8547fc2b-bdd9-4d52-9aeb-62c5d2a9ce39_p2" x="12073.352" y="16544.145"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_624e146e-5d37-4142-9c50-9c983e76667b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Autophosphorylation sequential order: S192 T178 T187 T184</p> <p>PMID:20538596</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e108eab-e930-4449-8e62-2b7c08df7510"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5518.048" y="5868.946"/> <port id="pr_3e108eab-e930-4449-8e62-2b7c08df7510_p1" x="5508.048" y="5873.946"/> <port id="pr_3e108eab-e930-4449-8e62-2b7c08df7510_p2" x="5538.048" y="5873.946"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52e002dd-b4aa-43bd-8e77-4ed7470f627c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22699938</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_52e002dd-b4aa-43bd-8e77-4ed7470f627c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23500.06" y="20984.262"/> <port id="pr_52e002dd-b4aa-43bd-8e77-4ed7470f627c_p1" x="23490.06" y="20989.262"/> <port id="pr_52e002dd-b4aa-43bd-8e77-4ed7470f627c_p2" x="23520.06" y="20989.262"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e6543aa9-baee-4521-b192-39ff52c42744"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15169778 PMID:10722742</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e6543aa9-baee-4521-b192-39ff52c42744"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15169778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10722742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13345.061" y="21819.0"/> <port id="pr_e6543aa9-baee-4521-b192-39ff52c42744_p1" x="13365.061" y="21824.0"/> <port id="pr_e6543aa9-baee-4521-b192-39ff52c42744_p2" x="13335.061" y="21824.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5a423700-cd62-4516-ada9-abc90dc9ecfa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1951.5" y="15584.932"/> <port id="pr_5a423700-cd62-4516-ada9-abc90dc9ecfa_p1" x="1971.5" y="15589.932"/> <port id="pr_5a423700-cd62-4516-ada9-abc90dc9ecfa_p2" x="1941.5" y="15589.932"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_47cb7789-c6bf-4c1a-ac1a-d1c91f5223ab"> <bbox w="10.0" h="10.0" x="18973.06" y="10359.0"/> <port id="pr_47cb7789-c6bf-4c1a-ac1a-d1c91f5223ab_p1" x="18993.06" y="10364.0"/> <port id="pr_47cb7789-c6bf-4c1a-ac1a-d1c91f5223ab_p2" x="18963.06" y="10364.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e1c524ab-9dd9-41ab-b5ae-1211de1b5da8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2205.0" y="16957.346"/> <port id="pr_e1c524ab-9dd9-41ab-b5ae-1211de1b5da8_p1" x="2195.0" y="16962.346"/> <port id="pr_e1c524ab-9dd9-41ab-b5ae-1211de1b5da8_p2" x="2225.0" y="16962.346"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_4e48fd17-e938-4a99-9f6d-1973383c0627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5487.2344" y="16094.791"/> <port id="pr_4e48fd17-e938-4a99-9f6d-1973383c0627_p1" x="5492.2344" y="16084.791"/> <port id="pr_4e48fd17-e938-4a99-9f6d-1973383c0627_p2" x="5492.2344" y="16114.791"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_22d0b6d6-7434-4454-b73b-c3599e904291"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12531547 </p> <p>The generation of a high receptor density might be required for initiation of receptor-specific signaling and explain the function of the ASM and ceramide in multiple signaling pathways.</p> <p>PMID:26801188</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_22d0b6d6-7434-4454-b73b-c3599e904291"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12531547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26801188"/> </rdf:Bag> 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id="pr_d905461d-deec-4d67-be06-b54c40b5407d_p1" x="7521.915" y="20211.447"/> <port id="pr_d905461d-deec-4d67-be06-b54c40b5407d_p2" x="7521.915" y="20181.447"/> </glyph> <glyph class="process" orientation="vertical" id="pr_51d1808d-f0d4-4c95-ad6f-c6a0c153e11d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1527.2603" y="14979.0625"/> <port id="pr_51d1808d-f0d4-4c95-ad6f-c6a0c153e11d_p1" x="1532.2603" y="14999.0625"/> <port id="pr_51d1808d-f0d4-4c95-ad6f-c6a0c153e11d_p2" x="1532.2603" y="14969.0625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_866b9991-95d7-4dfa-8908-b93a1c5e1808"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18268019</p> <p>PMID:23691193</p> <p>PMID:17192274</p> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_866b9991-95d7-4dfa-8908-b93a1c5e1808"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18268019"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23691193"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17192274"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5356.25" y="9728.75"/> <port id="pr_866b9991-95d7-4dfa-8908-b93a1c5e1808_p1" x="5361.25" y="9748.75"/> <port id="pr_866b9991-95d7-4dfa-8908-b93a1c5e1808_p2" x="5361.25" y="9718.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e081b41-1f49-46dd-84cc-b3626febf5dd"> <bbox w="10.0" h="10.0" x="28709.0" y="2624.0"/> <port id="pr_2e081b41-1f49-46dd-84cc-b3626febf5dd_p1" x="28729.0" y="2629.0"/> <port id="pr_2e081b41-1f49-46dd-84cc-b3626febf5dd_p2" x="28699.0" y="2629.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8e754f3b-6ca3-42a3-8d13-61bb9f7da05f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e754f3b-6ca3-42a3-8d13-61bb9f7da05f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22921416"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10160.743" y="16944.0"/> <port id="pr_8e754f3b-6ca3-42a3-8d13-61bb9f7da05f_p1" x="10150.743" y="16949.0"/> <port id="pr_8e754f3b-6ca3-42a3-8d13-61bb9f7da05f_p2" x="10180.743" y="16949.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d9af37ab-7d84-4b49-8be6-213e25433eb0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11113207 PMID:18931698</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d9af37ab-7d84-4b49-8be6-213e25433eb0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11113207"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18931698"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20984.33" y="17939.0"/> <port id="pr_d9af37ab-7d84-4b49-8be6-213e25433eb0_p1" x="20989.33" y="17959.0"/> <port id="pr_d9af37ab-7d84-4b49-8be6-213e25433eb0_p2" x="20989.33" y="17929.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_319cd53d-2285-4e1f-b18b-d762c30f56ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:14517404</p> <p>Fibroblast growth factor FGF1, a prototypic member of the FGF family, has the ability to stimulate angiogenesis in an in vivo model of angiogenesis.</p> <p>Eggs received secreted FGF1 showed a significant increase in vascularization when compared to eggs received vector alone plasmids. </p> <p>PMID:16272825</p> <p>This FGF1-mediated angiogenesis involves in the PI3K/AKT pathway.</p> <p>Blocked PI3K pathway via LY294002 in FGF1-transfected CAMs (chicken chorio- allantoic membrane) signifi cantly inhibited angiogenesis</p> <p>PMID:16682805</p> <p>Both activity and mRNA expression levels of the Ets1 molecule were increased in response to FGF1 overexpression</p> <p>Ets-1 activation is a requisite for FGF1-mediated angiogenesis in vivo.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_319cd53d-2285-4e1f-b18b-d762c30f56ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14517404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16272825"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16682805"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4436.0" y="18234.75"/> <port id="pr_319cd53d-2285-4e1f-b18b-d762c30f56ed_p1" x="4456.0" y="18239.75"/> <port id="pr_319cd53d-2285-4e1f-b18b-d762c30f56ed_p2" x="4426.0" y="18239.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c8ee9bab-0b9e-42d3-b117-f6c813ed197f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19494111</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c8ee9bab-0b9e-42d3-b117-f6c813ed197f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19494111"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22806.56" y="16764.5"/> <port id="pr_c8ee9bab-0b9e-42d3-b117-f6c813ed197f_p1" x="22811.56" y="16784.5"/> <port id="pr_c8ee9bab-0b9e-42d3-b117-f6c813ed197f_p2" x="22811.56" y="16754.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_be337ceb-7693-415f-b91a-6bcc267eca45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="pr_cb957aaa-714b-401d-bb1f-8dd51cb20cf1_p2" x="21950.0" y="7915.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5592e381-264f-4db1-972e-cfe3f18f96c1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5618.7363" y="16095.678"/> <port id="pr_5592e381-264f-4db1-972e-cfe3f18f96c1_p1" x="5608.7363" y="16100.678"/> <port id="pr_5592e381-264f-4db1-972e-cfe3f18f96c1_p2" x="5638.7363" y="16100.678"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9b228284-75c2-4a69-8862-f6d7b060a8f5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>E-cadherin does not travel directly from the Golgi complex to the cell surface, but transits first through Rab11-positive recycling endosomes. Rab11 is involved in E-cadherin localization to the surface of the cell .</p> <p>In addition to acting as way stations for newly synthesized cadherin on its way to the plasma membrane, Rab11-positive recycling endosomes can also sort internalized cadherin for recycling back to the cell surface.</p> <p>Desclozeaux and colleagues also found that cadherin recycling is necessary for maintaining adherens junctions.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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<head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2894.0" y="16937.738"/> <port id="pr_7b451bed-e162-4a51-b703-97bf62d28529_p1" x="2914.0" y="16942.738"/> <port id="pr_7b451bed-e162-4a51-b703-97bf62d28529_p2" x="2884.0" y="16942.738"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6ce603ff-a84d-4e74-a8ed-8e557f0a7b4e"> <bbox w="10.0" h="10.0" x="3447.5" y="2465.0"/> <port id="pr_6ce603ff-a84d-4e74-a8ed-8e557f0a7b4e_p1" x="3437.5" y="2470.0"/> <port id="pr_6ce603ff-a84d-4e74-a8ed-8e557f0a7b4e_p2" x="3467.5" y="2470.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b5c753f1-14bf-4af9-a845-7e0722206984"> <bbox w="10.0" h="10.0" x="27046.56" y="12237.5"/> <port id="pr_b5c753f1-14bf-4af9-a845-7e0722206984_p1" x="27036.56" y="12242.5"/> <port id="pr_b5c753f1-14bf-4af9-a845-7e0722206984_p2" x="27066.56" y="12242.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b4cc1d53-68bd-42d5-8af5-a30b7c4d0c55"> <bbox w="10.0" h="10.0" x="17310.0" y="3265.0"/> <port id="pr_b4cc1d53-68bd-42d5-8af5-a30b7c4d0c55_p1" x="17315.0" y="3255.0"/> <port id="pr_b4cc1d53-68bd-42d5-8af5-a30b7c4d0c55_p2" x="17315.0" y="3285.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e72e5690-e1ee-4f7c-98ae-22d79a7b1b09"> <bbox w="10.0" h="10.0" x="20546.562" y="6388.75"/> <port id="pr_e72e5690-e1ee-4f7c-98ae-22d79a7b1b09_p1" x="20551.562" y="6378.75"/> <port id="pr_e72e5690-e1ee-4f7c-98ae-22d79a7b1b09_p2" x="20551.562" y="6408.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c22c5f5-69e5-4347-aaad-671b840baebc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18584027:G, PMID:17965729, PMID:20064462, PMID:18809224</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8c22c5f5-69e5-4347-aaad-671b840baebc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18584027:G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17965729"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20064462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18809224"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13636.926" y="16199.982"/> <port id="pr_8c22c5f5-69e5-4347-aaad-671b840baebc_p1" x="13641.926" y="16189.982"/> <port id="pr_8c22c5f5-69e5-4347-aaad-671b840baebc_p2" x="13641.926" y="16219.982"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5824dd2c-9a2a-4567-8dcb-fa6c876b6114"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to subunits ATP6V0C/D of the ATPase to lower the pH in the endosome. The reason for this is unknown but it is speculated that a lower pH is required for remodeling of the actin skeleton. However, v-ATPase is necessary for signaling</p> <p>PMID:21796133</p> <p>PMID:21380625</p> <p>PMID:20093472</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5824dd2c-9a2a-4567-8dcb-fa6c876b6114"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15524.686" y="19663.0"/> <port id="pr_5824dd2c-9a2a-4567-8dcb-fa6c876b6114_p1" x="15514.686" y="19668.0"/> <port id="pr_5824dd2c-9a2a-4567-8dcb-fa6c876b6114_p2" x="15544.686" y="19668.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2b0555c1-ddbf-4978-925d-bdbfa57288fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>TGF-beta upregelates gene expression of NFAT1 and NFAT2 via Ca2+/Calcineurin pathway</p> <p>PMID:20516082</p> <p>P38 MAPK activates NFATc/NFAT2 promoter</p> <p>PMID:12944472</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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id="pr_16e0456e-adf8-4cdf-86b1-d7a90c43b160_p1" x="785.0" y="3887.75"/> <port id="pr_16e0456e-adf8-4cdf-86b1-d7a90c43b160_p2" x="785.0" y="3917.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_68cfbd4c-f925-47e0-8c46-6fa3e70d536c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20706219</p> <p>Feedback loop: ZEB1 inhibits expression of MIR203 and MIR183</p> <p>PMID:19935649</p> <p>ZEB1 directly controls transcription of the miR-203 and miR-183 and miR-200 family genes</p> <p>PMID:24335145</p> <p>β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_68cfbd4c-f925-47e0-8c46-6fa3e70d536c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19935649"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24335145"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3638.5" y="17109.08"/> <port id="pr_68cfbd4c-f925-47e0-8c46-6fa3e70d536c_p1" x="3628.5" y="17114.08"/> <port id="pr_68cfbd4c-f925-47e0-8c46-6fa3e70d536c_p2" x="3658.5" y="17114.08"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e9d8938f-4b1b-4ecc-b83b-f39045a7ef59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22796940</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>PMID:14673164</p> <p>Snail interacts in vivo with the E-cadherin promoter and recruits HDAC activity. </p> <p>Interaction between Snail, HDAC1 and HDAC2, and the corepressor Sin3A is dependent on the SNAG domain of Snail, indicating that the Snail transcription factor mediates the repression by recruitment of chromatin-modifying activities, forming a multimolecular complex to repress E-cadherin expression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9d8938f-4b1b-4ecc-b83b-f39045a7ef59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22796940"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14673164"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3311.0" y="15967.0"/> <port id="pr_e9d8938f-4b1b-4ecc-b83b-f39045a7ef59_p1" x="3316.0" y="15987.0"/> <port id="pr_e9d8938f-4b1b-4ecc-b83b-f39045a7ef59_p2" x="3316.0" y="15957.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a4890b14-dfef-4a5c-a93c-b43014392520"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10788511, PMID:10094050, PMID:9585406</p> <p>For a more detailed mechanism see CRM1 in map Nucleus_MTOR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a4890b14-dfef-4a5c-a93c-b43014392520"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10788511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10094050"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9585406"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19060.06" y="19300.5"/> <port id="pr_a4890b14-dfef-4a5c-a93c-b43014392520_p1" x="19065.06" y="19320.5"/> <port id="pr_a4890b14-dfef-4a5c-a93c-b43014392520_p2" x="19065.06" y="19290.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_933f01a4-1744-46d8-afdf-ed76aaca40e2"> <bbox w="10.0" h="10.0" x="28202.2" y="2628.0"/> <port id="pr_933f01a4-1744-46d8-afdf-ed76aaca40e2_p1" x="28207.2" y="2648.0"/> <port id="pr_933f01a4-1744-46d8-afdf-ed76aaca40e2_p2" x="28207.2" y="2618.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b3045d48-e380-4a2f-80bc-03adb94f5160"> <bbox w="10.0" h="10.0" x="29170.285" y="16005.25"/> <port id="pr_b3045d48-e380-4a2f-80bc-03adb94f5160_p1" x="29175.285" y="16025.25"/> <port id="pr_b3045d48-e380-4a2f-80bc-03adb94f5160_p2" x="29175.285" y="15995.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e5916f3e-983a-4282-99f9-1c364d86d7fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11707428</p> <p>phospho- rylation of the PTEN tail negatively regulates PTEN activity</p> <p>PMID:11035045</p> <p>phosphorylation of PTEN by CK2 is important for PTEN protein stability to proteasome-mediated degradation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e5916f3e-983a-4282-99f9-1c364d86d7fe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11707428"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11035045"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12775.186" y="18303.5"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11896143</p> <p>in mouse primary neurons, expression of NAIP protects from camptothecin induced cell death</p> <p>in Hela, expression of NAIP protects from etoposide-induced cell death</p> <p>in vitro, with reconbinant proteins, NAIP inhibits CASP3 activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_40703f48-8773-42a3-9fd8-60af3d75e0ff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11896143"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24961.06" y="13494.0"/> <port id="pr_40703f48-8773-42a3-9fd8-60af3d75e0ff_p1" x="24951.06" y="13499.0"/> <port id="pr_40703f48-8773-42a3-9fd8-60af3d75e0ff_p2" x="24981.06" y="13499.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cc268f9e-6a98-4813-adcb-d99f42c6f038"> <bbox w="10.0" h="10.0" x="13151.393" y="9388.247"/> <port id="pr_cc268f9e-6a98-4813-adcb-d99f42c6f038_p1" x="13171.393" y="9393.247"/> <port id="pr_cc268f9e-6a98-4813-adcb-d99f42c6f038_p2" x="13141.393" y="9393.247"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a789b59-0404-4fdf-b29c-da1480f807e3"> <bbox w="10.0" h="10.0" x="20071.922" y="6926.5"/> <port id="pr_9a789b59-0404-4fdf-b29c-da1480f807e3_p1" x="20076.922" y="6916.5"/> <port id="pr_9a789b59-0404-4fdf-b29c-da1480f807e3_p2" x="20076.922" y="6946.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_01262191-8d91-4928-a162-12f44bba1ab3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PLCG acts on PIP2 in the PM to produce DAG and IP3.</p> <p>PMID:16488589</p> <p>IP3 diffuses through the cytosol and binds to receptors on the endoplasmic reticulum causing the release of calcium ions (Ca2+) into the cytosol.</p> <p>http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/S/Second_messengers.html</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_01262191-8d91-4928-a162-12f44bba1ab3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7760.56" y="19238.762"/> <port id="pr_01262191-8d91-4928-a162-12f44bba1ab3_p1" x="7750.56" y="19243.762"/> <port id="pr_01262191-8d91-4928-a162-12f44bba1ab3_p2" x="7780.56" y="19243.762"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bea98e24-e973-4458-b668-97485806c179"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12665579</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bea98e24-e973-4458-b668-97485806c179"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12665579"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24674.06" y="13984.0"/> <port id="pr_bea98e24-e973-4458-b668-97485806c179_p1" x="24679.06" y="13974.0"/> <port id="pr_bea98e24-e973-4458-b668-97485806c179_p2" x="24679.06" y="14004.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9746ff5e-eb20-4dc4-bcf1-4dce22bf5214"> <bbox w="10.0" h="10.0" x="12835.0" y="5381.25"/> <port id="pr_9746ff5e-eb20-4dc4-bcf1-4dce22bf5214_p1" x="12840.0" y="5371.25"/> <port id="pr_9746ff5e-eb20-4dc4-bcf1-4dce22bf5214_p2" x="12840.0" y="5401.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c0bf2df0-5b3a-4564-9c41-0f21f9ba0b5c"> <bbox w="10.0" h="10.0" x="22009.777" y="5361.25"/> <port id="pr_c0bf2df0-5b3a-4564-9c41-0f21f9ba0b5c_p1" x="22014.777" y="5351.25"/> <port id="pr_c0bf2df0-5b3a-4564-9c41-0f21f9ba0b5c_p2" x="22014.777" y="5381.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_4ec8754a-e71e-4ca6-a44a-225657ec816e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12080.561" y="17024.36"/> <port id="pr_4ec8754a-e71e-4ca6-a44a-225657ec816e_p1" x="12085.561" y="17014.36"/> <port id="pr_4ec8754a-e71e-4ca6-a44a-225657ec816e_p2" x="12085.561" y="17044.36"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c2af86f5-5e2c-44f7-a0df-19d601cf5b0b"> <bbox w="10.0" h="10.0" x="1161.25" y="4512.5"/> <port id="pr_c2af86f5-5e2c-44f7-a0df-19d601cf5b0b_p1" x="1181.25" y="4517.5"/> <port id="pr_c2af86f5-5e2c-44f7-a0df-19d601cf5b0b_p2" x="1151.25" y="4517.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_58f41a4f-5d07-45a8-a6fd-c2febaae96a0"> <bbox w="10.0" h="10.0" x="1845.0" y="4066.25"/> <port id="pr_58f41a4f-5d07-45a8-a6fd-c2febaae96a0_p1" x="1850.0" y="4056.25"/> <port id="pr_58f41a4f-5d07-45a8-a6fd-c2febaae96a0_p2" x="1850.0" y="4086.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_6ce08d34-f1eb-4cc8-960e-e2e6622f765b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6186.5" y="16882.0"/> <port id="pr_6ce08d34-f1eb-4cc8-960e-e2e6622f765b_p1" x="6191.5" y="16872.0"/> <port id="pr_6ce08d34-f1eb-4cc8-960e-e2e6622f765b_p2" x="6191.5" y="16902.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a075a21-bbe4-4239-8941-227b2ec582c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CREB target genes (c-FOS EGR-1 MKP1 BCL2 MMP13).</p> <p>PMID:19815709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8a075a21-bbe4-4239-8941-227b2ec582c4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19815709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7961.884" y="20732.398"/> <port id="pr_8a075a21-bbe4-4239-8941-227b2ec582c4_p1" x="7966.884" y="20722.398"/> <port id="pr_8a075a21-bbe4-4239-8941-227b2ec582c4_p2" x="7966.884" y="20752.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_071c6cca-7cae-4e94-8f43-d3a60b845c0f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17199039, PMID:14722118</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_071c6cca-7cae-4e94-8f43-d3a60b845c0f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17199039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14722118"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10601.681" y="13865.069"/> <port id="pr_071c6cca-7cae-4e94-8f43-d3a60b845c0f_p1" x="10606.681" y="13885.069"/> <port id="pr_071c6cca-7cae-4e94-8f43-d3a60b845c0f_p2" x="10606.681" y="13855.069"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_44851ddf-99e0-4d67-9286-e9cfc77a71bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8625410</p> <p>PMID:16293614</p> <p>PMID:10467124</p> <p>PMID:10511705</p> <p>CDC42 induces actin cytoskeleton changes by activating WASP and N-WASP.</p> <p>WASP and N-WASP binds to ARP2/3 and this lieads to actin cytoskeletal polymerization and filopodia formation.</p> <p>PMID:10940259</p> <p>CDC42 initiates WASP/Arp2_3 nucleation of actin.</p> <p>PMID:15713627</p> <p>Spatially distinct binding of Cdc42 to PAK1 and N-WASP</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_44851ddf-99e0-4d67-9286-e9cfc77a71bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8625410"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16293614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10467124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10511705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10940259"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15713627"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6578.25" y="15017.0"/> <port id="pr_44851ddf-99e0-4d67-9286-e9cfc77a71bc_p1" x="6568.25" y="15022.0"/> <port id="pr_44851ddf-99e0-4d67-9286-e9cfc77a71bc_p2" x="6598.25" y="15022.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6d89c70a-d0b2-4e85-a98d-611e8feb7eb5"> <bbox w="10.0" h="10.0" x="27054.125" y="2067.56"/> <port id="pr_6d89c70a-d0b2-4e85-a98d-611e8feb7eb5_p1" x="27044.125" y="2072.56"/> <port id="pr_6d89c70a-d0b2-4e85-a98d-611e8feb7eb5_p2" x="27074.125" y="2072.56"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b219be16-9b34-4092-b5a6-e4843a653e58"> <bbox w="10.0" h="10.0" x="27776.326" y="16100.0"/> <port id="pr_b219be16-9b34-4092-b5a6-e4843a653e58_p1" x="27781.326" y="16120.0"/> <port id="pr_b219be16-9b34-4092-b5a6-e4843a653e58_p2" x="27781.326" y="16090.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fe1480d8-f5d1-4c21-80f1-61a742322c30"> <bbox w="10.0" h="10.0" x="3035.274" y="2749.875"/> <port id="pr_fe1480d8-f5d1-4c21-80f1-61a742322c30_p1" x="3040.274" y="2739.875"/> <port id="pr_fe1480d8-f5d1-4c21-80f1-61a742322c30_p2" x="3040.274" y="2769.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_09c528ea-3d5e-4f32-8d73-3e2a2817b014"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9065430</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_09c528ea-3d5e-4f32-8d73-3e2a2817b014"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9065430"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25534.81" y="10822.5"/> <port id="pr_09c528ea-3d5e-4f32-8d73-3e2a2817b014_p1" x="25554.81" y="10827.5"/> <port id="pr_09c528ea-3d5e-4f32-8d73-3e2a2817b014_p2" x="25524.81" y="10827.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b8ee8f1d-afa0-4aa7-89b8-e587d2f3af34"> <bbox w="10.0" h="10.0" x="4602.755" y="3817.5"/> <port id="pr_b8ee8f1d-afa0-4aa7-89b8-e587d2f3af34_p1" x="4607.755" y="3807.5"/> <port id="pr_b8ee8f1d-afa0-4aa7-89b8-e587d2f3af34_p2" x="4607.755" y="3837.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a9c97eb2-4376-49f3-a59d-014852e4fbd6"> <bbox w="10.0" h="10.0" x="20982.531" y="3928.75"/> <port id="pr_a9c97eb2-4376-49f3-a59d-014852e4fbd6_p1" x="20987.531" y="3918.75"/> <port id="pr_a9c97eb2-4376-49f3-a59d-014852e4fbd6_p2" x="20987.531" y="3948.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_11a6409f-9096-4d64-8a29-e2994a00a946"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5323.0" y="17594.5"/> <port id="pr_11a6409f-9096-4d64-8a29-e2994a00a946_p1" x="5313.0" y="17599.5"/> <port id="pr_11a6409f-9096-4d64-8a29-e2994a00a946_p2" x="5343.0" y="17599.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8fb9dec5-31f9-4d87-8ed1-5384c52ed268"> <bbox w="10.0" h="10.0" x="27807.967" y="13924.0"/> <port id="pr_8fb9dec5-31f9-4d87-8ed1-5384c52ed268_p1" x="27797.967" y="13929.0"/> <port id="pr_8fb9dec5-31f9-4d87-8ed1-5384c52ed268_p2" x="27827.967" y="13929.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3faf307e-79ae-42ab-93e7-382de7a85c75"> <bbox w="10.0" h="10.0" x="6983.0" y="6684.0"/> <port id="pr_3faf307e-79ae-42ab-93e7-382de7a85c75_p1" x="6988.0" y="6674.0"/> <port id="pr_3faf307e-79ae-42ab-93e7-382de7a85c75_p2" x="6988.0" y="6704.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c3b0c53-22e3-4d5f-8b68-a2c905e4d9a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27328425</p> <p>PMID:27572739</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8c3b0c53-22e3-4d5f-8b68-a2c905e4d9a9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4568.25" y="11295.25"/> <port id="pr_8c3b0c53-22e3-4d5f-8b68-a2c905e4d9a9_p1" x="4573.25" y="11285.25"/> <port id="pr_8c3b0c53-22e3-4d5f-8b68-a2c905e4d9a9_p2" x="4573.25" y="11315.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_59e238b8-aaf2-4dfd-81b6-bd128ae10580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6290.786" y="14747.5"/> <port id="pr_59e238b8-aaf2-4dfd-81b6-bd128ae10580_p1" x="6310.786" y="14752.5"/> <port id="pr_59e238b8-aaf2-4dfd-81b6-bd128ae10580_p2" x="6280.786" y="14752.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4711a647-7722-4487-92cb-08f45fdb0900"> <bbox w="10.0" h="10.0" x="2741.56" y="21725.25"/> <port id="pr_4711a647-7722-4487-92cb-08f45fdb0900_p1" x="2746.56" y="21745.25"/> <port id="pr_4711a647-7722-4487-92cb-08f45fdb0900_p2" x="2746.56" y="21715.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_29b3f297-a7db-468f-8fe7-8910c1a55065"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3174.25" y="16332.626"/> <port id="pr_29b3f297-a7db-468f-8fe7-8910c1a55065_p1" x="3194.25" y="16337.626"/> <port id="pr_29b3f297-a7db-468f-8fe7-8910c1a55065_p2" x="3164.25" y="16337.626"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ef89d753-407d-403c-b26f-d29098b4e6db"> <bbox w="10.0" h="10.0" x="27721.633" y="2658.75"/> <port id="pr_ef89d753-407d-403c-b26f-d29098b4e6db_p1" x="27726.633" y="2678.75"/> <port id="pr_ef89d753-407d-403c-b26f-d29098b4e6db_p2" x="27726.633" y="2648.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b7b08617-29dc-47f3-b9ec-47f31864ac6a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6471.9873" y="18805.75"/> <port id="pr_b7b08617-29dc-47f3-b9ec-47f31864ac6a_p1" x="6461.9873" y="18810.75"/> <port id="pr_b7b08617-29dc-47f3-b9ec-47f31864ac6a_p2" x="6491.9873" y="18810.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61e04332-7f88-4b2c-9c66-f900c3709c90"> <bbox w="10.0" h="10.0" x="21208.09" y="3782.0"/> <port id="pr_61e04332-7f88-4b2c-9c66-f900c3709c90_p1" x="21213.09" y="3772.0"/> <port id="pr_61e04332-7f88-4b2c-9c66-f900c3709c90_p2" x="21213.09" y="3802.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_419bc039-9f63-4339-aa0a-3916e79d34e0"> <bbox w="10.0" h="10.0" x="21384.197" y="6935.625"/> <port id="pr_419bc039-9f63-4339-aa0a-3916e79d34e0_p1" x="21389.197" y="6925.625"/> <port id="pr_419bc039-9f63-4339-aa0a-3916e79d34e0_p2" x="21389.197" y="6955.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_139f5861-8773-4a94-ba40-e7cabc8c3745"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>RasGTP and Sur-8 allow dephosphorylation of N-ter 14-3-3 binding site of Raf and thus its recruitment.</p> <p>PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_139f5861-8773-4a94-ba40-e7cabc8c3745"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7805.31" y="19977.643"/> <port id="pr_139f5861-8773-4a94-ba40-e7cabc8c3745_p1" x="7825.31" y="19982.643"/> <port id="pr_139f5861-8773-4a94-ba40-e7cabc8c3745_p2" x="7795.31" y="19982.643"/> </glyph> <glyph class="process" orientation="vertical" id="pr_93abb4b6-4540-4729-8696-849acecfb66f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15774466</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_93abb4b6-4540-4729-8696-849acecfb66f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15774466"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24609.973" y="16159.898"/> <port id="pr_93abb4b6-4540-4729-8696-849acecfb66f_p1" x="24614.973" y="16179.898"/> <port id="pr_93abb4b6-4540-4729-8696-849acecfb66f_p2" x="24614.973" y="16149.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db35a3ab-e48e-424d-a1c7-d3e42ecc76d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27328425</p> <p>PMID:27572739</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db35a3ab-e48e-424d-a1c7-d3e42ecc76d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4669.5" y="11856.5"/> <port id="pr_db35a3ab-e48e-424d-a1c7-d3e42ecc76d7_p1" x="4674.5" y="11846.5"/> <port id="pr_db35a3ab-e48e-424d-a1c7-d3e42ecc76d7_p2" x="4674.5" y="11876.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_7321c791-2e44-4e19-a11a-1923ad8f8897"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4384.25" y="14889.176"/> <port id="pr_7321c791-2e44-4e19-a11a-1923ad8f8897_p1" x="4404.25" y="14894.176"/> <port id="pr_7321c791-2e44-4e19-a11a-1923ad8f8897_p2" x="4374.25" y="14894.176"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6073635a-525f-4215-ac1a-677f04c3e002"> <bbox w="10.0" h="10.0" x="20113.25" y="3469.221"/> <port id="pr_6073635a-525f-4215-ac1a-677f04c3e002_p1" x="20103.25" y="3474.221"/> <port id="pr_6073635a-525f-4215-ac1a-677f04c3e002_p2" x="20133.25" y="3474.221"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aadd6063-624f-487a-bdeb-fcf9d2f8a387"> <bbox w="10.0" h="10.0" x="16670.676" y="3229.5"/> <port id="pr_aadd6063-624f-487a-bdeb-fcf9d2f8a387_p1" x="16675.676" y="3219.5"/> <port id="pr_aadd6063-624f-487a-bdeb-fcf9d2f8a387_p2" x="16675.676" y="3249.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b7a69a0f-573f-4bc6-8514-e68530bc9509"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17297467</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b7a69a0f-573f-4bc6-8514-e68530bc9509"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17297467"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26688.56" y="20955.5"/> <port id="pr_b7a69a0f-573f-4bc6-8514-e68530bc9509_p1" x="26693.56" y="20945.5"/> <port id="pr_b7a69a0f-573f-4bc6-8514-e68530bc9509_p2" x="26693.56" y="20975.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1f96875c-a0b5-40fa-a3cd-d01c3ef56313"> <bbox w="10.0" h="10.0" x="19272.56" y="21525.0"/> <port id="pr_1f96875c-a0b5-40fa-a3cd-d01c3ef56313_p1" x="19262.56" y="21530.0"/> <port id="pr_1f96875c-a0b5-40fa-a3cd-d01c3ef56313_p2" x="19292.56" y="21530.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00eef450-0c9f-4c30-afe7-9b972339222a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22924.06" y="13511.5"/> <port id="pr_00eef450-0c9f-4c30-afe7-9b972339222a_p1" x="22929.06" y="13501.5"/> <port id="pr_00eef450-0c9f-4c30-afe7-9b972339222a_p2" x="22929.06" y="13531.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9489f8db-ce08-44d7-b666-118c2f535a7d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic proteins) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic proteins) work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:9872359</p> <p>A oncogene-derived protein, Bcl2, confers negative control in the pathway of cellular suicide machinery. </p> <p>A Bcl2-homologous protein, Bax, promotes cell death by competing with Bcl2. </p> <p>While Bax–Bax homodimers act as apoptosis inducers, Bcl2– Bax heterodimer formation evokes a survival signal for the cells. </p> <p>Both Bcl2 and Bax are transcriptional targets for the tumour suppressor protein, p53, which induces cell cycle arrest or apoptosis in response to DNA damage.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9489f8db-ce08-44d7-b666-118c2f535a7d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22039431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9872359"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5183.167" y="13775.113"/> <port id="pr_9489f8db-ce08-44d7-b666-118c2f535a7d_p1" x="5173.167" y="13780.113"/> <port id="pr_9489f8db-ce08-44d7-b666-118c2f535a7d_p2" x="5203.167" y="13780.113"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9dc35d03-4135-495d-8bb5-39b0c35f97cf"> <bbox w="10.0" h="10.0" x="9442.576" y="3367.5557"/> <port id="pr_9dc35d03-4135-495d-8bb5-39b0c35f97cf_p1" x="9447.576" y="3387.5557"/> <port id="pr_9dc35d03-4135-495d-8bb5-39b0c35f97cf_p2" x="9447.576" y="3357.5557"/> </glyph> <glyph class="process" orientation="vertical" id="pr_62316131-9d4e-4cd0-9562-f38a0c879e44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18593906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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</head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2182.301" y="16988.75"/> <port id="pr_9d01a8c3-2a95-4913-aa95-d6fe5c119df1_p1" x="2172.301" y="16993.75"/> <port id="pr_9d01a8c3-2a95-4913-aa95-d6fe5c119df1_p2" x="2202.301" y="16993.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc73efab-f824-4285-8fe5-406cafca1b38"> <bbox w="10.0" h="10.0" x="16149.598" y="16744.707"/> <port id="pr_dc73efab-f824-4285-8fe5-406cafca1b38_p1" x="16169.598" y="16749.707"/> <port id="pr_dc73efab-f824-4285-8fe5-406cafca1b38_p2" x="16139.598" y="16749.707"/> </glyph> <glyph class="process" orientation="vertical" id="pr_83af18c0-c66d-4a7b-a74b-1e406c566e85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PolN is degraded after S-phase by G2/M cell cycle checkpoint</p> <p>PMID:19995904</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83af18c0-c66d-4a7b-a74b-1e406c566e85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19995904"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14634.393" y="16915.32"/> <port id="pr_83af18c0-c66d-4a7b-a74b-1e406c566e85_p1" x="14639.393" y="16905.32"/> <port id="pr_83af18c0-c66d-4a7b-a74b-1e406c566e85_p2" x="14639.393" y="16935.32"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_b0f7993b-84c8-40be-ae5c-689e68ab2832"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19379695</p> <p>PMID:20930545</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b0f7993b-84c8-40be-ae5c-689e68ab2832"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20930545"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16156.311" y="19557.0"/> <port id="pr_b0f7993b-84c8-40be-ae5c-689e68ab2832_p1" x="16161.311" y="19577.0"/> <port id="pr_b0f7993b-84c8-40be-ae5c-689e68ab2832_p2" x="16161.311" y="19547.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b39504be-7839-4f11-940b-ca8d6ba1442a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2693.0" y="14801.775"/> <port id="pr_b39504be-7839-4f11-940b-ca8d6ba1442a_p1" x="2713.0" y="14806.775"/> <port id="pr_b39504be-7839-4f11-940b-ca8d6ba1442a_p2" x="2683.0" y="14806.775"/> </glyph> <glyph class="process" orientation="vertical" id="pr_87979848-215c-463d-9321-dd55ccc2aa69"> <bbox w="10.0" h="10.0" x="16017.5" y="1400.0"/> <port id="pr_87979848-215c-463d-9321-dd55ccc2aa69_p1" x="16022.5" y="1390.0"/> <port id="pr_87979848-215c-463d-9321-dd55ccc2aa69_p2" x="16022.5" y="1420.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_caebc165-b938-4be4-b579-d5f4e0784d65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17603038</p> <p>in HLE B3 human lens epithelial cells, TXNIP interacts with TXN and its over-expression decreases TXN disulfide reductase activity</p> <p>PMID:19847012</p> <p>in HEK293, upon TXNIP ectopic expression, suppression of TXN denitrosylase activity</p> <p>PMID:17976314</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_caebc165-b938-4be4-b579-d5f4e0784d65"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17603038"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17976314"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28902.31" y="10645.576"/> <port id="pr_caebc165-b938-4be4-b579-d5f4e0784d65_p1" x="28922.31" y="10650.576"/> <port id="pr_caebc165-b938-4be4-b579-d5f4e0784d65_p2" x="28892.31" y="10650.576"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_40bf36cb-a5ac-4b28-b4bb-177730ba6e8d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22871.56" y="16909.0"/> <port id="pr_40bf36cb-a5ac-4b28-b4bb-177730ba6e8d_p1" x="22861.56" y="16914.0"/> <port id="pr_40bf36cb-a5ac-4b28-b4bb-177730ba6e8d_p2" x="22891.56" y="16914.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7b6dc009-60d0-4a14-aa31-48332e65e3ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20006983 PMID:16965538 PMID:210606194 PMID:20093472 PMID:21796133</p> <p>Phosphorylation of DVL by CK1 epsilon. Activation of CK1 epsilon by unknown factor</p> <p>An acidic environment is required for phosphorylation of DVL and LRP5/6</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7b6dc009-60d0-4a14-aa31-48332e65e3ad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20006983"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16965538"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:210606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21904.367" y="17684.025"/> <port id="pr_7b6dc009-60d0-4a14-aa31-48332e65e3ad_p1" x="21894.367" y="17689.025"/> <port id="pr_7b6dc009-60d0-4a14-aa31-48332e65e3ad_p2" x="21924.367" y="17689.025"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_2e584bb8-03f1-4bc8-a8eb-2717176d8a18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5478.3647" y="16180.041"/> <port id="pr_2e584bb8-03f1-4bc8-a8eb-2717176d8a18_p1" x="5468.3647" y="16185.041"/> <port id="pr_2e584bb8-03f1-4bc8-a8eb-2717176d8a18_p2" x="5498.3647" y="16185.041"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6f071290-9856-4b32-9fb4-e0e2d8d3c027"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> <p>PMID:21084277</p> <p>PMID:19945467</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6f071290-9856-4b32-9fb4-e0e2d8d3c027"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4421.25" y="9899.25"/> <port id="pr_6f071290-9856-4b32-9fb4-e0e2d8d3c027_p1" x="4411.25" y="9904.25"/> <port id="pr_6f071290-9856-4b32-9fb4-e0e2d8d3c027_p2" x="4441.25" y="9904.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eca83640-265a-4ca1-8447-ab06bcfef1bb"> <bbox w="10.0" h="10.0" x="6297.75" y="3791.75"/> <port id="pr_eca83640-265a-4ca1-8447-ab06bcfef1bb_p1" x="6302.75" y="3781.75"/> <port id="pr_eca83640-265a-4ca1-8447-ab06bcfef1bb_p2" x="6302.75" y="3811.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99bcc90c-ff0f-4aa5-97dc-318a339ff087"> <bbox w="10.0" h="10.0" x="21015.727" y="5620.875"/> <port id="pr_99bcc90c-ff0f-4aa5-97dc-318a339ff087_p1" x="21020.727" y="5610.875"/> <port id="pr_99bcc90c-ff0f-4aa5-97dc-318a339ff087_p2" x="21020.727" y="5640.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d5707e5-084e-4827-b13c-bb03517012a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d5707e5-084e-4827-b13c-bb03517012a8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21036.053" y="22454.25"/> <port id="pr_2d5707e5-084e-4827-b13c-bb03517012a8_p1" x="21041.053" y="22444.25"/> <port id="pr_2d5707e5-084e-4827-b13c-bb03517012a8_p2" x="21041.053" y="22474.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2233978c-0d64-4d0a-a074-8ae69d7b2fcb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2233978c-0d64-4d0a-a074-8ae69d7b2fcb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22841746"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18127.719" y="9735.307"/> <port id="pr_2233978c-0d64-4d0a-a074-8ae69d7b2fcb_p1" x="18132.719" y="9755.307"/> <port id="pr_2233978c-0d64-4d0a-a074-8ae69d7b2fcb_p2" x="18132.719" y="9725.307"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_03e599a3-85b1-4e26-80f4-c1083ce1dc1f"> <bbox w="10.0" h="10.0" x="5063.0" y="6690.0"/> <port id="pr_03e599a3-85b1-4e26-80f4-c1083ce1dc1f_p1" x="5053.0" y="6695.0"/> <port id="pr_03e599a3-85b1-4e26-80f4-c1083ce1dc1f_p2" x="5083.0" y="6695.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f7b06cba-a8b6-47be-9529-143d30cf0cb5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>Integrin aVb6 activates the ECM-bound latent TGFB1 and TGFB3 by traction, without participation of MMPs, so no hydrolyse or clevage</p> <p>Integrin aVb8 and MMP14 (so-called MT1-MMP) cooperate to activate the ECM-bound latent TGFB1 and TGFB3: </p> <p>-Integrin aVb8 binds LAP from the large latent complex</p> <p>-MMP14 then is recruited to cleave LAP</p> <p>PMID:18342983</p> <p>Two main models are proposed how integrins contribute to latent TGFB1 activation: </p> <p>(1) In a protease-dependent mechanism, integrins avb8and avb3 are suggested to simultaneously bind the latent TGFB1 complex and proteinases.</p> <p>This close vicinity at the cell surface improves enzymatic cleavage of the latent complex to release active TGFB1. </p> <p>(2) Integrins avb3, avb5, avb6, and avb8 appear to change the conformation of the latent TGFB1 complex by transmitting cell traction forces.</p> <p>PMID:19854168</p> <p>Integrins are linked intracellularly to cytoskleletal elements and associated contractile machinery, and extracellularly to ECM. </p> <p>Thus contractility of a cell bound to a rigid ECM generates force between a matrix molecule and its receptor. Such forces may uncouple LLCs so as to free TGFb. </p> <p>PMID:16710477</p> <p>The small GTPase RhoA has well established roles in contractility and has been shown to promote TGFb activation from LLCs.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f7b06cba-a8b6-47be-9529-143d30cf0cb5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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h="10.0" x="11496.973" y="9058.856"/> <port id="pr_91adaf6c-0dbc-4a01-a2de-cb38d2bca38c_p1" x="11486.973" y="9063.856"/> <port id="pr_91adaf6c-0dbc-4a01-a2de-cb38d2bca38c_p2" x="11516.973" y="9063.856"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b5047e59-e500-4e3e-8f58-67ffbe657421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5088.045" y="18273.625"/> <port id="pr_b5047e59-e500-4e3e-8f58-67ffbe657421_p1" x="5093.045" y="18263.625"/> <port id="pr_b5047e59-e500-4e3e-8f58-67ffbe657421_p2" x="5093.045" y="18293.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fca9bb56-8003-4a2b-aaeb-30461c898f63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:8756616</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fca9bb56-8003-4a2b-aaeb-30461c898f63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8756616"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6809.5" y="7820.5"/> <port id="pr_fca9bb56-8003-4a2b-aaeb-30461c898f63_p1" x="6829.5" y="7825.5"/> <port id="pr_fca9bb56-8003-4a2b-aaeb-30461c898f63_p2" 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orientation="vertical" id="pr_d88f7e03-e95c-4c3f-a0fc-06cbaa775fcd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> <p>PMID:18001824</p> <p>PMID:18006705</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d88f7e03-e95c-4c3f-a0fc-06cbaa775fcd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18001824"/> 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id="pr_e6b3b4ff-bceb-4143-ada8-dbf78a6cbad0_p2" x="29196.56" y="11630.721"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0a216d7b-5543-4b38-8354-fa0a478b31bb"> <bbox w="10.0" h="10.0" x="28787.78" y="12485.291"/> <port id="pr_0a216d7b-5543-4b38-8354-fa0a478b31bb_p1" x="28792.78" y="12505.291"/> <port id="pr_0a216d7b-5543-4b38-8354-fa0a478b31bb_p2" x="28792.78" y="12475.291"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_04135edb-e511-4e47-bf8e-812ddab2fece"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10934467</p> <p>in 293, HeLa and Jurkat cells, interaction HSP70 - APAF1</p> <p>in vitro, the interaction is ATP dependent</p> <p>HSP70 interactions competes for oligomerization and formation of the apoptosome</p> <p>PMID:10934466</p> <p>in vitro, HSP70 blocks the recruitment of CASP9 into the apoptosome by binding to APAF1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_04135edb-e511-4e47-bf8e-812ddab2fece"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10934467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10934466"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24401.06" y="14974.0"/> <port id="pr_04135edb-e511-4e47-bf8e-812ddab2fece_p1" 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x="22053.492" y="16275.299"/> <port id="pr_8e643d72-3bb9-4890-a828-7425f8a319e1_p1" x="22058.492" y="16265.299"/> <port id="pr_8e643d72-3bb9-4890-a828-7425f8a319e1_p2" x="22058.492" y="16295.299"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a785a99c-a09b-491b-9e1e-c21638fc37c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17646672</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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</notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7624cd9b-f9e3-41be-9301-fc6592c6ef93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14681224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14612448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17620.56" y="18673.0"/> <port id="pr_7624cd9b-f9e3-41be-9301-fc6592c6ef93_p1" x="17640.56" y="18678.0"/> <port id="pr_7624cd9b-f9e3-41be-9301-fc6592c6ef93_p2" x="17610.56" y="18678.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b58ae546-7916-4ae6-9eac-8003e3615a3f"> <bbox w="10.0" h="10.0" x="2099.8184" y="3158.0"/> <port id="pr_b58ae546-7916-4ae6-9eac-8003e3615a3f_p1" x="2104.8184" y="3148.0"/> <port id="pr_b58ae546-7916-4ae6-9eac-8003e3615a3f_p2" x="2104.8184" y="3178.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2d8b5d63-f3f3-4ed5-9559-b2987ef8e4d9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23960.523" y="15628.0"/> <port id="pr_2d8b5d63-f3f3-4ed5-9559-b2987ef8e4d9_p1" x="23950.523" y="15633.0"/> <port id="pr_2d8b5d63-f3f3-4ed5-9559-b2987ef8e4d9_p2" x="23980.523" y="15633.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_bbf30905-d66a-4a5c-9680-260f96eba4ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5746.296" y="14512.143"/> <port id="pr_bbf30905-d66a-4a5c-9680-260f96eba4ba_p1" x="5736.296" y="14517.143"/> <port id="pr_bbf30905-d66a-4a5c-9680-260f96eba4ba_p2" x="5766.296" y="14517.143"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_60be203a-31b2-4e3c-9617-110dab53e60b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15905173</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_60be203a-31b2-4e3c-9617-110dab53e60b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15905173"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13118.592" y="19172.578"/> <port id="pr_60be203a-31b2-4e3c-9617-110dab53e60b_p1" x="13108.592" y="19177.578"/> <port id="pr_60be203a-31b2-4e3c-9617-110dab53e60b_p2" x="13138.592" y="19177.578"/> </glyph> <glyph class="process" orientation="vertical" id="pr_41676525-113a-4541-8c5a-30134368b739"> <bbox w="10.0" h="10.0" x="4157.0" y="6294.557"/> <port id="pr_41676525-113a-4541-8c5a-30134368b739_p1" x="4162.0" y="6284.557"/> <port id="pr_41676525-113a-4541-8c5a-30134368b739_p2" x="4162.0" y="6314.557"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8861f831-9d2b-4b11-8320-7ae00bb90e2a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8861f831-9d2b-4b11-8320-7ae00bb90e2a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12257.811" y="21588.25"/> <port id="pr_8861f831-9d2b-4b11-8320-7ae00bb90e2a_p1" x="12262.811" y="21578.25"/> <port id="pr_8861f831-9d2b-4b11-8320-7ae00bb90e2a_p2" x="12262.811" y="21608.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8ce8eec-e799-4bf3-8607-26dc80bc4c1e"> <bbox w="10.0" h="10.0" x="28065.967" y="13904.0"/> <port id="pr_f8ce8eec-e799-4bf3-8607-26dc80bc4c1e_p1" x="28055.967" y="13909.0"/> <port id="pr_f8ce8eec-e799-4bf3-8607-26dc80bc4c1e_p2" x="28085.967" y="13909.0"/> </glyph> <glyph class="process" orientation="vertical" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>HIPK2 phosphorylates any TCF/LEF</p> <p>PMID:21285352</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0637c8ce-37af-4bb2-8d16-8110aeac0db6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285352"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22207.56" y="21724.5"/> <port id="pr_0637c8ce-37af-4bb2-8d16-8110aeac0db6_p1" x="22212.56" y="21744.5"/> <port id="pr_0637c8ce-37af-4bb2-8d16-8110aeac0db6_p2" x="22212.56" y="21714.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c5f1ab1c-51a5-4d69-8362-4a8ddf66d34f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10048576</p> <p>The gene expressions of MMP-1, MMP-3, and MMP-9 and gelatinolytic activity of MMP-9 were significantly increased in high ETS-1 expression cells. </p> <p>Low ETS-1 expression cells could not spread on a vitronectin substratum, and the phosphorylation of focal adhesion kinase was markedly impaired because of the reduced expression of integrin b3</p> <p>PMID:7512751</p> <p>PMID:7528107</p> <p>Integrin aVb3 plays an important role in angiogenesis. Bblocking of the binding of endothelial integrin aVb3 inhibits angiogenesis and forces neovascular ECs into apoptosis (Brooks et al., 1994a,b).</p> <p>PMID:24376839</p> <p>PTP4A3 is implicated in cell adhesion and the regulation of focal adhesion components including integrin beta-1, Src, paxillin and p130Cas</p> <p>Similarly, PTP4A3 promotes cell invasion by increasing MMP2 activity and decreasing the expression of the MMP inhibitor, TIMP2. </p> <p>PTP4A3 is also involved in EMT: PTP4A3 overexpression in colorectal carcinoma cells downregulates epithelial markers (E-cadherin, plakoglobin, and integrin beta-3) and upregulates expression of mesenchymal markers (fibronectin and snail1).</p> <p>PMID:23691193</p> <p>Src-mediated phosphorylation of PTP4A3 Is required for Rho activation, motility and invasion promoted by PTP4A3.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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rdf:resource="urn:miriam:pubmed:23691193"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5005.5933" y="17690.0"/> <port id="pr_c5f1ab1c-51a5-4d69-8362-4a8ddf66d34f_p1" x="5010.5933" y="17680.0"/> <port id="pr_c5f1ab1c-51a5-4d69-8362-4a8ddf66d34f_p2" x="5010.5933" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b07432d-5d43-4159-b69b-e80df89eb0ad"> <bbox w="10.0" h="10.0" x="1035.0" y="1796.25"/> <port id="pr_8b07432d-5d43-4159-b69b-e80df89eb0ad_p1" x="1040.0" y="1816.25"/> <port id="pr_8b07432d-5d43-4159-b69b-e80df89eb0ad_p2" x="1040.0" y="1786.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_443955ec-b2d3-4b97-b12a-055e7ad490b4"> <bbox w="10.0" h="10.0" x="5810.0" y="4451.5625"/> <port id="pr_443955ec-b2d3-4b97-b12a-055e7ad490b4_p1" x="5815.0" y="4441.5625"/> <port id="pr_443955ec-b2d3-4b97-b12a-055e7ad490b4_p2" x="5815.0" y="4471.5625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dde28ac5-b01b-4430-98fb-a0eaa27e91ca"> <bbox w="10.0" h="10.0" x="28320.43" y="15940.25"/> <port id="pr_dde28ac5-b01b-4430-98fb-a0eaa27e91ca_p1" x="28325.43" y="15960.25"/> <port id="pr_dde28ac5-b01b-4430-98fb-a0eaa27e91ca_p2" x="28325.43" y="15930.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fcb07a44-c680-45ae-9da7-0e4a1612012f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1492.125" y="15204.5"/> <port id="pr_fcb07a44-c680-45ae-9da7-0e4a1612012f_p1" x="1497.125" y="15194.5"/> <port id="pr_fcb07a44-c680-45ae-9da7-0e4a1612012f_p2" x="1497.125" y="15224.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_a8ca9298-063a-4161-b800-4f881a5a49e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16396903</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a8ca9298-063a-4161-b800-4f881a5a49e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396903"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21234.0"/> <port id="pr_a8ca9298-063a-4161-b800-4f881a5a49e2_p1" x="26547.56" y="21239.0"/> <port id="pr_a8ca9298-063a-4161-b800-4f881a5a49e2_p2" x="26577.56" y="21239.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_df42300f-52ec-449d-850f-27f5230d782d"> <bbox w="10.0" h="10.0" x="28626.326" y="16314.0"/> <port id="pr_df42300f-52ec-449d-850f-27f5230d782d_p1" x="28631.326" y="16334.0"/> <port id="pr_df42300f-52ec-449d-850f-27f5230d782d_p2" x="28631.326" y="16304.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_62fa0ecb-89b2-48e2-9a9f-a2dc7c15a890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For BER activation by ROS</p> <p>PMID:23249296, PMID:22122466, PMID:20510258, PMID:21251944,PMID:23311711</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_62fa0ecb-89b2-48e2-9a9f-a2dc7c15a890"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23249296"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22122466"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20510258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21251944"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23311711"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10662.088" y="15151.4"/> <port id="pr_62fa0ecb-89b2-48e2-9a9f-a2dc7c15a890_p1" x="10682.088" y="15156.4"/> <port id="pr_62fa0ecb-89b2-48e2-9a9f-a2dc7c15a890_p2" x="10652.088" y="15156.4"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f9b21c09-dd37-466c-92f8-c0d13caae69b"> <bbox w="10.0" h="10.0" x="15708.561" y="20667.5"/> <port id="pr_f9b21c09-dd37-466c-92f8-c0d13caae69b_p1" x="15698.561" y="20672.5"/> <port id="pr_f9b21c09-dd37-466c-92f8-c0d13caae69b_p2" x="15728.561" y="20672.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e83a1066-5e94-4fdd-a645-b8f5cf9468e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2870.25" y="14876.372"/> <port id="pr_e83a1066-5e94-4fdd-a645-b8f5cf9468e6_p1" x="2890.25" y="14881.372"/> <port id="pr_e83a1066-5e94-4fdd-a645-b8f5cf9468e6_p2" x="2860.25" y="14881.372"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_348cdf49-e043-416e-a72f-55a7e3a58193"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Translation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11706.527" y="20571.941"/> <port id="pr_348cdf49-e043-416e-a72f-55a7e3a58193_p1" x="11711.527" y="20591.941"/> <port id="pr_348cdf49-e043-416e-a72f-55a7e3a58193_p2" x="11711.527" y="20561.941"/> </glyph> <glyph class="process" orientation="vertical" id="pr_08898727-fc9d-453d-ada3-62e66a7bdbfe"> <bbox w="10.0" h="10.0" x="11705.0" y="4430.625"/> <port id="pr_08898727-fc9d-453d-ada3-62e66a7bdbfe_p1" x="11710.0" y="4420.625"/> <port id="pr_08898727-fc9d-453d-ada3-62e66a7bdbfe_p2" x="11710.0" y="4450.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_098feb5e-4c22-4028-bd73-7337f241b901"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4721.36" y="17787.5"/> <port id="pr_098feb5e-4c22-4028-bd73-7337f241b901_p1" x="4726.36" y="17777.5"/> <port id="pr_098feb5e-4c22-4028-bd73-7337f241b901_p2" x="4726.36" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4faa42e9-1f30-4b3d-aed1-c6e11119d123"> <bbox w="10.0" h="10.0" x="29314.06" y="9109.0"/> <port id="pr_4faa42e9-1f30-4b3d-aed1-c6e11119d123_p1" x="29319.06" y="9099.0"/> <port id="pr_4faa42e9-1f30-4b3d-aed1-c6e11119d123_p2" x="29319.06" y="9129.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_59d0baea-73ec-4026-8d6b-ffd39380c96a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17318175</p> <p>PPP1 regulates assembly and function of the CTNNB1 degradation complex.</p> <p>PPP1 reverses CSNK1 (casein kinase 1) - mediated phosphorylation of AXIN1.</p> <p>This dephosphorylation allows CTNNB1 to escape the degradation complex of AXIN1 and APC.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_59d0baea-73ec-4026-8d6b-ffd39380c96a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1708.75" y="16095.5"/> <port id="pr_59d0baea-73ec-4026-8d6b-ffd39380c96a_p1" x="1728.75" y="16100.5"/> <port id="pr_59d0baea-73ec-4026-8d6b-ffd39380c96a_p2" x="1698.75" y="16100.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3c73b665-597c-4bac-9614-8de7260f01f8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17688959</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3c73b665-597c-4bac-9614-8de7260f01f8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17688959"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25870.31" y="17646.0"/> <port id="pr_3c73b665-597c-4bac-9614-8de7260f01f8_p1" x="25860.31" y="17651.0"/> <port id="pr_3c73b665-597c-4bac-9614-8de7260f01f8_p2" x="25890.31" y="17651.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d03140b3-9777-4282-bbbc-3a010f318753"> <bbox w="10.0" h="10.0" x="21345.36" y="4462.913"/> <port id="pr_d03140b3-9777-4282-bbbc-3a010f318753_p1" x="21365.36" y="4467.913"/> <port id="pr_d03140b3-9777-4282-bbbc-3a010f318753_p2" x="21335.36" y="4467.913"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_59e2cb8b-68db-423f-994a-35f0eacb952d"> <bbox w="10.0" h="10.0" x="12091.02" y="9259.125"/> <port id="pr_59e2cb8b-68db-423f-994a-35f0eacb952d_p1" x="12081.02" y="9264.125"/> <port id="pr_59e2cb8b-68db-423f-994a-35f0eacb952d_p2" x="12111.02" y="9264.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56120f62-602e-49e6-819c-b15bbf4aa6e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6445.464" y="18516.447"/> <port id="pr_56120f62-602e-49e6-819c-b15bbf4aa6e6_p1" x="6450.464" y="18506.447"/> <port id="pr_56120f62-602e-49e6-819c-b15bbf4aa6e6_p2" x="6450.464" y="18536.447"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_8f9d2deb-5876-404e-abe2-f89d2b1beaa3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12105.93" y="15133.744"/> <port id="pr_8f9d2deb-5876-404e-abe2-f89d2b1beaa3_p1" x="12110.93" y="15153.744"/> <port id="pr_8f9d2deb-5876-404e-abe2-f89d2b1beaa3_p2" x="12110.93" y="15123.744"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2bd61b09-e0a7-49d4-beb0-8d733d6c2021"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16713974</p> <p>TLR2 activates (induces phosphorylation of) ERKs, JNKs, and p38 rapidly and transiently in control macrophages.</p> <p>This activation is inhibited by IFNG signaling.</p> <p>PMID:11438547, PMID:24378531</p> <p>Both TNFR1 and TNFR2 signaling pathways induce JNK activation and downstrean c-jun phosphorylation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2bd61b09-e0a7-49d4-beb0-8d733d6c2021"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11438547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26561.0" y="6240.0"/> <port id="pr_2bd61b09-e0a7-49d4-beb0-8d733d6c2021_p1" x="26566.0" y="6230.0"/> <port id="pr_2bd61b09-e0a7-49d4-beb0-8d733d6c2021_p2" x="26566.0" y="6260.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_8d659681-2ce4-411f-8963-3b4f1d77d6cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4481.7876" y="15774.25"/> <port id="pr_8d659681-2ce4-411f-8963-3b4f1d77d6cf_p1" x="4486.7876" y="15794.25"/> <port id="pr_8d659681-2ce4-411f-8963-3b4f1d77d6cf_p2" x="4486.7876" y="15764.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_986fd73e-5aab-4a5e-864c-06146c033c8f"> <bbox w="10.0" h="10.0" x="3725.0" y="4300.0"/> <port id="pr_986fd73e-5aab-4a5e-864c-06146c033c8f_p1" x="3730.0" y="4290.0"/> <port id="pr_986fd73e-5aab-4a5e-864c-06146c033c8f_p2" x="3730.0" y="4320.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b1ca3859-5f0e-4fa7-b361-10f7a74994ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20229235 PMID:18077588 PMID:20059949 PMID:20627573</p> <p>ANNOTATION:GSK3 phosphorylates first LRP @ S1490 followed by CK1 in the repeat PPSP A</p> <p>ANNOTATION:CYCLINY/PFTK complex is able to phosphorylate s1490 on LRP6 which primes the receptor for CK1 phosphorylisation. The complex is present during G2/M phase and stimulates wnt signalling it has synergetic effect together with the wnt ligand</p> <p>WNT/b-catenin signalling oscillates durring cell cycle and peaks at G2/M</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b1ca3859-5f0e-4fa7-b361-10f7a74994ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20059949"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20627573"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22006.06" y="18263.0"/> <port id="pr_b1ca3859-5f0e-4fa7-b361-10f7a74994ed_p1" x="21996.06" y="18268.0"/> <port id="pr_b1ca3859-5f0e-4fa7-b361-10f7a74994ed_p2" x="22026.06" y="18268.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0472d070-7378-49b7-8d66-49311d092766"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21725609</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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</glyph> <glyph class="process" orientation="horizontal" id="pr_dca4e2b1-9659-450d-a8a5-078bec026e87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25897829</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dca4e2b1-9659-450d-a8a5-078bec026e87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25897829"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2341.0" y="11011.0"/> <port id="pr_dca4e2b1-9659-450d-a8a5-078bec026e87_p1" x="2331.0" y="11016.0"/> <port id="pr_dca4e2b1-9659-450d-a8a5-078bec026e87_p2" x="2361.0" y="11016.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1609641b-aa5e-4822-bb09-b0b74238340a"> <bbox w="10.0" h="10.0" x="26614.912" y="13287.75"/> <port id="pr_1609641b-aa5e-4822-bb09-b0b74238340a_p1" x="26619.912" y="13277.75"/> <port id="pr_1609641b-aa5e-4822-bb09-b0b74238340a_p2" x="26619.912" y="13307.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9e10299a-6b64-45b6-a72c-45c0faefd444"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10364.928" y="15120.15"/> <port id="pr_9e10299a-6b64-45b6-a72c-45c0faefd444_p1" x="10354.928" y="15125.15"/> <port id="pr_9e10299a-6b64-45b6-a72c-45c0faefd444_p2" x="10384.928" y="15125.15"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3a6134e7-2064-47da-8542-f4ff36703177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18758450</p> <p>The ubiquitin ligase (E3) TRAF6 interacts with a consensus motif present in TGFBR1. </p> <p>The TGFBR1–TRAF6 interaction is required for TGFB-induced autoubiquitylation of TRAF6 and subsequent activation of the TAK1–p38/JNK pathway</p> <p>TGFB specifically activates TAK1 (MAP3K7) through interaction of TGFBRI with TRAF6.</p> <p>The kinase activity of TGFBRI is not required for activation of TAK1 and p38.</p> <p>Model in which TGFB - induced activation of TAK1 is initiated by ligand-induced oligomerization of TGFBreceptors. This in turn cause dimerization of TRAF6, followed by auto-ubiquitylation and activation. </p> <p>This possibility is consistent with the observation that artifical dimerization of TRAF6 causes its auto-ubiquitylation. </p> <p>Activated TRAF6 then causes Lys 63-linked ubiquitylation and activation of TAK1 (MAP3K7). TAK1 may be further activated by juxtaposition-induced autophosphorylation. </p> <p>The recruitment of TAK1 may be facilitated by Smad7, which has been shown to have an adaptor function in the pathway</p> <p>PMID:18922473</p> <p>TRAF6 is specifically required for the Smad-independent activation of JNK and p38.</p> <p>The carboxyl TRAF homology domain physically interacts with TGFB receptors. </p> <p>TGFB induces K63-linked ubiquitination of TRAF6 and promotes association between TRAF6 and TAK1 (MAP3K7). </p> <p>TGFB activates JNK and p38 through a mechanism similar to that operating in the interleukin1B/Toll- like receptor pathway.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10551883</p> <p>FGFR1 regulates activity of CDC42 by binding and phosphorylating thus inactivating BCL2.</p> <p>Phosphorylated BCL2 binds to another CDC42_GAP, ARHGAP1 and neutralize the GAP activity of ARHGAP1 as well.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b4aac34-56c0-4d6f-a84a-d405e3c29316"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10551883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6443.75" y="14603.75"/> <port id="pr_5b4aac34-56c0-4d6f-a84a-d405e3c29316_p1" x="6448.75" y="14593.75"/> <port id="pr_5b4aac34-56c0-4d6f-a84a-d405e3c29316_p2" x="6448.75" y="14623.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2486abd5-a4b2-4bde-a47c-3e074c2b1d96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16753578</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2486abd5-a4b2-4bde-a47c-3e074c2b1d96"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16753578"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18891.56" y="16059.0"/> <port id="pr_2486abd5-a4b2-4bde-a47c-3e074c2b1d96_p1" x="18911.56" y="16064.0"/> <port id="pr_2486abd5-a4b2-4bde-a47c-3e074c2b1d96_p2" x="18881.56" y="16064.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_849b9f40-71ca-4a91-a126-32fbf0d26801"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>Regulation of HIF-1a protein synthesis</p> <p>MNK phosphorylates eIF-4E and stimulates its activity directly. </p> <p>Active eIF-4E increases the rate of HIF1A-mRNA translation into HIF1A protein.</p> <p>PMID:16887934</p> <p>PMID:9159130</p> <p>HIF-1B (ARNT) is constitutively expressed and itsmRNA and protein are maintained at constant levels regardless of oxygen availability</p> <p>PMID:9278421</p> <p>HIF-1A protein has a short half-life (t1/2 = 5 min) and is highly regulated by oxygen</p> <p>PMID:9746763</p> <p>The transcription and synthesis of HIF-1B are constitutive and seem not to be affected by oxygen. </p> <p>PMID:7539918</p> <p>In normoxia, the HIF-1A proteins are rapidly degraded, resulting in essentially no detectable HIF-1A protein.</p> <p>PMID:8943284</p> <p>During hypoxia, HIF-1A becomes stabilized and translocates from the cytoplasm to the nucleus, where it dimerizes with HIF-1B and the HIF complex formed becomes transcriptionally active</p> <p>PMID:1823643</p> <p>The activated HIF complex then associates with HREs in the regulatory regions of target genes and binds the transcriptional coactivators to induce gene expression.</p> <p>PMID:15451019</p> <p>Tight regulation of the stability and subsequent transactivational function of HIF-1A is chiefly controlled by its post-translation modifications, such as hydroxylation, ubiquitination, acetylation, and phosphorylation</p> <p>The modification of HIF-1A occurs within several domains.</p> <p>PMID:10403805</p> <p>PMID:11566883</p> <p>PMID:12829734</p> <p>In normoxia, hydroxylation of 2 proline residues and acetylation of a lysine residue in its ODDD promote interaction of HIF-1A with the von Hippel-Lindau (pVHL) ubiquitin E3 ligase complex (Srinivas et al., 1999; Masson et al., 2001).</p> <p>PMID:12080085</p> <p>pVHL complex tags HIF-1A with ubiquitin and thereby marks it for degradation by the 26S proteasome. </p> <p>In addition, hydroxylation of an asparagine residue in the C-TAD inhibits the association of HIF-1A with CBP/p300 and thus inhibits its transcriptional activity (Lando et al., 2002a).</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_849b9f40-71ca-4a91-a126-32fbf0d26801"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13130303"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887934"/> </rdf:Bag> 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rdf:resource="urn:miriam:pubmed:11566883"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12080085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4388.0" y="14365.0"/> <port id="pr_849b9f40-71ca-4a91-a126-32fbf0d26801_p1" x="4393.0" y="14385.0"/> <port id="pr_849b9f40-71ca-4a91-a126-32fbf0d26801_p2" x="4393.0" y="14355.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_47f505cd-4ede-477f-927e-077f7451b8d6"> <bbox w="10.0" h="10.0" x="20440.0" y="4589.375"/> <port id="pr_47f505cd-4ede-477f-927e-077f7451b8d6_p1" x="20445.0" y="4609.375"/> <port id="pr_47f505cd-4ede-477f-927e-077f7451b8d6_p2" x="20445.0" y="4579.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2872208b-2802-4419-834b-e1af5eb6bc58"> <notes> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3024.0" y="19021.5"/> <port id="pr_b24cec39-a9dc-40fe-8ae5-d1d55f1f5c39_p1" x="3029.0" y="19011.5"/> <port id="pr_b24cec39-a9dc-40fe-8ae5-d1d55f1f5c39_p2" x="3029.0" y="19041.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_baff0be0-eba4-463e-848a-b92c7f8ac3a7"> <bbox w="10.0" h="10.0" x="3181.25" y="2909.7793"/> <port id="pr_baff0be0-eba4-463e-848a-b92c7f8ac3a7_p1" x="3201.25" y="2914.7793"/> <port id="pr_baff0be0-eba4-463e-848a-b92c7f8ac3a7_p2" x="3171.25" y="2914.7793"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1e5bd37-afe9-48e2-8d7f-8327da793e78"> <bbox w="10.0" h="10.0" x="16134.834" y="1467.0"/> <port id="pr_d1e5bd37-afe9-48e2-8d7f-8327da793e78_p1" x="16139.834" y="1457.0"/> <port 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class="process" orientation="vertical" id="pr_0edb8bee-8328-47a5-bc9c-b161d290d7d8"> <bbox w="10.0" h="10.0" x="20664.164" y="14315.484"/> <port id="pr_0edb8bee-8328-47a5-bc9c-b161d290d7d8_p1" x="20669.164" y="14335.484"/> <port id="pr_0edb8bee-8328-47a5-bc9c-b161d290d7d8_p2" x="20669.164" y="14305.484"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_2bbd501c-b694-4cfc-a67e-53326296fbc0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="991.0476" y="17624.25"/> <port id="pr_2bbd501c-b694-4cfc-a67e-53326296fbc0_p1" x="996.0476" y="17614.25"/> <port id="pr_2bbd501c-b694-4cfc-a67e-53326296fbc0_p2" x="996.0476" y="17644.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_caecdde5-6119-48be-9762-cf36ba64ac2a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Sequential sumoylion of NFAT1, might also occur in NFAT3 and 4. There is no special character for sumoylation in CellDesigner, so this is indicated by a "?". Lys684 is targeted firstly, followed by Lys897.</p> <p>PMID:15117942</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_caecdde5-6119-48be-9762-cf36ba64ac2a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15117942"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16163.061" y="20808.0"/> <port id="pr_caecdde5-6119-48be-9762-cf36ba64ac2a_p1" x="16168.061" y="20798.0"/> <port id="pr_caecdde5-6119-48be-9762-cf36ba64ac2a_p2" x="16168.061" y="20828.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_5f0971e2-2965-4e0b-96e8-6f5a0feee7ff"> <bbox w="20.0" h="20.0" x="16270.061" y="20767.0"/> <port id="logicglyph_5f0971e2-2965-4e0b-96e8-6f5a0feee7ff_p1" x="16300.061" y="20777.0"/> <port id="logicglyph_5f0971e2-2965-4e0b-96e8-6f5a0feee7ff_p2" x="16260.061" y="20777.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1f974075-473a-458b-a492-9939088af8db"> <bbox w="10.0" h="10.0" x="15130.631" y="901.25"/> <port id="pr_1f974075-473a-458b-a492-9939088af8db_p1" x="15135.631" y="891.25"/> <port id="pr_1f974075-473a-458b-a492-9939088af8db_p2" x="15135.631" y="921.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_04b94b7e-f919-474e-98ec-80477a500070"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4586.908" y="18273.75"/> <port id="pr_04b94b7e-f919-474e-98ec-80477a500070_p1" x="4591.908" y="18263.75"/> <port id="pr_04b94b7e-f919-474e-98ec-80477a500070_p2" x="4591.908" y="18293.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f667e48a-7ca4-4fd7-ad7b-b5d7af973bf3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17641202</p> <p>PMID:20889716</p> <p>Tulp3 inhibits MODULE:HEDGEHOG signaling but how exactly is unknown</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18171670</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9410a58b-1f06-4893-95c2-0fc3947ea27e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18171670"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14539.973" y="14650.714"/> <port id="pr_9410a58b-1f06-4893-95c2-0fc3947ea27e_p1" x="14559.973" y="14655.714"/> <port id="pr_9410a58b-1f06-4893-95c2-0fc3947ea27e_p2" x="14529.973" y="14655.714"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45ffbd55-cd7b-484b-80de-0d8d9ac9fe0d"> <bbox w="10.0" h="10.0" x="26421.0" y="2535.0"/> <port id="pr_45ffbd55-cd7b-484b-80de-0d8d9ac9fe0d_p1" x="26426.0" y="2525.0"/> <port id="pr_45ffbd55-cd7b-484b-80de-0d8d9ac9fe0d_p2" x="26426.0" y="2555.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c98400f8-e337-4cb7-98dc-5619062bd3f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20956384</p> <p>PMID:19592253</p> <p>PMID:0643644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c98400f8-e337-4cb7-98dc-5619062bd3f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20956384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19592253"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:0643644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25918.686" y="17933.918"/> <port id="pr_c98400f8-e337-4cb7-98dc-5619062bd3f0_p1" x="25908.686" y="17938.918"/> <port id="pr_c98400f8-e337-4cb7-98dc-5619062bd3f0_p2" x="25938.686" y="17938.918"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c792b40c-27a3-46a1-ae90-840198d16eef"> <bbox w="10.0" h="10.0" x="18598.34" y="16706.549"/> <port id="pr_c792b40c-27a3-46a1-ae90-840198d16eef_p1" x="18603.34" y="16726.549"/> <port id="pr_c792b40c-27a3-46a1-ae90-840198d16eef_p2" x="18603.34" y="16696.549"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3e092a9e-5a83-4436-83b2-8ab077b06c33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18078820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e092a9e-5a83-4436-83b2-8ab077b06c33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18078820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3887.25" y="9008.5"/> <port id="pr_3e092a9e-5a83-4436-83b2-8ab077b06c33_p1" x="3877.25" y="9013.5"/> <port id="pr_3e092a9e-5a83-4436-83b2-8ab077b06c33_p2" x="3907.25" y="9013.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_097017bf-a260-43e5-87ae-048f5a30fd78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19797085</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_097017bf-a260-43e5-87ae-048f5a30fd78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19797085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13240.936" y="18216.0"/> <port id="pr_097017bf-a260-43e5-87ae-048f5a30fd78_p1" x="13230.936" y="18221.0"/> <port id="pr_097017bf-a260-43e5-87ae-048f5a30fd78_p2" x="13260.936" y="18221.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e9a78cce-2472-40fa-9e99-02c009684fd6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19887899</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9a78cce-2472-40fa-9e99-02c009684fd6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19887899"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13074.651" y="18666.5"/> <port id="pr_e9a78cce-2472-40fa-9e99-02c009684fd6_p1" x="13079.651" y="18656.5"/> <port id="pr_e9a78cce-2472-40fa-9e99-02c009684fd6_p2" x="13079.651" y="18686.5"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_67225756-1d66-4f25-9dfa-611ec68f1511"> <bbox w="10.0" h="10.0" x="15775.061" y="18676.5"/> <port id="pr_67225756-1d66-4f25-9dfa-611ec68f1511_p1" x="15780.061" y="18696.5"/> <port id="pr_67225756-1d66-4f25-9dfa-611ec68f1511_p2" x="15780.061" y="18666.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0bc0423e-79a0-485a-85a9-f5d4c184ab8c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5185.0" y="16401.5"/> <port id="pr_0bc0423e-79a0-485a-85a9-f5d4c184ab8c_p1" x="5175.0" y="16406.5"/> <port id="pr_0bc0423e-79a0-485a-85a9-f5d4c184ab8c_p2" x="5205.0" y="16406.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_63872dfd-531e-420f-a8f5-f05487bfea47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25202.936" y="14353.375"/> <port id="pr_63872dfd-531e-420f-a8f5-f05487bfea47_p1" x="25222.936" y="14358.375"/> <port id="pr_63872dfd-531e-420f-a8f5-f05487bfea47_p2" x="25192.936" y="14358.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8fcf4c79-e3da-4372-acc3-1d144b5f10f1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25937.352" y="10814.978"/> <port id="pr_8fcf4c79-e3da-4372-acc3-1d144b5f10f1_p1" x="25942.352" y="10834.978"/> <port id="pr_8fcf4c79-e3da-4372-acc3-1d144b5f10f1_p2" x="25942.352" y="10804.978"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3c3cef87-f142-45d1-9644-c9627dbc888f"> <bbox w="10.0" h="10.0" x="1091.4667" y="1752.0"/> <port id="pr_3c3cef87-f142-45d1-9644-c9627dbc888f_p1" x="1096.4667" y="1742.0"/> <port id="pr_3c3cef87-f142-45d1-9644-c9627dbc888f_p2" x="1096.4667" y="1772.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cbf088e9-13bb-4dd0-8a1e-1aa0534bfe0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2687.0" y="17147.5"/> <port id="pr_cbf088e9-13bb-4dd0-8a1e-1aa0534bfe0d_p1" x="2707.0" y="17152.5"/> <port id="pr_cbf088e9-13bb-4dd0-8a1e-1aa0534bfe0d_p2" x="2677.0" y="17152.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a0e7fcbf-cfaf-40cd-8c36-57a87e920d00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1115.5968" y="16502.5"/> <port id="pr_a0e7fcbf-cfaf-40cd-8c36-57a87e920d00_p1" x="1120.5968" y="16492.5"/> <port id="pr_a0e7fcbf-cfaf-40cd-8c36-57a87e920d00_p2" x="1120.5968" y="16522.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2c98ac80-0933-4a25-919a-860bfb44dfd2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:11224571</p> <p>Phosphorylated Smad3 recruits Smad4 to form a heterotrimer</p> <p>containing 2 Smad3 and 1 Smad4.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2c98ac80-0933-4a25-919a-860bfb44dfd2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11224571"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6021.0" y="16822.758"/> <port id="pr_2c98ac80-0933-4a25-919a-860bfb44dfd2_p1" x="6026.0" y="16842.758"/> <port id="pr_2c98ac80-0933-4a25-919a-860bfb44dfd2_p2" x="6026.0" y="16812.758"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f3191a16-78c8-4dab-a3cd-6650e2277e28"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2223.0" y="18948.0"/> <port id="pr_f3191a16-78c8-4dab-a3cd-6650e2277e28_p1" x="2228.0" y="18938.0"/> <port id="pr_f3191a16-78c8-4dab-a3cd-6650e2277e28_p2" x="2228.0" y="18968.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7eeb3787-7807-40be-b6b3-5b87342af14b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21572392</p> <p>SMURF1 is an homologous to E6AP C-ter (HECT)-type E3 ubiquitin ligase</p> <p>SMURF1 performs a crucial role in the regulation of the BMP signalling pathway in both embryonic development and bone remodelling.</p> <p>PMID:15761148</p> <p>PARD6A interacts with and is phsophorylated by TGFBR2. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation controls the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>Ubiquitation of RHO1 by Smurf1 leads to disassembly of tight junctions, an important step in EMT.</p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBR1 binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBR2 phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>PMID:14657501</p> <p>SMURF1, but not SMURF2, decreases RHOA level, and this effect is proteasome dependent.</p> <p>PMID:16472676</p> <p>Smurf1 could specifically target RhoA but not Cdc42 or Rac1 for degradation. </p> <p>Smurf1 interacts with the dominant inactive form of RhoA, RhoA N19, which binds constitutively to GEFs in vivo. </p> <p>Smurf1 also interacts directly with either nucleotide‐free or GDP‐bound RhoA in vitro; </p> <p>However, loading with GTPgS inhibits the interaction</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7eeb3787-7807-40be-b6b3-5b87342af14b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21572392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761148"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22949611"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14657501"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472676"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5396.0" y="14307.25"/> <port id="pr_7eeb3787-7807-40be-b6b3-5b87342af14b_p1" x="5401.0" y="14327.25"/> <port id="pr_7eeb3787-7807-40be-b6b3-5b87342af14b_p2" x="5401.0" y="14297.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1fccf03-09a3-4ac5-8b06-c21a868f47cf"> <bbox w="10.0" h="10.0" x="323.0" y="3245.4"/> <port id="pr_d1fccf03-09a3-4ac5-8b06-c21a868f47cf_p1" x="343.0" y="3250.4"/> <port id="pr_d1fccf03-09a3-4ac5-8b06-c21a868f47cf_p2" x="313.0" y="3250.4"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_f4cd805f-6fba-4e96-890c-76b5aef2f0a1"> <bbox w="10.0" h="10.0" x="8193.385" y="15390.992"/> <port id="pr_f4cd805f-6fba-4e96-890c-76b5aef2f0a1_p1" x="8213.385" y="15395.992"/> <port id="pr_f4cd805f-6fba-4e96-890c-76b5aef2f0a1_p2" x="8183.385" y="15395.992"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2a297b89-ea12-43bf-b4ad-643c96b39249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PDK1 is a PI3K target leading to activation of P70 (through phosphorylation) and subsequent cell growth.</p> <p>P70 activation requires both ERK cascade and PI3K/AKT cascade at least in some cell types.</p> <p>PMID:12040186 PMID:11940578 PMID:10601235 PMID:11431469</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2a297b89-ea12-43bf-b4ad-643c96b39249"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11940578"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10601235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11431469"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8042.56" y="20323.25"/> <port id="pr_2a297b89-ea12-43bf-b4ad-643c96b39249_p1" x="8032.56" y="20328.25"/> <port id="pr_2a297b89-ea12-43bf-b4ad-643c96b39249_p2" x="8062.56" y="20328.25"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_72a30fa1-0f8e-42f8-a688-6ea1b27b5291"> <bbox w="20.0" h="20.0" x="8039.6587" y="20307.322"/> <port id="logicglyph_72a30fa1-0f8e-42f8-a688-6ea1b27b5291_p1" x="8049.6587" y="20297.322"/> <port id="logicglyph_72a30fa1-0f8e-42f8-a688-6ea1b27b5291_p2" x="8049.6587" y="20337.322"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f987451b-d4f1-4904-9acc-df64262452b1"> <bbox w="10.0" h="10.0" x="3873.6318" y="4874.25"/> <port id="pr_f987451b-d4f1-4904-9acc-df64262452b1_p1" x="3878.6318" y="4864.25"/> <port id="pr_f987451b-d4f1-4904-9acc-df64262452b1_p2" x="3878.6318" y="4894.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df0a3d83-10ba-460c-b988-de5c0db14e4a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re474=FALSE</p> <p>PMID:12591950</p> <p>PMID:11546872</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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y="12027.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fd331d95-1200-4bf2-a34c-280d7dcbddd2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re372_rc_s2093=FALSE</p> <p>PMID:18439900</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fd331d95-1200-4bf2-a34c-280d7dcbddd2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18439900"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26228.26" y="11175.163"/> <port id="pr_fd331d95-1200-4bf2-a34c-280d7dcbddd2_p1" x="26233.26" y="11195.163"/> <port id="pr_fd331d95-1200-4bf2-a34c-280d7dcbddd2_p2" x="26233.26" y="11165.163"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7b7918f7-75ba-49b8-9a72-8516072bd36f"> <bbox w="10.0" h="10.0" x="23463.75" y="4032.5"/> <port id="pr_7b7918f7-75ba-49b8-9a72-8516072bd36f_p1" x="23468.75" y="4022.5"/> <port id="pr_7b7918f7-75ba-49b8-9a72-8516072bd36f_p2" x="23468.75" y="4052.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a90e14dc-784d-4a64-8808-4aa6465fd171"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:11792802</p> <p>Following phosphorylation of R-Smads by TGFBR1, Smad oligomerization is thought to occur.</p> <p>PMID:9670020</p> <p>Smad2 and Smad3 form homo-oligomers upon phosphorylation by the constitutively active TGFBR1</p> <p>This oligomerization does not require Smad4.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a90e14dc-784d-4a64-8808-4aa6465fd171"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9670020"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6571.3984" y="16891.383"/> <port id="pr_a90e14dc-784d-4a64-8808-4aa6465fd171_p1" x="6576.3984" y="16881.383"/> <port id="pr_a90e14dc-784d-4a64-8808-4aa6465fd171_p2" x="6576.3984" y="16911.383"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a572d335-b4f9-4fd8-aadc-aabb0706729e"> <bbox w="10.0" h="10.0" x="18900.0" y="1970.0"/> <port id="pr_a572d335-b4f9-4fd8-aadc-aabb0706729e_p1" x="18905.0" y="1990.0"/> <port id="pr_a572d335-b4f9-4fd8-aadc-aabb0706729e_p2" x="18905.0" y="1960.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eca48256-999e-4103-b64f-6e5776fc12cf"> <bbox w="10.0" h="10.0" x="14470.0" y="1785.0"/> <port id="pr_eca48256-999e-4103-b64f-6e5776fc12cf_p1" x="14475.0" y="1805.0"/> <port id="pr_eca48256-999e-4103-b64f-6e5776fc12cf_p2" x="14475.0" y="1775.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5c32f2f7-a49a-48b6-aa3e-3f1f1bcb7c9a"> <bbox w="10.0" h="10.0" x="23658.56" y="15608.5"/> <port id="pr_5c32f2f7-a49a-48b6-aa3e-3f1f1bcb7c9a_p1" x="23663.56" y="15598.5"/> <port id="pr_5c32f2f7-a49a-48b6-aa3e-3f1f1bcb7c9a_p2" x="23663.56" y="15628.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_91982ee4-77b1-4298-b12d-0d0454ca3305"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10514377</p> <p>PMID:17635922</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_91982ee4-77b1-4298-b12d-0d0454ca3305"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10514377"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17635922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13946.811" y="18144.0"/> <port id="pr_91982ee4-77b1-4298-b12d-0d0454ca3305_p1" x="13966.811" y="18149.0"/> <port id="pr_91982ee4-77b1-4298-b12d-0d0454ca3305_p2" x="13936.811" y="18149.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_72dbdefe-070b-45e9-89a6-4e034eceaeb5"> <bbox w="20.0" h="20.0" x="13623.811" y="18192.5"/> <port id="logicglyph_72dbdefe-070b-45e9-89a6-4e034eceaeb5_p1" x="13613.811" y="18202.5"/> <port id="logicglyph_72dbdefe-070b-45e9-89a6-4e034eceaeb5_p2" x="13653.811" y="18202.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5afc37f3-0a57-45aa-a865-4a654cb450c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9660918</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5afc37f3-0a57-45aa-a865-4a654cb450c9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9660918"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22986.47" y="14264.0"/> <port id="pr_5afc37f3-0a57-45aa-a865-4a654cb450c9_p1" x="22976.47" y="14269.0"/> <port id="pr_5afc37f3-0a57-45aa-a865-4a654cb450c9_p2" x="23006.47" y="14269.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5c47cf1a-b49b-4236-b005-d4bc3313760a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1948.25" y="15489.781"/> <port id="pr_5c47cf1a-b49b-4236-b005-d4bc3313760a_p1" x="1968.25" y="15494.781"/> <port 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x="6075.3633" y="6847.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2fd73a01-69bd-4134-a4bc-8a59c3e1e72c"> <bbox w="10.0" h="10.0" x="27726.326" y="16304.0"/> <port id="pr_2fd73a01-69bd-4134-a4bc-8a59c3e1e72c_p1" x="27731.326" y="16324.0"/> <port id="pr_2fd73a01-69bd-4134-a4bc-8a59c3e1e72c_p2" x="27731.326" y="16294.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_76c4e681-6ab1-4de2-be56-cf3f3eedcc08"> <bbox w="10.0" h="10.0" x="16807.5" y="2255.0"/> <port id="pr_76c4e681-6ab1-4de2-be56-cf3f3eedcc08_p1" x="16812.5" y="2245.0"/> <port id="pr_76c4e681-6ab1-4de2-be56-cf3f3eedcc08_p2" x="16812.5" y="2275.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_29137435-a8d6-4e0a-9038-a9152cb34d01"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3921.603" y="17109.666"/> <port id="pr_29137435-a8d6-4e0a-9038-a9152cb34d01_p1" x="3926.603" y="17099.666"/> <port id="pr_29137435-a8d6-4e0a-9038-a9152cb34d01_p2" x="3926.603" y="17129.666"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc221a83-9254-4554-b42a-d45262b01ec6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12865429</p> <p>in HEK293 expressing full length GSPT1-FLAG, 10 to 20% of the protein is cleaved</p> <p>in HEK293, mass spectrometry identification of GSPT1 cleaved at position 70 after purification of BIR3 domain binding proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dc221a83-9254-4554-b42a-d45262b01ec6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12865429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25034.06" y="12174.0"/> <port id="pr_dc221a83-9254-4554-b42a-d45262b01ec6_p1" x="25054.06" y="12179.0"/> <port id="pr_dc221a83-9254-4554-b42a-d45262b01ec6_p2" x="25024.06" y="12179.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1bcda87f-12b6-4afa-9877-936cb8114802"> <bbox w="10.0" h="10.0" x="21805.0" y="7505.0"/> <port id="pr_1bcda87f-12b6-4afa-9877-936cb8114802_p1" x="21825.0" y="7510.0"/> <port id="pr_1bcda87f-12b6-4afa-9877-936cb8114802_p2" x="21795.0" y="7510.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_32046b6f-f3f3-49cc-ad60-5ba06be7975f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID :10402472</p> <p>We conclude that a pool of surface E-cadherin is constantly trafficked through an endocytic, recycling pathway and that this may provide a mechanism for regulating the availability of E-cadherin for junction formation in development, tissue remodeling, and tumorigenesis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1868.6816" y="14681.125"/> <port id="pr_32046b6f-f3f3-49cc-ad60-5ba06be7975f_p1" x="1873.6816" y="14701.125"/> <port id="pr_32046b6f-f3f3-49cc-ad60-5ba06be7975f_p2" x="1873.6816" y="14671.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f0283312-04a3-4808-ba40-d29923b39504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18838541</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f0283312-04a3-4808-ba40-d29923b39504"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18838541"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8089800d-e3c9-4708-9296-c12243182a71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3474.0" y="10412.75"/> <port id="pr_8089800d-e3c9-4708-9296-c12243182a71_p1" x="3479.0" y="10432.75"/> <port id="pr_8089800d-e3c9-4708-9296-c12243182a71_p2" x="3479.0" y="10402.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f427e709-d665-4306-8edc-45adccb774d4"> <bbox w="10.0" h="10.0" x="18939.06" y="9743.0"/> <port id="pr_f427e709-d665-4306-8edc-45adccb774d4_p1" x="18959.06" y="9748.0"/> <port id="pr_f427e709-d665-4306-8edc-45adccb774d4_p2" x="18929.06" y="9748.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_992ab64c-ec09-4759-870e-d7ec8c2c2336"> <bbox w="10.0" h="10.0" x="16382.15" y="1363.9375"/> <port id="pr_992ab64c-ec09-4759-870e-d7ec8c2c2336_p1" x="16387.15" y="1353.9375"/> <port id="pr_992ab64c-ec09-4759-870e-d7ec8c2c2336_p2" x="16387.15" y="1383.9375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a820230a-4974-4cff-93de-da54c2cd8c3e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23301705</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a820230a-4974-4cff-93de-da54c2cd8c3e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23301705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25745.186" y="13956.291"/> <port id="pr_a820230a-4974-4cff-93de-da54c2cd8c3e_p1" x="25735.186" y="13961.291"/> <port id="pr_a820230a-4974-4cff-93de-da54c2cd8c3e_p2" x="25765.186" y="13961.291"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b5bd05a2-31c7-40d1-bb0b-dc47375a14a3"> <bbox w="10.0" h="10.0" x="26337.06" y="9522.5"/> <port id="pr_b5bd05a2-31c7-40d1-bb0b-dc47375a14a3_p1" x="26342.06" y="9512.5"/> <port id="pr_b5bd05a2-31c7-40d1-bb0b-dc47375a14a3_p2" x="26342.06" y="9542.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_51064a16-4e44-4cf5-a8b8-60555a7c9e67"> <bbox w="10.0" h="10.0" x="2035.0" y="4265.0"/> <port id="pr_51064a16-4e44-4cf5-a8b8-60555a7c9e67_p1" x="2040.0" y="4255.0"/> <port id="pr_51064a16-4e44-4cf5-a8b8-60555a7c9e67_p2" x="2040.0" y="4285.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_428a9d56-21ac-4371-b23a-c101c7aaece1"> <bbox w="10.0" h="10.0" x="4593.25" y="5720.0"/> <port id="pr_428a9d56-21ac-4371-b23a-c101c7aaece1_p1" x="4598.25" y="5710.0"/> <port id="pr_428a9d56-21ac-4371-b23a-c101c7aaece1_p2" x="4598.25" y="5740.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_41e93401-a88e-4ccf-9564-6d0a324de933"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4195.5225" y="17984.125"/> <port id="pr_41e93401-a88e-4ccf-9564-6d0a324de933_p1" x="4200.5225" y="17974.125"/> <port id="pr_41e93401-a88e-4ccf-9564-6d0a324de933_p2" x="4200.5225" y="18004.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cb2cdaa8-b479-4232-973a-938258694afd"> <bbox w="10.0" h="10.0" x="21047.81" y="10896.961"/> <port id="pr_cb2cdaa8-b479-4232-973a-938258694afd_p1" x="21067.81" y="10901.961"/> <port id="pr_cb2cdaa8-b479-4232-973a-938258694afd_p2" x="21037.81" y="10901.961"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a61e44aa-766f-426e-97e5-1e568d796d1b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22248338</p> <p> phosphoglucomutase catalyzes the conversion of glucose 1-phosphate to glucose 6-phosphate</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a61e44aa-766f-426e-97e5-1e568d796d1b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22248338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18208.06" y="9786.0"/> <port id="pr_a61e44aa-766f-426e-97e5-1e568d796d1b_p1" x="18198.06" y="9791.0"/> <port id="pr_a61e44aa-766f-426e-97e5-1e568d796d1b_p2" x="18228.06" y="9791.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a36a2b8-a5f9-4d17-b5f8-b7a8bc147d78"> <bbox w="10.0" h="10.0" x="22985.0" y="5937.5"/> <port id="pr_5a36a2b8-a5f9-4d17-b5f8-b7a8bc147d78_p1" x="22990.0" y="5927.5"/> <port id="pr_5a36a2b8-a5f9-4d17-b5f8-b7a8bc147d78_p2" x="22990.0" y="5957.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a2df8e1c-e42a-47c0-8ca1-30f7294f4a47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11583623</p> <p>PMID:12835328</p> <p>PMID:12815069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a2df8e1c-e42a-47c0-8ca1-30f7294f4a47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11583623"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12835328"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12815069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24643.56" y="12154.0"/> <port id="pr_a2df8e1c-e42a-47c0-8ca1-30f7294f4a47_p1" x="24663.56" y="12159.0"/> <port id="pr_a2df8e1c-e42a-47c0-8ca1-30f7294f4a47_p2" x="24633.56" y="12159.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_11db02b8-4d69-4c7f-8d01-aa02eed5799f"> <bbox w="10.0" h="10.0" x="15365.936" y="21130.0"/> <port id="pr_11db02b8-4d69-4c7f-8d01-aa02eed5799f_p1" x="15355.936" y="21135.0"/> <port id="pr_11db02b8-4d69-4c7f-8d01-aa02eed5799f_p2" x="15385.936" y="21135.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_936dc5df-2d8b-42db-b869-bd4fa31f9c6b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21317430</p> <p>Snail1 induces the nuclear translocation of Ets1, another factor required for Zeb1 expression. </p> <p>Both Twist and Ets1 bind to the ZEB1 promoter although to different elements: whereas Ets1 interacts with the proximal promoter, Twist does it with a 700-bp sequence upstream of the transcription start site. </p> <p>Snail1 controls Zeb1 expression at multiple levels and acts cooperatively with Twist in the ZEB1 gene transcription induction.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_936dc5df-2d8b-42db-b869-bd4fa31f9c6b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21317430"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2743.5" y="17191.5"/> <port id="pr_936dc5df-2d8b-42db-b869-bd4fa31f9c6b_p1" x="2733.5" y="17196.5"/> <port id="pr_936dc5df-2d8b-42db-b869-bd4fa31f9c6b_p2" x="2763.5" y="17196.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7f05bcce-f5a0-43bf-95e1-8226cd75ef43"> <bbox w="10.0" h="10.0" x="6516.5293" y="7651.5"/> <port id="pr_7f05bcce-f5a0-43bf-95e1-8226cd75ef43_p1" x="6521.5293" y="7671.5"/> <port id="pr_7f05bcce-f5a0-43bf-95e1-8226cd75ef43_p2" x="6521.5293" y="7641.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_98f38e91-c00b-45c5-9445-3804f11d083f"> <bbox w="10.0" h="10.0" x="19290.75" y="14887.75"/> <port id="pr_98f38e91-c00b-45c5-9445-3804f11d083f_p1" x="19295.75" y="14907.75"/> <port id="pr_98f38e91-c00b-45c5-9445-3804f11d083f_p2" x="19295.75" y="14877.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a516f67d-fea6-4c29-9926-3dc5cfeec052"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1886.125" y="14875.8"/> <port id="pr_a516f67d-fea6-4c29-9926-3dc5cfeec052_p1" x="1906.125" y="14880.8"/> <port id="pr_a516f67d-fea6-4c29-9926-3dc5cfeec052_p2" x="1876.125" y="14880.8"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_13ae61e3-1ba8-4644-8046-e99e4a697c01"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22491.227" y="11913.209"/> <port id="pr_13ae61e3-1ba8-4644-8046-e99e4a697c01_p1" x="22511.227" y="11918.209"/> <port id="pr_13ae61e3-1ba8-4644-8046-e99e4a697c01_p2" x="22481.227" y="11918.209"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e64c6823-4b67-44e2-aa82-a60a4f7e18dd"> <bbox w="10.0" h="10.0" x="23650.0" y="2020.0"/> <port id="pr_e64c6823-4b67-44e2-aa82-a60a4f7e18dd_p1" x="23655.0" y="2040.0"/> <port id="pr_e64c6823-4b67-44e2-aa82-a60a4f7e18dd_p2" x="23655.0" y="2010.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_804cc796-5149-4418-b2fd-768732b19a6e"> <bbox w="10.0" h="10.0" x="7310.0" y="2420.0"/> <port id="pr_804cc796-5149-4418-b2fd-768732b19a6e_p1" x="7330.0" y="2425.0"/> <port id="pr_804cc796-5149-4418-b2fd-768732b19a6e_p2" x="7300.0" y="2425.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f6fd8b4d-ae86-4d89-9d37-303ca91ef88f"> <bbox w="10.0" h="10.0" x="14321.797" y="7555.9688"/> <port id="pr_f6fd8b4d-ae86-4d89-9d37-303ca91ef88f_p1" x="14326.797" y="7545.9688"/> <port id="pr_f6fd8b4d-ae86-4d89-9d37-303ca91ef88f_p2" x="14326.797" y="7575.9688"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a21f16b1-74ed-4013-8077-b6ec4b6b6043"> <bbox w="10.0" h="10.0" x="19650.402" y="5344.75"/> <port id="pr_a21f16b1-74ed-4013-8077-b6ec4b6b6043_p1" x="19655.402" y="5334.75"/> <port id="pr_a21f16b1-74ed-4013-8077-b6ec4b6b6043_p2" x="19655.402" y="5364.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa706931-cd71-4c2b-8f18-633bd1e71916"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Reaction (id=rc_re340, name=; 10 01 04.xml)</p> <p>PMID:11557773</p> <p>by HIF1</p> <p>PMID:14672622</p> <p>in liver tumors by HIF1</p> <p>PMID:16782875</p> <p>by MLX:MLXIP</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa706931-cd71-4c2b-8f18-633bd1e71916"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11557773"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14672622"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16782875"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22722.658" y="16188.91"/> <port id="pr_aa706931-cd71-4c2b-8f18-633bd1e71916_p1" x="22727.658" y="16208.91"/> <port id="pr_aa706931-cd71-4c2b-8f18-633bd1e71916_p2" x="22727.658" y="16178.91"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_564bc186-46a7-464f-8da0-83400a294c0b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="991.13416" y="17905.0"/> <port id="pr_564bc186-46a7-464f-8da0-83400a294c0b_p1" x="996.13416" y="17895.0"/> <port id="pr_564bc186-46a7-464f-8da0-83400a294c0b_p2" x="996.13416" y="17925.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92ab3760-e166-4b19-8646-5ed8e28b268d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12441346</p> <p>in murine L929 cell line, RIPK1 is a HSP90 client protein</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_92ab3760-e166-4b19-8646-5ed8e28b268d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<p>References:</p> <p>PMID:24376839</p> <p>PTP4A3 is implicated in cell adhesion and the regulation of focal adhesion components including integrin beta-1, Src, paxillin and p130Cas</p> <p>Similarly, PTP4A3 promotes cell invasion by increasing MMP2 activity and decreasing the expression of the MMP inhibitor, TIMP2. </p> <p>PTP4A3 is also involved in EMT: PTP4A3 overexpression in colorectal carcinoma cells downregulates epithelial markers (E-cadherin, plakoglobin, and integrin beta-3) and upregulates expression of mesenchymal markers (fibronectin and snail1).</p> <p>PMID:23691193</p> <p>Src-mediated phosphorylation of PTP4A3 Is required for Rho activation, motility and invasion promoted by PTP4A3.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<port id="pr_017d08a4-3696-4d99-8236-a4e2a9df30d5_p2" x="12790.0" y="5906.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a7045014-a0ea-4abb-a57c-68ade26d5ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2418.0" y="16650.71"/> <port id="pr_a7045014-a0ea-4abb-a57c-68ade26d5ca2_p1" x="2408.0" y="16655.71"/> <port id="pr_a7045014-a0ea-4abb-a57c-68ade26d5ca2_p2" x="2438.0" y="16655.71"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bc3a3bed-1513-4f81-8702-201bccdce7ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18423201</p> <p>PMID:19339977</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bc3a3bed-1513-4f81-8702-201bccdce7ec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18423201"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12525.311" y="19762.0"/> <port id="pr_bc3a3bed-1513-4f81-8702-201bccdce7ec_p1" x="12545.311" y="19767.0"/> <port id="pr_bc3a3bed-1513-4f81-8702-201bccdce7ec_p2" x="12515.311" y="19767.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_09c414da-b1fb-4f1e-bfea-407b30008549"> <bbox w="10.0" h="10.0" x="20060.56" y="10108.5"/> <port id="pr_09c414da-b1fb-4f1e-bfea-407b30008549_p1" x="20065.56" y="10098.5"/> <port id="pr_09c414da-b1fb-4f1e-bfea-407b30008549_p2" x="20065.56" y="10128.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f4ed8b92-ce31-49ef-bfde-78e1852de856"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="17856.441" y="16045.036"/> <port id="pr_f4ed8b92-ce31-49ef-bfde-78e1852de856_p1" x="17861.441" y="16065.036"/> <port id="pr_f4ed8b92-ce31-49ef-bfde-78e1852de856_p2" x="17861.441" y="16035.036"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bd0e1a81-c83b-468b-99fc-064fa8deabea"> <bbox w="10.0" h="10.0" x="1105.0" y="4295.0"/> <port id="pr_bd0e1a81-c83b-468b-99fc-064fa8deabea_p1" x="1110.0" y="4285.0"/> <port id="pr_bd0e1a81-c83b-468b-99fc-064fa8deabea_p2" x="1110.0" y="4315.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_064175fa-27ab-459f-ab20-45dfb645d5ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6639.8877" y="14707.25"/> <port id="pr_064175fa-27ab-459f-ab20-45dfb645d5ad_p1" x="6629.8877" y="14712.25"/> <port id="pr_064175fa-27ab-459f-ab20-45dfb645d5ad_p2" x="6659.8877" y="14712.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7ad263a9-658a-4710-8e64-9d59732b7b22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16540666</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7ad263a9-658a-4710-8e64-9d59732b7b22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16540666"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4061.3882" y="10601.75"/> <port id="pr_7ad263a9-658a-4710-8e64-9d59732b7b22_p1" x="4066.3882" y="10591.75"/> <port id="pr_7ad263a9-658a-4710-8e64-9d59732b7b22_p2" x="4066.3882" y="10621.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e0979b04-3564-4e22-8564-7c6c65ccfd95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Arrests cell cycle in S-phase in response to stalled replication fork or ds breaks in DNA:</p> <p>PMID:15459660, PMID:17384638, PMID:19793801</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e0979b04-3564-4e22-8564-7c6c65ccfd95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459660"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17384638"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13130.49" y="12817.518"/> <port id="pr_e0979b04-3564-4e22-8564-7c6c65ccfd95_p1" x="13135.49" y="12807.518"/> <port id="pr_e0979b04-3564-4e22-8564-7c6c65ccfd95_p2" x="13135.49" y="12837.518"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f33b8c21-41dc-4b01-9955-4980d573a641"> <bbox w="10.0" h="10.0" x="13919.219" y="6382.1875"/> <port id="pr_f33b8c21-41dc-4b01-9955-4980d573a641_p1" x="13924.219" y="6402.1875"/> <port id="pr_f33b8c21-41dc-4b01-9955-4980d573a641_p2" x="13924.219" y="6372.1875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c5218755-292e-4fa9-ad66-1040d01eb482"> <bbox w="10.0" h="10.0" x="9543.436" y="18364.438"/> <port id="pr_c5218755-292e-4fa9-ad66-1040d01eb482_p1" x="9533.436" y="18369.438"/> <port id="pr_c5218755-292e-4fa9-ad66-1040d01eb482_p2" x="9563.436" y="18369.438"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6b0bc160-b448-482c-917f-8daf103968eb"> <bbox w="10.0" h="10.0" x="27304.06" y="14554.0"/> <port id="pr_6b0bc160-b448-482c-917f-8daf103968eb_p1" x="27294.06" y="14559.0"/> <port id="pr_6b0bc160-b448-482c-917f-8daf103968eb_p2" x="27324.06" y="14559.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a81b6aad-5322-4477-a1b8-0e003dd89e10"> <bbox w="10.0" h="10.0" x="9506.297" y="16958.64"/> <port id="pr_a81b6aad-5322-4477-a1b8-0e003dd89e10_p1" x="9526.297" y="16963.64"/> <port id="pr_a81b6aad-5322-4477-a1b8-0e003dd89e10_p2" x="9496.297" y="16963.64"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_16a69f9b-3e31-4110-8991-9ff7ca52ee05"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>HSP90 redirects BRCA1 to degradation, inhibits HR and G2/M chechpoint, increases sensitivity to cross-linking agents</p> <p>PMID:22869732</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_16a69f9b-3e31-4110-8991-9ff7ca52ee05"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22869732"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15433.225" y="16032.1"/> <port id="pr_16a69f9b-3e31-4110-8991-9ff7ca52ee05_p1" x="15423.225" y="16037.1"/> <port id="pr_16a69f9b-3e31-4110-8991-9ff7ca52ee05_p2" x="15453.225" y="16037.1"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_b14750b1-3889-499f-9831-9d1f5c50bf8d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4785.755" y="15364.68"/> <port id="pr_b14750b1-3889-499f-9831-9d1f5c50bf8d_p1" x="4790.755" y="15384.68"/> <port id="pr_b14750b1-3889-499f-9831-9d1f5c50bf8d_p2" x="4790.755" y="15354.68"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9eb9cbe5-b249-4421-a347-c8a575f2ddaf"> <bbox w="10.0" h="10.0" x="28211.0" y="2890.0"/> <port id="pr_9eb9cbe5-b249-4421-a347-c8a575f2ddaf_p1" x="28216.0" y="2910.0"/> <port id="pr_9eb9cbe5-b249-4421-a347-c8a575f2ddaf_p2" x="28216.0" y="2880.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ae3ef00a-3908-439f-af58-3a734724a7df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ae3ef00a-3908-439f-af58-3a734724a7df"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5900.5" y="11080.5"/> <port id="pr_ae3ef00a-3908-439f-af58-3a734724a7df_p1" x="5890.5" y="11085.5"/> <port id="pr_ae3ef00a-3908-439f-af58-3a734724a7df_p2" x="5920.5" y="11085.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_79e97df0-bd85-4ad9-ae3a-0542e5020001"> <bbox w="10.0" h="10.0" x="15990.297" y="7546.25"/> <port id="pr_79e97df0-bd85-4ad9-ae3a-0542e5020001_p1" x="15995.297" y="7536.25"/> <port id="pr_79e97df0-bd85-4ad9-ae3a-0542e5020001_p2" x="15995.297" y="7566.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_456d2f29-777a-4a43-8aaf-00c0f4e614ab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>REV1 interacts with ubiquitinated PCNA, this activates TLS:</p> <p>PMID:17517887</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<port id="pr_633c0db4-800f-49d2-b20b-0dbe26f2f9f9_p2" x="15895.061" y="18488.8"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0736bd51-56c0-4eb7-bfb6-ab0d9b99b5a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23989302</p> <p>PMID:19152186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0736bd51-56c0-4eb7-bfb6-ab0d9b99b5a9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23989302"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19152186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5266.5" y="11156.0"/> <port id="pr_0736bd51-56c0-4eb7-bfb6-ab0d9b99b5a9_p1" x="5271.5" y="11176.0"/> <port id="pr_0736bd51-56c0-4eb7-bfb6-ab0d9b99b5a9_p2" x="5271.5" y="11146.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8a15545-255a-4a8c-9306-a4f32952ed12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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y="15946.686"/> <port id="pr_e3fc17dc-4c78-48af-ac81-2e7f766a5b9f_p1" x="21665.48" y="15951.686"/> <port id="pr_e3fc17dc-4c78-48af-ac81-2e7f766a5b9f_p2" x="21635.48" y="15951.686"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9dd4acc0-4b39-4310-b9b6-ceef8f72705e"> <bbox w="10.0" h="10.0" x="29434.06" y="9159.0"/> <port id="pr_9dd4acc0-4b39-4310-b9b6-ceef8f72705e_p1" x="29439.06" y="9149.0"/> <port id="pr_9dd4acc0-4b39-4310-b9b6-ceef8f72705e_p2" x="29439.06" y="9179.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c3af624f-84e4-4acb-9ce9-50be3a465644"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c3af624f-84e4-4acb-9ce9-50be3a465644"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9155.612" 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id="pr_7c79a130-2422-4917-87bf-226d76849a9d_p1" x="19910.56" y="14605.25"/> <port id="pr_7c79a130-2422-4917-87bf-226d76849a9d_p2" x="19940.56" y="14605.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_abb742eb-4674-49c2-8586-cda536982ef9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1891.4905" y="16863.059"/> <port id="pr_abb742eb-4674-49c2-8586-cda536982ef9_p1" x="1881.4905" y="16868.059"/> <port id="pr_abb742eb-4674-49c2-8586-cda536982ef9_p2" x="1911.4905" y="16868.059"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b1798e0-2471-4bc2-bb78-0ad91f27abf9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Transfer of activated RTK/Grb2/Sos/RasGTP complex to late endosomes where it binds P14/MP1/MEK1 complex allowing the ERK cascade.</p> <p>Upon EGF stimulation EGFR in complex with Grb2 is endocytosed and transported to late endosomes with Grb2-binding proteins such as Sos resulting in the activation of KRas on late endosomes.</p> <p>PMID:17496910 PMID:19289794</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b1798e0-2471-4bc2-bb78-0ad91f27abf9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19289794"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8584.143" y="19720.328"/> <port id="pr_8b1798e0-2471-4bc2-bb78-0ad91f27abf9_p1" x="8589.143" y="19710.328"/> <port id="pr_8b1798e0-2471-4bc2-bb78-0ad91f27abf9_p2" x="8589.143" y="19740.328"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_fee22ade-81d7-46a6-b222-513cd6651f9e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6565.4634" y="14332.75"/> <port id="pr_fee22ade-81d7-46a6-b222-513cd6651f9e_p1" x="6555.4634" 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<p>References:</p> <p>MLK3 and MLK2 two MAP3Ks of JNK pathway can interact with RAC1 in a GTP-dependent manner.</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways.</p> <p>TAO kinases are novel MAP3Ks that specifically regulate P38s.</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>MEKK1 selectively activates the endogenous JNK pathway. MEKK1 can activate MEK4 and MEK7 in vivo.</p> <p>MEKK4 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> <p>MLK3 has the potential to positively regulate the ERK/MODULE:MAPK pathway by directly phosphorylating and activating MEK.</p> <p>Expression of GADD45 genes in mammalian cells strongly activates co-expressed MTK1 as well as P38 and JNK the MAPKs downstream of MTK1. 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rdf:resource="urn:miriam:pubmed:18855897"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10691.307" y="20008.668"/> <port id="pr_903d3703-a22a-41df-8da7-c169bd5142f1_p1" x="10681.307" y="20013.668"/> <port id="pr_903d3703-a22a-41df-8da7-c169bd5142f1_p2" x="10711.307" y="20013.668"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8eab3692-0d23-4d41-8a81-856571f5fe84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12778124</p> <p>In the inactive form, the pleckstrin homology (PH) domain and the Rho-binding domain (RBD) of ROCK bind to the amino-terminal region of the protein, which forms an autoinhibitory loop.</p> <p>Activated, GTP-bound Rho binds to the RBD of ROCK, which results in an open conformation of the kinase and frees the catalytic activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8eab3692-0d23-4d41-8a81-856571f5fe84"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12778124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5394.408" y="14723.0"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_19e4a233-3319-4621-b1f5-5b9164439639"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20308559</p> <p>in Hela cells</p> <p>in HCT116 wt, but not in p53-deficient conterpart, etoposide induces the expression of PANK1 and MIR107, + luciferase reporter and ChIP assays</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64f82907-fc80-4a05-8676-57423d1a1e20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20308559"/> </rdf:Bag> 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4d8e8387-3cd6-448c-a061-adb0aff3afc6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10764727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21350.035" y="9774.285"/> <port id="pr_4d8e8387-3cd6-448c-a061-adb0aff3afc6_p1" x="21340.035" y="9779.285"/> <port id="pr_4d8e8387-3cd6-448c-a061-adb0aff3afc6_p2" x="21370.035" y="9779.285"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da2228e3-e720-427f-8a73-c09f06ef8af5"> <bbox w="10.0" h="10.0" x="10743.75" y="1499.0"/> <port id="pr_da2228e3-e720-427f-8a73-c09f06ef8af5_p1" x="10748.75" y="1489.0"/> <port id="pr_da2228e3-e720-427f-8a73-c09f06ef8af5_p2" x="10748.75" y="1519.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9e7ae648-719e-4164-9a33-ca38f85fc596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21887410</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9e7ae648-719e-4164-9a33-ca38f85fc596"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21887410"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_93a9bf2b-ce69-49a0-9d9b-17c572969f60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18298802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13499.561" y="18552.5"/> <port id="pr_93a9bf2b-ce69-49a0-9d9b-17c572969f60_p1" x="13489.561" y="18557.5"/> <port id="pr_93a9bf2b-ce69-49a0-9d9b-17c572969f60_p2" x="13519.561" y="18557.5"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_a56d7ce8-3d6f-47ed-9236-28334fbdcc21"> <bbox w="20.0" h="20.0" x="13409.394" y="18538.0"/> <port id="logicglyph_a56d7ce8-3d6f-47ed-9236-28334fbdcc21_p1" x="13399.394" y="18548.0"/> <port id="logicglyph_a56d7ce8-3d6f-47ed-9236-28334fbdcc21_p2" x="13439.394" y="18548.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_380010d8-629f-437d-b848-eb2f1682c928"> <bbox w="10.0" h="10.0" x="7815.0" y="3085.0"/> <port id="pr_380010d8-629f-437d-b848-eb2f1682c928_p1" x="7835.0" y="3090.0"/> <port id="pr_380010d8-629f-437d-b848-eb2f1682c928_p2" x="7805.0" y="3090.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_648b3ada-6683-4bb3-b061-3f1d4b5a95cf"> <bbox w="10.0" h="10.0" x="22822.31" y="10367.279"/> <port id="pr_648b3ada-6683-4bb3-b061-3f1d4b5a95cf_p1" x="22827.31" y="10357.279"/> <port id="pr_648b3ada-6683-4bb3-b061-3f1d4b5a95cf_p2" x="22827.31" y="10387.279"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb98cba2-18bc-435b-a424-888b0c277681"> <bbox w="10.0" h="10.0" x="21092.8" y="7707.5"/> <port id="pr_fb98cba2-18bc-435b-a424-888b0c277681_p1" x="21097.8" y="7727.5"/> <port id="pr_fb98cba2-18bc-435b-a424-888b0c277681_p2" x="21097.8" y="7697.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61365a95-262b-4e66-8e04-441057724dd1"> <bbox w="10.0" h="10.0" x="12195.777" y="9629.865"/> <port id="pr_61365a95-262b-4e66-8e04-441057724dd1_p1" x="12200.777" y="9619.865"/> <port id="pr_61365a95-262b-4e66-8e04-441057724dd1_p2" x="12200.777" y="9649.865"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ff7eb73-e12e-4d31-86a5-72c27b77bd4f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7834749</p> <p>by p53</p> <p>PMID:15613549</p> <p>in HEK 293, by NFkB, upon expression of LMP1 protein (from EBV). More precisely, p65/p50 dimer inhibits BAX promoter activity whereas p50/p50 dimer is actually an transcriptional activator or BAX. However p65 has to be inhibited to see p50/p50 mediated activation of BAX</p> <p>PMID:12676992</p> <p>in MEF double knocked out by CTBP1 and CTBP2 (RT-PCR)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ff7eb73-e12e-4d31-86a5-72c27b77bd4f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7834749"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15613549"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_88a30df6-c7a8-4964-9042-734ff5476010_p2" x="27866.0" y="4155.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_fab03000-033f-4e78-8b0e-6e14687af987"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2247.9666" y="15428.5"/> <port id="pr_fab03000-033f-4e78-8b0e-6e14687af987_p1" x="2267.9666" y="15433.5"/> <port id="pr_fab03000-033f-4e78-8b0e-6e14687af987_p2" x="2237.9666" y="15433.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f92ea51f-3b4b-49bb-9ef0-f06658c0474c"> <bbox w="10.0" h="10.0" x="28076.326" y="16274.0"/> <port id="pr_f92ea51f-3b4b-49bb-9ef0-f06658c0474c_p1" x="28066.326" y="16279.0"/> <port id="pr_f92ea51f-3b4b-49bb-9ef0-f06658c0474c_p2" x="28096.326" y="16279.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0cb957bb-2483-4e4f-b8d7-c7b74f8264cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20439735</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0cb957bb-2483-4e4f-b8d7-c7b74f8264cb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20439735"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23629.56" y="21590.0"/> <port id="pr_0cb957bb-2483-4e4f-b8d7-c7b74f8264cb_p1" x="23619.56" y="21595.0"/> <port id="pr_0cb957bb-2483-4e4f-b8d7-c7b74f8264cb_p2" x="23649.56" y="21595.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e9d82b28-32e8-4707-a694-0f6d70f6277c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Import of APC does not require phosphorylation of APC</p> <p>PMID:12223464</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9d82b28-32e8-4707-a694-0f6d70f6277c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223464"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20830.56" y="21086.0"/> <port id="pr_e9d82b28-32e8-4707-a694-0f6d70f6277c_p1" x="20820.56" y="21091.0"/> <port id="pr_e9d82b28-32e8-4707-a694-0f6d70f6277c_p2" x="20850.56" y="21091.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e4f8b6b7-3af9-49b8-b035-10f5c9d45511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23589069</p> <p>PMID:22131018</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e4f8b6b7-3af9-49b8-b035-10f5c9d45511"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23589069"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22131018"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4321.75" y="10868.25"/> <port id="pr_e4f8b6b7-3af9-49b8-b035-10f5c9d45511_p1" x="4326.75" y="10858.25"/> <port id="pr_e4f8b6b7-3af9-49b8-b035-10f5c9d45511_p2" x="4326.75" y="10888.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_be66d58f-6959-4532-b710-aa6988104e48"> <bbox w="10.0" h="10.0" x="23488.06" y="21590.0"/> <port id="pr_be66d58f-6959-4532-b710-aa6988104e48_p1" x="23478.06" y="21595.0"/> <port id="pr_be66d58f-6959-4532-b710-aa6988104e48_p2" x="23508.06" y="21595.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b13e58d7-214f-42c2-a022-40044014ec6d"> <bbox w="10.0" h="10.0" x="13366.586" y="11793.189"/> <port id="pr_b13e58d7-214f-42c2-a022-40044014ec6d_p1" x="13386.586" y="11798.189"/> <port id="pr_b13e58d7-214f-42c2-a022-40044014ec6d_p2" x="13356.586" y="11798.189"/> </glyph> <glyph class="process" orientation="vertical" id="pr_53351a0c-a0ef-4be9-b8bd-990029d61ac3"> <bbox w="10.0" h="10.0" x="6166.0" y="1760.0"/> <port id="pr_53351a0c-a0ef-4be9-b8bd-990029d61ac3_p1" x="6171.0" y="1750.0"/> <port id="pr_53351a0c-a0ef-4be9-b8bd-990029d61ac3_p2" x="6171.0" y="1780.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b17d6e86-be70-4cbe-9fa8-08637d1a294e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Link between HR, NER to Fanconi anemia pathway. </p> <p>PMID:19686080</p> <p>For ERCC1/XPF:</p> <p>PMID:10882712, PMID:19805513</p> <p>For MUS81/Eme1:</p> <p>PMID:17036055:G</p> <p>FANCA modulates XPF function:</p> <p>MRN complex, FANCD2 and SNM1B are modulators of the DNA to release stalled fork:</p> <p>PMD:19622404</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b17d6e86-be70-4cbe-9fa8-08637d1a294e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10882712"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19805513"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17036055:G"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15765.611" y="16041.005"/> <port id="pr_b17d6e86-be70-4cbe-9fa8-08637d1a294e_p1" x="15770.611" y="16031.005"/> <port id="pr_b17d6e86-be70-4cbe-9fa8-08637d1a294e_p2" x="15770.611" y="16061.005"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_1c51db03-78b3-44f6-a665-3a1b053aecf7"> <bbox w="20.0" h="20.0" x="15866.614" y="16377.168"/> <port id="logicglyph_1c51db03-78b3-44f6-a665-3a1b053aecf7_p1" x="15876.614" y="16407.168"/> <port id="logicglyph_1c51db03-78b3-44f6-a665-3a1b053aecf7_p2" x="15876.614" y="16367.168"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1d8a9ae9-b440-46e5-b1cb-97ef2f6e43cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20129.06" y="14984.0"/> <port id="pr_1d8a9ae9-b440-46e5-b1cb-97ef2f6e43cb_p1" x="20149.06" y="14989.0"/> <port id="pr_1d8a9ae9-b440-46e5-b1cb-97ef2f6e43cb_p2" x="20119.06" y="14989.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc6f1b71-79b5-49b3-8b7d-1a7265bb633f"> <bbox w="10.0" h="10.0" x="5413.786" y="1984.25"/> <port id="pr_cc6f1b71-79b5-49b3-8b7d-1a7265bb633f_p1" x="5418.786" y="1974.25"/> <port id="pr_cc6f1b71-79b5-49b3-8b7d-1a7265bb633f_p2" x="5418.786" y="2004.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd3fb147-7ffc-4eaf-a6ab-989d8ddcfe15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5036.25" y="15800.621"/> <port id="pr_bd3fb147-7ffc-4eaf-a6ab-989d8ddcfe15_p1" x="5026.25" y="15805.621"/> <port id="pr_bd3fb147-7ffc-4eaf-a6ab-989d8ddcfe15_p2" x="5056.25" y="15805.621"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_4bf646c7-d7d3-4b1b-b2d3-47c21eb7da0e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5746.243" y="14499.25"/> <port id="pr_4bf646c7-d7d3-4b1b-b2d3-47c21eb7da0e_p1" x="5751.243" y="14519.25"/> <port id="pr_4bf646c7-d7d3-4b1b-b2d3-47c21eb7da0e_p2" x="5751.243" y="14489.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_15dd866e-9346-4e69-bb9b-87fbd503fa71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9727492</p> <p>in vitro cleavage of BID by CASP8 and GZMB, BID poor substrate for CASP3</p> <p>in Jurkat cleavage of BID by CASP8 upon Fas stimulation</p> <p>in Hela exposed to TNF+CHX cleavage of BID by CASP8</p> <p>PMID:10805722</p> <p>in vitro cleavage of in vitro translated BID by purified granzyme B</p> <p>in Jurkat cells exposed to GZMB+adenovirus, BID cleavage occurs independently of caspases (zVAD-fmk)</p> <p>PMID:11085743</p> <p>in Jurkat cells exposed to GZMB+perforin, Bcl2 over-expression mediated cell protection is abrogated by over-over-expression of BID (wt or CASP8-uncleavable mutant) but of D75 (GZMB in vitro cleavage site) mutant</p> <p>PMID:11085742</p> <p>in Jurkat cells exposed to GZMB+adenovirus+zVAD-fmk, BID is cleaved and localizes to mitochondria</p> <p>PMID:10364179</p> <p>cleavage of BID by CASP8 and CASP3</p> <p>PMID:11832478</p> <p>in vitro by CASP2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_15dd866e-9346-4e69-bb9b-87fbd503fa71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9727492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10805722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11085743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11085742"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10364179"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11832478"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24377.186" y="11444.75"/> <port id="pr_15dd866e-9346-4e69-bb9b-87fbd503fa71_p1" x="24367.186" y="11449.75"/> <port id="pr_15dd866e-9346-4e69-bb9b-87fbd503fa71_p2" x="24397.186" y="11449.75"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_d7da674a-637d-40a3-be85-39e9885627c0"> <bbox w="20.0" h="20.0" x="24400.635" y="11383.245"/> <port id="logicglyph_d7da674a-637d-40a3-be85-39e9885627c0_p1" x="24410.635" y="11373.245"/> <port id="logicglyph_d7da674a-637d-40a3-be85-39e9885627c0_p2" x="24410.635" y="11413.245"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b5aa4f5c-090a-4e7c-af31-446719fa7456"> <bbox w="10.0" h="10.0" x="10687.5" y="5546.25"/> <port id="pr_b5aa4f5c-090a-4e7c-af31-446719fa7456_p1" x="10692.5" y="5566.25"/> <port id="pr_b5aa4f5c-090a-4e7c-af31-446719fa7456_p2" x="10692.5" y="5536.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d06c8f17-7327-4b31-946c-62b9f87103c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14985507</p> <p>mouse homolog siah-1b is a direct target of p53</p> <p>PMID:12077306</p> <p>sequence analysis predicts SIAH1 as a p53 target gene</p> <p>PMID:12438652</p> <p>in human colorectal carcinoma-derived cell lines with a somatic knock-out of p53 (p53 +/+, p53 +/−, and p53 −/−), SIAH1 expression correlates with that of p53</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_29f8cd57-d398-406e-9050-f2d44fdee913_p2" x="28851.0" y="8457.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b7a36795-ff26-48b8-8a34-4738cb415743"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10984057</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<port id="pr_9a476fde-bfb0-4ae3-bbc0-e32da0e5d0e8_p2" x="22812.06" y="13351.908"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_307e713c-eae9-46a2-ad0e-908cf3c29d40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2405.4304" y="19019.5"/> <port id="pr_307e713c-eae9-46a2-ad0e-908cf3c29d40_p1" x="2410.4304" y="19009.5"/> <port id="pr_307e713c-eae9-46a2-ad0e-908cf3c29d40_p2" x="2410.4304" y="19039.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9142d557-6be1-4656-9bd0-6612b7859b40"> <bbox w="10.0" h="10.0" x="18878.523" y="14737.517"/> <port id="pr_9142d557-6be1-4656-9bd0-6612b7859b40_p1" x="18898.523" y="14742.517"/> <port id="pr_9142d557-6be1-4656-9bd0-6612b7859b40_p2" x="18868.523" y="14742.517"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff1179e5-01a5-41c7-a4b3-20a6b344a301"> <bbox w="10.0" h="10.0" x="26975.582" y="7761.25"/> <port id="pr_ff1179e5-01a5-41c7-a4b3-20a6b344a301_p1" x="26980.582" y="7751.25"/> <port id="pr_ff1179e5-01a5-41c7-a4b3-20a6b344a301_p2" x="26980.582" y="7781.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82a7ea17-57d2-4f93-9e16-61c87021e9e3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>UV light causes bulky adducts damage in DNA that repared by NER pathway</p> <p>For activation of NER by UV</p> <p>PMID:22743272, PMID:22822215, PMID:22492724, PMID:22373527</p> <p>Interstrand crosslinking agents induce NER </p> <p>PMID:21701511</p> <p>ROS activate NER for repating intrastrand crosslink</p> <p>PMID:22581771</p> <p>ROS activate NER for bulky adducts</p> <p>PMID:18189366</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_82a7ea17-57d2-4f93-9e16-61c87021e9e3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743272"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22822215"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22492724"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22373527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22581771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18189366"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10372.535" y="15186.9"/> <port id="pr_82a7ea17-57d2-4f93-9e16-61c87021e9e3_p1" x="10392.535" y="15191.9"/> <port id="pr_82a7ea17-57d2-4f93-9e16-61c87021e9e3_p2" x="10362.535" y="15191.9"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f00d297d-6df0-4219-8589-e57ae96f08cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4674.6636" y="17690.0"/> <port id="pr_f00d297d-6df0-4219-8589-e57ae96f08cb_p1" x="4679.6636" y="17680.0"/> <port id="pr_f00d297d-6df0-4219-8589-e57ae96f08cb_p2" x="4679.6636" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd9b79a5-02c9-4c8c-9a44-3a551f64263d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9465032</p> <p>PMID:15690031</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bd9b79a5-02c9-4c8c-9a44-3a551f64263d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9465032"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15690031"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27534.56" y="12109.5"/> <port id="pr_bd9b79a5-02c9-4c8c-9a44-3a551f64263d_p1" x="27524.56" y="12114.5"/> <port id="pr_bd9b79a5-02c9-4c8c-9a44-3a551f64263d_p2" x="27554.56" y="12114.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_278677b9-dc12-406b-8146-7c5212ca36ca"> <bbox w="10.0" h="10.0" x="4390.622" y="1009.5"/> <port id="pr_278677b9-dc12-406b-8146-7c5212ca36ca_p1" x="4395.622" y="999.5"/> <port id="pr_278677b9-dc12-406b-8146-7c5212ca36ca_p2" x="4395.622" y="1029.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e1a6502f-3edc-406a-930f-a11d9bc235c4"> <bbox w="10.0" h="10.0" x="27646.014" y="14124.0"/> <port id="pr_e1a6502f-3edc-406a-930f-a11d9bc235c4_p1" x="27651.014" y="14114.0"/> <port id="pr_e1a6502f-3edc-406a-930f-a11d9bc235c4_p2" x="27651.014" y="14144.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d7d1569f-8efb-4876-bcae-5cfd2a19b6eb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5848.0" y="15007.5"/> <port id="pr_d7d1569f-8efb-4876-bcae-5cfd2a19b6eb_p1" x="5868.0" y="15012.5"/> <port id="pr_d7d1569f-8efb-4876-bcae-5cfd2a19b6eb_p2" x="5838.0" y="15012.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_63ca7838-0aad-4928-903c-85867b5ed7d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MLK3 and MLK2 two MAP3Ks of JNK pathway can interact with RAC1 in a GTP-dependent manner.</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways</p> <p>MLK3 has the potential to positively regulate the ERK/MODULE:MAPK pathway by directly phosphorylating and activating MEK.</p> <p>PMID:11274345 PMID:12738796</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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class="process" orientation="vertical" id="pr_3b51526d-dde3-442b-b81f-526335963959"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4099.6357" y="17980.125"/> <port id="pr_3b51526d-dde3-442b-b81f-526335963959_p1" x="4104.6357" y="17970.125"/> <port id="pr_3b51526d-dde3-442b-b81f-526335963959_p2" x="4104.6357" y="18000.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_180873b1-02ab-46b6-8d31-55907f268388"> <bbox w="10.0" h="10.0" x="24835.336" y="15650.25"/> <port id="pr_180873b1-02ab-46b6-8d31-55907f268388_p1" x="24825.336" y="15655.25"/> <port id="pr_180873b1-02ab-46b6-8d31-55907f268388_p2" x="24855.336" y="15655.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1a76cd5e-cf22-4f87-88d8-135934beea6f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5350.0" y="16713.275"/> <port id="pr_1a76cd5e-cf22-4f87-88d8-135934beea6f_p1" x="5340.0" y="16718.275"/> <port id="pr_1a76cd5e-cf22-4f87-88d8-135934beea6f_p2" x="5370.0" y="16718.275"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_05b27c9a-6b59-43b8-8f10-f7769dcf0dd3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3549.3389" y="19023.5"/> <port id="pr_05b27c9a-6b59-43b8-8f10-f7769dcf0dd3_p1" x="3569.3389" y="19028.5"/> <port id="pr_05b27c9a-6b59-43b8-8f10-f7769dcf0dd3_p2" x="3539.3389" y="19028.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b39f56bd-8c87-4523-8900-2d26ff71fad8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10050855</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b39f56bd-8c87-4523-8900-2d26ff71fad8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10050855"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26800.191" y="21445.688"/> <port id="pr_b39f56bd-8c87-4523-8900-2d26ff71fad8_p1" x="26790.191" y="21450.688"/> <port id="pr_b39f56bd-8c87-4523-8900-2d26ff71fad8_p2" x="26820.191" y="21450.688"/> </glyph> <glyph class="process" orientation="vertical" id="pr_daed368c-1a80-4896-9c97-36c9861cc0af"> <bbox w="10.0" h="10.0" x="18405.0" y="4556.5"/> <port id="pr_daed368c-1a80-4896-9c97-36c9861cc0af_p1" x="18410.0" y="4546.5"/> <port id="pr_daed368c-1a80-4896-9c97-36c9861cc0af_p2" x="18410.0" y="4576.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a1b639c-2da6-4473-b57b-a53513d52dde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For interaction between SNM1B and ATM to mediate S-phase checkpoint in response to ICL (intra-chromatide lesion):</p> <p>PMID:18469862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8a1b639c-2da6-4473-b57b-a53513d52dde"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18469862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13104.767" y="14072.338"/> <port id="pr_8a1b639c-2da6-4473-b57b-a53513d52dde_p1" x="13109.767" y="14092.338"/> <port id="pr_8a1b639c-2da6-4473-b57b-a53513d52dde_p2" x="13109.767" y="14062.338"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82888209-bfb3-4856-a385-604967bdbebf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:9092486</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_82888209-bfb3-4856-a385-604967bdbebf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9092486"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22456.56" y="16962.0"/> <port id="pr_82888209-bfb3-4856-a385-604967bdbebf_p1" x="22446.56" y="16967.0"/> <port id="pr_82888209-bfb3-4856-a385-604967bdbebf_p2" x="22476.56" y="16967.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b523ab58-38ea-412b-aa7f-cc84d6dd79da"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b523ab58-38ea-412b-aa7f-cc84d6dd79da"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28126.06" y="11924.333"/> <port id="pr_b523ab58-38ea-412b-aa7f-cc84d6dd79da_p1" x="28116.06" y="11929.333"/> <port id="pr_b523ab58-38ea-412b-aa7f-cc84d6dd79da_p2" x="28146.06" y="11929.333"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f128142d-89a0-41d1-96c5-a5d6c5e4a8b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16698035</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f128142d-89a0-41d1-96c5-a5d6c5e4a8b3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16698035"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17938.303" y="11983.125"/> <port id="pr_f128142d-89a0-41d1-96c5-a5d6c5e4a8b3_p1" x="17958.303" y="11988.125"/> <port id="pr_f128142d-89a0-41d1-96c5-a5d6c5e4a8b3_p2" x="17928.303" y="11988.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6dd3a9b6-f7ab-4c58-9c3f-38f4f87e5f00"> <bbox w="10.0" h="10.0" x="12313.234" y="16358.012"/> <port id="pr_6dd3a9b6-f7ab-4c58-9c3f-38f4f87e5f00_p1" x="12333.234" y="16363.012"/> <port id="pr_6dd3a9b6-f7ab-4c58-9c3f-38f4f87e5f00_p2" x="12303.234" y="16363.012"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f203e56-cddd-4b40-8a14-7f68c385905d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re40_rc_s128_rc_re45=FALSE</p> <p>PMID:16543145</p> <p>in different IL-3 dependent mouse pro-B cell lines upon IL-3 withdrawal</p> <p>in Hela and 293T</p> <p>S159 phosphorylation site correspond to human MCL1</p> <p>GSK3A and GSK3B KD in NIH3T3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f203e56-cddd-4b40-8a14-7f68c385905d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16543145"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22413.686" y="14584.0"/> <port id="pr_5f203e56-cddd-4b40-8a14-7f68c385905d_p1" x="22418.686" y="14604.0"/> <port id="pr_5f203e56-cddd-4b40-8a14-7f68c385905d_p2" x="22418.686" y="14574.0"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_d186acf1-9609-4a0c-a7a2-821901d358bd"> <bbox w="20.0" h="20.0" x="24274.06" y="12519.0"/> <port id="logicglyph_d186acf1-9609-4a0c-a7a2-821901d358bd_p1" x="24284.06" y="12509.0"/> <port id="logicglyph_d186acf1-9609-4a0c-a7a2-821901d358bd_p2" x="24284.06" y="12549.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b56e6212-6a37-4dfc-8e95-e8d3b1577b6c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18695042</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b56e6212-6a37-4dfc-8e95-e8d3b1577b6c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18695042"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27533.56" y="22102.355"/> <port id="pr_b56e6212-6a37-4dfc-8e95-e8d3b1577b6c_p1" x="27523.56" y="22107.355"/> <port id="pr_b56e6212-6a37-4dfc-8e95-e8d3b1577b6c_p2" x="27553.56" y="22107.355"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2661e1e8-c16f-4e30-b795-e65fc6d02fa0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997 PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2661e1e8-c16f-4e30-b795-e65fc6d02fa0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20851997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19351822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26932.56" y="22121.018"/> <port id="pr_2661e1e8-c16f-4e30-b795-e65fc6d02fa0_p1" x="26922.56" y="22126.018"/> <port id="pr_2661e1e8-c16f-4e30-b795-e65fc6d02fa0_p2" x="26952.56" y="22126.018"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c0b8729e-d58c-4a4e-aa20-5dc226c9f81e"> <bbox w="10.0" h="10.0" x="19709.395" y="13847.25"/> <port id="pr_c0b8729e-d58c-4a4e-aa20-5dc226c9f81e_p1" x="19714.395" y="13867.25"/> <port id="pr_c0b8729e-d58c-4a4e-aa20-5dc226c9f81e_p2" x="19714.395" y="13837.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a3b0f7ab-8dbd-469f-b1bb-d21e48565f27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16731533</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a3b0f7ab-8dbd-469f-b1bb-d21e48565f27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16731533"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12615.84" y="15870.69"/> <port id="pr_a3b0f7ab-8dbd-469f-b1bb-d21e48565f27_p1" x="12635.84" y="15875.69"/> <port id="pr_a3b0f7ab-8dbd-469f-b1bb-d21e48565f27_p2" x="12605.84" y="15875.69"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_e43d686c-9276-4dba-ba79-0c02f16f1ec7"> <bbox w="20.0" h="20.0" x="12330.831" y="14464.772"/> <port id="logicglyph_e43d686c-9276-4dba-ba79-0c02f16f1ec7_p1" x="12340.831" y="14454.772"/> <port id="logicglyph_e43d686c-9276-4dba-ba79-0c02f16f1ec7_p2" x="12340.831" y="14494.772"/> </glyph> <glyph class="process" orientation="vertical" id="pr_34fd5f83-e574-49fd-a674-18046441822b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1864.0" y="12885.0"/> <port id="pr_34fd5f83-e574-49fd-a674-18046441822b_p1" x="1869.0" y="12905.0"/> <port id="pr_34fd5f83-e574-49fd-a674-18046441822b_p2" x="1869.0" y="12875.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_571b5e57-8bf1-422a-8387-de184e26572c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15071501</p> <p>in COS cells, in HCT116 cells, phosphorylation of SFN and YWHAZ by JNK blocks their interaction with BAX</p> <p>in vitro recombinant MKK7-JNK can directly phosphorylate YWHAZ</p> <p>putative JNK phosphorylation sites conserved in YWHAB, YWHAE, YWHAZ, and SFN, but not in YWHAG, YWHAH nor YWHAQ</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_571b5e57-8bf1-422a-8387-de184e26572c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15071501"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25153.055" y="13820.939"/> <port id="pr_571b5e57-8bf1-422a-8387-de184e26572c_p1" x="25158.055" y="13840.939"/> <port id="pr_571b5e57-8bf1-422a-8387-de184e26572c_p2" x="25158.055" y="13810.939"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f5fc5d70-36de-458d-8087-4e1b21567ad6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The impact of the S284 phosphorylation status on the other reactions (phosphorylations, membrane insertion...) was not assessed.</p> <p>PMID:14766748</p> <p>Akt-dependent phosphorylation of BAX S184 upon GM-CSF</p> <p>in PLB-985 human, peripheral blood, leukemia, acute myeloid</p> <p>in mouse peritoneal neutrophils</p> <p>PMID:15642728</p> <p>Akt directly phosphorylates BAX S184 in response to nicotine</p> <p>in A549 human lung cancer cell line</p> <p>PMID:17525161</p> <p>PRKCZ dependent phosphorylation of Bax at S184</p> <p>in A549 carcinomic human alveolar basal epithelial cells exposed to nicotine</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f5fc5d70-36de-458d-8087-4e1b21567ad6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14766748"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15642728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17525161"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23399.06" y="11754.0"/> <port id="pr_f5fc5d70-36de-458d-8087-4e1b21567ad6_p1" x="23419.06" y="11759.0"/> <port id="pr_f5fc5d70-36de-458d-8087-4e1b21567ad6_p2" x="23389.06" y="11759.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45a0780b-880c-4e06-82b0-c22755fb69ff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18716620</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_45a0780b-880c-4e06-82b0-c22755fb69ff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18716620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13029.436" y="21450.5"/> <port id="pr_45a0780b-880c-4e06-82b0-c22755fb69ff_p1" x="13034.436" y="21440.5"/> <port id="pr_45a0780b-880c-4e06-82b0-c22755fb69ff_p2" x="13034.436" y="21470.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e6f0243a-aa88-41a1-9ecd-f0bd168f3511"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e6f0243a-aa88-41a1-9ecd-f0bd168f3511"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4551.256" y="5882.5"/> <port id="pr_e6f0243a-aa88-41a1-9ecd-f0bd168f3511_p1" x="4556.256" y="5872.5"/> <port id="pr_e6f0243a-aa88-41a1-9ecd-f0bd168f3511_p2" x="4556.256" y="5902.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e2f8ecc0-ba42-4910-8ce6-228261164b49"> <bbox w="10.0" h="10.0" x="711.5862" y="3897.75"/> <port id="pr_e2f8ecc0-ba42-4910-8ce6-228261164b49_p1" x="716.5862" y="3887.75"/> <port id="pr_e2f8ecc0-ba42-4910-8ce6-228261164b49_p2" x="716.5862" y="3917.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba72e3d4-21da-4f75-8035-0212549e2b81"> <bbox w="10.0" h="10.0" x="23075.0" y="6107.5"/> <port id="pr_ba72e3d4-21da-4f75-8035-0212549e2b81_p1" x="23080.0" y="6097.5"/> <port id="pr_ba72e3d4-21da-4f75-8035-0212549e2b81_p2" x="23080.0" y="6127.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6547f9ad-0fb7-4655-b056-cbe69c11fc7c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6102.5" y="14980.5"/> <port id="pr_6547f9ad-0fb7-4655-b056-cbe69c11fc7c_p1" x="6122.5" y="14985.5"/> <port id="pr_6547f9ad-0fb7-4655-b056-cbe69c11fc7c_p2" x="6092.5" y="14985.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5e5b5e27-a562-48b8-98dc-95ade5b6b07c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18974095</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>PMID:9812896</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_72ed3266-7608-47c8-9d4b-29e35a1272ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9812896"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7260.0" y="6984.0"/> <port id="pr_72ed3266-7608-47c8-9d4b-29e35a1272ae_p1" x="7250.0" y="6989.0"/> <port id="pr_72ed3266-7608-47c8-9d4b-29e35a1272ae_p2" x="7280.0" y="6989.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f5079d0f-2a19-42d3-a806-5923ca3fe5d3"> <bbox w="10.0" h="10.0" x="29061.0" y="4600.0"/> <port id="pr_f5079d0f-2a19-42d3-a806-5923ca3fe5d3_p1" x="29066.0" y="4590.0"/> <port id="pr_f5079d0f-2a19-42d3-a806-5923ca3fe5d3_p2" x="29066.0" y="4620.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b995e1c4-e45d-4d06-ab29-628e6924796a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b995e1c4-e45d-4d06-ab29-628e6924796a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4855.3926" y="10030.393"/> <port id="pr_b995e1c4-e45d-4d06-ab29-628e6924796a_p1" x="4860.3926" y="10020.393"/> <port id="pr_b995e1c4-e45d-4d06-ab29-628e6924796a_p2" x="4860.3926" y="10050.393"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d25ccad1-e4a8-40f7-a908-1c84eed51d60"> <bbox w="10.0" h="10.0" x="30234.25" y="8163.5"/> <port id="pr_d25ccad1-e4a8-40f7-a908-1c84eed51d60_p1" x="30239.25" y="8183.5"/> <port id="pr_d25ccad1-e4a8-40f7-a908-1c84eed51d60_p2" x="30239.25" y="8153.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_68f17048-9d72-4cfd-bb9e-425c02557222"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18048642</p> <p>in vitro binding, by ER</p> <p>in MCF7</p> <p>PMID:18046414</p> <p>by mTORC1:YY1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_68f17048-9d72-4cfd-bb9e-425c02557222"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18048642"/> 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id="pr_0f9f7b96-e0ed-4175-a922-21a2a439e346_p2" x="19009.06" y="10196.387"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d22a539-db78-48f6-b017-ad988a522f6a"> <bbox w="10.0" h="10.0" x="3140.7927" y="2872.5"/> <port id="pr_1d22a539-db78-48f6-b017-ad988a522f6a_p1" x="3145.7927" y="2862.5"/> <port id="pr_1d22a539-db78-48f6-b017-ad988a522f6a_p2" x="3145.7927" y="2892.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa1df890-4d63-4a83-ab3e-ecaebdfa4570"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24686170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa1df890-4d63-4a83-ab3e-ecaebdfa4570"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3336.0" y="10880.0"/> <port id="pr_aa1df890-4d63-4a83-ab3e-ecaebdfa4570_p1" x="3341.0" y="10870.0"/> <port id="pr_aa1df890-4d63-4a83-ab3e-ecaebdfa4570_p2" x="3341.0" y="10900.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f64f610f-5356-4d24-99a4-fbc1e2b2ec2a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19203586</p> <p>PHLDA3 competes with the PH domain of Akt for binding of membrane lipids, thereby inhibiting Akt translocation to the cellular membrane and activation</p> <p>PMID:15718470</p> <p>TORC2 complex as AKT S473 kinase</p> <p>PMID:17604717</p> <p>PDK1 phosphorylates the activation loop of AKT at T308</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f64f610f-5356-4d24-99a4-fbc1e2b2ec2a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19203586"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15718470"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17604717"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21119.06" y="9454.0"/> <port id="pr_f64f610f-5356-4d24-99a4-fbc1e2b2ec2a_p1" x="21139.06" y="9459.0"/> <port id="pr_f64f610f-5356-4d24-99a4-fbc1e2b2ec2a_p2" x="21109.06" y="9459.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3e5bdbb4-1ba1-49cc-b93a-2a57e854bf13"> <bbox w="10.0" h="10.0" x="9742.5" y="8024.26"/> <port id="pr_3e5bdbb4-1ba1-49cc-b93a-2a57e854bf13_p1" x="9732.5" y="8029.26"/> <port id="pr_3e5bdbb4-1ba1-49cc-b93a-2a57e854bf13_p2" x="9762.5" y="8029.26"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_584962b3-323f-45cc-8aed-1ca627bab3b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1902.6842" y="13025.0"/> <port id="pr_584962b3-323f-45cc-8aed-1ca627bab3b9_p1" x="1907.6842" y="13015.0"/> <port id="pr_584962b3-323f-45cc-8aed-1ca627bab3b9_p2" x="1907.6842" y="13045.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_31756470-f17b-42b2-8655-88b0223dffac"> <bbox w="10.0" h="10.0" x="24438.193" y="15969.005"/> <port id="pr_31756470-f17b-42b2-8655-88b0223dffac_p1" x="24458.193" y="15974.005"/> <port id="pr_31756470-f17b-42b2-8655-88b0223dffac_p2" x="24428.193" y="15974.005"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5b30494b-1e00-498a-868d-faa5e1f35ebb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CBP acetylates beta-catenin</p> <p>PMID:11973335</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b30494b-1e00-498a-868d-faa5e1f35ebb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11973335"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22559.98" y="21230.318"/> <port id="pr_5b30494b-1e00-498a-868d-faa5e1f35ebb_p1" x="22549.98" y="21235.318"/> <port id="pr_5b30494b-1e00-498a-868d-faa5e1f35ebb_p2" x="22579.98" y="21235.318"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b5b33096-4863-4180-a5e5-73e1507f3d48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11433302</p> <p>PMID:11448771</p> <p>PMID:12050670</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b5b33096-4863-4180-a5e5-73e1507f3d48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11433302"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11448771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12050670"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23892.56" y="18229.576"/> <port id="pr_b5b33096-4863-4180-a5e5-73e1507f3d48_p1" x="23882.56" y="18234.576"/> <port id="pr_b5b33096-4863-4180-a5e5-73e1507f3d48_p2" x="23912.56" y="18234.576"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b573229f-cdc0-4e3d-84fa-b76f097624b6"> <bbox w="10.0" h="10.0" x="30524.125" y="2130.1619"/> <port id="pr_b573229f-cdc0-4e3d-84fa-b76f097624b6_p1" x="30544.125" y="2135.1619"/> <port id="pr_b573229f-cdc0-4e3d-84fa-b76f097624b6_p2" x="30514.125" y="2135.1619"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0239ffc2-92b3-4e6b-8a6c-49a58f2ce5dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0239ffc2-92b3-4e6b-8a6c-49a58f2ce5dc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23432.06" y="18813.934"/> <port id="pr_0239ffc2-92b3-4e6b-8a6c-49a58f2ce5dc_p1" x="23437.06" y="18803.934"/> <port id="pr_0239ffc2-92b3-4e6b-8a6c-49a58f2ce5dc_p2" x="23437.06" y="18833.934"/> </glyph> <glyph class="process" orientation="vertical" id="pr_14a876e2-91ec-43f5-b119-b4b155984c5f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24970086</p> <p>Knockdown of NM23-H1 and -H2 (fig. S1, A to E) reduced clathrin-dependent endocytosis of the transferrin (Tf) and epidermal growth factor (EGF) receptors</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_14a876e2-91ec-43f5-b119-b4b155984c5f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24970086"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1190.5662" y="13258.25"/> <port id="pr_14a876e2-91ec-43f5-b119-b4b155984c5f_p1" x="1195.5662" y="13248.25"/> <port id="pr_14a876e2-91ec-43f5-b119-b4b155984c5f_p2" x="1195.5662" y="13278.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_146777a7-b055-452d-9ad4-434ab4dfbc01"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to products</p> <p>PMID:18087291</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_146777a7-b055-452d-9ad4-434ab4dfbc01"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18087291"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18661.63" y="16521.95"/> <port id="pr_146777a7-b055-452d-9ad4-434ab4dfbc01_p1" x="18666.63" y="16541.95"/> <port id="pr_146777a7-b055-452d-9ad4-434ab4dfbc01_p2" x="18666.63" y="16511.95"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e5bf8392-34a4-4a63-be82-3af9835c98dd"> <bbox w="10.0" h="10.0" x="9595.5" y="4311.25"/> <port id="pr_e5bf8392-34a4-4a63-be82-3af9835c98dd_p1" x="9600.5" y="4331.25"/> <port id="pr_e5bf8392-34a4-4a63-be82-3af9835c98dd_p2" x="9600.5" y="4301.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1fbf1eb5-1622-4943-a1d7-934779f81abc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5712.5254" y="13861.5"/> <port id="pr_1fbf1eb5-1622-4943-a1d7-934779f81abc_p1" x="5717.5254" y="13881.5"/> <port id="pr_1fbf1eb5-1622-4943-a1d7-934779f81abc_p2" x="5717.5254" y="13851.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_809d102e-ed88-48e9-86a8-a3030b187a29"> <bbox w="10.0" h="10.0" x="20670.0" y="4760.0"/> <port id="pr_809d102e-ed88-48e9-86a8-a3030b187a29_p1" x="20675.0" y="4750.0"/> <port id="pr_809d102e-ed88-48e9-86a8-a3030b187a29_p2" x="20675.0" y="4780.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fcda3553-9dcf-461d-b534-34984e0543dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2109.25" y="18121.625"/> <port id="pr_fcda3553-9dcf-461d-b534-34984e0543dc_p1" x="2114.25" y="18111.625"/> <port id="pr_fcda3553-9dcf-461d-b534-34984e0543dc_p2" x="2114.25" y="18141.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cf371e2f-7e40-45a8-9298-90128c8a9845"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10764727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cf371e2f-7e40-45a8-9298-90128c8a9845"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10764727"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21339.06" y="9844.0"/> <port id="pr_cf371e2f-7e40-45a8-9298-90128c8a9845_p1" x="21329.06" y="9849.0"/> <port id="pr_cf371e2f-7e40-45a8-9298-90128c8a9845_p2" x="21359.06" y="9849.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f359014b-33b5-4352-aa94-3146347b15c7"> <bbox w="10.0" h="10.0" x="7709.654" y="6894.5"/> <port id="pr_f359014b-33b5-4352-aa94-3146347b15c7_p1" x="7714.654" y="6884.5"/> <port id="pr_f359014b-33b5-4352-aa94-3146347b15c7_p2" x="7714.654" y="6914.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e3723fb7-13fd-4d08-a792-9d76ce43dea2"> <bbox w="10.0" h="10.0" x="3979.2231" y="4932.25"/> <port id="pr_e3723fb7-13fd-4d08-a792-9d76ce43dea2_p1" x="3984.2231" y="4922.25"/> <port id="pr_e3723fb7-13fd-4d08-a792-9d76ce43dea2_p2" x="3984.2231" y="4952.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45e041f3-2f3f-4e32-9281-2afda35c0743"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23883.656" y="10764.0"/> <port id="pr_45e041f3-2f3f-4e32-9281-2afda35c0743_p1" x="23888.656" y="10784.0"/> <port id="pr_45e041f3-2f3f-4e32-9281-2afda35c0743_p2" x="23888.656" y="10754.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e2a16ad9-4084-46d9-b17f-d5325762e7a9"> <bbox w="10.0" h="10.0" x="12685.0" y="4670.0"/> <port id="pr_e2a16ad9-4084-46d9-b17f-d5325762e7a9_p1" x="12690.0" y="4660.0"/> <port id="pr_e2a16ad9-4084-46d9-b17f-d5325762e7a9_p2" x="12690.0" y="4690.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9903648e-4464-4897-b4c7-c27b7a0abaf7"> <bbox w="10.0" h="10.0" x="9894.289" y="1650.9706"/> <port id="pr_9903648e-4464-4897-b4c7-c27b7a0abaf7_p1" x="9899.289" y="1640.9706"/> <port id="pr_9903648e-4464-4897-b4c7-c27b7a0abaf7_p2" x="9899.289" y="1670.9706"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0685289c-fc32-48ea-93e6-85217f5dd38b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CHECKPOINT is p53_dependent_G1S_checkpoint</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="15199.893" y="9372.818"/> <port id="pr_0685289c-fc32-48ea-93e6-85217f5dd38b_p1" x="15189.893" y="9377.818"/> <port id="pr_0685289c-fc32-48ea-93e6-85217f5dd38b_p2" x="15219.893" y="9377.818"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9725c9ec-adba-41ca-bc55-84f24517b693"> <bbox w="10.0" h="10.0" x="26051.863" y="10767.432"/> <port id="pr_9725c9ec-adba-41ca-bc55-84f24517b693_p1" x="26041.863" y="10772.432"/> <port id="pr_9725c9ec-adba-41ca-bc55-84f24517b693_p2" x="26071.863" y="10772.432"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f1d198c0-71f4-4fe3-bf08-4ecf9e3a2925"> <bbox w="10.0" h="10.0" x="20676.56" y="21593.979"/> <port id="pr_f1d198c0-71f4-4fe3-bf08-4ecf9e3a2925_p1" x="20666.56" y="21598.979"/> <port id="pr_f1d198c0-71f4-4fe3-bf08-4ecf9e3a2925_p2" x="20696.56" y="21598.979"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df8a9233-73f4-425c-8d29-85715ef82f12"> <bbox w="10.0" h="10.0" x="28246.79" y="9074.0"/> <port id="pr_df8a9233-73f4-425c-8d29-85715ef82f12_p1" x="28236.79" y="9079.0"/> <port id="pr_df8a9233-73f4-425c-8d29-85715ef82f12_p2" x="28266.79" y="9079.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bbd01a31-2f3b-430f-b5e4-317bfe296707"> <bbox w="10.0" h="10.0" x="7245.0" y="2095.0"/> <port id="pr_bbd01a31-2f3b-430f-b5e4-317bfe296707_p1" x="7250.0" y="2115.0"/> <port id="pr_bbd01a31-2f3b-430f-b5e4-317bfe296707_p2" x="7250.0" y="2085.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_010daa43-14f4-4ca7-a819-72e5c8a0aee1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_010daa43-14f4-4ca7-a819-72e5c8a0aee1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19447.812" y="16173.25"/> <port id="pr_010daa43-14f4-4ca7-a819-72e5c8a0aee1_p1" x="19452.812" y="16193.25"/> <port id="pr_010daa43-14f4-4ca7-a819-72e5c8a0aee1_p2" x="19452.812" y="16163.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c1fa70d-088b-40e7-b7a8-3bac1b0ca4d4"> <bbox w="10.0" h="10.0" x="11394.526" y="15748.777"/> <port id="pr_9c1fa70d-088b-40e7-b7a8-3bac1b0ca4d4_p1" x="11414.526" y="15753.777"/> <port id="pr_9c1fa70d-088b-40e7-b7a8-3bac1b0ca4d4_p2" x="11384.526" y="15753.777"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b3bfc9ec-ca0d-4632-9624-99bdd33dddb5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b3bfc9ec-ca0d-4632-9624-99bdd33dddb5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.311" y="20785.0"/> <port id="pr_b3bfc9ec-ca0d-4632-9624-99bdd33dddb5_p1" x="12677.311" y="20790.0"/> <port id="pr_b3bfc9ec-ca0d-4632-9624-99bdd33dddb5_p2" x="12707.311" y="20790.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e4ddeae5-7476-4ff7-b48a-c68362ddf43e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15471980</p> <p>PMID:17498653</p> <p>The phosphorylation of caveolin-1 served to recruit C-terminal Src-like kinase (Csk) to the integrin/caveolin-1 complex.</p> <p>This recruitment results in additional regulation of SFK activity and induction of myosin light chain (MLC) phosphorylation. </p> <p>Key components of this pathway were recruited to caveolar microdomains and dependent on the presence of the caveolin-1 protein.</p> <p>PMID:21051664</p> <p>p190RhoGAP links integrins and caveolin-1 (and thus caveolae) to RhoA in a mechanotransduction cascade</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e4ddeae5-7476-4ff7-b48a-c68362ddf43e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15471980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17498653"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21051664"/> </rdf:Bag> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2be978ec-a57e-47a1-bef7-ef82c06c001b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17327415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16782.611" y="17027.156"/> <port id="pr_2be978ec-a57e-47a1-bef7-ef82c06c001b_p1" x="16772.611" y="17032.156"/> <port id="pr_2be978ec-a57e-47a1-bef7-ef82c06c001b_p2" x="16802.611" y="17032.156"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5dcd4c3e-99d9-4207-8c54-95da8ee146dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2271.3691" y="17025.5"/> <port id="pr_5dcd4c3e-99d9-4207-8c54-95da8ee146dc_p1" x="2261.3691" y="17030.5"/> <port id="pr_5dcd4c3e-99d9-4207-8c54-95da8ee146dc_p2" x="2291.3691" y="17030.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b00c283b-8fee-4715-b94c-eea56cdf252f"> <bbox w="10.0" h="10.0" x="15177.5" y="1430.0"/> <port id="pr_b00c283b-8fee-4715-b94c-eea56cdf252f_p1" x="15182.5" y="1420.0"/> <port id="pr_b00c283b-8fee-4715-b94c-eea56cdf252f_p2" x="15182.5" y="1450.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef7c7985-24b9-4265-962d-a81d1a3404cf"> <bbox w="10.0" h="10.0" x="18248.56" y="19430.0"/> <port id="pr_ef7c7985-24b9-4265-962d-a81d1a3404cf_p1" x="18238.56" y="19435.0"/> <port id="pr_ef7c7985-24b9-4265-962d-a81d1a3404cf_p2" x="18268.56" y="19435.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b7d8a7a5-f727-479e-9aff-21ba376ff889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23046.688" y="9365.124"/> <port id="pr_b7d8a7a5-f727-479e-9aff-21ba376ff889_p1" x="23051.688" y="9355.124"/> <port id="pr_b7d8a7a5-f727-479e-9aff-21ba376ff889_p2" x="23051.688" y="9385.124"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6361f20d-8c86-4c52-8db0-f60d05e8ef33"> <bbox w="10.0" h="10.0" x="15840.5" y="6208.6836"/> <port id="pr_6361f20d-8c86-4c52-8db0-f60d05e8ef33_p1" x="15860.5" y="6213.6836"/> <port id="pr_6361f20d-8c86-4c52-8db0-f60d05e8ef33_p2" x="15830.5" y="6213.6836"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7afd7dfe-8677-4a3c-81b7-205e4399de94"> <bbox w="10.0" h="10.0" x="28504.06" y="10184.0"/> <port id="pr_7afd7dfe-8677-4a3c-81b7-205e4399de94_p1" x="28494.06" y="10189.0"/> <port id="pr_7afd7dfe-8677-4a3c-81b7-205e4399de94_p2" x="28524.06" y="10189.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e10c4bd5-5247-4ee1-b5a4-71e2408388d9"> <bbox w="10.0" h="10.0" x="16845.0" y="940.0"/> <port id="pr_e10c4bd5-5247-4ee1-b5a4-71e2408388d9_p1" x="16850.0" y="930.0"/> <port id="pr_e10c4bd5-5247-4ee1-b5a4-71e2408388d9_p2" x="16850.0" y="960.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_3ede2ae5-20a7-4cea-a953-17b00f95ae40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5674.494" y="14736.468"/> <port id="pr_3ede2ae5-20a7-4cea-a953-17b00f95ae40_p1" x="5694.494" y="14741.468"/> <port id="pr_3ede2ae5-20a7-4cea-a953-17b00f95ae40_p2" x="5664.494" y="14741.468"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_055e9d14-b782-4cbc-9c85-4bcd8aacf597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_055e9d14-b782-4cbc-9c85-4bcd8aacf597"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6158.5" y="14774.0"/> <port id="pr_055e9d14-b782-4cbc-9c85-4bcd8aacf597_p1" x="6148.5" y="14779.0"/> <port id="pr_055e9d14-b782-4cbc-9c85-4bcd8aacf597_p2" x="6178.5" y="14779.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_be199b60-c10a-4563-be99-fac897bfc6c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5678.6714" y="13861.5"/> <port 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<head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_06776488-ac23-4a87-968a-4c4ec003819c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10826997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1213.0" y="15446.309"/> <port id="pr_d45e9215-b4e5-4e67-858d-a7fe8f750e1e_p1" x="1233.0" y="15451.309"/> <port id="pr_d45e9215-b4e5-4e67-858d-a7fe8f750e1e_p2" x="1203.0" y="15451.309"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c3cd2948-9629-40a3-b0a9-9b4e23f8513c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18455992</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="10416.516"/> <port id="pr_d44f2609-593f-4f20-8197-518534a3ae0e_p2" x="12280.961" y="10446.516"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_dc31344e-c5c9-4958-9d25-e3232d4d2717"> <bbox w="10.0" h="10.0" x="16700.06" y="18122.0"/> <port id="pr_dc31344e-c5c9-4958-9d25-e3232d4d2717_p1" x="16705.06" y="18112.0"/> <port id="pr_dc31344e-c5c9-4958-9d25-e3232d4d2717_p2" x="16705.06" y="18142.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_19688c52-0ec3-418e-98db-8419ecab5f3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1247.332" y="15363.0"/> <port id="pr_19688c52-0ec3-418e-98db-8419ecab5f3a_p1" x="1252.332" y="15383.0"/> <port id="pr_19688c52-0ec3-418e-98db-8419ecab5f3a_p2" x="1252.332" y="15353.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b8cfc1bd-30b7-4aae-9b0d-8ffef42ef3ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> <p>PMID:21478859</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b8cfc1bd-30b7-4aae-9b0d-8ffef42ef3ca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21478859"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24888.56" y="18689.0"/> <port id="pr_b8cfc1bd-30b7-4aae-9b0d-8ffef42ef3ca_p1" x="24878.56" y="18694.0"/> <port id="pr_b8cfc1bd-30b7-4aae-9b0d-8ffef42ef3ca_p2" x="24908.56" y="18694.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c5535ef9-cd29-4ce5-8080-2be88ac6dd84"> <bbox w="10.0" h="10.0" x="3522.892" y="22244.11"/> <port id="pr_c5535ef9-cd29-4ce5-8080-2be88ac6dd84_p1" x="3542.892" y="22249.11"/> <port id="pr_c5535ef9-cd29-4ce5-8080-2be88ac6dd84_p2" x="3512.892" y="22249.11"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e700571b-d019-45ea-bbce-02960fc7739a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1156.0" y="18057.5"/> <port id="pr_e700571b-d019-45ea-bbce-02960fc7739a_p1" x="1161.0" y="18047.5"/> <port id="pr_e700571b-d019-45ea-bbce-02960fc7739a_p2" x="1161.0" y="18077.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0ad2d2c0-4180-4953-9db2-4915c610f074"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P300 acetylates beta-catenin</p> <p>PMID:15060161</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2098.0322" y="17069.25"/> <port id="pr_7efc8524-d674-46da-a5bb-d2798da512df_p1" x="2103.0322" y="17059.25"/> <port id="pr_7efc8524-d674-46da-a5bb-d2798da512df_p2" x="2103.0322" y="17089.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5dd496ea-6268-4f1b-a952-a56fbf09b877"> <bbox w="10.0" h="10.0" x="15881.659" y="18420.0"/> <port id="pr_5dd496ea-6268-4f1b-a952-a56fbf09b877_p1" x="15871.659" y="18425.0"/> <port id="pr_5dd496ea-6268-4f1b-a952-a56fbf09b877_p2" x="15901.659" y="18425.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a4d2d036-316d-4dbe-9c25-47e2f0948034"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20370576</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a4d2d036-316d-4dbe-9c25-47e2f0948034"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20370576"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23724.504" y="18206.0"/> <port id="pr_a4d2d036-316d-4dbe-9c25-47e2f0948034_p1" x="23729.504" y="18196.0"/> <port id="pr_a4d2d036-316d-4dbe-9c25-47e2f0948034_p2" x="23729.504" y="18226.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_03cb81d1-623d-4359-b61d-f560cb9a4afc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19574223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03cb81d1-623d-4359-b61d-f560cb9a4afc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12802.954" y="21780.25"/> <port id="pr_03cb81d1-623d-4359-b61d-f560cb9a4afc_p1" x="12807.954" y="21770.25"/> <port id="pr_03cb81d1-623d-4359-b61d-f560cb9a4afc_p2" x="12807.954" y="21800.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16b16bc1-36ce-4e03-b793-0a5ed82f4d07"> <bbox w="10.0" h="10.0" x="25311.0" y="2580.0"/> <port id="pr_16b16bc1-36ce-4e03-b793-0a5ed82f4d07_p1" x="25316.0" y="2570.0"/> <port id="pr_16b16bc1-36ce-4e03-b793-0a5ed82f4d07_p2" x="25316.0" y="2600.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b95eb126-8219-49ae-8283-82ed43f59535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11463845 PMID:11756412</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b95eb126-8219-49ae-8283-82ed43f59535"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756412"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13762.811" y="21266.0"/> <port id="pr_b95eb126-8219-49ae-8283-82ed43f59535_p1" x="13767.811" y="21286.0"/> <port id="pr_b95eb126-8219-49ae-8283-82ed43f59535_p2" x="13767.811" y="21256.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_05f339d7-2670-4ad1-b5ac-ab1dc287a83f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2708.75" y="16297.5"/> <port id="pr_05f339d7-2670-4ad1-b5ac-ab1dc287a83f_p1" x="2728.75" y="16302.5"/> <port id="pr_05f339d7-2670-4ad1-b5ac-ab1dc287a83f_p2" x="2698.75" y="16302.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50db2ac9-e6d5-4c3b-9d4a-302f5674ba28"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_50db2ac9-e6d5-4c3b-9d4a-302f5674ba28"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14207.334" y="20721.375"/> <port id="pr_50db2ac9-e6d5-4c3b-9d4a-302f5674ba28_p1" x="14212.334" y="20711.375"/> <port id="pr_50db2ac9-e6d5-4c3b-9d4a-302f5674ba28_p2" x="14212.334" y="20741.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_88f22532-ad5f-406e-99e1-db67fcbc77aa"> <bbox w="10.0" h="10.0" x="1268.25" y="4281.107"/> <port id="pr_88f22532-ad5f-406e-99e1-db67fcbc77aa_p1" x="1288.25" y="4286.107"/> <port id="pr_88f22532-ad5f-406e-99e1-db67fcbc77aa_p2" x="1258.25" y="4286.107"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6bcf84df-9d53-4dfc-a942-e5a4783e46f5"> <bbox w="10.0" h="10.0" x="8909.926" y="15678.336"/> <port id="pr_6bcf84df-9d53-4dfc-a942-e5a4783e46f5_p1" x="8914.926" y="15698.336"/> <port id="pr_6bcf84df-9d53-4dfc-a942-e5a4783e46f5_p2" x="8914.926" y="15668.336"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_77d09391-4056-4d0e-8623-30a6c8fe167a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2986.0" y="14305.0"/> <port id="pr_77d09391-4056-4d0e-8623-30a6c8fe167a_p1" x="3006.0" y="14310.0"/> <port id="pr_77d09391-4056-4d0e-8623-30a6c8fe167a_p2" x="2976.0" y="14310.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f73e6c7-7daa-4b24-86c9-ec0f1c562d47"> <bbox w="10.0" h="10.0" x="2915.4312" y="3223.75"/> <port id="pr_6f73e6c7-7daa-4b24-86c9-ec0f1c562d47_p1" x="2920.4312" y="3243.75"/> <port id="pr_6f73e6c7-7daa-4b24-86c9-ec0f1c562d47_p2" x="2920.4312" y="3213.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e071259d-085a-4489-9b93-42401548c138"> <bbox w="10.0" h="10.0" x="23193.121" y="15948.25"/> <port id="pr_e071259d-085a-4489-9b93-42401548c138_p1" x="23198.121" y="15968.25"/> <port id="pr_e071259d-085a-4489-9b93-42401548c138_p2" x="23198.121" y="15938.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c01692a8-70b4-4b68-b192-175b23e52dbc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19622774</p> <p>BIM interacts with NDRG1 and with CISH and CUL2 in a NDRG1 dependent manner</p> <p>NDRG1 expression destabilizes BIM</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c01692a8-70b4-4b68-b192-175b23e52dbc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622774"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22273.834" y="12196.635"/> <port id="pr_c01692a8-70b4-4b68-b192-175b23e52dbc_p1" x="22278.834" y="12216.635"/> <port id="pr_c01692a8-70b4-4b68-b192-175b23e52dbc_p2" x="22278.834" y="12186.635"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_2788822c-8bd7-4ce0-9673-7aa9b2e22907"> <bbox w="20.0" h="20.0" x="22126.584" y="12181.559"/> <port id="logicglyph_2788822c-8bd7-4ce0-9673-7aa9b2e22907_p1" x="22116.584" y="12191.559"/> <port id="logicglyph_2788822c-8bd7-4ce0-9673-7aa9b2e22907_p2" x="22156.584" y="12191.559"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0c106c00-af52-4547-aa75-f177846fc174"> <bbox w="10.0" h="10.0" x="11416.973" y="10140.106"/> <port id="pr_0c106c00-af52-4547-aa75-f177846fc174_p1" x="11436.973" y="10145.106"/> <port id="pr_0c106c00-af52-4547-aa75-f177846fc174_p2" x="11406.973" y="10145.106"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a3ea62cb-8239-46bf-bc13-232ca942f656"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12687019</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a3ea62cb-8239-46bf-bc13-232ca942f656"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12687019"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25189.441" y="16164.898"/> <port id="pr_a3ea62cb-8239-46bf-bc13-232ca942f656_p1" x="25179.441" y="16169.898"/> <port id="pr_a3ea62cb-8239-46bf-bc13-232ca942f656_p2" x="25209.441" y="16169.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5d42032-1aec-433d-9a4c-ff30fbb20f6a"> <bbox w="10.0" h="10.0" x="9883.723" y="7351.25"/> <port id="pr_d5d42032-1aec-433d-9a4c-ff30fbb20f6a_p1" x="9888.723" y="7341.25"/> <port id="pr_d5d42032-1aec-433d-9a4c-ff30fbb20f6a_p2" x="9888.723" y="7371.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_a4242888-0e05-4d40-aaac-8a406e7c550f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="8531.006" y="15393.4"/> <port id="pr_a4242888-0e05-4d40-aaac-8a406e7c550f_p1" x="8536.006" y="15383.4"/> <port id="pr_a4242888-0e05-4d40-aaac-8a406e7c550f_p2" x="8536.006" y="15413.4"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bda228c2-1bb4-4cd9-8994-ee643cab7d67"> <bbox w="10.0" h="10.0" x="27404.06" y="9219.0"/> <port id="pr_bda228c2-1bb4-4cd9-8994-ee643cab7d67_p1" x="27409.06" y="9239.0"/> <port id="pr_bda228c2-1bb4-4cd9-8994-ee643cab7d67_p2" x="27409.06" y="9209.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7430a49f-f6f2-4e2c-96e4-82bcebe22e83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For inactivation of EXO1 by 53BP1-mediated phosphorylation:</p> <p>PMID:18756267, PMID:15867354</p> <p>ATM and ATR phosphorylate EXO1 and lead to EXO1 ubiquitination and degradation: </p> <p>PMID:18048416, PMID:11438669, PMID:20019063</p> </body> </html> </notes> 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x="9747.348" y="16677.285"/> <port id="pr_b5da8381-9ee0-4fc6-8fd5-b1571a818a24_p2" x="9717.348" y="16677.285"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5ab9c9e-2b45-4cc9-b68b-bfc48b85cf9f"> <bbox w="10.0" h="10.0" x="9082.311" y="18348.5"/> <port id="pr_d5ab9c9e-2b45-4cc9-b68b-bfc48b85cf9f_p1" x="9087.311" y="18338.5"/> <port id="pr_d5ab9c9e-2b45-4cc9-b68b-bfc48b85cf9f_p2" x="9087.311" y="18368.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_d4e927df-357b-48fa-a605-a0687c01d33a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1730.1624" y="16544.0"/> <port id="pr_d4e927df-357b-48fa-a605-a0687c01d33a_p1" x="1735.1624" y="16564.0"/> <port id="pr_d4e927df-357b-48fa-a605-a0687c01d33a_p2" x="1735.1624" y="16534.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_952bcccd-1221-4f2a-aa79-3aebf68e8209"> <bbox w="10.0" h="10.0" x="27875.02" y="7593.75"/> <port id="pr_952bcccd-1221-4f2a-aa79-3aebf68e8209_p1" x="27880.02" y="7583.75"/> <port id="pr_952bcccd-1221-4f2a-aa79-3aebf68e8209_p2" x="27880.02" y="7613.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50381887-b473-4468-993b-dedf372cdea6"> <bbox w="10.0" h="10.0" x="27154.06" y="15019.25"/> <port id="pr_50381887-b473-4468-993b-dedf372cdea6_p1" x="27159.06" y="15009.25"/> <port id="pr_50381887-b473-4468-993b-dedf372cdea6_p2" x="27159.06" y="15039.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_403fadb2-9eba-44e6-ae39-d1eec0757db8"> <bbox w="10.0" h="10.0" x="29161.0" y="5270.0"/> <port id="pr_403fadb2-9eba-44e6-ae39-d1eec0757db8_p1" x="29166.0" y="5260.0"/> <port id="pr_403fadb2-9eba-44e6-ae39-d1eec0757db8_p2" x="29166.0" y="5290.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_27993ff9-2541-4f2d-a2af-779cf9522db6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> <p>PMID:15755954</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_27993ff9-2541-4f2d-a2af-779cf9522db6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19864431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12150925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15755954"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14175.186" y="19327.5"/> <port id="pr_27993ff9-2541-4f2d-a2af-779cf9522db6_p1" x="14180.186" y="19317.5"/> <port id="pr_27993ff9-2541-4f2d-a2af-779cf9522db6_p2" x="14180.186" y="19347.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2dba86c5-a773-4667-b168-2356b46ec4b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP contains an integrin-binding site called RBD</p> <p>Several RBD-binding integrins are able to activate latnet TGFB complex through binding this site.</p> <p>PMID:21909923</p> <p>The previously mentionned integrins are: a8b1, aVb1, aVb5, aVb6, aVb8.</p> <p>In the complex Ingergin-large latent TGFB complex, I picked aVb6 as example. But a8b1, aVb1, aVb5, and aVb8 can active TGFB with the same mechanism.</p> <p>MMP13 activates TGFB by cleavage of LAP</p> <p>Plasmin activates TGFB by cleavage of LAP</p> <p>MMP9 activates TGFB by cleavage of LAP</p> <p>Integrin aVb6 activates the ECM-bound latent TGFB1 and TGFB3 by traction, without participation of MMPs, so no hydrolyse or clevage</p> <p>Integrin aVb8 and MMP14 (so-called MT1-MMP) cooperate to activate the ECM-bound latent TGFB1 and TGFB3: </p> <p>-Integrin aVb8 binds LAP from the large latent complex</p> <p>-MMP14 then is recruited to cleave LAP</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2dba86c5-a773-4667-b168-2356b46ec4b3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1713.0122" y="19038.383"/> <port id="pr_2dba86c5-a773-4667-b168-2356b46ec4b3_p1" x="1718.0122" y="19028.383"/> <port id="pr_2dba86c5-a773-4667-b168-2356b46ec4b3_p2" x="1718.0122" y="19058.383"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2802e6fa-38f9-42a0-bf51-b66d7402f71f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11980723 PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2802e6fa-38f9-42a0-bf51-b66d7402f71f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11980723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12235.615" y="21843.0"/> <port id="pr_2802e6fa-38f9-42a0-bf51-b66d7402f71f_p1" x="12240.615" y="21833.0"/> <port id="pr_2802e6fa-38f9-42a0-bf51-b66d7402f71f_p2" x="12240.615" y="21863.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7ddb181d-a9f0-4580-85bc-61b82fa59697"> <bbox w="10.0" h="10.0" x="18710.0" y="4755.0"/> <port id="pr_7ddb181d-a9f0-4580-85bc-61b82fa59697_p1" x="18715.0" y="4745.0"/> <port id="pr_7ddb181d-a9f0-4580-85bc-61b82fa59697_p2" x="18715.0" y="4775.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea05ef50-861a-4f41-90e4-9048f7ce8264"> <bbox w="10.0" h="10.0" x="17880.06" y="20467.0"/> <port id="pr_ea05ef50-861a-4f41-90e4-9048f7ce8264_p1" x="17870.06" y="20472.0"/> <port id="pr_ea05ef50-861a-4f41-90e4-9048f7ce8264_p2" x="17900.06" y="20472.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a27ca91d-034d-4bd4-8e22-e1ca699fede1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21303971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a27ca91d-034d-4bd4-8e22-e1ca699fede1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21303971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15730.061" y="18135.5"/> <port id="pr_a27ca91d-034d-4bd4-8e22-e1ca699fede1_p1" x="15735.061" y="18125.5"/> <port id="pr_a27ca91d-034d-4bd4-8e22-e1ca699fede1_p2" x="15735.061" y="18155.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8fe5c721-e728-4555-8af9-3f98b35c16f1"> <bbox w="10.0" h="10.0" x="10726.25" y="3388.75"/> <port id="pr_8fe5c721-e728-4555-8af9-3f98b35c16f1_p1" x="10731.25" y="3408.75"/> <port id="pr_8fe5c721-e728-4555-8af9-3f98b35c16f1_p2" x="10731.25" y="3378.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4008437e-9043-4abc-9f3d-a18885677a7f"> <bbox w="10.0" h="10.0" x="11032.809" y="15519.025"/> <port id="pr_4008437e-9043-4abc-9f3d-a18885677a7f_p1" x="11022.809" y="15524.025"/> <port id="pr_4008437e-9043-4abc-9f3d-a18885677a7f_p2" x="11052.809" y="15524.025"/> </glyph> <glyph class="process" orientation="vertical" id="pr_98503e52-9560-42ff-a0b4-2fce0356c6a3"> <bbox w="10.0" h="10.0" x="18956.0" y="3345.0"/> <port id="pr_98503e52-9560-42ff-a0b4-2fce0356c6a3_p1" x="18961.0" y="3335.0"/> <port id="pr_98503e52-9560-42ff-a0b4-2fce0356c6a3_p2" x="18961.0" y="3365.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_263b21c7-b501-4e44-835e-3ed2052d2fa8"> <bbox w="10.0" h="10.0" x="12969.311" y="20295.5"/> <port id="pr_263b21c7-b501-4e44-835e-3ed2052d2fa8_p1" x="12974.311" y="20285.5"/> <port id="pr_263b21c7-b501-4e44-835e-3ed2052d2fa8_p2" x="12974.311" y="20315.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_62630f8a-bd73-4f6f-abc1-f44cf7fc5711"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>This transport is enhanced upon phosphorylation however it is not necessary for import of APC into nucleus</p> <p>PMID:11689703 PMID:15649893 PMID:11050185 PMID:12223464</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_62630f8a-bd73-4f6f-abc1-f44cf7fc5711"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15649893"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11050185"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12223464"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20811.06" y="21324.5"/> <port id="pr_62630f8a-bd73-4f6f-abc1-f44cf7fc5711_p1" x="20801.06" y="21329.5"/> <port id="pr_62630f8a-bd73-4f6f-abc1-f44cf7fc5711_p2" x="20831.06" y="21329.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8241b8e8-38da-4dd7-b8dc-7f10e5d9cbeb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21376743</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8241b8e8-38da-4dd7-b8dc-7f10e5d9cbeb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21376743"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13516.159" y="16374.895"/> <port id="pr_8241b8e8-38da-4dd7-b8dc-7f10e5d9cbeb_p1" x="13506.159" y="16379.895"/> <port id="pr_8241b8e8-38da-4dd7-b8dc-7f10e5d9cbeb_p2" x="13536.159" y="16379.895"/> </glyph> <glyph class="process" orientation="vertical" id="pr_40cafa12-fca4-478d-957f-8a731b30dd0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_40cafa12-fca4-478d-957f-8a731b30dd0d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27538.39" y="21205.73"/> <port id="pr_40cafa12-fca4-478d-957f-8a731b30dd0d_p1" x="27543.39" y="21195.73"/> <port id="pr_40cafa12-fca4-478d-957f-8a731b30dd0d_p2" x="27543.39" y="21225.73"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf86f82a-7ddb-44fe-bbe5-0dab416d6574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11708773</p> <p>PMID:15252039</p> <p>ID2 is target of HIF1 upon hypoxic conditions</p> <p>PMID:17615296</p> <p>TGFB induces ETS1 transcriptional expression.</p> <p>TGFB represses ID2 and ID3 transcriptional expression (PMID:15121845 and PMID:15181457)</p> <p>ID2 may regulate the function of Ets1 to modulate the transcription of ZEB1 and ZEB2 without alteration of the transcription of Ets1.</p> <p>Ets1 may act as an inducer of ZEB1 in collaboration with E47 (TCF3)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bf86f82a-7ddb-44fe-bbe5-0dab416d6574"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11708773"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15252039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17615296"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="(urn:miriam:pubmed:15121845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15181457)"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4544.5" y="16840.5"/> <port id="pr_bf86f82a-7ddb-44fe-bbe5-0dab416d6574_p1" x="4534.5" y="16845.5"/> <port id="pr_bf86f82a-7ddb-44fe-bbe5-0dab416d6574_p2" x="4564.5" y="16845.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6275107c-c6ba-4217-947d-e04074376b4c"> <bbox w="10.0" h="10.0" x="7203.25" y="6618.75"/> <port id="pr_6275107c-c6ba-4217-947d-e04074376b4c_p1" x="7208.25" y="6638.75"/> <port id="pr_6275107c-c6ba-4217-947d-e04074376b4c_p2" x="7208.25" y="6608.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_53d4b8f2-efb7-4360-a879-d283353758be"> <bbox w="10.0" h="10.0" x="21147.73" y="17917.5"/> <port id="pr_53d4b8f2-efb7-4360-a879-d283353758be_p1" x="21152.73" y="17907.5"/> <port id="pr_53d4b8f2-efb7-4360-a879-d283353758be_p2" x="21152.73" y="17937.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1be578f3-d1f5-4b84-8a56-995d55390f0d"> <bbox w="10.0" h="10.0" x="27054.06" y="14289.0"/> <port id="pr_1be578f3-d1f5-4b84-8a56-995d55390f0d_p1" x="27059.06" y="14279.0"/> <port id="pr_1be578f3-d1f5-4b84-8a56-995d55390f0d_p2" x="27059.06" y="14309.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a134dc45-9eef-435b-8d79-9426654e6b9f"> <bbox w="10.0" h="10.0" x="11990.789" y="10309.377"/> <port id="pr_a134dc45-9eef-435b-8d79-9426654e6b9f_p1" x="11995.789" y="10299.377"/> <port id="pr_a134dc45-9eef-435b-8d79-9426654e6b9f_p2" x="11995.789" y="10329.377"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3fb626e3-3c0c-499d-b079-e6354f644b2f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20111001</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3fb626e3-3c0c-499d-b079-e6354f644b2f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20111001"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25584.936" y="15156.875"/> <port id="pr_3fb626e3-3c0c-499d-b079-e6354f644b2f_p1" x="25574.936" y="15161.875"/> <port id="pr_3fb626e3-3c0c-499d-b079-e6354f644b2f_p2" x="25604.936" y="15161.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_62ec975a-57d8-406f-a06e-3773298af787"> <bbox w="10.0" h="10.0" x="9705.0" y="3585.0"/> <port id="pr_62ec975a-57d8-406f-a06e-3773298af787_p1" x="9710.0" y="3605.0"/> <port id="pr_62ec975a-57d8-406f-a06e-3773298af787_p2" x="9710.0" y="3575.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b244cbd-b8a1-47d9-abec-13bd17f1f7db"> <bbox w="10.0" h="10.0" x="12068.352" y="15651.612"/> <port id="pr_8b244cbd-b8a1-47d9-abec-13bd17f1f7db_p1" x="12073.352" y="15641.612"/> <port id="pr_8b244cbd-b8a1-47d9-abec-13bd17f1f7db_p2" x="12073.352" y="15671.612"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3fdc78f1-8ee8-4b4e-92db-e825f96652d2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17987801</p> <p>Expression of Twist positively correlated with up-regulation of VEGF and N-cadherin in hepatocellular carcinoma</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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x="6535.0" y="2910.0"/> <port id="pr_ec8fa17f-b8f8-4750-b195-7a16cd2c448d_p1" x="6540.0" y="2930.0"/> <port id="pr_ec8fa17f-b8f8-4750-b195-7a16cd2c448d_p2" x="6540.0" y="2900.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f76ba1d8-8f7a-41a8-b399-9d277ac19af6"> <bbox w="10.0" h="10.0" x="25856.56" y="9164.0"/> <port id="pr_f76ba1d8-8f7a-41a8-b399-9d277ac19af6_p1" x="25846.56" y="9169.0"/> <port id="pr_f76ba1d8-8f7a-41a8-b399-9d277ac19af6_p2" x="25876.56" y="9169.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bdfeea00-4223-4024-be94-89966b036199"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21738214</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bdfeea00-4223-4024-be94-89966b036199"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21738214"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17614.06" y="18852.0"/> <port id="pr_bdfeea00-4223-4024-be94-89966b036199_p1" x="17634.06" y="18857.0"/> <port id="pr_bdfeea00-4223-4024-be94-89966b036199_p2" x="17604.06" y="18857.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e7032425-9ed7-4ada-8c01-ae6e9514f0c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CREB target genes (c-FOS EGR-1 MKP1 BCL2 MMP13).</p> <p>PMID:19815709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e7032425-9ed7-4ada-8c01-ae6e9514f0c2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19815709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7961.597" y="20732.637"/> <port id="pr_e7032425-9ed7-4ada-8c01-ae6e9514f0c2_p1" x="7966.597" y="20722.637"/> <port id="pr_e7032425-9ed7-4ada-8c01-ae6e9514f0c2_p2" x="7966.597" y="20752.637"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eb561109-1e7a-4916-8059-dea7b1ceb46b"> <bbox w="10.0" h="10.0" x="5750.625" y="1077.0"/> <port id="pr_eb561109-1e7a-4916-8059-dea7b1ceb46b_p1" x="5755.625" y="1067.0"/> <port id="pr_eb561109-1e7a-4916-8059-dea7b1ceb46b_p2" x="5755.625" y="1097.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_68e87ca5-a1bf-43a2-ae4b-43fbec315877"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19228.348" y="12969.823"/> <port id="pr_68e87ca5-a1bf-43a2-ae4b-43fbec315877_p1" x="19233.348" y="12989.823"/> <port id="pr_68e87ca5-a1bf-43a2-ae4b-43fbec315877_p2" x="19233.348" y="12959.823"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b2aebd6d-feb1-41eb-9ded-f92a469e37be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29556339</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b2aebd6d-feb1-41eb-9ded-f92a469e37be"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29556339"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3923.0625" y="11168.75"/> <port id="pr_b2aebd6d-feb1-41eb-9ded-f92a469e37be_p1" x="3928.0625" y="11158.75"/> <port id="pr_b2aebd6d-feb1-41eb-9ded-f92a469e37be_p2" x="3928.0625" y="11188.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_91088ab3-a053-41b3-a609-2726673b3275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21725609</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_91088ab3-a053-41b3-a609-2726673b3275"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21725609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2401.778" y="10340.6875"/> <port id="pr_91088ab3-a053-41b3-a609-2726673b3275_p1" x="2421.778" y="10345.6875"/> <port id="pr_91088ab3-a053-41b3-a609-2726673b3275_p2" x="2391.778" y="10345.6875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fbdf49bd-934a-4cbb-b992-438fdf0ce212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The internalised GPCR receptor will finally be recycled into the cell membrane or be sent to lysosome for degradation (not modelled).</p> <p>PMID:19565474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fbdf49bd-934a-4cbb-b992-438fdf0ce212"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19565474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9622.078" y="19713.314"/> <port id="pr_fbdf49bd-934a-4cbb-b992-438fdf0ce212_p1" x="9642.078" y="19718.314"/> <port id="pr_fbdf49bd-934a-4cbb-b992-438fdf0ce212_p2" x="9612.078" y="19718.314"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb9b52f8-6f2f-437c-929c-ee5573c5e9c3"> <bbox w="10.0" h="10.0" x="24316.56" y="16721.5"/> <port id="pr_cb9b52f8-6f2f-437c-929c-ee5573c5e9c3_p1" x="24321.56" y="16711.5"/> <port id="pr_cb9b52f8-6f2f-437c-929c-ee5573c5e9c3_p2" x="24321.56" y="16741.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3059615-72a4-42a9-9c29-bc4a1de9e2c6"> <bbox w="10.0" h="10.0" x="4658.084" y="3625.0"/> <port id="pr_d3059615-72a4-42a9-9c29-bc4a1de9e2c6_p1" x="4678.084" y="3630.0"/> <port id="pr_d3059615-72a4-42a9-9c29-bc4a1de9e2c6_p2" x="4648.084" y="3630.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb1b93b6-1fa9-468d-ac67-12385d6a5807"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>9-1-1 complex stimulates MUTH and BER pathway:</p> <p>PMID:16879101</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb1b93b6-1fa9-468d-ac67-12385d6a5807"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16879101"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9619.252" y="16038.355"/> <port id="pr_eb1b93b6-1fa9-468d-ac67-12385d6a5807_p1" x="9639.252" y="16043.355"/> <port id="pr_eb1b93b6-1fa9-468d-ac67-12385d6a5807_p2" x="9609.252" y="16043.355"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02d70b8a-6e14-4a3b-8392-677e3e667334"> <bbox w="10.0" h="10.0" x="29321.668" y="2637.0"/> <port id="pr_02d70b8a-6e14-4a3b-8392-677e3e667334_p1" x="29326.668" y="2627.0"/> <port id="pr_02d70b8a-6e14-4a3b-8392-677e3e667334_p2" x="29326.668" y="2657.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b6f6c33c-3d11-4b25-8b31-93414b87a50d"> <bbox w="10.0" h="10.0" x="14165.0" y="1790.0"/> <port id="pr_b6f6c33c-3d11-4b25-8b31-93414b87a50d_p1" x="14170.0" y="1810.0"/> <port id="pr_b6f6c33c-3d11-4b25-8b31-93414b87a50d_p2" x="14170.0" y="1780.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_161c6113-8695-415a-b8bb-18749e219972"> <bbox w="10.0" h="10.0" x="21531.75" y="3616.25"/> <port id="pr_161c6113-8695-415a-b8bb-18749e219972_p1" x="21551.75" y="3621.25"/> <port id="pr_161c6113-8695-415a-b8bb-18749e219972_p2" x="21521.75" y="3621.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e58437cb-5d2a-4fb9-a161-7b81898bb4d9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12208876</p> <p>in Hodgkin and Reed-Sternberg cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e58437cb-5d2a-4fb9-a161-7b81898bb4d9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12208876"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23663.07" y="16153.398"/> <port id="pr_e58437cb-5d2a-4fb9-a161-7b81898bb4d9_p1" x="23668.07" y="16173.398"/> <port id="pr_e58437cb-5d2a-4fb9-a161-7b81898bb4d9_p2" x="23668.07" y="16143.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2188a884-bb36-4c82-96be-01a59f2b33e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18077375</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2188a884-bb36-4c82-96be-01a59f2b33e6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27647.06" y="21980.572"/> <port id="pr_2188a884-bb36-4c82-96be-01a59f2b33e6_p1" x="27637.06" y="21985.572"/> <port id="pr_2188a884-bb36-4c82-96be-01a59f2b33e6_p2" x="27667.06" y="21985.572"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_78eb0b62-c43c-4106-bb43-97faa8d5ee72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23014.06" y="11049.0"/> <port id="pr_78eb0b62-c43c-4106-bb43-97faa8d5ee72_p1" x="23034.06" y="11054.0"/> <port id="pr_78eb0b62-c43c-4106-bb43-97faa8d5ee72_p2" x="23004.06" y="11054.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bdd0cb05-a225-4287-9cb4-1923d3574baf"> <bbox w="10.0" h="10.0" x="4285.0" y="2345.0"/> <port id="pr_bdd0cb05-a225-4287-9cb4-1923d3574baf_p1" x="4290.0" y="2365.0"/> <port id="pr_bdd0cb05-a225-4287-9cb4-1923d3574baf_p2" x="4290.0" y="2335.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b4da8206-24dd-4281-a9ac-ff5fdd785668"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20673124</p> <p>PMID:18644865</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b4da8206-24dd-4281-a9ac-ff5fdd785668"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18644865"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12686.311" y="21589.0"/> <port id="pr_b4da8206-24dd-4281-a9ac-ff5fdd785668_p1" x="12676.311" y="21594.0"/> <port id="pr_b4da8206-24dd-4281-a9ac-ff5fdd785668_p2" x="12706.311" y="21594.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d457d278-7a70-4866-883d-5d5ef014d8a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5018.343" y="18669.062"/> <port id="pr_d457d278-7a70-4866-883d-5d5ef014d8a6_p1" x="5038.343" y="18674.062"/> <port id="pr_d457d278-7a70-4866-883d-5d5ef014d8a6_p2" x="5008.343" y="18674.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_72bed355-5c67-47ef-b161-6009dacfd8c1"> <bbox w="10.0" h="10.0" x="23690.832" y="14666.035"/> <port id="pr_72bed355-5c67-47ef-b161-6009dacfd8c1_p1" x="23695.832" y="14686.035"/> <port id="pr_72bed355-5c67-47ef-b161-6009dacfd8c1_p2" x="23695.832" y="14656.035"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_482e0cc1-fb4a-4454-a061-65ff97904e3f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19398556</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<title/> </head> <body> <p>References:</p> <p>PMID:11073952</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_80b4d4ff-4b5f-40b6-97c9-956f1335aa47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11073952"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12611.768" y="11226.657"/> <port id="pr_80b4d4ff-4b5f-40b6-97c9-956f1335aa47_p1" x="12616.768" y="11246.657"/> <port id="pr_80b4d4ff-4b5f-40b6-97c9-956f1335aa47_p2" x="12616.768" y="11216.657"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_04676252-555e-4037-bf94-ccd8528c0bfe"> <bbox w="10.0" h="10.0" x="28076.326" y="16324.0"/> <port id="pr_04676252-555e-4037-bf94-ccd8528c0bfe_p1" x="28066.326" y="16329.0"/> <port id="pr_04676252-555e-4037-bf94-ccd8528c0bfe_p2" x="28096.326" y="16329.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_6eef4e26-988e-47c4-b2b8-ea66c6935230"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="996.5" y="17533.0"/> <port id="pr_6eef4e26-988e-47c4-b2b8-ea66c6935230_p1" x="1001.5" y="17553.0"/> <port id="pr_6eef4e26-988e-47c4-b2b8-ea66c6935230_p2" x="1001.5" y="17523.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_902da71b-9111-4fcd-b2dd-0cd9eef51638"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21304492</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_902da71b-9111-4fcd-b2dd-0cd9eef51638"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<glyph class="and" orientation="vertical" id="logicglyph_83fbcb10-c7cf-4a89-bcac-ab79efd0fa3e"> <bbox w="20.0" h="20.0" x="5618.3335" y="7934.3335"/> <port id="logicglyph_83fbcb10-c7cf-4a89-bcac-ab79efd0fa3e_p1" x="5628.3335" y="7924.3335"/> <port id="logicglyph_83fbcb10-c7cf-4a89-bcac-ab79efd0fa3e_p2" x="5628.3335" y="7964.3335"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f53f6fb8-87a7-42d6-ae6b-87ff5ca77e7a"> <bbox w="10.0" h="10.0" x="23844.703" y="22607.0"/> <port id="pr_f53f6fb8-87a7-42d6-ae6b-87ff5ca77e7a_p1" x="23849.703" y="22597.0"/> <port id="pr_f53f6fb8-87a7-42d6-ae6b-87ff5ca77e7a_p2" x="23849.703" y="22627.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f506184b-aa8a-4f2b-9224-4b979dba1c23"> <bbox w="10.0" h="10.0" x="21040.727" y="16103.0"/> <port id="pr_f506184b-aa8a-4f2b-9224-4b979dba1c23_p1" x="21045.727" y="16123.0"/> <port id="pr_f506184b-aa8a-4f2b-9224-4b979dba1c23_p2" x="21045.727" y="16093.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_90eee0de-7808-4b24-8a4b-2845f3eafdde"> <bbox w="10.0" h="10.0" x="22895.0" y="6168.75"/> <port id="pr_90eee0de-7808-4b24-8a4b-2845f3eafdde_p1" x="22900.0" y="6158.75"/> <port id="pr_90eee0de-7808-4b24-8a4b-2845f3eafdde_p2" x="22900.0" y="6188.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4aab14a8-8396-468d-8b35-8232b715db81"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19190345 PMID:16880536</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4aab14a8-8396-468d-8b35-8232b715db81"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21796.0"/> <port id="pr_4aab14a8-8396-468d-8b35-8232b715db81_p1" x="26547.56" y="21801.0"/> <port id="pr_4aab14a8-8396-468d-8b35-8232b715db81_p2" x="26577.56" y="21801.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_75a56954-e81f-4edb-8df0-6790c40803ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4741.5" y="16883.766"/> <port id="pr_75a56954-e81f-4edb-8df0-6790c40803ea_p1" x="4731.5" y="16888.766"/> <port id="pr_75a56954-e81f-4edb-8df0-6790c40803ea_p2" x="4761.5" y="16888.766"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e4f3996-d5d5-4f95-8089-cc98b40e1c45"> <bbox w="10.0" h="10.0" x="5935.0" y="4452.0625"/> <port id="pr_3e4f3996-d5d5-4f95-8089-cc98b40e1c45_p1" x="5940.0" y="4442.0625"/> <port id="pr_3e4f3996-d5d5-4f95-8089-cc98b40e1c45_p2" x="5940.0" y="4472.0625"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f2be0bf0-97f5-4aac-8f95-59d274feae80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19567869</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b5226608-8d73-40b3-8fcc-eec1da617837"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19567869"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1608.875" y="13979.25"/> <port id="pr_b5226608-8d73-40b3-8fcc-eec1da617837_p1" x="1598.875" y="13984.25"/> <port id="pr_b5226608-8d73-40b3-8fcc-eec1da617837_p2" x="1628.875" y="13984.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cd3da5cd-e4ab-4d82-a68b-83dc648e3744"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2708.75" y="16377.5"/> <port id="pr_cd3da5cd-e4ab-4d82-a68b-83dc648e3744_p1" x="2728.75" y="16382.5"/> <port id="pr_cd3da5cd-e4ab-4d82-a68b-83dc648e3744_p2" x="2698.75" y="16382.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e64a0486-2bcd-41b2-a7f6-8d8dd7555490"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Ataxia telangiectasia mutated (ATM) is activated in response to DNA damage and directly phosphorylates TAOK.</p> <p>PMID:18855897</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e64a0486-2bcd-41b2-a7f6-8d8dd7555490"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18855897"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11514.561" y="19811.75"/> <port id="pr_e64a0486-2bcd-41b2-a7f6-8d8dd7555490_p1" x="11519.561" y="19801.75"/> <port id="pr_e64a0486-2bcd-41b2-a7f6-8d8dd7555490_p2" x="11519.561" y="19831.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_34196cd5-2c57-4603-9582-9bed7ef3738b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18813803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_34196cd5-2c57-4603-9582-9bed7ef3738b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26556.56" y="20739.0"/> <port id="pr_34196cd5-2c57-4603-9582-9bed7ef3738b_p1" x="26546.56" y="20744.0"/> <port id="pr_34196cd5-2c57-4603-9582-9bed7ef3738b_p2" x="26576.56" y="20744.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1cf6f5c4-f4d7-4711-9f1a-1d0dda9adb3c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12764189</p> <p>PMID:18815277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1cf6f5c4-f4d7-4711-9f1a-1d0dda9adb3c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12764189"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26262.498" y="18013.738"/> <port id="pr_1cf6f5c4-f4d7-4711-9f1a-1d0dda9adb3c_p1" x="26252.498" y="18018.738"/> <port id="pr_1cf6f5c4-f4d7-4711-9f1a-1d0dda9adb3c_p2" x="26282.498" y="18018.738"/> </glyph> <glyph class="process" orientation="vertical" id="pr_25dee10b-8903-467a-bb42-2243292ab388"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18485875</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_25dee10b-8903-467a-bb42-2243292ab388"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18485875"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18518.482" y="13398.057"/> <port id="pr_25dee10b-8903-467a-bb42-2243292ab388_p1" x="18523.482" y="13418.057"/> <port id="pr_25dee10b-8903-467a-bb42-2243292ab388_p2" x="18523.482" y="13388.057"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82ec4896-50a5-4538-a860-bb1a33003b2c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11243884</p> <p>by SLC38A5 and SLC38A3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_82ec4896-50a5-4538-a860-bb1a33003b2c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11243884"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18113.436" y="12308.125"/> <port id="pr_82ec4896-50a5-4538-a860-bb1a33003b2c_p1" x="18103.436" y="12313.125"/> <port id="pr_82ec4896-50a5-4538-a860-bb1a33003b2c_p2" x="18133.436" y="12313.125"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_b2c2ea82-e82b-48e8-9b0c-4a1616203831"> <bbox w="20.0" h="20.0" x="17868.035" y="12197.62"/> <port id="logicglyph_b2c2ea82-e82b-48e8-9b0c-4a1616203831_p1" x="17858.035" y="12207.62"/> <port id="logicglyph_b2c2ea82-e82b-48e8-9b0c-4a1616203831_p2" x="17898.035" y="12207.62"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_129ff5e3-b5eb-4625-a3ac-63ae8f775127"> <bbox w="10.0" h="10.0" x="13398.602" y="2048.75"/> <port id="pr_129ff5e3-b5eb-4625-a3ac-63ae8f775127_p1" x="13388.602" y="2053.75"/> <port id="pr_129ff5e3-b5eb-4625-a3ac-63ae8f775127_p2" x="13418.602" y="2053.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_72eab3ab-f4e3-4306-aac5-d39471506c8a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26916.06" y="11685.266"/> <port id="pr_72eab3ab-f4e3-4306-aac5-d39471506c8a_p1" x="26906.06" y="11690.266"/> <port id="pr_72eab3ab-f4e3-4306-aac5-d39471506c8a_p2" x="26936.06" y="11690.266"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1f6134a6-59f9-466e-9724-9d5755d91f1f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5098.25" y="15320.5"/> <port id="pr_1f6134a6-59f9-466e-9724-9d5755d91f1f_p1" x="5088.25" y="15325.5"/> <port id="pr_1f6134a6-59f9-466e-9724-9d5755d91f1f_p2" x="5118.25" y="15325.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eff9d9bd-0957-4bbf-ae1f-62782e2c4f1a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Calcineurin can be proteolysed which results in a truncated form of the catalytic subunit A. The truncated form is constitutively active and irreversible and does not require calcium and calmodulin for activation.</p> <p>PMID:17593948, PMID:14627704</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eff9d9bd-0957-4bbf-ae1f-62782e2c4f1a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627704"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17901.06" y="18127.0"/> <port id="pr_eff9d9bd-0957-4bbf-ae1f-62782e2c4f1a_p1" x="17906.06" y="18117.0"/> <port id="pr_eff9d9bd-0957-4bbf-ae1f-62782e2c4f1a_p2" x="17906.06" y="18147.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d5297a21-563a-4ee2-893f-2011bc1fe29d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3535.5" y="19054.875"/> <port id="pr_d5297a21-563a-4ee2-893f-2011bc1fe29d_p1" x="3555.5" y="19059.875"/> <port id="pr_d5297a21-563a-4ee2-893f-2011bc1fe29d_p2" x="3525.5" y="19059.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4bf40a42-2250-4f10-9afc-aa5efecf45a9"> <bbox w="10.0" h="10.0" x="27421.586" y="9780.994"/> <port id="pr_4bf40a42-2250-4f10-9afc-aa5efecf45a9_p1" x="27426.586" y="9770.994"/> <port id="pr_4bf40a42-2250-4f10-9afc-aa5efecf45a9_p2" x="27426.586" y="9800.994"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f680c2b4-6863-423b-881c-ebdb300e0c43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3549.4443" y="19089.0"/> <port id="pr_f680c2b4-6863-423b-881c-ebdb300e0c43_p1" x="3569.4443" y="19094.0"/> <port id="pr_f680c2b4-6863-423b-881c-ebdb300e0c43_p2" x="3539.4443" y="19094.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_86e3391a-688a-4e71-904a-1a351f3e0b39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20016067</p> <p>the PTC receptor itself does not trigger the activation of PKA but the withdrawal of the SHH ligand does</p> <p>PMID:16537363</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_86e3391a-688a-4e71-904a-1a351f3e0b39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20016067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<p>References:</p> <p>Unknown which amino acid residue</p> <p>PMID:22399895</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b55ca19-8c75-41ba-a2e6-83a3e8ba6498"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22399895"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18131.06" y="20597.5"/> <port id="pr_8b55ca19-8c75-41ba-a2e6-83a3e8ba6498_p1" x="18136.06" y="20617.5"/> <port 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<p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_094a9950-f10d-4575-9abf-da80b8fd6379"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24969.883" y="18778.871"/> <port id="pr_094a9950-f10d-4575-9abf-da80b8fd6379_p1" x="24959.883" y="18783.871"/> <port id="pr_094a9950-f10d-4575-9abf-da80b8fd6379_p2" x="24989.883" y="18783.871"/> </glyph> <glyph class="process" orientation="vertical" id="pr_418f4aa2-e134-4a5f-afed-802f00a79521"> <bbox w="10.0" h="10.0" x="21231.56" y="20806.25"/> <port id="pr_418f4aa2-e134-4a5f-afed-802f00a79521_p1" x="21236.56" y="20826.25"/> <port id="pr_418f4aa2-e134-4a5f-afed-802f00a79521_p2" x="21236.56" y="20796.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f7be3b99-7bc3-438a-bfd7-7e3c6f46efea"> <bbox w="10.0" h="10.0" x="26811.0" y="7685.0"/> <port id="pr_f7be3b99-7bc3-438a-bfd7-7e3c6f46efea_p1" x="26816.0" y="7675.0"/> <port id="pr_f7be3b99-7bc3-438a-bfd7-7e3c6f46efea_p2" x="26816.0" y="7705.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_5076d117-7179-4cab-92eb-ea2d88c2bc8b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12212.209" y="15404.994"/> <port id="pr_5076d117-7179-4cab-92eb-ea2d88c2bc8b_p1" x="12217.209" y="15394.994"/> <port id="pr_5076d117-7179-4cab-92eb-ea2d88c2bc8b_p2" x="12217.209" y="15424.994"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ecae36a1-4dd4-458a-a545-245ed65abcac"> <bbox w="10.0" h="10.0" x="5662.382" y="6933.125"/> <port id="pr_ecae36a1-4dd4-458a-a545-245ed65abcac_p1" x="5652.382" y="6938.125"/> <port id="pr_ecae36a1-4dd4-458a-a545-245ed65abcac_p2" x="5682.382" y="6938.125"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_ecb41843-a929-4cd9-8a1b-1e8454748931"> <bbox w="10.0" h="10.0" x="12685.311" y="21147.0"/> <port id="pr_ecb41843-a929-4cd9-8a1b-1e8454748931_p1" x="12675.311" y="21152.0"/> <port id="pr_ecb41843-a929-4cd9-8a1b-1e8454748931_p2" x="12705.311" y="21152.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4e800126-0075-4948-a006-f3d93a19cf15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16714285</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4e800126-0075-4948-a006-f3d93a19cf15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16714285"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21501.686" y="21623.5"/> <port id="pr_4e800126-0075-4948-a006-f3d93a19cf15_p1" x="21521.686" y="21628.5"/> <port id="pr_4e800126-0075-4948-a006-f3d93a19cf15_p2" x="21491.686" y="21628.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_74c5e241-8e1a-41b6-9628-f6b74ac17b00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19498109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_74c5e241-8e1a-41b6-9628-f6b74ac17b00"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19498109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18075.191" y="14933.875"/> <port id="pr_74c5e241-8e1a-41b6-9628-f6b74ac17b00_p1" x="18080.191" y="14923.875"/> <port id="pr_74c5e241-8e1a-41b6-9628-f6b74ac17b00_p2" x="18080.191" y="14953.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d684e93-0365-4349-b5a8-3b1f6dbdcfcd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4248.0" y="16227.5"/> <port id="pr_7d684e93-0365-4349-b5a8-3b1f6dbdcfcd_p1" x="4238.0" y="16232.5"/> <port id="pr_7d684e93-0365-4349-b5a8-3b1f6dbdcfcd_p2" x="4268.0" y="16232.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_8e5064e6-da99-437c-9825-852acd8cac38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3698.187" y="16352.0"/> <port id="pr_8e5064e6-da99-437c-9825-852acd8cac38_p1" x="3688.187" y="16357.0"/> <port id="pr_8e5064e6-da99-437c-9825-852acd8cac38_p2" x="3718.187" y="16357.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ceaff727-7286-4be2-98dc-83a7a9d4eda9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12881569</p> <p>PMID:19706873</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ceaff727-7286-4be2-98dc-83a7a9d4eda9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12881569"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19706873"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23002.06" y="14596.0"/> <port id="pr_ceaff727-7286-4be2-98dc-83a7a9d4eda9_p1" x="23007.06" y="14586.0"/> <port id="pr_ceaff727-7286-4be2-98dc-83a7a9d4eda9_p2" x="23007.06" y="14616.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4a8ce57b-e23f-4c9a-8adc-a4734a3b94ef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5319.5" y="13596.5"/> <port id="pr_4a8ce57b-e23f-4c9a-8adc-a4734a3b94ef_p1" x="5339.5" y="13601.5"/> <port id="pr_4a8ce57b-e23f-4c9a-8adc-a4734a3b94ef_p2" x="5309.5" y="13601.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_368fa551-4353-46f5-a78c-bd86509d80fa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17537911</p> <p>Ectopic expression of any one of (Twist, Snail, or Goosecoid) led to induction of both FOXC2 mRNA and protein expression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_368fa551-4353-46f5-a78c-bd86509d80fa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17537911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4274.0" y="16797.5"/> <port id="pr_368fa551-4353-46f5-a78c-bd86509d80fa_p1" x="4264.0" y="16802.5"/> <port id="pr_368fa551-4353-46f5-a78c-bd86509d80fa_p2" x="4294.0" y="16802.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e5833aa1-8462-4e07-8da0-7773bd368d90"> <bbox w="10.0" h="10.0" x="28393.074" y="13765.25"/> <port id="pr_e5833aa1-8462-4e07-8da0-7773bd368d90_p1" x="28398.074" y="13785.25"/> <port id="pr_e5833aa1-8462-4e07-8da0-7773bd368d90_p2" x="28398.074" y="13755.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_20017c73-f74a-41b5-a7f4-39c3c8d524c2"> <bbox w="10.0" h="10.0" x="14760.061" y="18672.0"/> <port id="pr_20017c73-f74a-41b5-a7f4-39c3c8d524c2_p1" x="14765.061" y="18662.0"/> <port id="pr_20017c73-f74a-41b5-a7f4-39c3c8d524c2_p2" x="14765.061" y="18692.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3967a8e8-7a26-4ac3-a7a2-5e6759d7fd58"> <bbox w="10.0" h="10.0" x="27026.56" y="10660.812"/> <port id="pr_3967a8e8-7a26-4ac3-a7a2-5e6759d7fd58_p1" x="27016.56" y="10665.812"/> <port id="pr_3967a8e8-7a26-4ac3-a7a2-5e6759d7fd58_p2" x="27046.56" y="10665.812"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b607da47-c5ca-4046-b701-67e241c34cd2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18829525</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b607da47-c5ca-4046-b701-67e241c34cd2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18829525"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27282.625" y="19922.0"/> <port id="pr_b607da47-c5ca-4046-b701-67e241c34cd2_p1" x="27287.625" y="19942.0"/> <port id="pr_b607da47-c5ca-4046-b701-67e241c34cd2_p2" x="27287.625" y="19912.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_04bbbfe5-4ff0-4cac-94f0-2afbe3c4bb8d"> <bbox w="10.0" h="10.0" x="8010.6562" y="16343.182"/> <port id="pr_04bbbfe5-4ff0-4cac-94f0-2afbe3c4bb8d_p1" x="8015.6562" y="16333.182"/> <port id="pr_04bbbfe5-4ff0-4cac-94f0-2afbe3c4bb8d_p2" x="8015.6562" y="16363.182"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3491a525-0cba-4082-abcb-43cb29deed4d"> <bbox w="10.0" h="10.0" x="13704.988" y="19885.25"/> <port id="pr_3491a525-0cba-4082-abcb-43cb29deed4d_p1" x="13724.988" y="19890.25"/> <port id="pr_3491a525-0cba-4082-abcb-43cb29deed4d_p2" x="13694.988" y="19890.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_415c00c6-1540-4469-80b6-78165bcc6241"> <bbox w="10.0" h="10.0" x="5527.5273" y="4056.25"/> <port id="pr_415c00c6-1540-4469-80b6-78165bcc6241_p1" x="5532.5273" y="4046.25"/> <port id="pr_415c00c6-1540-4469-80b6-78165bcc6241_p2" x="5532.5273" y="4076.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_65992cd7-1d54-4e84-8663-ddbdf92cf675"> <bbox w="10.0" h="10.0" x="22389.06" y="10483.757"/> <port id="pr_65992cd7-1d54-4e84-8663-ddbdf92cf675_p1" x="22379.06" y="10488.757"/> <port id="pr_65992cd7-1d54-4e84-8663-ddbdf92cf675_p2" x="22409.06" y="10488.757"/> </glyph> <glyph class="process" orientation="vertical" id="pr_98c9a691-389d-4b6c-b94b-23ee90b10a66"> <bbox w="10.0" h="10.0" x="14675.0" y="2575.0"/> <port id="pr_98c9a691-389d-4b6c-b94b-23ee90b10a66_p1" x="14680.0" y="2595.0"/> <port id="pr_98c9a691-389d-4b6c-b94b-23ee90b10a66_p2" x="14680.0" y="2565.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2f95ee8c-a434-4f2b-8fa6-8f3a3f73813f"> <bbox w="10.0" h="10.0" x="30071.0" y="4370.0"/> <port id="pr_2f95ee8c-a434-4f2b-8fa6-8f3a3f73813f_p1" x="30091.0" y="4375.0"/> <port id="pr_2f95ee8c-a434-4f2b-8fa6-8f3a3f73813f_p2" x="30061.0" y="4375.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2fb7597e-c284-470b-adbb-5c03562f76e4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20787.0" y="16338.934"/> <port id="pr_2fb7597e-c284-470b-adbb-5c03562f76e4_p1" x="20792.0" y="16358.934"/> <port id="pr_2fb7597e-c284-470b-adbb-5c03562f76e4_p2" x="20792.0" y="16328.934"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d970c872-d4df-46d9-bb36-d1cf6addc110"> <bbox w="10.0" h="10.0" x="18413.803" y="12084.0"/> <port id="pr_d970c872-d4df-46d9-bb36-d1cf6addc110_p1" x="18418.803" y="12074.0"/> <port id="pr_d970c872-d4df-46d9-bb36-d1cf6addc110_p2" x="18418.803" y="12104.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bdfd86eb-54df-420d-ad05-ba7af9283363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Bulky adducts convert to ICL during DNA replication in S phase</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10301.52" y="15132.787"/> <port id="pr_bdfd86eb-54df-420d-ad05-ba7af9283363_p1" x="10291.52" y="15137.787"/> <port id="pr_bdfd86eb-54df-420d-ad05-ba7af9283363_p2" x="10321.52" y="15137.787"/> </glyph> <glyph class="process" orientation="vertical" id="pr_71d2ee77-9862-4d07-8fe9-12f9d436ad3c"> <bbox w="10.0" h="10.0" x="589.933" y="3986.25"/> <port id="pr_71d2ee77-9862-4d07-8fe9-12f9d436ad3c_p1" x="594.933" y="3976.25"/> <port id="pr_71d2ee77-9862-4d07-8fe9-12f9d436ad3c_p2" x="594.933" y="4006.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_44e40af2-3aeb-487d-af2e-b334c39bbfab"> <bbox w="10.0" h="10.0" x="11156.816" y="14349.5"/> <port id="pr_44e40af2-3aeb-487d-af2e-b334c39bbfab_p1" x="11146.816" y="14354.5"/> <port id="pr_44e40af2-3aeb-487d-af2e-b334c39bbfab_p2" x="11176.816" y="14354.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5dfeed08-fd2b-4ab6-8655-c4e7dd6aba44"> <bbox w="10.0" h="10.0" x="16610.676" y="15665.732"/> <port id="pr_5dfeed08-fd2b-4ab6-8655-c4e7dd6aba44_p1" x="16600.676" y="15670.732"/> <port id="pr_5dfeed08-fd2b-4ab6-8655-c4e7dd6aba44_p2" x="16630.676" y="15670.732"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4f9e41ca-1043-4ef1-9b27-66b549e68db8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21518799</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4f9e41ca-1043-4ef1-9b27-66b549e68db8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21518799"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3641.0" y="17170.398"/> <port id="pr_4f9e41ca-1043-4ef1-9b27-66b549e68db8_p1" x="3631.0" y="17175.398"/> <port id="pr_4f9e41ca-1043-4ef1-9b27-66b549e68db8_p2" x="3661.0" y="17175.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3fb28eca-d7dd-4407-94dd-644bc69c2e87"> <bbox w="10.0" h="10.0" x="10436.4375" y="6950.9375"/> <port id="pr_3fb28eca-d7dd-4407-94dd-644bc69c2e87_p1" x="10441.4375" y="6940.9375"/> <port id="pr_3fb28eca-d7dd-4407-94dd-644bc69c2e87_p2" x="10441.4375" y="6970.9375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2fb86cb1-f183-4cd4-bf99-5c281e0254c5"> <bbox w="10.0" h="10.0" x="17642.4" y="1665.0"/> <port id="pr_2fb86cb1-f183-4cd4-bf99-5c281e0254c5_p1" x="17647.4" y="1685.0"/> <port id="pr_2fb86cb1-f183-4cd4-bf99-5c281e0254c5_p2" x="17647.4" y="1655.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_82614cf6-da5b-408d-ab5b-d15b0a1c1f3c"> <bbox w="10.0" h="10.0" x="14265.0" y="1981.25"/> <port id="pr_82614cf6-da5b-408d-ab5b-d15b0a1c1f3c_p1" x="14270.0" y="2001.25"/> <port id="pr_82614cf6-da5b-408d-ab5b-d15b0a1c1f3c_p2" x="14270.0" y="1971.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4e358f98-1ecc-4da7-8706-88227fcb7651"> <bbox w="10.0" h="10.0" x="23335.0" y="3510.0"/> <port id="pr_4e358f98-1ecc-4da7-8706-88227fcb7651_p1" x="23325.0" y="3515.0"/> <port id="pr_4e358f98-1ecc-4da7-8706-88227fcb7651_p2" x="23355.0" y="3515.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0df70826-26a7-404f-b325-8915756e123b"> <bbox w="10.0" h="10.0" x="26141.0" y="2552.5"/> <port id="pr_0df70826-26a7-404f-b325-8915756e123b_p1" x="26146.0" y="2542.5"/> <port id="pr_0df70826-26a7-404f-b325-8915756e123b_p2" x="26146.0" y="2572.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dc8705b0-81c9-43d5-afa3-8effca5a4c16"> <bbox w="10.0" h="10.0" x="24474.31" y="10667.75"/> <port id="pr_dc8705b0-81c9-43d5-afa3-8effca5a4c16_p1" x="24479.31" y="10657.75"/> <port id="pr_dc8705b0-81c9-43d5-afa3-8effca5a4c16_p2" x="24479.31" y="10687.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_26455c72-c0dd-46c4-8383-67ceab915799"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Translation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="9982.523" y="20824.473"/> <port id="pr_26455c72-c0dd-46c4-8383-67ceab915799_p1" x="9972.523" y="20829.473"/> <port id="pr_26455c72-c0dd-46c4-8383-67ceab915799_p2" x="10002.523" y="20829.473"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dda50085-248b-4b3e-8bc5-76e4e4021b51"> <bbox w="10.0" h="10.0" x="15251.936" y="18249.117"/> <port id="pr_dda50085-248b-4b3e-8bc5-76e4e4021b51_p1" x="15241.936" y="18254.117"/> <port id="pr_dda50085-248b-4b3e-8bc5-76e4e4021b51_p2" x="15271.936" y="18254.117"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_82e5cbe7-3eb3-4bf9-895f-5724a7600c84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2062.0" y="12883.0"/> <port id="pr_82e5cbe7-3eb3-4bf9-895f-5724a7600c84_p1" x="2067.0" y="12873.0"/> <port id="pr_82e5cbe7-3eb3-4bf9-895f-5724a7600c84_p2" x="2067.0" y="12903.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cd856ea2-9e9b-434c-b99e-4a96dbe982fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26557.81" y="10965.837"/> <port id="pr_cd856ea2-9e9b-434c-b99e-4a96dbe982fe_p1" x="26577.81" y="10970.837"/> <port id="pr_cd856ea2-9e9b-434c-b99e-4a96dbe982fe_p2" x="26547.81" y="10970.837"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6fd193c2-44f7-4e43-a617-4380d5751c6c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18561.59" y="16770.549"/> <port id="pr_6fd193c2-44f7-4e43-a617-4380d5751c6c_p1" x="18566.59" y="16760.549"/> <port id="pr_6fd193c2-44f7-4e43-a617-4380d5751c6c_p2" x="18566.59" y="16790.549"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ecbd94f8-0aec-4499-a099-39e74e971836"> <bbox w="10.0" h="10.0" x="19782.068" y="11832.125"/> <port id="pr_ecbd94f8-0aec-4499-a099-39e74e971836_p1" x="19787.068" y="11822.125"/> <port id="pr_ecbd94f8-0aec-4499-a099-39e74e971836_p2" x="19787.068" y="11852.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f5200391-c83c-43ca-9b34-60e84667b7d3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Only NFAT1 is sensitive to cleavage by caspase-3 at consensus sites: DELD and/or DVLD.</p> <p>PMID:16455648</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f5200391-c83c-43ca-9b34-60e84667b7d3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16455648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18317.56" y="18508.0"/> <port id="pr_f5200391-c83c-43ca-9b34-60e84667b7d3_p1" x="18322.56" y="18498.0"/> <port id="pr_f5200391-c83c-43ca-9b34-60e84667b7d3_p2" x="18322.56" y="18528.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_faa752ae-41d9-41f7-9071-f955dd7bcdef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15747065</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_faa752ae-41d9-41f7-9071-f955dd7bcdef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15747065"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21716.145" y="21564.75"/> <port id="pr_faa752ae-41d9-41f7-9071-f955dd7bcdef_p1" x="21721.145" y="21584.75"/> <port id="pr_faa752ae-41d9-41f7-9071-f955dd7bcdef_p2" x="21721.145" y="21554.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b72087f3-6fbe-4b84-9f42-71139cf37dd4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24198.06" y="10840.75"/> <port id="pr_b72087f3-6fbe-4b84-9f42-71139cf37dd4_p1" x="24203.06" y="10860.75"/> <port id="pr_b72087f3-6fbe-4b84-9f42-71139cf37dd4_p2" x="24203.06" y="10830.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9e11913a-2b20-4cb1-8454-6044d804fda3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15489953</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9e11913a-2b20-4cb1-8454-6044d804fda3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15489953"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17847.81" y="18768.5"/> <port id="pr_9e11913a-2b20-4cb1-8454-6044d804fda3_p1" x="17852.81" y="18758.5"/> <port id="pr_9e11913a-2b20-4cb1-8454-6044d804fda3_p2" x="17852.81" y="18788.5"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_f06cf49a-1657-46aa-8b08-fdeb488d15e6"> <bbox w="20.0" h="20.0" x="17652.06" y="19421.0"/> <port id="logicglyph_f06cf49a-1657-46aa-8b08-fdeb488d15e6_p1" x="17662.06" y="19451.0"/> <port id="logicglyph_f06cf49a-1657-46aa-8b08-fdeb488d15e6_p2" x="17662.06" y="19411.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f25b55e3-478c-490f-9fbe-56bc0ffc0509"> <bbox w="10.0" h="10.0" x="21896.75" y="5275.0"/> <port id="pr_f25b55e3-478c-490f-9fbe-56bc0ffc0509_p1" x="21901.75" y="5265.0"/> <port id="pr_f25b55e3-478c-490f-9fbe-56bc0ffc0509_p2" x="21901.75" y="5295.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f02745d-7b0b-4469-b079-926368f43aa6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11756412</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3f02745d-7b0b-4469-b079-926368f43aa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756412"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13763.061" y="21164.0"/> <port id="pr_3f02745d-7b0b-4469-b079-926368f43aa6_p1" x="13768.061" y="21184.0"/> <port id="pr_3f02745d-7b0b-4469-b079-926368f43aa6_p2" x="13768.061" y="21154.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_815fbf42-3ec6-48d0-9033-bfe60578e64b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Grb2 is recruited to the plasma membrane by activated RTKs.</p> <p>Recruitment to the membrane and tyrosine phosphorylation enhance the enzymatic activity of PLC-g leading to the formation of two second messengers diacylglycerol (DAG) and inositol 145-trisphosphate (IP3). IP3 releases Ca2+ from internal stores which in turn acts in concert with DAG to translocate protein kinase C (PKC) to the cell membrane and stimulate its enzymatic activity.</p> <p>FGF stimulation leads to phosphorylation of Shp2 on a tyrosine residue that forms a complex with an additional molecule of Grb2. Grb2/Sos complexes are thus recruited directly and indirectly via Shp2 upon tyrosine phosphorylation of FRS2a in response to growth factor stimulation.</p> <p>PKC may cause phosphorylation of EGFR leading to a decrease in its activity.</p> <p>PMID:17496910 PMID:15567848 PMID:11447289 PMID:6321473</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_815fbf42-3ec6-48d0-9033-bfe60578e64b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15567848"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11447289"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:6321473"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8181.3286" y="19075.25"/> <port id="pr_815fbf42-3ec6-48d0-9033-bfe60578e64b_p1" x="8186.3286" y="19095.25"/> <port id="pr_815fbf42-3ec6-48d0-9033-bfe60578e64b_p2" x="8186.3286" y="19065.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f271ae26-165f-4256-b8aa-ca24f44a6112"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4888.953" y="18273.625"/> <port id="pr_f271ae26-165f-4256-b8aa-ca24f44a6112_p1" x="4893.953" y="18263.625"/> <port id="pr_f271ae26-165f-4256-b8aa-ca24f44a6112_p2" x="4893.953" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c0a48c40-6ac6-43a5-af06-ebb8989d0bc1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Formation is dependent of Ca2+ concentration. It is believed that Ca2+ concentration regulates activity of Calpastatin.</p> <p>PMID:12684003</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c0a48c40-6ac6-43a5-af06-ebb8989d0bc1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12684003"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18202.855" y="18201.0"/> <port id="pr_c0a48c40-6ac6-43a5-af06-ebb8989d0bc1_p1" x="18207.855" y="18191.0"/> <port id="pr_c0a48c40-6ac6-43a5-af06-ebb8989d0bc1_p2" x="18207.855" y="18221.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a30ed1c6-5b8e-44c3-be2e-1cc3e50884b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:23321667</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a30ed1c6-5b8e-44c3-be2e-1cc3e50884b9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23321667"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23776.336" y="22556.246"/> <port id="pr_a30ed1c6-5b8e-44c3-be2e-1cc3e50884b9_p1" x="23781.336" y="22576.246"/> <port id="pr_a30ed1c6-5b8e-44c3-be2e-1cc3e50884b9_p2" x="23781.336" y="22546.246"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c36cb1bb-0717-4f73-927c-32fe13e50490"> <bbox w="10.0" h="10.0" x="10508.619" y="15092.0"/> <port id="pr_c36cb1bb-0717-4f73-927c-32fe13e50490_p1" x="10528.619" y="15097.0"/> <port id="pr_c36cb1bb-0717-4f73-927c-32fe13e50490_p2" x="10498.619" y="15097.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af97c56e-a10c-4dde-9bc0-5390bc4396d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23989302</p> <p>PMID:19152186</p> <p>PMID:24403062</p> <p>PMID:17018620</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_af97c56e-a10c-4dde-9bc0-5390bc4396d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23989302"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19152186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17018620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6953.0" y="11896.875"/> <port id="pr_af97c56e-a10c-4dde-9bc0-5390bc4396d7_p1" x="6958.0" y="11886.875"/> <port id="pr_af97c56e-a10c-4dde-9bc0-5390bc4396d7_p2" x="6958.0" y="11916.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_63486776-d8d1-4d86-9f2f-ba71e2e97545"> <bbox w="10.0" h="10.0" x="15763.236" y="15316.697"/> <port id="pr_63486776-d8d1-4d86-9f2f-ba71e2e97545_p1" x="15768.236" y="15306.697"/> <port id="pr_63486776-d8d1-4d86-9f2f-ba71e2e97545_p2" x="15768.236" y="15336.697"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_96cc3e78-3bcb-47d6-b105-d52174c6c79d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1572.3224" y="14017.385"/> <port id="pr_96cc3e78-3bcb-47d6-b105-d52174c6c79d_p1" x="1592.3224" y="14022.385"/> <port id="pr_96cc3e78-3bcb-47d6-b105-d52174c6c79d_p2" x="1562.3224" y="14022.385"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ead858a-4ea2-4093-a01f-ae9c301a0a5f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11689568</p> <p>MPDZ accumulates at the TJ in epithelial cells through its binding to Claudins and JAMs. </p> <p>MPDZ is believed to function as a multivalent scaffold protein that recruits various proteins to TJ</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ead858a-4ea2-4093-a01f-ae9c301a0a5f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689568"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1328.5" y="15093.0"/> <port id="pr_5ead858a-4ea2-4093-a01f-ae9c301a0a5f_p1" x="1333.5" y="15113.0"/> <port id="pr_5ead858a-4ea2-4093-a01f-ae9c301a0a5f_p2" x="1333.5" y="15083.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77301772-b671-46a2-8d0f-6d376e572b1f"> <bbox w="10.0" h="10.0" x="13163.37" y="16267.119"/> <port id="pr_77301772-b671-46a2-8d0f-6d376e572b1f_p1" x="13168.37" y="16287.119"/> <port id="pr_77301772-b671-46a2-8d0f-6d376e572b1f_p2" x="13168.37" y="16257.119"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9579986e-cf3f-4bd0-ab7f-275f5957b779"> <bbox w="10.0" h="10.0" x="23340.0" y="2025.0"/> <port id="pr_9579986e-cf3f-4bd0-ab7f-275f5957b779_p1" x="23345.0" y="2045.0"/> <port id="pr_9579986e-cf3f-4bd0-ab7f-275f5957b779_p2" x="23345.0" y="2015.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_842c05f2-c0cf-4d5c-958c-e8492f8ca2f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5746.379" y="14525.035"/> <port id="pr_842c05f2-c0cf-4d5c-958c-e8492f8ca2f3_p1" x="5736.379" y="14530.035"/> <port id="pr_842c05f2-c0cf-4d5c-958c-e8492f8ca2f3_p2" x="5766.379" y="14530.035"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_187a52d0-c377-41cf-b7b4-af8a7aa5ef2b"> <bbox w="10.0" h="10.0" x="23465.0" y="8412.5"/> <port id="pr_187a52d0-c377-41cf-b7b4-af8a7aa5ef2b_p1" x="23455.0" y="8417.5"/> <port id="pr_187a52d0-c377-41cf-b7b4-af8a7aa5ef2b_p2" x="23485.0" y="8417.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_25f0163d-c8c3-4570-ad6c-4d1f63684627"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Upon IGF stimulation, the activated IGF1R recruits and directly phosphorylates IRS1, leading to both PI3K and (GRB2/SOS/HRas) pathways activation</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_25f0163d-c8c3-4570-ad6c-4d1f63684627"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10826997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12767520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19030972"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16931767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21540285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12444011"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2580.625" y="18282.0"/> <port id="pr_25f0163d-c8c3-4570-ad6c-4d1f63684627_p1" x="2570.625" y="18287.0"/> <port id="pr_25f0163d-c8c3-4570-ad6c-4d1f63684627_p2" x="2600.625" y="18287.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_908922fd-75bb-4244-9be7-a639456f62e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1112.975" y="15233.486"/> <port id="pr_908922fd-75bb-4244-9be7-a639456f62e6_p1" x="1102.975" y="15238.486"/> <port id="pr_908922fd-75bb-4244-9be7-a639456f62e6_p2" x="1132.975" y="15238.486"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_316ad6a7-8ddc-40be-877b-20a36b400999"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10894161</p> <p>Apo2L/TRAIL-dependent recruitment of endogenous FADD and caspase-8 to death receptors 4 and 5</p> <p>PMID:12198154</p> <p>Caspase-10 is recruited to and activated at the native TRAIL and CD95 death-inducing signalling complexes in a FADD-dependent manner but can not functionally substitute caspase-8</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_316ad6a7-8ddc-40be-877b-20a36b400999"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10894161"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12198154"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24566.56" y="9154.25"/> <port 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y="9682.0"/> <port id="pr_bedeb21b-d128-4e34-ad96-74882609d35d_p2" x="25359.06" y="9652.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1445131-1c18-4200-a030-6fae798c6da5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>DCC interacts with both caspase-3 and caspase-9 and drives the activation of caspase-3 through caspase-9</p> <p>PMID:20173780</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_fed0e518-ffd2-4ef9-93eb-106b71b5d184_p1" x="29398.55" y="13776.054"/> <port id="pr_fed0e518-ffd2-4ef9-93eb-106b71b5d184_p2" x="29398.55" y="13806.054"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c2f661d8-1234-4e55-b631-5ed248ace8e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19188590</p> <p>in melanomas, correlation between MIR182 expression and progression from primary to metastatic melanoma, anticorrelation with FOXO3 level.</p> <p>FOXO3 over-expression inhibits MIR182 metastatic effect</p> <p>FOXO3 is a direct target of MIR182</p> <p>BIM downregulated by MIR182 supposedly through FOXO3 inhibition</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c2f661d8-1234-4e55-b631-5ed248ace8e1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19188590"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23501.816" y="15952.75"/> <port id="pr_c2f661d8-1234-4e55-b631-5ed248ace8e1_p1" x="23491.816" y="15957.75"/> <port id="pr_c2f661d8-1234-4e55-b631-5ed248ace8e1_p2" x="23521.816" y="15957.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_acca5bfc-0771-4bbf-80c5-2bf98f172905"> <bbox w="10.0" h="10.0" x="19638.31" y="16589.0"/> <port id="pr_acca5bfc-0771-4bbf-80c5-2bf98f172905_p1" x="19628.31" y="16594.0"/> <port id="pr_acca5bfc-0771-4bbf-80c5-2bf98f172905_p2" x="19658.31" y="16594.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ed0d76e4-f3d9-430a-9cf4-b4172bf73a93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12773388</p> <p>in vitro survivin_BIRC5 alone does not suppress CASP3/7/9 activities</p> <p>in HepG2, interaction by coIP of endogenous proteins</p> <p>in HEK293 or in vitro, preferential binding to T34 phosphorylated BIRC5, as determined through the use of unphosphorylatable or phosphomimetic mutants</p> <p>in Hela expression of a dominant negative CDC2 decreases interaction</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ed0d76e4-f3d9-430a-9cf4-b4172bf73a93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12773388"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25164.06" y="12557.0"/> <port id="pr_ed0d76e4-f3d9-430a-9cf4-b4172bf73a93_p1" x="25169.06" y="12577.0"/> <port id="pr_ed0d76e4-f3d9-430a-9cf4-b4172bf73a93_p2" x="25169.06" y="12547.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_02654ec0-8a8c-45c4-8e85-b5e01e72e73f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1937.5" y="14953.5"/> <port id="pr_02654ec0-8a8c-45c4-8e85-b5e01e72e73f_p1" x="1957.5" y="14958.5"/> <port id="pr_02654ec0-8a8c-45c4-8e85-b5e01e72e73f_p2" x="1927.5" y="14958.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4bb5a2ec-dbc1-44e0-8b88-dabfe347d1bb"> <bbox w="10.0" h="10.0" x="27865.96" y="13746.24"/> <port id="pr_4bb5a2ec-dbc1-44e0-8b88-dabfe347d1bb_p1" x="27870.96" y="13766.24"/> <port id="pr_4bb5a2ec-dbc1-44e0-8b88-dabfe347d1bb_p2" x="27870.96" y="13736.24"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1bc33b82-6809-4c29-9ac6-fe69514f7ed6"> <bbox w="10.0" h="10.0" x="15426.914" y="4114.1875"/> <port id="pr_1bc33b82-6809-4c29-9ac6-fe69514f7ed6_p1" x="15431.914" y="4134.1875"/> <port id="pr_1bc33b82-6809-4c29-9ac6-fe69514f7ed6_p2" x="15431.914" y="4104.1875"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_b9fb3b45-8ad6-47c3-b3a7-475640e38f71"> <bbox w="10.0" h="10.0" x="15819.889" y="18445.707"/> <port id="pr_b9fb3b45-8ad6-47c3-b3a7-475640e38f71_p1" x="15824.889" y="18465.707"/> <port id="pr_b9fb3b45-8ad6-47c3-b3a7-475640e38f71_p2" x="15824.889" y="18435.707"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_59599c5f-a54c-43f2-9c8c-7ea71f68d3e0"> <bbox w="10.0" h="10.0" x="13201.473" y="10725.356"/> <port id="pr_59599c5f-a54c-43f2-9c8c-7ea71f68d3e0_p1" x="13191.473" y="10730.356"/> <port id="pr_59599c5f-a54c-43f2-9c8c-7ea71f68d3e0_p2" x="13221.473" y="10730.356"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b5266c76-832f-45cf-aa4e-81833fa6008d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> <p>PMID:19945467</p> <p>PMID:29435006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b5266c76-832f-45cf-aa4e-81833fa6008d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29435006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4657.5" y="9978.5"/> <port id="pr_b5266c76-832f-45cf-aa4e-81833fa6008d_p1" x="4647.5" y="9983.5"/> <port id="pr_b5266c76-832f-45cf-aa4e-81833fa6008d_p2" x="4677.5" y="9983.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_bce12ef4-4b57-4196-88a2-ce0f46f16aad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2181.0" y="17139.5"/> <port id="pr_bce12ef4-4b57-4196-88a2-ce0f46f16aad_p1" x="2186.0" y="17159.5"/> <port id="pr_bce12ef4-4b57-4196-88a2-ce0f46f16aad_p2" x="2186.0" y="17129.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5377ea57-20c0-4235-baec-194f4fc5d27d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23642.38" y="10722.75"/> <port id="pr_5377ea57-20c0-4235-baec-194f4fc5d27d_p1" x="23647.38" y="10742.75"/> <port id="pr_5377ea57-20c0-4235-baec-194f4fc5d27d_p2" x="23647.38" y="10712.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57bfc98c-3b21-4742-aadb-f2841f8868b0"> <bbox w="10.0" h="10.0" x="23810.271" y="15968.25"/> <port id="pr_57bfc98c-3b21-4742-aadb-f2841f8868b0_p1" x="23815.271" y="15988.25"/> <port id="pr_57bfc98c-3b21-4742-aadb-f2841f8868b0_p2" x="23815.271" y="15958.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61441e7e-f029-41f9-a1e9-956315ba100d"> <bbox w="10.0" h="10.0" x="20808.75" y="6081.25"/> <port id="pr_61441e7e-f029-41f9-a1e9-956315ba100d_p1" x="20813.75" y="6071.25"/> <port id="pr_61441e7e-f029-41f9-a1e9-956315ba100d_p2" x="20813.75" y="6101.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_25a69b99-7561-4019-b176-57a59c6499f1"> <bbox w="10.0" h="10.0" x="19621.941" y="14838.458"/> <port id="pr_25a69b99-7561-4019-b176-57a59c6499f1_p1" x="19611.941" y="14843.458"/> <port id="pr_25a69b99-7561-4019-b176-57a59c6499f1_p2" x="19641.941" y="14843.458"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_4005f459-d935-44f6-8e42-b9d64f2b4839"> <bbox w="20.0" h="20.0" x="19687.781" y="14947.255"/> <port id="logicglyph_4005f459-d935-44f6-8e42-b9d64f2b4839_p1" x="19697.781" y="14977.255"/> <port id="logicglyph_4005f459-d935-44f6-8e42-b9d64f2b4839_p2" x="19697.781" y="14937.255"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b156cd48-3fd3-4a6f-9268-5740c7cac9ff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12709442, PMID:12628935, PMID:11971963</p> </body> </html> </notes> <extension> <annotation xmlns="" 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<port id="pr_b156cd48-3fd3-4a6f-9268-5740c7cac9ff_p1" x="10820.058" y="16088.182"/> <port id="pr_b156cd48-3fd3-4a6f-9268-5740c7cac9ff_p2" x="10790.058" y="16088.182"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_2814ef17-04e1-4146-8da2-42f44357550d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5627.75" y="18757.234"/> <port id="pr_2814ef17-04e1-4146-8da2-42f44357550d_p1" x="5617.75" y="18762.234"/> <port id="pr_2814ef17-04e1-4146-8da2-42f44357550d_p2" x="5647.75" y="18762.234"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e0da98aa-5586-453e-ad14-2d6ae69ea254"> <bbox w="10.0" h="10.0" x="28814.06" y="9371.0"/> <port id="pr_e0da98aa-5586-453e-ad14-2d6ae69ea254_p1" x="28819.06" y="9361.0"/> <port 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<body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>transcription-independent apc-mediated apoptosis</p> <p>PMID:19900451, PMID:17297457</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a264a692-9ba8-4dcf-b58c-a4739a36eefb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19900451"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17297457"/> </rdf:Bag> 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id="pr_2603eb3b-1705-4b6c-affd-871ed1428e03"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22370635</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2603eb3b-1705-4b6c-affd-871ed1428e03"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370635"/> </rdf:Bag> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10671551 PMID:10837139</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e5ce3e08-eb30-404f-b098-d78b519abd0c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10671551"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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</glyph> <glyph class="process" orientation="horizontal" id="pr_9ad23214-2d0a-47e1-8164-987f1dbb03f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10048576</p> <p>The gene expressions of MMP-1, MMP-3, and MMP-9 and gelatinolytic activity of MMP-9 were significantly increased in high ETS-1 expression cells. </p> <p>Low ETS-1 expression cells could not spread on a vitronectin substratum, and the phosphorylation of focal adhesion kinase was markedly impaired because of the reduced expression of integrin b3</p> <p>PMID:19208835</p> <p>TCF8 (ZEB1) regulates cell invasion and migration via MMP1 expression.</p> <p>TCF8 is likely to be dispensable for endothelial cell motility.</p> <p>One possible mechanism underlying the increased invasiveness and migration might be the up-regulated digestion of ECMs via TCF8-mediated transcriptional regulation of the gene encoding MMP1. </p> <p>MMP1 induction during tube formation was significantly enhanced in Matrigel when TCF8 was silenced</p> <p>PMID:21081489</p> <p>MiR-200b Regulates Ets-1-associated Genes</p> <p>Suppression of endogenous miR-200b induced MMP-1 and VEGFR2 expressions</p> <p>Overexpression of Ets-1 did not completely reverse miR- 200b-associated MMP-1 and VEGFR2 down-regulation. </p> <p>It indicates that miR-200b, apart from targeting Ets-1, might silence other target proteins involved in transcription of the indicated genes.</p> <p>PMID:20589835</p> <p>Our results indicate that MT1-MMP is a direct down-stream target in the Wnt signaling pathway, and that one of the ways accumulated beta-catenin contributes to colorectal carcinogenesis is by transactivating this gene.</p> <p>MT1-MMP is one target gene of Lef-1/Tcf-4 (Takahashi et al, 2002)</p> <p>PMID:22439866</p> <p>c-Myb strongly increased the expression/activity of cathepsin D and matrix metalloproteinase (MMP) 9 and significantly downregulated MMP1.</p> <p>PMID:9811054</p> <p>Nuclear factor kappaB/p50 activates an element in the distal matrix metalloproteinase 1 promoter in interleukin-1beta-stimulated synovial fibroblasts.</p> <p>PMID:16556862</p> <p>ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groups</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ad23214-2d0a-47e1-8164-987f1dbb03f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10048576"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19208835"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23986.686" y="16471.5"/> <port id="pr_232babdf-f0e8-4dad-8216-ba630409dc53_p1" x="23991.686" y="16491.5"/> <port id="pr_232babdf-f0e8-4dad-8216-ba630409dc53_p2" x="23991.686" y="16461.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1935010f-f630-4360-b810-862abdc327dc"> <bbox w="10.0" h="10.0" x="4235.0" y="4641.0"/> <port id="pr_1935010f-f630-4360-b810-862abdc327dc_p1" x="4240.0" y="4631.0"/> <port id="pr_1935010f-f630-4360-b810-862abdc327dc_p2" x="4240.0" y="4661.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9787f95c-5335-4482-a8d7-869f3c34b061"> <bbox w="10.0" h="10.0" x="19172.06" y="16859.5"/> <port id="pr_9787f95c-5335-4482-a8d7-869f3c34b061_p1" x="19177.06" y="16849.5"/> <port id="pr_9787f95c-5335-4482-a8d7-869f3c34b061_p2" x="19177.06" y="16879.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ccfab22c-b793-452f-96db-7347d55aac13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9535722 </p> <p>IL13 induces phosporylation of IRS2 and PLCG1 which is probably a PLC responsible for downstream IL13 dependent Ca2+ mobilization signaling and assosiation of IRS2 and PLCG1</p> <p>PMID:7890616</p> <p>PCL (probably PCLG1) induces t hydrolysis of phosphoinositides and activates InsP3-induced intracellular Ca2+ release downstream of IL13.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1949.9744" y="18613.375"/> <port id="pr_4a9b69ba-b4f2-4b45-a430-32bf989ce84b_p1" x="1939.9744" y="18618.375"/> <port id="pr_4a9b69ba-b4f2-4b45-a430-32bf989ce84b_p2" x="1969.9744" y="18618.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_36b89bff-9a48-4da1-a0fb-1d8670068c54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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orientation="horizontal" id="pr_e2647426-128a-41cd-91aa-7f256b99b0a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25897829</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e2647426-128a-41cd-91aa-7f256b99b0a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25897829"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MRN complex:</p> <p>PMID:16531125, PMID:17303408</p> <p>Double strand breaks sensor. </p> <p>MRN complex association is a first event after the DNA damage.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1daf754f-31d5-4c0c-9a8e-053f9f7191e5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16531125"/> </rdf:Bag> </bqbiol:isEncodedBy> 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x="846.97614" y="4080.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6fa84989-bce0-444b-8874-5e64df78ef82"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activation of MEKK2 and MEKK3 is assumed to follow the same mechanisms of MEKK1 activation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10274.043" y="19489.0"/> <port id="pr_6fa84989-bce0-444b-8874-5e64df78ef82_p1" x="10279.043" y="19479.0"/> <port id="pr_6fa84989-bce0-444b-8874-5e64df78ef82_p2" x="10279.043" y="19509.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ab4c5fc-a719-4f42-b009-0f276a39e036"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16585195</p> <p>in Hela cells, BNIP3 expression upon hypoxia is impaired by siRNA against HIF1</p> <p>PMID:18054315</p> <p>PMID:11559532</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ab4c5fc-a719-4f42-b009-0f276a39e036"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16585195"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18054315"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11559532"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19131971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1133c7ce-2254-4c39-b4a0-a0c7a8ee6d8c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18733.56" y="21808.5"/> <port id="pr_1133c7ce-2254-4c39-b4a0-a0c7a8ee6d8c_p1" x="18738.56" y="21798.5"/> <port id="pr_1133c7ce-2254-4c39-b4a0-a0c7a8ee6d8c_p2" x="18738.56" y="21828.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef6d177a-3c6a-4884-b236-24f4970e98a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:17012742</p> <p>Without LIN7, PALS1 is instable and degraded. Binding of LIN7 to PALS1 stabilizes the latter.</p> <p>Loss of Lin7 correlates with the lost of PALS1 expression (translation) but the level of mRNA-PALS1 is not changed (transcription). </p> <p>The effect is rescued by exogenous LIN7 containing L27 but not PGZ domain</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ef6d177a-3c6a-4884-b236-24f4970e98a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17012742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1951.5" y="14769.5"/> <port id="pr_ef6d177a-3c6a-4884-b236-24f4970e98a4_p1" x="1971.5" y="14774.5"/> <port id="pr_ef6d177a-3c6a-4884-b236-24f4970e98a4_p2" x="1941.5" y="14774.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_dc98a068-94d9-41f1-a3cd-ef4052ac90f9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218262</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dc98a068-94d9-41f1-a3cd-ef4052ac90f9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218262"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.311" y="20883.0"/> <port id="pr_dc98a068-94d9-41f1-a3cd-ef4052ac90f9_p1" x="12677.311" y="20888.0"/> <port id="pr_dc98a068-94d9-41f1-a3cd-ef4052ac90f9_p2" x="12707.311" y="20888.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_d3873236-d2ec-49f2-8ffb-3703d67068e6"> <bbox w="20.0" h="20.0" x="12693.327" y="20908.38"/> <port id="logicglyph_d3873236-d2ec-49f2-8ffb-3703d67068e6_p1" x="12703.327" y="20938.38"/> <port id="logicglyph_d3873236-d2ec-49f2-8ffb-3703d67068e6_p2" x="12703.327" y="20898.38"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f811223-67ae-455b-be15-a2b8a0cc1db1"> <bbox w="10.0" h="10.0" x="21781.25" y="5275.0"/> <port id="pr_2f811223-67ae-455b-be15-a2b8a0cc1db1_p1" x="21786.25" y="5265.0"/> <port id="pr_2f811223-67ae-455b-be15-a2b8a0cc1db1_p2" x="21786.25" y="5295.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9604e488-3f2a-4618-b30a-ab262a452d18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9604e488-3f2a-4618-b30a-ab262a452d18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4587.0" y="12344.0"/> <port id="pr_9604e488-3f2a-4618-b30a-ab262a452d18_p1" x="4592.0" y="12334.0"/> <port id="pr_9604e488-3f2a-4618-b30a-ab262a452d18_p2" x="4592.0" y="12364.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3de108e8-b5c6-41b2-adbd-327c2c44169a"> <bbox w="10.0" h="10.0" x="18035.31" y="10357.5"/> <port id="pr_3de108e8-b5c6-41b2-adbd-327c2c44169a_p1" x="18040.31" y="10377.5"/> <port id="pr_3de108e8-b5c6-41b2-adbd-327c2c44169a_p2" x="18040.31" y="10347.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9091db81-e781-4721-9171-b9b22055bc81"> <bbox w="10.0" h="10.0" x="6965.0" y="3425.0"/> <port id="pr_9091db81-e781-4721-9171-b9b22055bc81_p1" x="6970.0" y="3415.0"/> <port id="pr_9091db81-e781-4721-9171-b9b22055bc81_p2" x="6970.0" y="3445.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_34e76834-56c2-4515-9e07-107a8a892b34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2268.5" y="16734.0"/> <port id="pr_34e76834-56c2-4515-9e07-107a8a892b34_p1" x="2258.5" y="16739.0"/> <port id="pr_34e76834-56c2-4515-9e07-107a8a892b34_p2" x="2288.5" y="16739.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6aeb21c2-b6ad-4fa2-8ef2-d44c2ac6a05e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16166262</p> <p>PMID:23070007</p> <p>in chronic lymphocytic leukemia human cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6aeb21c2-b6ad-4fa2-8ef2-d44c2ac6a05e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16166262"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23070007"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21964.58" y="15709.75"/> <port id="pr_6aeb21c2-b6ad-4fa2-8ef2-d44c2ac6a05e_p1" x="21954.58" y="15714.75"/> <port id="pr_6aeb21c2-b6ad-4fa2-8ef2-d44c2ac6a05e_p2" x="21984.58" y="15714.75"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_ecd464fe-a30e-43ba-ab23-d24a8e5f67fb"> <bbox w="20.0" h="20.0" x="19761.436" y="15615.411"/> <port id="logicglyph_ecd464fe-a30e-43ba-ab23-d24a8e5f67fb_p1" x="19751.436" y="15625.411"/> <port id="logicglyph_ecd464fe-a30e-43ba-ab23-d24a8e5f67fb_p2" x="19791.436" y="15625.411"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_48adc7b0-d040-4f4f-84fa-b4ede46c4cfd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15684387</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_48adc7b0-d040-4f4f-84fa-b4ede46c4cfd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15684387"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19483.56" y="16449.0"/> <port id="pr_48adc7b0-d040-4f4f-84fa-b4ede46c4cfd_p1" x="19473.56" y="16454.0"/> <port id="pr_48adc7b0-d040-4f4f-84fa-b4ede46c4cfd_p2" x="19503.56" y="16454.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cc349138-ae38-4913-bf79-e94aee3c72ee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22705350</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cc349138-ae38-4913-bf79-e94aee3c72ee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22705350"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23597.56" y="18510.934"/> <port id="pr_cc349138-ae38-4913-bf79-e94aee3c72ee_p1" x="23587.56" y="18515.934"/> <port id="pr_cc349138-ae38-4913-bf79-e94aee3c72ee_p2" x="23617.56" y="18515.934"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a6568c3-3385-4080-b298-4fd1132b099f"> <bbox w="10.0" h="10.0" x="27994.2" y="13993.25"/> <port id="pr_5a6568c3-3385-4080-b298-4fd1132b099f_p1" x="27999.2" y="13983.25"/> <port id="pr_5a6568c3-3385-4080-b298-4fd1132b099f_p2" x="27999.2" y="14013.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6d103136-5a66-47f7-805a-5ece27ceea4f"> <bbox w="10.0" h="10.0" x="14004.311" y="21246.5"/> <port id="pr_6d103136-5a66-47f7-805a-5ece27ceea4f_p1" x="14024.311" y="21251.5"/> <port id="pr_6d103136-5a66-47f7-805a-5ece27ceea4f_p2" x="13994.311" y="21251.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a226452f-ed7c-448e-bc3e-b689c6e98aa9"> <bbox w="10.0" h="10.0" x="29214.56" y="9674.0"/> <port id="pr_a226452f-ed7c-448e-bc3e-b689c6e98aa9_p1" x="29204.56" y="9679.0"/> <port id="pr_a226452f-ed7c-448e-bc3e-b689c6e98aa9_p2" x="29234.56" y="9679.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9dc5c843-4f3c-4410-9122-dfe311701b5b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9dc5c843-4f3c-4410-9122-dfe311701b5b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9008.264" y="20621.5"/> <port id="pr_9dc5c843-4f3c-4410-9122-dfe311701b5b_p1" x="9013.264" y="20641.5"/> <port id="pr_9dc5c843-4f3c-4410-9122-dfe311701b5b_p2" x="9013.264" y="20611.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e3331d4b-028b-41ce-ac36-7e58e2581a41"> <bbox w="10.0" h="10.0" x="19700.86" y="14954.75"/> <port id="pr_e3331d4b-028b-41ce-ac36-7e58e2581a41_p1" x="19705.86" y="14974.75"/> <port id="pr_e3331d4b-028b-41ce-ac36-7e58e2581a41_p2" x="19705.86" y="14944.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1b9b1451-4d45-4160-b677-e01d7346cd46"> <bbox w="10.0" h="10.0" x="19996.56" y="14999.0"/> <port id="pr_1b9b1451-4d45-4160-b677-e01d7346cd46_p1" x="20016.56" y="15004.0"/> <port id="pr_1b9b1451-4d45-4160-b677-e01d7346cd46_p2" x="19986.56" y="15004.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_574fa73c-9dcc-4924-b517-3707586b8d0b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22371.31" y="11913.375"/> <port id="pr_574fa73c-9dcc-4924-b517-3707586b8d0b_p1" x="22376.31" y="11903.375"/> <port id="pr_574fa73c-9dcc-4924-b517-3707586b8d0b_p2" x="22376.31" y="11933.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6abeecbe-e827-40cb-93cd-21c084cca472"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6abeecbe-e827-40cb-93cd-21c084cca472"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6493.048" y="10396.5"/> <port id="pr_6abeecbe-e827-40cb-93cd-21c084cca472_p1" x="6498.048" y="10416.5"/> <port id="pr_6abeecbe-e827-40cb-93cd-21c084cca472_p2" x="6498.048" y="10386.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cc7d8789-73d8-4c0d-8805-76ed91c3a30b"> <bbox w="10.0" h="10.0" x="23955.633" y="21383.121"/> <port id="pr_cc7d8789-73d8-4c0d-8805-76ed91c3a30b_p1" x="23945.633" y="21388.121"/> <port id="pr_cc7d8789-73d8-4c0d-8805-76ed91c3a30b_p2" x="23975.633" y="21388.121"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c5b97f0e-1323-47ed-915c-1c598903d200"> <bbox w="10.0" h="10.0" x="24306.201" y="4974.578"/> <port id="pr_c5b97f0e-1323-47ed-915c-1c598903d200_p1" x="24311.201" y="4994.578"/> <port id="pr_c5b97f0e-1323-47ed-915c-1c598903d200_p2" x="24311.201" y="4964.578"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9707258d-4e81-424e-adb0-c1e73539c55e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15199147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9707258d-4e81-424e-adb0-c1e73539c55e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15199147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24531.508" y="16160.705"/> <port id="pr_9707258d-4e81-424e-adb0-c1e73539c55e_p1" x="24536.508" y="16180.705"/> <port id="pr_9707258d-4e81-424e-adb0-c1e73539c55e_p2" x="24536.508" y="16150.705"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_9a3d143e-d91c-4460-8660-64fdaf90fa92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4899.2197" y="18616.062"/> <port id="pr_9a3d143e-d91c-4460-8660-64fdaf90fa92_p1" x="4889.2197" y="18621.062"/> <port id="pr_9a3d143e-d91c-4460-8660-64fdaf90fa92_p2" x="4919.2197" y="18621.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dac8f82f-f1ad-4556-8f3c-188c1e8826fa"> <bbox w="10.0" h="10.0" x="27616.525" y="8260.25"/> <port id="pr_dac8f82f-f1ad-4556-8f3c-188c1e8826fa_p1" x="27621.525" y="8280.25"/> <port id="pr_dac8f82f-f1ad-4556-8f3c-188c1e8826fa_p2" x="27621.525" y="8250.25"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_4b466b4f-f19e-4061-be58-566b9d8fbbc7"> <bbox w="20.0" h="20.0" x="28529.0" y="5408.6665"/> <port id="logicglyph_4b466b4f-f19e-4061-be58-566b9d8fbbc7_p1" x="28539.0" y="5398.6665"/> <port id="logicglyph_4b466b4f-f19e-4061-be58-566b9d8fbbc7_p2" x="28539.0" y="5438.6665"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_56f5ec31-bb94-4d48-9690-b921588ebba1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25204.06" y="14309.0"/> <port id="pr_56f5ec31-bb94-4d48-9690-b921588ebba1_p1" x="25224.06" y="14314.0"/> <port id="pr_56f5ec31-bb94-4d48-9690-b921588ebba1_p2" x="25194.06" y="14314.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2a10c19e-1526-40cf-9a7f-cc22fb88f6d0"> <bbox w="10.0" h="10.0" x="27276.326" y="16094.5"/> <port id="pr_2a10c19e-1526-40cf-9a7f-cc22fb88f6d0_p1" x="27281.326" y="16114.5"/> <port id="pr_2a10c19e-1526-40cf-9a7f-cc22fb88f6d0_p2" x="27281.326" y="16084.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_78c6cf26-5c4d-4916-abb7-01f32cfc24e9"> <bbox w="10.0" h="10.0" x="10260.648" y="565.625"/> <port id="pr_78c6cf26-5c4d-4916-abb7-01f32cfc24e9_p1" x="10265.648" y="555.625"/> <port 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id="pr_198929cd-4019-4c0b-b352-5adcba732da2_p2" x="27427.582" y="6968.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a5ab79e1-1cfc-4eef-96ce-0bdd0715559a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:14633674</p> <p>DLC1as a GAP of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a5ab79e1-1cfc-4eef-96ce-0bdd0715559a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14633674"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6562.549" y="14292.307"/> <port id="pr_a5ab79e1-1cfc-4eef-96ce-0bdd0715559a_p1" x="6552.549" y="14297.307"/> <port id="pr_a5ab79e1-1cfc-4eef-96ce-0bdd0715559a_p2" x="6582.549" y="14297.307"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_039609c0-182b-4799-bb83-b339a61bcaf0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2440.0" y="19018.5"/> <port id="pr_039609c0-182b-4799-bb83-b339a61bcaf0_p1" x="2445.0" y="19008.5"/> <port id="pr_039609c0-182b-4799-bb83-b339a61bcaf0_p2" x="2445.0" y="19038.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d64d15ee-3168-4788-84f2-d6e0a8e63cdf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11500365</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<port id="pr_ea0e2561-847d-4084-bd2c-22ae35c26012_p2" x="20255.0" y="7440.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6f1ccec-6676-4e9b-b008-62bfef1bf525"> <bbox w="10.0" h="10.0" x="13174.061" y="20461.0"/> <port id="pr_a6f1ccec-6676-4e9b-b008-62bfef1bf525_p1" x="13179.061" y="20451.0"/> <port id="pr_a6f1ccec-6676-4e9b-b008-62bfef1bf525_p2" x="13179.061" y="20481.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64292ce7-2b18-4ad8-bb3a-8c7ded5efb57"> <bbox w="10.0" h="10.0" x="27239.25" y="4909.0"/> <port id="pr_64292ce7-2b18-4ad8-bb3a-8c7ded5efb57_p1" x="27244.25" y="4899.0"/> <port id="pr_64292ce7-2b18-4ad8-bb3a-8c7ded5efb57_p2" x="27244.25" y="4929.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c5a3eaff-b53b-4170-95b7-03bf30896170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:15087129</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c5a3eaff-b53b-4170-95b7-03bf30896170"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15087129"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21109.0"/> <port id="pr_c5a3eaff-b53b-4170-95b7-03bf30896170_p1" x="26547.56" y="21114.0"/> <port id="pr_c5a3eaff-b53b-4170-95b7-03bf30896170_p2" x="26577.56" y="21114.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cd642626-609c-4999-a46c-848ed75e94c7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activation of P38 by TGF-?? is mediated mainly by Smad-dependent GADD45?? expression and by its subsequent activation of MTK1.</p> <p>PMID:21614932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cd642626-609c-4999-a46c-848ed75e94c7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11134.811" y="20680.75"/> <port id="pr_cd642626-609c-4999-a46c-848ed75e94c7_p1" x="11154.811" y="20685.75"/> <port id="pr_cd642626-609c-4999-a46c-848ed75e94c7_p2" x="11124.811" y="20685.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a12ad80-825c-451f-82bc-5313c321f6ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1095.125" y="15157.0"/> <port id="pr_9a12ad80-825c-451f-82bc-5313c321f6ce_p1" x="1100.125" y="15147.0"/> <port id="pr_9a12ad80-825c-451f-82bc-5313c321f6ce_p2" x="1100.125" y="15177.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ecb9979d-1194-43fb-ba5c-87427923f75e"> <bbox w="10.0" h="10.0" x="27869.06" y="9961.387"/> <port id="pr_ecb9979d-1194-43fb-ba5c-87427923f75e_p1" x="27889.06" y="9966.387"/> <port id="pr_ecb9979d-1194-43fb-ba5c-87427923f75e_p2" x="27859.06" y="9966.387"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3662b530-bc82-4d9c-8c55-0c848b3fa148"> <bbox w="10.0" h="10.0" x="3730.0" y="2295.0"/> <port id="pr_3662b530-bc82-4d9c-8c55-0c848b3fa148_p1" x="3735.0" y="2285.0"/> <port id="pr_3662b530-bc82-4d9c-8c55-0c848b3fa148_p2" x="3735.0" y="2315.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e16f203d-c433-40a7-b43c-ea268b1bc5ae"> <bbox w="10.0" h="10.0" x="12760.5" y="3705.65"/> <port id="pr_e16f203d-c433-40a7-b43c-ea268b1bc5ae_p1" x="12750.5" y="3710.65"/> <port id="pr_e16f203d-c433-40a7-b43c-ea268b1bc5ae_p2" x="12780.5" y="3710.65"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fd43aba8-a6c6-4a6a-9f06-23a9a7462c14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>Each TGFB gene encodes a preproprotein sequence consisting of a signal peptide, a propeptide (LAP) and the mature TGFB</p> <p>After translocation into the endoplamic reticulum, TGFB proprotein monomers form homomdimers liked by disulfide bonds, forming pro-TGFB</p> <p>In the Golgi, the prodomains undergo glycosylation.</p> <p>Also in the Golgi, FURIN hydolyzes the leavage site from LAP, creating TGFB and LAP-derived homodimers</p> <p>The 2 homodimers remain noncovalently associated and are secreted.</p> <p>The LAP-derived homodimer prevents TGFB from binding TGFB receptors.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fd43aba8-a6c6-4a6a-9f06-23a9a7462c14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20519943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16474430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14557817"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1053.2959" y="18829.5"/> <port id="pr_fd43aba8-a6c6-4a6a-9f06-23a9a7462c14_p1" x="1058.2959" y="18819.5"/> <port id="pr_fd43aba8-a6c6-4a6a-9f06-23a9a7462c14_p2" x="1058.2959" y="18849.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5a9fc426-0546-471f-bae8-bb58f89fd728"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2265.5315" y="16676.0"/> <port id="pr_5a9fc426-0546-471f-bae8-bb58f89fd728_p1" x="2255.5315" y="16681.0"/> <port id="pr_5a9fc426-0546-471f-bae8-bb58f89fd728_p2" x="2285.5315" y="16681.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_39130f7c-8bb5-4fad-b0b4-b185283aefd5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3776.442" y="14539.224"/> <port id="pr_39130f7c-8bb5-4fad-b0b4-b185283aefd5_p1" x="3766.442" y="14544.224"/> <port id="pr_39130f7c-8bb5-4fad-b0b4-b185283aefd5_p2" x="3796.442" y="14544.224"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d68f82d-d2f3-491a-8401-0c717f519a38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21606194</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1d68f82d-d2f3-491a-8401-0c717f519a38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21093.637" y="18520.625"/> <port id="pr_1d68f82d-d2f3-491a-8401-0c717f519a38_p1" x="21098.637" y="18540.625"/> <port id="pr_1d68f82d-d2f3-491a-8401-0c717f519a38_p2" x="21098.637" y="18510.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f272a233-083f-4012-b742-676a171b2124"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BRCA1 upregulates transcription of XPC in p53 independed manner:</p> <p>PMID:10367887, PMID:10962562 </p> <p>PMID:19004803, PMID:12496474</p> <p>p53 enhances transcription of XPC:</p> <p>PMID:9892649, PMID:10779360</p> <p>p53 regulated global genomic NER at the level of DNA damage recognition involving GADD45, XPC, DDB2:</p> <p>PMID:12771027, PMID:9346961</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f272a233-083f-4012-b742-676a171b2124"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10367887"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10962562"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19004803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12496474"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9892649"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10779360"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12771027"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9346961"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15202.269" y="10406.662"/> <port id="pr_f272a233-083f-4012-b742-676a171b2124_p1" x="15192.269" y="10411.662"/> <port id="pr_f272a233-083f-4012-b742-676a171b2124_p2" x="15222.269" y="10411.662"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1aa479a0-9752-4f0f-8406-01d9f2cc3487"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1471.5" y="13960.0"/> <port id="pr_1aa479a0-9752-4f0f-8406-01d9f2cc3487_p1" x="1476.5" y="13950.0"/> <port id="pr_1aa479a0-9752-4f0f-8406-01d9f2cc3487_p2" x="1476.5" y="13980.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_795748b6-f7be-4fd3-88fe-2bf9ede68b69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18687677</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_795748b6-f7be-4fd3-88fe-2bf9ede68b69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18687677"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17921.56" y="16099.0"/> <port id="pr_795748b6-f7be-4fd3-88fe-2bf9ede68b69_p1" x="17941.56" y="16104.0"/> <port id="pr_795748b6-f7be-4fd3-88fe-2bf9ede68b69_p2" x="17911.56" y="16104.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_da2528f6-b158-410d-bef3-0701ead8a423"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5774.335" y="14890.75"/> <port id="pr_da2528f6-b158-410d-bef3-0701ead8a423_p1" x="5764.335" y="14895.75"/> <port id="pr_da2528f6-b158-410d-bef3-0701ead8a423_p2" x="5794.335" y="14895.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b9ff4e34-4a2d-4ff8-b772-a72a42884284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6107.875" y="14886.186"/> <port id="pr_b9ff4e34-4a2d-4ff8-b772-a72a42884284_p1" x="6127.875" y="14891.186"/> <port id="pr_b9ff4e34-4a2d-4ff8-b772-a72a42884284_p2" x="6097.875" y="14891.186"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9d1d888-5611-4a2a-bd6d-00b80dae6428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29556339</p> </body> </html> </notes> <extension> <annotation 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id="pr_e95fee59-5b00-4275-a25f-f8ca1a919838"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22825514</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e95fee59-5b00-4275-a25f-f8ca1a919838"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22825514"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5889.25" y="9784.0"/> <port id="pr_e95fee59-5b00-4275-a25f-f8ca1a919838_p1" x="5894.25" y="9774.0"/> <port id="pr_e95fee59-5b00-4275-a25f-f8ca1a919838_p2" x="5894.25" y="9804.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_996e9973-479f-4339-9797-bf224c5f8d14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Ubiquitination increases binding of APC with AXIN. </p> <p>PMID:23277359</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11124803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9dd6a967-fc73-4c0d-8c9e-63864d077dde"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11124803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13903.561" y="20603.152"/> <port id="pr_9dd6a967-fc73-4c0d-8c9e-63864d077dde_p1" x="13893.561" y="20608.152"/> <port id="pr_9dd6a967-fc73-4c0d-8c9e-63864d077dde_p2" x="13923.561" y="20608.152"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_4fe41d7d-24c4-48e6-a3cb-804c0710b223"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3900.3728" y="16921.5"/> <port id="pr_4fe41d7d-24c4-48e6-a3cb-804c0710b223_p1" x="3905.3728" y="16941.5"/> <port id="pr_4fe41d7d-24c4-48e6-a3cb-804c0710b223_p2" x="3905.3728" y="16911.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d4843ce-1ef1-40c9-9f2b-c0fdac48bc74"> <bbox w="10.0" h="10.0" x="15048.75" y="2155.0"/> <port id="pr_4d4843ce-1ef1-40c9-9f2b-c0fdac48bc74_p1" x="15038.75" y="2160.0"/> <port id="pr_4d4843ce-1ef1-40c9-9f2b-c0fdac48bc74_p2" x="15068.75" y="2160.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bd796fe2-c705-4f5d-baad-c1f03e256f12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16227588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bd796fe2-c705-4f5d-baad-c1f03e256f12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16227588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27997.883" y="11205.762"/> <port id="pr_bd796fe2-c705-4f5d-baad-c1f03e256f12_p1" x="28002.883" y="11195.762"/> <port id="pr_bd796fe2-c705-4f5d-baad-c1f03e256f12_p2" x="28002.883" y="11225.762"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bee74571-8cd3-4ad2-b70d-92c5498a0586"> <bbox w="10.0" h="10.0" x="3835.8438" y="5409.802"/> <port id="pr_bee74571-8cd3-4ad2-b70d-92c5498a0586_p1" x="3855.8438" y="5414.802"/> <port id="pr_bee74571-8cd3-4ad2-b70d-92c5498a0586_p2" x="3825.8438" y="5414.802"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da38ff43-2386-4150-a34a-994f8c86cec3"> <bbox w="10.0" h="10.0" x="4142.647" y="3690.0"/> <port id="pr_da38ff43-2386-4150-a34a-994f8c86cec3_p1" x="4147.647" y="3680.0"/> <port id="pr_da38ff43-2386-4150-a34a-994f8c86cec3_p2" x="4147.647" y="3710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6c7201d-6376-4792-9a2c-4a97f24dede1"> <bbox w="10.0" h="10.0" x="21229.42" y="15938.186"/> <port id="pr_a6c7201d-6376-4792-9a2c-4a97f24dede1_p1" x="21234.42" y="15958.186"/> <port id="pr_a6c7201d-6376-4792-9a2c-4a97f24dede1_p2" x="21234.42" y="15928.186"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_003ea2f8-f224-4ea3-9681-11f4b60648be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22370643</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_003ea2f8-f224-4ea3-9681-11f4b60648be"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370643"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3641.0" y="17415.762"/> <port id="pr_003ea2f8-f224-4ea3-9681-11f4b60648be_p1" x="3631.0" y="17420.762"/> <port id="pr_003ea2f8-f224-4ea3-9681-11f4b60648be_p2" x="3661.0" y="17420.762"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_32f8d4e2-6e3c-4b25-86d5-8cf7c7ac2043"> <bbox w="10.0" h="10.0" x="13703.561" y="21359.0"/> <port id="pr_32f8d4e2-6e3c-4b25-86d5-8cf7c7ac2043_p1" x="13723.561" y="21364.0"/> <port id="pr_32f8d4e2-6e3c-4b25-86d5-8cf7c7ac2043_p2" x="13693.561" y="21364.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0454b892-473b-47d7-a2a4-d6d20e2c5817"> <bbox w="10.0" h="10.0" x="29483.5" y="5800.0"/> <port id="pr_0454b892-473b-47d7-a2a4-d6d20e2c5817_p1" x="29488.5" y="5820.0"/> <port id="pr_0454b892-473b-47d7-a2a4-d6d20e2c5817_p2" x="29488.5" y="5790.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5375d474-6cf3-4dcd-861d-ff70f9e61efd"> <bbox w="10.0" h="10.0" x="20535.0" y="455.0"/> <port id="pr_5375d474-6cf3-4dcd-861d-ff70f9e61efd_p1" x="20540.0" y="445.0"/> <port id="pr_5375d474-6cf3-4dcd-861d-ff70f9e61efd_p2" x="20540.0" y="475.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e8a33192-e4ae-40b6-b9b5-cf7767bd126e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23589069</p> <p>PMID:22131018</p> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:17192274</p> <p>PMID:27452906</p> <p>PMID:24403062</p> <p>PMID:29556339</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e8a33192-e4ae-40b6-b9b5-cf7767bd126e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23589069"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22131018"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17192274"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29556339"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4413.0" y="10927.0"/> <port id="pr_e8a33192-e4ae-40b6-b9b5-cf7767bd126e_p1" x="4403.0" y="10932.0"/> <port id="pr_e8a33192-e4ae-40b6-b9b5-cf7767bd126e_p2" x="4433.0" y="10932.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_086f0b4f-5c8c-431c-943a-214ee6c1f147"> <bbox w="20.0" h="20.0" x="4433.5" y="10839.495"/> <port id="logicglyph_086f0b4f-5c8c-431c-943a-214ee6c1f147_p1" x="4443.5" y="10829.495"/> <port id="logicglyph_086f0b4f-5c8c-431c-943a-214ee6c1f147_p2" x="4443.5" y="10869.495"/> </glyph> <glyph class="process" orientation="vertical" id="pr_226a237d-42de-40b6-a69d-fc590cd4bd34"> <bbox w="10.0" h="10.0" x="19847.818" y="1503.0"/> <port id="pr_226a237d-42de-40b6-a69d-fc590cd4bd34_p1" x="19852.818" y="1523.0"/> <port id="pr_226a237d-42de-40b6-a69d-fc590cd4bd34_p2" x="19852.818" y="1493.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_11b90223-d7af-46e2-8d1b-45223327f2eb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="14395.09" y="16381.5"/> <port id="pr_11b90223-d7af-46e2-8d1b-45223327f2eb_p1" x="14415.09" y="16386.5"/> <port id="pr_11b90223-d7af-46e2-8d1b-45223327f2eb_p2" x="14385.09" y="16386.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8316ac73-f598-45f1-a776-ac615709eaea"> <bbox w="10.0" h="10.0" x="8029.0986" y="15406.84"/> <port id="pr_8316ac73-f598-45f1-a776-ac615709eaea_p1" x="8034.0986" y="15396.84"/> <port id="pr_8316ac73-f598-45f1-a776-ac615709eaea_p2" x="8034.0986" y="15426.84"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_71221ca1-3799-4113-917c-4bd885d64d0a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10581160</p> <p>PMID:17318175</p> <p>PMID:10421629</p> <p>Recruitment of CTNNB1 via the degradation complex of APC/AXIN1 is regulated by a series of ordered phosphorylation events.</p> <p>Phosphorylation of AXIN1 by CSNK1 (casein kinase 1) and GSK3B can increase axin binding to CTNNB1.</p> <p>PMID:8638126</p> <p>PMID:11487578</p> <p>PMID:15327768</p> <p>AXIN1 also promotes phosphorylation of APC by CSNK1 and GSK3B.</p> <p>Phosphorylated APC has higher affinity to CTNNB1.</p> <p>PMID:12554650</p> <p>Finally, these phosphorylation events allo CTNNB1 to be a more efficient substrate of both CSNK1 (at S45) and the GSK3B (at T41, S33, S37).</p> <p>The affinity of phosphorylated APC to CTNNB1 is higher than that of phosphorylated AXIN1. </p> <p>Therefore upon phosphorylation, APC can displace AXIN1 from CTNNB1, allowing AXIN1 to bind another molecule of CTNNB1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_71221ca1-3799-4113-917c-4bd885d64d0a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10421629"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8638126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11487578"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327768"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12554650"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1708.75" y="16073.5"/> <port id="pr_71221ca1-3799-4113-917c-4bd885d64d0a_p1" x="1698.75" y="16078.5"/> <port id="pr_71221ca1-3799-4113-917c-4bd885d64d0a_p2" x="1728.75" y="16078.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_49e920ea-fcca-4d7e-940f-08af32727ca4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11283613</p> <p>Miz-1 regulates expression of p15INK4b</p> <p>A Myc–Miz-1 complex binds to the p15 promoter</p> <p>Myc inhibits binding of p300 to Miz-1</p> <p>Myc inhibits expression of p15INK4B by binding to Miz-1 (Myc represses p15INK4B by interacting with Miz1)</p> <p>PMID:11283614</p> <p>Miz1: a Myc-interacting Zinc-finger protein that recognizes certain transcriptional initiator elements</p> <p>One of this transcriptional initiator element contains the sequence 5'-CCCACTCTGC corresponding to the p15INK4B transcriptional intiator</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_49e920ea-fcca-4d7e-940f-08af32727ca4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283613"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> 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id="pr_55d17564-1d6b-46af-aa24-ebbf80337c14"> <bbox w="10.0" h="10.0" x="28096.014" y="13245.625"/> <port id="pr_55d17564-1d6b-46af-aa24-ebbf80337c14_p1" x="28101.014" y="13235.625"/> <port id="pr_55d17564-1d6b-46af-aa24-ebbf80337c14_p2" x="28101.014" y="13265.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bc308058-1cca-49a1-99ba-f5be897abc5f"> <bbox w="10.0" h="10.0" x="6546.947" y="7729.553"/> <port id="pr_bc308058-1cca-49a1-99ba-f5be897abc5f_p1" x="6551.947" y="7749.553"/> <port id="pr_bc308058-1cca-49a1-99ba-f5be897abc5f_p2" x="6551.947" y="7719.553"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_375ded6a-2df4-47fe-99ea-84fc2a398c68"> <bbox w="10.0" h="10.0" x="20895.877" y="15573.609"/> <port id="pr_375ded6a-2df4-47fe-99ea-84fc2a398c68_p1" x="20915.877" y="15578.609"/> <port id="pr_375ded6a-2df4-47fe-99ea-84fc2a398c68_p2" x="20885.877" y="15578.609"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4ad633b9-d489-4e15-8578-8ee0dc000056"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14614132</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4ad633b9-d489-4e15-8578-8ee0dc000056"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14614132"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25401.56" y="12664.0"/> <port id="pr_4ad633b9-d489-4e15-8578-8ee0dc000056_p1" x="25391.56" y="12669.0"/> <port id="pr_4ad633b9-d489-4e15-8578-8ee0dc000056_p2" x="25421.56" y="12669.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_45938461-ad20-482b-8690-e957de50e3fe"> <bbox w="10.0" h="10.0" x="27534.06" y="14384.0"/> <port id="pr_45938461-ad20-482b-8690-e957de50e3fe_p1" x="27524.06" y="14389.0"/> <port id="pr_45938461-ad20-482b-8690-e957de50e3fe_p2" x="27554.06" y="14389.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_151e16a0-7ea7-452d-9230-ba23eaeea174"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> <p>PMID:19945467</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_151e16a0-7ea7-452d-9230-ba23eaeea174"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3334.6875" y="9808.5625"/> <port id="pr_151e16a0-7ea7-452d-9230-ba23eaeea174_p1" x="3324.6875" y="9813.5625"/> <port id="pr_151e16a0-7ea7-452d-9230-ba23eaeea174_p2" x="3354.6875" y="9813.5625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3fa880be-3c61-4fd2-8abb-e3ca73bb248b"> <bbox w="10.0" h="10.0" x="19486.06" y="15672.0"/> <port id="pr_3fa880be-3c61-4fd2-8abb-e3ca73bb248b_p1" x="19476.06" y="15677.0"/> <port id="pr_3fa880be-3c61-4fd2-8abb-e3ca73bb248b_p2" x="19506.06" y="15677.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a33f87c3-76ed-4097-aef2-7480c104bd3b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18398454</p> <p>PMID:16449207</p> <p>RECQL5 activates BER via XRCC1 and PARP1</p> <p>PMID:22973052</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a33f87c3-76ed-4097-aef2-7480c104bd3b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18398454"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16449207"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22973052"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9487.683" y="16786.896"/> <port id="pr_a33f87c3-76ed-4097-aef2-7480c104bd3b_p1" x="9507.683" y="16791.896"/> <port id="pr_a33f87c3-76ed-4097-aef2-7480c104bd3b_p2" x="9477.683" y="16791.896"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8cd8b567-69ed-497b-8a30-9ca4aa769274"> <bbox w="10.0" h="10.0" x="27141.0" y="2550.0"/> <port id="pr_8cd8b567-69ed-497b-8a30-9ca4aa769274_p1" x="27146.0" y="2570.0"/> <port id="pr_8cd8b567-69ed-497b-8a30-9ca4aa769274_p2" x="27146.0" y="2540.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_04617e90-bfca-4661-a74a-53afd7d1eed9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17116881</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_04617e90-bfca-4661-a74a-53afd7d1eed9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17116881"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21285.31" y="14166.5"/> <port id="pr_04617e90-bfca-4661-a74a-53afd7d1eed9_p1" x="21305.31" y="14171.5"/> <port id="pr_04617e90-bfca-4661-a74a-53afd7d1eed9_p2" x="21275.31" y="14171.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_31374ca4-eddc-40b0-839c-1d6878d1be2a"> <bbox w="10.0" h="10.0" x="9758.005" y="3189.625"/> <port id="pr_31374ca4-eddc-40b0-839c-1d6878d1be2a_p1" x="9763.005" y="3179.625"/> <port id="pr_31374ca4-eddc-40b0-839c-1d6878d1be2a_p2" x="9763.005" y="3209.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fcc02ba2-20cb-440b-bd7e-20d793def78a"> <bbox w="10.0" h="10.0" x="12071.314" y="10593.582"/> <port id="pr_fcc02ba2-20cb-440b-bd7e-20d793def78a_p1" x="12076.314" y="10583.582"/> <port id="pr_fcc02ba2-20cb-440b-bd7e-20d793def78a_p2" x="12076.314" y="10613.582"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3ae5cf2b-93f3-4ad5-9d48-be26061c028f"> <bbox w="10.0" h="10.0" x="28540.285" y="16005.25"/> <port id="pr_3ae5cf2b-93f3-4ad5-9d48-be26061c028f_p1" x="28545.285" y="16025.25"/> <port id="pr_3ae5cf2b-93f3-4ad5-9d48-be26061c028f_p2" x="28545.285" y="15995.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_6d265a6a-4893-4840-a07a-93115fb4e02a"> <bbox w="10.0" h="10.0" x="11641.49" y="14345.0"/> <port id="pr_6d265a6a-4893-4840-a07a-93115fb4e02a_p1" x="11661.49" y="14350.0"/> <port id="pr_6d265a6a-4893-4840-a07a-93115fb4e02a_p2" x="11631.49" y="14350.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_8405002a-3771-4fc2-9877-a66b4ad11e25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6640.498" y="14723.75"/> <port id="pr_8405002a-3771-4fc2-9877-a66b4ad11e25_p1" x="6645.498" y="14713.75"/> <port id="pr_8405002a-3771-4fc2-9877-a66b4ad11e25_p2" x="6645.498" y="14743.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_605b8b23-fd6c-4796-b218-ff39fd614c0c"> <bbox w="10.0" h="10.0" x="15585.0" y="2880.0"/> <port id="pr_605b8b23-fd6c-4796-b218-ff39fd614c0c_p1" x="15590.0" y="2900.0"/> <port id="pr_605b8b23-fd6c-4796-b218-ff39fd614c0c_p2" x="15590.0" y="2870.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fa42f742-7bdc-44ff-b30a-a746e31dfffe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20713526</p> <p>p27KIP1* bind CDK2. The inhibition of CDK2 by p27KIP1*, allows MYC to exert its pro-senescence effect</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID : PMID:17055429</p> <p>MYC stimulate P53 and ARF</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fa42f742-7bdc-44ff-b30a-a746e31dfffe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3615.605" y="14742.573"/> <port id="pr_fa42f742-7bdc-44ff-b30a-a746e31dfffe_p1" x="3635.605" y="14747.573"/> <port id="pr_fa42f742-7bdc-44ff-b30a-a746e31dfffe_p2" x="3605.605" y="14747.573"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a312f1b9-0563-4605-b557-26ba39767915"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22064479, PMID:22634377</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_a312f1b9-0563-4605-b557-26ba39767915_p2" x="3628.06" y="21427.031"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77005091-a95e-4014-9309-9cb8fc5ff834"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_77005091-a95e-4014-9309-9cb8fc5ff834"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3453.75" y="10519.0"/> <port id="pr_77005091-a95e-4014-9309-9cb8fc5ff834_p1" x="3458.75" y="10539.0"/> <port id="pr_77005091-a95e-4014-9309-9cb8fc5ff834_p2" x="3458.75" y="10509.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_936c3e55-d88e-4c06-aaff-ab0d45bcb36f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>Regulation of HIF-1a protein synthesis</p> <p>MNK phosphorylates eIF-4E and stimulates its activity directly. </p> <p>Active eIF-4E increases the rate of HIF1A-mRNA translation into HIF1A protein.</p> <p>PMID:16887934</p> <p>PMID:9159130</p> <p>HIF-1B (ARNT) is constitutively expressed and itsmRNA and protein are maintained at constant levels regardless of oxygen availability</p> <p>PMID:9278421</p> <p>HIF-1A protein has a short half-life (t1/2 = 5 min) and is highly regulated by oxygen</p> <p>PMID:9746763</p> <p>The transcription and synthesis of HIF-1B are constitutive and seem not to be affected by oxygen. </p> <p>PMID:7539918</p> <p>In normoxia, the HIF-1A proteins are rapidly degraded, resulting in essentially no detectable HIF-1A protein.</p> <p>PMID:8943284</p> <p>During hypoxia, HIF-1A becomes stabilized and translocates from the cytoplasm to the nucleus, where it dimerizes with HIF-1B and the HIF complex formed becomes transcriptionally active</p> <p>PMID:1823643</p> <p>The activated HIF complex then associates with HREs in the regulatory regions of target genes and binds the transcriptional coactivators to induce gene expression.</p> <p>PMID:15451019</p> <p>Tight regulation of the stability and subsequent transactivational function of HIF-1A is chiefly controlled by its post-translation modifications, such as hydroxylation, ubiquitination, acetylation, and phosphorylation</p> <p>The modification of HIF-1A occurs within several domains.</p> <p>PMID:10403805</p> <p>PMID:11566883</p> <p>PMID:12829734</p> <p>In normoxia, hydroxylation of 2 proline residues and acetylation of a lysine residue in its ODDD promote interaction of HIF-1A with the von Hippel-Lindau (pVHL) ubiquitin E3 ligase complex (Srinivas et al., 1999; Masson et al., 2001).</p> <p>PMID:12080085</p> <p>pVHL complex tags HIF-1A with ubiquitin and thereby marks it for degradation by the 26S proteasome. </p> <p>In addition, hydroxylation of an asparagine residue in the C-TAD inhibits the association of HIF-1A with CBP/p300 and thus inhibits its transcriptional activity (Lando et al., 2002a).</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_936c3e55-d88e-4c06-aaff-ab0d45bcb36f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13130303"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887934"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9159130"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9278421"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9746763"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7539918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8943284"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1823643"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15451019"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10403805"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11566883"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12080085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4490.0" y="14365.0"/> <port id="pr_936c3e55-d88e-4c06-aaff-ab0d45bcb36f_p1" x="4495.0" y="14385.0"/> <port id="pr_936c3e55-d88e-4c06-aaff-ab0d45bcb36f_p2" x="4495.0" y="14355.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3101f12d-fda0-41d4-9a1e-1cfcf496c5ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>SUMOlated PCNA recognizes stalled replication fork and blocks homologous recombination, re-orients toward TLS</p> <p>PMID:19217833</p> <p>Stalled replication fork is mostly induced by ICLs</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3101f12d-fda0-41d4-9a1e-1cfcf496c5ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217833"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14945.347" y="14622.543"/> <port id="pr_3101f12d-fda0-41d4-9a1e-1cfcf496c5ce_p1" x="14935.347" y="14627.543"/> <port id="pr_3101f12d-fda0-41d4-9a1e-1cfcf496c5ce_p2" x="14965.347" y="14627.543"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2ac98253-c649-4f1a-995d-e97177ab9181"> <bbox w="10.0" h="10.0" x="28275.79" y="12451.5"/> <port id="pr_2ac98253-c649-4f1a-995d-e97177ab9181_p1" x="28295.79" y="12456.5"/> <port id="pr_2ac98253-c649-4f1a-995d-e97177ab9181_p2" x="28265.79" y="12456.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ed1d8b90-4fba-41d6-98fc-5f5b268336e8"> <bbox w="10.0" h="10.0" x="10795.0" y="4815.0"/> <port id="pr_ed1d8b90-4fba-41d6-98fc-5f5b268336e8_p1" x="10785.0" y="4820.0"/> <port id="pr_ed1d8b90-4fba-41d6-98fc-5f5b268336e8_p2" x="10815.0" y="4820.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_43654fff-8534-4d9a-a509-7baba13d89ea"> <bbox w="10.0" h="10.0" x="4367.0" y="6360.0"/> <port id="pr_43654fff-8534-4d9a-a509-7baba13d89ea_p1" x="4372.0" y="6350.0"/> <port id="pr_43654fff-8534-4d9a-a509-7baba13d89ea_p2" x="4372.0" y="6380.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_72b3be49-ed3b-4b80-8dd2-2e23d95b65b5"> <bbox w="10.0" h="10.0" x="11591.172" y="13597.797"/> <port id="pr_72b3be49-ed3b-4b80-8dd2-2e23d95b65b5_p1" x="11596.172" y="13617.797"/> <port id="pr_72b3be49-ed3b-4b80-8dd2-2e23d95b65b5_p2" x="11596.172" y="13587.797"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a15b66a0-33a2-4aab-ba42-954eea430f75"> <bbox w="10.0" h="10.0" x="449.98447" y="3947.75"/> <port id="pr_a15b66a0-33a2-4aab-ba42-954eea430f75_p1" x="454.98447" y="3937.75"/> <port id="pr_a15b66a0-33a2-4aab-ba42-954eea430f75_p2" x="454.98447" y="3967.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57b3ccfe-1d08-457a-8828-cd394e6493f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_57b3ccfe-1d08-457a-8828-cd394e6493f7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6292.75" y="10655.5"/> <port id="pr_57b3ccfe-1d08-457a-8828-cd394e6493f7_p1" x="6297.75" y="10675.5"/> <port id="pr_57b3ccfe-1d08-457a-8828-cd394e6493f7_p2" x="6297.75" y="10645.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_48188962-fae9-4728-9ec9-092211dc3d03"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Not known if this dissociation occurs (here or later)</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21014.936" y="21122.0"/> <port id="pr_48188962-fae9-4728-9ec9-092211dc3d03_p1" x="21004.936" y="21127.0"/> <port id="pr_48188962-fae9-4728-9ec9-092211dc3d03_p2" x="21034.936" y="21127.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b02e51c-13be-4446-9da7-c6b7de066bdc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>GJB5 is so-called Connexin 31.1</p> <p>PMID:21777377</p> <p>Expression of Cx31.1 reduced mesenchymal marker vimentin level and increased epithelial marker cytokeratin 18 level, indicating that Cx31.1 may regulate molecular pathways leading to a reverse of the EMT process.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0b02e51c-13be-4446-9da7-c6b7de066bdc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21777377"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5308.75" y="15385.047"/> <port id="pr_0b02e51c-13be-4446-9da7-c6b7de066bdc_p1" x="5298.75" y="15390.047"/> <port id="pr_0b02e51c-13be-4446-9da7-c6b7de066bdc_p2" x="5328.75" y="15390.047"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e41755f4-5a5e-4c31-b039-25a698c6edb6"> <bbox w="10.0" h="10.0" x="27994.06" y="14164.0"/> <port id="pr_e41755f4-5a5e-4c31-b039-25a698c6edb6_p1" x="27999.06" y="14154.0"/> <port id="pr_e41755f4-5a5e-4c31-b039-25a698c6edb6_p2" x="27999.06" y="14184.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7413ab63-beed-40ed-a38d-505eb6381d33"> <bbox w="10.0" h="10.0" x="15824.061" y="18441.953"/> <port id="pr_7413ab63-beed-40ed-a38d-505eb6381d33_p1" x="15814.061" y="18446.953"/> <port id="pr_7413ab63-beed-40ed-a38d-505eb6381d33_p2" x="15844.061" y="18446.953"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9feddd2e-7788-445e-9315-bc0b1766fd6d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18802401</p> <p>PMID:17680028</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9feddd2e-7788-445e-9315-bc0b1766fd6d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18802401"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17680028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5414.5054" y="13334.212"/> <port id="pr_9feddd2e-7788-445e-9315-bc0b1766fd6d_p1" x="5434.5054" y="13339.212"/> <port id="pr_9feddd2e-7788-445e-9315-bc0b1766fd6d_p2" x="5404.5054" y="13339.212"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_64346c1e-ee45-4cb1-8b25-3851155226b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Similar to RIP recruitment by TRADD the death domain of receptor-bound MyD88 binds IRAK1.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4250.5537" y="16596.75"/> <port id="pr_8a2aa951-1958-492e-8beb-56337b2896b3_p1" x="4255.5537" y="16616.75"/> <port id="pr_8a2aa951-1958-492e-8beb-56337b2896b3_p2" x="4255.5537" y="16586.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99da610d-3fdf-40e9-89cb-e4d10ff6376a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24828.06" y="12094.0"/> <port id="pr_99da610d-3fdf-40e9-89cb-e4d10ff6376a_p1" x="24833.06" y="12084.0"/> <port id="pr_99da610d-3fdf-40e9-89cb-e4d10ff6376a_p2" x="24833.06" y="12114.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b02c78b9-00ea-449d-8c77-82399d65951a"> <bbox w="10.0" h="10.0" x="3685.0" y="1485.0"/> <port id="pr_b02c78b9-00ea-449d-8c77-82399d65951a_p1" x="3690.0" y="1505.0"/> <port id="pr_b02c78b9-00ea-449d-8c77-82399d65951a_p2" x="3690.0" y="1475.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_acfb13e3-1c94-4f11-b458-b32609ecb4e0"> <bbox w="10.0" h="10.0" x="20762.055" y="7065.625"/> <port id="pr_acfb13e3-1c94-4f11-b458-b32609ecb4e0_p1" x="20767.055" y="7055.625"/> <port id="pr_acfb13e3-1c94-4f11-b458-b32609ecb4e0_p2" x="20767.055" y="7085.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c12ab0fe-d453-4dd0-a933-8ed2ec7aa328"> <bbox w="10.0" h="10.0" x="13435.311" y="19760.75"/> <port id="pr_c12ab0fe-d453-4dd0-a933-8ed2ec7aa328_p1" x="13440.311" y="19750.75"/> <port id="pr_c12ab0fe-d453-4dd0-a933-8ed2ec7aa328_p2" x="13440.311" y="19780.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83dec943-a4b4-40a3-8347-878a5c4896eb"> <bbox w="10.0" h="10.0" x="14940.7" y="8409.5"/> <port id="pr_83dec943-a4b4-40a3-8347-878a5c4896eb_p1" x="14930.7" y="8414.5"/> <port id="pr_83dec943-a4b4-40a3-8347-878a5c4896eb_p2" x="14960.7" y="8414.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f16c91b9-22ab-4dab-aea2-cfcbd7237b58"> <bbox w="10.0" h="10.0" x="27557.215" y="13786.75"/> <port id="pr_f16c91b9-22ab-4dab-aea2-cfcbd7237b58_p1" x="27547.215" y="13791.75"/> <port id="pr_f16c91b9-22ab-4dab-aea2-cfcbd7237b58_p2" x="27577.215" y="13791.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_94e76d00-9ded-4213-82d3-6fce0483ea5d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re369_rc_s2093=FALSE</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25928.422" y="12678.044"/> <port id="pr_94e76d00-9ded-4213-82d3-6fce0483ea5d_p1" x="25933.422" y="12698.044"/> <port id="pr_94e76d00-9ded-4213-82d3-6fce0483ea5d_p2" x="25933.422" y="12668.044"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7695527d-e5ce-4767-ad9f-0fc5dda760a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="pr_92b79cb6-f4ac-4583-93d5-5be47170c682_p2" x="1989.7498" y="4387.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bae4cfe1-eff8-465b-905f-a49317251b6a"> <bbox w="10.0" h="10.0" x="11339.787" y="4123.0146"/> <port id="pr_bae4cfe1-eff8-465b-905f-a49317251b6a_p1" x="11344.787" y="4113.0146"/> <port id="pr_bae4cfe1-eff8-465b-905f-a49317251b6a_p2" x="11344.787" y="4143.0146"/> </glyph> <glyph class="process" orientation="vertical" id="pr_441477c5-30b5-445b-be94-504349867dc2"> <bbox w="10.0" h="10.0" x="19104.5" y="6210.0"/> <port id="pr_441477c5-30b5-445b-be94-504349867dc2_p1" x="19109.5" y="6200.0"/> <port id="pr_441477c5-30b5-445b-be94-504349867dc2_p2" x="19109.5" y="6230.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1a1046da-3936-4287-ae16-407c8ce79605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4911.043" y="17690.0"/> <port id="pr_1a1046da-3936-4287-ae16-407c8ce79605_p1" x="4916.043" y="17680.0"/> <port id="pr_1a1046da-3936-4287-ae16-407c8ce79605_p2" x="4916.043" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_343030b1-54bf-4476-bf9e-b87b62468754"> <bbox w="10.0" h="10.0" x="24459.06" y="9329.0"/> <port id="pr_343030b1-54bf-4476-bf9e-b87b62468754_p1" x="24464.06" y="9349.0"/> <port id="pr_343030b1-54bf-4476-bf9e-b87b62468754_p2" x="24464.06" y="9319.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_bf7f22db-3ee2-4273-b54e-a0d3ee47bf04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5301.2974" y="18669.062"/> <port id="pr_bf7f22db-3ee2-4273-b54e-a0d3ee47bf04_p1" x="5321.2974" y="18674.062"/> <port id="pr_bf7f22db-3ee2-4273-b54e-a0d3ee47bf04_p2" x="5291.2974" y="18674.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_84fce07f-ea11-41d0-926f-1ca6420f8542"> <bbox w="10.0" h="10.0" x="13115.811" y="20531.5"/> <port id="pr_84fce07f-ea11-41d0-926f-1ca6420f8542_p1" x="13120.811" y="20551.5"/> <port id="pr_84fce07f-ea11-41d0-926f-1ca6420f8542_p2" x="13120.811" y="20521.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_80b7daa8-8de4-496e-b396-d1606ac66639"> <bbox w="10.0" h="10.0" x="13968.844" y="5345.9375"/> <port id="pr_80b7daa8-8de4-496e-b396-d1606ac66639_p1" x="13973.844" y="5335.9375"/> <port id="pr_80b7daa8-8de4-496e-b396-d1606ac66639_p2" x="13973.844" y="5365.9375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8e5eec70-28bf-4d19-be6a-02deaa90cec3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:12050133 PPMID:12441302</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e5eec70-28bf-4d19-be6a-02deaa90cec3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12050133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="Purn:miriam:pubmed:12441302"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21527.56" y="22704.0"/> <port id="pr_8e5eec70-28bf-4d19-be6a-02deaa90cec3_p1" x="21517.56" y="22709.0"/> <port id="pr_8e5eec70-28bf-4d19-be6a-02deaa90cec3_p2" x="21547.56" y="22709.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2a33097c-e4cb-4721-804b-3e4cb3909457"> <bbox w="10.0" h="10.0" x="28054.06" y="9960.25"/> <port id="pr_2a33097c-e4cb-4721-804b-3e4cb3909457_p1" x="28074.06" y="9965.25"/> <port id="pr_2a33097c-e4cb-4721-804b-3e4cb3909457_p2" x="28044.06" y="9965.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7e69c7cf-2c29-4ee5-b53f-89feb10c2649"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5326.884" y="13718.0"/> <port id="pr_7e69c7cf-2c29-4ee5-b53f-89feb10c2649_p1" x="5331.884" y="13738.0"/> <port id="pr_7e69c7cf-2c29-4ee5-b53f-89feb10c2649_p2" x="5331.884" y="13708.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15fea54a-592b-469c-ac15-0cd311b9a4c7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5694.25" y="13783.75"/> <port id="pr_15fea54a-592b-469c-ac15-0cd311b9a4c7_p1" x="5699.25" y="13773.75"/> <port id="pr_15fea54a-592b-469c-ac15-0cd311b9a4c7_p2" x="5699.25" y="13803.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3782a08f-c7aa-4123-b54a-535a0d917062"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18046414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3782a08f-c7aa-4123-b54a-535a0d917062"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18046414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20246.56" y="16173.75"/> <port 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id="pr_a191509d-568e-433c-bff6-54991196dc9c_p2" x="6606.4375" y="13386.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8dab025c-3eb2-4313-ae4f-1313e87d5fce"> <bbox w="10.0" h="10.0" x="7985.0" y="2815.0"/> <port id="pr_8dab025c-3eb2-4313-ae4f-1313e87d5fce_p1" x="7990.0" y="2805.0"/> <port id="pr_8dab025c-3eb2-4313-ae4f-1313e87d5fce_p2" x="7990.0" y="2835.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9b9a058d-0770-464b-87aa-9d34f751ae04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16287866</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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orientation="horizontal" id="pr_458a50aa-db3b-40d0-834b-e380a379ff58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: reactants to re</p> <p>we consider only that CASP3 or GZMB activity can influence Bax recruitment to membrane, not the fact that MCL1 increases it</p> <p>hierarchical:post-MOMP</p> <p>reactionType:proteases.cleavage</p> <p>PMID:15713684</p> <p>in different human cancer cell lines by Granzyme B</p> <p>PMID:15637055</p> <p>in Jurkat leukemia T cells, by CASP3 upon TRAIL-induced apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_458a50aa-db3b-40d0-834b-e380a379ff58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15713684"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15637055"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22517.186" y="14405.0"/> <port id="pr_458a50aa-db3b-40d0-834b-e380a379ff58_p1" x="22507.186" y="14410.0"/> <port id="pr_458a50aa-db3b-40d0-834b-e380a379ff58_p2" x="22537.186" y="14410.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_531d63c7-e14e-405e-a8ff-b4982070ab51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8836113</p> <p>GEFs are essential for CDC42 activation. They promote the exchange of GDP to GTP to generate the activated form of CDC42 capable of recognizing downstram targets.</p> <p>PMID:10843989</p> <p>MCF2 (DBL) as a GEF of CDC42</p> <p>PMID:11394904</p> <p>PMID:10652228</p> <p>GEF activity of MCF2 (DBL) towards CDC42 or Rac1 is enhanced upon TNK2 (ACK1) phosphorylation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_531d63c7-e14e-405e-a8ff-b4982070ab51"> <bqbiol:isEncodedBy> <rdf:Bag> 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x="11283.95" y="7496.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9df72fe5-5796-4da1-a8f7-a227a8129e11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15994944</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9df72fe5-5796-4da1-a8f7-a227a8129e11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15994944"/> 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transcriptional repression of miR200.</p> <p>PMID:20706219</p> <p>Feedback loop between ZEB1, ZEB2 and MIR200 family</p> <p>PMID:19935649</p> <p>ZEB1 inhibits expression of MIR200 family</p> <p>PMID:22514743</p> <p>SNAI1 represses expression of all MIR200 family members.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6da6c5f8-090b-4692-a8d1-24ba153132df"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1607.75" y="15065.4375"/> <port id="pr_34821d5d-4493-4256-83b1-658911c74fc1_p1" x="1597.75" y="15070.4375"/> <port id="pr_34821d5d-4493-4256-83b1-658911c74fc1_p2" x="1627.75" y="15070.4375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1f4f1598-bd1e-4108-928b-057bc4aff0da"> <bbox w="10.0" h="10.0" x="5784.3545" y="22523.031"/> <port id="pr_1f4f1598-bd1e-4108-928b-057bc4aff0da_p1" x="5774.3545" y="22528.031"/> <port id="pr_1f4f1598-bd1e-4108-928b-057bc4aff0da_p2" x="5804.3545" y="22528.031"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_12ad4422-3663-4e2a-9a9a-7762a6ad8150"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1889.5" y="16381.5"/> <port id="pr_12ad4422-3663-4e2a-9a9a-7762a6ad8150_p1" x="1909.5" y="16386.5"/> <port id="pr_12ad4422-3663-4e2a-9a9a-7762a6ad8150_p2" x="1879.5" y="16386.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba668c0e-d740-4c58-b022-4edf51af653f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19945467</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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<p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3915.8452" y="17079.082"/> <port id="pr_43ad9b1f-a575-4274-89d3-6cd2b4ae985a_p1" x="3920.8452" y="17069.082"/> <port id="pr_43ad9b1f-a575-4274-89d3-6cd2b4ae985a_p2" x="3920.8452" y="17099.082"/> </glyph> <glyph class="process" orientation="vertical" id="pr_31dc8691-11f0-45eb-8b94-34adc6884d4b"> <bbox w="10.0" h="10.0" x="13445.0" y="2565.0"/> <port id="pr_31dc8691-11f0-45eb-8b94-34adc6884d4b_p1" x="13450.0" y="2585.0"/> <port id="pr_31dc8691-11f0-45eb-8b94-34adc6884d4b_p2" x="13450.0" y="2555.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_135aa80f-17e1-4729-a925-5aab6efea504"> <bbox w="10.0" h="10.0" x="20211.25" y="5361.25"/> <port id="pr_135aa80f-17e1-4729-a925-5aab6efea504_p1" x="20216.25" y="5351.25"/> <port id="pr_135aa80f-17e1-4729-a925-5aab6efea504_p2" x="20216.25" y="5381.25"/> </glyph> <glyph class="process" orientation="horizontal" 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<p>PMID:17325197</p> <p>Interaction between E-cadherin and aEb7 integrin plays major role in effective tumor cell lysis, during cytolytic granule polarization and subsequent exocytosis</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_23dfe47e-39de-417e-998e-a97a890c8e44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413131"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_f0effadf-11e6-4ec9-ae8d-d72cfdd00f4a"> <bbox w="10.0" h="10.0" x="18940.0" y="4685.0"/> <port id="pr_f0effadf-11e6-4ec9-ae8d-d72cfdd00f4a_p1" x="18945.0" y="4675.0"/> <port id="pr_f0effadf-11e6-4ec9-ae8d-d72cfdd00f4a_p2" x="18945.0" y="4705.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c2b8dcbd-12d0-43b3-a49d-6273635db334"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16919435</p> <p>PMID:16000375</p> <p>Upon autophosphorylation of FAK, a signaling complex of FAK, CSK binds to and can phosphorylate various adaptor proteins such as p130Cas and paxillin.</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c2b8dcbd-12d0-43b3-a49d-6273635db334"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16919435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16000375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5929.6807" y="17992.0"/> <port id="pr_c2b8dcbd-12d0-43b3-a49d-6273635db334_p1" x="5919.6807" y="17997.0"/> <port id="pr_c2b8dcbd-12d0-43b3-a49d-6273635db334_p2" x="5949.6807" y="17997.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bdb05579-5348-4889-9d65-8da66b31a943"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12049737</p> <p>in vitro with recombinant murine proteines</p> <p>in COS cells with ectopic expression of BAD</p> <p>in rat granule neurons upon suppression of neuronal activity, cdc2 is induced, phosphorylates BAD S128</p> <p>in rat neurones expressing ectopic proteins, cdc2 induced apoptosis is inhibited by a BAD S118 mutant</p> <p>in vitro, AKT mediated BAD S136 phosphorylation is not blocked by prior cdc2 mediated BAD S128 phosphorylations</p> <p>BAD S128 phosphorylation inhibits BAD phospho S136 : 14-3-3 interaction</p> </body> </html> </notes> 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id="pr_02864163-8f26-4e4b-bbf1-0a971500ed12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19164295, PMID:16275645, PMID:20159592, PMID:22433952, PMID:19487455</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_02864163-8f26-4e4b-bbf1-0a971500ed12"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19164295"/> </rdf:Bag> 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id="pr_c11c9859-61db-4712-bdcb-b5bc85360151_p2" x="1340.0" y="3840.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_85c39f6a-d8ba-4a08-b751-aab396d541e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17550342</p> <p>SNAI2 represses MDM2 expression, thus skip p53 from proteasomal degradation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_85c39f6a-d8ba-4a08-b751-aab396d541e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17550342"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4208.0" y="14717.5"/> <port id="pr_85c39f6a-d8ba-4a08-b751-aab396d541e7_p1" x="4213.0" y="14737.5"/> <port id="pr_85c39f6a-d8ba-4a08-b751-aab396d541e7_p2" x="4213.0" y="14707.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0421d297-1cf1-47e5-a0c8-0bc776522f06"> <bbox w="10.0" h="10.0" x="20750.0" y="2475.0"/> <port id="pr_0421d297-1cf1-47e5-a0c8-0bc776522f06_p1" x="20755.0" y="2465.0"/> <port id="pr_0421d297-1cf1-47e5-a0c8-0bc776522f06_p2" x="20755.0" y="2495.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77f08958-481f-4fae-8923-930aec5c389b"> <bbox w="10.0" h="10.0" x="2750.5" y="4720.0"/> <port id="pr_77f08958-481f-4fae-8923-930aec5c389b_p1" x="2755.5" y="4710.0"/> <port id="pr_77f08958-481f-4fae-8923-930aec5c389b_p2" x="2755.5" y="4740.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e59cb555-a1fa-44e3-856d-8849639d0af8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12732850</p> <p>there is also a nuclear encoded peptide that display the same effect on BAX mediated apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21893191</p> <p>PMID:11756498</p> <p>Activation of Rac GTPase by p75 is necessary for c-jun N-terminal kinase-mediated apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0b0c80ce-dfa4-4a80-acbc-a58583d0c089"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21893191"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756498"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20829.06" y="9714.0"/> <port id="pr_0b0c80ce-dfa4-4a80-acbc-a58583d0c089_p1" x="20819.06" y="9719.0"/> <port id="pr_0b0c80ce-dfa4-4a80-acbc-a58583d0c089_p2" x="20849.06" y="9719.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4132d671-0dd4-415c-b4f0-f4630f14058f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23010170</p> <p>RIP3 is known to be phosphotylated by itself</p> <p>PMID:19524512</p> <p>The kinase activity of RIP3 is essential for necrosis execution.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4132d671-0dd4-415c-b4f0-f4630f14058f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010170"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19524512"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22852.06" y="9769.25"/> <port id="pr_4132d671-0dd4-415c-b4f0-f4630f14058f_p1" x="22842.06" y="9774.25"/> <port id="pr_4132d671-0dd4-415c-b4f0-f4630f14058f_p2" x="22872.06" y="9774.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_81e0ddb6-5cfc-462f-9e36-bde54e4b7910"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MNKs are cytoplasmic targets of ERK and P38.</p> <p>PMID:15187187</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_81e0ddb6-5cfc-462f-9e36-bde54e4b7910"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15187187"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9631.141" y="20238.168"/> <port id="pr_81e0ddb6-5cfc-462f-9e36-bde54e4b7910_p1" x="9636.141" y="20228.168"/> <port id="pr_81e0ddb6-5cfc-462f-9e36-bde54e4b7910_p2" x="9636.141" y="20258.168"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_65424b50-2ee0-409a-93b2-473b111c0794"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3411.75" y="16279.25"/> <port id="pr_65424b50-2ee0-409a-93b2-473b111c0794_p1" x="3401.75" y="16284.25"/> <port id="pr_65424b50-2ee0-409a-93b2-473b111c0794_p2" x="3431.75" y="16284.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_10a8459b-752c-49c6-9445-7921d77fe89a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17488777</p> <p>NRAGE associates with the anti-apoptotic factor Che-1 and regulates its degradation to induce cell death.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_10a8459b-752c-49c6-9445-7921d77fe89a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17488777"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21456.56" y="9434.0"/> <port id="pr_10a8459b-752c-49c6-9445-7921d77fe89a_p1" x="21446.56" y="9439.0"/> <port id="pr_10a8459b-752c-49c6-9445-7921d77fe89a_p2" x="21476.56" y="9439.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3b62d3a2-6947-4d87-a83b-197fe3d258e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19180.81" y="11864.125"/> <port id="pr_3b62d3a2-6947-4d87-a83b-197fe3d258e2_p1" x="19170.81" y="11869.125"/> <port id="pr_3b62d3a2-6947-4d87-a83b-197fe3d258e2_p2" x="19200.81" y="11869.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bb179491-9f83-4ccb-8cd4-a6b1ac2f4b11"> <bbox w="10.0" h="10.0" x="29074.0" y="4390.0"/> <port id="pr_bb179491-9f83-4ccb-8cd4-a6b1ac2f4b11_p1" x="29094.0" y="4395.0"/> <port id="pr_bb179491-9f83-4ccb-8cd4-a6b1ac2f4b11_p2" x="29064.0" y="4395.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7ef8bccf-0e69-4b39-860b-5f73dbcb0d8e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5310.75" y="15695.047"/> <port id="pr_7ef8bccf-0e69-4b39-860b-5f73dbcb0d8e_p1" x="5300.75" y="15700.047"/> <port id="pr_7ef8bccf-0e69-4b39-860b-5f73dbcb0d8e_p2" x="5330.75" y="15700.047"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8c7cc52-7960-4a0d-ada7-9130b66d50a7"> <bbox w="10.0" h="10.0" x="30201.0" y="8270.25"/> <port id="pr_d8c7cc52-7960-4a0d-ada7-9130b66d50a7_p1" x="30206.0" y="8260.25"/> <port id="pr_d8c7cc52-7960-4a0d-ada7-9130b66d50a7_p2" x="30206.0" y="8290.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_52581a1f-f4d3-4261-8cb7-b82186e05203"> <bbox w="10.0" h="10.0" x="26052.936" y="21144.75"/> <port id="pr_52581a1f-f4d3-4261-8cb7-b82186e05203_p1" x="26057.936" y="21134.75"/> <port id="pr_52581a1f-f4d3-4261-8cb7-b82186e05203_p2" x="26057.936" y="21164.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c441334a-6fbd-4413-a013-b21dc25c7248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16464865</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c441334a-6fbd-4413-a013-b21dc25c7248"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16464865"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13234.061" y="18647.422"/> <port id="pr_c441334a-6fbd-4413-a013-b21dc25c7248_p1" x="13224.061" y="18652.422"/> <port id="pr_c441334a-6fbd-4413-a013-b21dc25c7248_p2" x="13254.061" y="18652.422"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3dea6b33-d176-4940-95d2-3c5ca1e0ff16"> <bbox w="10.0" h="10.0" x="25138.973" y="16201.5"/> <port id="pr_3dea6b33-d176-4940-95d2-3c5ca1e0ff16_p1" x="25143.973" y="16221.5"/> <port id="pr_3dea6b33-d176-4940-95d2-3c5ca1e0ff16_p2" x="25143.973" y="16191.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_04208108-2f0f-43c6-a50d-c892cd5ca65e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22435.604" y="14480.0"/> <port id="pr_04208108-2f0f-43c6-a50d-c892cd5ca65e_p1" x="22440.604" y="14500.0"/> <port id="pr_04208108-2f0f-43c6-a50d-c892cd5ca65e_p2" x="22440.604" y="14470.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e7723b9b-569b-47ec-8dff-71e5fb4c057d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1681.625" y="13694.5"/> <port id="pr_e7723b9b-569b-47ec-8dff-71e5fb4c057d_p1" x="1701.625" y="13699.5"/> <port id="pr_e7723b9b-569b-47ec-8dff-71e5fb4c057d_p2" x="1671.625" y="13699.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8e3c7ced-4487-49db-820e-fd8cafc2c1b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5348.375" y="16468.5"/> <port id="pr_8e3c7ced-4487-49db-820e-fd8cafc2c1b8_p1" x="5338.375" y="16473.5"/> <port id="pr_8e3c7ced-4487-49db-820e-fd8cafc2c1b8_p2" x="5368.375" y="16473.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f01e8927-c7d6-49fe-9046-4d46fe24780e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9819415</p> <p>Nuclear exports is required for degradation of p53 by MDM2</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f01e8927-c7d6-49fe-9046-4d46fe24780e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9819415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" 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<head> <title/> </head> <body> <p>References:</p> <p>Cell growth arrest is induced by STAT1 through cyclin-dependent kinase inhibitor P21 WAF1/CIP1.</p> <p>PMID:8614832</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7e464e21-908c-49d5-b4de-cdfe1c11da62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8614832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7537.181" y="20743.86"/> <port id="pr_7e464e21-908c-49d5-b4de-cdfe1c11da62_p1" x="7542.181" y="20733.86"/> <port id="pr_7e464e21-908c-49d5-b4de-cdfe1c11da62_p2" x="7542.181" y="20763.86"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b46c07d6-cdcd-45e7-98b3-c54d118badac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18813803 PMID:16880536 PMID:19190345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5852.801" y="15190.75"/> <port id="pr_a025a80e-32c9-4adc-bd58-664ab6384c70_p1" x="5857.801" y="15180.75"/> <port id="pr_a025a80e-32c9-4adc-bd58-664ab6384c70_p2" x="5857.801" y="15210.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bcfc2f71-8dd9-4e13-8bb2-3bdab93e6f38"> <bbox w="10.0" h="10.0" x="23458.98" y="10616.75"/> <port id="pr_bcfc2f71-8dd9-4e13-8bb2-3bdab93e6f38_p1" x="23478.98" y="10621.75"/> <port id="pr_bcfc2f71-8dd9-4e13-8bb2-3bdab93e6f38_p2" x="23448.98" y="10621.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_22138ddc-be94-4577-af3e-fa1fc2da37ff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22671595</p> <p>Caveolin-1 is an endocytic scaffolding protein</p> <p>It binds independently to claudin-2 and occludin (co-immunoprecipitation assays).</p> <p>The finding that caveolin-1 interacts with claudin-2 and occludin, but notwith claudin-4 or ZO-1, suggests a potential mechanism for selective retrieval of tight junction components.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_22138ddc-be94-4577-af3e-fa1fc2da37ff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22671595"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1909.5" y="15384.26"/> <port id="pr_22138ddc-be94-4577-af3e-fa1fc2da37ff_p1" x="1899.5" y="15389.26"/> <port id="pr_22138ddc-be94-4577-af3e-fa1fc2da37ff_p2" x="1929.5" y="15389.26"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c3d11620-bada-40dd-87c9-af1630d0b44c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20008353, PMID:20709625, PMID:21738214</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c3d11620-bada-40dd-87c9-af1630d0b44c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008353"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20709625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21738214"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17828.422" y="18567.5"/> <port id="pr_c3d11620-bada-40dd-87c9-af1630d0b44c_p1" x="17833.422" y="18557.5"/> <port id="pr_c3d11620-bada-40dd-87c9-af1630d0b44c_p2" x="17833.422" y="18587.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_af3a568e-32d6-4b63-bdef-07562604566a"> <bbox w="10.0" h="10.0" x="24726.781" y="14228.0"/> <port id="pr_af3a568e-32d6-4b63-bdef-07562604566a_p1" x="24731.781" y="14218.0"/> <port id="pr_af3a568e-32d6-4b63-bdef-07562604566a_p2" x="24731.781" y="14248.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_af83ac25-b8a5-42e8-9728-93f2aa0861ef"> <bbox w="10.0" h="10.0" x="5230.0" y="4805.0"/> <port id="pr_af83ac25-b8a5-42e8-9728-93f2aa0861ef_p1" x="5220.0" y="4810.0"/> <port id="pr_af83ac25-b8a5-42e8-9728-93f2aa0861ef_p2" x="5250.0" y="4810.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_87852c47-3251-4bee-9772-0f580aec60bf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26994.06" y="9486.5"/> <port id="pr_87852c47-3251-4bee-9772-0f580aec60bf_p1" x="26999.06" y="9476.5"/> <port id="pr_87852c47-3251-4bee-9772-0f580aec60bf_p2" x="26999.06" y="9506.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_89b616dd-f556-41ed-babc-e392fee20815"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22558232</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_89b616dd-f556-41ed-babc-e392fee20815"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22558232"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17478.56" y="20810.25"/> <port id="pr_89b616dd-f556-41ed-babc-e392fee20815_p1" x="17483.56" y="20800.25"/> <port id="pr_89b616dd-f556-41ed-babc-e392fee20815_p2" x="17483.56" y="20830.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_57e1aa55-e785-4f94-98f3-2040994e6278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Active KRas (on late endosomes) recruits Raf1 (C-Raf) to elicit a MODULE:MAPK signalling pathway.</p> <p>RasGTP and Sur-8 allow dephosphorylation of N-ter 14-3-3 binding site of Raf (not modelled) and thus its recruitment.</p> <p>PMID:19289794 PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_57e1aa55-e785-4f94-98f3-2040994e6278"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19289794"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8426.818" y="19984.422"/> <port id="pr_57e1aa55-e785-4f94-98f3-2040994e6278_p1" x="8416.818" y="19989.422"/> <port id="pr_57e1aa55-e785-4f94-98f3-2040994e6278_p2" x="8446.818" y="19989.422"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b028be1-405d-46ae-be2c-e5a6b5a8d0b1"> <bbox w="10.0" h="10.0" x="10156.75" y="565.625"/> <port id="pr_8b028be1-405d-46ae-be2c-e5a6b5a8d0b1_p1" x="10161.75" y="555.625"/> <port id="pr_8b028be1-405d-46ae-be2c-e5a6b5a8d0b1_p2" x="10161.75" y="585.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ffd44aba-889d-4536-a66e-6fc394a95a00"> <bbox w="10.0" h="10.0" x="18816.0" y="3260.0"/> <port id="pr_ffd44aba-889d-4536-a66e-6fc394a95a00_p1" x="18821.0" y="3250.0"/> <port id="pr_ffd44aba-889d-4536-a66e-6fc394a95a00_p2" x="18821.0" y="3280.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_748635ab-ba9a-422d-91f9-33f0d09fb067"> <bbox w="10.0" h="10.0" x="26531.0" y="2535.0"/> <port id="pr_748635ab-ba9a-422d-91f9-33f0d09fb067_p1" x="26536.0" y="2525.0"/> <port id="pr_748635ab-ba9a-422d-91f9-33f0d09fb067_p2" x="26536.0" y="2555.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6228b4fd-ee67-450b-bfcc-f83712481add"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6228b4fd-ee67-450b-bfcc-f83712481add"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_27870d7c-9bb3-4b80-b479-1a3117a2c2fe"> <bbox w="10.0" h="10.0" x="20366.078" y="11051.75"/> <port id="pr_27870d7c-9bb3-4b80-b479-1a3117a2c2fe_p1" x="20386.078" y="11056.75"/> <port id="pr_27870d7c-9bb3-4b80-b479-1a3117a2c2fe_p2" x="20356.078" y="11056.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b425a8f0-ba47-4b53-a8a6-1de4942c5f87"> <bbox w="10.0" h="10.0" x="23619.06" y="13704.0"/> <port id="pr_b425a8f0-ba47-4b53-a8a6-1de4942c5f87_p1" x="23609.06" y="13709.0"/> <port id="pr_b425a8f0-ba47-4b53-a8a6-1de4942c5f87_p2" x="23639.06" y="13709.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_392a3657-f450-41af-ae14-8aa342e81d55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PKA phosphorylates first Thr1548? followed by GSK3 at S1544</p> <p>PMID:21406690</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_392a3657-f450-41af-ae14-8aa342e81d55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17131.43" y="17916.0"/> <port id="pr_392a3657-f450-41af-ae14-8aa342e81d55_p1" x="17136.43" y="17906.0"/> <port id="pr_392a3657-f450-41af-ae14-8aa342e81d55_p2" x="17136.43" y="17936.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_43625d0b-fbc9-48d7-907e-96724e63ad0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>GADD45 interacts with PCNA and activates NER-only Global(GG-NER):</p> <p>PMID:19652693, PMID:10779360</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_43625d0b-fbc9-48d7-907e-96724e63ad0d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19652693"/> 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<p>References:</p> <p>PMID:1457818</p> <p>cloning of the human oxoglutarate-malate transporter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e0cfb175-4c80-453b-bf5c-7833655dc196"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1457818"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18596.598" y="12882.008"/> <port id="pr_e0cfb175-4c80-453b-bf5c-7833655dc196_p1" x="18601.598" y="12902.008"/> <port id="pr_e0cfb175-4c80-453b-bf5c-7833655dc196_p2" x="18601.598" y="12872.008"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f4887647-b6fb-4edc-a2e1-50d1f868b363"> <bbox w="10.0" h="10.0" x="528.97784" y="4045.75"/> <port id="pr_f4887647-b6fb-4edc-a2e1-50d1f868b363_p1" x="533.97784" y="4035.75"/> <port id="pr_f4887647-b6fb-4edc-a2e1-50d1f868b363_p2" x="533.97784" y="4065.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1f8b087-5b4c-4213-a2d1-db40c6a767db"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5534.0" y="15046.5"/> <port id="pr_d1f8b087-5b4c-4213-a2d1-db40c6a767db_p1" x="5524.0" y="15051.5"/> <port id="pr_d1f8b087-5b4c-4213-a2d1-db40c6a767db_p2" x="5554.0" y="15051.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_70599b86-ec66-4cd3-aab4-166eba68b0f7"> <bbox w="10.0" h="10.0" x="10330.5" y="4199.728"/> <port id="pr_70599b86-ec66-4cd3-aab4-166eba68b0f7_p1" x="10350.5" y="4204.728"/> <port id="pr_70599b86-ec66-4cd3-aab4-166eba68b0f7_p2" x="10320.5" y="4204.728"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f21e33b9-9ab7-4bd9-a801-a02e32ab679a"> <bbox w="10.0" h="10.0" x="18639.84" y="16706.549"/> <port id="pr_f21e33b9-9ab7-4bd9-a801-a02e32ab679a_p1" x="18644.84" y="16696.549"/> <port id="pr_f21e33b9-9ab7-4bd9-a801-a02e32ab679a_p2" x="18644.84" y="16726.549"/> </glyph> <glyph class="process" orientation="vertical" id="pr_39d8755a-a060-4596-9322-91df60102c96"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22166994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_39d8755a-a060-4596-9322-91df60102c96"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28027.727" y="10839.166"/> <port id="pr_39d8755a-a060-4596-9322-91df60102c96_p1" x="28032.727" y="10859.166"/> <port id="pr_39d8755a-a060-4596-9322-91df60102c96_p2" x="28032.727" y="10829.166"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d4295c9-6f83-4d9d-8889-89e43043bc58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2976.5" y="17588.0"/> <port id="pr_4d4295c9-6f83-4d9d-8889-89e43043bc58_p1" x="2996.5" y="17593.0"/> <port id="pr_4d4295c9-6f83-4d9d-8889-89e43043bc58_p2" x="2966.5" y="17593.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f8e1fb8-d320-45fd-b19a-a5eaee1556e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5242.667" y="17787.5"/> <port id="pr_2f8e1fb8-d320-45fd-b19a-a5eaee1556e6_p1" x="5247.667" y="17777.5"/> <port id="pr_2f8e1fb8-d320-45fd-b19a-a5eaee1556e6_p2" x="5247.667" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b1b22a88-aaea-47d8-8be8-35c0611974b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5837.0" y="13273.0"/> <port id="pr_b1b22a88-aaea-47d8-8be8-35c0611974b7_p1" x="5827.0" y="13278.0"/> <port id="pr_b1b22a88-aaea-47d8-8be8-35c0611974b7_p2" x="5857.0" y="13278.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a18ea8de-27ad-4dc7-b8ce-f0a9eaf4c6ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23301705</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a18ea8de-27ad-4dc7-b8ce-f0a9eaf4c6ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23301705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28389.06" y="11035.625"/> <port id="pr_a18ea8de-27ad-4dc7-b8ce-f0a9eaf4c6ae_p1" x="28379.06" y="11040.625"/> <port id="pr_a18ea8de-27ad-4dc7-b8ce-f0a9eaf4c6ae_p2" x="28409.06" y="11040.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_54227508-4f74-474d-adfa-63c37f042505"> <bbox w="10.0" h="10.0" x="4474.0" y="7147.75"/> <port id="pr_54227508-4f74-474d-adfa-63c37f042505_p1" x="4479.0" y="7167.75"/> <port id="pr_54227508-4f74-474d-adfa-63c37f042505_p2" x="4479.0" y="7137.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2a0902b7-08a1-4b14-a5fc-fc880013696d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2142.4023" y="18563.75"/> <port id="pr_2a0902b7-08a1-4b14-a5fc-fc880013696d_p1" x="2147.4023" y="18583.75"/> <port id="pr_2a0902b7-08a1-4b14-a5fc-fc880013696d_p2" x="2147.4023" y="18553.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e19f0e9b-b6c1-46ef-9f7c-c4b7c5c6b94d"> <bbox w="10.0" h="10.0" x="4962.269" y="4350.625"/> <port id="pr_e19f0e9b-b6c1-46ef-9f7c-c4b7c5c6b94d_p1" x="4967.269" y="4340.625"/> <port id="pr_e19f0e9b-b6c1-46ef-9f7c-c4b7c5c6b94d_p2" x="4967.269" y="4370.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13606a56-32be-4384-8f3f-8b318b0368bf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17199039</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_13606a56-32be-4384-8f3f-8b318b0368bf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17199039"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10698.681" y="13864.069"/> <port id="pr_13606a56-32be-4384-8f3f-8b318b0368bf_p1" x="10703.681" y="13884.069"/> <port id="pr_13606a56-32be-4384-8f3f-8b318b0368bf_p2" x="10703.681" y="13854.069"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_803bd052-6765-4cc5-9bd6-3b7c3c0b6106"> <bbox w="10.0" h="10.0" x="22597.625" y="14295.0"/> <port id="pr_803bd052-6765-4cc5-9bd6-3b7c3c0b6106_p1" x="22587.625" y="14300.0"/> <port id="pr_803bd052-6765-4cc5-9bd6-3b7c3c0b6106_p2" x="22617.625" y="14300.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_bac5d6e3-f9af-4683-90e8-b10fad9cf5ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bac5d6e3-f9af-4683-90e8-b10fad9cf5ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5444.0" y="15361.0"/> <port id="pr_bac5d6e3-f9af-4683-90e8-b10fad9cf5ce_p1" x="5464.0" y="15366.0"/> <port id="pr_bac5d6e3-f9af-4683-90e8-b10fad9cf5ce_p2" x="5434.0" y="15366.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b39bb380-462b-4dc6-bb9c-a54e9d4f457e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2834.8381" y="18605.27"/> <port id="pr_b39bb380-462b-4dc6-bb9c-a54e9d4f457e_p1" x="2839.8381" y="18625.27"/> <port id="pr_b39bb380-462b-4dc6-bb9c-a54e9d4f457e_p2" x="2839.8381" y="18595.27"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2fd2c856-8fbb-4cf4-a4c9-fd0745e0824d"> <bbox w="10.0" h="10.0" x="30033.5" y="5928.75"/> <port 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id="pr_3f913386-44d1-4d1f-9766-201cf76ef2c2_p1" x="13145.58" y="9161.185"/> <port id="pr_3f913386-44d1-4d1f-9766-201cf76ef2c2_p2" x="13115.58" y="9161.185"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d41a2561-3bad-42b1-9cbd-d01bbdce731b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5137.3857" y="18273.625"/> <port id="pr_d41a2561-3bad-42b1-9cbd-d01bbdce731b_p1" x="5142.3857" y="18263.625"/> <port id="pr_d41a2561-3bad-42b1-9cbd-d01bbdce731b_p2" x="5142.3857" y="18293.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6ed489f3-3cd0-44ef-8de5-b695bb238e7a"> <bbox w="10.0" h="10.0" x="29941.0" y="7170.0"/> <port id="pr_6ed489f3-3cd0-44ef-8de5-b695bb238e7a_p1" x="29961.0" y="7175.0"/> <port id="pr_6ed489f3-3cd0-44ef-8de5-b695bb238e7a_p2" x="29931.0" y="7175.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_41cfd70c-af0e-4442-9a5c-abe7021654d2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6320.5" y="18896.75"/> <port id="pr_41cfd70c-af0e-4442-9a5c-abe7021654d2_p1" x="6325.5" y="18886.75"/> <port id="pr_41cfd70c-af0e-4442-9a5c-abe7021654d2_p2" x="6325.5" y="18916.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_76e73374-07e2-44ad-a3ce-d494c0951ff9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19797085</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_76e73374-07e2-44ad-a3ce-d494c0951ff9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19797085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13538.061" y="18216.0"/> <port id="pr_76e73374-07e2-44ad-a3ce-d494c0951ff9_p1" x="13528.061" y="18221.0"/> <port id="pr_76e73374-07e2-44ad-a3ce-d494c0951ff9_p2" x="13558.061" y="18221.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_62c92401-e783-429c-811e-6ae84a3a0c92"> <bbox w="20.0" h="20.0" x="13443.311" y="18087.006"/> <port id="logicglyph_62c92401-e783-429c-811e-6ae84a3a0c92_p1" x="13453.311" y="18077.006"/> <port id="logicglyph_62c92401-e783-429c-811e-6ae84a3a0c92_p2" x="13453.311" y="18117.006"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_47e4be6c-2e51-4acb-ab56-b055932a0cc0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20129.06" y="14962.0"/> <port id="pr_47e4be6c-2e51-4acb-ab56-b055932a0cc0_p1" x="20149.06" y="14967.0"/> <port id="pr_47e4be6c-2e51-4acb-ab56-b055932a0cc0_p2" x="20119.06" y="14967.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_516cffe2-9c7e-4f50-b670-265859a3bab8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19686080</p> <p>POLH participates in the D-loop formation in HR:</p> <p>PMID:16337602, PMID:16337601</p> <p>Complex PolN:HEL308 participates in HR and in Fanconi PMID:19995904</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_516cffe2-9c7e-4f50-b670-265859a3bab8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16337602"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16337601"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19995904"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14129.832" y="16610.652"/> <port id="pr_516cffe2-9c7e-4f50-b670-265859a3bab8_p1" x="14134.832" y="16600.652"/> <port id="pr_516cffe2-9c7e-4f50-b670-265859a3bab8_p2" x="14134.832" y="16630.652"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ee35af09-3072-4bee-a9cb-142f9ac54405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18555778</p> <p>PMID:18555777</p> <p>There is a positive feedback loop between IL6 and CEBP that help maintain the senescence state</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ee35af09-3072-4bee-a9cb-142f9ac54405"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555777"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4886.5" y="17206.0"/> <port id="pr_ee35af09-3072-4bee-a9cb-142f9ac54405_p1" x="4876.5" y="17211.0"/> <port id="pr_ee35af09-3072-4bee-a9cb-142f9ac54405_p2" x="4906.5" y="17211.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b98b39ec-e2a7-43ea-b2d6-e4b0401d8645"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27427.81" y="18579.0"/> <port id="pr_b98b39ec-e2a7-43ea-b2d6-e4b0401d8645_p1" x="27432.81" y="18569.0"/> <port id="pr_b98b39ec-e2a7-43ea-b2d6-e4b0401d8645_p2" x="27432.81" y="18599.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9da17d52-0dc3-4f9d-b59c-c69d67c56909"> <bbox w="10.0" h="10.0" x="26481.014" y="14089.0"/> <port id="pr_9da17d52-0dc3-4f9d-b59c-c69d67c56909_p1" x="26486.014" y="14109.0"/> <port id="pr_9da17d52-0dc3-4f9d-b59c-c69d67c56909_p2" x="26486.014" y="14079.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ca33bd2f-9f98-4281-a899-fd3e0c37f1df"> <bbox w="10.0" h="10.0" x="21175.0" y="6185.0"/> <port id="pr_ca33bd2f-9f98-4281-a899-fd3e0c37f1df_p1" x="21195.0" y="6190.0"/> <port id="pr_ca33bd2f-9f98-4281-a899-fd3e0c37f1df_p2" x="21165.0" y="6190.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_93e9a5c4-6805-4dcd-8b2b-8a41c1eae12d"> <bbox w="10.0" h="10.0" x="12410.492" y="4475.0"/> <port id="pr_93e9a5c4-6805-4dcd-8b2b-8a41c1eae12d_p1" x="12415.492" y="4465.0"/> <port id="pr_93e9a5c4-6805-4dcd-8b2b-8a41c1eae12d_p2" x="12415.492" y="4495.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_35f04e89-4d17-4141-86de-5778eeed971d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For role of TIM1*/TIPIN in S-phase checkpoint, stalled replication forks stabilisation and DNA repair during S-phase:</p> <p>PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221</p> <p>Stalled replication forks induce PCNA mono-ubiquitylation and formation of the complex that activated TLS and arrests S-phase:</p> <p>PMID:19793801, PMID:17582221, PMID:19158510, PMID:18451105</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18451105"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13585.769" y="9278.0"/> <port id="pr_35f04e89-4d17-4141-86de-5778eeed971d_p1" x="13605.769" y="9283.0"/> <port id="pr_35f04e89-4d17-4141-86de-5778eeed971d_p2" x="13575.769" y="9283.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_61aef28f-c43e-4bd0-a3be-3fe04e054461"> <bbox w="20.0" h="20.0" x="13478.625" y="9846.5"/> <port id="logicglyph_61aef28f-c43e-4bd0-a3be-3fe04e054461_p1" x="13488.625" y="9876.5"/> <port id="logicglyph_61aef28f-c43e-4bd0-a3be-3fe04e054461_p2" x="13488.625" y="9836.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2047e401-44a2-4d5f-bde0-c67c58f4e65d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5348.375" y="16541.5"/> <port id="pr_2047e401-44a2-4d5f-bde0-c67c58f4e65d_p1" x="5338.375" y="16546.5"/> <port id="pr_2047e401-44a2-4d5f-bde0-c67c58f4e65d_p2" x="5368.375" y="16546.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8eeb90bb-80eb-4cba-b459-8c4f705d4327"> <bbox w="10.0" h="10.0" x="28327.168" y="7713.75"/> <port id="pr_8eeb90bb-80eb-4cba-b459-8c4f705d4327_p1" x="28332.168" y="7703.75"/> <port id="pr_8eeb90bb-80eb-4cba-b459-8c4f705d4327_p2" x="28332.168" y="7733.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4f73e690-5604-4bed-9a63-509617dc10dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Though not known if this transcription is mediated by CBP in the transcripoition complex could be otherwise P300</p> <p>PMID:23296977</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4f73e690-5604-4bed-9a63-509617dc10dd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23296977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21996.56" y="22678.0"/> <port id="pr_4f73e690-5604-4bed-9a63-509617dc10dd_p1" x="21986.56" y="22683.0"/> <port id="pr_4f73e690-5604-4bed-9a63-509617dc10dd_p2" x="22016.56" y="22683.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3ca64cc5-355d-482c-bf97-60115e48c0aa"> <bbox w="10.0" h="10.0" x="3728.0232" y="4774.75"/> <port id="pr_3ca64cc5-355d-482c-bf97-60115e48c0aa_p1" x="3733.0232" y="4764.75"/> <port id="pr_3ca64cc5-355d-482c-bf97-60115e48c0aa_p2" x="3733.0232" y="4794.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8d004bd5-243f-4364-9a17-55ff6a55eead"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>GADD45 modulated and causes complex formation APE:PCNA. GADD is rgulated by p53:</p> <p>PMID:17599061, PMID:23485469</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8d004bd5-243f-4364-9a17-55ff6a55eead"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17599061"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23485469"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9506.047" y="16265.729"/> <port id="pr_8d004bd5-243f-4364-9a17-55ff6a55eead_p1" x="9526.047" y="16270.729"/> <port id="pr_8d004bd5-243f-4364-9a17-55ff6a55eead_p2" x="9496.047" y="16270.729"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7d4a9c2e-8e10-4c75-a5b4-d88316f762b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2172.7534" y="14627.5"/> <port id="pr_7d4a9c2e-8e10-4c75-a5b4-d88316f762b0_p1" x="2177.7534" y="14647.5"/> <port id="pr_7d4a9c2e-8e10-4c75-a5b4-d88316f762b0_p2" x="2177.7534" y="14617.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1bc8b651-d865-4698-ac2f-b38848bbb8ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12646560</p> <p>in CCL39 chinese hamster lung fibroblast cell line</p> <p>PMID:15486085</p> <p>in IL-3 dependent mouse pro-B cell line FL5.12, upon IL-3, ERK dependent phosphorylation of BimEL on S55, S65, S100 (mouse Bim)</p> <p>in vitro, ERK2 phosphorylates mouse BimEL</p> <p>in mouse BAF3 cells, in TF-1 human granulocyte macrophage- colony stimulating factor-dependent er ythroleukemia cell line, and in mouse embr yonic fibroblasts when IGF-1 was used as a survival factor, an upshift in BimEL (not BimL) electrophoretic mobility upon IL3. This upshift is lost in FL5.12 if phosphosites are mutated.</p> <p>PMID:19150432</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1bc8b651-d865-4698-ac2f-b38848bbb8ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12646560"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15486085"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19150432"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22410.227" y="11778.334"/> <port id="pr_1bc8b651-d865-4698-ac2f-b38848bbb8ed_p1" x="22400.227" y="11783.334"/> <port id="pr_1bc8b651-d865-4698-ac2f-b38848bbb8ed_p2" x="22430.227" y="11783.334"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_869a8888-9639-461d-af72-0f1d55711f4e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19131971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_869a8888-9639-461d-af72-0f1d55711f4e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18571.06" y="21924.0"/> <port id="pr_869a8888-9639-461d-af72-0f1d55711f4e_p1" x="18591.06" y="21929.0"/> <port id="pr_869a8888-9639-461d-af72-0f1d55711f4e_p2" x="18561.06" y="21929.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b946246-2c3b-4736-9e8c-218bb9358772"> <bbox w="10.0" h="10.0" x="939.9251" y="4134.75"/> <port id="pr_0b946246-2c3b-4736-9e8c-218bb9358772_p1" x="959.9251" y="4139.75"/> <port id="pr_0b946246-2c3b-4736-9e8c-218bb9358772_p2" x="929.9251" y="4139.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_14213477-42cc-474e-ba75-d1a6ca6053be"> <bbox w="10.0" h="10.0" x="4105.0" y="4717.25"/> <port id="pr_14213477-42cc-474e-ba75-d1a6ca6053be_p1" x="4110.0" y="4707.25"/> <port id="pr_14213477-42cc-474e-ba75-d1a6ca6053be_p2" x="4110.0" y="4737.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_48193ffb-4cb4-47c5-975a-e00f375034bc"> <bbox w="10.0" h="10.0" x="24413.37" y="2787.0"/> <port id="pr_48193ffb-4cb4-47c5-975a-e00f375034bc_p1" x="24418.37" y="2777.0"/> <port id="pr_48193ffb-4cb4-47c5-975a-e00f375034bc_p2" x="24418.37" y="2807.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_196018e4-5b4b-4e55-9e2a-c27779259f6a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:12453415</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_196018e4-5b4b-4e55-9e2a-c27779259f6a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12453415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16533.18" y="20952.5"/> <port id="pr_196018e4-5b4b-4e55-9e2a-c27779259f6a_p1" x="16538.18" y="20942.5"/> <port id="pr_196018e4-5b4b-4e55-9e2a-c27779259f6a_p2" x="16538.18" y="20972.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_035251b7-34ff-426d-abbb-7a39a6f8e986"> <bbox w="10.0" h="10.0" x="11008.672" y="16789.693"/> <port id="pr_035251b7-34ff-426d-abbb-7a39a6f8e986_p1" x="11028.672" y="16794.693"/> <port id="pr_035251b7-34ff-426d-abbb-7a39a6f8e986_p2" x="10998.672" y="16794.693"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4496d720-21d9-4738-9aaf-3c2c5af5ee95"> <bbox w="10.0" h="10.0" x="26012.06" y="13229.615"/> <port id="pr_4496d720-21d9-4738-9aaf-3c2c5af5ee95_p1" x="26032.06" y="13234.615"/> <port id="pr_4496d720-21d9-4738-9aaf-3c2c5af5ee95_p2" x="26002.06" y="13234.615"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb54d9e9-1bce-4250-8e02-3974d65f2472"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19101.56" y="10449.0"/> <port id="pr_eb54d9e9-1bce-4250-8e02-3974d65f2472_p1" x="19121.56" y="10454.0"/> <port id="pr_eb54d9e9-1bce-4250-8e02-3974d65f2472_p2" x="19091.56" y="10454.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_637b3571-d49d-4750-b49e-2b125c860990"> <bbox w="10.0" h="10.0" x="29828.0" y="5823.5303"/> <port id="pr_637b3571-d49d-4750-b49e-2b125c860990_p1" x="29818.0" y="5828.5303"/> <port id="pr_637b3571-d49d-4750-b49e-2b125c860990_p2" x="29848.0" y="5828.5303"/> </glyph> <glyph class="process" orientation="vertical" id="pr_26358034-8c1f-4902-82d5-30e818a16d0c"> <bbox w="10.0" h="10.0" x="28990.285" y="16005.25"/> <port id="pr_26358034-8c1f-4902-82d5-30e818a16d0c_p1" x="28995.285" y="16025.25"/> <port id="pr_26358034-8c1f-4902-82d5-30e818a16d0c_p2" x="28995.285" y="15995.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c7109509-8cb5-4156-a9a8-cb6d41d9b9dd"> <bbox w="10.0" h="10.0" x="24335.5" y="3463.4583"/> <port id="pr_c7109509-8cb5-4156-a9a8-cb6d41d9b9dd_p1" x="24355.5" y="3468.4583"/> <port id="pr_c7109509-8cb5-4156-a9a8-cb6d41d9b9dd_p2" x="24325.5" y="3468.4583"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_729684a2-7cd3-4419-aebf-f6eda9c9f22a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3384.5" y="15784.717"/> <port id="pr_729684a2-7cd3-4419-aebf-f6eda9c9f22a_p1" x="3374.5" y="15789.717"/> <port id="pr_729684a2-7cd3-4419-aebf-f6eda9c9f22a_p2" x="3404.5" y="15789.717"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_06764691-41da-402d-8cd4-9b571e7aeecd"> <bbox w="10.0" h="10.0" x="21809.426" y="19918.266"/> <port id="pr_06764691-41da-402d-8cd4-9b571e7aeecd_p1" x="21799.426" y="19923.266"/> <port id="pr_06764691-41da-402d-8cd4-9b571e7aeecd_p2" x="21829.426" y="19923.266"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d3346eac-37a0-405c-ae7a-608ca541df02"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3798.7659" y="15037.0"/> <port id="pr_d3346eac-37a0-405c-ae7a-608ca541df02_p1" x="3803.7659" y="15057.0"/> <port id="pr_d3346eac-37a0-405c-ae7a-608ca541df02_p2" x="3803.7659" y="15027.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3feb870a-cb8c-4208-ac0d-02ffc7330311"> <bbox w="10.0" h="10.0" x="27775.389" y="13420.199"/> <port id="pr_3feb870a-cb8c-4208-ac0d-02ffc7330311_p1" x="27765.389" y="13425.199"/> <port id="pr_3feb870a-cb8c-4208-ac0d-02ffc7330311_p2" x="27795.389" y="13425.199"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4edcb35c-2824-464f-ac36-474eb27b5a8b"> <bbox w="10.0" h="10.0" x="29080.285" y="16005.25"/> <port id="pr_4edcb35c-2824-464f-ac36-474eb27b5a8b_p1" x="29085.285" y="16025.25"/> <port id="pr_4edcb35c-2824-464f-ac36-474eb27b5a8b_p2" x="29085.285" y="15995.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e88b4394-80e3-42cf-80a6-cbf36099a84e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27136.56" y="23024.5"/> <port id="pr_e88b4394-80e3-42cf-80a6-cbf36099a84e_p1" x="27156.56" y="23029.5"/> <port id="pr_e88b4394-80e3-42cf-80a6-cbf36099a84e_p2" x="27126.56" y="23029.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_24ddd774-6e7a-46f9-8fab-7e5ba8331a16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16608847</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_24ddd774-6e7a-46f9-8fab-7e5ba8331a16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16608847"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21882.06" y="14704.0"/> <port id="pr_24ddd774-6e7a-46f9-8fab-7e5ba8331a16_p1" x="21902.06" y="14709.0"/> <port id="pr_24ddd774-6e7a-46f9-8fab-7e5ba8331a16_p2" x="21872.06" y="14709.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_03f6d926-3eff-42f5-9664-d0a5d830316e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> <p>PMID:21084277</p> <p>PMID:19440036</p> <p>PMID:19945467</p> <p>PMID:20609352</p> <p>PMID:26597054</p> <p>PMID:23572150</p> <p>PMID:17409395</p> <p>PMID:27328425</p> <p>PMID:27572739</p> <p>PMID:25136802</p> <p>PMID:24030100</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03f6d926-3eff-42f5-9664-d0a5d830316e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20609352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25136802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030100"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3118.75" y="9663.25"/> <port id="pr_03f6d926-3eff-42f5-9664-d0a5d830316e_p1" x="3108.75" y="9668.25"/> <port id="pr_03f6d926-3eff-42f5-9664-d0a5d830316e_p2" x="3138.75" y="9668.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2e071460-5b94-499e-88a0-6eb18eb7ff60"> <bbox w="10.0" h="10.0" x="12720.811" y="19102.5"/> <port id="pr_2e071460-5b94-499e-88a0-6eb18eb7ff60_p1" x="12725.811" y="19092.5"/> <port id="pr_2e071460-5b94-499e-88a0-6eb18eb7ff60_p2" x="12725.811" y="19122.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_05145fa6-62a0-447a-b769-a673200a0119"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15169778</p> <p>PMID:11923280</p> <p>PMID:11715018</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_05145fa6-62a0-447a-b769-a673200a0119"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15169778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11923280"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11715018"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.561" y="18887.0"/> <port id="pr_05145fa6-62a0-447a-b769-a673200a0119_p1" x="12692.561" y="18877.0"/> <port id="pr_05145fa6-62a0-447a-b769-a673200a0119_p2" x="12692.561" y="18907.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_0ae3ebbe-18e7-46c3-ac06-a6f18fd47817"> <bbox w="10.0" h="10.0" x="12968.561" y="20607.25"/> <port id="pr_0ae3ebbe-18e7-46c3-ac06-a6f18fd47817_p1" x="12973.561" y="20627.25"/> <port id="pr_0ae3ebbe-18e7-46c3-ac06-a6f18fd47817_p2" x="12973.561" y="20597.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_66dd1c90-7d9b-4847-9899-616a7a66a418"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4873.25" y="16281.5"/> <port id="pr_66dd1c90-7d9b-4847-9899-616a7a66a418_p1" x="4893.25" y="16286.5"/> <port id="pr_66dd1c90-7d9b-4847-9899-616a7a66a418_p2" x="4863.25" y="16286.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e1baf59d-c564-4bed-a1ea-e312152dd5c3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to NAD_super_+_endsuper_@mitochondrial matrix</p> <p>influenceDelete: NAD_super_+_endsuper_@mitochondrial matrix to re</p> <p>influenceDelete: re to H_super_+_endsuper_@mitochondrial matrix</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18851.81" y="14522.5"/> <port id="pr_e1baf59d-c564-4bed-a1ea-e312152dd5c3_p1" x="18841.81" y="14527.5"/> <port id="pr_e1baf59d-c564-4bed-a1ea-e312152dd5c3_p2" x="18871.81" y="14527.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ac11263d-b62a-48c2-a5ec-2c72413ad094"> <bbox w="10.0" h="10.0" x="12685.0" y="6711.25"/> <port id="pr_ac11263d-b62a-48c2-a5ec-2c72413ad094_p1" x="12690.0" y="6701.25"/> <port id="pr_ac11263d-b62a-48c2-a5ec-2c72413ad094_p2" x="12690.0" y="6731.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cd886818-ecb0-4324-99cb-5db0396a2e3c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>cf. Rb pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22249.06" y="16469.0"/> <port id="pr_cd886818-ecb0-4324-99cb-5db0396a2e3c_p1" x="22254.06" y="16489.0"/> <port id="pr_cd886818-ecb0-4324-99cb-5db0396a2e3c_p2" x="22254.06" y="16459.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8efd6214-852f-43ed-ae8b-6fe15182d247"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1604.25" y="12587.164"/> <port id="pr_8efd6214-852f-43ed-ae8b-6fe15182d247_p1" x="1594.25" y="12592.164"/> <port id="pr_8efd6214-852f-43ed-ae8b-6fe15182d247_p2" x="1624.25" y="12592.164"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5b613697-bdcf-437a-b139-0682e57a6bfb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18321.56" y="16599.0"/> <port id="pr_5b613697-bdcf-437a-b139-0682e57a6bfb_p1" x="18341.56" y="16604.0"/> <port id="pr_5b613697-bdcf-437a-b139-0682e57a6bfb_p2" x="18311.56" y="16604.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4f8dad7c-c944-46d9-b089-e83b2173fb67"> <bbox w="10.0" h="10.0" x="13985.145" y="10195.246"/> <port id="pr_4f8dad7c-c944-46d9-b089-e83b2173fb67_p1" x="14005.145" y="10200.246"/> <port id="pr_4f8dad7c-c944-46d9-b089-e83b2173fb67_p2" x="13975.145" y="10200.246"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3250406b-5d76-46dd-9205-f2f8320fb935"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16126909</p> <p>in human breast carcinoma BT-549 cells, by HIF1</p> <p>PMID:10823814</p> <p>in rat1a rat fibroblasts upon c-myc overexpression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3250406b-5d76-46dd-9205-f2f8320fb935"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16126909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10823814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22963.803" y="16159.75"/> <port id="pr_3250406b-5d76-46dd-9205-f2f8320fb935_p1" x="22968.803" y="16179.75"/> <port id="pr_3250406b-5d76-46dd-9205-f2f8320fb935_p2" x="22968.803" y="16149.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a0ec19e1-5356-4172-a0fb-fbeb061108fd"> <bbox w="10.0" h="10.0" x="20691.25" y="5277.5"/> <port id="pr_a0ec19e1-5356-4172-a0fb-fbeb061108fd_p1" x="20696.25" y="5267.5"/> <port id="pr_a0ec19e1-5356-4172-a0fb-fbeb061108fd_p2" x="20696.25" y="5297.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ca7cc0e-f961-4525-b45d-b092a145af24"> <bbox w="10.0" h="10.0" x="22129.777" y="5361.25"/> <port id="pr_6ca7cc0e-f961-4525-b45d-b092a145af24_p1" x="22134.777" y="5351.25"/> <port id="pr_6ca7cc0e-f961-4525-b45d-b092a145af24_p2" x="22134.777" y="5381.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1b0cd530-3fe6-4785-98ec-e08fcdaef4ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1091.5969" y="18412.75"/> <port id="pr_1b0cd530-3fe6-4785-98ec-e08fcdaef4ad_p1" x="1096.5969" y="18402.75"/> <port id="pr_1b0cd530-3fe6-4785-98ec-e08fcdaef4ad_p2" x="1096.5969" y="18432.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_717b8f3e-748d-4173-b811-b00922acd8d8"> <bbox w="10.0" h="10.0" x="25665.31" y="13636.5"/> <port id="pr_717b8f3e-748d-4173-b811-b00922acd8d8_p1" x="25670.31" y="13626.5"/> <port id="pr_717b8f3e-748d-4173-b811-b00922acd8d8_p2" x="25670.31" y="13656.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56cf03b4-9506-4d35-882d-ad057583b488"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_56cf03b4-9506-4d35-882d-ad057583b488"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2369.75" y="10317.0"/> <port id="pr_56cf03b4-9506-4d35-882d-ad057583b488_p1" x="2374.75" y="10337.0"/> <port id="pr_56cf03b4-9506-4d35-882d-ad057583b488_p2" x="2374.75" y="10307.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_859d5cda-9f62-4d4e-95f3-0968ebb714e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:16547521 </p> <p>In the presence of WNT3a DVL-3 forms complex with KLHL12/CUL3/RBX1-complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_859d5cda-9f62-4d4e-95f3-0968ebb714e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16547521"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20525.814" y="18371.75"/> <port id="pr_859d5cda-9f62-4d4e-95f3-0968ebb714e2_p1" x="20530.814" y="18361.75"/> <port id="pr_859d5cda-9f62-4d4e-95f3-0968ebb714e2_p2" x="20530.814" y="18391.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_406acb5e-0331-41b4-a45a-a36459279e63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2891.5" y="16965.238"/> <port id="pr_406acb5e-0331-41b4-a45a-a36459279e63_p1" x="2911.5" y="16970.238"/> <port id="pr_406acb5e-0331-41b4-a45a-a36459279e63_p2" x="2881.5" y="16970.238"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9125cc94-5193-4b9a-ac95-b0542f023890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19556239</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9125cc94-5193-4b9a-ac95-b0542f023890"> <bqbiol:isEncodedBy> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12389032</p> <p>in IMR90 human fibroblasts from fetal lung tissues</p> <p>in MEFs</p> <p>in Saos2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_573922ad-6d51-4a87-817e-ddf2b1ba196f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12389032"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22505.316" y="16161.75"/> <port id="pr_573922ad-6d51-4a87-817e-ddf2b1ba196f_p1" x="22510.316" y="16181.75"/> <port id="pr_573922ad-6d51-4a87-817e-ddf2b1ba196f_p2" x="22510.316" y="16151.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4fdf7659-e337-4a88-89bc-713947b2783d"> <bbox w="10.0" h="10.0" x="18734.13" y="10968.85"/> <port id="pr_4fdf7659-e337-4a88-89bc-713947b2783d_p1" x="18739.13" y="10958.85"/> <port id="pr_4fdf7659-e337-4a88-89bc-713947b2783d_p2" x="18739.13" y="10988.85"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a50cd45f-7e47-45e8-a2d2-c0f41d669780"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16371504</p> <p>The endocytosis of trans-interacting E-cadherin was inhibited by Rac and Cdc42 small G proteins, which were activated by trans-interacting E-cadherin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a50cd45f-7e47-45e8-a2d2-c0f41d669780"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16371504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6556.375" y="14549.5"/> <port id="pr_a50cd45f-7e47-45e8-a2d2-c0f41d669780_p1" x="6561.375" y="14569.5"/> <port id="pr_a50cd45f-7e47-45e8-a2d2-c0f41d669780_p2" x="6561.375" y="14539.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_977a0b8f-5f71-460a-b55e-62ea742e9274"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3099.6753" y="19023.5"/> <port id="pr_977a0b8f-5f71-460a-b55e-62ea742e9274_p1" x="3104.6753" y="19013.5"/> <port id="pr_977a0b8f-5f71-460a-b55e-62ea742e9274_p2" x="3104.6753" y="19043.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29fac224-f213-4800-8c34-d5db4678b26a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15169778</p> <p>PMID:11923280</p> <p>PMID:11715018</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_29fac224-f213-4800-8c34-d5db4678b26a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15169778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11923280"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11715018"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12519.311" y="18646.5"/> <port id="pr_29fac224-f213-4800-8c34-d5db4678b26a_p1" x="12524.311" y="18636.5"/> <port id="pr_29fac224-f213-4800-8c34-d5db4678b26a_p2" x="12524.311" y="18666.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6355eb73-c6cd-4cef-9470-8d94da821b9a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Prickle interacts physically with Vangl</p> <p>PMID:22037766 </p> <p>PMID:12941693</p> <p>Par6 is constitutively associated with Dvl</p> <p>PMID:19379695</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6355eb73-c6cd-4cef-9470-8d94da821b9a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22037766"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12941693"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16741.06" y="18757.9"/> <port id="pr_6355eb73-c6cd-4cef-9470-8d94da821b9a_p1" x="16731.06" y="18762.9"/> <port id="pr_6355eb73-c6cd-4cef-9470-8d94da821b9a_p2" x="16761.06" y="18762.9"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5274caa0-1294-4758-a6b3-52cb3347a79a"> <bbox w="10.0" h="10.0" x="22468.125" y="5112.5"/> <port id="pr_5274caa0-1294-4758-a6b3-52cb3347a79a_p1" x="22458.125" y="5117.5"/> <port id="pr_5274caa0-1294-4758-a6b3-52cb3347a79a_p2" x="22488.125" y="5117.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e9bbe676-0ec4-42e1-854a-8bc9d78fa493"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3217.0" y="16015.477"/> <port id="pr_e9bbe676-0ec4-42e1-854a-8bc9d78fa493_p1" x="3207.0" y="16020.477"/> <port id="pr_e9bbe676-0ec4-42e1-854a-8bc9d78fa493_p2" x="3237.0" y="16020.477"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_ad26d946-faff-496e-a1a0-076e75736e9a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Autophosphorylation of PTK2:</p> <p>PMID:7529872</p> <p>PMID:19339212</p> <p>PMID:7657702</p> <p>PMID:16919435</p> <p>Autophosphorylation of PTK2 at Y397 creates binding site for CSK, a member of Scr family kinases.</p> <p>In response to integrin engagement with the ECM, FAK is autophosphorylated predominantly on Y397</p> <p>This Y397 is the consensus binding site for the SH2 domain of c-Src (CSK)</p> <p>PMID:11114741</p> <p>Interaction of CSK with FAK leads to phosphorylation of FAK on other tyrosine residues including Y407, 576, 577, 861, 925/</p> <p>These phosphorylation events promote PTK2 to its maximal catalytic activity.</p> <p>Upon autophosphorylation of FAK, a signaling complex of FAK, CSK binds to and can phosphorylate various adaptor proteins such as p130Cas and paxillin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ad26d946-faff-496e-a1a0-076e75736e9a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7529872"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339212"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ca39faac-edd6-4a1f-8d3f-3ce8703c84ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2667.3809" y="8946.0"/> <port id="pr_ca39faac-edd6-4a1f-8d3f-3ce8703c84ce_p1" x="2672.3809" y="8966.0"/> <port id="pr_ca39faac-edd6-4a1f-8d3f-3ce8703c84ce_p2" x="2672.3809" y="8936.0"/> </glyph> <glyph class="process" 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id="pr_5108bf61-64b4-4f1f-880d-fd5a32b31f79"> <bbox w="10.0" h="10.0" x="27879.06" y="10094.0"/> <port id="pr_5108bf61-64b4-4f1f-880d-fd5a32b31f79_p1" x="27869.06" y="10099.0"/> <port id="pr_5108bf61-64b4-4f1f-880d-fd5a32b31f79_p2" x="27899.06" y="10099.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9366af02-3cbe-4b2c-b114-0d7c7752248a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9366af02-3cbe-4b2c-b114-0d7c7752248a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12277.561" y="21263.168"/> <port id="pr_9366af02-3cbe-4b2c-b114-0d7c7752248a_p1" x="12297.561" y="21268.168"/> <port id="pr_9366af02-3cbe-4b2c-b114-0d7c7752248a_p2" x="12267.561" y="21268.168"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1f956d10-6283-45bc-8e05-ff60372e2804"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19564415</p> <p>The transcription factor FOXO3, negatively regulated by binding to 14-3-3 protein family, induces MMP9 and MMP13 expression.</p> <p>This explains the role of FOXO3 in promoting tumor invasion.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1f956d10-6283-45bc-8e05-ff60372e2804"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19564415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2939.25" y="17471.812"/> <port id="pr_1f956d10-6283-45bc-8e05-ff60372e2804_p1" x="2959.25" 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fe71b009-82d8-4866-80b2-af3cfc74ad84"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6048.5" y="11262.25"/> <port id="pr_fe71b009-82d8-4866-80b2-af3cfc74ad84_p1" x="6038.5" y="11267.25"/> <port id="pr_fe71b009-82d8-4866-80b2-af3cfc74ad84_p2" x="6068.5" y="11267.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5c311c76-40e2-4597-82e6-ea1c03f70a32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6718.344" y="16183.212"/> <port id="pr_5c311c76-40e2-4597-82e6-ea1c03f70a32_p1" x="6723.344" y="16203.212"/> <port id="pr_5c311c76-40e2-4597-82e6-ea1c03f70a32_p2" x="6723.344" y="16173.212"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_50172d0e-ca60-440f-b36a-0a22f5a2d9b6"> <bbox w="10.0" h="10.0" x="14321.809" y="2016.8684"/> <port id="pr_50172d0e-ca60-440f-b36a-0a22f5a2d9b6_p1" x="14341.809" y="2021.8684"/> <port id="pr_50172d0e-ca60-440f-b36a-0a22f5a2d9b6_p2" x="14311.809" y="2021.8684"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_853ce8bf-acb1-401c-81a9-9b15ffabf8fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_853ce8bf-acb1-401c-81a9-9b15ffabf8fe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26201.623" y="20978.0"/> <port id="pr_853ce8bf-acb1-401c-81a9-9b15ffabf8fe_p1" x="26191.623" y="20983.0"/> <port id="pr_853ce8bf-acb1-401c-81a9-9b15ffabf8fe_p2" x="26221.623" y="20983.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ef7c02e-d675-4a0f-b761-acb8f22db4ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.</p> <p>PMID:10391247</p> <p>TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.</p> <p>PMID:21795403</p> <p>GSK3β inactivation induces apoptosis of leukemia cells by repressing the function of c-Myb</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ef7c02e-d675-4a0f-b761-acb8f22db4ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10391247"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21795403"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4864.394" y="14441.803"/> <port id="pr_2ef7c02e-d675-4a0f-b761-acb8f22db4ed_p1" x="4869.394" y="14461.803"/> <port id="pr_2ef7c02e-d675-4a0f-b761-acb8f22db4ed_p2" x="4869.394" y="14431.803"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_0345a665-9d5c-4b6c-a9be-e6aa6d89d384"> <bbox w="20.0" h="20.0" x="4659.0" y="14848.0"/> <port id="logicglyph_0345a665-9d5c-4b6c-a9be-e6aa6d89d384_p1" x="4669.0" y="14878.0"/> <port id="logicglyph_0345a665-9d5c-4b6c-a9be-e6aa6d89d384_p2" x="4669.0" y="14838.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_502b7063-9ffe-43f5-9a28-0f8242301a99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Sos mediates Ras activation. Interaction of Sos with Ras induces the formation of RasGTP from RasGDP.</p> <p>Spry is induced by activated ERK through phosphorylation on Tyr55. It positively regulates EGFR signalling by sequestering Cbl whereas it negatively regulates FGFR signalling by sequestering Grb2 from FSR2.</p> <p>PMID:17496910 PMID:15173823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_502b7063-9ffe-43f5-9a28-0f8242301a99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15173823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8368.988" y="19140.844"/> <port id="pr_502b7063-9ffe-43f5-9a28-0f8242301a99_p1" x="8373.988" y="19130.844"/> <port id="pr_502b7063-9ffe-43f5-9a28-0f8242301a99_p2" x="8373.988" y="19160.844"/> </glyph> <glyph class="process" orientation="vertical" id="pr_442498bf-107e-40d5-aed3-515841dcaca7"> <bbox w="10.0" h="10.0" x="4167.0" y="6715.0"/> <port id="pr_442498bf-107e-40d5-aed3-515841dcaca7_p1" x="4172.0" y="6705.0"/> <port id="pr_442498bf-107e-40d5-aed3-515841dcaca7_p2" x="4172.0" y="6735.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2aa7cc5c-9caa-4662-baec-7040ebdf3fe0"> <bbox w="10.0" h="10.0" x="26258.762" y="2083.75"/> <port id="pr_2aa7cc5c-9caa-4662-baec-7040ebdf3fe0_p1" x="26248.762" y="2088.75"/> <port id="pr_2aa7cc5c-9caa-4662-baec-7040ebdf3fe0_p2" x="26278.762" y="2088.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b7d33641-fa26-4972-a237-8b6e127055ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2792.75" y="16139.725"/> <port id="pr_b7d33641-fa26-4972-a237-8b6e127055ac_p1" x="2782.75" y="16144.725"/> <port id="pr_b7d33641-fa26-4972-a237-8b6e127055ac_p2" x="2812.75" y="16144.725"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e659ebd0-00ca-48f6-b8f0-10fb3e9dde52"> <bbox w="10.0" h="10.0" x="20090.535" y="4841.25"/> <port id="pr_e659ebd0-00ca-48f6-b8f0-10fb3e9dde52_p1" x="20095.535" y="4831.25"/> <port id="pr_e659ebd0-00ca-48f6-b8f0-10fb3e9dde52_p2" x="20095.535" y="4861.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8cf5b53-78b3-455b-9f18-17dc57a0d738"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20208519</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f8cf5b53-78b3-455b-9f18-17dc57a0d738"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20208519"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20939.436" y="16870.75"/> <port id="pr_f8cf5b53-78b3-455b-9f18-17dc57a0d738_p1" x="20959.436" y="16875.75"/> <port id="pr_f8cf5b53-78b3-455b-9f18-17dc57a0d738_p2" x="20929.436" y="16875.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f10fa30a-6ba9-4a56-8c51-8bcd7b365785"> <bbox w="10.0" h="10.0" x="27511.56" y="10214.0"/> <port id="pr_f10fa30a-6ba9-4a56-8c51-8bcd7b365785_p1" x="27501.56" y="10219.0"/> <port id="pr_f10fa30a-6ba9-4a56-8c51-8bcd7b365785_p2" x="27531.56" y="10219.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e471457f-f3c8-4524-bf66-8f6711a5b70d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25102.055" y="13929.439"/> <port id="pr_e471457f-f3c8-4524-bf66-8f6711a5b70d_p1" x="25092.055" y="13934.439"/> <port id="pr_e471457f-f3c8-4524-bf66-8f6711a5b70d_p2" x="25122.055" y="13934.439"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d035cf2-5b0f-447d-bc51-417f07fc8bcf"> <bbox w="10.0" h="10.0" x="28341.0" y="7475.0"/> <port id="pr_2d035cf2-5b0f-447d-bc51-417f07fc8bcf_p1" x="28346.0" y="7465.0"/> <port id="pr_2d035cf2-5b0f-447d-bc51-417f07fc8bcf_p2" x="28346.0" y="7495.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f2f9384b-e44a-425c-8dd9-6d17c4b20fe0"> <bbox w="10.0" h="10.0" x="27956.625" y="7757.3896"/> <port id="pr_f2f9384b-e44a-425c-8dd9-6d17c4b20fe0_p1" x="27976.625" y="7762.3896"/> <port id="pr_f2f9384b-e44a-425c-8dd9-6d17c4b20fe0_p2" x="27946.625" y="7762.3896"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_234cce89-9729-40c6-8c6a-f5c077783482"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15897452</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_234cce89-9729-40c6-8c6a-f5c077783482"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15897452"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24945.81" y="14803.25"/> <port id="pr_234cce89-9729-40c6-8c6a-f5c077783482_p1" x="24965.81" y="14808.25"/> <port id="pr_234cce89-9729-40c6-8c6a-f5c077783482_p2" x="24935.81" y="14808.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_1999534d-3b2b-41db-86fa-ffbe1a838799"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10551883</p> <p>FGFR1 regulates activity of CDC42 by binding and phosphorylating thus inactivating BCL2.</p> <p>Phosphorylated BCL2 binds to another CDC42_GAP, ARHGAP1 and neutralize the GAP activity of ARHGAP1 as well.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1999534d-3b2b-41db-86fa-ffbe1a838799"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10551883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6514.0" y="14883.25"/> <port id="pr_1999534d-3b2b-41db-86fa-ffbe1a838799_p1" x="6504.0" y="14888.25"/> <port id="pr_1999534d-3b2b-41db-86fa-ffbe1a838799_p2" x="6534.0" y="14888.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e7f7033a-afbc-4888-b573-bccc8f8de027"> <bbox w="10.0" h="10.0" x="18962.936" y="14627.5"/> <port id="pr_e7f7033a-afbc-4888-b573-bccc8f8de027_p1" x="18967.936" y="14617.5"/> <port id="pr_e7f7033a-afbc-4888-b573-bccc8f8de027_p2" x="18967.936" y="14647.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b97c9dda-5ce5-4ec6-b298-0152263ceac9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5038.75" y="15740.5"/> <port id="pr_b97c9dda-5ce5-4ec6-b298-0152263ceac9_p1" x="5028.75" y="15745.5"/> <port id="pr_b97c9dda-5ce5-4ec6-b298-0152263ceac9_p2" x="5058.75" y="15745.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1474d058-d3a2-4a2d-be31-8db1cd445076"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:16511445, PMID:15121840</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1474d058-d3a2-4a2d-be31-8db1cd445076"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16511445"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15121840"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18947.06" y="19550.0"/> <port id="pr_1474d058-d3a2-4a2d-be31-8db1cd445076_p1" x="18937.06" y="19555.0"/> <port id="pr_1474d058-d3a2-4a2d-be31-8db1cd445076_p2" x="18967.06" y="19555.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_11e20e58-dbb4-4db3-8ea3-32bf5d3103bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18172008</p> <p>p53 induces PTEN transcription</p> <p>Snai1 inhibits gene expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_11e20e58-dbb4-4db3-8ea3-32bf5d3103bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18172008"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4584.448" y="14465.25"/> <port id="pr_11e20e58-dbb4-4db3-8ea3-32bf5d3103bc_p1" x="4589.448" y="14485.25"/> <port id="pr_11e20e58-dbb4-4db3-8ea3-32bf5d3103bc_p2" x="4589.448" y="14455.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a28d4706-a7bd-4ccc-95e8-60d722614802"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Sos is recruited from the cytosol to the plasma membrane as a result of its constitutive interaction with Grb2. It is in an autoinhibited state.</p> <p>PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a28d4706-a7bd-4ccc-95e8-60d722614802"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8035.8257" y="19426.0"/> <port id="pr_a28d4706-a7bd-4ccc-95e8-60d722614802_p1" x="8040.8257" y="19446.0"/> <port id="pr_a28d4706-a7bd-4ccc-95e8-60d722614802_p2" x="8040.8257" y="19416.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9b897ca9-006e-4288-b35a-06d12f389ee2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to products</p> <p>PMID:18087291</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9b897ca9-006e-4288-b35a-06d12f389ee2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18087291"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19032.81" y="16656.5"/> <port id="pr_9b897ca9-006e-4288-b35a-06d12f389ee2_p1" x="19037.81" y="16676.5"/> <port id="pr_9b897ca9-006e-4288-b35a-06d12f389ee2_p2" x="19037.81" y="16646.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_88a7054b-d9cf-45c1-9807-eb44f0bc6364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Binding of beta-arrestin to PTEN increases the lipid phosphatase activity of PTEN which converts PIP3 to PIP2. Active ROCK stimulates this complex formation </p> <p>PMID:21642958</p> <p>ROCK phosphorylates PTEN which is than activated. Activated PTEN reduces the concentration of PIP3</p> <p>PMID:15793569</p> <p>PMID:20008297</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_88a7054b-d9cf-45c1-9807-eb44f0bc6364"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21642958"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15793569"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008297"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15325.061" y="18709.98"/> <port id="pr_88a7054b-d9cf-45c1-9807-eb44f0bc6364_p1" x="15345.061" y="18714.98"/> <port id="pr_88a7054b-d9cf-45c1-9807-eb44f0bc6364_p2" x="15315.061" y="18714.98"/> </glyph> <glyph class="process" orientation="vertical" id="pr_211105c0-46ab-46c4-ad9c-b476ce3aa3bd"> <bbox w="10.0" h="10.0" x="3883.125" y="9109.75"/> <port id="pr_211105c0-46ab-46c4-ad9c-b476ce3aa3bd_p1" x="3888.125" y="9099.75"/> <port id="pr_211105c0-46ab-46c4-ad9c-b476ce3aa3bd_p2" x="3888.125" y="9129.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_18a5ddfd-2dee-4873-b181-71c15d8be161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8388392</p> <p>PMID:8226933</p> <p>In the cytoplasm activated MEK1 (Serine phosphorylated) may encounter monomeric, inactive ERK1. </p> <p>ERK1 in its inactive form is not phosphorylated on a critical Threonine (T) and a critical Tyrosine (Y).</p> <p>MEK1 phosphorylates the critical Tyr and Thr on ERK1, converting two ATP to ADP. Phosphorylation of ERK-1 activates its kinase activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18a5ddfd-2dee-4873-b181-71c15d8be161"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8388392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8226933"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6382.5" y="13607.25"/> <port id="pr_18a5ddfd-2dee-4873-b181-71c15d8be161_p1" x="6372.5" y="13612.25"/> <port id="pr_18a5ddfd-2dee-4873-b181-71c15d8be161_p2" x="6402.5" y="13612.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cb50da39-834e-4a2f-a8a2-833a13988baf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5696.5" y="13286.0"/> <port id="pr_cb50da39-834e-4a2f-a8a2-833a13988baf_p1" x="5686.5" y="13291.0"/> <port id="pr_cb50da39-834e-4a2f-a8a2-833a13988baf_p2" x="5716.5" y="13291.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_923629e1-9b0b-4d2a-8937-9ecd32569455"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>DKK1 can disrupt binding of Fz/LRP6/WNT complex</p> <p>PMID:11448771</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_923629e1-9b0b-4d2a-8937-9ecd32569455"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11448771"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24345.56" y="18240.896"/> <port id="pr_923629e1-9b0b-4d2a-8937-9ecd32569455_p1" x="24335.56" y="18245.896"/> <port id="pr_923629e1-9b0b-4d2a-8937-9ecd32569455_p2" x="24365.56" y="18245.896"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d5b87cba-c421-4a3b-888c-663fad234517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19424602</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d5b87cba-c421-4a3b-888c-663fad234517"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19424602"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26791.56" y="20655.238"/> <port id="pr_d5b87cba-c421-4a3b-888c-663fad234517_p1" x="26781.56" y="20660.238"/> <port id="pr_d5b87cba-c421-4a3b-888c-663fad234517_p2" x="26811.56" y="20660.238"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7be83609-4532-4ea6-947e-c667c4fd0470"> <bbox w="10.0" h="10.0" x="14400.0" y="8013.2954"/> <port id="pr_7be83609-4532-4ea6-947e-c667c4fd0470_p1" x="14420.0" y="8018.2954"/> <port id="pr_7be83609-4532-4ea6-947e-c667c4fd0470_p2" x="14390.0" y="8018.2954"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d145a266-f839-4e1a-9c9c-e61cad8430fb"> <bbox w="10.0" h="10.0" x="25855.31" y="13660.25"/> <port id="pr_d145a266-f839-4e1a-9c9c-e61cad8430fb_p1" x="25845.31" y="13665.25"/> <port id="pr_d145a266-f839-4e1a-9c9c-e61cad8430fb_p2" x="25875.31" y="13665.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_041ea026-1628-4c86-905c-cfeb905a3fda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9858600</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_041ea026-1628-4c86-905c-cfeb905a3fda"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9858600"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11581.416" y="11498.539"/> <port id="pr_041ea026-1628-4c86-905c-cfeb905a3fda_p1" x="11586.416" y="11488.539"/> <port id="pr_041ea026-1628-4c86-905c-cfeb905a3fda_p2" x="11586.416" y="11518.539"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b14987e5-600b-4aba-bc6c-64b0f3363d46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>cf. Rb pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22224.06" y="16469.0"/> <port id="pr_b14987e5-600b-4aba-bc6c-64b0f3363d46_p1" x="22229.06" y="16459.0"/> <port id="pr_b14987e5-600b-4aba-bc6c-64b0f3363d46_p2" x="22229.06" y="16489.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0b10f0df-ae38-4909-b3f6-ae15aeaaebf9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3536.8726" y="19155.5"/> <port id="pr_0b10f0df-ae38-4909-b3f6-ae15aeaaebf9_p1" x="3556.8726" y="19160.5"/> <port id="pr_0b10f0df-ae38-4909-b3f6-ae15aeaaebf9_p2" x="3526.8726" y="19160.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a666ba4b-8794-45af-a12a-cad08d92a5cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5516.0" y="16180.461"/> <port id="pr_a666ba4b-8794-45af-a12a-cad08d92a5cf_p1" x="5506.0" y="16185.461"/> <port id="pr_a666ba4b-8794-45af-a12a-cad08d92a5cf_p2" x="5536.0" y="16185.461"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9f6bbec-7471-4467-a330-629da89747c5"> <bbox w="10.0" h="10.0" x="11147.8" y="1559.5"/> <port id="pr_c9f6bbec-7471-4467-a330-629da89747c5_p1" x="11152.8" y="1549.5"/> <port id="pr_c9f6bbec-7471-4467-a330-629da89747c5_p2" x="11152.8" y="1579.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2a71ce7a-06d7-4b23-8f29-c9c25ee59289"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19576224 PMID:17143292 PMID:10023660 PMID:21411632 PMID:22730322 PMID:22682247 </p> <p>FAF1 enhances poly-ubiquitination of beta-catenin by acting as scaffold protein</p> <p>Intact destruction complex in the proteosome complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2a71ce7a-06d7-4b23-8f29-c9c25ee59289"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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x="7161.5273" y="7669.0"/> <port id="pr_4b3e6774-2958-44db-a57d-a8fa86bc5565_p2" x="7161.5273" y="7639.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_053c6b1e-59af-48ef-aad4-fdb44a8f2892"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="996.334" y="18124.75"/> <port id="pr_053c6b1e-59af-48ef-aad4-fdb44a8f2892_p1" x="1001.334" y="18114.75"/> <port id="pr_053c6b1e-59af-48ef-aad4-fdb44a8f2892_p2" x="1001.334" y="18144.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_44d0983d-e74e-40fa-bd96-1bf3a50c8170"> <bbox w="10.0" h="10.0" x="5334.227" y="3953.75"/> <port id="pr_44d0983d-e74e-40fa-bd96-1bf3a50c8170_p1" x="5324.227" y="3958.75"/> <port id="pr_44d0983d-e74e-40fa-bd96-1bf3a50c8170_p2" x="5354.227" 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orientation="vertical" id="pr_3e7be43d-40bb-46c7-941f-cfaa927e9726"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19115206</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e7be43d-40bb-46c7-941f-cfaa927e9726"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19115206"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5150.5" y="11682.0"/> <port id="pr_3e7be43d-40bb-46c7-941f-cfaa927e9726_p1" x="5155.5" y="11702.0"/> <port id="pr_3e7be43d-40bb-46c7-941f-cfaa927e9726_p2" x="5155.5" y="11672.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e41fe71-08c8-4579-b397-f44a4547f2be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>RAC1 binds directly to PARD6 that activates PRKCZ.</p> <p>This leads to establishment of the cell polarity and promotes cellular transformation.</p> <p>PMID:10873802</p> <p>PARD6 links Rac1 and Cdc42 to PKCzeta signaling and cell transformation.</p> <p>PMID:10934475</p> <p>PARD6 binds to Cdc42; Rac1; PARD3; PRKC isoforms. </p> <p>In vitro, PARD3 acts as a substrate and an inhibitor of PRKC. </p> <p>PARD3 and PARD6 have a scaffolding function, coordinating the activities of several signalling proteins that are implicated in mammalian cell polarity.</p> <p>PMID:10954424</p> <p>PARD6 is a binding partner for the Rho GTPases Cdc42 and Rac1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1e41fe71-08c8-4579-b397-f44a4547f2be"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10873802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<p>PMID:8666394</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8d84ea4a-80a1-412a-afda-2db0a677afb9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8666394"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20509.355" y="13733.502"/> <port id="pr_8d84ea4a-80a1-412a-afda-2db0a677afb9_p1" x="20529.355" y="13738.502"/> <port id="pr_8d84ea4a-80a1-412a-afda-2db0a677afb9_p2" x="20499.355" y="13738.502"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb91c649-eefe-4d73-9470-5b919b95c7fa"> <bbox w="10.0" h="10.0" x="28946.326" y="16084.0"/> <port id="pr_cb91c649-eefe-4d73-9470-5b919b95c7fa_p1" x="28951.326" y="16104.0"/> <port id="pr_cb91c649-eefe-4d73-9470-5b919b95c7fa_p2" x="28951.326" y="16074.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_17e710d5-a647-4126-83b3-b587081b3fdd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:20519943</p> <p>PMID:17934056</p> <p>PMID:16474430</p> <p>PMID:14557817</p> <p>PMID:21900405</p> <p>TGFB inhibits proliferation</p> <p>TGFB overproduction causes fibrosis.</p> <p>Each TGFB gene encodes a preproprotein sequence consisting of a signal peptide, a propeptide (LAP) and the mature TGFB</p> <p>After translocation into the endoplamic reticulum, TGFB proprotein monomers form homomdimers liked by disulfide bonds, forming pro-TGFB</p> <p>In the Golgi, the prodomains undergo glycosylation.</p> <p>Also in the Golgi, FURIN hydolyzes the leavage site from LAP, creating TGFB and LAP-derived homodimers</p> <p>The 2 homodimers remain noncovalently associated and are secreted.</p> <p>The LAP-derived homodimer prevents TGFB from binding TGFB receptors.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_17e710d5-a647-4126-83b3-b587081b3fdd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20519943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17934056"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16474430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14557817"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1053.25" y="18704.0"/> <port id="pr_17e710d5-a647-4126-83b3-b587081b3fdd_p1" x="1058.25" y="18694.0"/> <port id="pr_17e710d5-a647-4126-83b3-b587081b3fdd_p2" x="1058.25" y="18724.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_cf86bbff-5675-4811-b610-edd872a96b0e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3112.0" y="12554.5"/> <port id="pr_cf86bbff-5675-4811-b610-edd872a96b0e_p1" x="3102.0" y="12559.5"/> <port id="pr_cf86bbff-5675-4811-b610-edd872a96b0e_p2" x="3132.0" y="12559.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_803d30f4-4f14-41aa-87ea-e1d82653d180"> <bbox w="10.0" h="10.0" x="1005.0" y="3486.75"/> <port id="pr_803d30f4-4f14-41aa-87ea-e1d82653d180_p1" x="1010.0" y="3476.75"/> <port id="pr_803d30f4-4f14-41aa-87ea-e1d82653d180_p2" x="1010.0" y="3506.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2aa1ef74-467b-42d8-a1c3-f8f4c7d23f1b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>If the cell is in G1 phase, the double strand break will be repeated by C_NHEJ, because there is no homologous template from sister chromatide. If the cell is in S/G2 phase, HR will take place.</p> <p>PMID:19490890</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2aa1ef74-467b-42d8-a1c3-f8f4c7d23f1b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19490890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13471.402" y="14864.394"/> <port id="pr_2aa1ef74-467b-42d8-a1c3-f8f4c7d23f1b_p1" x="13476.402" y="14854.394"/> <port id="pr_2aa1ef74-467b-42d8-a1c3-f8f4c7d23f1b_p2" x="13476.402" y="14884.394"/> </glyph> <glyph class="process" orientation="vertical" id="pr_687a02e0-0ee0-435e-a9d9-bb6f6b6380bf"> <bbox w="10.0" h="10.0" x="25283.248" y="10314.781"/> <port id="pr_687a02e0-0ee0-435e-a9d9-bb6f6b6380bf_p1" x="25288.248" y="10334.781"/> <port id="pr_687a02e0-0ee0-435e-a9d9-bb6f6b6380bf_p2" x="25288.248" y="10304.781"/> </glyph> <glyph class="process" orientation="vertical" id="pr_83045dbc-913c-4d8c-b0ab-6c3558afba7f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29051319</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83045dbc-913c-4d8c-b0ab-6c3558afba7f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29051319"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3783.25" y="10392.0"/> <port id="pr_83045dbc-913c-4d8c-b0ab-6c3558afba7f_p1" x="3788.25" y="10412.0"/> <port id="pr_83045dbc-913c-4d8c-b0ab-6c3558afba7f_p2" x="3788.25" y="10382.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f5ca4efb-b45e-4e54-9ae4-63df3718dd7d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f5ca4efb-b45e-4e54-9ae4-63df3718dd7d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28618.71" y="11520.291"/> <port id="pr_f5ca4efb-b45e-4e54-9ae4-63df3718dd7d_p1" x="28623.71" y="11510.291"/> <port id="pr_f5ca4efb-b45e-4e54-9ae4-63df3718dd7d_p2" x="28623.71" y="11540.291"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d4f1e09d-d591-44fa-9506-d02ff5ae87d9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5628.5" y="16179.492"/> <port id="pr_d4f1e09d-d591-44fa-9506-d02ff5ae87d9_p1" x="5618.5" y="16184.492"/> <port id="pr_d4f1e09d-d591-44fa-9506-d02ff5ae87d9_p2" x="5648.5" y="16184.492"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cad3e992-036b-45b4-8b77-d5bf821a34c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5236.093" y="17986.625"/> <port id="pr_cad3e992-036b-45b4-8b77-d5bf821a34c4_p1" x="5241.093" y="17976.625"/> <port id="pr_cad3e992-036b-45b4-8b77-d5bf821a34c4_p2" x="5241.093" y="18006.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_734a4aa2-85b6-4db4-8f9e-9675da4b95e7"> <bbox w="10.0" h="10.0" x="16520.0" y="6545.0"/> <port id="pr_734a4aa2-85b6-4db4-8f9e-9675da4b95e7_p1" x="16525.0" y="6535.0"/> <port id="pr_734a4aa2-85b6-4db4-8f9e-9675da4b95e7_p2" x="16525.0" y="6565.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d0b7ec89-e0cb-4a08-aff8-9186bf098240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16282323</p> <p>in HepG3 cells, insulin activates Akt but not ERK, and induces interaction between 14-3-3 and Bim (IP). In the same cell line, BimEL S87 phosphorylation was not assessed. The authors propose that the 14-3-3 bind to Akt-phosphorylated BimEL</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d0b7ec89-e0cb-4a08-aff8-9186bf098240"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16282323"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22255.375" y="11571.962"/> <port id="pr_d0b7ec89-e0cb-4a08-aff8-9186bf098240_p1" x="22275.375" y="11576.962"/> <port id="pr_d0b7ec89-e0cb-4a08-aff8-9186bf098240_p2" x="22245.375" y="11576.962"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57a09cf2-cc91-4ce2-9d15-93bf9606cfdd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>cf. Rb pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21766.56" y="16719.0"/> <port id="pr_57a09cf2-cc91-4ce2-9d15-93bf9606cfdd_p1" x="21771.56" y="16709.0"/> <port id="pr_57a09cf2-cc91-4ce2-9d15-93bf9606cfdd_p2" x="21771.56" y="16739.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7ab45606-df38-4800-887b-dc52ed9a5fae"> <bbox w="10.0" h="10.0" x="4614.6553" y="8007.0"/> <port id="pr_7ab45606-df38-4800-887b-dc52ed9a5fae_p1" x="4619.6553" y="7997.0"/> <port id="pr_7ab45606-df38-4800-887b-dc52ed9a5fae_p2" x="4619.6553" y="8027.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4ec92991-577e-418b-84aa-bbad87a70983"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>For BER activation by IR</p> <p>PMID:19414382, PMID:21204762, PMID:20832016, PMID:17892593</p> <p>For BER activation by ROS</p> <p>PMID:23249296, PMID:22122466, PMID:20510258, PMID:21251944, PMID:23311711</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4ec92991-577e-418b-84aa-bbad87a70983"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19267553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18256616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19414382"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21204762"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20832016"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17892593"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23249296"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22122466"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20510258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21251944"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23311711"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11203.543" y="15150.9"/> <port id="pr_4ec92991-577e-418b-84aa-bbad87a70983_p1" x="11223.543" y="15155.9"/> <port id="pr_4ec92991-577e-418b-84aa-bbad87a70983_p2" x="11193.543" y="15155.9"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4e290c23-f262-44bf-8e18-60238412929a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3282.5" y="13620.888"/> <port id="pr_4e290c23-f262-44bf-8e18-60238412929a_p1" x="3302.5" y="13625.888"/> <port id="pr_4e290c23-f262-44bf-8e18-60238412929a_p2" x="3272.5" y="13625.888"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c1d25b74-7f4e-4ff6-8e96-dcca620ced79"> <bbox w="10.0" h="10.0" x="28426.56" y="13024.0"/> <port id="pr_c1d25b74-7f4e-4ff6-8e96-dcca620ced79_p1" x="28416.56" y="13029.0"/> <port id="pr_c1d25b74-7f4e-4ff6-8e96-dcca620ced79_p2" x="28446.56" y="13029.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_18532e33-779e-47ca-b300-96ce6314e22a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21179058</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18532e33-779e-47ca-b300-96ce6314e22a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21179058"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26909.574" y="12551.382"/> <port id="pr_18532e33-779e-47ca-b300-96ce6314e22a_p1" x="26914.574" y="12541.382"/> <port id="pr_18532e33-779e-47ca-b300-96ce6314e22a_p2" x="26914.574" y="12571.382"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eac32ba0-a644-44f1-b2b5-8945af39dad1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17486063</p> <p>ZEB1 represses PATJ* expression</p> <p>PMID:17012742</p> <p>Knock down of LIN7 results in loss of expression of PATJ*</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eac32ba0-a644-44f1-b2b5-8945af39dad1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17486063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17012742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5096.25" y="15250.25"/> <port id="pr_eac32ba0-a644-44f1-b2b5-8945af39dad1_p1" x="5086.25" y="15255.25"/> <port id="pr_eac32ba0-a644-44f1-b2b5-8945af39dad1_p2" x="5116.25" y="15255.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0dd0fc51-669a-4d0b-86a2-ed5d23bea868"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0dd0fc51-669a-4d0b-86a2-ed5d23bea868"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6343.25" y="10323.75"/> <port id="pr_0dd0fc51-669a-4d0b-86a2-ed5d23bea868_p1" x="6363.25" y="10328.75"/> <port id="pr_0dd0fc51-669a-4d0b-86a2-ed5d23bea868_p2" x="6333.25" y="10328.75"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_bca3ccd5-b0b2-41b7-81c4-d57ba1b089ad"> <bbox w="20.0" h="20.0" x="6404.38" y="10308.51"/> <port id="logicglyph_bca3ccd5-b0b2-41b7-81c4-d57ba1b089ad_p1" x="6434.38" y="10318.51"/> <port id="logicglyph_bca3ccd5-b0b2-41b7-81c4-d57ba1b089ad_p2" x="6394.38" y="10318.51"/> </glyph> <glyph class="process" orientation="vertical" id="pr_691268ce-46f1-4222-a319-223244428d68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID : PMID:17055429</p> <p>MYC stimulate P53 and ARF (CDKN2A)</p> <p>PMID :24954210 </p> <p>DNA damage may reduce ARF (=p14 ARF) protein levels by inducing its degradation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_691268ce-46f1-4222-a319-223244428d68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4299.826" y="14379.25"/> <port id="pr_691268ce-46f1-4222-a319-223244428d68_p1" x="4304.826" y="14399.25"/> <port id="pr_691268ce-46f1-4222-a319-223244428d68_p2" x="4304.826" y="14369.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_34a229ef-f08d-465f-bb84-1abca3f44107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21081489</p> <p>MiR-200b Regulates Ets-1-associated Genes</p> <p>Suppression of endogenous miR-200b induced MMP-1 and VEGFR2 expressions</p> <p>Overexpression of Ets-1 did not completely reverse miR- 200b-associated MMP-1 and VEGFR2 down-regulation. </p> <p>It indicates that miR-200b, apart from targeting Ets-1, might silence other target proteins involved in transcription of the indicated genes.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_34a229ef-f08d-465f-bb84-1abca3f44107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21081489"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5160.5" y="17440.84"/> <port id="pr_34a229ef-f08d-465f-bb84-1abca3f44107_p1" x="5150.5" y="17445.84"/> <port id="pr_34a229ef-f08d-465f-bb84-1abca3f44107_p2" x="5180.5" y="17445.84"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dfa71621-ed34-4e54-898b-8692207b6a2e"> <bbox w="10.0" h="10.0" x="5007.0" y="5121.16"/> <port id="pr_dfa71621-ed34-4e54-898b-8692207b6a2e_p1" x="5027.0" y="5126.16"/> <port id="pr_dfa71621-ed34-4e54-898b-8692207b6a2e_p2" x="4997.0" y="5126.16"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_66f49cae-9b41-439f-9c7b-26cf9270fb2b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5203.75" y="14319.31"/> <port id="pr_66f49cae-9b41-439f-9c7b-26cf9270fb2b_p1" x="5223.75" y="14324.31"/> <port id="pr_66f49cae-9b41-439f-9c7b-26cf9270fb2b_p2" x="5193.75" y="14324.31"/> </glyph> <glyph 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:23869868</p> <p>Chemokine receptor CXCR2 is transactivated by p53 and induces p38-mediated cellular senescence</p> <p>PMID:24954210</p> <p>PMID:17254968</p> <p>MAPK3 and MAPK6 induces p38 which induces p16 and p53</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="pr_1d0d4392-423b-4e9d-b4d9-2d1aabd22b2c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1100.75" y="14987.316"/> <port id="pr_1d0d4392-423b-4e9d-b4d9-2d1aabd22b2c_p1" x="1090.75" y="14992.316"/> <port id="pr_1d0d4392-423b-4e9d-b4d9-2d1aabd22b2c_p2" x="1120.75" y="14992.316"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_0fb515b0-6a36-4ca1-83d3-4e40d47a77e2"> <bbox w="10.0" h="10.0" x="26446.81" y="12066.5"/> <port id="pr_0fb515b0-6a36-4ca1-83d3-4e40d47a77e2_p1" x="26436.81" y="12071.5"/> <port id="pr_0fb515b0-6a36-4ca1-83d3-4e40d47a77e2_p2" x="26466.81" y="12071.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d3f03330-7db1-4a8d-94be-a8db951c209f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22032831, PMID:10837221, PMID:1675600</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3f03330-7db1-4a8d-94be-a8db951c209f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22032831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10837221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1675600"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5459.1357" y="20111.438"/> <port id="pr_d3f03330-7db1-4a8d-94be-a8db951c209f_p1" x="5464.1357" y="20131.438"/> <port id="pr_d3f03330-7db1-4a8d-94be-a8db951c209f_p2" x="5464.1357" y="20101.438"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6784bc78-28da-452d-9770-5c1091a19e5a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10049356</p> <p>in mouse B cells, by c-Rel</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6784bc78-28da-452d-9770-5c1091a19e5a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10049356"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23986.803" y="16153.398"/> <port id="pr_6784bc78-28da-452d-9770-5c1091a19e5a_p1" x="23991.803" y="16173.398"/> <port id="pr_6784bc78-28da-452d-9770-5c1091a19e5a_p2" x="23991.803" y="16143.398"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6aa543a3-caaf-4be0-a912-c036bfc80632"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5267.6025" y="18392.312"/> <port id="pr_6aa543a3-caaf-4be0-a912-c036bfc80632_p1" x="5287.6025" y="18397.312"/> <port id="pr_6aa543a3-caaf-4be0-a912-c036bfc80632_p2" x="5257.6025" y="18397.312"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6ce3fb2-3207-4670-90b2-b989d2b8eec4"> <bbox w="10.0" h="10.0" x="20389.06" y="10704.0"/> <port id="pr_a6ce3fb2-3207-4670-90b2-b989d2b8eec4_p1" x="20394.06" y="10694.0"/> <port id="pr_a6ce3fb2-3207-4670-90b2-b989d2b8eec4_p2" x="20394.06" y="10724.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d6a49a2-924f-4ebd-b094-f9ec7da8a973"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> 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murine RAW 264.7 macrophage cell line, by NFKB</p> <p>PMID:7500013</p> <p>in murine macrophage derived from C57BL/6 mice and transformed with J2 (v-raf1v-myc) recombinant retrovirus, by HIF1</p> <p>PMID:9486205</p> <p>in rat lung epithelia, by hypoxia</p> <p>in bovine pulmonary artery endothelial cells, HIF1 regulates the murine iNOS promoter (supershifted EMSA + gene reporter)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8117edd2-40c4-42e3-84e9-1a5f71e1c877"> 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id="pr_d55d9af3-9f4a-4873-bca8-b0752c474619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19901072 PMID:19751731</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d55d9af3-9f4a-4873-bca8-b0752c474619"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19901072"/> </rdf:Bag> 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id="pr_e9252717-9b28-4e04-b2ea-ebab7548a51e_p2" x="4255.5" y="6942.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a0b125bb-b30b-4af3-b4a5-17a59123685d"> <bbox w="10.0" h="10.0" x="19939.56" y="14294.0"/> <port id="pr_a0b125bb-b30b-4af3-b4a5-17a59123685d_p1" x="19944.56" y="14284.0"/> <port id="pr_a0b125bb-b30b-4af3-b4a5-17a59123685d_p2" x="19944.56" y="14314.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7cf42a34-66d9-40af-b71d-73a3bd189ce2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3516.75" y="14266.5"/> <port id="pr_7cf42a34-66d9-40af-b71d-73a3bd189ce2_p1" x="3521.75" y="14256.5"/> <port id="pr_7cf42a34-66d9-40af-b71d-73a3bd189ce2_p2" x="3521.75" y="14286.5"/> </glyph> <glyph class="process" 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id="pr_b47f3268-3e2e-4361-b2a3-6a555aaf619e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For the Fzl receptor, probably same mechanism as for the canonical MODULE.</p> <p>CK1 epsilon is activated upon Wnt-5 stimulation, however, the mechanism is unknown.</p> <p>PMID:17244647</p> <p>PMID:20215527</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b47f3268-3e2e-4361-b2a3-6a555aaf619e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17244647"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17030.02" y="19229.5"/> <port id="pr_b47f3268-3e2e-4361-b2a3-6a555aaf619e_p1" x="17035.02" y="19219.5"/> <port id="pr_b47f3268-3e2e-4361-b2a3-6a555aaf619e_p2" x="17035.02" y="19249.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_929d7e26-1bfc-4303-8959-c6c3fa6fb36d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3674.0" y="14615.577"/> <port 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_97b0ba27-7a35-4a5a-8699-b9924bd4a6de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12686.311" y="21544.0"/> <port id="pr_97b0ba27-7a35-4a5a-8699-b9924bd4a6de_p1" x="12676.311" y="21549.0"/> <port id="pr_97b0ba27-7a35-4a5a-8699-b9924bd4a6de_p2" x="12706.311" y="21549.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1d8671fc-974b-4986-89ce-241a00e79328"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> 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id="pr_a0139d52-5cd2-4edd-a47c-f103dc8a27b0_p1" x="9717.348" y="16677.285"/> <port id="pr_a0139d52-5cd2-4edd-a47c-f103dc8a27b0_p2" x="9747.348" y="16677.285"/> </glyph> <glyph class="process" orientation="vertical" id="pr_24589ee5-67b0-4b3b-980f-d066b822e439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4189.1816" y="18273.625"/> <port id="pr_24589ee5-67b0-4b3b-980f-d066b822e439_p1" x="4194.1816" y="18263.625"/> <port id="pr_24589ee5-67b0-4b3b-980f-d066b822e439_p2" x="4194.1816" y="18293.625"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4df15e29-3d0d-4b73-93d1-9e8cc91b23b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2815.0" y="16046.561"/> <port id="pr_4df15e29-3d0d-4b73-93d1-9e8cc91b23b8_p1" x="2835.0" y="16051.561"/> <port id="pr_4df15e29-3d0d-4b73-93d1-9e8cc91b23b8_p2" x="2805.0" y="16051.561"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b55cfe7-6b9f-498a-a0b1-cc784dc0e566"> <bbox w="10.0" h="10.0" x="20184.445" y="14743.859"/> <port id="pr_3b55cfe7-6b9f-498a-a0b1-cc784dc0e566_p1" x="20189.445" y="14763.859"/> <port id="pr_3b55cfe7-6b9f-498a-a0b1-cc784dc0e566_p2" x="20189.445" y="14733.859"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e80397df-5afd-4dfb-8d0e-8d9c63dae929"> <bbox w="10.0" h="10.0" x="19450.0" y="4555.0"/> <port id="pr_e80397df-5afd-4dfb-8d0e-8d9c63dae929_p1" x="19455.0" y="4545.0"/> <port id="pr_e80397df-5afd-4dfb-8d0e-8d9c63dae929_p2" x="19455.0" y="4575.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9f1a817b-eb91-449e-9e2a-fc8a6cdb43ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15866170</p> <p>DRFs (DIAPH1,2,3) are autoinhibited through intramolecular binding of a Diaphanous autoinhibitory domain to a conserved N-terminal regulatory element. </p> <p>Autoinhibition is relieved through binding of the GTPase RhoA to the N-terminal element.</p> <p>PMID:16292343</p> <p>DRFs are regulated by a RhoGTPase-binding domain situated in the N-terminal region and a C-terminal Diaphanous-autoregulatory domain, whose interaction stabilises an autoinhibited inactive conformation. </p> <p>Binding of active Rho releases DAD and activates the catalytic activity of mDia</p> <p>PMID:17575049</p> <p>Positive feedback between Dia1, LARG, and RhoA regulates cell morphology and invasion.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9f1a817b-eb91-449e-9e2a-fc8a6cdb43ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15866170"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16292343"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17575049"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5529.665" y="14742.0"/> <port id="pr_9f1a817b-eb91-449e-9e2a-fc8a6cdb43ce_p1" x="5534.665" y="14732.0"/> <port id="pr_9f1a817b-eb91-449e-9e2a-fc8a6cdb43ce_p2" x="5534.665" y="14762.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_f368744f-ab0a-4781-a073-432de49a0264"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11441.973" y="15848.746"/> <port id="pr_f368744f-ab0a-4781-a073-432de49a0264_p1" x="11431.973" y="15853.746"/> <port id="pr_f368744f-ab0a-4781-a073-432de49a0264_p2" x="11461.973" y="15853.746"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_e7d150b3-42cd-4803-a921-e07ac04c6884"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15070779</p> <p>WNK4 binds and phosphorylates claudins 1–4.</p> <p>Claudins 1–4 are known to be involved in the regulation of paracellular ion permeability. </p> <p>The increases in phosphorylation of claudins were greater in cells expressing the mutant WNK4 than in cells expressing wild-type protein. </p> <p>Disease-causing mutant WNK4 increases paracellular chloride permeability and phosphorylates claudins.</p> <p>So the phosphorylation of Claudins 1-4 by WNK4 involves in the regulation of paracellular ion permeability</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e7d150b3-42cd-4803-a921-e07ac04c6884"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15070779"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1242.2057" y="15321.0"/> <port id="pr_e7d150b3-42cd-4803-a921-e07ac04c6884_p1" x="1247.2057" y="15341.0"/> <port id="pr_e7d150b3-42cd-4803-a921-e07ac04c6884_p2" x="1247.2057" y="15311.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a8a90d76-85d6-4c9d-8aca-8e81be9b9ccd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5342.5" y="17260.0"/> <port id="pr_a8a90d76-85d6-4c9d-8aca-8e81be9b9ccd_p1" x="5332.5" y="17265.0"/> <port id="pr_a8a90d76-85d6-4c9d-8aca-8e81be9b9ccd_p2" x="5362.5" y="17265.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cf38b32e-ec89-48ae-b13e-6dd2d553740d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9604935</p> <p>Phosphorylation of ERK-1/2 promotes its homodimerization</p> <p>PMID:18775330</p> <p>Scaffolds and ERK dimers are essential for the activation of cytoplasmic but not nuclear substrates. </p> <p>Dimerization is critical for connecting the scaffolded ERK complex to cognate cytoplasmic substrates. </p> <p>Contrarily, nuclear substrates associate to ERK monomers.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cf38b32e-ec89-48ae-b13e-6dd2d553740d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9604935"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4884.7344" y="14737.5"/> <port 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x="10150.0" y="2155.0"/> <port id="pr_93e1032d-ef34-488b-8202-4a931aa8da46_p2" x="10150.0" y="2185.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ddb7845d-703e-4b96-9074-f16042d5a3ff"> <bbox w="10.0" h="10.0" x="18537.148" y="4609.5"/> <port id="pr_ddb7845d-703e-4b96-9074-f16042d5a3ff_p1" x="18542.148" y="4599.5"/> <port id="pr_ddb7845d-703e-4b96-9074-f16042d5a3ff_p2" x="18542.148" y="4629.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fac83ffb-2594-4b87-9626-05676f105379"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2862.25" y="15298.25"/> <port id="pr_fac83ffb-2594-4b87-9626-05676f105379_p1" x="2882.25" y="15303.25"/> <port id="pr_fac83ffb-2594-4b87-9626-05676f105379_p2" x="2852.25" y="15303.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99bb2704-3d81-45b0-a78b-653b854e3d9c"> <bbox w="10.0" h="10.0" x="20340.0" y="2980.0"/> <port id="pr_99bb2704-3d81-45b0-a78b-653b854e3d9c_p1" x="20345.0" y="2970.0"/> <port id="pr_99bb2704-3d81-45b0-a78b-653b854e3d9c_p2" x="20345.0" y="3000.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_eb0f1aea-de96-4a84-93df-51a1e4377095"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb0f1aea-de96-4a84-93df-51a1e4377095"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19351822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26932.56" y="22038.441"/> <port id="pr_eb0f1aea-de96-4a84-93df-51a1e4377095_p1" x="26922.56" y="22043.441"/> <port id="pr_eb0f1aea-de96-4a84-93df-51a1e4377095_p2" x="26952.56" y="22043.441"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d8d834bb-4e84-4ed1-8c46-8f5ed6f41a83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10428961</p> <p>PMID:8666229</p> <p>Wnt transduces their signals through DVL1 to inhibit GSK3B, leading to the accumulation of cytosolic CTNNB1 and activation of TCF/LEF1 transcription factors.</p> <p>DVL1 interacts with AXIN1 and with Frat1.</p> <p>Binding of AXIN1 to DVL1 reduces formation of the destruction complex APC/AXIN1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d8d834bb-4e84-4ed1-8c46-8f5ed6f41a83"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10428961"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8666229"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1405.2341" y="16013.545"/> <port id="pr_d8d834bb-4e84-4ed1-8c46-8f5ed6f41a83_p1" x="1395.2341" y="16018.545"/> <port id="pr_d8d834bb-4e84-4ed1-8c46-8f5ed6f41a83_p2" x="1425.2341" y="16018.545"/> </glyph> <glyph class="process" orientation="vertical" id="pr_67d63670-ba6b-4a2e-b8c4-0507cc17f0fd"> <bbox w="10.0" h="10.0" x="9033.213" y="3037.9053"/> <port id="pr_67d63670-ba6b-4a2e-b8c4-0507cc17f0fd_p1" x="9038.213" y="3027.9053"/> <port id="pr_67d63670-ba6b-4a2e-b8c4-0507cc17f0fd_p2" x="9038.213" y="3057.9053"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fb06ad4d-82f5-484e-b8db-14a2dd8ce2ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5307.5" y="15800.34"/> <port id="pr_fb06ad4d-82f5-484e-b8db-14a2dd8ce2ad_p1" x="5297.5" y="15805.34"/> <port id="pr_fb06ad4d-82f5-484e-b8db-14a2dd8ce2ad_p2" x="5327.5" y="15805.34"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9acd2929-6fd3-4c0e-86e1-108c48fb63af"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17243194 </p> <p>53BP1* binds to DNA and stops DNA resection and therefore stops HR during cell cycle except S-phase, because 53BP1* is phosphorylated by CDK1(CDC2) during S-phase, this phosphorylation inhibits 53BP1* activity.</p> </body> </html> </notes> <extension> <annotation xmlns="" 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x="16659.875" y="17840.438"/> <port id="pr_85cfc7bd-39fd-4e72-ba6f-e3d441a980bb_p2" x="16659.875" y="17870.438"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_401a8e98-c94f-4a60-8305-1aa7e673e4cd"> <bbox w="10.0" h="10.0" x="3005.0" y="3575.0"/> <port id="pr_401a8e98-c94f-4a60-8305-1aa7e673e4cd_p1" x="3025.0" y="3580.0"/> <port id="pr_401a8e98-c94f-4a60-8305-1aa7e673e4cd_p2" x="2995.0" y="3580.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_52982405-81a9-44e7-a926-315ed3a9d4a1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2094.8208" y="16959.75"/> <port id="pr_52982405-81a9-44e7-a926-315ed3a9d4a1_p1" x="2099.8208" y="16949.75"/> <port id="pr_52982405-81a9-44e7-a926-315ed3a9d4a1_p2" x="2099.8208" 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<p>PMID:20709625</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4feda90b-3587-480d-8d03-c502977814e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20709625"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13720.061" y="18531.0"/> <port id="pr_4feda90b-3587-480d-8d03-c502977814e2_p1" x="13740.061" y="18536.0"/> <port id="pr_4feda90b-3587-480d-8d03-c502977814e2_p2" x="13710.061" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:12514131</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18d0dda2-bf37-45c2-a82d-1a8c5f2456e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12514131"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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class="process" orientation="vertical" id="pr_14797e20-e912-4cb2-a913-13e2971f5739"> <bbox w="10.0" h="10.0" x="7066.5264" y="7651.5"/> <port id="pr_14797e20-e912-4cb2-a913-13e2971f5739_p1" x="7071.5264" y="7671.5"/> <port id="pr_14797e20-e912-4cb2-a913-13e2971f5739_p2" x="7071.5264" y="7641.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0766272a-b1f6-4e55-bed0-67a7684d8c6c"> <bbox w="10.0" h="10.0" x="20116.414" y="16120.5"/> <port id="pr_0766272a-b1f6-4e55-bed0-67a7684d8c6c_p1" x="20121.414" y="16140.5"/> <port id="pr_0766272a-b1f6-4e55-bed0-67a7684d8c6c_p2" x="20121.414" y="16110.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_31c61dfe-d091-4578-991c-c6e0d02a4d52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:22088220</p> </body> </html> </notes> 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id="pr_3122b11c-d7c5-42c4-8a08-a8e4e2cf7515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5748.4893" y="14970.125"/> <port id="pr_3122b11c-d7c5-42c4-8a08-a8e4e2cf7515_p1" x="5768.4893" y="14975.125"/> <port id="pr_3122b11c-d7c5-42c4-8a08-a8e4e2cf7515_p2" x="5738.4893" y="14975.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4afe4e14-d817-41e3-8645-4ebdf17583d2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10611249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_78a148ce-d622-4154-8616-6f302d68ab75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5922.5" y="9004.714"/> <port id="pr_78a148ce-d622-4154-8616-6f302d68ab75_p1" x="5912.5" y="9009.714"/> <port id="pr_78a148ce-d622-4154-8616-6f302d68ab75_p2" x="5942.5" y="9009.714"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_a2b681a0-d7f1-4e59-a362-7a427fca13bf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARP1 poly(ADP)ribosylates SNAI1 and activates it and EMT program</p> <p>PMID:21577210</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a2b681a0-d7f1-4e59-a362-7a427fca13bf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21577210"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11441.272" y="17252.998"/> <port id="pr_a2b681a0-d7f1-4e59-a362-7a427fca13bf_p1" x="11446.272" y="17242.998"/> <port id="pr_a2b681a0-d7f1-4e59-a362-7a427fca13bf_p2" x="11446.272" y="17272.998"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_264c7dd5-7d44-421a-ba15-68a09f38b7a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26978.06" y="23113.898"/> <port id="pr_264c7dd5-7d44-421a-ba15-68a09f38b7a9_p1" x="26998.06" y="23118.898"/> <port id="pr_264c7dd5-7d44-421a-ba15-68a09f38b7a9_p2" x="26968.06" y="23118.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8766096e-6f69-435d-87f9-34359ce8136b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11689703</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8766096e-6f69-435d-87f9-34359ce8136b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20571.936" y="21206.5"/> <port id="pr_8766096e-6f69-435d-87f9-34359ce8136b_p1" x="20576.936" y="21196.5"/> <port id="pr_8766096e-6f69-435d-87f9-34359ce8136b_p2" x="20576.936" y="21226.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f6c03d02-b80a-4f7d-9048-00b3c3603650"> <bbox w="10.0" h="10.0" x="13875.25" y="1612.0"/> <port id="pr_f6c03d02-b80a-4f7d-9048-00b3c3603650_p1" x="13880.25" y="1602.0"/> <port id="pr_f6c03d02-b80a-4f7d-9048-00b3c3603650_p2" x="13880.25" y="1632.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8a6b083b-f298-4c26-b1c4-4ecdded894ee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21118996</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8a6b083b-f298-4c26-b1c4-4ecdded894ee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21118996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21645.06" y="20849.732"/> <port id="pr_8a6b083b-f298-4c26-b1c4-4ecdded894ee_p1" x="21665.06" y="20854.732"/> <port id="pr_8a6b083b-f298-4c26-b1c4-4ecdded894ee_p2" x="21635.06" y="20854.732"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9dde6a64-7148-4fa5-8d85-1dfeab1ce8ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9dde6a64-7148-4fa5-8d85-1dfeab1ce8ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14089.311" y="20720.0"/> <port id="pr_9dde6a64-7148-4fa5-8d85-1dfeab1ce8ac_p1" x="14094.311" y="20740.0"/> <port id="pr_9dde6a64-7148-4fa5-8d85-1dfeab1ce8ac_p2" x="14094.311" y="20710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6274e0b-ec69-4dc9-9d8f-9b510ca196fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4393.264" y="16465.3"/> <port id="pr_a6274e0b-ec69-4dc9-9d8f-9b510ca196fb_p1" x="4398.264" y="16455.3"/> <port id="pr_a6274e0b-ec69-4dc9-9d8f-9b510ca196fb_p2" x="4398.264" y="16485.3"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9c7fca85-843d-4955-b56f-ed48c4bd9165"> <bbox w="10.0" h="10.0" x="28676.326" y="16084.0"/> <port id="pr_9c7fca85-843d-4955-b56f-ed48c4bd9165_p1" x="28681.326" y="16104.0"/> <port id="pr_9c7fca85-843d-4955-b56f-ed48c4bd9165_p2" x="28681.326" y="16074.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_22e8d2c3-4b70-4826-a2b2-a16101385521"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11689568</p> <p>MPDZ accumulates at the TJ in epithelial cells through its binding to Claudins and JAMs. </p> <p>MPDZ is believed to function as a multivalent scaffold protein that recruits various proteins to TJ</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_22e8d2c3-4b70-4826-a2b2-a16101385521"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689568"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1499.0" y="15393.0"/> <port id="pr_22e8d2c3-4b70-4826-a2b2-a16101385521_p1" x="1504.0" y="15383.0"/> <port id="pr_22e8d2c3-4b70-4826-a2b2-a16101385521_p2" x="1504.0" y="15413.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_af239ee6-a8d6-4acb-8784-87290e0a44f6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12011067</p> <p>DCC interacts with both caspase-3 and caspase-9 and drives the activation of caspase-3 through caspase-9</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_af239ee6-a8d6-4acb-8784-87290e0a44f6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12011067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19149.111" y="9226.074"/> <port id="pr_af239ee6-a8d6-4acb-8784-87290e0a44f6_p1" x="19139.111" y="9231.074"/> <port id="pr_af239ee6-a8d6-4acb-8784-87290e0a44f6_p2" x="19169.111" y="9231.074"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b4eabd5c-8ef2-4a5c-a82e-5422d27389be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Tumor necrosis factor-alpha-induced reactive oxygen species formation is mediated by JNK1-dependent ferritin degradation and elevation of labile iron pool.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20375.234" y="10202.501"/> <port id="pr_b4eabd5c-8ef2-4a5c-a82e-5422d27389be_p1" x="20365.234" y="10207.501"/> <port id="pr_b4eabd5c-8ef2-4a5c-a82e-5422d27389be_p2" x="20395.234" y="10207.501"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_832a3df1-3369-4b67-95a7-6f6dd442f152"> <bbox w="20.0" h="20.0" x="20307.42" y="10286.94"/> <port id="logicglyph_832a3df1-3369-4b67-95a7-6f6dd442f152_p1" x="20317.42" y="10316.94"/> <port id="logicglyph_832a3df1-3369-4b67-95a7-6f6dd442f152_p2" x="20317.42" y="10276.94"/> </glyph> <glyph class="process" orientation="vertical" id="pr_541e5991-2ed9-482a-a51e-747c249f155b"> <bbox w="10.0" h="10.0" x="26500.402" y="15916.75"/> <port id="pr_541e5991-2ed9-482a-a51e-747c249f155b_p1" x="26505.402" y="15936.75"/> <port id="pr_541e5991-2ed9-482a-a51e-747c249f155b_p2" x="26505.402" y="15906.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3fee94e9-8454-44bf-a407-f8b2dc8951dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="14445.55" y="15055.115"/> <port id="pr_3fee94e9-8454-44bf-a407-f8b2dc8951dd_p1" x="14465.55" y="15060.115"/> <port id="pr_3fee94e9-8454-44bf-a407-f8b2dc8951dd_p2" x="14435.55" y="15060.115"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8aa5d991-17a3-4705-a50c-e823832eb667"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2193.5" y="15018.873"/> <port id="pr_8aa5d991-17a3-4705-a50c-e823832eb667_p1" x="2213.5" y="15023.873"/> <port id="pr_8aa5d991-17a3-4705-a50c-e823832eb667_p2" x="2183.5" y="15023.873"/> </glyph> <glyph class="process" orientation="vertical" id="pr_09b4fb6e-6a7f-4305-b3a0-3cdc035a2b97"> <bbox w="10.0" h="10.0" x="27384.027" y="6688.75"/> <port id="pr_09b4fb6e-6a7f-4305-b3a0-3cdc035a2b97_p1" x="27389.027" y="6678.75"/> <port id="pr_09b4fb6e-6a7f-4305-b3a0-3cdc035a2b97_p2" x="27389.027" y="6708.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2435ccd8-85e7-478f-8573-e67bf6d2a5eb"> <bbox w="10.0" h="10.0" x="3225.0" y="3994.5"/> <port id="pr_2435ccd8-85e7-478f-8573-e67bf6d2a5eb_p1" x="3230.0" y="3984.5"/> <port id="pr_2435ccd8-85e7-478f-8573-e67bf6d2a5eb_p2" x="3230.0" y="4014.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f301387-e0e2-4de5-b19d-d73d553abc3a"> <bbox w="10.0" h="10.0" x="16260.5" y="6220.5"/> <port id="pr_6f301387-e0e2-4de5-b19d-d73d553abc3a_p1" x="16265.5" y="6240.5"/> <port id="pr_6f301387-e0e2-4de5-b19d-d73d553abc3a_p2" x="16265.5" y="6210.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb20e932-af08-4a3b-b096-499e7436d4f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> <p>PMID:14536078</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cb20e932-af08-4a3b-b096-499e7436d4f2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12936.418" y="20671.5"/> <port id="pr_cb20e932-af08-4a3b-b096-499e7436d4f2_p1" x="12941.418" y="20661.5"/> <port id="pr_cb20e932-af08-4a3b-b096-499e7436d4f2_p2" x="12941.418" y="20691.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_18160727-2072-4364-8ea4-f8ea6c2c3787"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:16648474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18160727-2072-4364-8ea4-f8ea6c2c3787"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16648474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17488.06" y="18520.0"/> <port id="pr_18160727-2072-4364-8ea4-f8ea6c2c3787_p1" x="17493.06" y="18540.0"/> <port id="pr_18160727-2072-4364-8ea4-f8ea6c2c3787_p2" x="17493.06" y="18510.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7afbb42a-9395-4584-9d20-2d29ea90075e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17332325</p> <p>TWIST downregulates E-Cadherin and beta-Catenin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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h="10.0" x="27121.0" y="8047.5"/> <port id="pr_b7b18c9b-2b8c-4975-8587-311ccfa8bbb4_p1" x="27126.0" y="8037.5"/> <port id="pr_b7b18c9b-2b8c-4975-8587-311ccfa8bbb4_p2" x="27126.0" y="8067.5"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_5a6ec3f4-4673-4ec4-af1e-e22ee8379f30"> <bbox w="20.0" h="20.0" x="28742.666" y="6046.0"/> <port id="logicglyph_5a6ec3f4-4673-4ec4-af1e-e22ee8379f30_p1" x="28752.666" y="6036.0"/> <port id="logicglyph_5a6ec3f4-4673-4ec4-af1e-e22ee8379f30_p2" x="28752.666" y="6076.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2aadcd12-0075-41ad-bfd4-d69e28c158ff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2aadcd12-0075-41ad-bfd4-d69e28c158ff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3765.75" y="11033.25"/> <port id="pr_2aadcd12-0075-41ad-bfd4-d69e28c158ff_p1" x="3770.75" y="11023.25"/> <port id="pr_2aadcd12-0075-41ad-bfd4-d69e28c158ff_p2" x="3770.75" y="11053.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_95a6b8f5-b2ac-4bd9-9828-3a5e59301303"> <bbox w="10.0" h="10.0" x="18740.918" y="11344.199"/> <port id="pr_95a6b8f5-b2ac-4bd9-9828-3a5e59301303_p1" x="18745.918" y="11334.199"/> <port id="pr_95a6b8f5-b2ac-4bd9-9828-3a5e59301303_p2" x="18745.918" y="11364.199"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92310cc6-b233-4fed-94fc-1a9ff090b774"> <bbox w="10.0" h="10.0" x="4105.0" y="4641.0"/> <port id="pr_92310cc6-b233-4fed-94fc-1a9ff090b774_p1" x="4110.0" y="4631.0"/> <port id="pr_92310cc6-b233-4fed-94fc-1a9ff090b774_p2" x="4110.0" y="4661.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_40d7211b-4772-4172-b272-04cdd29e98e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6439.8154" y="18806.25"/> <port id="pr_40d7211b-4772-4172-b272-04cdd29e98e6_p1" x="6444.8154" y="18826.25"/> <port id="pr_40d7211b-4772-4172-b272-04cdd29e98e6_p2" x="6444.8154" y="18796.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e6f6b0bc-6dc4-4cef-9b38-690b5cf46025"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11533664</p> <p>in vitro, HSP70 binds to AIF and inhibits its chromatin condensation activity</p> <p>in MEFs that are deficient for apaf1, HSP70 protects from serum withdrawal induced cell death</p> <p>in MEFs, HSP70 protects from cell death induced by the ectopic expression of a constitutively active AIF</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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x="5235.0" y="4556.25"/> <port id="pr_6c1de70c-3d95-4515-b2db-5995968e0a13_p1" x="5240.0" y="4546.25"/> <port id="pr_6c1de70c-3d95-4515-b2db-5995968e0a13_p2" x="5240.0" y="4576.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4753ad8f-481c-40b3-88e8-fb6260ad2ed8"> <bbox w="10.0" h="10.0" x="29076.625" y="8689.705"/> <port id="pr_4753ad8f-481c-40b3-88e8-fb6260ad2ed8_p1" x="29066.625" y="8694.705"/> <port id="pr_4753ad8f-481c-40b3-88e8-fb6260ad2ed8_p2" x="29096.625" y="8694.705"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_4213e801-490b-43a6-8af3-2db92b1b7f41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1947.5" y="12884.5"/> <port id="pr_4213e801-490b-43a6-8af3-2db92b1b7f41_p1" x="1952.5" y="12874.5"/> <port id="pr_4213e801-490b-43a6-8af3-2db92b1b7f41_p2" x="1952.5" y="12904.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_036ced56-6a60-4208-8de7-2b361c870251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2178.087" y="17203.25"/> <port id="pr_036ced56-6a60-4208-8de7-2b361c870251_p1" x="2168.087" y="17208.25"/> <port id="pr_036ced56-6a60-4208-8de7-2b361c870251_p2" x="2198.087" y="17208.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_30f478b0-e747-409a-9190-6fc982e3daf6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAX interacts with the transcription factor C-MYC enabling C-MYC to trans-activate at least a subset of its target genes.</p> <p>GSK3 is constitutively active in unstimulated cells and phosphorylates many proteins (including glycogen synthase C-MYC and cyclin D) to keep them in inactive states or promote their degradation.</p> <p>PMID:11274345 PMID:12040186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_30f478b0-e747-409a-9190-6fc982e3daf6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> 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modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5648.261" y="18853.0"/> <port id="pr_30a569ea-3817-44ae-ad7b-ddbe7b32feda_p1" x="5653.261" y="18843.0"/> <port id="pr_30a569ea-3817-44ae-ad7b-ddbe7b32feda_p2" x="5653.261" y="18873.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_43a55a68-bf40-46de-aadb-1fdf1389c83d"> <bbox w="10.0" h="10.0" x="6585.0" y="4010.0"/> <port id="pr_43a55a68-bf40-46de-aadb-1fdf1389c83d_p1" x="6590.0" y="4030.0"/> <port id="pr_43a55a68-bf40-46de-aadb-1fdf1389c83d_p2" x="6590.0" y="4000.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f53d44f6-a885-4653-8a1a-432abc0d4c8d"> <bbox w="10.0" h="10.0" x="3216.7986" y="3110.625"/> <port id="pr_f53d44f6-a885-4653-8a1a-432abc0d4c8d_p1" x="3221.7986" y="3130.625"/> <port id="pr_f53d44f6-a885-4653-8a1a-432abc0d4c8d_p2" x="3221.7986" y="3100.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb4a87fb-ba8a-495e-aaa3-6bc418ecac9a"> <bbox w="10.0" h="10.0" x="25867.105" y="13284.5"/> <port id="pr_cb4a87fb-ba8a-495e-aaa3-6bc418ecac9a_p1" x="25872.105" y="13304.5"/> <port id="pr_cb4a87fb-ba8a-495e-aaa3-6bc418ecac9a_p2" x="25872.105" y="13274.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9bee9400-76ec-4f32-a057-55acbfda6bda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19935649</p> <p>Protein expression of Bmi1, Sox2, p63 was reduced after ZEB1 knockdown.</p> <p>ZEB1 knockdown not only resulted in reduced invasion and metastasis, but also in reduced tumorigenicity.</p> <p>ZEB1 is also necessary for the self-renewing capacity.</p> <p>ZEB1 is crucial for drug resistance in pancreatic cancer cells. This supports data showing that EMT activators (Twist and Snail) confer anti-apoptotic properties</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9bee9400-76ec-4f32-a057-55acbfda6bda"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19935649"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2735.5" y="16543.078"/> <port id="pr_9bee9400-76ec-4f32-a057-55acbfda6bda_p1" x="2755.5" y="16548.078"/> <port id="pr_9bee9400-76ec-4f32-a057-55acbfda6bda_p2" x="2725.5" y="16548.078"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8651de85-8eb0-4dec-abe9-c9d231a9eb95"> <bbox w="10.0" h="10.0" x="11885.0" y="5655.0"/> <port id="pr_8651de85-8eb0-4dec-abe9-c9d231a9eb95_p1" x="11890.0" y="5645.0"/> <port id="pr_8651de85-8eb0-4dec-abe9-c9d231a9eb95_p2" x="11890.0" y="5675.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0eef2d50-4676-46b7-90e7-b421c6f43c13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylation of NBS1 bt ATR in responce to crosslink-activation of S phase checkpoint</p> <p>PMID:15136767</p> <p>Formation of the complex for crosslink-activation of S phase checkpoint. FA core complex activates the reaction to stop cell cycle propagation:</p> <p>PMID:14988723</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0eef2d50-4676-46b7-90e7-b421c6f43c13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15136767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14988723"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13357.098" y="13702.0625"/> <port id="pr_0eef2d50-4676-46b7-90e7-b421c6f43c13_p1" x="13377.098" y="13707.0625"/> <port id="pr_0eef2d50-4676-46b7-90e7-b421c6f43c13_p2" x="13347.098" y="13707.0625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eb615fbf-b3b6-4f80-8b42-14087bfc1282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Polymerisation of Dvl-proteins is not associated with endosomes or other vesicles. Polymerization of Dvl acts as scaffold for recruiting Rac1</p> <p>PMID:20457807</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb615fbf-b3b6-4f80-8b42-14087bfc1282"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20457807"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17030.332" y="19513.664"/> <port id="pr_eb615fbf-b3b6-4f80-8b42-14087bfc1282_p1" x="17035.332" y="19503.664"/> <port id="pr_eb615fbf-b3b6-4f80-8b42-14087bfc1282_p2" x="17035.332" y="19533.664"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_648bbdf4-d535-4f2c-bcaa-77458039e4e8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19203584</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_648bbdf4-d535-4f2c-bcaa-77458039e4e8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_a19214f9-280a-457d-a172-59af4a0e2f91"> <bbox w="10.0" h="10.0" x="3997.4167" y="9505.041"/> <port id="pr_a19214f9-280a-457d-a172-59af4a0e2f91_p1" x="4017.4167" y="9510.041"/> <port id="pr_a19214f9-280a-457d-a172-59af4a0e2f91_p2" x="3987.4167" y="9510.041"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b0ce6706-b384-4940-86c4-fef52f241be8"> <bbox w="10.0" h="10.0" x="16024.334" y="13625.9375"/> <port id="pr_b0ce6706-b384-4940-86c4-fef52f241be8_p1" x="16029.334" y="13615.9375"/> <port id="pr_b0ce6706-b384-4940-86c4-fef52f241be8_p2" x="16029.334" y="13645.9375"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9ec1161c-46fe-4b0a-8bf4-48fb017f4982"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22154077, PMID:17522712</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>PMID:15866889</p> <p>The ARP2_3 complex and Cofilin are involved in protrusion at the leading edge: the actin-severing activity of cofilin and the actin-branching activity of Arp2_3 act in synergy to drive the extension of lamellipodia.</p> <p>Cofilin is also required for the maintenance of a polarized cytoskeleton and thus for directional cell migration.</p> <p>Integrins control motile strategy through a Rho-cofilin pathway.</p> <p>Adhesion to fibronectin by a5b1 integrin leads to phosphorylation and thus inactivation of cofilin. </p> <p>Cells thus fail to polarize their cytoskeleton but extend thin protrusion with cell-matrix adhesions in multiple directions.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ec1161c-46fe-4b0a-8bf4-48fb017f4982"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22154077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<title/> </head> <body> <p>References:</p> <p>PMID:10929711</p> <p>identification of DIABLO as an inhibitor of XIAP</p> <p>PMID:11140637</p> <p>structure of XIAP BIR3 complexed to a peptide from DIABLO</p> <p>PMID:15078891</p> <p>DIABLO inhibits XIAP ubiquitin-ligase activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a45173f0-bb76-4b29-ab5f-e56f4e2cf509"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10929711"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11140637"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15078891"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24911.06" y="12294.0"/> <port id="pr_a45173f0-bb76-4b29-ab5f-e56f4e2cf509_p1" x="24901.06" y="12299.0"/> <port id="pr_a45173f0-bb76-4b29-ab5f-e56f4e2cf509_p2" x="24931.06" y="12299.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_87bd0244-e9c0-4a16-ab9b-96472272c7a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Calcium activates the Ras GAP CAPRI (RASA4) that translocates to the PM and downregulates any Ras that is activated on this compartment by the exchange factor SOS.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_87bd0244-e9c0-4a16-ab9b-96472272c7a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7988.06" y="19342.0"/> <port id="pr_87bd0244-e9c0-4a16-ab9b-96472272c7a4_p1" x="7993.06" y="19362.0"/> <port id="pr_87bd0244-e9c0-4a16-ab9b-96472272c7a4_p2" x="7993.06" y="19332.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ddccacbd-053b-44c2-b7cc-6611c941048d"> <bbox w="10.0" h="10.0" x="18176.11" y="5092.0635"/> <port id="pr_ddccacbd-053b-44c2-b7cc-6611c941048d_p1" x="18181.11" y="5082.0635"/> <port id="pr_ddccacbd-053b-44c2-b7cc-6611c941048d_p2" x="18181.11" y="5112.0635"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d08538c-5242-44c5-ad2c-020d94c07c8f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3393.5" y="16479.0"/> <port id="pr_7d08538c-5242-44c5-ad2c-020d94c07c8f_p1" x="3413.5" y="16484.0"/> <port id="pr_7d08538c-5242-44c5-ad2c-020d94c07c8f_p2" x="3383.5" y="16484.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f7d4aec7-a2a9-48bc-a88d-6a1be9bfa2e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5708.657" y="18468.75"/> <port id="pr_f7d4aec7-a2a9-48bc-a88d-6a1be9bfa2e7_p1" x="5713.657" y="18488.75"/> <port id="pr_f7d4aec7-a2a9-48bc-a88d-6a1be9bfa2e7_p2" x="5713.657" y="18458.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_39ad461a-7945-455e-8700-5fd06bb1e88e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="13291.0"/> <port id="pr_72f0510a-2464-46ce-b6bc-6925a2122dbc_p2" x="29213.004" y="13321.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ef65650-e7c1-4477-9b01-3c7f88389309"> <bbox w="10.0" h="10.0" x="10260.648" y="624.375"/> <port id="pr_2ef65650-e7c1-4477-9b01-3c7f88389309_p1" x="10265.648" y="614.375"/> <port id="pr_2ef65650-e7c1-4477-9b01-3c7f88389309_p2" x="10265.648" y="644.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8ad07b2f-e1f4-4241-ba4b-97e8085602b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1115.0" y="16306.0"/> <port id="pr_8ad07b2f-e1f4-4241-ba4b-97e8085602b0_p1" x="1120.0" y="16296.0"/> <port id="pr_8ad07b2f-e1f4-4241-ba4b-97e8085602b0_p2" x="1120.0" y="16326.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c74c12b6-e96f-4bf0-a5da-396d47a2f288"> <bbox w="10.0" h="10.0" x="26939.06" y="14374.0"/> <port id="pr_c74c12b6-e96f-4bf0-a5da-396d47a2f288_p1" x="26929.06" y="14379.0"/> <port id="pr_c74c12b6-e96f-4bf0-a5da-396d47a2f288_p2" x="26959.06" y="14379.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_443a2de1-2a00-45aa-8a4a-89ca5fb6213a"> <bbox w="10.0" h="10.0" x="21880.31" y="12494.625"/> <port id="pr_443a2de1-2a00-45aa-8a4a-89ca5fb6213a_p1" x="21870.31" y="12499.625"/> <port id="pr_443a2de1-2a00-45aa-8a4a-89ca5fb6213a_p2" x="21900.31" y="12499.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5b8ac2d9-517d-4790-8d3c-c207540c4691"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>from uniprot</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18670.56" y="15044.0"/> <port id="pr_5b8ac2d9-517d-4790-8d3c-c207540c4691_p1" x="18690.56" y="15049.0"/> <port id="pr_5b8ac2d9-517d-4790-8d3c-c207540c4691_p2" x="18660.56" y="15049.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4142b8a3-9173-4e95-befa-62fadf91d288"> <bbox w="10.0" h="10.0" x="26609.06" y="16282.4375"/> <port id="pr_4142b8a3-9173-4e95-befa-62fadf91d288_p1" x="26629.06" y="16287.4375"/> <port id="pr_4142b8a3-9173-4e95-befa-62fadf91d288_p2" x="26599.06" y="16287.4375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d41b1c8-5582-473e-ab3d-54014f117e97"> <bbox w="10.0" h="10.0" x="16187.5" y="1989.0637"/> <port id="pr_1d41b1c8-5582-473e-ab3d-54014f117e97_p1" x="16192.5" y="2009.0637"/> <port id="pr_1d41b1c8-5582-473e-ab3d-54014f117e97_p2" x="16192.5" y="1979.0637"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b228b7b2-9987-47b3-a4c6-424920e48a98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>deoxyribose-phosphatase activity of PolB</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="9705.988" y="16213.49"/> <port id="pr_b228b7b2-9987-47b3-a4c6-424920e48a98_p1" x="9725.988" y="16218.49"/> <port id="pr_b228b7b2-9987-47b3-a4c6-424920e48a98_p2" x="9695.988" y="16218.49"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cfd0d92b-b6ea-4c3d-bcea-4575603ee4fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20338997</p> <p>PMID:18570873</p> <p>PMID:18925875</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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id="pr_cfd0d92b-b6ea-4c3d-bcea-4575603ee4fe_p2" x="12195.873" y="18389.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_01e7457d-bcee-421e-b286-58e87782df97"> <bbox w="10.0" h="10.0" x="14995.061" y="18672.0"/> <port id="pr_01e7457d-bcee-421e-b286-58e87782df97_p1" x="15015.061" y="18677.0"/> <port id="pr_01e7457d-bcee-421e-b286-58e87782df97_p2" x="14985.061" y="18677.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a292a873-dbcd-43d2-a779-7ce5624c617a"> <bbox w="10.0" h="10.0" x="13109.375" y="4364.375"/> <port id="pr_a292a873-dbcd-43d2-a779-7ce5624c617a_p1" x="13114.375" y="4354.375"/> <port id="pr_a292a873-dbcd-43d2-a779-7ce5624c617a_p2" x="13114.375" y="4384.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9325bd0-90f8-4f36-83b5-7e0e2333131d"> <bbox w="10.0" h="10.0" x="21114.062" y="7407.5"/> <port id="pr_a9325bd0-90f8-4f36-83b5-7e0e2333131d_p1" x="21134.062" y="7412.5"/> <port id="pr_a9325bd0-90f8-4f36-83b5-7e0e2333131d_p2" x="21104.062" y="7412.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_88ec882d-e0df-4d3f-b0de-93820da7cacf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9334353</p> <p>MLLT4 is so-called Afadin or AF-6</p> <p>Afadin serves as a linker of the Actin cytoskeleton to the plasma membrane at the TJ sites</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_88ec882d-e0df-4d3f-b0de-93820da7cacf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9334353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2015.965" y="14497.5"/> <port id="pr_88ec882d-e0df-4d3f-b0de-93820da7cacf_p1" x="2020.965" y="14517.5"/> <port id="pr_88ec882d-e0df-4d3f-b0de-93820da7cacf_p2" x="2020.965" y="14487.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1e373e16-11d4-4f52-ac96-99dcc2dc1eb7"> <bbox w="10.0" h="10.0" x="28605.56" y="12156.958"/> <port id="pr_1e373e16-11d4-4f52-ac96-99dcc2dc1eb7_p1" x="28625.56" y="12161.958"/> <port id="pr_1e373e16-11d4-4f52-ac96-99dcc2dc1eb7_p2" x="28595.56" y="12161.958"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_56b7eb5b-ac74-4249-a039-454ce47ff8db"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12935.705" y="15647.355"/> <port id="pr_56b7eb5b-ac74-4249-a039-454ce47ff8db_p1" x="12925.705" y="15652.355"/> <port id="pr_56b7eb5b-ac74-4249-a039-454ce47ff8db_p2" x="12955.705" y="15652.355"/> </glyph> <glyph class="process" orientation="vertical" id="pr_67199e8e-eb45-41d5-aea6-499045a366c6"> <bbox w="10.0" h="10.0" x="18413.545" y="11713.35"/> <port id="pr_67199e8e-eb45-41d5-aea6-499045a366c6_p1" x="18418.545" y="11703.35"/> <port id="pr_67199e8e-eb45-41d5-aea6-499045a366c6_p2" x="18418.545" y="11733.35"/> </glyph> <glyph class="process" orientation="vertical" id="pr_36f4a3eb-5103-46e4-85cc-60575d889c53"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19996169</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_36f4a3eb-5103-46e4-85cc-60575d889c53"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996169"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27345.707" y="18821.0"/> <port id="pr_36f4a3eb-5103-46e4-85cc-60575d889c53_p1" x="27350.707" y="18811.0"/> <port id="pr_36f4a3eb-5103-46e4-85cc-60575d889c53_p2" x="27350.707" y="18841.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_403348d7-4fbb-4513-90e1-55e9264bac37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6105.3193" y="15414.211"/> <port id="pr_403348d7-4fbb-4513-90e1-55e9264bac37_p1" x="6125.3193" y="15419.211"/> <port id="pr_403348d7-4fbb-4513-90e1-55e9264bac37_p2" x="6095.3193" y="15419.211"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9ddbef30-4481-4a64-9fc5-160e41b578fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20609352</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ddbef30-4481-4a64-9fc5-160e41b578fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20609352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5408.615" y="10113.346"/> <port id="pr_9ddbef30-4481-4a64-9fc5-160e41b578fc_p1" x="5428.615" y="10118.346"/> <port id="pr_9ddbef30-4481-4a64-9fc5-160e41b578fc_p2" x="5398.615" y="10118.346"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2085efcc-e066-4f06-9ad4-8c03e200feb5"> <bbox w="10.0" h="10.0" x="13168.0" y="10218.268"/> <port id="pr_2085efcc-e066-4f06-9ad4-8c03e200feb5_p1" x="13173.0" y="10238.268"/> <port id="pr_2085efcc-e066-4f06-9ad4-8c03e200feb5_p2" x="13173.0" y="10208.268"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99359c39-2dba-432b-83be-18f5837dd124"> <bbox w="10.0" h="10.0" x="23338.436" y="10572.375"/> <port id="pr_99359c39-2dba-432b-83be-18f5837dd124_p1" x="23343.436" y="10562.375"/> <port id="pr_99359c39-2dba-432b-83be-18f5837dd124_p2" x="23343.436" y="10592.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_93d0e0f5-5707-4146-806b-d3c9b874c289"> <bbox w="10.0" h="10.0" x="5291.714" y="4351.875"/> <port id="pr_93d0e0f5-5707-4146-806b-d3c9b874c289_p1" x="5296.714" y="4341.875"/> <port id="pr_93d0e0f5-5707-4146-806b-d3c9b874c289_p2" x="5296.714" y="4371.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0eb2be15-4a56-4673-9520-8bdb8de4f82c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19797085</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0eb2be15-4a56-4673-9520-8bdb8de4f82c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19797085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13378.186" y="18216.0"/> <port id="pr_0eb2be15-4a56-4673-9520-8bdb8de4f82c_p1" x="13368.186" y="18221.0"/> <port id="pr_0eb2be15-4a56-4673-9520-8bdb8de4f82c_p2" x="13398.186" y="18221.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_daa7a4b6-5341-43ca-991e-3b8a5c076502"> <bbox w="10.0" h="10.0" x="21570.686" y="15445.5"/> <port id="pr_daa7a4b6-5341-43ca-991e-3b8a5c076502_p1" x="21590.686" y="15450.5"/> <port id="pr_daa7a4b6-5341-43ca-991e-3b8a5c076502_p2" x="21560.686" y="15450.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f8d656a-37fd-48c4-9b01-b03e5531261f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19671867</p> <p>in human hepatocellular carcinoma, MIR221 represses BMF expression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f8d656a-37fd-48c4-9b01-b03e5531261f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19671867"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20504.512" y="15954.561"/> <port id="pr_5f8d656a-37fd-48c4-9b01-b03e5531261f_p1" x="20509.512" y="15974.561"/> <port id="pr_5f8d656a-37fd-48c4-9b01-b03e5531261f_p2" x="20509.512" y="15944.561"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f201c300-983b-4aa2-bda0-b93000dead72"> <bbox w="10.0" h="10.0" x="1195.0" y="3741.0"/> <port id="pr_f201c300-983b-4aa2-bda0-b93000dead72_p1" x="1200.0" y="3731.0"/> <port id="pr_f201c300-983b-4aa2-bda0-b93000dead72_p2" x="1200.0" y="3761.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b2ca4ca4-6072-4b2f-86d8-5be8c35e6d05"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18077375</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b2ca4ca4-6072-4b2f-86d8-5be8c35e6d05"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18077375"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27643.56" y="22052.172"/> <port id="pr_b2ca4ca4-6072-4b2f-86d8-5be8c35e6d05_p1" x="27633.56" y="22057.172"/> <port id="pr_b2ca4ca4-6072-4b2f-86d8-5be8c35e6d05_p2" x="27663.56" y="22057.172"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d843f326-725b-4210-9fc1-e070bb049be1"> <bbox w="10.0" h="10.0" x="24916.56" y="16727.0"/> <port id="pr_d843f326-725b-4210-9fc1-e070bb049be1_p1" x="24921.56" y="16747.0"/> <port id="pr_d843f326-725b-4210-9fc1-e070bb049be1_p2" x="24921.56" y="16717.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ce023b05-92f0-44af-86f2-74bdb7e6b25d"> <bbox w="10.0" h="10.0" x="10630.0" y="1836.25"/> <port id="pr_ce023b05-92f0-44af-86f2-74bdb7e6b25d_p1" x="10635.0" y="1856.25"/> <port id="pr_ce023b05-92f0-44af-86f2-74bdb7e6b25d_p2" x="10635.0" y="1826.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b6acb731-d8c4-4a22-9476-45801451dbc8"> <bbox w="10.0" h="10.0" x="27087.402" y="13351.75"/> <port id="pr_b6acb731-d8c4-4a22-9476-45801451dbc8_p1" x="27092.402" y="13371.75"/> <port id="pr_b6acb731-d8c4-4a22-9476-45801451dbc8_p2" x="27092.402" y="13341.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1baae253-f8c9-4b69-8d42-07f4f214e085"> <bbox w="10.0" h="10.0" x="27879.06" y="10144.0"/> <port id="pr_1baae253-f8c9-4b69-8d42-07f4f214e085_p1" x="27869.06" y="10149.0"/> <port id="pr_1baae253-f8c9-4b69-8d42-07f4f214e085_p2" x="27899.06" y="10149.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a659dad-26ab-4e5d-a545-7ce45c375ee4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>27096756</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4444.5" y="12300.0"/> <port id="pr_8a659dad-26ab-4e5d-a545-7ce45c375ee4_p1" x="4449.5" y="12290.0"/> <port id="pr_8a659dad-26ab-4e5d-a545-7ce45c375ee4_p2" x="4449.5" y="12320.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_470f36ec-6fc7-4ad5-8480-4815b9882ccb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1520.5953" y="15068.234"/> <port id="pr_470f36ec-6fc7-4ad5-8480-4815b9882ccb_p1" x="1525.5953" y="15058.234"/> <port id="pr_470f36ec-6fc7-4ad5-8480-4815b9882ccb_p2" x="1525.5953" y="15088.234"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_474d7a3d-8a83-4f00-a8c2-f2ce49a32f01"> <bbox w="10.0" h="10.0" x="9690.5" y="5416.25"/> <port id="pr_474d7a3d-8a83-4f00-a8c2-f2ce49a32f01_p1" x="9710.5" y="5421.25"/> <port id="pr_474d7a3d-8a83-4f00-a8c2-f2ce49a32f01_p2" x="9680.5" y="5421.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_344b8889-0195-4cda-8092-99bbc6d59063"> <bbox w="10.0" h="10.0" x="13065.0" y="1577.5"/> <port id="pr_344b8889-0195-4cda-8092-99bbc6d59063_p1" x="13070.0" y="1597.5"/> <port id="pr_344b8889-0195-4cda-8092-99bbc6d59063_p2" x="13070.0" y="1567.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a9bb2f7-00f0-4a74-a00e-9f95945e279a"> <bbox w="10.0" h="10.0" x="696.1666" y="4353.5"/> <port id="pr_5a9bb2f7-00f0-4a74-a00e-9f95945e279a_p1" x="701.1666" y="4343.5"/> <port id="pr_5a9bb2f7-00f0-4a74-a00e-9f95945e279a_p2" x="701.1666" y="4373.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7125308b-3256-4257-948b-825bca16df05"> <bbox w="10.0" h="10.0" x="28374.775" y="14883.286"/> <port id="pr_7125308b-3256-4257-948b-825bca16df05_p1" x="28364.775" y="14888.286"/> <port id="pr_7125308b-3256-4257-948b-825bca16df05_p2" x="28394.775" y="14888.286"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_cbde5f99-a35b-4d11-b233-790d0a941cf8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6533.5645" y="15041.75"/> <port id="pr_cbde5f99-a35b-4d11-b233-790d0a941cf8_p1" x="6523.5645" y="15046.75"/> <port id="pr_cbde5f99-a35b-4d11-b233-790d0a941cf8_p2" x="6553.5645" y="15046.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_83b1717b-790e-49bb-aaba-010d243e15fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23104.06" y="9366.25"/> <port id="pr_83b1717b-790e-49bb-aaba-010d243e15fc_p1" x="23109.06" y="9356.25"/> <port id="pr_83b1717b-790e-49bb-aaba-010d243e15fc_p2" x="23109.06" y="9386.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_84db4eff-de85-42a3-a8cf-966b5397411a"> <bbox w="10.0" h="10.0" x="11435.0" y="6484.5"/> <port id="pr_84db4eff-de85-42a3-a8cf-966b5397411a_p1" x="11440.0" y="6474.5"/> <port id="pr_84db4eff-de85-42a3-a8cf-966b5397411a_p2" x="11440.0" y="6504.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9e069624-da6d-4053-b293-ed97901e242b"> <bbox w="10.0" h="10.0" x="10453.75" y="565.625"/> <port id="pr_9e069624-da6d-4053-b293-ed97901e242b_p1" x="10458.75" y="555.625"/> <port id="pr_9e069624-da6d-4053-b293-ed97901e242b_p2" x="10458.75" y="585.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_53589346-eb7a-43ca-bbd5-96888226e1ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10809728</p> <p>Laminin-8 contains LAMA4, LAMB1, LAMC1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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orientation="horizontal" id="pr_b5471de5-2877-496f-a4c0-6f72affe53a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24376839</p> <p>PTP4A3 is implicated in cell adhesion and the regulation of focal adhesion components including integrin beta-1, Src, paxillin and p130Cas</p> <p>Similarly, PTP4A3 promotes cell invasion by increasing MMP2 activity and decreasing the expression of the MMP inhibitor, TIMP2. </p> <p>PTP4A3 is also involved in EMT: PTP4A3 overexpression in colorectal carcinoma cells downregulates epithelial markers (E-cadherin, plakoglobin, and integrin beta-3) and upregulates expression of mesenchymal markers (fibronectin and snail1).</p> <p>PMID:23691193</p> <p>Src-mediated phosphorylation of PTP4A3 Is required for Rho activation, motility and invasion promoted by PTP4A3.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b5471de5-2877-496f-a4c0-6f72affe53a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24376839"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23691193"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1713.4845" y="18712.219"/> <port id="pr_b5471de5-2877-496f-a4c0-6f72affe53a6_p1" x="1703.4845" y="18717.219"/> <port id="pr_b5471de5-2877-496f-a4c0-6f72affe53a6_p2" x="1733.4845" y="18717.219"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d87b551-430a-42e3-8e83-25f1fbadd12b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:2550447, PMID:19608982</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d87b551-430a-42e3-8e83-25f1fbadd12b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2550447"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19608982"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18025.31" y="18413.5"/> <port id="pr_0d87b551-430a-42e3-8e83-25f1fbadd12b_p1" x="18030.31" y="18403.5"/> <port id="pr_0d87b551-430a-42e3-8e83-25f1fbadd12b_p2" x="18030.31" y="18433.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_33c9d60e-4cc0-4f8c-8005-23555881c576"> <bbox w="10.0" h="10.0" x="1026.8035" y="3926.75"/> <port id="pr_33c9d60e-4cc0-4f8c-8005-23555881c576_p1" x="1031.8035" y="3916.75"/> <port id="pr_33c9d60e-4cc0-4f8c-8005-23555881c576_p2" x="1031.8035" y="3946.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5923728d-477d-460c-8e72-7bfbe5dde15f"> <bbox w="10.0" h="10.0" x="21665.832" y="5361.25"/> <port id="pr_5923728d-477d-460c-8e72-7bfbe5dde15f_p1" x="21670.832" y="5351.25"/> <port id="pr_5923728d-477d-460c-8e72-7bfbe5dde15f_p2" x="21670.832" y="5381.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_cfec9e2c-e63b-4b89-81d6-3396de7a653b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19190345 PMID:16880536</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cfec9e2c-e63b-4b89-81d6-3396de7a653b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21831.0"/> <port id="pr_cfec9e2c-e63b-4b89-81d6-3396de7a653b_p1" x="26547.56" y="21836.0"/> <port id="pr_cfec9e2c-e63b-4b89-81d6-3396de7a653b_p2" x="26577.56" y="21836.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b9707f87-7fc9-43fb-afe7-de0b80d36fc9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17991864</p> <p>FKBP8 antagonizes mTORC1, and mediates RHEB induced mTORC1 activation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b9707f87-7fc9-43fb-afe7-de0b80d36fc9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17991864"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26822.926" y="11806.75"/> <port id="pr_b9707f87-7fc9-43fb-afe7-de0b80d36fc9_p1" x="26827.926" y="11826.75"/> <port 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x="15801.77" y="887.3125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ed5dab00-928a-427b-b1d5-bc1c24e4a806"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18458340</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ed5dab00-928a-427b-b1d5-bc1c24e4a806"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18458340"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24438.125" y="16188.705"/> <port id="pr_ed5dab00-928a-427b-b1d5-bc1c24e4a806_p1" x="24443.125" y="16208.705"/> <port id="pr_ed5dab00-928a-427b-b1d5-bc1c24e4a806_p2" x="24443.125" y="16178.705"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5b7491dc-d841-49f0-8519-b52e4233aea7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6164.4033" y="13435.197"/> <port id="pr_5b7491dc-d841-49f0-8519-b52e4233aea7_p1" x="6154.4033" y="13440.197"/> <port id="pr_5b7491dc-d841-49f0-8519-b52e4233aea7_p2" x="6184.4033" y="13440.197"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a753a3e7-a658-4b8a-8514-4362e0ef81d1"> <bbox w="10.0" h="10.0" x="17052.973" y="3572.9678"/> <port id="pr_a753a3e7-a658-4b8a-8514-4362e0ef81d1_p1" x="17057.973" y="3562.9678"/> <port id="pr_a753a3e7-a658-4b8a-8514-4362e0ef81d1_p2" x="17057.973" y="3592.9678"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_9d0c2a0f-9a9d-496e-a575-5c1f5a60cf68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_5b513ccc-a260-4fb5-bf58-696808d1290d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b513ccc-a260-4fb5-bf58-696808d1290d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17834.06" y="13102.375"/> <port id="pr_5b513ccc-a260-4fb5-bf58-696808d1290d_p1" x="17839.06" y="13092.375"/> <port id="pr_5b513ccc-a260-4fb5-bf58-696808d1290d_p2" x="17839.06" y="13122.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0efc05b8-9fda-4aec-8280-a157b4ee9ee5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15383321</p> <p>MTDH is so-called LYRIC</p> <p>LYRIC colocalizes with ZO1 and Occludin in polarized epithelial cells. </p> <p>This protein is most likely not involved in the TJ formation as a structural component. </p> <p>However, it is required for the maturation of the TJ complex</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_d0d92784-b840-4d1a-b694-eedc1d63ae3f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3846.5" y="16706.846"/> <port id="pr_d0d92784-b840-4d1a-b694-eedc1d63ae3f_p1" x="3836.5" y="16711.846"/> <port id="pr_d0d92784-b840-4d1a-b694-eedc1d63ae3f_p2" x="3866.5" y="16711.846"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83f3ef84-7548-43bd-8964-d568fb35eb88"> <bbox w="10.0" h="10.0" x="5472.0" y="1020.58826"/> <port id="pr_83f3ef84-7548-43bd-8964-d568fb35eb88_p1" x="5462.0" y="1025.5883"/> <port id="pr_83f3ef84-7548-43bd-8964-d568fb35eb88_p2" x="5492.0" y="1025.5883"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a2cf9482-e2e3-4c70-878e-285f5214eef0"> <bbox w="10.0" h="10.0" x="2947.5" y="3645.0"/> <port id="pr_a2cf9482-e2e3-4c70-878e-285f5214eef0_p1" x="2937.5" y="3650.0"/> <port id="pr_a2cf9482-e2e3-4c70-878e-285f5214eef0_p2" x="2967.5" y="3650.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_8e69fb52-4a5b-46ee-a353-d60703a90fa2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:7479768</p> <p>ABR and BCR as a GAP of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e69fb52-4a5b-46ee-a353-d60703a90fa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7479768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6483.9053" y="14281.25"/> <port id="pr_8e69fb52-4a5b-46ee-a353-d60703a90fa2_p1" x="6488.9053" y="14301.25"/> <port id="pr_8e69fb52-4a5b-46ee-a353-d60703a90fa2_p2" x="6488.9053" y="14271.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4957e4c2-a8e8-4d08-93be-8a663bf7cefc"> <bbox w="10.0" h="10.0" x="23447.5" y="5725.0"/> <port id="pr_4957e4c2-a8e8-4d08-93be-8a663bf7cefc_p1" x="23437.5" y="5730.0"/> <port id="pr_4957e4c2-a8e8-4d08-93be-8a663bf7cefc_p2" x="23467.5" y="5730.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4436259e-f5c7-4fe6-922b-a91092de325f"> <bbox w="10.0" h="10.0" x="11125.0" y="4750.0"/> <port id="pr_4436259e-f5c7-4fe6-922b-a91092de325f_p1" x="11130.0" y="4740.0"/> <port id="pr_4436259e-f5c7-4fe6-922b-a91092de325f_p2" x="11130.0" y="4770.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a54f40ab-e687-4636-bcc3-30c6ecceeeca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20125124</p> <p>by HTRA2</p> <p>PMID:10521396</p> <p>by CASP8</p> <p>PMID:19935698</p> <p>by CASP2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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<title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18851840</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_efe3dc68-e322-4306-a08e-b6129eb1aabd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18851840"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12177.811" y="17815.5"/> <port id="pr_efe3dc68-e322-4306-a08e-b6129eb1aabd_p1" x="12167.811" y="17820.5"/> <port id="pr_efe3dc68-e322-4306-a08e-b6129eb1aabd_p2" x="12197.811" y="17820.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ec63d737-7b8a-4756-b68f-ebf6c5671288"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5275.75" y="14556.5"/> <port id="pr_ec63d737-7b8a-4756-b68f-ebf6c5671288_p1" x="5280.75" y="14546.5"/> <port id="pr_ec63d737-7b8a-4756-b68f-ebf6c5671288_p2" x="5280.75" y="14576.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d95787af-df61-47c1-aaa1-181459b31977"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2193.5" y="15057.658"/> <port id="pr_d95787af-df61-47c1-aaa1-181459b31977_p1" x="2213.5" y="15062.658"/> <port id="pr_d95787af-df61-47c1-aaa1-181459b31977_p2" x="2183.5" y="15062.658"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_86fec97e-4379-47ec-9e82-70ec2b742787"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="996.2084" y="17833.0"/> <port id="pr_86fec97e-4379-47ec-9e82-70ec2b742787_p1" x="1001.2084" y="17853.0"/> <port id="pr_86fec97e-4379-47ec-9e82-70ec2b742787_p2" x="1001.2084" y="17823.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_933a90a3-19c5-41db-8651-2b2d9e5e590b"> <bbox w="10.0" h="10.0" x="19801.06" y="16799.238"/> <port id="pr_933a90a3-19c5-41db-8651-2b2d9e5e590b_p1" x="19791.06" y="16804.238"/> <port id="pr_933a90a3-19c5-41db-8651-2b2d9e5e590b_p2" x="19821.06" y="16804.238"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_af1b3d37-8839-4833-9f7d-dd7b4b9211f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_af1b3d37-8839-4833-9f7d-dd7b4b9211f7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18267.242" y="13078.807"/> <port id="pr_af1b3d37-8839-4833-9f7d-dd7b4b9211f7_p1" x="18257.242" y="13083.807"/> <port id="pr_af1b3d37-8839-4833-9f7d-dd7b4b9211f7_p2" x="18287.242" y="13083.807"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f25d318c-b26b-4fd3-be48-b2c9ab184879"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="996.4625" y="17694.25"/> <port id="pr_6bb09abf-09de-4f29-b1c4-40fd14ada4f7_p1" x="1001.4625" y="17684.25"/> <port id="pr_6bb09abf-09de-4f29-b1c4-40fd14ada4f7_p2" x="1001.4625" y="17714.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_63e60126-98c3-43cd-9f09-18a6500b392b"> <bbox w="10.0" h="10.0" x="18713.537" y="9980.172"/> <port id="pr_63e60126-98c3-43cd-9f09-18a6500b392b_p1" x="18718.537" y="9970.172"/> <port id="pr_63e60126-98c3-43cd-9f09-18a6500b392b_p2" x="18718.537" y="10000.172"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_3a53e437-23ce-4e4c-a732-66b4a8d637cc"> <bbox w="20.0" h="20.0" x="18857.314" y="9938.022"/> <port id="logicglyph_3a53e437-23ce-4e4c-a732-66b4a8d637cc_p1" x="18887.314" y="9948.022"/> <port id="logicglyph_3a53e437-23ce-4e4c-a732-66b4a8d637cc_p2" x="18847.314" y="9948.022"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd263e6d-1cdd-4e11-a40f-f3673704f30a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16556862</p> <p>ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groups</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bd263e6d-1cdd-4e11-a40f-f3673704f30a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2943.5" y="17367.5"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2688.0" y="17368.047"/> <port id="pr_c533bafc-0e52-4937-9cf5-64172cdc1a67_p1" x="2708.0" y="17373.047"/> <port id="pr_c533bafc-0e52-4937-9cf5-64172cdc1a67_p2" x="2678.0" y="17373.047"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d04fc5e-ee12-4a5e-aa3a-c1d6e3ae1ff1"> <bbox w="10.0" h="10.0" x="22246.25" y="5275.0"/> <port id="pr_2d04fc5e-ee12-4a5e-aa3a-c1d6e3ae1ff1_p1" x="22251.25" y="5265.0"/> <port id="pr_2d04fc5e-ee12-4a5e-aa3a-c1d6e3ae1ff1_p2" x="22251.25" y="5295.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d419681-3744-4333-99c8-6907384a4475"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16611981</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7d419681-3744-4333-99c8-6907384a4475"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16611981"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26279.686" y="18520.0"/> <port id="pr_7d419681-3744-4333-99c8-6907384a4475_p1" x="26269.686" y="18525.0"/> <port id="pr_7d419681-3744-4333-99c8-6907384a4475_p2" x="26299.686" y="18525.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2c2e1731-a938-48e3-8aeb-ec90d8105fbc"> <bbox w="10.0" h="10.0" x="4206.923" y="11515.385"/> <port id="pr_2c2e1731-a938-48e3-8aeb-ec90d8105fbc_p1" x="4196.923" y="11520.385"/> <port id="pr_2c2e1731-a938-48e3-8aeb-ec90d8105fbc_p2" x="4226.923" y="11520.385"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb81f034-80db-4527-96ce-55afe0e586a7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID :10402472</p> <p>We conclude that a pool of surface E-cadherin is constantly trafficked through an endocytic, recycling pathway and that this may provide a mechanism for regulating the availability of E-cadherin for junction formation in development, tissue remodeling, and tumorigenesis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1666.4135" y="14681.625"/> <port id="pr_bb81f034-80db-4527-96ce-55afe0e586a7_p1" x="1671.4135" y="14701.625"/> <port id="pr_bb81f034-80db-4527-96ce-55afe0e586a7_p2" x="1671.4135" y="14671.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_010a4cd1-353c-4eac-9069-b2e354ec499c"> <bbox w="10.0" h="10.0" x="28164.06" y="9266.0"/> <port id="pr_010a4cd1-353c-4eac-9069-b2e354ec499c_p1" x="28169.06" y="9256.0"/> <port id="pr_010a4cd1-353c-4eac-9069-b2e354ec499c_p2" x="28169.06" y="9286.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_929e5b43-bda0-4d67-a58e-7cafa5834f4b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4577.163" y="17787.5"/> <port id="pr_929e5b43-bda0-4d67-a58e-7cafa5834f4b_p1" x="4582.163" y="17777.5"/> <port id="pr_929e5b43-bda0-4d67-a58e-7cafa5834f4b_p2" x="4582.163" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_afd090f5-cc6a-4ac8-80f8-6b783ff0fcf9"> <bbox w="10.0" h="10.0" x="19243.89" y="16496.5"/> <port id="pr_afd090f5-cc6a-4ac8-80f8-6b783ff0fcf9_p1" x="19248.89" y="16516.5"/> <port id="pr_afd090f5-cc6a-4ac8-80f8-6b783ff0fcf9_p2" x="19248.89" y="16486.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60cfd1ce-0f31-4df0-b110-348d9317e1b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12389032</p> <p>in IMR90 and MEFs, active E2F1 induces CASP3 transcription</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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of Dbl-1 to load GTP onto CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1fc95d11-a06f-4c3a-b018-0c64f4089044"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11394904"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10652228"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18470881"/> 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y="18378.562"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c8da6010-dafa-4f64-82eb-e82a9f4dce20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22679284</p> <p>Patched dependence receptor triggers apoptosis through ubiquitination of caspase-9</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c8da6010-dafa-4f64-82eb-e82a9f4dce20"> 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<title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4100.3096" y="17787.5"/> <port id="pr_f0be3978-60d8-4680-b5b2-617259ace7d6_p1" x="4105.3096" y="17777.5"/> <port id="pr_f0be3978-60d8-4680-b5b2-617259ace7d6_p2" x="4105.3096" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0e2e52f5-a488-4d1a-90dc-9dd346613e2d"> <bbox w="10.0" h="10.0" x="18798.5" y="6121.5747"/> <port id="pr_0e2e52f5-a488-4d1a-90dc-9dd346613e2d_p1" x="18788.5" y="6126.5747"/> <port id="pr_0e2e52f5-a488-4d1a-90dc-9dd346613e2d_p2" x="18818.5" y="6126.5747"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6c9857d1-cf6f-4f7d-8748-da8e6c49db09"> <bbox w="10.0" h="10.0" x="25572.303" y="15826.873"/> <port id="pr_6c9857d1-cf6f-4f7d-8748-da8e6c49db09_p1" x="25577.303" y="15846.873"/> <port id="pr_6c9857d1-cf6f-4f7d-8748-da8e6c49db09_p2" x="25577.303" y="15816.873"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b042aafb-ad4e-456e-95ce-f1434fe72741"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:21233202</p> <p>PMID:12713446</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b042aafb-ad4e-456e-95ce-f1434fe72741"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21233202"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12713446"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12571.936" y="19315.0"/> <port id="pr_b042aafb-ad4e-456e-95ce-f1434fe72741_p1" x="12591.936" y="19320.0"/> <port id="pr_b042aafb-ad4e-456e-95ce-f1434fe72741_p2" x="12561.936" y="19320.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_332fd319-d955-4294-8ebf-9f54d06f2aaa"> <bbox w="10.0" h="10.0" x="28201.125" y="3167.0"/> <port id="pr_332fd319-d955-4294-8ebf-9f54d06f2aaa_p1" x="28221.125" y="3172.0"/> <port id="pr_332fd319-d955-4294-8ebf-9f54d06f2aaa_p2" x="28191.125" y="3172.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_358189ef-67f3-4096-84c2-856436bf0e02"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12865429</p> <p>cleaved GSPT1 harbors a IAP binding motif at tis C-terminal, AKPF, related to those found in DIABLO or HTRA2</p> <p>in vitro, cleaved GSPT1 and XIAP interact</p> <p>in HEK293, interaction between endogenous proteins</p> <p>in HEK293 cytoplasmic extract (S100 fraction), cleaved GSPT1 increases CYCS+ATP induced cleavage of CASP3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_358189ef-67f3-4096-84c2-856436bf0e02"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12865429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24943.594" y="12059.57"/> <port id="pr_358189ef-67f3-4096-84c2-856436bf0e02_p1" x="24933.594" y="12064.57"/> <port id="pr_358189ef-67f3-4096-84c2-856436bf0e02_p2" x="24963.594" y="12064.57"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ed0d38dd-7225-48fe-a099-9a64ff28e496"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1146.9705" y="14192.518"/> <port id="pr_ed0d38dd-7225-48fe-a099-9a64ff28e496_p1" x="1166.9705" y="14197.518"/> <port id="pr_ed0d38dd-7225-48fe-a099-9a64ff28e496_p2" x="1136.9705" y="14197.518"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b144353a-661f-4fdd-b52f-9b9f23c497af"> <bbox w="10.0" h="10.0" x="28185.467" y="13386.861"/> <port id="pr_b144353a-661f-4fdd-b52f-9b9f23c497af_p1" x="28175.467" y="13391.861"/> <port id="pr_b144353a-661f-4fdd-b52f-9b9f23c497af_p2" x="28205.467" y="13391.861"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2c7b2d88-0079-4220-8189-6d23ba8d4252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID: 12094222 </p> <p>VAV proteins activate RAC1 via induction of GDP/GTP exchange.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2c7b2d88-0079-4220-8189-6d23ba8d4252"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed: 12094222 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5917.0" y="3082.75"/> <port id="pr_2c7b2d88-0079-4220-8189-6d23ba8d4252_p1" x="5907.0" y="3087.75"/> <port id="pr_2c7b2d88-0079-4220-8189-6d23ba8d4252_p2" x="5937.0" y="3087.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cbe2bb4e-1a42-471e-8f5f-bfee8ca0864c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19597490</p> <p>SMAD3 and SMAD4 interact and form a complex with SNAIL1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cbe2bb4e-1a42-471e-8f5f-bfee8ca0864c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19597490"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3777.5" y="16022.007"/> <port id="pr_cbe2bb4e-1a42-471e-8f5f-bfee8ca0864c_p1" x="3797.5" y="16027.007"/> <port id="pr_cbe2bb4e-1a42-471e-8f5f-bfee8ca0864c_p2" x="3767.5" y="16027.007"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cdfb5db5-d209-4067-b444-bf94e9f8eec5"> <bbox w="10.0" h="10.0" x="24026.438" y="5478.683"/> <port id="pr_cdfb5db5-d209-4067-b444-bf94e9f8eec5_p1" x="24046.438" y="5483.683"/> <port id="pr_cdfb5db5-d209-4067-b444-bf94e9f8eec5_p2" x="24016.438" y="5483.683"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bcfa89dd-13d7-4020-9b03-3be07b7df5b1"> <bbox w="10.0" h="10.0" x="18423.873" y="5302.875"/> <port id="pr_bcfa89dd-13d7-4020-9b03-3be07b7df5b1_p1" x="18413.873" y="5307.875"/> <port id="pr_bcfa89dd-13d7-4020-9b03-3be07b7df5b1_p2" x="18443.873" y="5307.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d3d4708-9446-42ec-b89a-fbe358955666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1d3d4708-9446-42ec-b89a-fbe358955666"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28517.916" y="11437.583"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0cc5cd1e-afa1-4a95-9cb2-459ba0a9dd57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20901.06" y="22276.643"/> <port 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xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0c391abb-8d6d-436a-96d7-2139c4534a23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6009.5" y="10942.0"/> <port id="pr_0c391abb-8d6d-436a-96d7-2139c4534a23_p1" x="5999.5" y="10947.0"/> <port id="pr_0c391abb-8d6d-436a-96d7-2139c4534a23_p2" x="6029.5" y="10947.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb9d1431-ae5e-4a6e-a57e-544c250ff965"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>RasGTP interacts with IMP cleaving it from KSR1. In this way KSR1 can play its role of scaffolding protein for ERK cascade.</p> <p>Ras activation causes the cleavage of 14-3-3 from KSR1 (not modelled) exposing the membrane-targeting C1 domain as well as the docking site for ERK1/2.</p> <p>PMID:14724641 PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb9d1431-ae5e-4a6e-a57e-544c250ff965"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14724641"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9499.4375" y="19499.59"/> <port id="pr_eb9d1431-ae5e-4a6e-a57e-544c250ff965_p1" x="9519.4375" y="19504.59"/> <port id="pr_eb9d1431-ae5e-4a6e-a57e-544c250ff965_p2" x="9489.4375" y="19504.59"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d8385365-a80c-4293-ae12-6698421732c5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6102.5" y="15401.5"/> <port id="pr_d8385365-a80c-4293-ae12-6698421732c5_p1" x="6122.5" y="15406.5"/> <port id="pr_d8385365-a80c-4293-ae12-6698421732c5_p2" x="6092.5" y="15406.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_807142e5-89bc-4636-aec3-06947b79f80d"> <bbox w="10.0" h="10.0" x="27047.473" y="8538.75"/> <port id="pr_807142e5-89bc-4636-aec3-06947b79f80d_p1" x="27052.473" y="8528.75"/> <port id="pr_807142e5-89bc-4636-aec3-06947b79f80d_p2" x="27052.473" y="8558.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2be1926a-548e-45a2-a085-8e7465b1c285"> <bbox w="10.0" h="10.0" x="19861.883" y="15542.75"/> <port id="pr_2be1926a-548e-45a2-a085-8e7465b1c285_p1" x="19866.883" y="15562.75"/> <port id="pr_2be1926a-548e-45a2-a085-8e7465b1c285_p2" x="19866.883" y="15532.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bfe81749-910c-4e6a-b679-31d993d9bd3f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15371414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bfe81749-910c-4e6a-b679-31d993d9bd3f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15371414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21314.686" y="12910.438"/> <port id="pr_bfe81749-910c-4e6a-b679-31d993d9bd3f_p1" x="21319.686" y="12930.438"/> <port id="pr_bfe81749-910c-4e6a-b679-31d993d9bd3f_p2" x="21319.686" y="12900.438"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b481af4a-817e-4f30-89d4-890024b49e81"> <bbox w="10.0" h="10.0" x="13853.3" y="1442.0"/> <port id="pr_b481af4a-817e-4f30-89d4-890024b49e81_p1" x="13858.3" y="1432.0"/> <port id="pr_b481af4a-817e-4f30-89d4-890024b49e81_p2" x="13858.3" y="1462.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9e82f864-80a6-43e1-b5ec-ac34efec6131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10685062</p> <p>Adherens junctions are ubiquitously expressed in endothelia of all vascular beds?</p> <p>Adherens junction in endothelila cells are formed by homofilic binding of VE-cahderin (cadherin-5)</p> <p>Cadherins are cell adhesion molecules anchored by their cytoplasmic tails to a network of intracellular cytoplasmic proteins connected to the actin-based microfilament system.</p> <p>Association with catenins is nessesary for cadherin-mediated cell adhesion.</p> <p>PMID:12426320</p> <p>VE-cadhein interacts with catenin delta 1 (p120-catenin, CTNND1)</p> <p>VE-cadhein interacts with Plakophilin 4 (PKP4)</p> <p>PMID:7962210</p> <p>VE-cadhein interacts with catenin beta 1 (CTNNB1)</p> <p>PKP4 and CTNND1 bind to the same region on the cytoplasmic tail of VE-cadherin.</p> <p>Overexpression of PKP4 can displace CTNND1 from intercellular junctions.</p> <p>PMID:9739078</p> <p>VE-cadhein interacts with Plakoglobin (JUP)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9e82f864-80a6-43e1-b5ec-ac34efec6131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10685062"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12426320"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7962210"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9739078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1275.7898" y="16760.0"/> <port id="pr_9e82f864-80a6-43e1-b5ec-ac34efec6131_p1" x="1280.7898" y="16750.0"/> <port id="pr_9e82f864-80a6-43e1-b5ec-ac34efec6131_p2" x="1280.7898" y="16780.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8ae86d2-f5bb-420b-b0ab-a654bc6e4f20"> <bbox w="10.0" h="10.0" x="17582.5" y="8014.1523"/> <port id="pr_f8ae86d2-f5bb-420b-b0ab-a654bc6e4f20_p1" x="17572.5" y="8019.1523"/> <port id="pr_f8ae86d2-f5bb-420b-b0ab-a654bc6e4f20_p2" x="17602.5" y="8019.1523"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3caa8f3f-bbac-4fa5-a7c1-f3801015727d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>For actovation of TLS by UV</p> <p>PMID:22521143</p> <p>For actIvation of TLS by interstrand crosslinking agents </p> <p>PMID:20015866, PMID:15155842, PMID:22122464, PMID:23106263, PMID:21666254, PMID:20658647</p> <p>For activation by Dbait </p> <p>PMID:22068457, PMID:22815765, PMID:22042585, PMID:19621083</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3caa8f3f-bbac-4fa5-a7c1-f3801015727d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19267553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18256616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22521143"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20015866"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15155842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22122464"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23106263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21666254"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20658647"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22068457"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22815765"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22042585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19621083"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14443.902" y="15123.25"/> <port id="pr_3caa8f3f-bbac-4fa5-a7c1-f3801015727d_p1" x="14433.902" y="15128.25"/> <port id="pr_3caa8f3f-bbac-4fa5-a7c1-f3801015727d_p2" x="14463.902" y="15128.25"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_15a3d213-151b-4c11-889a-86679c5808c5"> <bbox w="20.0" h="20.0" x="12383.361" y="15076.5"/> <port id="logicglyph_15a3d213-151b-4c11-889a-86679c5808c5_p1" x="12373.361" y="15086.5"/> <port id="logicglyph_15a3d213-151b-4c11-889a-86679c5808c5_p2" x="12413.361" y="15086.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_974b3275-8763-47de-94a1-e8dcc70e4c4a"> <bbox w="10.0" h="10.0" x="20460.0" y="2470.0"/> <port id="pr_974b3275-8763-47de-94a1-e8dcc70e4c4a_p1" x="20465.0" y="2460.0"/> <port id="pr_974b3275-8763-47de-94a1-e8dcc70e4c4a_p2" x="20465.0" y="2490.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b2c45fe8-6bc6-4813-a8c9-a695e7704e56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18056423</p> <p>p53 mediated upregulation of IGFBP1</p> <p>in mouse liver</p> <p>PMID:9707622</p> <p>in HepG2, by HIF1</p> <p>PMID:10102273</p> <p>in 293T, by FOXO3, EMSA</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b2c45fe8-6bc6-4813-a8c9-a695e7704e56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18056423"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9707622"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10102273"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21205.482" y="16151.779"/> <port id="pr_b2c45fe8-6bc6-4813-a8c9-a695e7704e56_p1" x="21210.482" y="16171.779"/> <port id="pr_b2c45fe8-6bc6-4813-a8c9-a695e7704e56_p2" x="21210.482" y="16141.779"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_25e9e8e1-2a4d-4331-8602-8b2a0ff3c97e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11294891</p> <p>PMID:22674073</p> <p>Rac1 Regulates Adherens Junctions through Endocytosis of E-Cadherin.</p> <p>Rac1 has an ambivalent role on adherens junction. It favourise them in some case because it favours E-cadherin endocytose, however it does promote an endocytose towards degradation rather than recycling.</p> <p>Rac1 thus favours the lowering of AJ, even if it does not favourise their complete depletion. The adjustment variable being the amout of Trans-activated E-cahderin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_25e9e8e1-2a4d-4331-8602-8b2a0ff3c97e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11294891"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1706.875" y="13833.512"/> <port id="pr_25e9e8e1-2a4d-4331-8602-8b2a0ff3c97e_p1" x="1726.875" y="13838.512"/> <port id="pr_25e9e8e1-2a4d-4331-8602-8b2a0ff3c97e_p2" x="1696.875" y="13838.512"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1fad7672-9ddf-4c6b-9fba-ed2a1674c8f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MLK3 and MLK2 two MAP3Ks of JNK pathway can interact with RAC1 in a GTP-dependent manner.</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways.</p> <p>TAO kinases are novel MAP3Ks that specifically regulate P38s.</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>MEKK1 selectively activates the endogenous JNK pathway. MEKK1 can activate MEK4 and MEK7 in vivo.</p> <p>MEKK4 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> <p>MLK3 has the potential to positively regulate the ERK/MODULE:MAPK pathway by directly phosphorylating and activating MEK.</p> <p>Expression of GADD45 genes in mammalian cells strongly activates co-expressed MTK1 as well as P38 and JNK the MAPKs downstream of MTK1. TAO kinases are MAP3Ks that function upstream of P38 and JNK.</p> <p>PMID:11274345 PMID:12738796 PMID:18855897 PMID:21614932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1fad7672-9ddf-4c6b-9fba-ed2a1674c8f2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12738796"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18855897"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11089.238" y="20010.773"/> <port id="pr_1fad7672-9ddf-4c6b-9fba-ed2a1674c8f2_p1" x="11079.238" y="20015.773"/> <port id="pr_1fad7672-9ddf-4c6b-9fba-ed2a1674c8f2_p2" x="11109.238" y="20015.773"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dab05119-c522-4038-a683-7a9f429b83d8"> <bbox w="10.0" h="10.0" x="13486.462" y="16831.492"/> <port id="pr_dab05119-c522-4038-a683-7a9f429b83d8_p1" x="13491.462" y="16851.492"/> <port id="pr_dab05119-c522-4038-a683-7a9f429b83d8_p2" x="13491.462" y="16821.492"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8fdd947c-d8df-41ef-ac33-7a96f0fdd72d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12175651</p> <p>PMID:10826997</p> <p>PMID:12767520</p> <p>PMID:19030972</p> <p>PMID:16931767</p> <p>PMID:21540285</p> <p>PMID:12444011</p> <p>IGFfamily exhibits anti-apoptotic activity. </p> <p>Three IGF1R-induced anti-apoptotic pathways:</p> <p>1. IRS1-mediated pathway causing activation of PI3K and AKT(PKB) leading to BAD phosphorylation.</p> <p>Unphosphorylated BAD, by binding to BCLXL and BCL2, neutralizes the protective effect of these 2 later proteins and promotes cell death.</p> <p>Phosphorylated BAD is sequestered by 14-3-3 protein family and thus unable to bind BCL2 family hence can not promote cell death. </p> <p>2. After autophosphorylation and thus activation, IGF1R binds to 14-3-3 protein family, leading to activation and translocation of c-Raf1 to the mitochondria where it phosphorylates BAD.</p> <p>3. IGF1R specifically phosphorylates and inhibits ASK1 (MAP3K5)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8fdd947c-d8df-41ef-ac33-7a96f0fdd72d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12175651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10826997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12767520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19030972"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16931767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21540285"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12444011"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5709.75" y="13430.5"/> <port id="pr_8fdd947c-d8df-41ef-ac33-7a96f0fdd72d_p1" x="5729.75" y="13435.5"/> <port id="pr_8fdd947c-d8df-41ef-ac33-7a96f0fdd72d_p2" x="5699.75" y="13435.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eda6da5d-2159-4af2-acf8-1b3ce1088437"> <bbox w="10.0" h="10.0" x="16922.5" y="7302.3477"/> <port id="pr_eda6da5d-2159-4af2-acf8-1b3ce1088437_p1" x="16912.5" y="7307.3477"/> <port id="pr_eda6da5d-2159-4af2-acf8-1b3ce1088437_p2" x="16942.5" y="7307.3477"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_db16a891-287b-4970-8f7a-38616e1b39c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For inhibition of S-checkpoint by ATM:</p> <p>PMID:15175241, PMID:12086603</p> <p>For inhibition of S-checkpoint by HCLK2/FAAP24/ATR/FANKM complex:</p> <p>PMID:19282663, PMID:19622404, PMID:18995830</p> <p>For interaction between SNM1B and ATM to mediate S-phase checkpoint in response to ICL (intra-chromatide lesion):</p> <p>PMID:18469862</p> <p>Resected DNA is a triger for activating the S-phase checkpoint and moving from G1 to S to G2:</p> <p>PMID:20051983, PMID:16805667 </p> <p>For inhibition of S to G2 propagation and activation of S-phase checkpoint by complex PCNA:CtIP:</p> <p>PMID:19342888</p> <p>ATR kinase activation mediated by MutSalpha and MutLalpha in response to cytotoxic O6-methylguanine adducts. O6-methylguanine adducts recognized by MutSalpha, MutLalpha and BER pathways performs the repair. ATR/ATRIP S phase arrest is activated:</p> <p>PMID:16713580</p> <p>For role of TIM1*/TIPIN in S-phase checkpoint, stalled replication forks stabilisation and DNA repair during S-phase:</p> <p>PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221</p> <p>For inhibition of S-phase by ATR/ATRIP/CHEK1/CLSPN/HCLK2* complex:</p> <p>PMID:19793801, PMID:17384638</p> <p>For ATR/ATRIP/CHEK1/Tim* S-phase checkpoint</p> <p>PMID:15798197</p> <p>Formation of the complex for crosslink-activation of S phase checkpoint. FA core complex activates the reaction to stop S-phase propagaton:</p> <p>PMID:14988723, PMID:15136767</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db16a891-287b-4970-8f7a-38616e1b39c2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15175241"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12086603"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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</body> </html> </notes> <bbox w="10.0" h="10.0" x="5272.5015" y="18673.562"/> <port id="pr_c2dba62a-fa16-4725-9ae3-086787034c83_p1" x="5292.5015" y="18678.562"/> <port id="pr_c2dba62a-fa16-4725-9ae3-086787034c83_p2" x="5262.5015" y="18678.562"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d577de3-0b5e-4a63-9875-789f7086d8d6"> <bbox w="10.0" h="10.0" x="20855.0" y="455.0"/> <port id="pr_5d577de3-0b5e-4a63-9875-789f7086d8d6_p1" x="20860.0" y="445.0"/> <port id="pr_5d577de3-0b5e-4a63-9875-789f7086d8d6_p2" x="20860.0" y="475.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_05565681-7c24-480d-bb1e-2759660ab5aa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10197981</p> <p>PMID:12193595</p> <p>PMID:16156666</p> <p>Erk kinases phosphorylate Smad2 and Smad3 at specific sites in the region linking the DNA-binding domain and the transcriptional activation domain. </p> <p>These sites are separate from the TGFB receptor phosphorylation sites that activate Smad nuclear translocation.</p> <p>Feedback loop: TGFB activates Ras/Raf/Mek/Erk signaling (PMID:17673906) and Erk reduces TGFB/Smads transcriptional activity.</p> <p>PMID:15241418</p> <p>Feedback loop</p> <p>CDK phosphorylation of Smad3 on Thr8/Thr179/Ser213 inhibits its transcriptional activity and antiproliferative function. </p> <p>Because cancer cells often contain high levels of CDK activity, diminishing Smad3 activity by CDK phosphorylation may contribute to tumorigenesis and TGFB- resistance in</p> <p>cancers.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>9-1-1 complex stimulates NEIL1 glycosylase and BER PMID:17395641</p> <p>BER</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26e9fe8d-ccbd-4ca4-ac89-f9623eeae451"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17395641"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9718.848" y="15792.866"/> <port id="pr_26e9fe8d-ccbd-4ca4-ac89-f9623eeae451_p1" x="9738.848" y="15797.866"/> <port id="pr_26e9fe8d-ccbd-4ca4-ac89-f9623eeae451_p2" x="9708.848" y="15797.866"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_be3bacfd-1d51-4abb-94f7-4a72e7624b6c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3638.5" y="17232.262"/> <port id="pr_be3bacfd-1d51-4abb-94f7-4a72e7624b6c_p1" x="3628.5" y="17237.262"/> <port id="pr_be3bacfd-1d51-4abb-94f7-4a72e7624b6c_p2" x="3658.5" y="17237.262"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a8af7ffd-d8d2-4f73-ac16-082ef6cc6809"> <bbox w="10.0" h="10.0" x="12267.505" y="20558.125"/> <port id="pr_a8af7ffd-d8d2-4f73-ac16-082ef6cc6809_p1" x="12272.505" y="20548.125"/> <port id="pr_a8af7ffd-d8d2-4f73-ac16-082ef6cc6809_p2" x="12272.505" y="20578.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c512bee-81a5-4f06-88e9-056ed59e5d3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1207.5" y="15404.018"/> <port id="pr_7c512bee-81a5-4f06-88e9-056ed59e5d3a_p1" x="1227.5" y="15409.018"/> <port id="pr_7c512bee-81a5-4f06-88e9-056ed59e5d3a_p2" x="1197.5" y="15409.018"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a002824-6065-4c18-b6d0-4a45b1309411"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1 and the consequently liberalised ASK1 binds to TRAF2. Finally TRAF2 appears to activate ASK1 (by phosphorylation) by enhancing and stabilising the oligomerisation of ASK1.</p> <p>PMID:12655147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9a002824-6065-4c18-b6d0-4a45b1309411"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12655147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11410.413" y="19421.5"/> <port id="pr_9a002824-6065-4c18-b6d0-4a45b1309411_p1" x="11415.413" y="19411.5"/> <port id="pr_9a002824-6065-4c18-b6d0-4a45b1309411_p2" x="11415.413" y="19441.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e5e0d69-33cb-48ea-b01f-b1f290ad3fd9"> <bbox w="10.0" h="10.0" x="2282.5" y="3463.5"/> <port id="pr_2e5e0d69-33cb-48ea-b01f-b1f290ad3fd9_p1" x="2302.5" y="3468.5"/> <port id="pr_2e5e0d69-33cb-48ea-b01f-b1f290ad3fd9_p2" x="2272.5" y="3468.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_0762df37-ce8d-4212-98a0-4979bb4e0e85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13136.897" y="14589.4"/> <port id="pr_0762df37-ce8d-4212-98a0-4979bb4e0e85_p1" x="13126.897" y="14594.4"/> <port id="pr_0762df37-ce8d-4212-98a0-4979bb4e0e85_p2" x="13156.897" y="14594.4"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_d6c7623c-b394-4dbc-9949-aa41658d76ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12482958</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d6c7623c-b394-4dbc-9949-aa41658d76ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12482958"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27326.06" y="12222.0"/> <port id="pr_d6c7623c-b394-4dbc-9949-aa41658d76ae_p1" x="27331.06" y="12212.0"/> <port id="pr_d6c7623c-b394-4dbc-9949-aa41658d76ae_p2" x="27331.06" y="12242.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e3720b38-a9f0-4651-9100-804f9ab89541"> <bbox w="10.0" h="10.0" x="27676.326" y="16100.0"/> <port id="pr_e3720b38-a9f0-4651-9100-804f9ab89541_p1" x="27681.326" y="16120.0"/> <port id="pr_e3720b38-a9f0-4651-9100-804f9ab89541_p2" x="27681.326" y="16090.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dd07857e-b00e-4660-88b3-53525bf18c2f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19418635</p> <p>GJD2 is widely expressed in neurons and was previously shown to interact with the PDZ domain-containing protein ZO-1.</p> <p>Direct association of connexin36 (GJD2) with ZO-2 and ZO-3 was also demonstrated.</p> <p>PMID:15558297</p> <p>Association of connexin36 with ZO-1 in HeLa cells, betaTC-3 cells, pancreas, and adrenal gland.</p> <p>The functional significance of Cx36/ZO-1 interaction remains to be established</p> <p>Interestingly, ZO-1 was not associated with Cx36 intracellularly, suggesting that functions of its interaction with at least Cx36 may be restricted to intact gap junctions at plasma membranes.</p> <p>PMID:16650609</p> <p>Association of connexin36 and ZO-1 with ZO-2 and the transcription factor ZO-1-associated nucleic acid-binding protein at neuronal gap junctions in rodent retina.</p> <p>PMID:17681699</p> <p>In the outer plexiform layer of mouse retina, ZO-1 interacts with connexin36 but not with Cx57, and there is an absence of connexin57/connexin36 heterotypic gap junctional coupling in mouse retina</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dd07857e-b00e-4660-88b3-53525bf18c2f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19418635"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15558297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16650609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17681699"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1835.7157" y="18005.0"/> <port id="pr_dd07857e-b00e-4660-88b3-53525bf18c2f_p1" x="1840.7157" y="17995.0"/> <port id="pr_dd07857e-b00e-4660-88b3-53525bf18c2f_p2" x="1840.7157" y="18025.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5beb0a7e-1fa8-4db0-95f3-562c6b38536d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7500007</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5beb0a7e-1fa8-4db0-95f3-562c6b38536d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7500007"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18406.56" y="16044.0"/> <port id="pr_5beb0a7e-1fa8-4db0-95f3-562c6b38536d_p1" x="18411.56" y="16064.0"/> <port id="pr_5beb0a7e-1fa8-4db0-95f3-562c6b38536d_p2" x="18411.56" y="16034.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8526b4cf-dc7b-4d11-8588-3042e6fe6f85"> <bbox w="10.0" h="10.0" x="22106.56" y="10721.0"/> <port id="pr_8526b4cf-dc7b-4d11-8588-3042e6fe6f85_p1" x="22096.56" y="10726.0"/> <port id="pr_8526b4cf-dc7b-4d11-8588-3042e6fe6f85_p2" x="22126.56" y="10726.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_05a4d178-0478-4f34-bd6c-12f3023ab72d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23073834</p> <p>PGAM5L/PGAM5S activate the mitochondrial fission regulator Drp1 by dephosphorylation, thus leading to mitochondrial fission.</p> <p>PMID:22265414</p> <p>PGAM5S recruited the mitochondrial fission factor Drp1 and activated its GTPase activity by dephosphorylating the serine 637 site of Drp1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_05a4d178-0478-4f34-bd6c-12f3023ab72d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22265414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27689.84" y="12500.625"/> <port id="pr_05a4d178-0478-4f34-bd6c-12f3023ab72d_p1" x="27694.84" y="12490.625"/> <port id="pr_05a4d178-0478-4f34-bd6c-12f3023ab72d_p2" x="27694.84" y="12520.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_27128147-0a24-46e3-a5b6-88a910eb23e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4386.3916" y="17690.0"/> <port id="pr_27128147-0a24-46e3-a5b6-88a910eb23e9_p1" x="4391.3916" y="17680.0"/> <port id="pr_27128147-0a24-46e3-a5b6-88a910eb23e9_p2" x="4391.3916" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6261830a-3e28-4f50-92a8-6b137d022764"> <bbox w="10.0" h="10.0" x="4089.06" y="22484.0"/> <port id="pr_6261830a-3e28-4f50-92a8-6b137d022764_p1" x="4094.06" y="22474.0"/> <port id="pr_6261830a-3e28-4f50-92a8-6b137d022764_p2" x="4094.06" y="22504.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9472c133-2453-4652-80f4-49626364acd1"> <bbox w="10.0" h="10.0" x="14617.57" y="5467.4375"/> <port id="pr_9472c133-2453-4652-80f4-49626364acd1_p1" x="14622.57" y="5457.4375"/> <port id="pr_9472c133-2453-4652-80f4-49626364acd1_p2" x="14622.57" y="5487.4375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5ace271d-0b18-4bca-b067-c01545e7ca8c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Repression of p15INK4b expression by Myc through association with Miz-1:</p> <p>PMID:9308237, PMID:11283613</p> <p>Repression of pINK expression by BMI1:</p> <p>PMID:17936558</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ace271d-0b18-4bca-b067-c01545e7ca8c"> 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id="pr_e4841c31-3aa5-429b-835c-5a6667aa8e43"> <bbox w="10.0" h="10.0" x="6135.0" y="3876.25"/> <port id="pr_e4841c31-3aa5-429b-835c-5a6667aa8e43_p1" x="6140.0" y="3866.25"/> <port id="pr_e4841c31-3aa5-429b-835c-5a6667aa8e43_p2" x="6140.0" y="3896.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_33422509-9186-4e07-be0e-6bc169ab6c23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10593980</p> <p>PMID:12123611</p> <p>Phosphorylation of CTNNB1 at Y654 by SRC prevents the interaction between Cadherin and CTNNB1.</p> <p>This phosphorylation therefore reduces adhesive function.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_33422509-9186-4e07-be0e-6bc169ab6c23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10593980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12123611"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1472.25" y="16354.25"/> <port id="pr_33422509-9186-4e07-be0e-6bc169ab6c23_p1" x="1492.25" y="16359.25"/> <port id="pr_33422509-9186-4e07-be0e-6bc169ab6c23_p2" x="1462.25" y="16359.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_8e80bdb9-d09b-4985-9439-449452dd0605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20143239 PMID:16413481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e80bdb9-d09b-4985-9439-449452dd0605"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20143239"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16413481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21149.0"/> <port id="pr_8e80bdb9-d09b-4985-9439-449452dd0605_p1" x="26547.56" y="21154.0"/> <port id="pr_8e80bdb9-d09b-4985-9439-449452dd0605_p2" x="26577.56" y="21154.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_001e107a-6e3e-473c-9053-a93a3c78dd7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17910481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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id="pr_4bbac2a4-03ea-4b21-a64b-cd13367e6dd2_p2" x="2131.7344" y="16249.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d861941b-8b00-4a27-8274-ff99f3fb9f81"> <bbox w="10.0" h="10.0" x="12853.973" y="9043.856"/> <port id="pr_d861941b-8b00-4a27-8274-ff99f3fb9f81_p1" x="12843.973" y="9048.856"/> <port id="pr_d861941b-8b00-4a27-8274-ff99f3fb9f81_p2" x="12873.973" y="9048.856"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7e6aef5b-e83d-416f-9429-6c1d5c66c267"> <bbox w="10.0" h="10.0" x="20664.375" y="5437.5"/> <port id="pr_7e6aef5b-e83d-416f-9429-6c1d5c66c267_p1" x="20669.375" y="5427.5"/> <port id="pr_7e6aef5b-e83d-416f-9429-6c1d5c66c267_p2" x="20669.375" y="5457.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ad385a3-cd39-4ceb-bfda-afe4c84e6efd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ad385a3-cd39-4ceb-bfda-afe4c84e6efd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5647.068" y="15479.0"/> <port id="pr_2ad385a3-cd39-4ceb-bfda-afe4c84e6efd_p1" x="5652.068" y="15499.0"/> <port id="pr_2ad385a3-cd39-4ceb-bfda-afe4c84e6efd_p2" x="5652.068" y="15469.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_faa8c38c-3a1f-4f2d-8fb7-f2bf341ccac2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1401.75" y="18429.457"/> <port id="pr_faa8c38c-3a1f-4f2d-8fb7-f2bf341ccac2_p1" x="1421.75" y="18434.457"/> <port id="pr_faa8c38c-3a1f-4f2d-8fb7-f2bf341ccac2_p2" x="1391.75" y="18434.457"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c315b524-6d9f-4915-b61d-01acb1b25f46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10653665</p> <p>in vitro, S454 phosphorylation of ACLY increases its activity</p> <p>PMID:12107176</p> <p>in primary rat adipocytes, Akt mediated ACLY S454 phosphorylation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c315b524-6d9f-4915-b61d-01acb1b25f46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10653665"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12107176"/> 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is a GEF for Rac1.</p> <p>RalBP1 (which is an effector for RalA and RalB) inactivates Rac1</p> <p>PMID:12447393</p> <p>PMID:20841469</p> <p>Nm23-H1 has been shown to decrease cellular levels of active Rac1 in vivo by sequestering the Rac1 guanine nucleotide-exchange factor Tiam1</p> <p>This effect of Nm23-H1 on activation of Rac1 seems to be independent of its effect on dynamin-dependent fission and does not require kinase activity</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15496594</p> <p>in QT6 quail fibroblast expressing ectopic human ALAS1, default in ALAS1 mitochondrial targeting, which is reversed by mutations in the heme recognition motif</p> <p>PMID:15482256</p> <p>in Hepa mouse hepatoma cells expressing ectopic human ALAS1, default in ALAS1 mitochondrial targeting, which is reversed by mutations in the heme recognition motif</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1257.25" y="16113.5"/> <port id="pr_3f119b39-009e-4f64-96fc-2d978d78eaa5_p1" x="1262.25" y="16103.5"/> <port id="pr_3f119b39-009e-4f64-96fc-2d978d78eaa5_p2" x="1262.25" y="16133.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_941bee8f-a418-4633-a525-338a32205517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5499.0" y="16742.139"/> <port id="pr_941bee8f-a418-4633-a525-338a32205517_p1" x="5519.0" y="16747.139"/> <port id="pr_941bee8f-a418-4633-a525-338a32205517_p2" x="5489.0" y="16747.139"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b04d04d-ac45-4892-a27b-85f59b89215f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes cytoskeleton remodeling by binding to CDC42EPs (CDC42EP2 and CDC42EP3)</p> <p>PMID:10490598</p> <p>PMID:11035016</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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class="process" orientation="vertical" id="pr_5027ac79-255e-4fd1-a30a-b1216313e872"> <bbox w="10.0" h="10.0" x="10795.0" y="4686.25"/> <port id="pr_5027ac79-255e-4fd1-a30a-b1216313e872_p1" x="10800.0" y="4676.25"/> <port id="pr_5027ac79-255e-4fd1-a30a-b1216313e872_p2" x="10800.0" y="4706.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e594a817-1cab-4509-85f6-f9ae62d9f2ee"> <bbox w="10.0" h="10.0" x="23801.06" y="9140.35"/> <port id="pr_e594a817-1cab-4509-85f6-f9ae62d9f2ee_p1" x="23791.06" y="9145.35"/> <port id="pr_e594a817-1cab-4509-85f6-f9ae62d9f2ee_p2" x="23821.06" y="9145.35"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b490b507-1f68-42dd-9670-53934bf34c3b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2852.0" y="13621.472"/> <port id="pr_b490b507-1f68-42dd-9670-53934bf34c3b_p1" x="2872.0" y="13626.472"/> <port id="pr_b490b507-1f68-42dd-9670-53934bf34c3b_p2" x="2842.0" y="13626.472"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_cacf339f-0e26-41a1-a72d-4eb2888dae30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5051.917" y="13728.5"/> <port id="pr_cacf339f-0e26-41a1-a72d-4eb2888dae30_p1" x="5056.917" y="13718.5"/> <port id="pr_cacf339f-0e26-41a1-a72d-4eb2888dae30_p2" x="5056.917" y="13748.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61d3e714-8e99-4b9c-ae27-8ce2b63fa207"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20667822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_61d3e714-8e99-4b9c-ae27-8ce2b63fa207"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20667822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18055.31" y="10218.75"/> <port id="pr_61d3e714-8e99-4b9c-ae27-8ce2b63fa207_p1" x="18060.31" y="10238.75"/> <port id="pr_61d3e714-8e99-4b9c-ae27-8ce2b63fa207_p2" x="18060.31" y="10208.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_463fda31-8ecb-49c0-b83d-93396298fe1c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Integrin alphaIII beta1 can activate Src</p> <p>PMID:22203675</p> <p>Other integrin family member activates as well Src</p> <p>PMID:19734908</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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w="10.0" h="10.0" x="15265.106" y="16033.6"/> <port id="pr_90961502-d1b5-4408-a4d4-07602c7796b3_p1" x="15285.106" y="16038.6"/> <port id="pr_90961502-d1b5-4408-a4d4-07602c7796b3_p2" x="15255.106" y="16038.6"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5553c81a-a3ea-4c42-b4df-8fb5d84c5122"> <bbox w="10.0" h="10.0" x="14575.0" y="2508.75"/> <port id="pr_5553c81a-a3ea-4c42-b4df-8fb5d84c5122_p1" x="14580.0" y="2528.75"/> <port id="pr_5553c81a-a3ea-4c42-b4df-8fb5d84c5122_p2" x="14580.0" y="2498.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_173c947a-0154-4fad-aaa3-7f93ab243fb8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12660240</p> <p>in Hela, upon taxol treatment, interaction detected by GST pull-down, BIRC5 antagonizes DIABLO pro-apoptotic effect</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_f43253d3-e5ab-43a8-9b0a-839d2d03292b"> <bbox w="10.0" h="10.0" x="23484.31" y="9491.375"/> <port id="pr_f43253d3-e5ab-43a8-9b0a-839d2d03292b_p1" x="23489.31" y="9481.375"/> <port id="pr_f43253d3-e5ab-43a8-9b0a-839d2d03292b_p2" x="23489.31" y="9511.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9526ed8d-7523-473b-87cf-587db6d4c9fd"> <bbox w="10.0" h="10.0" x="5655.0" y="4356.25"/> <port id="pr_9526ed8d-7523-473b-87cf-587db6d4c9fd_p1" x="5660.0" y="4346.25"/> <port id="pr_9526ed8d-7523-473b-87cf-587db6d4c9fd_p2" x="5660.0" y="4376.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e7b95c11-de6e-494e-8111-011046cb7bf9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11955432, PMID:19772495</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e7b95c11-de6e-494e-8111-011046cb7bf9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19772495"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13143.172" y="16423.725"/> <port id="pr_e7b95c11-de6e-494e-8111-011046cb7bf9_p1" x="13163.172" y="16428.725"/> <port id="pr_e7b95c11-de6e-494e-8111-011046cb7bf9_p2" x="13133.172" y="16428.725"/> 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rdf:resource="urn:miriam:pubmed:19720745"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12543.061" y="17960.875"/> <port id="pr_a3c2469a-a86c-4eac-8ffb-d1422009aa4b_p1" x="12563.061" y="17965.875"/> <port id="pr_a3c2469a-a86c-4eac-8ffb-d1422009aa4b_p2" x="12533.061" y="17965.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d7090569-cbd0-4a8b-850c-e0e6a12831ba"> <bbox w="10.0" h="10.0" x="4713.125" y="4510.0"/> <port id="pr_d7090569-cbd0-4a8b-850c-e0e6a12831ba_p1" x="4718.125" y="4500.0"/> <port id="pr_d7090569-cbd0-4a8b-850c-e0e6a12831ba_p2" x="4718.125" y="4530.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cfadb642-b957-41cd-b676-8969bb67928a"> <bbox w="10.0" h="10.0" x="20691.25" y="5351.25"/> <port id="pr_cfadb642-b957-41cd-b676-8969bb67928a_p1" x="20696.25" y="5341.25"/> <port id="pr_cfadb642-b957-41cd-b676-8969bb67928a_p2" x="20696.25" y="5371.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_49d6f626-0c9c-42dc-b3aa-9a5e4bcee676"> <bbox w="10.0" h="10.0" x="21947.238" y="14386.465"/> <port id="pr_49d6f626-0c9c-42dc-b3aa-9a5e4bcee676_p1" x="21967.238" y="14391.465"/> <port id="pr_49d6f626-0c9c-42dc-b3aa-9a5e4bcee676_p2" x="21937.238" y="14391.465"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f944abc2-66d9-44a3-b296-d3e76c31d831"> <bbox w="10.0" h="10.0" x="27363.56" y="10214.0"/> <port id="pr_f944abc2-66d9-44a3-b296-d3e76c31d831_p1" x="27353.56" y="10219.0"/> <port id="pr_f944abc2-66d9-44a3-b296-d3e76c31d831_p2" x="27383.56" y="10219.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0373ea09-d5b9-4964-9d66-49c4e57d606e"> <bbox w="10.0" h="10.0" x="8977.947" y="2629.5"/> <port id="pr_0373ea09-d5b9-4964-9d66-49c4e57d606e_p1" x="8982.947" y="2619.5"/> <port id="pr_0373ea09-d5b9-4964-9d66-49c4e57d606e_p2" x="8982.947" y="2649.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8f59d49-b225-4d47-837c-8a5eafee7cd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3548.8093" y="14540.0"/> <port id="pr_d8f59d49-b225-4d47-837c-8a5eafee7cd7_p1" x="3553.8093" y="14530.0"/> <port id="pr_d8f59d49-b225-4d47-837c-8a5eafee7cd7_p2" x="3553.8093" y="14560.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6404ca24-be9d-4b5f-a71a-86ddd990905d"> <bbox w="10.0" h="10.0" x="18702.148" y="19482.5"/> <port id="pr_6404ca24-be9d-4b5f-a71a-86ddd990905d_p1" x="18707.148" y="19472.5"/> <port id="pr_6404ca24-be9d-4b5f-a71a-86ddd990905d_p2" x="18707.148" y="19502.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_771c4432-ed02-4365-915c-240b4b00d324"> <bbox w="10.0" h="10.0" x="28810.285" y="16005.25"/> <port id="pr_771c4432-ed02-4365-915c-240b4b00d324_p1" x="28815.285" y="16025.25"/> <port id="pr_771c4432-ed02-4365-915c-240b4b00d324_p2" x="28815.285" y="15995.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a977aaff-9d4e-4f07-a2f8-0fd16bbafe2b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Polymerised Dvl act as scaffold for recruiting axin.</p> <p>PMID:21078818</p> <p>GSK3 phosphorylates ROR2</p> <p>PMID:17986005</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a977aaff-9d4e-4f07-a2f8-0fd16bbafe2b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21078818"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17986005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15675.989" y="19953.453"/> <port id="pr_a977aaff-9d4e-4f07-a2f8-0fd16bbafe2b_p1" x="15695.989" y="19958.453"/> <port id="pr_a977aaff-9d4e-4f07-a2f8-0fd16bbafe2b_p2" x="15665.989" y="19958.453"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d3f7893c-792e-4d9c-aa7a-2d038e3139d1"> <bbox w="10.0" h="10.0" x="9562.561" y="18468.875"/> <port id="pr_d3f7893c-792e-4d9c-aa7a-2d038e3139d1_p1" x="9567.561" y="18458.875"/> <port id="pr_d3f7893c-792e-4d9c-aa7a-2d038e3139d1_p2" x="9567.561" y="18488.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3679cbeb-379e-40bd-9c51-ced9538bd3b3"> <bbox w="10.0" h="10.0" x="22432.527" y="14991.25"/> <port id="pr_3679cbeb-379e-40bd-9c51-ced9538bd3b3_p1" x="22422.527" y="14996.25"/> <port id="pr_3679cbeb-379e-40bd-9c51-ced9538bd3b3_p2" x="22452.527" y="14996.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f52b248e-6654-4eb4-806c-7466d6a5f21b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4277.75" y="16721.5"/> <port id="pr_f52b248e-6654-4eb4-806c-7466d6a5f21b_p1" x="4267.75" y="16726.5"/> <port id="pr_f52b248e-6654-4eb4-806c-7466d6a5f21b_p2" x="4297.75" y="16726.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_67e174ec-9440-4afe-807e-e9c964e0b81d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5188.5" y="16594.277"/> <port id="pr_67e174ec-9440-4afe-807e-e9c964e0b81d_p1" x="5178.5" y="16599.277"/> <port id="pr_67e174ec-9440-4afe-807e-e9c964e0b81d_p2" x="5208.5" y="16599.277"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ec711d8c-edb1-4aa9-8958-1ba9e82bffd4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18677096</p> <p>>From abstract (no acces to the article)</p> <p>interaction BIM (all 3 major isoforms) - MIF in vitro and in HEK293 and K562 immortalised human myelogenous leukaemia cell line (bcr:abl positive).</p> <p>MIF displays negative effect on BIM mediated apoptosis when over-expressed.</p> <p>MIF targeting siRNA in K562 increases diamide-induced apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ec711d8c-edb1-4aa9-8958-1ba9e82bffd4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18677096"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21937.246" y="11846.875"/> <port id="pr_ec711d8c-edb1-4aa9-8958-1ba9e82bffd4_p1" x="21942.246" y="11866.875"/> <port id="pr_ec711d8c-edb1-4aa9-8958-1ba9e82bffd4_p2" x="21942.246" y="11836.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b01a6c8c-64bd-4860-9630-db94fe7ebe9d"> <bbox w="10.0" h="10.0" x="6919.5" y="6816.877"/> <port id="pr_b01a6c8c-64bd-4860-9630-db94fe7ebe9d_p1" x="6939.5" y="6821.877"/> <port id="pr_b01a6c8c-64bd-4860-9630-db94fe7ebe9d_p2" x="6909.5" y="6821.877"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_732fe495-4354-4844-b583-606188392ba8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24403062</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_732fe495-4354-4844-b583-606188392ba8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4206.371" y="11615.143"/> <port id="pr_732fe495-4354-4844-b583-606188392ba8_p1" x="4196.371" y="11620.143"/> <port id="pr_732fe495-4354-4844-b583-606188392ba8_p2" x="4226.371" y="11620.143"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5b973bab-4617-451d-973d-84a60a4514f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>9-1-1 complex activates TDG glycosylase and activates BER:</p> <p>PMID:17855402</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b973bab-4617-451d-973d-84a60a4514f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17855402"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10614.223" y="15971.33"/> <port id="pr_5b973bab-4617-451d-973d-84a60a4514f0_p1" x="10634.223" y="15976.33"/> <port id="pr_5b973bab-4617-451d-973d-84a60a4514f0_p2" x="10604.223" y="15976.33"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eab4868f-9d72-438a-837d-3b421da08b92"> <bbox w="10.0" h="10.0" x="20810.0" y="7130.0"/> <port id="pr_eab4868f-9d72-438a-837d-3b421da08b92_p1" x="20800.0" y="7135.0"/> <port id="pr_eab4868f-9d72-438a-837d-3b421da08b92_p2" x="20830.0" y="7135.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6f72d0ea-9fc4-4528-abf0-f8cafe43d4be"> <bbox w="10.0" h="10.0" x="23461.06" y="22669.0"/> <port id="pr_6f72d0ea-9fc4-4528-abf0-f8cafe43d4be_p1" x="23451.06" y="22674.0"/> <port id="pr_6f72d0ea-9fc4-4528-abf0-f8cafe43d4be_p2" x="23481.06" y="22674.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c9d65209-f95c-487b-8ed6-5f7faecc58bf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14960582</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c9d65209-f95c-487b-8ed6-5f7faecc58bf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14960582"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21640.27" y="21623.5"/> <port id="pr_c9d65209-f95c-487b-8ed6-5f7faecc58bf_p1" x="21660.27" y="21628.5"/> <port id="pr_c9d65209-f95c-487b-8ed6-5f7faecc58bf_p2" x="21630.27" y="21628.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9afb17fd-b55e-4d22-89ff-3bdeeafb7cbb"> <bbox w="10.0" h="10.0" x="13335.0" y="4616.875"/> <port id="pr_9afb17fd-b55e-4d22-89ff-3bdeeafb7cbb_p1" x="13340.0" y="4606.875"/> <port id="pr_9afb17fd-b55e-4d22-89ff-3bdeeafb7cbb_p2" x="13340.0" y="4636.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_73573723-8ddc-4ee3-b92e-30326e12a79e"> <bbox w="10.0" h="10.0" x="15202.269" y="9631.336"/> <port id="pr_73573723-8ddc-4ee3-b92e-30326e12a79e_p1" x="15192.269" y="9636.336"/> <port id="pr_73573723-8ddc-4ee3-b92e-30326e12a79e_p2" x="15222.269" y="9636.336"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e4a1e181-d340-41b9-b930-791a1235e19f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEKK1 is significantly activated by TNF. Oligomerisation of TRAFs is sufficient to trigger MEKK1 binding. MEKK1 associates selectively with oligomerised TRAF2 in vivo in a TNF-dependent manner.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e4a1e181-d340-41b9-b930-791a1235e19f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10256.172" y="19564.312"/> <port id="pr_e4a1e181-d340-41b9-b930-791a1235e19f_p1" x="10261.172" y="19554.312"/> <port id="pr_e4a1e181-d340-41b9-b930-791a1235e19f_p2" x="10261.172" y="19584.312"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_84436438-1fd6-4745-8dd0-a25ac4d491c5"> <bbox w="10.0" h="10.0" x="21115.0" y="4467.1426"/> <port id="pr_84436438-1fd6-4745-8dd0-a25ac4d491c5_p1" x="21105.0" y="4472.1426"/> <port id="pr_84436438-1fd6-4745-8dd0-a25ac4d491c5_p2" x="21135.0" y="4472.1426"/> </glyph> <glyph class="process" orientation="vertical" id="pr_095ee6a6-cba4-425b-83db-4096a6192d57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>FGF stimulation leads to phosphorylation of Shp2 on a tyrosine residue that forms a complex with an additional molecule of Grb2. Grb2/Sos complexes are thus recruited directly and indirectly via Shp2 upon tyrosine phosphorylation of FRS2a in response to growth factor stimulation.</p> <p>FGF-induced tyrosine phosphorylation of FRS2 results in complex formation with the adaptor protein Grb2 bound to Cbl by means of its SH3 domains. FGF-induced ternary complex formation among FRS2 Grb2 and Cbl results in ubiquitination and degradation of FRS2 and FGF receptor (FGFR).</p> <p>Spry is induced by activated ERK through phosphorylation on Tyr55. It positively regulates EGFR signalling by sequestering Cbl whereas it negatively regulates FGFR signalling by sequestering Grb2 from FSR2.</p> <p>PMID:11447289 PMID:11997436 PMID:15173823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_095ee6a6-cba4-425b-83db-4096a6192d57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11447289"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11997436"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15173823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8398.061" y="18942.0"/> <port id="pr_095ee6a6-cba4-425b-83db-4096a6192d57_p1" x="8403.061" y="18962.0"/> <port id="pr_095ee6a6-cba4-425b-83db-4096a6192d57_p2" x="8403.061" y="18932.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1214991b-8162-4c64-b100-6bbd150a319c"> <bbox w="10.0" h="10.0" x="12659.779" y="811.25"/> <port id="pr_1214991b-8162-4c64-b100-6bbd150a319c_p1" x="12664.779" y="801.25"/> <port id="pr_1214991b-8162-4c64-b100-6bbd150a319c_p2" x="12664.779" y="831.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ce276b1-8add-4165-884e-35dfa57ceb24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19157.81" y="9777.655"/> <port id="pr_0ce276b1-8add-4165-884e-35dfa57ceb24_p1" x="19147.81" y="9782.655"/> <port id="pr_0ce276b1-8add-4165-884e-35dfa57ceb24_p2" x="19177.81" y="9782.655"/> </glyph> <glyph class="process" orientation="vertical" id="pr_98850d98-1ea6-4aa2-bdc2-26c034d0e6b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11452314</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_98850d98-1ea6-4aa2-bdc2-26c034d0e6b3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11452314"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22859.06" y="15286.5"/> <port id="pr_98850d98-1ea6-4aa2-bdc2-26c034d0e6b3_p1" x="22864.06" y="15276.5"/> <port id="pr_98850d98-1ea6-4aa2-bdc2-26c034d0e6b3_p2" x="22864.06" y="15306.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eda3c0e6-0369-4252-8292-2aac54dee2cb"> <bbox w="10.0" h="10.0" x="11927.436" y="1720.0"/> <port id="pr_eda3c0e6-0369-4252-8292-2aac54dee2cb_p1" x="11932.436" y="1740.0"/> <port id="pr_eda3c0e6-0369-4252-8292-2aac54dee2cb_p2" x="11932.436" y="1710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c0b5586-bb52-40f7-887e-31fe936d509f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:12740575, PMID:15972651</p> <p> In NK cells NKG2D signaling inducese PLCG2 phosphorylation and Ca2+ release.  The calcium signal generated by PLCG is required for NKG2D-initiated killing.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8c0b5586-bb52-40f7-887e-31fe936d509f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12740575"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15972651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27911.0" y="5015.0"/> <port id="pr_8c0b5586-bb52-40f7-887e-31fe936d509f_p1" x="27916.0" y="5005.0"/> <port id="pr_8c0b5586-bb52-40f7-887e-31fe936d509f_p2" x="27916.0" y="5035.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5f31d12e-0a14-4c45-9ea9-7c192c7f2a41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16252010</p> <p>NRIF undergoes K63 polyubiquitination, associates with TRAF6 and p62, and translocates to the nucleus</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f31d12e-0a14-4c45-9ea9-7c192c7f2a41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16252010"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21714.06" y="9534.0"/> <port id="pr_5f31d12e-0a14-4c45-9ea9-7c192c7f2a41_p1" x="21734.06" y="9539.0"/> <port id="pr_5f31d12e-0a14-4c45-9ea9-7c192c7f2a41_p2" x="21704.06" y="9539.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ad3c1691-272e-4bd0-87f6-4bc2f61e254f"> <bbox w="10.0" h="10.0" x="13296.0" y="1687.0"/> <port id="pr_ad3c1691-272e-4bd0-87f6-4bc2f61e254f_p1" x="13301.0" y="1707.0"/> <port id="pr_ad3c1691-272e-4bd0-87f6-4bc2f61e254f_p2" x="13301.0" y="1677.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2c17778f-b7a3-4a4d-a287-0116c1aaa3cc"> <bbox w="10.0" h="10.0" x="20597.604" y="5277.5"/> <port id="pr_2c17778f-b7a3-4a4d-a287-0116c1aaa3cc_p1" x="20602.604" y="5267.5"/> <port id="pr_2c17778f-b7a3-4a4d-a287-0116c1aaa3cc_p2" x="20602.604" y="5297.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_34284d8c-ab84-4272-8f38-ce2aa2cd857b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5327.875" y="18401.0"/> <port id="pr_34284d8c-ab84-4272-8f38-ce2aa2cd857b_p1" x="5332.875" y="18421.0"/> <port id="pr_34284d8c-ab84-4272-8f38-ce2aa2cd857b_p2" x="5332.875" y="18391.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6824c1f9-8333-4b07-bac8-0438dd7ba968"> <bbox w="10.0" h="10.0" x="3085.0" y="4675.0"/> <port id="pr_6824c1f9-8333-4b07-bac8-0438dd7ba968_p1" x="3090.0" y="4665.0"/> <port id="pr_6824c1f9-8333-4b07-bac8-0438dd7ba968_p2" x="3090.0" y="4695.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f55c270a-3ebb-443a-ad4b-abb0eb5ba189"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5683.75" y="17877.0"/> <port id="pr_f55c270a-3ebb-443a-ad4b-abb0eb5ba189_p1" x="5688.75" y="17867.0"/> <port id="pr_f55c270a-3ebb-443a-ad4b-abb0eb5ba189_p2" x="5688.75" y="17897.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_37315b49-ad1b-47b9-8c4d-37f06bce07b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TNF-induced ROS cause oxidation and inhibition of DUSP1 and DUSP5.</p> <p>PMID:15766528</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_37315b49-ad1b-47b9-8c4d-37f06bce07b1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15766528"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8388.596" y="20561.07"/> <port id="pr_37315b49-ad1b-47b9-8c4d-37f06bce07b1_p1" x="8393.596" y="20551.07"/> <port id="pr_37315b49-ad1b-47b9-8c4d-37f06bce07b1_p2" x="8393.596" y="20581.07"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2b68d859-9576-407e-82e9-0407862d5967"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:9865696</p> <p>Phosphorylation of Smad2 induces dissociation from SARA </p> <p>with concomitant formation of Smad2/ Smad4 complexes </p> <p>and nuclear translocation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10021362</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b5244821-9103-4dfa-b1ef-aef5141732f1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26803.209" y="21229.969"/> <port id="pr_b5244821-9103-4dfa-b1ef-aef5141732f1_p1" x="26793.209" y="21234.969"/> <port id="pr_b5244821-9103-4dfa-b1ef-aef5141732f1_p2" x="26823.209" y="21234.969"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e60ac57-a50b-4365-95fa-fa491e8e4547"> <bbox w="10.0" h="10.0" x="20926.344" y="4211.75"/> <port id="pr_3e60ac57-a50b-4365-95fa-fa491e8e4547_p1" x="20931.344" y="4201.75"/> <port id="pr_3e60ac57-a50b-4365-95fa-fa491e8e4547_p2" x="20931.344" y="4231.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aec9d817-2c56-49a9-b210-4b0359809296"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aec9d817-2c56-49a9-b210-4b0359809296"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5079.0" y="10309.918"/> <port id="pr_aec9d817-2c56-49a9-b210-4b0359809296_p1" x="5069.0" y="10314.918"/> <port id="pr_aec9d817-2c56-49a9-b210-4b0359809296_p2" x="5099.0" y="10314.918"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d532ed8-95e3-4f46-8937-6def8a82043b"> <bbox w="10.0" h="10.0" x="28579.75" y="7548.75"/> <port id="pr_3d532ed8-95e3-4f46-8937-6def8a82043b_p1" x="28584.75" y="7538.75"/> <port id="pr_3d532ed8-95e3-4f46-8937-6def8a82043b_p2" x="28584.75" y="7568.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_67cfbf29-b737-4d40-a54a-e5c96a549d9e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12792650</p> <p>Direct phosphorylation of CASP9 by ERK2 sufficient to block CASP9 processing</p> <p>in vitro, recombinant hCASP9 phosphorylated on T125 by cytosolic extract or ERK2</p> <p>in Hela cells, interaction GST-CASP9 / ERK</p> <p>in Hela or HEK293, CASP9 T125 phosphorylation by OA, consititutively active MEK1, EGF or TPA</p> <p>PMID:17466630</p> <p>CASP9 T125 phosphorylation by CCNB1:CDC2</p> <p>comment: phosphorylation during mitosis, when nuclear envelope is broken down</p> <p>PMID:19081073</p> <p>CASP9 T125 phosphorylation by DYRK1A</p> <p>PMID:19016842</p> <p>PMID:19586613</p> <p>CASP9 T125 phosphorylation by DYRK1A and p38</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_67cfbf29-b737-4d40-a54a-e5c96a549d9e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12792650"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17466630"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19081073"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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id="pr_8743b589-6d0b-47be-9583-7a28729e9a55_p1" x="880.0" y="3206.0"/> <port id="pr_8743b589-6d0b-47be-9583-7a28729e9a55_p2" x="880.0" y="3236.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0583867a-4a49-4f2b-b713-2bcec4d00727"> <bbox w="10.0" h="10.0" x="12988.529" y="1550.75"/> <port id="pr_0583867a-4a49-4f2b-b713-2bcec4d00727_p1" x="12993.529" y="1540.75"/> <port id="pr_0583867a-4a49-4f2b-b713-2bcec4d00727_p2" x="12993.529" y="1570.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bf88bf30-8532-4441-bbc9-eb5ee7d8b8d2"> <bbox w="10.0" h="10.0" x="11825.625" y="4714.0"/> <port id="pr_bf88bf30-8532-4441-bbc9-eb5ee7d8b8d2_p1" x="11830.625" y="4704.0"/> <port id="pr_bf88bf30-8532-4441-bbc9-eb5ee7d8b8d2_p2" x="11830.625" y="4734.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_efabb010-3c99-4d77-b3a1-7522de61a0d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8242752</p> <p>by TP53</p> <p>PMID:12676992</p> <p>in MEF by CTBP1 and CTBP2 (RT-PCR, double knocked out)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_efabb010-3c99-4d77-b3a1-7522de61a0d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8242752"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12676992"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_a33ba600-62de-4bfb-94bc-a0129b3278e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6515.0503" y="13535.0"/> <port id="pr_a33ba600-62de-4bfb-94bc-a0129b3278e2_p1" x="6505.0503" y="13540.0"/> <port id="pr_a33ba600-62de-4bfb-94bc-a0129b3278e2_p2" x="6535.0503" y="13540.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_438c31ed-aafb-4b55-b946-e289f74bee5a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22825514</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_438c31ed-aafb-4b55-b946-e289f74bee5a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22825514"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6340.5" y="9296.594"/> <port id="pr_438c31ed-aafb-4b55-b946-e289f74bee5a_p1" x="6345.5" y="9286.594"/> <port id="pr_438c31ed-aafb-4b55-b946-e289f74bee5a_p2" x="6345.5" y="9316.594"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6265ab51-5d1b-44cc-a5c8-173338f7ca02"> <bbox w="10.0" h="10.0" x="4704.0" y="6810.0"/> <port id="pr_6265ab51-5d1b-44cc-a5c8-173338f7ca02_p1" x="4724.0" y="6815.0"/> <port id="pr_6265ab51-5d1b-44cc-a5c8-173338f7ca02_p2" x="4694.0" y="6815.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2bdb355c-ef07-4c15-92fc-1856c612cf0c"> <bbox w="10.0" h="10.0" x="26408.59" y="15916.5"/> <port id="pr_2bdb355c-ef07-4c15-92fc-1856c612cf0c_p1" x="26413.59" y="15936.5"/> <port id="pr_2bdb355c-ef07-4c15-92fc-1856c612cf0c_p2" x="26413.59" y="15906.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3c5a14ac-3841-4c0d-812c-09e86bcce4fd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20818436</p> <p>PMID:17115028</p> <p>PMID:17312394</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3c5a14ac-3841-4c0d-812c-09e86bcce4fd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20818436"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17115028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17312394"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26783.31" y="19891.0"/> <port id="pr_3c5a14ac-3841-4c0d-812c-09e86bcce4fd_p1" x="26773.31" y="19896.0"/> <port id="pr_3c5a14ac-3841-4c0d-812c-09e86bcce4fd_p2" x="26803.31" y="19896.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7fa7281d-3443-4164-85fd-7e71e0a894f1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16713974</p> <p>TLR2 activates (induces phosphorylation of) ERKs, JNKs, and p38 rapidly and transiently in control macrophages.</p> <p>This activation is inhibited by IFNG signaling.</p> <p>PMID:11438547, PMID:24378531</p> <p>Both TNFR1 and TNFR2 signaling pathways induce JNK activation and downstrean c-jun phosphorylation.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7fa7281d-3443-4164-85fd-7e71e0a894f1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11438547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5120.0" y="3270.5"/> <port id="pr_7fa7281d-3443-4164-85fd-7e71e0a894f1_p1" x="5125.0" y="3260.5"/> <port id="pr_7fa7281d-3443-4164-85fd-7e71e0a894f1_p2" x="5125.0" y="3290.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7e71b317-6864-456b-b8a8-a8d2d25b56d5"> <bbox w="10.0" h="10.0" x="11715.75" y="4085.0"/> <port id="pr_7e71b317-6864-456b-b8a8-a8d2d25b56d5_p1" x="11705.75" y="4090.0"/> <port id="pr_7e71b317-6864-456b-b8a8-a8d2d25b56d5_p2" x="11735.75" y="4090.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dee5a06b-9908-4ea2-bf1e-3c2c88740e54"> <bbox w="10.0" h="10.0" x="11845.209" y="4454.125"/> <port id="pr_dee5a06b-9908-4ea2-bf1e-3c2c88740e54_p1" x="11850.209" y="4444.125"/> <port id="pr_dee5a06b-9908-4ea2-bf1e-3c2c88740e54_p2" x="11850.209" y="4474.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_897fa304-ddb1-4d44-b999-260b473ebb08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:19171757</p> <p>in C10 murine alveolar type II epithelial cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_897fa304-ddb1-4d44-b999-260b473ebb08"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171757"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27899.56" y="12450.5"/> <port id="pr_897fa304-ddb1-4d44-b999-260b473ebb08_p1" x="27889.56" y="12455.5"/> <port id="pr_897fa304-ddb1-4d44-b999-260b473ebb08_p2" x="27919.56" y="12455.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50c55930-0881-41f8-a241-42622d001ecf"> <bbox w="10.0" h="10.0" x="13703.176" y="1916.25"/> <port id="pr_50c55930-0881-41f8-a241-42622d001ecf_p1" x="13708.176" y="1906.25"/> <port id="pr_50c55930-0881-41f8-a241-42622d001ecf_p2" x="13708.176" y="1936.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d5464dfd-90a8-4c2b-98ee-b25f9d859a00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10454566</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d5464dfd-90a8-4c2b-98ee-b25f9d859a00"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10454566"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13939.061" y="21940.0"/> <port id="pr_d5464dfd-90a8-4c2b-98ee-b25f9d859a00_p1" x="13929.061" y="21945.0"/> <port id="pr_d5464dfd-90a8-4c2b-98ee-b25f9d859a00_p2" x="13959.061" y="21945.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8e4d811-60b2-4d15-b81b-2d45dcfd295b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>De-ubiquitination of PCNA serves a negative loop for inactivation of TLS </p> <p>PMID:16531995</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f8e4d811-60b2-4d15-b81b-2d45dcfd295b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16531995"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16272.418" y="16021.422"/> <port id="pr_f8e4d811-60b2-4d15-b81b-2d45dcfd295b_p1" x="16292.418" y="16026.422"/> <port id="pr_f8e4d811-60b2-4d15-b81b-2d45dcfd295b_p2" x="16262.418" y="16026.422"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6795d91d-da2e-4a27-8e2b-b3d5feacfe56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3789.6685" y="14707.25"/> <port id="pr_6795d91d-da2e-4a27-8e2b-b3d5feacfe56_p1" x="3794.6685" y="14727.25"/> <port id="pr_6795d91d-da2e-4a27-8e2b-b3d5feacfe56_p2" x="3794.6685" y="14697.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d37bbade-ae93-4fe6-808b-57eac48bb7c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>deoxyribose 5'-phosphatase activity of PolB</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="9152.643" y="16010.119"/> <port id="pr_d37bbade-ae93-4fe6-808b-57eac48bb7c2_p1" x="9157.643" y="16000.119"/> <port id="pr_d37bbade-ae93-4fe6-808b-57eac48bb7c2_p2" x="9157.643" y="16030.119"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2cd2373a-e235-490f-a136-b88922f4768d"> <bbox w="10.0" h="10.0" x="947.8379" y="3926.75"/> <port id="pr_2cd2373a-e235-490f-a136-b88922f4768d_p1" x="952.8379" y="3916.75"/> <port id="pr_2cd2373a-e235-490f-a136-b88922f4768d_p2" x="952.8379" y="3946.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b3c0358b-6391-41bf-86a5-417d725de430"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Upon Ca2+ activation the NRON-NFAT complex dissociates.</p> <p>PMID:21709260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b3c0358b-6391-41bf-86a5-417d725de430"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19081.186" y="18156.785"/> <port id="pr_b3c0358b-6391-41bf-86a5-417d725de430_p1" x="19101.186" y="18161.785"/> <port id="pr_b3c0358b-6391-41bf-86a5-417d725de430_p2" x="19071.186" y="18161.785"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f9ca539-94d4-427f-8030-35e67084dcf7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15367661</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f9ca539-94d4-427f-8030-35e67084dcf7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15367661"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22100.56" y="21475.469"/> <port id="pr_8f9ca539-94d4-427f-8030-35e67084dcf7_p1" x="22090.56" y="21480.469"/> <port id="pr_8f9ca539-94d4-427f-8030-35e67084dcf7_p2" x="22120.56" y="21480.469"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c2ba79bf-e67e-4612-b6c4-57cc7e0f025e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19736394</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c2ba79bf-e67e-4612-b6c4-57cc7e0f025e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19736394"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21446.0"/> <port id="pr_c2ba79bf-e67e-4612-b6c4-57cc7e0f025e_p1" x="26547.56" y="21451.0"/> <port id="pr_c2ba79bf-e67e-4612-b6c4-57cc7e0f025e_p2" x="26577.56" y="21451.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4f014d04-aa93-403c-ba09-8d4036b5948a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27166.31" y="19766.914"/> <port id="pr_4f014d04-aa93-403c-ba09-8d4036b5948a_p1" x="27186.31" y="19771.914"/> <port id="pr_4f014d04-aa93-403c-ba09-8d4036b5948a_p2" x="27156.31" y="19771.914"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_93f10764-697c-4d01-b3aa-5baf67df22d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11756412</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_93f10764-697c-4d01-b3aa-5baf67df22d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756412"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12840.811" y="19872.0"/> <port id="pr_93f10764-697c-4d01-b3aa-5baf67df22d4_p1" x="12830.811" y="19877.0"/> <port id="pr_93f10764-697c-4d01-b3aa-5baf67df22d4_p2" x="12860.811" y="19877.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_72ea9bae-8502-41fa-8681-6e4bfecb717a"> <bbox w="10.0" h="10.0" x="29041.0" y="3515.0"/> <port id="pr_72ea9bae-8502-41fa-8681-6e4bfecb717a_p1" x="29046.0" y="3505.0"/> <port id="pr_72ea9bae-8502-41fa-8681-6e4bfecb717a_p2" x="29046.0" y="3535.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_91d4e4fe-0f54-4982-80e2-f800d1a771ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_91d4e4fe-0f54-4982-80e2-f800d1a771ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12064.311" y="21796.0"/> <port id="pr_91d4e4fe-0f54-4982-80e2-f800d1a771ae_p1" x="12069.311" y="21786.0"/> <port id="pr_91d4e4fe-0f54-4982-80e2-f800d1a771ae_p2" x="12069.311" y="21816.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f2d52a7c-b4e6-45b3-a23b-fee259f7568e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3542.5962" y="17479.4"/> <port id="pr_f2d52a7c-b4e6-45b3-a23b-fee259f7568e_p1" x="3562.5962" y="17484.4"/> <port id="pr_f2d52a7c-b4e6-45b3-a23b-fee259f7568e_p2" x="3532.5962" y="17484.4"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb73da8b-2698-4b8c-99e2-bfa18d4f2f5b"> <bbox w="10.0" h="10.0" x="23548.75" y="13600.875"/> <port id="pr_eb73da8b-2698-4b8c-99e2-bfa18d4f2f5b_p1" x="23538.75" y="13605.875"/> <port id="pr_eb73da8b-2698-4b8c-99e2-bfa18d4f2f5b_p2" x="23568.75" y="13605.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50f1b467-72ec-42fc-befc-45f827f10b6f"> <bbox w="10.0" h="10.0" x="19364.31" y="16649.0"/> <port id="pr_50f1b467-72ec-42fc-befc-45f827f10b6f_p1" x="19369.31" y="16639.0"/> <port id="pr_50f1b467-72ec-42fc-befc-45f827f10b6f_p2" x="19369.31" y="16669.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5927eaef-9f45-4dd8-a665-21b83126bd73"> <bbox w="10.0" h="10.0" x="23692.06" y="22661.0"/> <port id="pr_5927eaef-9f45-4dd8-a665-21b83126bd73_p1" x="23682.06" y="22666.0"/> <port id="pr_5927eaef-9f45-4dd8-a665-21b83126bd73_p2" x="23712.06" y="22666.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0e7cb0d9-0b71-4518-8c52-95e7eabd83d4"> <bbox w="10.0" h="10.0" x="28349.371" y="3144.3044"/> <port id="pr_0e7cb0d9-0b71-4518-8c52-95e7eabd83d4_p1" x="28369.371" y="3149.3044"/> <port id="pr_0e7cb0d9-0b71-4518-8c52-95e7eabd83d4_p2" x="28339.371" y="3149.3044"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_8b323cc7-e479-4433-a7ed-d34a7f44e8d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b323cc7-e479-4433-a7ed-d34a7f44e8d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24687.06" y="18860.0"/> <port id="pr_8b323cc7-e479-4433-a7ed-d34a7f44e8d4_p1" x="24677.06" y="18865.0"/> <port id="pr_8b323cc7-e479-4433-a7ed-d34a7f44e8d4_p2" x="24707.06" y="18865.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2e8554a1-87b8-4328-96ed-44cdcc3be9c7"> <bbox w="10.0" h="10.0" x="7415.0" y="6810.0"/> <port id="pr_2e8554a1-87b8-4328-96ed-44cdcc3be9c7_p1" x="7420.0" y="6830.0"/> <port id="pr_2e8554a1-87b8-4328-96ed-44cdcc3be9c7_p2" x="7420.0" y="6800.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_578575fd-6ce6-4f64-ba30-a0c63b21c083"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_578575fd-6ce6-4f64-ba30-a0c63b21c083"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18657.81" y="12879.198"/> <port id="pr_578575fd-6ce6-4f64-ba30-a0c63b21c083_p1" x="18662.81" y="12869.198"/> <port id="pr_578575fd-6ce6-4f64-ba30-a0c63b21c083_p2" x="18662.81" y="12899.198"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df5327ba-5911-4aff-8d5d-2550950535e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16469705</p> <p>JNK antagonizes NF-kappaB during TNFalpha signaling by promoting the proteasomal elimination of c-FLIP(L).</p> <p>PMID:26972597</p> <p>FADD regulates NF-?B activation and promotes ubiquitination of cFLIPL to induce </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_df5327ba-5911-4aff-8d5d-2550950535e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16469705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26972597"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21974.06" y="10721.0"/> <port id="pr_df5327ba-5911-4aff-8d5d-2550950535e7_p1" x="21964.06" y="10726.0"/> <port id="pr_df5327ba-5911-4aff-8d5d-2550950535e7_p2" x="21994.06" y="10726.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_26c6bc97-9685-403e-b909-f03986355791"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26c6bc97-9685-403e-b909-f03986355791"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5027.0" y="9209.0"/> <port id="pr_26c6bc97-9685-403e-b909-f03986355791_p1" x="5047.0" y="9214.0"/> <port id="pr_26c6bc97-9685-403e-b909-f03986355791_p2" x="5017.0" y="9214.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_07cc8fc4-2482-4ae2-892a-08d4bf1e0740"> <bbox w="10.0" h="10.0" x="955.0" y="4170.0"/> <port id="pr_07cc8fc4-2482-4ae2-892a-08d4bf1e0740_p1" x="960.0" y="4160.0"/> <port id="pr_07cc8fc4-2482-4ae2-892a-08d4bf1e0740_p2" x="960.0" y="4190.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f27b47e5-585d-49c6-a8e4-fe7b0d6a6c84"> <bbox w="10.0" h="10.0" x="17904.062" y="6457.5"/> <port id="pr_f27b47e5-585d-49c6-a8e4-fe7b0d6a6c84_p1" x="17909.062" y="6447.5"/> <port id="pr_f27b47e5-585d-49c6-a8e4-fe7b0d6a6c84_p2" x="17909.062" y="6477.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bfa52f9d-9858-4e86-a7e8-bae21235f927"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:15147722</p> <p>PMID:14536078</p> <p>PMID:12459251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bfa52f9d-9858-4e86-a7e8-bae21235f927"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12459251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13079.061" y="20740.725"/> <port id="pr_bfa52f9d-9858-4e86-a7e8-bae21235f927_p1" x="13069.061" y="20745.725"/> <port id="pr_bfa52f9d-9858-4e86-a7e8-bae21235f927_p2" x="13099.061" y="20745.725"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f12c8609-7862-4f0e-bbfa-f3e1d4416cb0"> <bbox w="10.0" h="10.0" x="4347.4307" y="4717.25"/> <port id="pr_f12c8609-7862-4f0e-bbfa-f3e1d4416cb0_p1" x="4352.4307" y="4707.25"/> <port id="pr_f12c8609-7862-4f0e-bbfa-f3e1d4416cb0_p2" x="4352.4307" y="4737.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_55a90d4a-472a-4b1f-b696-8169b5f50e42"> <bbox w="10.0" h="10.0" x="18905.697" y="15072.25"/> <port id="pr_55a90d4a-472a-4b1f-b696-8169b5f50e42_p1" x="18910.697" y="15092.25"/> <port id="pr_55a90d4a-472a-4b1f-b696-8169b5f50e42_p2" x="18910.697" y="15062.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_fe081749-ba71-4a4b-854b-67e3aed362d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16880536 PMID:18813803 PMID:19190345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fe081749-ba71-4a4b-854b-67e3aed362d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21010.0"/> <port id="pr_fe081749-ba71-4a4b-854b-67e3aed362d7_p1" x="26547.56" y="21015.0"/> <port id="pr_fe081749-ba71-4a4b-854b-67e3aed362d7_p2" x="26577.56" y="21015.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6ae15ed3-c9aa-4524-81e6-59df9a9394c3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15147722</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6ae15ed3-c9aa-4524-81e6-59df9a9394c3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13943.061" y="20573.0"/> <port id="pr_6ae15ed3-c9aa-4524-81e6-59df9a9394c3_p1" x="13933.061" y="20578.0"/> <port id="pr_6ae15ed3-c9aa-4524-81e6-59df9a9394c3_p2" x="13963.061" y="20578.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a99a363d-425c-4336-83d1-766564cf8d72"> <bbox w="10.0" h="10.0" x="27418.508" y="6143.75"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6970.412" y="16651.654"/> <port id="pr_4b41c4ab-af11-4d5e-8b15-59f9c2d7dd74_p1" x="6990.412" y="16656.654"/> <port id="pr_4b41c4ab-af11-4d5e-8b15-59f9c2d7dd74_p2" x="6960.412" y="16656.654"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b01ec367-87b0-404f-8868-5264c3404251"> <bbox w="10.0" h="10.0" x="24734.56" y="16176.5"/> <port id="pr_b01ec367-87b0-404f-8868-5264c3404251_p1" x="24739.56" y="16196.5"/> <port id="pr_b01ec367-87b0-404f-8868-5264c3404251_p2" x="24739.56" y="16166.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_44e9e0ba-08ff-4722-8b08-6ccc32739f86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5752.25" y="18754.234"/> <port id="pr_44e9e0ba-08ff-4722-8b08-6ccc32739f86_p1" x="5757.25" y="18774.234"/> <port id="pr_44e9e0ba-08ff-4722-8b08-6ccc32739f86_p2" x="5757.25" y="18744.234"/> </glyph> <glyph class="process" orientation="vertical" id="pr_866c3784-8aba-4bed-bd7c-d042e624308f"> <bbox w="10.0" h="10.0" x="1965.0" y="4130.0"/> <port id="pr_866c3784-8aba-4bed-bd7c-d042e624308f_p1" x="1970.0" y="4120.0"/> <port id="pr_866c3784-8aba-4bed-bd7c-d042e624308f_p2" x="1970.0" y="4150.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ce13d2e-d971-404e-a114-061f4baa567a"> <bbox w="10.0" h="10.0" x="18605.0" y="4155.0"/> <port id="pr_9ce13d2e-d971-404e-a114-061f4baa567a_p1" x="18610.0" y="4145.0"/> <port id="pr_9ce13d2e-d971-404e-a114-061f4baa567a_p2" x="18610.0" y="4175.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_59a1855b-5042-48a2-bdd9-7a35d061ca96"> <bbox w="10.0" h="10.0" x="21361.186" y="14581.5"/> <port id="pr_59a1855b-5042-48a2-bdd9-7a35d061ca96_p1" x="21351.186" y="14586.5"/> <port id="pr_59a1855b-5042-48a2-bdd9-7a35d061ca96_p2" x="21381.186" y="14586.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dc50b4a2-7a81-4383-87c9-f2751d2b828a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18046414</p> <p>by YY1 and TOR, ChIP in TSC2-/- cells with RPTOR, YY1, PGC1a</p> <p>rapamycin-sensitive YY1-PGC1a interaction</p> <p>PMID:12533512</p> <p>by MYC, by NRF1 (no direct evidence for a role of PGC1alpha)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dc50b4a2-7a81-4383-87c9-f2751d2b828a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18046414"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12533512"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20476.947" y="16170.125"/> <port id="pr_dc50b4a2-7a81-4383-87c9-f2751d2b828a_p1" x="20481.947" y="16190.125"/> <port id="pr_dc50b4a2-7a81-4383-87c9-f2751d2b828a_p2" x="20481.947" y="16160.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_62427af9-81e2-4028-b242-97109ce4b61b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19465923</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_62427af9-81e2-4028-b242-97109ce4b61b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19465923"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27434.81" y="22444.0"/> <port id="pr_62427af9-81e2-4028-b242-97109ce4b61b_p1" x="27424.81" y="22449.0"/> <port id="pr_62427af9-81e2-4028-b242-97109ce4b61b_p2" x="27454.81" y="22449.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f61b6f6d-af5b-4c04-8453-596f365e8af2"> <bbox w="10.0" h="10.0" x="4057.0" y="6801.5"/> <port id="pr_f61b6f6d-af5b-4c04-8453-596f365e8af2_p1" x="4062.0" y="6821.5"/> <port id="pr_f61b6f6d-af5b-4c04-8453-596f365e8af2_p2" x="4062.0" y="6791.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_71bcc412-ced1-4dc2-a38a-0b1bf0e8535c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7544575</p> <p>in vitro</p> <p>in RAW 264.7 upon NOS2 induction (LPS+IFNg)</p> <p>proposed mechanise: loss of iron sulfur cluster</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_71bcc412-ced1-4dc2-a38a-0b1bf0e8535c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7544575"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19039.81" y="13148.671"/> <port id="pr_71bcc412-ced1-4dc2-a38a-0b1bf0e8535c_p1" x="19059.81" y="13153.671"/> <port id="pr_71bcc412-ced1-4dc2-a38a-0b1bf0e8535c_p2" x="19029.81" y="13153.671"/> </glyph> <glyph class="process" orientation="vertical" id="pr_95c0dbda-9450-4157-b7a9-88aa39e7aef6"> <bbox w="10.0" h="10.0" x="11705.9375" y="3015.625"/> <port id="pr_95c0dbda-9450-4157-b7a9-88aa39e7aef6_p1" x="11710.9375" y="3005.625"/> <port id="pr_95c0dbda-9450-4157-b7a9-88aa39e7aef6_p2" x="11710.9375" y="3035.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9bbe6fc1-a38b-43ff-b06e-d2206cf5c8b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16252010</p> <p>activating the receptor causes NRIF to enter the nucleus and regulate the expression of genes that regulate neuronal survival/apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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id="pr_4a01e01f-3552-435f-824c-2ddb3a795db7_p2" x="14781.797" y="7302.9688"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d5b7a13-4942-48e6-b347-5507803d4272"> <bbox w="10.0" h="10.0" x="16903.94" y="4883.75"/> <port id="pr_2d5b7a13-4942-48e6-b347-5507803d4272_p1" x="16908.94" y="4873.75"/> <port id="pr_2d5b7a13-4942-48e6-b347-5507803d4272_p2" x="16908.94" y="4903.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c7eb1e8e-61c1-4ac0-b665-77fd81e74073"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>Keratin-14, 18, 19, Vimentin are putative direct HIF1 target genes</p> <p>http://www.omicsonline.org/1948-5956/JCST-03-035.php</p> <p>Genes induced by HIF-1 in cancer cells include KRT-14, 18, 19, Vimentin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> 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<title/> </head> <body> <p>PMID:24686170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bc03b9fd-5d84-46a0-b8d7-0463a047e76f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2747.8928" y="10788.0"/> <port id="pr_bc03b9fd-5d84-46a0-b8d7-0463a047e76f_p1" x="2752.8928" y="10778.0"/> <port id="pr_bc03b9fd-5d84-46a0-b8d7-0463a047e76f_p2" x="2752.8928" y="10808.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_46745430-f97f-4421-b7ff-7029bc55a2f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22032831, PMID:20959453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_46745430-f97f-4421-b7ff-7029bc55a2f7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22032831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20959453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6127.31" y="20057.0"/> <port id="pr_46745430-f97f-4421-b7ff-7029bc55a2f7_p1" x="6117.31" y="20062.0"/> <port id="pr_46745430-f97f-4421-b7ff-7029bc55a2f7_p2" x="6147.31" y="20062.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_7ead94fe-b4f9-4141-9a20-31f80dbd9777"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5483.384" y="14927.5"/> <port id="pr_7ead94fe-b4f9-4141-9a20-31f80dbd9777_p1" x="5503.384" y="14932.5"/> <port id="pr_7ead94fe-b4f9-4141-9a20-31f80dbd9777_p2" x="5473.384" y="14932.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5d1df6f8-47e0-41f5-9b4c-180e0861599e"> <bbox w="10.0" h="10.0" x="23290.0" y="5725.0"/> <port id="pr_5d1df6f8-47e0-41f5-9b4c-180e0861599e_p1" x="23280.0" y="5730.0"/> <port id="pr_5d1df6f8-47e0-41f5-9b4c-180e0861599e_p2" x="23310.0" y="5730.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_96203bda-bc2b-4dcd-a3a1-c4db2eea2344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1560.0" y="12777.0"/> <port id="pr_96203bda-bc2b-4dcd-a3a1-c4db2eea2344_p1" x="1550.0" y="12782.0"/> <port id="pr_96203bda-bc2b-4dcd-a3a1-c4db2eea2344_p2" x="1580.0" y="12782.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ff6e4f8f-4209-4d16-9c9d-6f6a628eeb0e"> <bbox w="10.0" h="10.0" x="14150.094" y="6950.9375"/> <port id="pr_ff6e4f8f-4209-4d16-9c9d-6f6a628eeb0e_p1" x="14140.094" y="6955.9375"/> <port id="pr_ff6e4f8f-4209-4d16-9c9d-6f6a628eeb0e_p2" x="14170.094" y="6955.9375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0fff9562-1c27-475b-8504-0d2c63df827c"> <bbox w="10.0" h="10.0" x="20895.0" y="7720.25"/> <port id="pr_0fff9562-1c27-475b-8504-0d2c63df827c_p1" x="20900.0" y="7710.25"/> <port id="pr_0fff9562-1c27-475b-8504-0d2c63df827c_p2" x="20900.0" y="7740.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_968746db-b86e-41f2-9be3-f2c297137400"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12743597</p> <p>in 786-O human carcinoma cell line</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_d0a3e950-d23b-4e0d-8460-6327ebf16927"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17035233 PMID:16328026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d0a3e950-d23b-4e0d-8460-6327ebf16927"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17035233"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16328026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26556.56" y="20553.0"/> <port id="pr_d0a3e950-d23b-4e0d-8460-6327ebf16927_p1" x="26546.56" y="20558.0"/> <port id="pr_d0a3e950-d23b-4e0d-8460-6327ebf16927_p2" x="26576.56" y="20558.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e887cd4-2935-4fa9-a09d-5ec2af83032f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11124803 PMID:12459251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2182.75" y="16813.0"/> <port id="pr_ca50fda8-9b7c-437c-9087-cddd6c307cfc_p1" x="2172.75" y="16818.0"/> <port id="pr_ca50fda8-9b7c-437c-9087-cddd6c307cfc_p2" x="2202.75" y="16818.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ae6b637-67ef-4e24-816b-2edff15f43ca"> <bbox w="10.0" h="10.0" x="5106.007" y="21528.5"/> <port id="pr_9ae6b637-67ef-4e24-816b-2edff15f43ca_p1" x="5111.007" y="21548.5"/> <port id="pr_9ae6b637-67ef-4e24-816b-2edff15f43ca_p2" x="5111.007" y="21518.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fded7468-d2c8-4290-8c28-d1d9ea03369f"> <bbox w="10.0" h="10.0" x="18626.0" y="3385.0"/> <port id="pr_fded7468-d2c8-4290-8c28-d1d9ea03369f_p1" x="18631.0" y="3375.0"/> <port 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y="3825.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_169997eb-4815-44b8-a9e6-4b2444fed9e0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20351093</p> <p>PMID:17823410</p> <p>PMID:22134354</p> <p>PMID:22160706</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_169997eb-4815-44b8-a9e6-4b2444fed9e0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20351093"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17823410"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22134354"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22160706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3641.0" y="17537.922"/> <port id="pr_169997eb-4815-44b8-a9e6-4b2444fed9e0_p1" x="3631.0" y="17542.922"/> <port id="pr_169997eb-4815-44b8-a9e6-4b2444fed9e0_p2" x="3661.0" y="17542.922"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0534ba35-f195-4da6-8ded-0457f6038911"> <bbox w="10.0" h="10.0" x="18108.93" y="4963.75"/> <port id="pr_0534ba35-f195-4da6-8ded-0457f6038911_p1" x="18113.93" y="4953.75"/> <port id="pr_0534ba35-f195-4da6-8ded-0457f6038911_p2" x="18113.93" y="4983.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9be6642a-cea2-403e-bb80-215fdabb5b0a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25475733</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9be6642a-cea2-403e-bb80-215fdabb5b0a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25475733"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5938.1875" y="10469.8125"/> <port id="pr_9be6642a-cea2-403e-bb80-215fdabb5b0a_p1" x="5943.1875" y="10459.8125"/> <port id="pr_9be6642a-cea2-403e-bb80-215fdabb5b0a_p2" x="5943.1875" y="10489.8125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e4d5792e-2929-44f5-9189-1d2ae09d7b19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e4d5792e-2929-44f5-9189-1d2ae09d7b19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2992.25" y="10525.0"/> <port id="pr_e4d5792e-2929-44f5-9189-1d2ae09d7b19_p1" x="3012.25" y="10530.0"/> <port id="pr_e4d5792e-2929-44f5-9189-1d2ae09d7b19_p2" x="2982.25" y="10530.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_be9debf2-e94d-4e81-bfba-1735b0e9e980"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24403062</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_be9debf2-e94d-4e81-bfba-1735b0e9e980"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5125.4375" y="9686.8125"/> <port id="pr_be9debf2-e94d-4e81-bfba-1735b0e9e980_p1" x="5130.4375" y="9676.8125"/> <port id="pr_be9debf2-e94d-4e81-bfba-1735b0e9e980_p2" x="5130.4375" y="9706.8125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fb9669a0-017e-4e5b-b52d-9457d18f54b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21889.06" y="11016.0"/> <port id="pr_fb9669a0-017e-4e5b-b52d-9457d18f54b1_p1" x="21879.06" y="11021.0"/> <port id="pr_fb9669a0-017e-4e5b-b52d-9457d18f54b1_p2" x="21909.06" y="11021.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5d4ca5fa-19a9-4a92-8d14-5dde8183a0a4"> <bbox w="10.0" h="10.0" x="23283.56" y="10246.0"/> <port id="pr_5d4ca5fa-19a9-4a92-8d14-5dde8183a0a4_p1" x="23273.56" y="10251.0"/> <port id="pr_5d4ca5fa-19a9-4a92-8d14-5dde8183a0a4_p2" x="23303.56" y="10251.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4678a934-b71c-49f6-98c1-024c87448886"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4678a934-b71c-49f6-98c1-024c87448886"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26277.06" y="21093.0"/> <port id="pr_4678a934-b71c-49f6-98c1-024c87448886_p1" x="26282.06" y="21083.0"/> <port id="pr_4678a934-b71c-49f6-98c1-024c87448886_p2" x="26282.06" y="21113.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_928057ed-76bb-4f31-9909-28b06a981735"> <bbox w="10.0" h="10.0" x="4095.0" y="4300.0"/> <port id="pr_928057ed-76bb-4f31-9909-28b06a981735_p1" x="4100.0" y="4290.0"/> <port id="pr_928057ed-76bb-4f31-9909-28b06a981735_p2" x="4100.0" y="4320.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c551086f-e64c-40a5-b31d-4b989f3e868c"> <bbox w="10.0" h="10.0" x="21943.125" y="3292.5"/> <port id="pr_c551086f-e64c-40a5-b31d-4b989f3e868c_p1" x="21948.125" y="3312.5"/> <port id="pr_c551086f-e64c-40a5-b31d-4b989f3e868c_p2" x="21948.125" y="3282.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f31d6970-f9e1-4525-bb72-5ad6bdaface5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15082531</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f31d6970-f9e1-4525-bb72-5ad6bdaface5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21756.06" y="21177.25"/> <port id="pr_f31d6970-f9e1-4525-bb72-5ad6bdaface5_p1" x="21746.06" y="21182.25"/> <port id="pr_f31d6970-f9e1-4525-bb72-5ad6bdaface5_p2" x="21776.06" y="21182.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_44968375-c7c3-41db-a7b7-b6c2e113fec4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19574223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_44968375-c7c3-41db-a7b7-b6c2e113fec4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12582.42" y="21784.75"/> <port id="pr_44968375-c7c3-41db-a7b7-b6c2e113fec4_p1" x="12587.42" y="21774.75"/> <port id="pr_44968375-c7c3-41db-a7b7-b6c2e113fec4_p2" x="12587.42" y="21804.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f8316081-b5fb-4339-bff4-0ff0b0f00808"> <bbox w="10.0" h="10.0" x="28720.285" y="16005.25"/> <port id="pr_f8316081-b5fb-4339-bff4-0ff0b0f00808_p1" x="28725.285" y="16025.25"/> <port id="pr_f8316081-b5fb-4339-bff4-0ff0b0f00808_p2" x="28725.285" y="15995.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c75a4c27-982f-456d-b801-cd54a52a064b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24916.56" y="16494.0"/> <port id="pr_c75a4c27-982f-456d-b801-cd54a52a064b_p1" x="24921.56" y="16514.0"/> <port id="pr_c75a4c27-982f-456d-b801-cd54a52a064b_p2" x="24921.56" y="16484.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c25eae0-a29a-48c0-a023-6ea5b9a8b187"> <bbox w="10.0" h="10.0" x="12274.973" y="9903.856"/> <port id="pr_9c25eae0-a29a-48c0-a023-6ea5b9a8b187_p1" x="12294.973" y="9908.856"/> <port id="pr_9c25eae0-a29a-48c0-a023-6ea5b9a8b187_p2" x="12264.973" y="9908.856"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_81815be1-4260-4af3-9ce3-87c438148318"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3535.5" y="19089.79"/> <port id="pr_81815be1-4260-4af3-9ce3-87c438148318_p1" x="3555.5" y="19094.79"/> <port id="pr_81815be1-4260-4af3-9ce3-87c438148318_p2" x="3525.5" y="19094.79"/> </glyph> <glyph class="process" orientation="vertical" id="pr_72fdf4ec-0602-4c2e-9c03-1ae6a9e0fffd"> <bbox w="10.0" h="10.0" x="12296.0" y="4396.875"/> <port id="pr_72fdf4ec-0602-4c2e-9c03-1ae6a9e0fffd_p1" x="12301.0" y="4386.875"/> <port id="pr_72fdf4ec-0602-4c2e-9c03-1ae6a9e0fffd_p2" x="12301.0" y="4416.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_85149e33-f96b-405d-b30a-c712bf95499d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24403062</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_85149e33-f96b-405d-b30a-c712bf95499d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6889.8633" y="11834.295"/> <port id="pr_85149e33-f96b-405d-b30a-c712bf95499d_p1" x="6894.8633" y="11824.295"/> <port id="pr_85149e33-f96b-405d-b30a-c712bf95499d_p2" x="6894.8633" y="11854.295"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ed2779f-ea4d-49ba-a100-3c138a11f741"> <bbox w="10.0" h="10.0" x="16670.0" y="3025.0"/> <port id="pr_6ed2779f-ea4d-49ba-a100-3c138a11f741_p1" x="16675.0" y="3015.0"/> <port id="pr_6ed2779f-ea4d-49ba-a100-3c138a11f741_p2" x="16675.0" y="3045.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8066602d-66c3-4ad5-8f9d-55a1addfda12"> <bbox w="10.0" h="10.0" x="4894.9404" y="4401.75"/> <port id="pr_8066602d-66c3-4ad5-8f9d-55a1addfda12_p1" x="4914.9404" y="4406.75"/> <port id="pr_8066602d-66c3-4ad5-8f9d-55a1addfda12_p2" x="4884.9404" y="4406.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_268c8672-7fd1-48dc-9e3f-b4efddabaa75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5472.25" y="18794.0"/> <port id="pr_268c8672-7fd1-48dc-9e3f-b4efddabaa75_p1" x="5477.25" y="18784.0"/> 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resistance in pancreatic cancer cells. This supports data showing that EMT activators (Twist and Snail) confer anti-apoptotic properties</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_826d60c6-4db3-4bcd-927e-6a7b304c9900"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19935649"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4847.75" y="17080.31"/> <port 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h="10.0" x="22585.0" y="7885.0"/> <port id="pr_42d29f0d-f81d-4983-bba5-d0c658bb4487_p1" x="22590.0" y="7875.0"/> <port id="pr_42d29f0d-f81d-4983-bba5-d0c658bb4487_p2" x="22590.0" y="7905.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4b920b96-b7af-45f5-baa7-7209eb8dc840"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16051147</p> <p>in mice p66Shc couples O2 reduction to CYCS oxidation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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x="22631.137" y="8186.25"/> <port id="pr_c938358e-77fc-49ef-8065-b7c49323254d_p1" x="22636.137" y="8176.25"/> <port id="pr_c938358e-77fc-49ef-8065-b7c49323254d_p2" x="22636.137" y="8206.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d649bdfa-34ea-4548-9818-526653d606bb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d649bdfa-34ea-4548-9818-526653d606bb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6869.0" y="11296.5"/> <port id="pr_d649bdfa-34ea-4548-9818-526653d606bb_p1" x="6859.0" y="11301.5"/> <port id="pr_d649bdfa-34ea-4548-9818-526653d606bb_p2" x="6889.0" y="11301.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a73f54bc-6b03-4767-8816-37d9bb2c1474"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19651775</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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w="10.0" h="10.0" x="17614.06" y="18817.5"/> <port id="pr_93005941-3c11-451e-b3bd-4e01cb331d5a_p1" x="17634.06" y="18822.5"/> <port id="pr_93005941-3c11-451e-b3bd-4e01cb331d5a_p2" x="17604.06" y="18822.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ca1405fd-9550-4de5-ad5c-03a2deff8fab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15724238</p> <p>in human tonsil B cells, constitutive interaction</p> <p>PMID:9430630</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ca1405fd-9550-4de5-ad5c-03a2deff8fab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15724238"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9430630"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21827.244" y="13363.329"/> <port id="pr_ca1405fd-9550-4de5-ad5c-03a2deff8fab_p1" x="21847.244" y="13368.329"/> <port id="pr_ca1405fd-9550-4de5-ad5c-03a2deff8fab_p2" x="21817.244" y="13368.329"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba622202-dab2-47a6-9639-014baf372f12"> <bbox w="10.0" h="10.0" x="22340.0" y="8035.0"/> <port id="pr_ba622202-dab2-47a6-9639-014baf372f12_p1" x="22345.0" y="8025.0"/> <port id="pr_ba622202-dab2-47a6-9639-014baf372f12_p2" x="22345.0" y="8055.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ce2557c-07b2-4275-ba5c-26649633a522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The 40 kDa isoform has high affinity for cleaved APC, this results in decreased apoptsis</p> <p>PMID:19900451</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ce2557c-07b2-4275-ba5c-26649633a522"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19900451"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18470.414" y="21106.0"/> <port id="pr_9ce2557c-07b2-4275-ba5c-26649633a522_p1" x="18475.414" y="21096.0"/> <port id="pr_9ce2557c-07b2-4275-ba5c-26649633a522_p2" x="18475.414" y="21126.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1a8fc302-87c4-4078-896b-74757080efca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23110147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1a8fc302-87c4-4078-896b-74757080efca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23110147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19405.56" y="16969.0"/> <port id="pr_1a8fc302-87c4-4078-896b-74757080efca_p1" x="19425.56" y="16974.0"/> <port id="pr_1a8fc302-87c4-4078-896b-74757080efca_p2" x="19395.56" y="16974.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9e303c1-8d72-49ce-841a-192ccbb6a860"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15989957</p> <p>in Hela MCL1 ubiquitination mainly on lysines 136, 194, and 197</p> <p>purification of MCL1 E3 ubiquitin ligase from the cytosol of Hela cells</p> <p>in vitro reconstitution of the system</p> <p>HUWE1 KD</p> <p>PMID:16543145</p> <p>suggest that HUWE1 preferentially target S159 phosphorylated MCL1 for polyubiquitination</p> <p>PMID:16213503</p> <p>HUWE1 is a BH3 domain protein - competition HUWE1 / Bim for binding to MCL1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a9e303c1-8d72-49ce-841a-192ccbb6a860"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15989957"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16543145"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16213503"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22324.135" y="14525.0"/> <port id="pr_a9e303c1-8d72-49ce-841a-192ccbb6a860_p1" x="22344.135" y="14530.0"/> <port id="pr_a9e303c1-8d72-49ce-841a-192ccbb6a860_p2" x="22314.135" y="14530.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d896c122-b8a2-4209-8de1-edadf1e654f3"> <bbox w="10.0" h="10.0" x="10553.75" y="624.375"/> <port id="pr_d896c122-b8a2-4209-8de1-edadf1e654f3_p1" x="10558.75" y="614.375"/> <port id="pr_d896c122-b8a2-4209-8de1-edadf1e654f3_p2" x="10558.75" y="644.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_72aacb95-4ee1-4d4d-9c0e-cc5c2f76f2fd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17418790</p> <p>in Hela cells, in RCC4 renal carcinoma human cells, in mouse</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_72aacb95-4ee1-4d4d-9c0e-cc5c2f76f2fd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17418790"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22811.373" y="16156.25"/> <port id="pr_72aacb95-4ee1-4d4d-9c0e-cc5c2f76f2fd_p1" x="22816.373" y="16176.25"/> <port id="pr_72aacb95-4ee1-4d4d-9c0e-cc5c2f76f2fd_p2" x="22816.373" y="16146.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d6996f32-4a4d-4b4c-bc3f-96da0f527831"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Not sure if Rho dissociates when active</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="15059.959" y="19193.5"/> <port id="pr_d6996f32-4a4d-4b4c-bc3f-96da0f527831_p1" x="15064.959" y="19213.5"/> <port id="pr_d6996f32-4a4d-4b4c-bc3f-96da0f527831_p2" x="15064.959" y="19183.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3fc8d80c-b9c5-4f8b-b0ae-ba1003022f8d"> <bbox w="10.0" h="10.0" x="23073.56" y="16569.0"/> <port id="pr_3fc8d80c-b9c5-4f8b-b0ae-ba1003022f8d_p1" x="23063.56" y="16574.0"/> <port id="pr_3fc8d80c-b9c5-4f8b-b0ae-ba1003022f8d_p2" x="23093.56" y="16574.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e10b498f-9ae3-45a3-a810-7b07f05884cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2027.0" y="14321.25"/> <port id="pr_e10b498f-9ae3-45a3-a810-7b07f05884cb_p1" x="2017.0" y="14326.25"/> <port id="pr_e10b498f-9ae3-45a3-a810-7b07f05884cb_p2" x="2047.0" y="14326.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e11ebeb0-a09d-4850-a52b-f76df2885edb"> <bbox w="10.0" h="10.0" x="29421.0" y="2885.0"/> <port id="pr_e11ebeb0-a09d-4850-a52b-f76df2885edb_p1" x="29426.0" y="2905.0"/> <port id="pr_e11ebeb0-a09d-4850-a52b-f76df2885edb_p2" x="29426.0" y="2875.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_428f2ded-b0b3-4463-943e-abb84c743e90"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19930715</p> <p>PMID:26597054</p> <p>PMID:27572739</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_428f2ded-b0b3-4463-943e-abb84c743e90"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4966.5" y="11856.5"/> <port id="pr_428f2ded-b0b3-4463-943e-abb84c743e90_p1" x="4971.5" y="11846.5"/> <port id="pr_428f2ded-b0b3-4463-943e-abb84c743e90_p2" x="4971.5" y="11876.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3804b031-d988-47fc-bd23-d4ea7da02325"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3804b031-d988-47fc-bd23-d4ea7da02325"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18039929"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9435.531" y="20114.846"/> <port id="pr_3804b031-d988-47fc-bd23-d4ea7da02325_p1" x="9440.531" y="20134.846"/> <port id="pr_3804b031-d988-47fc-bd23-d4ea7da02325_p2" x="9440.531" y="20104.846"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d541eb56-6c6c-4256-9d76-cb90b01da408"> <bbox w="10.0" h="10.0" x="24747.562" y="10224.436"/> <port id="pr_d541eb56-6c6c-4256-9d76-cb90b01da408_p1" x="24737.562" y="10229.436"/> <port id="pr_d541eb56-6c6c-4256-9d76-cb90b01da408_p2" x="24767.562" y="10229.436"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_278d4fde-6eef-4c5d-b9c3-8aa2c0a0d4f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> <p>PMID:11226259</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_278d4fde-6eef-4c5d-b9c3-8aa2c0a0d4f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11226259"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9650.061" y="19150.832"/> <port id="pr_278d4fde-6eef-4c5d-b9c3-8aa2c0a0d4f0_p1" x="9640.061" y="19155.832"/> <port id="pr_278d4fde-6eef-4c5d-b9c3-8aa2c0a0d4f0_p2" x="9670.061" y="19155.832"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_591f17cf-4988-4efb-ad0b-88636eccb13e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15775970</p> <p>AIF as an inner membrane protein that is cleaved and released into the intermembrane space upon apoptosis induction</p> <p>PMID:15590628</p> <p>calpain 1 mediated processing</p> <p>PMID:15933737</p> <p>cathepsins and calpain 1</p> <p>PMID:11278689</p> <p>flavin not necessary for apoptotic function</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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y="13218.997"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_de3d9802-ec58-40ff-afb9-fecd66d12158"> <bbox w="20.0" h="20.0" x="18211.637" y="13083.143"/> <port id="logicglyph_de3d9802-ec58-40ff-afb9-fecd66d12158_p1" x="18201.637" y="13093.143"/> <port id="logicglyph_de3d9802-ec58-40ff-afb9-fecd66d12158_p2" x="18241.637" y="13093.143"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_42b99c75-1589-4fa3-8b76-7312f8fd719c"> <bbox w="10.0" h="10.0" x="2506.56" y="21225.0"/> <port id="pr_42b99c75-1589-4fa3-8b76-7312f8fd719c_p1" x="2496.56" y="21230.0"/> <port id="pr_42b99c75-1589-4fa3-8b76-7312f8fd719c_p2" x="2526.56" y="21230.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e3f5fe6a-8cdd-42fb-b87b-95e205331cc0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6003.753" y="14691.5"/> <port id="pr_e3f5fe6a-8cdd-42fb-b87b-95e205331cc0_p1" x="6023.753" y="14696.5"/> <port id="pr_e3f5fe6a-8cdd-42fb-b87b-95e205331cc0_p2" x="5993.753" y="14696.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f978817-f2f7-4b82-a44f-10187aedf966"> <bbox w="10.0" h="10.0" x="20572.664" y="6973.125"/> <port id="pr_3f978817-f2f7-4b82-a44f-10187aedf966_p1" x="20577.664" y="6963.125"/> <port id="pr_3f978817-f2f7-4b82-a44f-10187aedf966_p2" x="20577.664" y="6993.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5913dd12-ad88-421f-aaba-67fb30d4a261"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARPs in telomere maintenance</p> <p>PMID:21818122, PMID:21076181, PMID:21037379</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5913dd12-ad88-421f-aaba-67fb30d4a261"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21818122"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21076181"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21037379"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10456.07" y="17047.426"/> <port id="pr_5913dd12-ad88-421f-aaba-67fb30d4a261_p1" x="10446.07" y="17052.426"/> <port id="pr_5913dd12-ad88-421f-aaba-67fb30d4a261_p2" x="10476.07" y="17052.426"/> </glyph> <glyph class="process" orientation="vertical" id="pr_70c94a52-69d8-47f6-b682-d426bb20da87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15534002</p> <p>PMID:9779982</p> <p>PMID:14585353</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_70c94a52-69d8-47f6-b682-d426bb20da87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5444.394" y="13441.0"/> <port id="pr_70c94a52-69d8-47f6-b682-d426bb20da87_p1" x="5449.394" y="13461.0"/> <port id="pr_70c94a52-69d8-47f6-b682-d426bb20da87_p2" x="5449.394" y="13431.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c44b2fb0-50fd-47b8-ae38-0d47293ced36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2708.75" y="16457.5"/> <port id="pr_c44b2fb0-50fd-47b8-ae38-0d47293ced36_p1" x="2728.75" y="16462.5"/> <port id="pr_c44b2fb0-50fd-47b8-ae38-0d47293ced36_p2" x="2698.75" y="16462.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a0e97737-1a6e-4f97-b590-60f442f9f122"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BRCA1 stabilises p53 and causes activation of p53-dependent DNA-repair genes and activation of checkpoint, but no apoptoss:</p> <p>PMID:12024039 , PMID:12496474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a0e97737-1a6e-4f97-b590-60f442f9f122"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12024039"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12496474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10805.025" y="11383.82"/> <port id="pr_a0e97737-1a6e-4f97-b590-60f442f9f122_p1" x="10810.025" y="11373.82"/> <port id="pr_a0e97737-1a6e-4f97-b590-60f442f9f122_p2" x="10810.025" y="11403.82"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9d4bfc2a-9500-442c-ba5b-f66e348f0226"> <bbox w="10.0" h="10.0" x="2039.75" y="2928.5"/> <port id="pr_9d4bfc2a-9500-442c-ba5b-f66e348f0226_p1" x="2029.75" y="2933.5"/> <port id="pr_9d4bfc2a-9500-442c-ba5b-f66e348f0226_p2" x="2059.75" y="2933.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9596144c-9467-4c2b-8428-859e32500af1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>B-catenin phosphorylated at this residues shows increased binding with Bcl9 (mouse homologue Bcl9-2)</p> <p>PMID:15371335</p> <p>Apperently Bcl9 binds b-catenin independently of Y142</p> <p>PMID:17113272</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9596144c-9467-4c2b-8428-859e32500af1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15371335"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17113272"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17794.06" y="21044.25"/> <port id="pr_9596144c-9467-4c2b-8428-859e32500af1_p1" x="17784.06" y="21049.25"/> <port id="pr_9596144c-9467-4c2b-8428-859e32500af1_p2" x="17814.06" y="21049.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d6499ea-3e5c-4e7d-8d8c-3cc0d637f082"> <bbox w="10.0" h="10.0" x="3000.0" y="4760.0"/> <port id="pr_3d6499ea-3e5c-4e7d-8d8c-3cc0d637f082_p1" x="3005.0" y="4780.0"/> <port id="pr_3d6499ea-3e5c-4e7d-8d8c-3cc0d637f082_p2" x="3005.0" y="4750.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_30418a0f-cf02-4ce3-97d5-edf1a52fe636"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19931509</p> <p>miR-200a downregulates ZEB2 and CTNNB1 </p> <p>This downregulation inhibits carcinoma cell growth, migration and invasion.</p> <p>PMID:19703993</p> <p>Upregulation of miR-200a decreased the expression of ZEB1 and ZEB2, with consequent increased expression of E-cadherin,</p> <p>Downregulation of miR-200a in meningiomas and arachnoidal cells resulted in increased expression of beta-catenin and cyclin D1 involved in cell proliferation</p> <p>PMID:20592490</p> <p>PMID:22211245</p> <p>CTNNB1 is direct target of MIR200A</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_30418a0f-cf02-4ce3-97d5-edf1a52fe636"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19931509"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19703993"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20592490"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22211245"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2931.5" y="17765.75"/> <port id="pr_30418a0f-cf02-4ce3-97d5-edf1a52fe636_p1" x="2936.5" y="17755.75"/> <port id="pr_30418a0f-cf02-4ce3-97d5-edf1a52fe636_p2" x="2936.5" y="17785.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_252d177c-edb2-4e1b-9e92-8e697d6e7fb2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4829.825" y="18392.312"/> <port id="pr_252d177c-edb2-4e1b-9e92-8e697d6e7fb2_p1" x="4849.825" y="18397.312"/> <port id="pr_252d177c-edb2-4e1b-9e92-8e697d6e7fb2_p2" x="4819.825" y="18397.312"/> </glyph> <glyph class="process" orientation="vertical" id="pr_171ead7c-8d5e-455f-8a79-a379abb1752a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24686170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_171ead7c-8d5e-455f-8a79-a379abb1752a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3291.25" y="10678.0"/> <port id="pr_171ead7c-8d5e-455f-8a79-a379abb1752a_p1" x="3296.25" y="10668.0"/> <port id="pr_171ead7c-8d5e-455f-8a79-a379abb1752a_p2" x="3296.25" y="10698.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6fa01e1c-857a-4c91-b470-2da448187dd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7566179</p> <p>in EB1 colon carninoma cells expressing p53 under the control of an inducible promoter</p> <p>in Saos-2 huamn osteosarcoma cells expressing a temperature sensitive p53</p> <p>PMID:17409411</p> <p>in mouse spleen and thymus upon irradiation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<bbox w="10.0" h="10.0" x="22900.31" y="10609.5"/> <port id="pr_65dd8ed8-a5ef-4a4a-b16b-1e3f97b317f9_p1" x="22920.31" y="10614.5"/> <port id="pr_65dd8ed8-a5ef-4a4a-b16b-1e3f97b317f9_p2" x="22890.31" y="10614.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7830cbfe-9ddc-43a4-9d5f-81a0ce1b68de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15073321</p> <p>PMID:10973264</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7830cbfe-9ddc-43a4-9d5f-81a0ce1b68de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15073321"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10973264"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20689.41" y="16149.125"/> <port id="pr_7830cbfe-9ddc-43a4-9d5f-81a0ce1b68de_p1" x="20694.41" y="16169.125"/> <port id="pr_7830cbfe-9ddc-43a4-9d5f-81a0ce1b68de_p2" x="20694.41" y="16139.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_27168665-1938-45fb-8a7b-68cd4b661990"> <bbox w="10.0" h="10.0" x="26724.934" y="9669.5625"/> <port id="pr_27168665-1938-45fb-8a7b-68cd4b661990_p1" x="26714.934" y="9674.5625"/> <port id="pr_27168665-1938-45fb-8a7b-68cd4b661990_p2" x="26744.934" y="9674.5625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2cc0d9e1-ae2b-4e51-bea1-4af776e351c5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TRAF2 activation triggers a ROS pulse that causes the dissociation of Trx from ASK1.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2cc0d9e1-ae2b-4e51-bea1-4af776e351c5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10205.984" y="19125.826"/> <port id="pr_2cc0d9e1-ae2b-4e51-bea1-4af776e351c5_p1" x="10195.984" y="19130.826"/> <port id="pr_2cc0d9e1-ae2b-4e51-bea1-4af776e351c5_p2" x="10225.984" y="19130.826"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_33437c72-bf22-44e0-aa5e-def6f783a863"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17910481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_33437c72-bf22-44e0-aa5e-def6f783a863"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17910481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20648.809" y="19871.0"/> <port id="pr_33437c72-bf22-44e0-aa5e-def6f783a863_p1" x="20638.809" y="19876.0"/> <port id="pr_33437c72-bf22-44e0-aa5e-def6f783a863_p2" x="20668.809" y="19876.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3500fe62-6d65-4692-8e76-ed60adf90a66"> <bbox w="10.0" h="10.0" x="26934.06" y="14464.0"/> <port id="pr_3500fe62-6d65-4692-8e76-ed60adf90a66_p1" x="26924.06" y="14469.0"/> <port id="pr_3500fe62-6d65-4692-8e76-ed60adf90a66_p2" x="26954.06" y="14469.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9261238f-9253-470c-945c-5f4941734b24"> <bbox w="10.0" h="10.0" x="19490.0" y="2465.0"/> <port id="pr_9261238f-9253-470c-945c-5f4941734b24_p1" x="19495.0" y="2455.0"/> <port id="pr_9261238f-9253-470c-945c-5f4941734b24_p2" x="19495.0" y="2485.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bb56f5da-bb1f-42d6-a70f-4c4f1b8c51b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAPKAPK2 MAPKAPK3 and PRAK catalyse phosphorylation of HSP27.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bb56f5da-bb1f-42d6-a70f-4c4f1b8c51b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11408.641" y="20505.5"/> <port id="pr_bb56f5da-bb1f-42d6-a70f-4c4f1b8c51b4_p1" x="11428.641" y="20510.5"/> <port id="pr_bb56f5da-bb1f-42d6-a70f-4c4f1b8c51b4_p2" x="11398.641" y="20510.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_927c5ecd-dac6-45c2-be9b-3c305ed9df2b"> <bbox w="10.0" h="10.0" x="28590.43" y="15940.25"/> <port id="pr_927c5ecd-dac6-45c2-be9b-3c305ed9df2b_p1" x="28595.43" y="15960.25"/> <port id="pr_927c5ecd-dac6-45c2-be9b-3c305ed9df2b_p2" x="28595.43" y="15930.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6b72b1d9-f93f-459a-b361-057834355cf2"> <bbox w="10.0" h="10.0" x="6820.0" y="2090.0"/> <port id="pr_6b72b1d9-f93f-459a-b361-057834355cf2_p1" x="6825.0" y="2080.0"/> <port id="pr_6b72b1d9-f93f-459a-b361-057834355cf2_p2" x="6825.0" y="2110.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3e8005e-28c8-43bd-bce3-ae8060fa5ad3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17053147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3e8005e-28c8-43bd-bce3-ae8060fa5ad3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17053147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27142.508" y="12436.227"/> <port id="pr_d3e8005e-28c8-43bd-bce3-ae8060fa5ad3_p1" x="27132.508" y="12441.227"/> <port id="pr_d3e8005e-28c8-43bd-bce3-ae8060fa5ad3_p2" x="27162.508" y="12441.227"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff3b7f0f-24b4-4b74-8498-f0550268817d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>9-1-1 complex activates Lig1 and BER PMID:15871698, PMID:16731526</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ff3b7f0f-24b4-4b74-8498-f0550268817d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15871698"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16731526"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10259.334" y="16810.16"/> <port id="pr_ff3b7f0f-24b4-4b74-8498-f0550268817d_p1" x="10264.334" y="16800.16"/> <port id="pr_ff3b7f0f-24b4-4b74-8498-f0550268817d_p2" x="10264.334" y="16830.16"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eb5c9525-84aa-41b4-82b7-71c5576f8d93"> <bbox w="10.0" h="10.0" x="28804.441" y="12318.083"/> <port id="pr_eb5c9525-84aa-41b4-82b7-71c5576f8d93_p1" x="28809.441" y="12308.083"/> <port id="pr_eb5c9525-84aa-41b4-82b7-71c5576f8d93_p2" x="28809.441" y="12338.083"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5266f094-f6e1-4573-a9ed-48d0b3f04bb6"> <bbox w="10.0" h="10.0" x="30086.0" y="7462.5"/> <port id="pr_5266f094-f6e1-4573-a9ed-48d0b3f04bb6_p1" x="30106.0" y="7467.5"/> <port id="pr_5266f094-f6e1-4573-a9ed-48d0b3f04bb6_p2" x="30076.0" y="7467.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f1b4340c-a8aa-4ea4-874f-cf39645a5fde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> <p>PMID:19440036</p> <p>PMID:19945467</p> <p>PMID:20609352</p> <p>PMID:26597054</p> <p>PMID:17409395</p> <p>PMID:27328425</p> <p>PMID:27572739</p> <p>PMID:24030100</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f1b4340c-a8aa-4ea4-874f-cf39645a5fde"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20609352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030100"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6086.5" y="17488.375"/> <port id="pr_c62b47cb-85e2-4dd8-b0d6-ac77fcf18a26_p1" x="6076.5" y="17493.375"/> <port id="pr_c62b47cb-85e2-4dd8-b0d6-ac77fcf18a26_p2" x="6106.5" y="17493.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_85234d6e-c078-44db-a7f7-f5d0acac70f7"> <bbox w="10.0" h="10.0" x="16659.06" y="18527.5"/> <port id="pr_85234d6e-c078-44db-a7f7-f5d0acac70f7_p1" x="16664.06" y="18547.5"/> <port id="pr_85234d6e-c078-44db-a7f7-f5d0acac70f7_p2" x="16664.06" y="18517.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9ba61ada-89a8-4b8f-9c0f-7cbd378e96c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>part of canonical TGF pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23443.56" y="19292.5"/> <port id="pr_9ba61ada-89a8-4b8f-9c0f-7cbd378e96c4_p1" x="23433.56" y="19297.5"/> <port id="pr_9ba61ada-89a8-4b8f-9c0f-7cbd378e96c4_p2" x="23463.56" y="19297.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_49e7ce68-5ffa-4e8e-90ce-e1112096b59a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16567498</p> <p>PMID:17587822</p> <p>EZH1 and EZH2 are targets of HEYs-mediated transcriptional repression.</p> <p>This finding suggests that TGFB-activated EMT could be controlled through structural histone modification.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation 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id="pr_6e14d0a0-5efa-4366-ad88-a7948682307f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: reactants to re</p> <p>PMID:19092802</p> <p>by WICH complex (subunit identification by mass spectrometry: WSTF and SNF2H)</p> <p>PMID:19234442</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6e14d0a0-5efa-4366-ad88-a7948682307f"> <bqbiol:isEncodedBy> 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x="4664.0" y="6775.0"/> <port id="pr_9827c1da-0826-4cd3-b4ff-518070bf83bf_p2" x="4664.0" y="6805.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6fe68a9e-4cf9-4e87-ab96-5924af4ffe97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22064479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6fe68a9e-4cf9-4e87-ab96-5924af4ffe97"> 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id="pr_9f7ca82f-f5d0-4d80-bd42-11b4a7d543b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4291.283" y="17787.5"/> <port id="pr_9f7ca82f-f5d0-4d80-bd42-11b4a7d543b9_p1" x="4296.283" y="17777.5"/> <port id="pr_9f7ca82f-f5d0-4d80-bd42-11b4a7d543b9_p2" x="4296.283" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_666ccd25-bde4-4913-afc5-441b9ea81383"> <bbox w="10.0" h="10.0" x="23323.31" y="14506.428"/> <port id="pr_666ccd25-bde4-4913-afc5-441b9ea81383_p1" x="23343.31" y="14511.428"/> <port id="pr_666ccd25-bde4-4913-afc5-441b9ea81383_p2" x="23313.31" y="14511.428"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d6f87ea7-6aef-4590-99ed-8daff944c6c3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1522.0994" y="15858.0"/> <port id="pr_476e5cec-af5d-4a8a-95cc-eb0267343366_p1" x="1512.0994" y="15863.0"/> <port id="pr_476e5cec-af5d-4a8a-95cc-eb0267343366_p2" x="1542.0994" y="15863.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a912e4ee-1151-4b0b-ab7c-42055147ab63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>p53 inhibits BRCA1 expression, this is a negative loop as response to the up-regulation and stabilization of p53 by BRCA1:</p> <p>PMID:10884389, PMID:12496474</p> <p>BRIT1*/E2F1 complex activates BRCA1 and CHEK1 transcription during S-phase and G2/M checkpoints:</p> <p>PMID:15220350, PMID:18660752</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a912e4ee-1151-4b0b-ab7c-42055147ab63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10884389"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12496474"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15220350"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18660752"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15202.269" y="10794.426"/> <port id="pr_a912e4ee-1151-4b0b-ab7c-42055147ab63_p1" x="15192.269" y="10799.426"/> <port id="pr_a912e4ee-1151-4b0b-ab7c-42055147ab63_p2" x="15222.269" y="10799.426"/> </glyph> <glyph class="process" orientation="vertical" id="pr_09abc51c-bca9-4223-b86c-08d21d993284"> <bbox w="10.0" h="10.0" x="10145.0" y="2231.25"/> <port id="pr_09abc51c-bca9-4223-b86c-08d21d993284_p1" x="10150.0" y="2221.25"/> <port id="pr_09abc51c-bca9-4223-b86c-08d21d993284_p2" x="10150.0" y="2251.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_1529f2ac-4425-4239-b609-a7918e6ba31f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>By CDC20/APC complex: </p> <p>M to G1 transition</p> <p>By Mitotic checkpoint complex:</p> <p>Spindle checkpoint</p> <p>PARP3 activated spindle checkpoint</p> <p>PMID:21270334</p> <p>Tankyrase activated spindle checkpoint</p> <p>PMID:23197039</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1529f2ac-4425-4239-b609-a7918e6ba31f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21270334"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23197039"/> </rdf:Bag> 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Highest gene expression obtained when SMAD1/b-catenin/TCF4 complex is formed</p> <p>PMID:15576399</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6181c638-20ce-4ac1-ac57-19e0f38f07f6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22761862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15576399"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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<p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3544.7363" y="18958.414"/> <port id="pr_c6e27f64-a763-4a09-b9f8-c95f691c3181_p1" x="3564.7363" y="18963.414"/> <port id="pr_c6e27f64-a763-4a09-b9f8-c95f691c3181_p2" x="3534.7363" y="18963.414"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_69b0a06f-556e-425a-8ab2-bcb39039b7c9"> <bbox w="10.0" h="10.0" x="24093.504" y="15952.75"/> <port id="pr_69b0a06f-556e-425a-8ab2-bcb39039b7c9_p1" x="24083.504" y="15957.75"/> <port id="pr_69b0a06f-556e-425a-8ab2-bcb39039b7c9_p2" x="24113.504" y="15957.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2198ce86-6994-4d7a-a10d-58e257f4ca3c"> <bbox w="10.0" h="10.0" x="29586.803" y="4068.2744"/> <port id="pr_2198ce86-6994-4d7a-a10d-58e257f4ca3c_p1" x="29591.803" y="4058.2744"/> <port id="pr_2198ce86-6994-4d7a-a10d-58e257f4ca3c_p2" x="29591.803" y="4088.2744"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_ae7a288f-c8f6-4378-903f-293abbe47c73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16571352</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ae7a288f-c8f6-4378-903f-293abbe47c73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16571352"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_3b816adf-511f-4683-931f-585e9d8e73cc"> <bbox w="10.0" h="10.0" x="6365.0" y="4143.5"/> <port id="pr_3b816adf-511f-4683-931f-585e9d8e73cc_p1" x="6370.0" y="4133.5"/> <port id="pr_3b816adf-511f-4683-931f-585e9d8e73cc_p2" x="6370.0" y="4163.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0ce2e7fd-31c2-43e9-8eba-4f7806a747ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3191.9392" y="16296.652"/> <port id="pr_0ce2e7fd-31c2-43e9-8eba-4f7806a747ec_p1" x="3211.9392" y="16301.652"/> <port id="pr_0ce2e7fd-31c2-43e9-8eba-4f7806a747ec_p2" x="3181.9392" y="16301.652"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7238a1be-347b-4551-a816-909672dcd48a"> <bbox w="10.0" h="10.0" x="5442.916" y="6280.5"/> <port 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<p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5784.77" y="14392.85"/> <port id="pr_0ad1aa81-5c2d-4213-b916-28490138307b_p1" x="5789.77" y="14412.85"/> <port id="pr_0ad1aa81-5c2d-4213-b916-28490138307b_p2" x="5789.77" y="14382.85"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a04895e-076c-42df-ba31-bb0ac4af9521"> <bbox w="10.0" h="10.0" x="7652.4775" y="15574.768"/> <port id="pr_8a04895e-076c-42df-ba31-bb0ac4af9521_p1" x="7657.4775" y="15564.768"/> <port id="pr_8a04895e-076c-42df-ba31-bb0ac4af9521_p2" x="7657.4775" y="15594.768"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16b90342-69b6-4264-ac25-d96d17449a94"> <bbox w="10.0" h="10.0" x="2653.81" y="21106.5"/> <port id="pr_16b90342-69b6-4264-ac25-d96d17449a94_p1" x="2658.81" y="21096.5"/> <port id="pr_16b90342-69b6-4264-ac25-d96d17449a94_p2" x="2658.81" y="21126.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_691d2c66-8f81-4934-84d3-cf4fdb5bf596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2686.75" y="17511.664"/> <port id="pr_691d2c66-8f81-4934-84d3-cf4fdb5bf596_p1" x="2706.75" y="17516.664"/> <port id="pr_691d2c66-8f81-4934-84d3-cf4fdb5bf596_p2" x="2676.75" y="17516.664"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4cb21cda-4c6b-41f1-888f-152e70ef00bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2179.5" y="12883.0"/> <port id="pr_4cb21cda-4c6b-41f1-888f-152e70ef00bc_p1" x="2169.5" y="12888.0"/> <port id="pr_4cb21cda-4c6b-41f1-888f-152e70ef00bc_p2" x="2199.5" y="12888.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52b96677-9d8b-4369-8564-1138c8f5997d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19150432</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_52b96677-9d8b-4369-8564-1138c8f5997d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19150432"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22744.297" y="11766.37"/> <port id="pr_52b96677-9d8b-4369-8564-1138c8f5997d_p1" x="22734.297" y="11771.37"/> <port id="pr_52b96677-9d8b-4369-8564-1138c8f5997d_p2" x="22764.297" y="11771.37"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b9c90fe1-de18-4526-9311-df04635f3e37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Nuclear shuttling of activated JNK is assumed similarly to ERK.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10077.625" y="20346.61"/> <port id="pr_b9c90fe1-de18-4526-9311-df04635f3e37_p1" x="10097.625" y="20351.61"/> <port id="pr_b9c90fe1-de18-4526-9311-df04635f3e37_p2" x="10067.625" y="20351.61"/> </glyph> <glyph class="process" orientation="vertical" id="pr_05ab1712-668b-4e02-ad05-f05e7ba8a558"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17409411</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_05ab1712-668b-4e02-ad05-f05e7ba8a558"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409411"/> 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id="pr_abd1291c-6fd2-406f-a7d7-212b832943d7"> <bbox w="10.0" h="10.0" x="29776.0" y="4380.0"/> <port id="pr_abd1291c-6fd2-406f-a7d7-212b832943d7_p1" x="29796.0" y="4385.0"/> <port id="pr_abd1291c-6fd2-406f-a7d7-212b832943d7_p2" x="29766.0" y="4385.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4d9bd657-af50-4712-b46a-0df1be43ed51"> <bbox w="10.0" h="10.0" x="29133.56" y="10808.5"/> <port id="pr_4d9bd657-af50-4712-b46a-0df1be43ed51_p1" x="29138.56" y="10828.5"/> <port id="pr_4d9bd657-af50-4712-b46a-0df1be43ed51_p2" x="29138.56" y="10798.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c2c9f73a-a4e6-45e7-808f-61ce89bd585b"> <bbox w="10.0" h="10.0" x="27646.326" y="16305.0"/> <port id="pr_c2c9f73a-a4e6-45e7-808f-61ce89bd585b_p1" x="27651.326" y="16325.0"/> <port id="pr_c2c9f73a-a4e6-45e7-808f-61ce89bd585b_p2" x="27651.326" y="16295.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9f5672f-a15a-4425-9e6d-53489b8b0603"> <bbox w="10.0" h="10.0" x="4680.0" y="2550.5"/> <port id="pr_c9f5672f-a15a-4425-9e6d-53489b8b0603_p1" x="4685.0" y="2570.5"/> <port id="pr_c9f5672f-a15a-4425-9e6d-53489b8b0603_p2" x="4685.0" y="2540.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1526b367-6a07-4541-b9cc-29d0e4036050"> <bbox w="10.0" h="10.0" x="20521.06" y="16948.867"/> <port id="pr_1526b367-6a07-4541-b9cc-29d0e4036050_p1" x="20511.06" y="16953.867"/> <port id="pr_1526b367-6a07-4541-b9cc-29d0e4036050_p2" x="20541.06" y="16953.867"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5abfbcd2-29ea-492c-a727-327df4592cb2"> <bbox w="10.0" h="10.0" x="11982.745" y="5409.5"/> <port id="pr_5abfbcd2-29ea-492c-a727-327df4592cb2_p1" x="11987.745" y="5429.5"/> <port id="pr_5abfbcd2-29ea-492c-a727-327df4592cb2_p2" x="11987.745" y="5399.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2fc01395-5eb0-45a9-8a15-3ecafe1ac8ab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10821856</p> <p>in mouse primary peritoneal macrophages, by NFE2L2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2fc01395-5eb0-45a9-8a15-3ecafe1ac8ab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10821856"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24948.504" y="16166.898"/> <port id="pr_2fc01395-5eb0-45a9-8a15-3ecafe1ac8ab_p1" x="24938.504" y="16171.898"/> <port id="pr_2fc01395-5eb0-45a9-8a15-3ecafe1ac8ab_p2" x="24968.504" y="16171.898"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_70fe3737-a13d-4bd7-a0f1-6de7f5deb52b"> <bbox w="10.0" h="10.0" x="4451.625" y="9728.0"/> <port id="pr_70fe3737-a13d-4bd7-a0f1-6de7f5deb52b_p1" x="4471.625" y="9733.0"/> <port id="pr_70fe3737-a13d-4bd7-a0f1-6de7f5deb52b_p2" x="4441.625" y="9733.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bebcccd8-82b7-48d8-ad11-73b9b23e840b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17490644</p> <p>Snai1 and TCF3 (E47) upregulate both mRNA and protein level of ID1</p> <p>This upregulation depends on SP1 or AP1 co-transcription factors</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bebcccd8-82b7-48d8-ad11-73b9b23e840b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17490644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4736.5" y="16791.234"/> <port id="pr_bebcccd8-82b7-48d8-ad11-73b9b23e840b_p1" x="4726.5" y="16796.234"/> <port id="pr_bebcccd8-82b7-48d8-ad11-73b9b23e840b_p2" x="4756.5" y="16796.234"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_10ee87e2-908f-4d1e-a5d7-29d8d8751e7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18403754</p> <p>PMID:16607286</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_10ee87e2-908f-4d1e-a5d7-29d8d8751e7e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18403754"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16607286"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2895.0" y="16998.262"/> <port id="pr_10ee87e2-908f-4d1e-a5d7-29d8d8751e7e_p1" x="2915.0" y="17003.262"/> <port id="pr_10ee87e2-908f-4d1e-a5d7-29d8d8751e7e_p2" x="2885.0" y="17003.262"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_252b0c6c-bbf8-4a5a-b533-ed14fa8e75fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20713526</p> <p>CDK2 bind and phosphorylate MYC. Both CDK2 and phosphorylated MYC inhibit senescence genes</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID:28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID:17055429</p> <p>MYC stimulate P53 and ARF</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_252b0c6c-bbf8-4a5a-b533-ed14fa8e75fe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28536364"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3610.5" y="14691.241"/> <port id="pr_252b0c6c-bbf8-4a5a-b533-ed14fa8e75fe_p1" x="3630.5" y="14696.241"/> <port id="pr_252b0c6c-bbf8-4a5a-b533-ed14fa8e75fe_p2" x="3600.5" y="14696.241"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e28410f0-33c7-49d3-b2c9-0748d32a5efe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15133513</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e28410f0-33c7-49d3-b2c9-0748d32a5efe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15133513"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2930.5708" y="20927.0"/> <port id="pr_e28410f0-33c7-49d3-b2c9-0748d32a5efe_p1" x="2935.5708" y="20947.0"/> <port id="pr_e28410f0-33c7-49d3-b2c9-0748d32a5efe_p2" x="2935.5708" y="20917.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e74c65a8-2291-43e9-9fcd-8460596bc76c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6236.5" y="12573.869"/> <port id="pr_e74c65a8-2291-43e9-9fcd-8460596bc76c_p1" x="6256.5" y="12578.869"/> <port id="pr_e74c65a8-2291-43e9-9fcd-8460596bc76c_p2" x="6226.5" y="12578.869"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4f657c53-0c60-4dfd-bb2a-3f0335dd46c7"> <bbox w="10.0" h="10.0" x="20895.0" y="7613.5"/> <port id="pr_4f657c53-0c60-4dfd-bb2a-3f0335dd46c7_p1" x="20900.0" y="7633.5"/> <port id="pr_4f657c53-0c60-4dfd-bb2a-3f0335dd46c7_p2" x="20900.0" y="7603.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_709018b4-08eb-4b36-b08a-ca7c78f96ccb"> <bbox w="10.0" h="10.0" 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id="pr_e727e50a-6ae2-4cfa-a89b-7206dad1ac14_p1" x="8342.217" y="15770.809"/> <port id="pr_e727e50a-6ae2-4cfa-a89b-7206dad1ac14_p2" x="8312.217" y="15770.809"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d83693de-0af0-4e84-b05c-a867c9471470"> <bbox w="10.0" h="10.0" x="2779.5454" y="2915.0"/> <port id="pr_d83693de-0af0-4e84-b05c-a867c9471470_p1" x="2769.5454" y="2920.0"/> <port id="pr_d83693de-0af0-4e84-b05c-a867c9471470_p2" x="2799.5454" y="2920.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aa928052-dcef-46ca-b093-6aeb102209a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21416054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa928052-dcef-46ca-b093-6aeb102209a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21416054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21156.06" y="22658.6"/> <port id="pr_aa928052-dcef-46ca-b093-6aeb102209a4_p1" x="21146.06" y="22663.6"/> <port id="pr_aa928052-dcef-46ca-b093-6aeb102209a4_p2" x="21176.06" y="22663.6"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_651aeb95-2ac5-4583-92d5-bb4d8c6f6154"> <bbox w="10.0" h="10.0" x="24766.56" y="15628.5"/> <port id="pr_651aeb95-2ac5-4583-92d5-bb4d8c6f6154_p1" x="24756.56" y="15633.5"/> <port id="pr_651aeb95-2ac5-4583-92d5-bb4d8c6f6154_p2" x="24786.56" y="15633.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6f435403-d8c1-4ff1-b3ab-4e5ab0dd0262"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5994.2197" y="14522.893"/> <port id="pr_6f435403-d8c1-4ff1-b3ab-4e5ab0dd0262_p1" x="6014.2197" y="14527.893"/> <port id="pr_6f435403-d8c1-4ff1-b3ab-4e5ab0dd0262_p2" x="5984.2197" y="14527.893"/> </glyph> <glyph class="process" orientation="vertical" id="pr_38bea770-8165-4061-8004-30a1079995e0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9604935</p> <p>Phosphorylation of ERK-1/2 promotes its homodimerization</p> <p>PMID:18775330</p> <p>Scaffolds and ERK dimers are essential for the activation of cytoplasmic but not nuclear substrates. </p> <p>Dimerization is critical for connecting the scaffolded ERK complex to cognate cytoplasmic substrates. </p> <p>Contrarily, nuclear substrates associate to ERK monomers.</p> <p>PMID:9155017</p> <p>Mnk1 and Mnk2 bind to Erk1, Erk2 and p38 but not JNK</p> <p>Mnk1 and Mnk2 are in vitro substrates of Erk2 and p38</p> <p>Mnk1 is a MAP kinase-activated eIF-4E kinase</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_38bea770-8165-4061-8004-30a1079995e0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9604935"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9155017"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6317.0" y="13697.0"/> <port id="pr_38bea770-8165-4061-8004-30a1079995e0_p1" x="6322.0" y="13687.0"/> <port id="pr_38bea770-8165-4061-8004-30a1079995e0_p2" x="6322.0" y="13717.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2224fe0f-ac8f-446f-8018-cf33529a110f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23846383</p> <p>Central to this outcome is the cell capacity to generate sufficient ATP and its ability to meet metabolic demands.</p> <p>PMID:27754749</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2224fe0f-ac8f-446f-8018-cf33529a110f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27754749"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28583.436" y="12455.158"/> <port id="pr_2224fe0f-ac8f-446f-8018-cf33529a110f_p1" x="28573.436" y="12460.158"/> <port id="pr_2224fe0f-ac8f-446f-8018-cf33529a110f_p2" x="28603.436" y="12460.158"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_16e08671-26dd-497f-9844-673373cf9d46"> <bbox w="10.0" h="10.0" x="18207.729" y="11456.392"/> <port id="pr_16e08671-26dd-497f-9844-673373cf9d46_p1" x="18227.729" y="11461.392"/> <port id="pr_16e08671-26dd-497f-9844-673373cf9d46_p2" x="18197.729" y="11461.392"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5e7cf31d-0251-481d-9520-1e37c0bbfaab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25870.81" y="15636.25"/> <port id="pr_5e7cf31d-0251-481d-9520-1e37c0bbfaab_p1" x="25890.81" y="15641.25"/> <port id="pr_5e7cf31d-0251-481d-9520-1e37c0bbfaab_p2" x="25860.81" y="15641.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df377a73-9420-40b1-a1b0-77b7d29a02d9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17318175 PMID:19581931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_df377a73-9420-40b1-a1b0-77b7d29a02d9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17318175"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20612.06" y="18057.654"/> <port id="pr_df377a73-9420-40b1-a1b0-77b7d29a02d9_p1" x="20602.06" y="18062.654"/> <port id="pr_df377a73-9420-40b1-a1b0-77b7d29a02d9_p2" x="20632.06" y="18062.654"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d2d07fc1-15ff-4653-8459-eceaa4241fd1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19736394</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2d07fc1-15ff-4653-8459-eceaa4241fd1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19736394"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26791.56" y="20492.8"/> <port id="pr_d2d07fc1-15ff-4653-8459-eceaa4241fd1_p1" x="26781.56" y="20497.8"/> <port id="pr_d2d07fc1-15ff-4653-8459-eceaa4241fd1_p2" x="26811.56" y="20497.8"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60e49e8e-a43c-41f8-b253-f47d7aaf653d"> <bbox w="10.0" h="10.0" x="3505.0" y="4393.75"/> <port id="pr_60e49e8e-a43c-41f8-b253-f47d7aaf653d_p1" x="3510.0" y="4383.75"/> <port id="pr_60e49e8e-a43c-41f8-b253-f47d7aaf653d_p2" x="3510.0" y="4413.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_70449c61-af17-42d1-ba36-7f4f7d5cc886"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> <p>SWI/SNF</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_70449c61-af17-42d1-ba36-7f4f7d5cc886"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22290435"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20903.31" y="22344.143"/> <port id="pr_70449c61-af17-42d1-ba36-7f4f7d5cc886_p1" x="20893.31" y="22349.143"/> <port id="pr_70449c61-af17-42d1-ba36-7f4f7d5cc886_p2" x="20923.31" y="22349.143"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a52bad39-2b8f-400e-a5bd-6a7f4c5465e0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9465032</p> <p>PMID:12087098</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a52bad39-2b8f-400e-a5bd-6a7f4c5465e0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9465032"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12087098"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27089.56" y="12101.5"/> <port id="pr_a52bad39-2b8f-400e-a5bd-6a7f4c5465e0_p1" x="27079.56" y="12106.5"/> <port id="pr_a52bad39-2b8f-400e-a5bd-6a7f4c5465e0_p2" x="27109.56" y="12106.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_816fbcf2-1748-48be-9729-7c26d6bc3557"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Expression of GADD45 genes in mammalian cells strongly activates co-expressed MTK1 as well as P38 and JNK the MAPKs downstream of MTK1.</p> <p>GADD45alpha/beta are direct MEKK4 interactors. They are involved in genotoxin regulation of MEKK4 signalling to JNK and P38</p> <p>PMID:21614932 PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_816fbcf2-1748-48be-9729-7c26d6bc3557"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11496.475" y="19732.027"/> <port id="pr_816fbcf2-1748-48be-9729-7c26d6bc3557_p1" x="11516.475" y="19737.027"/> <port id="pr_816fbcf2-1748-48be-9729-7c26d6bc3557_p2" x="11486.475" y="19737.027"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a93b3790-129c-4c3b-9228-44b437bc4532"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5536.7275" y="16094.834"/> <port id="pr_a93b3790-129c-4c3b-9228-44b437bc4532_p1" x="5526.7275" y="16099.834"/> <port id="pr_a93b3790-129c-4c3b-9228-44b437bc4532_p2" x="5556.7275" y="16099.834"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cfb5ba7e-0d7d-449c-90f1-dbff266c59f9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5156.0" y="15064.0"/> <port id="pr_cfb5ba7e-0d7d-449c-90f1-dbff266c59f9_p1" x="5176.0" y="15069.0"/> <port id="pr_cfb5ba7e-0d7d-449c-90f1-dbff266c59f9_p2" x="5146.0" y="15069.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_83948461-adad-4f63-91c1-6eaa9dbc5251"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Requirement for functional DNA polymerase eta in genome-wide repair by NER of UV-induced DNA damage during S phase:</p> <p>PMID:20457011</p> <p>Link between Fanconi and NER</p> <p>PMID:22615860</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83948461-adad-4f63-91c1-6eaa9dbc5251"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20457011"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22615860"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8597.273" y="15722.3"/> <port id="pr_83948461-adad-4f63-91c1-6eaa9dbc5251_p1" x="8602.273" y="15712.3"/> <port id="pr_83948461-adad-4f63-91c1-6eaa9dbc5251_p2" x="8602.273" y="15742.3"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_4c8682d8-dc81-4c3d-adcb-b7fb8ef1c854"> <bbox w="20.0" h="20.0" x="12640.514" y="15302.624"/> <port id="logicglyph_4c8682d8-dc81-4c3d-adcb-b7fb8ef1c854_p1" x="12670.514" y="15312.624"/> <port id="logicglyph_4c8682d8-dc81-4c3d-adcb-b7fb8ef1c854_p2" x="12630.514" y="15312.624"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3ccc9669-411b-4adc-b61f-403594197b15"> <bbox w="10.0" h="10.0" x="5860.81" y="22047.59"/> <port id="pr_3ccc9669-411b-4adc-b61f-403594197b15_p1" x="5880.81" y="22052.59"/> <port id="pr_3ccc9669-411b-4adc-b61f-403594197b15_p2" x="5850.81" y="22052.59"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c0b78f74-5ea8-43a8-a764-66cae8773e35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20347994</p> <p>PMID:10862767</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c0b78f74-5ea8-43a8-a764-66cae8773e35"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20347994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10862767"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16660.06" y="18387.5"/> <port id="pr_c0b78f74-5ea8-43a8-a764-66cae8773e35_p1" x="16665.06" y="18407.5"/> <port id="pr_c0b78f74-5ea8-43a8-a764-66cae8773e35_p2" x="16665.06" y="18377.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6b2caf25-eab2-406b-be25-6aafc4402224"> <bbox w="10.0" h="10.0" x="3613.125" y="4635.5356"/> <port id="pr_6b2caf25-eab2-406b-be25-6aafc4402224_p1" x="3633.125" y="4640.5356"/> <port id="pr_6b2caf25-eab2-406b-be25-6aafc4402224_p2" x="3603.125" y="4640.5356"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_84c3640e-ebbf-4ff5-94b4-befc86ab7374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20599425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_84c3640e-ebbf-4ff5-94b4-befc86ab7374"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20599425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24852.81" y="9154.281"/> <port id="pr_84c3640e-ebbf-4ff5-94b4-befc86ab7374_p1" x="24872.81" y="9159.281"/> <port id="pr_84c3640e-ebbf-4ff5-94b4-befc86ab7374_p2" x="24842.81" y="9159.281"/> </glyph> <glyph class="process" orientation="vertical" id="pr_68aa4366-c284-43af-a11e-a508f3efcca7"> <bbox w="10.0" h="10.0" x="12805.0" y="4770.0"/> <port id="pr_68aa4366-c284-43af-a11e-a508f3efcca7_p1" x="12810.0" y="4760.0"/> <port id="pr_68aa4366-c284-43af-a11e-a508f3efcca7_p2" x="12810.0" y="4790.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_75d60d60-7ae3-4e60-8806-57e5b5cb9fdf"> <bbox w="10.0" h="10.0" x="26811.0" y="7761.25"/> <port id="pr_75d60d60-7ae3-4e60-8806-57e5b5cb9fdf_p1" x="26816.0" y="7751.25"/> <port id="pr_75d60d60-7ae3-4e60-8806-57e5b5cb9fdf_p2" x="26816.0" y="7781.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d1e76e73-488c-403b-ac66-1c2bed6211b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19190345 PMID:16880536</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1e76e73-488c-403b-ac66-1c2bed6211b2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19190345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21691.0"/> <port id="pr_d1e76e73-488c-403b-ac66-1c2bed6211b2_p1" x="26547.56" y="21696.0"/> <port id="pr_d1e76e73-488c-403b-ac66-1c2bed6211b2_p2" x="26577.56" y="21696.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_97407095-9207-4bd5-b678-63f8210af6a7"> <bbox w="10.0" h="10.0" x="19344.156" y="11710.338"/> <port id="pr_97407095-9207-4bd5-b678-63f8210af6a7_p1" x="19349.156" y="11700.338"/> <port id="pr_97407095-9207-4bd5-b678-63f8210af6a7_p2" x="19349.156" y="11730.338"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9303485d-e802-458c-b6b7-804306f44983"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18082613</p> <p>in vitro</p> <p>in 293T, interaction of endogenous of overexpressed cIAP1 and MAD1</p> <p>in 293T, a RING mutant of cIAP1 does not induce polyubiquitinylation and degradation of MAD1 as the wt does</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9303485d-e802-458c-b6b7-804306f44983"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082613"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24315.81" y="16638.0"/> <port id="pr_9303485d-e802-458c-b6b7-804306f44983_p1" x="24320.81" y="16628.0"/> <port id="pr_9303485d-e802-458c-b6b7-804306f44983_p2" x="24320.81" y="16658.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_237d578f-0fc0-4dfb-8707-a57e4f78a5f1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_237d578f-0fc0-4dfb-8707-a57e4f78a5f1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27586.06" y="21723.957"/> <port id="pr_237d578f-0fc0-4dfb-8707-a57e4f78a5f1_p1" x="27576.06" y="21728.957"/> <port id="pr_237d578f-0fc0-4dfb-8707-a57e4f78a5f1_p2" x="27606.06" y="21728.957"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9e3c576b-92ae-45aa-ab71-6e205a4a6540"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8879205</p> <p>release of AIF is blocked by BCL2 overexpression</p> <p>but data supporting direct involvment of MOMP not found in the literature</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9e3c576b-92ae-45aa-ab71-6e205a4a6540"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8879205"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22735.535" y="12583.375"/> <port id="pr_9e3c576b-92ae-45aa-ab71-6e205a4a6540_p1" x="22725.535" y="12588.375"/> <port id="pr_9e3c576b-92ae-45aa-ab71-6e205a4a6540_p2" x="22755.535" y="12588.375"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_7cfda71c-0bc7-4ae7-a866-4461cba2ff73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3550.7275" y="19066.0"/> <port id="pr_7cfda71c-0bc7-4ae7-a866-4461cba2ff73_p1" x="3555.7275" y="19056.0"/> <port id="pr_7cfda71c-0bc7-4ae7-a866-4461cba2ff73_p2" x="3555.7275" y="19086.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa57e828-e1e2-4d83-a7ea-be17e503645d"> <bbox w="10.0" h="10.0" x="10834.75" y="3860.75"/> <port id="pr_aa57e828-e1e2-4d83-a7ea-be17e503645d_p1" x="10839.75" y="3850.75"/> <port id="pr_aa57e828-e1e2-4d83-a7ea-be17e503645d_p2" x="10839.75" y="3880.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0f031858-e7fc-4ca8-89b8-5de49ad8198a"> <bbox w="10.0" h="10.0" x="2205.0" y="4326.25"/> <port id="pr_0f031858-e7fc-4ca8-89b8-5de49ad8198a_p1" x="2210.0" y="4316.25"/> <port id="pr_0f031858-e7fc-4ca8-89b8-5de49ad8198a_p2" x="2210.0" y="4346.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_afdddeb5-8096-4014-b829-0cbe139f5aee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18586673</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_afdddeb5-8096-4014-b829-0cbe139f5aee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18586673"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28310.81" y="11609.583"/> <port id="pr_afdddeb5-8096-4014-b829-0cbe139f5aee_p1" x="28300.81" y="11614.583"/> <port id="pr_afdddeb5-8096-4014-b829-0cbe139f5aee_p2" x="28330.81" y="11614.583"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e73a64d-63fd-4ffe-aa31-d3dc4b8613ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:22275375, PMID:15657064, PMID:16396959, PMID:16998587</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1e73a64d-63fd-4ffe-aa31-d3dc4b8613ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22275375"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15657064"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396959"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16998587"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15760.201" y="20783.5"/> <port id="pr_1e73a64d-63fd-4ffe-aa31-d3dc4b8613ac_p1" x="15765.201" y="20773.5"/> <port id="pr_1e73a64d-63fd-4ffe-aa31-d3dc4b8613ac_p2" x="15765.201" y="20803.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7a2857f7-c5f9-49e7-b738-aee7583efa3d"> <bbox w="10.0" h="10.0" x="3885.0" y="2407.5"/> <port id="pr_7a2857f7-c5f9-49e7-b738-aee7583efa3d_p1" x="3890.0" y="2397.5"/> <port id="pr_7a2857f7-c5f9-49e7-b738-aee7583efa3d_p2" x="3890.0" y="2427.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_0bf6a6d8-4586-4d7d-b5e3-e13d955ed921"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="991.2291" y="18075.0"/> <port id="pr_0bf6a6d8-4586-4d7d-b5e3-e13d955ed921_p1" x="996.2291" y="18065.0"/> <port id="pr_0bf6a6d8-4586-4d7d-b5e3-e13d955ed921_p2" x="996.2291" y="18095.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4e630449-c601-4343-805d-707ff471c459"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Src phosphorylates Y654 residue on b-catenin</p> <p>PMID:16099633</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4e630449-c601-4343-805d-707ff471c459"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16099633"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23882.56" y="18953.5"/> <port id="pr_4e630449-c601-4343-805d-707ff471c459_p1" x="23872.56" y="18958.5"/> <port id="pr_4e630449-c601-4343-805d-707ff471c459_p2" x="23902.56" y="18958.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_834182c2-c591-4d35-9437-649660bad087"> <bbox w="10.0" h="10.0" x="23943.31" y="13406.674"/> <port id="pr_834182c2-c591-4d35-9437-649660bad087_p1" x="23963.31" y="13411.674"/> <port id="pr_834182c2-c591-4d35-9437-649660bad087_p2" x="23933.31" y="13411.674"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7abc6c47-6ae6-4220-8004-9b84b7283c81"> <bbox w="10.0" h="10.0" x="27476.326" y="16100.0"/> <port id="pr_7abc6c47-6ae6-4220-8004-9b84b7283c81_p1" x="27481.326" y="16120.0"/> <port id="pr_7abc6c47-6ae6-4220-8004-9b84b7283c81_p2" x="27481.326" y="16090.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_37756cd7-53a9-4733-9e0f-ac707d4acf6a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19567869</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_37756cd7-53a9-4733-9e0f-ac707d4acf6a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19567869"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1608.875" y="14016.75"/> <port id="pr_37756cd7-53a9-4733-9e0f-ac707d4acf6a_p1" x="1628.875" y="14021.75"/> <port id="pr_37756cd7-53a9-4733-9e0f-ac707d4acf6a_p2" x="1598.875" y="14021.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_293759ab-840f-480a-9db9-5edbcfa2ef89"> <bbox w="10.0" h="10.0" x="20749.31" y="18173.25"/> <port id="pr_293759ab-840f-480a-9db9-5edbcfa2ef89_p1" x="20754.31" y="18163.25"/> <port id="pr_293759ab-840f-480a-9db9-5edbcfa2ef89_p2" x="20754.31" y="18193.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_39e8ec80-ad7d-4f4a-9672-0f1e56f642a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16115609</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_39e8ec80-ad7d-4f4a-9672-0f1e56f642a9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16115609"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27890.336" y="10420.885"/> <port id="pr_39e8ec80-ad7d-4f4a-9672-0f1e56f642a9_p1" x="27895.336" y="10410.885"/> <port id="pr_39e8ec80-ad7d-4f4a-9672-0f1e56f642a9_p2" x="27895.336" y="10440.885"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c4428f1-3bba-455b-ab34-db4fb1d18828"> <bbox w="10.0" h="10.0" x="18660.56" y="9714.0"/> <port id="pr_9c4428f1-3bba-455b-ab34-db4fb1d18828_p1" x="18680.56" y="9719.0"/> <port id="pr_9c4428f1-3bba-455b-ab34-db4fb1d18828_p2" x="18650.56" y="9719.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd48453d-0b1b-45d9-8961-f31f81f2f0a9"> <bbox w="10.0" h="10.0" x="18004.06" y="9864.0"/> <port id="pr_fd48453d-0b1b-45d9-8961-f31f81f2f0a9_p1" x="17994.06" y="9869.0"/> <port id="pr_fd48453d-0b1b-45d9-8961-f31f81f2f0a9_p2" x="18024.06" y="9869.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_252f2210-7584-4557-bd40-5c59943266be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19930715</p> <p>PMID:26597054</p> <p>PMID:27572739</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_252f2210-7584-4557-bd40-5c59943266be"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4888.75" y="11294.25"/> <port id="pr_252f2210-7584-4557-bd40-5c59943266be_p1" x="4893.75" y="11284.25"/> <port id="pr_252f2210-7584-4557-bd40-5c59943266be_p2" x="4893.75" y="11314.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_66a4f253-7b99-4e3b-b080-8e3442c0779d"> <bbox w="10.0" h="10.0" x="14451.756" y="16719.186"/> <port id="pr_66a4f253-7b99-4e3b-b080-8e3442c0779d_p1" x="14471.756" y="16724.186"/> <port id="pr_66a4f253-7b99-4e3b-b080-8e3442c0779d_p2" x="14441.756" y="16724.186"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fc28a03a-13b0-450a-9ce2-4f1c9fb28194"> <bbox w="10.0" h="10.0" x="23584.31" y="21765.0"/> <port id="pr_fc28a03a-13b0-450a-9ce2-4f1c9fb28194_p1" x="23574.31" y="21770.0"/> <port id="pr_fc28a03a-13b0-450a-9ce2-4f1c9fb28194_p2" x="23604.31" y="21770.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_673ab4d2-9831-454e-aec8-51110bb6975a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25103.055" y="13952.939"/> <port id="pr_673ab4d2-9831-454e-aec8-51110bb6975a_p1" x="25108.055" y="13972.939"/> <port id="pr_673ab4d2-9831-454e-aec8-51110bb6975a_p2" x="25108.055" y="13942.939"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e2ab439b-c95d-4047-a3a2-ae8000ca2563"> <bbox w="10.0" h="10.0" x="1296.25" y="4337.5"/> <port id="pr_e2ab439b-c95d-4047-a3a2-ae8000ca2563_p1" x="1301.25" y="4327.5"/> <port id="pr_e2ab439b-c95d-4047-a3a2-ae8000ca2563_p2" x="1301.25" y="4357.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f2538332-969d-4a7a-903c-da5ef2598471"> <bbox w="10.0" h="10.0" x="29160.06" y="10511.0"/> <port id="pr_f2538332-969d-4a7a-903c-da5ef2598471_p1" x="29180.06" y="10516.0"/> <port id="pr_f2538332-969d-4a7a-903c-da5ef2598471_p2" x="29150.06" y="10516.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a2a0c7b5-925c-4d0f-b0ff-3844712fce88"> <bbox w="10.0" h="10.0" x="20540.0" y="825.0"/> <port id="pr_a2a0c7b5-925c-4d0f-b0ff-3844712fce88_p1" x="20545.0" y="815.0"/> <port id="pr_a2a0c7b5-925c-4d0f-b0ff-3844712fce88_p2" x="20545.0" y="845.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f6329b1e-cf98-47f6-a3ed-1c7190a4b955"> <bbox w="10.0" h="10.0" x="26689.764" y="16080.25"/> <port id="pr_f6329b1e-cf98-47f6-a3ed-1c7190a4b955_p1" x="26694.764" y="16100.25"/> <port id="pr_f6329b1e-cf98-47f6-a3ed-1c7190a4b955_p2" x="26694.764" y="16070.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c4f315e7-579c-409f-8424-a6994cc0e2aa"> <bbox w="10.0" h="10.0" x="23070.0" y="3972.5"/> <port id="pr_c4f315e7-579c-409f-8424-a6994cc0e2aa_p1" x="23075.0" y="3962.5"/> <port id="pr_c4f315e7-579c-409f-8424-a6994cc0e2aa_p2" x="23075.0" y="3992.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c871913d-31f6-470b-a7b2-3da66f9c2ef2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7818469</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c871913d-31f6-470b-a7b2-3da66f9c2ef2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7818469"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18740.06" y="14576.5"/> <port id="pr_c871913d-31f6-470b-a7b2-3da66f9c2ef2_p1" x="18745.06" y="14566.5"/> <port id="pr_c871913d-31f6-470b-a7b2-3da66f9c2ef2_p2" x="18745.06" y="14596.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c807dadd-e894-48a0-9446-b4ab4c6014fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21237163</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c807dadd-e894-48a0-9446-b4ab4c6014fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21237163"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17073.686" y="18225.506"/> <port id="pr_c807dadd-e894-48a0-9446-b4ab4c6014fc_p1" x="17063.686" y="18230.506"/> <port id="pr_c807dadd-e894-48a0-9446-b4ab4c6014fc_p2" x="17093.686" y="18230.506"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_626bcbbc-5b2d-487a-a926-fab6cfd288b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_626bcbbc-5b2d-487a-a926-fab6cfd288b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12686.311" y="21329.0"/> <port id="pr_626bcbbc-5b2d-487a-a926-fab6cfd288b4_p1" x="12676.311" y="21334.0"/> <port id="pr_626bcbbc-5b2d-487a-a926-fab6cfd288b4_p2" x="12706.311" y="21334.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_147be7cc-84db-4b02-992c-e1dabeeceb01"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_147be7cc-84db-4b02-992c-e1dabeeceb01"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20903.31" y="22310.277"/> <port id="pr_147be7cc-84db-4b02-992c-e1dabeeceb01_p1" x="20893.31" y="22315.277"/> <port id="pr_147be7cc-84db-4b02-992c-e1dabeeceb01_p2" x="20923.31" y="22315.277"/> </glyph> <glyph class="process" orientation="vertical" id="pr_84ea103c-8805-45b7-89be-82822beb4305"> <bbox w="10.0" h="10.0" x="5032.2915" y="4556.25"/> <port id="pr_84ea103c-8805-45b7-89be-82822beb4305_p1" x="5037.2915" y="4546.25"/> <port id="pr_84ea103c-8805-45b7-89be-82822beb4305_p2" x="5037.2915" y="4576.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_517ca75e-76db-4017-bb82-9962e1a99364"> <bbox w="10.0" h="10.0" x="3522.5" y="4695.4097"/> <port id="pr_517ca75e-76db-4017-bb82-9962e1a99364_p1" x="3512.5" y="4700.4097"/> <port id="pr_517ca75e-76db-4017-bb82-9962e1a99364_p2" x="3542.5" y="4700.4097"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9d42e3f4-6f99-422a-bc0e-03c40c637e7a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>9-1-1 complex activates TDG glycosylase and activates BER:</p> <p>PMID:17855402</p> <p>DNA with O6-methylguanine adducts, MutSalpha and MutLalpha activate ATR/ATRIP and BER pathways performs the repair:</p> <p>PMID:16713580, PMID:18543256</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9d42e3f4-6f99-422a-bc0e-03c40c637e7a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17855402"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713580"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18543256"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10258.334" y="15618.068"/> <port id="pr_9d42e3f4-6f99-422a-bc0e-03c40c637e7a_p1" x="10263.334" y="15608.068"/> <port id="pr_9d42e3f4-6f99-422a-bc0e-03c40c637e7a_p2" x="10263.334" y="15638.068"/> </glyph> <glyph class="process" orientation="vertical" id="pr_65c0b085-2248-4078-96cf-4486ee45c2db"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2107.0" y="18088.383"/> <port id="pr_65c0b085-2248-4078-96cf-4486ee45c2db_p1" x="2112.0" y="18078.383"/> <port id="pr_65c0b085-2248-4078-96cf-4486ee45c2db_p2" x="2112.0" y="18108.383"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_8438864b-dea4-4068-a1f9-3db0e1422fe1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997 PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8438864b-dea4-4068-a1f9-3db0e1422fe1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20851997"/> </rdf:Bag> 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<p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5679.294" y="18449.25"/> <port id="pr_a8d9ac9b-f97e-4304-8abc-ce72c738c402_p1" x="5684.294" y="18469.25"/> <port id="pr_a8d9ac9b-f97e-4304-8abc-ce72c738c402_p2" x="5684.294" y="18439.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_7be08820-cdf2-4056-96c5-f18bed614a36"> <bbox w="10.0" h="10.0" x="19814.06" y="11903.6875"/> <port id="pr_7be08820-cdf2-4056-96c5-f18bed614a36_p1" x="19819.06" y="11893.6875"/> <port id="pr_7be08820-cdf2-4056-96c5-f18bed614a36_p2" x="19819.06" y="11923.6875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7769336e-55f4-4fbb-884a-6ee9210d48b6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21285253 PMID:21346143</p> </body> </html> </notes> <extension> <annotation xmlns="" 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class="process" orientation="vertical" id="pr_18dd3d65-8799-4d3c-a402-53eacdda742d"> <bbox w="10.0" h="10.0" x="29126.0" y="8462.5"/> <port id="pr_18dd3d65-8799-4d3c-a402-53eacdda742d_p1" x="29131.0" y="8452.5"/> <port id="pr_18dd3d65-8799-4d3c-a402-53eacdda742d_p2" x="29131.0" y="8482.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1fb9167e-b3da-4199-b4ed-7fb29e37fd3c"> <bbox w="10.0" h="10.0" x="20895.0" y="7613.5"/> <port id="pr_1fb9167e-b3da-4199-b4ed-7fb29e37fd3c_p1" x="20900.0" y="7603.5"/> <port id="pr_1fb9167e-b3da-4199-b4ed-7fb29e37fd3c_p2" x="20900.0" y="7633.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d789d5e2-4343-47da-bb8a-28829bd34693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4271.0" y="14676.5"/> <port id="pr_d789d5e2-4343-47da-bb8a-28829bd34693_p1" x="4261.0" y="14681.5"/> <port id="pr_d789d5e2-4343-47da-bb8a-28829bd34693_p2" x="4291.0" y="14681.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7b736cb8-dfac-40c9-93fa-f443d42493b4"> <bbox w="10.0" h="10.0" x="28761.0" y="3495.0"/> <port id="pr_7b736cb8-dfac-40c9-93fa-f443d42493b4_p1" x="28766.0" y="3485.0"/> <port id="pr_7b736cb8-dfac-40c9-93fa-f443d42493b4_p2" x="28766.0" y="3515.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_598d215b-75a2-4c36-969a-f8f48d2b9a1f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1631.0" y="13568.588"/> <port id="pr_598d215b-75a2-4c36-969a-f8f48d2b9a1f_p1" x="1621.0" y="13573.588"/> <port id="pr_598d215b-75a2-4c36-969a-f8f48d2b9a1f_p2" x="1651.0" y="13573.588"/> </glyph> <glyph class="process" orientation="vertical" id="pr_21d5dea5-fd1e-4e89-b854-904254965c8b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1089.5046" y="17852.75"/> <port id="pr_21d5dea5-fd1e-4e89-b854-904254965c8b_p1" x="1094.5046" y="17842.75"/> <port id="pr_21d5dea5-fd1e-4e89-b854-904254965c8b_p2" x="1094.5046" y="17872.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_81be3a39-437e-4271-a45a-5c713ff8ffa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19543238</p> <p>Interfering with multimerization of netrin-1 receptors triggers tumor cell death</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_81be3a39-437e-4271-a45a-5c713ff8ffa7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19543238"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19027.611" y="9134.319"/> <port id="pr_81be3a39-437e-4271-a45a-5c713ff8ffa7_p1" x="19017.611" y="9139.319"/> <port id="pr_81be3a39-437e-4271-a45a-5c713ff8ffa7_p2" 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class="process" orientation="vertical" id="pr_d8b82d6e-8ab6-4179-b396-22a6d50de507"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> <p>PMID:19945467</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d8b82d6e-8ab6-4179-b396-22a6d50de507"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3330.4375" y="10125.8125"/> <port id="pr_d8b82d6e-8ab6-4179-b396-22a6d50de507_p1" x="3335.4375" y="10145.8125"/> <port id="pr_d8b82d6e-8ab6-4179-b396-22a6d50de507_p2" x="3335.4375" y="10115.8125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb1459bc-2fc9-4f92-a8b6-870732f869e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23178297</p> <p>PMID:27526109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bb1459bc-2fc9-4f92-a8b6-870732f869e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23178297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27526109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2039.3333" y="10692.166"/> <port id="pr_bb1459bc-2fc9-4f92-a8b6-870732f869e7_p1" x="2044.3333" y="10712.166"/> <port id="pr_bb1459bc-2fc9-4f92-a8b6-870732f869e7_p2" x="2044.3333" y="10682.166"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_7ed05395-2d85-45df-887d-22296eb3805b"> <bbox w="20.0" h="20.0" x="1980.0513" y="10730.839"/> <port id="logicglyph_7ed05395-2d85-45df-887d-22296eb3805b_p1" x="1970.0513" y="10740.839"/> <port id="logicglyph_7ed05395-2d85-45df-887d-22296eb3805b_p2" x="2010.0513" y="10740.839"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_27a4f7c2-5395-45f9-84ca-d366af42cbe8"> <bbox w="10.0" h="10.0" x="22067.242" y="13624.0"/> <port id="pr_27a4f7c2-5395-45f9-84ca-d366af42cbe8_p1" x="22087.242" y="13629.0"/> <port id="pr_27a4f7c2-5395-45f9-84ca-d366af42cbe8_p2" x="22057.242" y="13629.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f3698a25-f429-4045-8fbf-53f17465f5e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> <p>PMID:9106657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f3698a25-f429-4045-8fbf-53f17465f5e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18414028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9106657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13044.061" y="20550.25"/> <port id="pr_f3698a25-f429-4045-8fbf-53f17465f5e7_p1" x="13049.061" y="20540.25"/> <port id="pr_f3698a25-f429-4045-8fbf-53f17465f5e7_p2" x="13049.061" y="20570.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13f0dce1-3013-4bd8-83ee-264c03c137a4"> <bbox w="10.0" h="10.0" x="26991.0" y="8336.25"/> <port id="pr_13f0dce1-3013-4bd8-83ee-264c03c137a4_p1" x="26996.0" y="8326.25"/> <port id="pr_13f0dce1-3013-4bd8-83ee-264c03c137a4_p2" x="26996.0" y="8356.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_390d5ab1-6610-4bf1-b5b9-004d77672a92"> <bbox w="10.0" h="10.0" x="23440.686" y="13784.0"/> <port id="pr_390d5ab1-6610-4bf1-b5b9-004d77672a92_p1" x="23445.686" y="13804.0"/> <port id="pr_390d5ab1-6610-4bf1-b5b9-004d77672a92_p2" x="23445.686" y="13774.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af43cdfc-a637-41fc-9cdc-d94bf492b57d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2449.0" y="12898.5"/> <port id="pr_af43cdfc-a637-41fc-9cdc-d94bf492b57d_p1" x="2454.0" y="12918.5"/> <port id="pr_af43cdfc-a637-41fc-9cdc-d94bf492b57d_p2" x="2454.0" y="12888.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_142e32c8-dceb-4ebf-8ce0-0cc8dd3b4d8f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5576.875" y="18794.25"/> <port id="pr_142e32c8-dceb-4ebf-8ce0-0cc8dd3b4d8f_p1" x="5581.875" y="18784.25"/> <port id="pr_142e32c8-dceb-4ebf-8ce0-0cc8dd3b4d8f_p2" x="5581.875" y="18814.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_08dadc59-8e8e-415d-8591-85b6f2b89e11"> <bbox w="10.0" h="10.0" x="12533.061" y="17956.25"/> <port id="pr_08dadc59-8e8e-415d-8591-85b6f2b89e11_p1" x="12538.061" y="17976.25"/> <port id="pr_08dadc59-8e8e-415d-8591-85b6f2b89e11_p2" x="12538.061" y="17946.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5b85fd80-10e9-4b45-80bb-b215e42a7378"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b85fd80-10e9-4b45-80bb-b215e42a7378"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13545.811" y="21513.0"/> <port id="pr_5b85fd80-10e9-4b45-80bb-b215e42a7378_p1" x="13565.811" y="21518.0"/> <port id="pr_5b85fd80-10e9-4b45-80bb-b215e42a7378_p2" x="13535.811" y="21518.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_ec8f0d71-dfed-4c8f-a3aa-8c0c97b62bb7"> <bbox w="20.0" h="20.0" x="13403.561" y="21187.25"/> <port id="logicglyph_ec8f0d71-dfed-4c8f-a3aa-8c0c97b62bb7_p1" x="13413.561" y="21177.25"/> <port id="logicglyph_ec8f0d71-dfed-4c8f-a3aa-8c0c97b62bb7_p2" x="13413.561" y="21217.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ee6d376-b3ca-4ff3-a3d2-043ed7df3e19"> <bbox w="10.0" h="10.0" x="27381.0" y="6900.0"/> <port id="pr_9ee6d376-b3ca-4ff3-a3d2-043ed7df3e19_p1" x="27386.0" y="6890.0"/> <port id="pr_9ee6d376-b3ca-4ff3-a3d2-043ed7df3e19_p2" x="27386.0" y="6920.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_956ef057-1d1b-4db1-8d0b-d9167e1123f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20378837</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_956ef057-1d1b-4db1-8d0b-d9167e1123f3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20378837"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21319.096" y="16166.779"/> <port id="pr_956ef057-1d1b-4db1-8d0b-d9167e1123f3_p1" x="21324.096" y="16186.779"/> <port id="pr_956ef057-1d1b-4db1-8d0b-d9167e1123f3_p2" x="21324.096" y="16156.779"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_67b8f857-95c8-4eae-8b4d-ce7094998708"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25687758</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_67b8f857-95c8-4eae-8b4d-ce7094998708"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5867.0" y="10942.0"/> <port id="pr_67b8f857-95c8-4eae-8b4d-ce7094998708_p1" x="5857.0" y="10947.0"/> <port id="pr_67b8f857-95c8-4eae-8b4d-ce7094998708_p2" x="5887.0" y="10947.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_487302aa-f54e-4a1a-ba3c-ed298cad575a"> <bbox w="10.0" h="10.0" x="22112.06" y="22030.594"/> <port id="pr_487302aa-f54e-4a1a-ba3c-ed298cad575a_p1" x="22102.06" y="22035.594"/> <port id="pr_487302aa-f54e-4a1a-ba3c-ed298cad575a_p2" x="22132.06" y="22035.594"/> </glyph> <glyph 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id="pr_972a875a-93b5-4c51-b620-3b3dae655d50"> <bbox w="10.0" h="10.0" x="14125.0" y="2581.75"/> <port id="pr_972a875a-93b5-4c51-b620-3b3dae655d50_p1" x="14130.0" y="2601.75"/> <port id="pr_972a875a-93b5-4c51-b620-3b3dae655d50_p2" x="14130.0" y="2571.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ebf0c7b-9e32-4bab-b6ec-aec4969435ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylation of CDC25A, B or C by CHEK1 and CHEK2 inactivates CDC25, prevents activating de-phosphorylation of CDKs by CDC25 A, B, C </p> <p>and stops cell cycle propagation</p> <p>kegg cell cycle</p> <p>PMID:20126263, PMID:17568790</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="18674.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cd69278d-15ac-4f60-9929-a90d4a0dec20"> <bbox w="10.0" h="10.0" x="16960.0" y="3370.0"/> <port id="pr_cd69278d-15ac-4f60-9929-a90d4a0dec20_p1" x="16965.0" y="3360.0"/> <port id="pr_cd69278d-15ac-4f60-9929-a90d4a0dec20_p2" x="16965.0" y="3390.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_147b72bf-a088-479a-bcb1-bccd1952a55a"> <bbox w="10.0" h="10.0" x="19980.0" y="3367.5"/> <port id="pr_147b72bf-a088-479a-bcb1-bccd1952a55a_p1" x="19985.0" y="3357.5"/> <port id="pr_147b72bf-a088-479a-bcb1-bccd1952a55a_p2" x="19985.0" y="3387.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_939348ab-99bb-4dd3-8746-b76f6be6904b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> 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id="pr_451c643c-f2f0-48c5-9455-7e8101e57f4a_p1" x="1434.7786" y="13950.07"/> <port id="pr_451c643c-f2f0-48c5-9455-7e8101e57f4a_p2" x="1434.7786" y="13980.07"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9cb0842f-fde7-4f1d-9c47-5a342af28e04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:28212565</p> <p>Double negative feedback loop between ZEB1 and miR200</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9cb0842f-fde7-4f1d-9c47-5a342af28e04"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28212565"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4193.0" y="16377.5"/> <port id="pr_9cb0842f-fde7-4f1d-9c47-5a342af28e04_p1" x="4198.0" y="16367.5"/> <port id="pr_9cb0842f-fde7-4f1d-9c47-5a342af28e04_p2" x="4198.0" y="16397.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_ef5194d8-05ca-4f63-b7ba-cf66e3f8d5fa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24335145</p> <p>β-Catenin/TCF/LEF-1 binds to the promoter of miR-183-96-182 cluster gene and thereby activates the transcription of the cluster.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ef5194d8-05ca-4f63-b7ba-cf66e3f8d5fa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24335145"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3637.25" y="17654.133"/> <port id="pr_ef5194d8-05ca-4f63-b7ba-cf66e3f8d5fa_p1" x="3627.25" y="17659.133"/> <port id="pr_ef5194d8-05ca-4f63-b7ba-cf66e3f8d5fa_p2" x="3657.25" y="17659.133"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1836fa79-daa7-4a41-9d23-2e13669fe19b"> <bbox w="10.0" h="10.0" x="2505.0" y="4050.0"/> <port id="pr_1836fa79-daa7-4a41-9d23-2e13669fe19b_p1" x="2510.0" y="4040.0"/> <port id="pr_1836fa79-daa7-4a41-9d23-2e13669fe19b_p2" x="2510.0" y="4070.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6da438db-d575-45ec-bfad-98777b71b1eb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16112081</p> <p>In vitro, GrinchGEF (ARHGEF10L) induced the GDP/ GTP exchange at RhoA, but not at Rac1 or Cdc42. </p> <p>In intact cells, GrinchGEF induced specifically Rho activation and enhanced RhoA,B,C-specific downstream effect.</p> <p>GrinchGEF, similar to its relative p164-RhoGEF (ARHGEF17), is a Rho-specific GEF. </p> <p>Although RhoA, B, and C have different cellular functions, and some regulators and effectors show preferential interaction with these Rho isoforms, GrinchGEF apparently does not distinguish between RhoA,B,C and similarly activates these Rho proteins</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6da438db-d575-45ec-bfad-98777b71b1eb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16112081"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5864.7827" y="14489.571"/> <port id="pr_6da438db-d575-45ec-bfad-98777b71b1eb_p1" x="5884.7827" y="14494.571"/> <port id="pr_6da438db-d575-45ec-bfad-98777b71b1eb_p2" x="5854.7827" y="14494.571"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a66d04d6-947c-4ff9-9150-a964c6dc4506"> <bbox w="10.0" h="10.0" x="18930.777" y="10969.898"/> <port id="pr_a66d04d6-947c-4ff9-9150-a964c6dc4506_p1" x="18950.777" y="10974.898"/> <port id="pr_a66d04d6-947c-4ff9-9150-a964c6dc4506_p2" x="18920.777" y="10974.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d984a64-f701-443a-9fd5-7a54b562879b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20501829</p> <p>in DU-145 upon ER stress induced by IL24 ectopic expression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3d984a64-f701-443a-9fd5-7a54b562879b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20501829"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22754.06" y="14538.5"/> <port id="pr_3d984a64-f701-443a-9fd5-7a54b562879b_p1" x="22759.06" y="14528.5"/> <port id="pr_3d984a64-f701-443a-9fd5-7a54b562879b_p2" x="22759.06" y="14558.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bfc1e0da-038c-4346-a14e-3fc59e32c16e"> <bbox w="10.0" h="10.0" x="4765.0" y="6963.55"/> <port id="pr_bfc1e0da-038c-4346-a14e-3fc59e32c16e_p1" x="4785.0" y="6968.55"/> <port id="pr_bfc1e0da-038c-4346-a14e-3fc59e32c16e_p2" x="4755.0" y="6968.55"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_930ced71-3ad8-4359-83bd-3ccc3a507469"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5782.4614" y="13861.5"/> <port id="pr_930ced71-3ad8-4359-83bd-3ccc3a507469_p1" x="5772.4614" y="13866.5"/> <port id="pr_930ced71-3ad8-4359-83bd-3ccc3a507469_p2" x="5802.4614" y="13866.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_b7e8bcf8-c2bd-4a0b-a4a4-169f436c5319"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5886.0664" y="13675.0"/> <port id="pr_b7e8bcf8-c2bd-4a0b-a4a4-169f436c5319_p1" x="5891.0664" y="13695.0"/> <port id="pr_b7e8bcf8-c2bd-4a0b-a4a4-169f436c5319_p2" x="5891.0664" y="13665.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d337e591-1fa8-40c8-87cd-2010955dbb8e"> <bbox w="10.0" h="10.0" x="2587.56" y="21166.5"/> <port id="pr_d337e591-1fa8-40c8-87cd-2010955dbb8e_p1" x="2592.56" y="21156.5"/> <port id="pr_d337e591-1fa8-40c8-87cd-2010955dbb8e_p2" x="2592.56" y="21186.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_04b21498-e9d9-426e-a99f-005ef16bd4b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Docking of activated ERK to the KSR1 scaffold negatively regulates the interaction between KSR1 and B-Raf.</p> <p>PMID:19541618</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_04b21498-e9d9-426e-a99f-005ef16bd4b1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19541618"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9126.311" y="19273.932"/> <port id="pr_04b21498-e9d9-426e-a99f-005ef16bd4b1_p1" x="9116.311" y="19278.932"/> <port id="pr_04b21498-e9d9-426e-a99f-005ef16bd4b1_p2" x="9146.311" y="19278.932"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c1046a23-56d3-4fbd-a7a0-6e32a39f469e"> <bbox w="10.0" h="10.0" x="14274.867" y="10849.557"/> <port id="pr_c1046a23-56d3-4fbd-a7a0-6e32a39f469e_p1" x="14279.867" y="10869.557"/> <port id="pr_c1046a23-56d3-4fbd-a7a0-6e32a39f469e_p2" x="14279.867" y="10839.557"/> </glyph> <glyph class="process" orientation="vertical" id="pr_593a4886-e248-4095-9c92-fbe117c26f07"> <bbox w="10.0" h="10.0" x="25072.566" y="16028.25"/> <port id="pr_593a4886-e248-4095-9c92-fbe117c26f07_p1" x="25077.566" y="16048.25"/> <port id="pr_593a4886-e248-4095-9c92-fbe117c26f07_p2" x="25077.566" y="16018.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a66576f-a2be-4edf-88b9-337f1d1b1fcd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9a66576f-a2be-4edf-88b9-337f1d1b1fcd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19558.857" y="16173.75"/> <port id="pr_9a66576f-a2be-4edf-88b9-337f1d1b1fcd_p1" x="19563.857" y="16193.75"/> <port id="pr_9a66576f-a2be-4edf-88b9-337f1d1b1fcd_p2" x="19563.857" y="16163.75"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_56d7d499-0549-4296-b1b3-6a753c59b61d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3850.9019" y="14116.5"/> <port id="pr_56d7d499-0549-4296-b1b3-6a753c59b61d_p1" x="3855.9019" y="14136.5"/> <port id="pr_56d7d499-0549-4296-b1b3-6a753c59b61d_p2" x="3855.9019" y="14106.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1129ada7-7553-4149-b0e0-1c71aff75985"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4733.5" y="16744.5"/> <port id="pr_1129ada7-7553-4149-b0e0-1c71aff75985_p1" x="4723.5" y="16749.5"/> <port id="pr_1129ada7-7553-4149-b0e0-1c71aff75985_p2" x="4753.5" y="16749.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4b4c525f-ddf2-430b-91bb-7917f4b034f5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19180116</p> <p>PMID:11323415</p> <p>in HEK293</p> <p>in vitro</p> <p>DAPK1 mediated phosphorylation of BECN1 promotes dissociation of beclin 1 from Bcl-XL and induction of autophagy</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4b4c525f-ddf2-430b-91bb-7917f4b034f5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19180116"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11323415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27656.56" y="11346.5"/> <port id="pr_4b4c525f-ddf2-430b-91bb-7917f4b034f5_p1" x="27646.56" y="11351.5"/> <port id="pr_4b4c525f-ddf2-430b-91bb-7917f4b034f5_p2" x="27676.56" y="11351.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f059f58a-6ad8-4690-bf58-2c2c10a85082"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22671595</p> <p>Caveolin-1 is an endocytic scaffolding protein</p> <p>It binds independently to claudin-2 and occludin (co-immunoprecipitation assays).</p> <p>The finding that caveolin-1 interacts with claudin-2 and occludin, but notwith claudin-4 or ZO-1, suggests a potential mechanism for selective retrieval of tight junction components.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f059f58a-6ad8-4690-bf58-2c2c10a85082"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22671595"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1922.0" y="15477.727"/> <port id="pr_f059f58a-6ad8-4690-bf58-2c2c10a85082_p1" x="1912.0" y="15482.727"/> <port id="pr_f059f58a-6ad8-4690-bf58-2c2c10a85082_p2" x="1942.0" y="15482.727"/> </glyph> <glyph class="process" orientation="vertical" id="pr_55d5b7ee-e031-44d9-ba95-9ceaad040332"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_55d5b7ee-e031-44d9-ba95-9ceaad040332"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12562.811" y="19099.5"/> <port id="pr_55d5b7ee-e031-44d9-ba95-9ceaad040332_p1" x="12567.811" y="19089.5"/> <port id="pr_55d5b7ee-e031-44d9-ba95-9ceaad040332_p2" x="12567.811" y="19119.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_50db8fe9-d512-4cb8-90c6-e2861252540f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:9865696</p> <p>Phosphorylation of Smad2 induces dissociation from SARA </p> <p>with concomitant formation of Smad2/ Smad4 complexes </p> <p>and nuclear translocation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_50db8fe9-d512-4cb8-90c6-e2861252540f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9865696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6484.75" y="16685.973"/> <port id="pr_50db8fe9-d512-4cb8-90c6-e2861252540f_p1" x="6504.75" y="16690.973"/> <port id="pr_50db8fe9-d512-4cb8-90c6-e2861252540f_p2" x="6474.75" y="16690.973"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e639395e-0c53-4029-bb99-8e1f34226d8a"> <bbox w="10.0" h="10.0" x="23050.0" y="2473.75"/> <port id="pr_e639395e-0c53-4029-bb99-8e1f34226d8a_p1" x="23055.0" y="2493.75"/> <port id="pr_e639395e-0c53-4029-bb99-8e1f34226d8a_p2" x="23055.0" y="2463.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b23d4e88-49ef-48f8-b7cb-d85a4d9cb885"> <bbox w="10.0" h="10.0" x="18631.398" y="14528.017"/> <port id="pr_b23d4e88-49ef-48f8-b7cb-d85a4d9cb885_p1" x="18621.398" y="14533.017"/> <port id="pr_b23d4e88-49ef-48f8-b7cb-d85a4d9cb885_p2" x="18651.398" y="14533.017"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_76d7868d-95dd-433e-847e-81c613d5ba50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9660918</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_76d7868d-95dd-433e-847e-81c613d5ba50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9660918"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22812.06" y="14264.0"/> <port id="pr_76d7868d-95dd-433e-847e-81c613d5ba50_p1" x="22832.06" y="14269.0"/> <port id="pr_76d7868d-95dd-433e-847e-81c613d5ba50_p2" x="22802.06" y="14269.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9f8ac30c-9340-4506-a53e-872c8caf59af"> <bbox w="10.0" h="10.0" x="21762.56" y="17910.0"/> <port id="pr_9f8ac30c-9340-4506-a53e-872c8caf59af_p1" x="21767.56" y="17930.0"/> <port id="pr_9f8ac30c-9340-4506-a53e-872c8caf59af_p2" x="21767.56" y="17900.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d8ee52a-afdd-4bd3-a3f6-56d6635470c3"> <bbox w="10.0" h="10.0" x="12396.25" y="6055.125"/> <port id="pr_4d8ee52a-afdd-4bd3-a3f6-56d6635470c3_p1" x="12416.25" y="6060.125"/> <port id="pr_4d8ee52a-afdd-4bd3-a3f6-56d6635470c3_p2" x="12386.25" y="6060.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9e1b71c0-78e0-4f53-ba75-0d44a9f9ec8c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11960000</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9e1b71c0-78e0-4f53-ba75-0d44a9f9ec8c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11960000"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26253.574" y="21902.5"/> <port id="pr_9e1b71c0-78e0-4f53-ba75-0d44a9f9ec8c_p1" x="26258.574" y="21892.5"/> <port id="pr_9e1b71c0-78e0-4f53-ba75-0d44a9f9ec8c_p2" x="26258.574" y="21922.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6247a7e1-90f5-41fe-a43d-cd953d027f2e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Not sure if this mechanism is exact the same as for CYCLIND Myc and AXIN1 transcription. However it has been shown that KLF8 and b-catenin induces transcription of MMP9 gene.</p> <p>PMID:21151179 PMID:17306568</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6247a7e1-90f5-41fe-a43d-cd953d027f2e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21151179"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17306568"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22504.06" y="21991.0"/> <port id="pr_6247a7e1-90f5-41fe-a43d-cd953d027f2e_p1" x="22494.06" y="21996.0"/> <port id="pr_6247a7e1-90f5-41fe-a43d-cd953d027f2e_p2" x="22524.06" y="21996.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97b1611a-4306-4491-aabd-af7b40a2a646"> <bbox w="10.0" h="10.0" x="4360.5" y="10874.0"/> <port id="pr_97b1611a-4306-4491-aabd-af7b40a2a646_p1" x="4380.5" y="10879.0"/> <port id="pr_97b1611a-4306-4491-aabd-af7b40a2a646_p2" x="4350.5" y="10879.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fb7f4b04-43ef-445e-9c90-758f347f657b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19779.123" y="11528.5625"/> <port id="pr_fb7f4b04-43ef-445e-9c90-758f347f657b_p1" x="19799.123" y="11533.5625"/> <port 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y="15432.928"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a51a400e-1287-40f4-959b-3662d242a82d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21171.56" y="16629.0"/> <port id="pr_a51a400e-1287-40f4-959b-3662d242a82d_p1" x="21161.56" y="16634.0"/> <port id="pr_a51a400e-1287-40f4-959b-3662d242a82d_p2" x="21191.56" y="16634.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_51bc73cb-90a8-4689-8f02-8855306d9b4e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18128.553" y="11949.125"/> <port id="pr_51bc73cb-90a8-4689-8f02-8855306d9b4e_p1" x="18118.553" y="11954.125"/> <port id="pr_51bc73cb-90a8-4689-8f02-8855306d9b4e_p2" x="18148.553" y="11954.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e806a03-3c1c-4223-ab0c-6cd05a2213a1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5345.25" y="16401.5"/> <port id="pr_2e806a03-3c1c-4223-ab0c-6cd05a2213a1_p1" x="5335.25" y="16406.5"/> <port id="pr_2e806a03-3c1c-4223-ab0c-6cd05a2213a1_p2" x="5365.25" y="16406.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e875fe4-e342-4f7c-a8e8-9a2c4ddf48a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18414028</p> <p>PMID:9106657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2e875fe4-e342-4f7c-a8e8-9a2c4ddf48a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18414028"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9106657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12942.811" y="18851.25"/> <port 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x="4919.3765" y="2793.75"/> <port id="pr_5bbe5025-3476-4360-b2cf-b26ca0180f8b_p2" x="4919.3765" y="2823.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3ae023fa-c479-4aa9-8cd5-2b1ce03e5b8f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4816.491" y="17690.0"/> <port id="pr_3ae023fa-c479-4aa9-8cd5-2b1ce03e5b8f_p1" x="4821.491" y="17680.0"/> <port id="pr_3ae023fa-c479-4aa9-8cd5-2b1ce03e5b8f_p2" x="4821.491" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_93ef7a30-0f31-4b4d-81bb-7bcb950fa195"> <bbox w="10.0" h="10.0" x="23229.762" y="16116.0"/> <port id="pr_93ef7a30-0f31-4b4d-81bb-7bcb950fa195_p1" x="23234.762" y="16136.0"/> <port id="pr_93ef7a30-0f31-4b4d-81bb-7bcb950fa195_p2" x="23234.762" y="16106.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a0ccf8f-795e-4a58-8936-9346d724c205"> <bbox w="10.0" h="10.0" x="28451.0" y="7485.0"/> <port id="pr_5a0ccf8f-795e-4a58-8936-9346d724c205_p1" x="28456.0" y="7475.0"/> <port id="pr_5a0ccf8f-795e-4a58-8936-9346d724c205_p2" x="28456.0" y="7505.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6c314932-0534-4cb7-a957-8ca47a560aa6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Desclozeaux and colleagues also found that cadherin recycling is necessary for maintaining adherens junctions.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6c314932-0534-4cb7-a957-8ca47a560aa6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1807.0166" y="14968.18"/> <port id="pr_6c314932-0534-4cb7-a957-8ca47a560aa6_p1" x="1812.0166" y="14988.18"/> <port id="pr_6c314932-0534-4cb7-a957-8ca47a560aa6_p2" x="1812.0166" y="14958.18"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea491c67-d5ac-4c93-b462-75e9e73901d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18337815</p> <p>PK isoform M2 binds phosphotyrosine peptides, which inhibits its ability to binds fructose-1,6P2. The authors propose PKM2 is inhibited by growth factors signalling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ea491c67-d5ac-4c93-b462-75e9e73901d5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18337815"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19153.31" y="11212.199"/> <port id="pr_ea491c67-d5ac-4c93-b462-75e9e73901d5_p1" x="19173.31" y="11217.199"/> <port id="pr_ea491c67-d5ac-4c93-b462-75e9e73901d5_p2" x="19143.31" y="11217.199"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97862fd2-9d6f-4fa9-a260-0c35dc2b848f"> <bbox w="10.0" h="10.0" x="9103.463" y="1847.1731"/> <port id="pr_97862fd2-9d6f-4fa9-a260-0c35dc2b848f_p1" x="9093.463" y="1852.1731"/> <port id="pr_97862fd2-9d6f-4fa9-a260-0c35dc2b848f_p2" x="9123.463" y="1852.1731"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_46b02cc7-9dbb-4c72-b977-8ae71e908603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6289.0527" y="16978.75"/> <port id="pr_46b02cc7-9dbb-4c72-b977-8ae71e908603_p1" x="6294.0527" y="16968.75"/> <port id="pr_46b02cc7-9dbb-4c72-b977-8ae71e908603_p2" x="6294.0527" y="16998.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e1b7d931-d309-4f5e-95e4-7e2d356bfacf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4681.7676" y="17988.125"/> <port id="pr_e1b7d931-d309-4f5e-95e4-7e2d356bfacf_p1" x="4686.7676" y="17978.125"/> <port id="pr_e1b7d931-d309-4f5e-95e4-7e2d356bfacf_p2" x="4686.7676" y="18008.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_049b7d31-d3e8-4dc2-a490-658c48d8f370"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15229189</p> <p>SCO1, SCO2, and COX17 act cooperatively to load MT-CO2 with copper (copper chaperones)</p> <p>PMID:19393246</p> <p>in Hela, COX17 siRNA interferes with copper loading into MT-CO2</p> <p>PMID:18458339</p> <p>detailed description of COX17 mediated copper loading of SCO proteins, and interactions with the disulfide based modifications of these proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_049b7d31-d3e8-4dc2-a490-658c48d8f370"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15229189"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_17d66910-2ade-40a5-8cb8-44ad2404db63_p1" x="3166.5" y="4430.0"/> <port id="pr_17d66910-2ade-40a5-8cb8-44ad2404db63_p2" x="3196.5" y="4430.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_038a75fa-e857-49cf-92bc-e05cfbb7b0b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18974095</p> <p>in HEK293, in vitro</p> <p>by DAPK1 (DAPK1 phosphorylation status not assessed)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ba3e494e-694c-4bc6-98eb-d87bb01cedd3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28565.783" y="11228.291"/> <port id="pr_ba3e494e-694c-4bc6-98eb-d87bb01cedd3_p1" x="28570.783" y="11218.291"/> <port id="pr_ba3e494e-694c-4bc6-98eb-d87bb01cedd3_p2" x="28570.783" y="11248.291"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e1cf3b6d-3442-4e11-8953-d77644961038"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15208637</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e1cf3b6d-3442-4e11-8953-d77644961038"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15208637"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21414.06" y="21066.0"/> <port id="pr_e1cf3b6d-3442-4e11-8953-d77644961038_p1" x="21419.06" y="21056.0"/> <port id="pr_e1cf3b6d-3442-4e11-8953-d77644961038_p2" x="21419.06" y="21086.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_00998e85-8761-4ad7-a0f1-6cd834ab38fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_00998e85-8761-4ad7-a0f1-6cd834ab38fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9831.557" y="18946.434"/> <port id="pr_00998e85-8761-4ad7-a0f1-6cd834ab38fc_p1" x="9821.557" y="18951.434"/> <port id="pr_00998e85-8761-4ad7-a0f1-6cd834ab38fc_p2" x="9851.557" y="18951.434"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d7fae45b-dcbb-4f09-b7e8-2690dab54467"> <bbox w="10.0" h="10.0" x="22210.56" y="11880.5"/> <port id="pr_d7fae45b-dcbb-4f09-b7e8-2690dab54467_p1" x="22200.56" y="11885.5"/> <port id="pr_d7fae45b-dcbb-4f09-b7e8-2690dab54467_p2" x="22230.56" y="11885.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d875ead5-9ea2-44b1-ac54-b306794fc38e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761153</p> <p>Occludin is a structural component of tight junctions that is associated with the cell polarity network. </p> <p>Occludin regulates TGFBR1 localization for efficient TGFB-dependent dissolution of tight junctions during EMT</p> <p>Interaction of endogenous OCLN with endogenous TGFBR1 was not modulated by TGFB</p> <p>but its association with the TGFBR2 increased in a TGFB-dependent manner</p> <p>PMID:15761148</p> <p>TGFBR1 localizes with ZO-1 on the cellular apical aspect together with PARD6A and they are situated apically to endogenous E-cadherin</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d875ead5-9ea2-44b1-ac54-b306794fc38e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761153"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2515.3042" y="13964.6875"/> <port id="pr_d875ead5-9ea2-44b1-ac54-b306794fc38e_p1" x="2535.3042" y="13969.6875"/> <port id="pr_d875ead5-9ea2-44b1-ac54-b306794fc38e_p2" x="2505.3042" y="13969.6875"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_93e1eba3-45fa-4dd9-840a-93b44063e7b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5748.965" y="13689.5"/> <port id="pr_93e1eba3-45fa-4dd9-840a-93b44063e7b7_p1" x="5753.965" y="13679.5"/> <port id="pr_93e1eba3-45fa-4dd9-840a-93b44063e7b7_p2" x="5753.965" y="13709.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_034712f1-e8d5-4405-bf99-28634e2cec31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18046414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_034712f1-e8d5-4405-bf99-28634e2cec31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18046414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20186.625" y="16172.625"/> <port id="pr_034712f1-e8d5-4405-bf99-28634e2cec31_p1" x="20191.625" y="16192.625"/> <port id="pr_034712f1-e8d5-4405-bf99-28634e2cec31_p2" x="20191.625" y="16162.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2109362f-d066-4f89-862a-08d7b15544e2"> <bbox w="10.0" h="10.0" x="24514.688" y="16014.0"/> <port id="pr_2109362f-d066-4f89-862a-08d7b15544e2_p1" x="24519.688" y="16034.0"/> <port id="pr_2109362f-d066-4f89-862a-08d7b15544e2_p2" x="24519.688" y="16004.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_2dfd7248-8452-4325-8096-728a6d4aa0b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="17386.27" y="15330.5"/> <port id="pr_2dfd7248-8452-4325-8096-728a6d4aa0b9_p1" x="17391.27" y="15320.5"/> <port id="pr_2dfd7248-8452-4325-8096-728a6d4aa0b9_p2" x="17391.27" y="15350.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff25a432-969c-4f8b-95ad-1f1a40175848"> <bbox w="10.0" h="10.0" x="18299.186" y="10145.5"/> <port id="pr_ff25a432-969c-4f8b-95ad-1f1a40175848_p1" x="18304.186" y="10135.5"/> <port id="pr_ff25a432-969c-4f8b-95ad-1f1a40175848_p2" x="18304.186" y="10165.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_75127230-e7f8-44b1-a783-7ef1575c716a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21725609</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_75127230-e7f8-44b1-a783-7ef1575c716a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21725609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2683.875" y="10530.375"/> <port id="pr_75127230-e7f8-44b1-a783-7ef1575c716a_p1" x="2688.875" y="10520.375"/> <port id="pr_75127230-e7f8-44b1-a783-7ef1575c716a_p2" x="2688.875" y="10550.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4c7e79ed-4586-48fa-a66d-6333913985dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20823910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4c7e79ed-4586-48fa-a66d-6333913985dd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20823910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20980.81" y="13969.0"/> <port id="pr_4c7e79ed-4586-48fa-a66d-6333913985dd_p1" x="21000.81" y="13974.0"/> <port id="pr_4c7e79ed-4586-48fa-a66d-6333913985dd_p2" x="20970.81" y="13974.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e367c5ee-dc7e-4131-96a9-d24d7397b006"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5837.0" y="13298.0"/> <port id="pr_e367c5ee-dc7e-4131-96a9-d24d7397b006_p1" x="5857.0" y="13303.0"/> <port id="pr_e367c5ee-dc7e-4131-96a9-d24d7397b006_p2" x="5827.0" y="13303.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d48ee3aa-770d-48db-bc61-d0a964ae3456"> <bbox w="10.0" h="10.0" x="19475.398" y="15624.246"/> <port id="pr_d48ee3aa-770d-48db-bc61-d0a964ae3456_p1" x="19465.398" y="15629.246"/> <port id="pr_d48ee3aa-770d-48db-bc61-d0a964ae3456_p2" x="19495.398" y="15629.246"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f8a78940-6c8e-48f6-8d4e-f875a60a2fae"> <bbox w="10.0" h="10.0" x="16938.95" y="15919.268"/> <port id="pr_f8a78940-6c8e-48f6-8d4e-f875a60a2fae_p1" x="16943.95" y="15909.268"/> <port id="pr_f8a78940-6c8e-48f6-8d4e-f875a60a2fae_p2" x="16943.95" y="15939.268"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9de9e73d-2f41-41c8-a84b-3ed2165a45c3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:24021978</p> </body> </html> </notes> <extension> <annotation 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id="pr_4dd0484e-d2e7-40f7-a124-09df695b1ca4"> <bbox w="10.0" h="10.0" x="28911.0" y="2850.0"/> <port id="pr_4dd0484e-d2e7-40f7-a124-09df695b1ca4_p1" x="28901.0" y="2855.0"/> <port id="pr_4dd0484e-d2e7-40f7-a124-09df695b1ca4_p2" x="28931.0" y="2855.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_01ab2bea-0d07-4c0a-a0c4-3fb68a54ac76"> <bbox w="10.0" h="10.0" x="25069.898" y="15739.758"/> <port id="pr_01ab2bea-0d07-4c0a-a0c4-3fb68a54ac76_p1" x="25059.898" y="15744.758"/> <port id="pr_01ab2bea-0d07-4c0a-a0c4-3fb68a54ac76_p2" x="25089.898" y="15744.758"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f6c7a756-a63a-495f-a6c7-19a1014107f8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21606194 </p> <p>ANNOTATION:CK1alpha phosphorylates E-CADHERIN on unkown residue and p-120 catenin</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f6c7a756-a63a-495f-a6c7-19a1014107f8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22029.56" y="19226.75"/> <port id="pr_f6c7a756-a63a-495f-a6c7-19a1014107f8_p1" x="22019.56" y="19231.75"/> <port id="pr_f6c7a756-a63a-495f-a6c7-19a1014107f8_p2" x="22049.56" 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orientation="vertical" id="pr_fc200496-fee3-4714-adb7-a6caef820187"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4352.6865" y="14264.5"/> <port id="pr_fc200496-fee3-4714-adb7-a6caef820187_p1" x="4357.6865" y="14284.5"/> <port id="pr_fc200496-fee3-4714-adb7-a6caef820187_p2" x="4357.6865" y="14254.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f95f10ef-ed6f-4476-ac26-ea19e39b7bae"> <bbox w="10.0" h="10.0" x="11715.264" y="16323.551"/> <port id="pr_f95f10ef-ed6f-4476-ac26-ea19e39b7bae_p1" x="11735.264" y="16328.551"/> <port id="pr_f95f10ef-ed6f-4476-ac26-ea19e39b7bae_p2" x="11705.264" y="16328.551"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c909974a-ba76-4c04-8347-8d1d4b415719"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18762249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c909974a-ba76-4c04-8347-8d1d4b415719"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18762249"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17401.982" y="19912.75"/> <port id="pr_c909974a-ba76-4c04-8347-8d1d4b415719_p1" x="17406.982" y="19902.75"/> <port id="pr_c909974a-ba76-4c04-8347-8d1d4b415719_p2" x="17406.982" y="19932.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8082bd7f-f40f-491e-a07d-cf955b2d3275"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4816.1587" y="17787.5"/> <port id="pr_8082bd7f-f40f-491e-a07d-cf955b2d3275_p1" x="4821.1587" y="17777.5"/> <port id="pr_8082bd7f-f40f-491e-a07d-cf955b2d3275_p2" x="4821.1587" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_399576fa-8717-4b0c-ae4d-a49465d7d00e"> <bbox w="10.0" h="10.0" x="22791.875" y="7872.0"/> <port id="pr_399576fa-8717-4b0c-ae4d-a49465d7d00e_p1" x="22796.875" y="7862.0"/> <port id="pr_399576fa-8717-4b0c-ae4d-a49465d7d00e_p2" x="22796.875" y="7892.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f8fa6024-bd1e-4b49-96e7-bb8685171a07"> <bbox w="10.0" h="10.0" x="22684.06" y="9369.0"/> <port id="pr_f8fa6024-bd1e-4b49-96e7-bb8685171a07_p1" x="22689.06" y="9389.0"/> <port id="pr_f8fa6024-bd1e-4b49-96e7-bb8685171a07_p2" x="22689.06" y="9359.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ee66ce3-1fcd-4fbb-a072-30fbb16148ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22100263</p> <p>5T4 forms complex with LRP6 resulting in inhibition of the canonical wnt</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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x="11778.719" y="8106.875"/> <port id="pr_bfbb33b0-015a-4535-8776-ceb7393d43b3_p2" x="11778.719" y="8136.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8ccf0d63-dedd-4277-8f0b-48377fa8866e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27526109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8ccf0d63-dedd-4277-8f0b-48377fa8866e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27526109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1676.9286" y="10317.5"/> <port id="pr_8ccf0d63-dedd-4277-8f0b-48377fa8866e_p1" x="1681.9286" y="10307.5"/> <port id="pr_8ccf0d63-dedd-4277-8f0b-48377fa8866e_p2" x="1681.9286" y="10337.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8d4d1fc9-6416-4ad1-88b3-5cd90480e3b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21271217</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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x="25877.867" y="13680.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ea631b4-2d53-46cb-b802-18f0730b21ee"> <bbox w="10.0" h="10.0" x="14025.0" y="2580.0"/> <port id="pr_6ea631b4-2d53-46cb-b802-18f0730b21ee_p1" x="14030.0" y="2600.0"/> <port id="pr_6ea631b4-2d53-46cb-b802-18f0730b21ee_p2" x="14030.0" y="2570.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d2f14a20-435d-4e87-969b-0150ef60225b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25730.258" y="15635.649"/> <port id="pr_d2f14a20-435d-4e87-969b-0150ef60225b_p1" x="25720.258" y="15640.649"/> <port id="pr_d2f14a20-435d-4e87-969b-0150ef60225b_p2" x="25750.258" y="15640.649"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_93ff9181-784e-465a-ade2-1f18cffae7d8"> <bbox w="10.0" h="10.0" x="23321.56" y="14464.0"/> <port id="pr_93ff9181-784e-465a-ade2-1f18cffae7d8_p1" x="23341.56" y="14469.0"/> <port id="pr_93ff9181-784e-465a-ade2-1f18cffae7d8_p2" x="23311.56" y="14469.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02cfd72b-f479-4bdb-b569-4abb3d7e3c4d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10671551</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_02cfd72b-f479-4bdb-b569-4abb3d7e3c4d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10671551"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23405.06" y="18711.0"/> <port id="pr_02cfd72b-f479-4bdb-b569-4abb3d7e3c4d_p1" x="23410.06" y="18731.0"/> <port id="pr_02cfd72b-f479-4bdb-b569-4abb3d7e3c4d_p2" x="23410.06" y="18701.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e69a1014-a87f-4568-aa0a-670a2f25ba65"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3695.446" y="16334.0"/> <port id="pr_e69a1014-a87f-4568-aa0a-670a2f25ba65_p1" x="3685.446" y="16339.0"/> <port id="pr_e69a1014-a87f-4568-aa0a-670a2f25ba65_p2" x="3715.446" y="16339.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6bcb8651-349a-423e-bf0b-172f51f4ded2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10050855</p> <p>PMID:16571352</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6bcb8651-349a-423e-bf0b-172f51f4ded2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10050855"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16571352"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27726.06" y="17632.95"/> <port id="pr_6bcb8651-349a-423e-bf0b-172f51f4ded2_p1" x="27731.06" y="17652.95"/> <port id="pr_6bcb8651-349a-423e-bf0b-172f51f4ded2_p2" x="27731.06" y="17622.95"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c271c248-7494-49c3-a05d-f07ccdd67c32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19838173</p> <p>FLIP inhibits autophagy by competing with LC3 for binding of ATG3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c271c248-7494-49c3-a05d-f07ccdd67c32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19838173"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="29199.56" y="12177.857"/> <port id="pr_c271c248-7494-49c3-a05d-f07ccdd67c32_p1" x="29204.56" y="12167.857"/> <port id="pr_c271c248-7494-49c3-a05d-f07ccdd67c32_p2" x="29204.56" y="12197.857"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8732902-4d21-4654-a173-9f00d82c2092"> <bbox w="10.0" h="10.0" x="11796.137" y="15963.253"/> <port id="pr_f8732902-4d21-4654-a173-9f00d82c2092_p1" x="11816.137" y="15968.253"/> <port id="pr_f8732902-4d21-4654-a173-9f00d82c2092_p2" x="11786.137" y="15968.253"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_5c6f82b9-bdd9-40bb-ac88-ab5d6fbc2a1d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12788081</p> <p>p250GAP (so-called ARHGAP32 or p200RhoGAP) is a RhoGAP protein that is expressed predominantly in brain.</p> <p>ARHGAP32 is associated with and phosphorylated by Fyn, a member of Src-family protein tyrosine kinase.</p> <p>p250GAP is phosphorylated by Fyn in oligodendrocytes and Fyn activity is up-regulated during oligodendrocyte maturation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5c6f82b9-bdd9-40bb-ac88-ab5d6fbc2a1d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12788081"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6328.75" y="14209.75"/> <port id="pr_5c6f82b9-bdd9-40bb-ac88-ab5d6fbc2a1d_p1" x="6333.75" y="14199.75"/> <port id="pr_5c6f82b9-bdd9-40bb-ac88-ab5d6fbc2a1d_p2" x="6333.75" 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class="process" orientation="vertical" id="pr_a1ad6b7c-5b2f-4469-871f-f489d42cf6a4"> <bbox w="10.0" h="10.0" x="13240.0" y="4372.875"/> <port id="pr_a1ad6b7c-5b2f-4469-871f-f489d42cf6a4_p1" x="13245.0" y="4362.875"/> <port id="pr_a1ad6b7c-5b2f-4469-871f-f489d42cf6a4_p2" x="13245.0" y="4392.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_58318750-7c16-4718-86fd-2d0bf9e3de81"> <bbox w="10.0" h="10.0" x="15532.135" y="16062.0"/> <port id="pr_58318750-7c16-4718-86fd-2d0bf9e3de81_p1" x="15537.135" y="16052.0"/> <port id="pr_58318750-7c16-4718-86fd-2d0bf9e3de81_p2" x="15537.135" y="16082.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_28b49b28-35db-4be5-be34-720f8da13409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_28b49b28-35db-4be5-be34-720f8da13409"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27517.06" y="21703.441"/> <port id="pr_28b49b28-35db-4be5-be34-720f8da13409_p1" x="27507.06" y="21708.441"/> <port id="pr_28b49b28-35db-4be5-be34-720f8da13409_p2" x="27537.06" y="21708.441"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97ccd0b5-3dbe-465e-aa38-2400cfa6f9cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>PMID:9508780</p> <p>PMID:12611882</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_97ccd0b5-3dbe-465e-aa38-2400cfa6f9cb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9508780"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12611882"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24148.027" y="14054.0"/> <port id="pr_97ccd0b5-3dbe-465e-aa38-2400cfa6f9cb_p1" x="24138.027" y="14059.0"/> <port id="pr_97ccd0b5-3dbe-465e-aa38-2400cfa6f9cb_p2" x="24168.027" y="14059.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef6b63ae-c445-4f68-924c-e28d48884d87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:24070470</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ef6b63ae-c445-4f68-924c-e28d48884d87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28389.23" y="12195.674"/> <port id="pr_ef6b63ae-c445-4f68-924c-e28d48884d87_p1" x="28409.23" y="12200.674"/> <port id="pr_ef6b63ae-c445-4f68-924c-e28d48884d87_p2" x="28379.23" y="12200.674"/> </glyph> <glyph class="process" orientation="vertical" id="pr_081637ad-e8c8-4a83-bb8e-ebb0db0dd823"> <bbox w="10.0" h="10.0" x="21936.56" y="16121.0"/> <port id="pr_081637ad-e8c8-4a83-bb8e-ebb0db0dd823_p1" x="21941.56" y="16141.0"/> <port 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of IRSp53 by regulating its interaction with Rac.</p> <p>PMID:15094799</p> <p>ARP2_3 complex nucleates new actin filaments from the sides of preexisting filaments.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bc7fff11-6e42-4836-8835-105143d00ad2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16702231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9843499"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12054568"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15094799"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6194.5" y="15255.029"/> <port id="pr_bc7fff11-6e42-4836-8835-105143d00ad2_p1" x="6214.5" y="15260.029"/> <port id="pr_bc7fff11-6e42-4836-8835-105143d00ad2_p2" x="6184.5" y="15260.029"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0ba6d753-c95a-459e-983d-3fb2d6f733e3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22796940</p> <p>Repression of E-cadherin by SNAI1/TWIST1 involves the recruitment of histone remodeling proteins to the promoter, where SNAI1 interacts with histone deacetylase HDAC1 and HDAC2.</p> <p>PMID:21685935</p> <p>EZH2 supports carcinoma cell aggressiveness by forming a co-repressor complex with HDAC1 and HDAC2 and Snail to inhibit E-cadherin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0ba6d753-c95a-459e-983d-3fb2d6f733e3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22796940"/> </rdf:Bag> </bqbiol:isEncodedBy> 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<p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6501.5" y="15041.75"/> <port id="pr_e2cc6a8e-4f51-4c46-a8bd-b3389dbfe1e5_p1" x="6506.5" y="15031.75"/> <port id="pr_e2cc6a8e-4f51-4c46-a8bd-b3389dbfe1e5_p2" x="6506.5" y="15061.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fca32950-a52a-499b-9b40-bca283787be3"> <bbox w="10.0" h="10.0" x="16183.0" y="6212.3657"/> <port id="pr_fca32950-a52a-499b-9b40-bca283787be3_p1" x="16203.0" y="6217.3657"/> <port id="pr_fca32950-a52a-499b-9b40-bca283787be3_p2" x="16173.0" y="6217.3657"/> </glyph> <glyph class="process" orientation="vertical" id="pr_52514e64-070e-4146-8c53-2d30798b87d0"> <bbox w="10.0" h="10.0" x="14633.887" y="1433.9375"/> <port id="pr_52514e64-070e-4146-8c53-2d30798b87d0_p1" x="14638.887" y="1423.9375"/> <port id="pr_52514e64-070e-4146-8c53-2d30798b87d0_p2" x="14638.887" y="1453.9375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_644f5c38-bac1-4034-a95f-600317038d48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5128.3965" y="17990.125"/> <port id="pr_644f5c38-bac1-4034-a95f-600317038d48_p1" x="5133.3965" y="17980.125"/> <port id="pr_644f5c38-bac1-4034-a95f-600317038d48_p2" x="5133.3965" y="18010.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a418ec3d-a239-4d70-be12-c56e88ff925f"> <bbox w="10.0" h="10.0" x="17929.105" y="18642.0"/> <port id="pr_a418ec3d-a239-4d70-be12-c56e88ff925f_p1" x="17919.105" y="18647.0"/> <port id="pr_a418ec3d-a239-4d70-be12-c56e88ff925f_p2" x="17949.105" y="18647.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_cbc45b4f-02d0-4790-9322-e5385f7e6d78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="14454.019" y="15213.067"/> <port id="pr_cbc45b4f-02d0-4790-9322-e5385f7e6d78_p1" x="14444.019" y="15218.067"/> <port id="pr_cbc45b4f-02d0-4790-9322-e5385f7e6d78_p2" x="14474.019" y="15218.067"/> </glyph> <glyph class="process" orientation="vertical" id="pr_39384992-ddca-4fe9-8b4a-abe051cc2ccb"> <bbox w="10.0" h="10.0" x="21473.81" y="12687.5"/> <port id="pr_39384992-ddca-4fe9-8b4a-abe051cc2ccb_p1" x="21478.81" y="12707.5"/> <port id="pr_39384992-ddca-4fe9-8b4a-abe051cc2ccb_p2" x="21478.81" y="12677.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b3ceb05f-eebf-49b2-aed7-5dbb2d14fcda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>This arrow is to indicate that phosphorylated NFAT3 is also involved in complex formation of NFAT/AP-1</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="15538.561" y="21001.25"/> <port id="pr_b3ceb05f-eebf-49b2-aed7-5dbb2d14fcda_p1" x="15558.561" y="21006.25"/> <port id="pr_b3ceb05f-eebf-49b2-aed7-5dbb2d14fcda_p2" x="15528.561" y="21006.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_98797481-dbf3-4b5b-b521-889347950b36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4764.071" y="14636.13"/> <port id="pr_98797481-dbf3-4b5b-b521-889347950b36_p1" x="4754.071" y="14641.13"/> <port id="pr_98797481-dbf3-4b5b-b521-889347950b36_p2" x="4784.071" y="14641.13"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7393e207-709d-45cc-aa97-cc1162cb4395"> <bbox w="10.0" h="10.0" x="3729.1428" y="3472.0"/> <port id="pr_7393e207-709d-45cc-aa97-cc1162cb4395_p1" x="3734.1428" y="3462.0"/> <port id="pr_7393e207-709d-45cc-aa97-cc1162cb4395_p2" x="3734.1428" y="3492.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ab456379-5c5b-46f1-814e-aac1e7b08de3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16788062</p> <p>PMID:16790548</p> <p>in mouse cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_366c8833-4d1b-4a1e-a837-ec54970dc4c6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6055.75" y="10320.25"/> <port id="pr_366c8833-4d1b-4a1e-a837-ec54970dc4c6_p1" x="6060.75" y="10340.25"/> <port id="pr_366c8833-4d1b-4a1e-a837-ec54970dc4c6_p2" x="6060.75" y="10310.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f98980b3-19cd-4a4c-a3cc-4701d5239de7"> <bbox w="10.0" h="10.0" x="13019.025" y="12390.018"/> <port id="pr_f98980b3-19cd-4a4c-a3cc-4701d5239de7_p1" x="13024.025" y="12380.018"/> <port id="pr_f98980b3-19cd-4a4c-a3cc-4701d5239de7_p2" x="13024.025" y="12410.018"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ce251e3c-f6bc-47f8-a60d-5b3c09567815"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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id="pr_f03b1867-536b-4e71-bc2c-f74969b10fa3_p2" x="12781.991" y="7541.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0e127281-91d0-43e0-b7bd-c04e08d47118"> <bbox w="10.0" h="10.0" x="6129.1963" y="4253.75"/> <port id="pr_0e127281-91d0-43e0-b7bd-c04e08d47118_p1" x="6134.1963" y="4243.75"/> <port id="pr_0e127281-91d0-43e0-b7bd-c04e08d47118_p2" x="6134.1963" y="4273.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fbc2880f-328f-4175-9d80-1f8768d1bf06"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19574535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="16195.033"/> <port id="pr_7df3738b-2bb3-43cf-aef6-8962c8342060_p2" x="12073.352" y="16225.033"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8c40a50a-3539-4193-925e-0558264b700f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11546872</p> <p>in HEK293T, coIP</p> <p>Y2H</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8c40a50a-3539-4193-925e-0558264b700f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11546872"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22612.229" y="13346.052"/> <port id="pr_8c40a50a-3539-4193-925e-0558264b700f_p1" x="22632.229" y="13351.052"/> <port id="pr_8c40a50a-3539-4193-925e-0558264b700f_p2" x="22602.229" y="13351.052"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e9a023e7-f496-4d05-a3f9-74a6acdadd9c"> <bbox w="10.0" h="10.0" x="28349.285" y="13778.281"/> <port id="pr_e9a023e7-f496-4d05-a3f9-74a6acdadd9c_p1" x="28354.285" y="13768.281"/> <port id="pr_e9a023e7-f496-4d05-a3f9-74a6acdadd9c_p2" x="28354.285" y="13798.281"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d46b39ff-27fc-416e-ae93-6022f47393b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17053147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d46b39ff-27fc-416e-ae93-6022f47393b0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17053147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27350.088" y="12436.764"/> <port id="pr_d46b39ff-27fc-416e-ae93-6022f47393b0_p1" x="27340.088" y="12441.764"/> <port id="pr_d46b39ff-27fc-416e-ae93-6022f47393b0_p2" x="27370.088" y="12441.764"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_242db756-b58b-4132-9455-d1f9659be817"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Wee1 phosphorylation of CDC2 keeps the complex inactive</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12907.473" y="10726.606"/> <port id="pr_242db756-b58b-4132-9455-d1f9659be817_p1" x="12897.473" y="10731.606"/> <port id="pr_242db756-b58b-4132-9455-d1f9659be817_p2" x="12927.473" y="10731.606"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d993f7d0-43c4-42ce-a3a9-8ca2304bbe29"> <bbox w="10.0" h="10.0" x="6252.0" y="7395.0"/> <port id="pr_d993f7d0-43c4-42ce-a3a9-8ca2304bbe29_p1" x="6272.0" y="7400.0"/> <port id="pr_d993f7d0-43c4-42ce-a3a9-8ca2304bbe29_p2" x="6242.0" y="7400.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3607ff5f-4769-46d9-86fd-29a65ddb6d88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Apoptosis complex led by FAS ligation</p> <p>PMID:12702723</p> <p>PMID:9184224</p> <p>PMID:23069999</p> <p>PMID:16498403</p> <p>caspase-8 formed triple complex with TRAF2 and FLASH. Taken together, these results suggest that endogenous caspase-8 mediates TNF-alpha-induced activation of NF-kappaB via FLASH</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3607ff5f-4769-46d9-86fd-29a65ddb6d88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12702723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9184224"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23069999"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16498403"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25676.8" y="9534.125"/> <port id="pr_3607ff5f-4769-46d9-86fd-29a65ddb6d88_p1" x="25681.8" y="9524.125"/> <port id="pr_3607ff5f-4769-46d9-86fd-29a65ddb6d88_p2" x="25681.8" y="9554.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4c6232ab-edba-43b9-9b69-e47772f01571"> <bbox w="10.0" h="10.0" x="23692.06" y="22703.0"/> <port id="pr_4c6232ab-edba-43b9-9b69-e47772f01571_p1" x="23682.06" y="22708.0"/> <port id="pr_4c6232ab-edba-43b9-9b69-e47772f01571_p2" x="23712.06" y="22708.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8a6fb8a8-729a-45ed-9059-a508d25d2f5c"> <bbox w="10.0" h="10.0" x="15828.102" y="18420.148"/> <port id="pr_8a6fb8a8-729a-45ed-9059-a508d25d2f5c_p1" x="15818.102" y="18425.148"/> <port id="pr_8a6fb8a8-729a-45ed-9059-a508d25d2f5c_p2" x="15848.102" y="18425.148"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8c4b5c28-b36a-43a5-8616-83bcabb42931"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8360177</p> <p>RASA1 is a GAP for HRAS.</p> <p>PMID:18829532</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by PTK6..</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8c4b5c28-b36a-43a5-8616-83bcabb42931"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8360177"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18829532"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6218.0" y="14186.065"/> <port id="pr_8c4b5c28-b36a-43a5-8616-83bcabb42931_p1" x="6238.0" y="14191.065"/> <port id="pr_8c4b5c28-b36a-43a5-8616-83bcabb42931_p2" x="6208.0" y="14191.065"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d389b2fc-04b8-4bde-90a4-b504367048ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: reactants to re</p> <p>PMID:18372248</p> <p>PMID:17277771</p> <p>PMID:17517883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d389b2fc-04b8-4bde-90a4-b504367048ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372248"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17277771"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17517883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26855.893" y="11432.992"/> <port id="pr_d389b2fc-04b8-4bde-90a4-b504367048ac_p1" x="26860.893" y="11452.992"/> <port id="pr_d389b2fc-04b8-4bde-90a4-b504367048ac_p2" x="26860.893" y="11422.992"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1d87141-1111-48ac-b6c5-4129f281bef9"> <bbox w="10.0" h="10.0" x="13812.377" y="1946.25"/> <port id="pr_f1d87141-1111-48ac-b6c5-4129f281bef9_p1" x="13817.377" y="1936.25"/> <port id="pr_f1d87141-1111-48ac-b6c5-4129f281bef9_p2" x="13817.377" y="1966.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_f40cdce5-1b11-4819-b767-32b2942cbd3b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11638.473" y="15791.842"/> <port id="pr_f40cdce5-1b11-4819-b767-32b2942cbd3b_p1" x="11658.473" y="15796.842"/> <port id="pr_f40cdce5-1b11-4819-b767-32b2942cbd3b_p2" x="11628.473" y="15796.842"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e500f0d3-85c6-4b1a-9e7f-bd9236d21672"> <bbox w="10.0" h="10.0" x="1265.0" y="3558.0"/> <port id="pr_e500f0d3-85c6-4b1a-9e7f-bd9236d21672_p1" x="1270.0" y="3548.0"/> <port id="pr_e500f0d3-85c6-4b1a-9e7f-bd9236d21672_p2" x="1270.0" y="3578.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1040b801-2d0a-49ea-91f0-1478a393066b"> <bbox w="10.0" h="10.0" x="21837.242" y="13624.0"/> <port id="pr_1040b801-2d0a-49ea-91f0-1478a393066b_p1" x="21857.242" y="13629.0"/> <port id="pr_1040b801-2d0a-49ea-91f0-1478a393066b_p2" x="21827.242" y="13629.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7f673674-2002-4741-b46f-37a2e989e07d"> <bbox w="10.0" h="10.0" x="3464.56" y="22507.0"/> <port id="pr_7f673674-2002-4741-b46f-37a2e989e07d_p1" x="3484.56" y="22512.0"/> <port id="pr_7f673674-2002-4741-b46f-37a2e989e07d_p2" x="3454.56" y="22512.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8515ef6d-dc51-441b-89ea-78c067110f5c"> <bbox w="10.0" h="10.0" x="7217.0" y="6393.25"/> <port id="pr_8515ef6d-dc51-441b-89ea-78c067110f5c_p1" x="7222.0" y="6383.25"/> <port id="pr_8515ef6d-dc51-441b-89ea-78c067110f5c_p2" x="7222.0" y="6413.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_237d9759-650b-4ce0-a80c-ff08fef95581"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4529.7324" y="18616.062"/> <port id="pr_237d9759-650b-4ce0-a80c-ff08fef95581_p1" x="4549.7324" y="18621.062"/> <port id="pr_237d9759-650b-4ce0-a80c-ff08fef95581_p2" x="4519.7324" y="18621.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ef7c11a9-9c39-44ae-9f4f-83de2dd44eaf"> <bbox w="10.0" h="10.0" x="10437.676" y="5709.3125"/> <port id="pr_ef7c11a9-9c39-44ae-9f4f-83de2dd44eaf_p1" x="10442.676" y="5729.3125"/> <port id="pr_ef7c11a9-9c39-44ae-9f4f-83de2dd44eaf_p2" x="10442.676" y="5699.3125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aad47921-5a20-4ca2-be5c-dd77812faddc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:8900201</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aad47921-5a20-4ca2-be5c-dd77812faddc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8900201"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25074.06" y="13164.0"/> <port id="pr_aad47921-5a20-4ca2-be5c-dd77812faddc_p1" x="25064.06" y="13169.0"/> <port id="pr_aad47921-5a20-4ca2-be5c-dd77812faddc_p2" x="25094.06" y="13169.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_555270fc-f4e1-4aeb-9c37-2da38aafbdb8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5564.5415" y="16095.275"/> <port id="pr_555270fc-f4e1-4aeb-9c37-2da38aafbdb8_p1" x="5554.5415" y="16100.275"/> <port id="pr_555270fc-f4e1-4aeb-9c37-2da38aafbdb8_p2" x="5584.5415" y="16100.275"/> </glyph> <glyph class="process" orientation="vertical" id="pr_47875e50-b522-429e-8098-9ff67bd85c8b"> <bbox w="10.0" h="10.0" x="16438.943" y="5523.041"/> <port id="pr_47875e50-b522-429e-8098-9ff67bd85c8b_p1" x="16443.943" y="5513.041"/> <port id="pr_47875e50-b522-429e-8098-9ff67bd85c8b_p2" x="16443.943" y="5543.041"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_634dc72d-622f-44d9-ae3b-c08e3c725224"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19265852</p> <p>PMID:16227588</p> <p>PMID:17106237</p> <p>PMID:22885520</p> <p>PMID:18612260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_634dc72d-622f-44d9-ae3b-c08e3c725224"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19265852"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16227588"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17106237"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22885520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18612260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28128.873" y="11293.5"/> <port id="pr_634dc72d-622f-44d9-ae3b-c08e3c725224_p1" x="28118.873" y="11298.5"/> <port id="pr_634dc72d-622f-44d9-ae3b-c08e3c725224_p2" x="28148.873" y="11298.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_86f13be5-6ecf-46b2-af35-41518c5fee6a"> <bbox w="10.0" h="10.0" x="25966.326" y="16049.0"/> <port id="pr_86f13be5-6ecf-46b2-af35-41518c5fee6a_p1" x="25956.326" y="16054.0"/> <port id="pr_86f13be5-6ecf-46b2-af35-41518c5fee6a_p2" x="25986.326" y="16054.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b95b79e1-c13c-4dd3-a3c4-81fbe5b172de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5511.8213" y="16094.791"/> <port id="pr_b95b79e1-c13c-4dd3-a3c4-81fbe5b172de_p1" x="5501.8213" y="16099.791"/> <port id="pr_b95b79e1-c13c-4dd3-a3c4-81fbe5b172de_p2" x="5531.8213" y="16099.791"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7832def2-e325-4a4d-9f81-0f5d2038f0b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23589069</p> <p>PMID:22131018</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7832def2-e325-4a4d-9f81-0f5d2038f0b2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23589069"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22131018"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4345.25" y="10757.0"/> <port id="pr_7832def2-e325-4a4d-9f81-0f5d2038f0b2_p1" x="4350.25" y="10747.0"/> <port id="pr_7832def2-e325-4a4d-9f81-0f5d2038f0b2_p2" x="4350.25" y="10777.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d6dbeb63-6b61-4e7e-bb98-5ed10e37b86a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6114.1846" y="15379.0"/> <port id="pr_d6dbeb63-6b61-4e7e-bb98-5ed10e37b86a_p1" x="6134.1846" y="15384.0"/> <port id="pr_d6dbeb63-6b61-4e7e-bb98-5ed10e37b86a_p2" x="6104.1846" y="15384.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1883d09e-b266-4b72-8576-abe7796a1f7d"> <bbox w="10.0" h="10.0" x="26842.25" y="2682.5"/> <port id="pr_1883d09e-b266-4b72-8576-abe7796a1f7d_p1" x="26847.25" y="2672.5"/> <port id="pr_1883d09e-b266-4b72-8576-abe7796a1f7d_p2" x="26847.25" y="2702.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1c01b4d-8341-4d50-a442-ab6c665ecaa5"> <bbox w="10.0" h="10.0" x="3955.0" y="1603.75"/> <port id="pr_f1c01b4d-8341-4d50-a442-ab6c665ecaa5_p1" x="3960.0" y="1593.75"/> <port id="pr_f1c01b4d-8341-4d50-a442-ab6c665ecaa5_p2" x="3960.0" y="1623.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c001108-190c-4953-98cf-460abbc87899"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27773.06" y="22461.0"/> <port id="pr_7c001108-190c-4953-98cf-460abbc87899_p1" x="27763.06" y="22466.0"/> <port id="pr_7c001108-190c-4953-98cf-460abbc87899_p2" x="27793.06" y="22466.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a182454b-190d-4a5b-bbd5-77c018771ef9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12138125</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a182454b-190d-4a5b-bbd5-77c018771ef9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25991.81" y="21172.0"/> <port id="pr_a182454b-190d-4a5b-bbd5-77c018771ef9_p1" x="26011.81" y="21177.0"/> <port id="pr_a182454b-190d-4a5b-bbd5-77c018771ef9_p2" x="25981.81" y="21177.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0e0f49fc-ed29-46d6-b609-c1f4906392d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16326698</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0e0f49fc-ed29-46d6-b609-c1f4906392d0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16326698"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17887.303" y="11895.625"/> <port id="pr_0e0f49fc-ed29-46d6-b609-c1f4906392d0_p1" x="17877.303" y="11900.625"/> <port id="pr_0e0f49fc-ed29-46d6-b609-c1f4906392d0_p2" x="17907.303" y="11900.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_df9f4372-c39c-4806-a892-ba216f6ec563"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:28747251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_df9f4372-c39c-4806-a892-ba216f6ec563"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26322.79" y="12872.0625"/> <port id="pr_df9f4372-c39c-4806-a892-ba216f6ec563_p1" x="26327.79" y="12892.0625"/> <port id="pr_df9f4372-c39c-4806-a892-ba216f6ec563_p2" x="26327.79" y="12862.0625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_de16a1bb-891f-4526-99fd-5a29bc2d8123"> <bbox w="10.0" h="10.0" x="21047.81" y="10870.423"/> <port id="pr_de16a1bb-891f-4526-99fd-5a29bc2d8123_p1" x="21067.81" y="10875.423"/> <port id="pr_de16a1bb-891f-4526-99fd-5a29bc2d8123_p2" x="21037.81" y="10875.423"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb8f21c1-a5c3-42bf-b8b7-92ff7bd35347"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3520.0" y="12956.0"/> <port id="pr_cb8f21c1-a5c3-42bf-b8b7-92ff7bd35347_p1" x="3525.0" y="12946.0"/> <port id="pr_cb8f21c1-a5c3-42bf-b8b7-92ff7bd35347_p2" x="3525.0" y="12976.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69ea3fab-fe36-44e1-ae20-92d11f761185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3713.7124" y="14707.0"/> <port id="pr_69ea3fab-fe36-44e1-ae20-92d11f761185_p1" x="3718.7124" y="14727.0"/> <port id="pr_69ea3fab-fe36-44e1-ae20-92d11f761185_p2" x="3718.7124" y="14697.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_70f91a6d-cf20-42c4-bbc2-b0b3b1585be1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_70f91a6d-cf20-42c4-bbc2-b0b3b1585be1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19641.701" y="16174.75"/> <port id="pr_70f91a6d-cf20-42c4-bbc2-b0b3b1585be1_p1" x="19646.701" y="16194.75"/> <port id="pr_70f91a6d-cf20-42c4-bbc2-b0b3b1585be1_p2" x="19646.701" y="16164.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c08316bb-7003-4962-8a3e-f955632fc182"> <bbox w="10.0" h="10.0" x="14194.936" y="7555.4688"/> <port id="pr_c08316bb-7003-4962-8a3e-f955632fc182_p1" x="14199.936" y="7545.4688"/> <port id="pr_c08316bb-7003-4962-8a3e-f955632fc182_p2" x="14199.936" y="7575.4688"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d776eb90-a0f8-4f16-a6a4-e0fb2564e2fc"> <bbox w="10.0" h="10.0" x="20642.035" y="4858.25"/> <port id="pr_d776eb90-a0f8-4f16-a6a4-e0fb2564e2fc_p1" x="20647.035" y="4848.25"/> <port id="pr_d776eb90-a0f8-4f16-a6a4-e0fb2564e2fc_p2" x="20647.035" y="4878.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_40c825d9-50a3-4a0f-bd2c-c24ba3137e55"> <bbox w="10.0" h="10.0" x="27109.06" y="14539.0"/> <port id="pr_40c825d9-50a3-4a0f-bd2c-c24ba3137e55_p1" x="27099.06" y="14544.0"/> <port id="pr_40c825d9-50a3-4a0f-bd2c-c24ba3137e55_p2" x="27129.06" y="14544.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83339028-a7e2-4a5c-9edb-fcf2f995e4c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14747474</p> <p>in U937</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83339028-a7e2-4a5c-9edb-fcf2f995e4c4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14747474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21382.035" y="13149.285"/> <port id="pr_83339028-a7e2-4a5c-9edb-fcf2f995e4c4_p1" x="21402.035" y="13154.285"/> <port id="pr_83339028-a7e2-4a5c-9edb-fcf2f995e4c4_p2" x="21372.035" y="13154.285"/> </glyph> <glyph class="process" orientation="vertical" id="pr_482d4dc2-5b34-49b9-9809-e62454b621e0"> <bbox w="10.0" h="10.0" x="20071.25" y="5260.0"/> <port id="pr_482d4dc2-5b34-49b9-9809-e62454b621e0_p1" x="20076.25" y="5250.0"/> <port id="pr_482d4dc2-5b34-49b9-9809-e62454b621e0_p2" x="20076.25" y="5280.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29212ff7-e297-47bb-89c7-151d3c6a10d4"> <bbox w="10.0" h="10.0" x="29228.133" y="11962.75"/> <port id="pr_29212ff7-e297-47bb-89c7-151d3c6a10d4_p1" x="29233.133" y="11952.75"/> <port id="pr_29212ff7-e297-47bb-89c7-151d3c6a10d4_p2" x="29233.133" y="11982.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_a5b6ed07-8032-4032-b772-a01b5bd5d6e8"> <bbox w="10.0" h="10.0" x="11471.617" y="14346.552"/> <port id="pr_a5b6ed07-8032-4032-b772-a01b5bd5d6e8_p1" x="11461.617" y="14351.552"/> <port id="pr_a5b6ed07-8032-4032-b772-a01b5bd5d6e8_p2" x="11491.617" y="14351.552"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b0b1adb1-1808-4235-99af-06272b446a35"> <bbox w="10.0" h="10.0" x="21876.773" y="21252.885"/> <port id="pr_b0b1adb1-1808-4235-99af-06272b446a35_p1" x="21866.773" y="21257.885"/> <port id="pr_b0b1adb1-1808-4235-99af-06272b446a35_p2" x="21896.773" y="21257.885"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f4c8fa4-6b2f-4d86-b379-54df36727abf"> <bbox w="10.0" h="10.0" x="29092.06" y="10506.0"/> <port id="pr_6f4c8fa4-6b2f-4d86-b379-54df36727abf_p1" x="29097.06" y="10496.0"/> <port id="pr_6f4c8fa4-6b2f-4d86-b379-54df36727abf_p2" x="29097.06" y="10526.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_25fb6732-a95c-44cf-95ac-71ac79e8480d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MSK1 rather than RSK1 mediates the mitogen-stimulated phoshphorylation of CREB.</p> <p>PMID:15187187</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3551.4634" y="16889.305"/> <port id="pr_911b9013-5126-4fbb-8333-870a5a6b732f_p1" x="3571.4634" y="16894.305"/> <port id="pr_911b9013-5126-4fbb-8333-870a5a6b732f_p2" x="3541.4634" y="16894.305"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_e7c7599c-10a6-42b6-a8ef-5f2deac7e5f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5518.25" y="17943.5"/> <port id="pr_e7c7599c-10a6-42b6-a8ef-5f2deac7e5f2_p1" x="5523.25" y="17963.5"/> <port id="pr_e7c7599c-10a6-42b6-a8ef-5f2deac7e5f2_p2" x="5523.25" y="17933.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d31ef4f7-b5c7-40c5-8067-77f2bfae6184"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22634377, PMID:18347021</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d31ef4f7-b5c7-40c5-8067-77f2bfae6184"> <bqbiol:isEncodedBy> 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x="4901.535" y="4502.4565"/> <port id="pr_6e4ca925-374a-4bee-93e8-48c5c085f43c_p2" x="4901.535" y="4532.4565"/> </glyph> <glyph class="process" orientation="vertical" id="pr_997d5330-deab-4437-93e6-b199a4627e94"> <bbox w="10.0" h="10.0" x="29842.0" y="2590.0"/> <port id="pr_997d5330-deab-4437-93e6-b199a4627e94_p1" x="29847.0" y="2580.0"/> <port id="pr_997d5330-deab-4437-93e6-b199a4627e94_p2" x="29847.0" y="2610.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c4bc1432-4670-45a4-8b00-898cb0bccab0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3638.25" y="14255.5"/> <port id="pr_c4bc1432-4670-45a4-8b00-898cb0bccab0_p1" x="3643.25" y="14245.5"/> <port id="pr_c4bc1432-4670-45a4-8b00-898cb0bccab0_p2" x="3643.25" y="14275.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83a99127-2182-4318-9716-80dea6a7f687"> <bbox w="10.0" h="10.0" x="7172.0" y="6260.0"/> <port id="pr_83a99127-2182-4318-9716-80dea6a7f687_p1" x="7162.0" y="6265.0"/> <port id="pr_83a99127-2182-4318-9716-80dea6a7f687_p2" x="7192.0" y="6265.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_afba2b52-5d38-4473-9f5f-d5b65702ddaf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17018620</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_afba2b52-5d38-4473-9f5f-d5b65702ddaf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17018620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5497.0" y="11144.42"/> <port id="pr_afba2b52-5d38-4473-9f5f-d5b65702ddaf_p1" x="5487.0" y="11149.42"/> <port id="pr_afba2b52-5d38-4473-9f5f-d5b65702ddaf_p2" x="5517.0" y="11149.42"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_052c9bbb-c292-43b7-9a5d-1affcb9533c6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22833265</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_052c9bbb-c292-43b7-9a5d-1affcb9533c6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22833265"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23802.56" y="21497.0"/> <port id="pr_052c9bbb-c292-43b7-9a5d-1affcb9533c6_p1" x="23792.56" y="21502.0"/> <port id="pr_052c9bbb-c292-43b7-9a5d-1affcb9533c6_p2" x="23822.56" y="21502.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f6e752ea-ac90-40a6-bd8a-391b52da3a8b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f6e752ea-ac90-40a6-bd8a-391b52da3a8b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5245.0" y="12075.0"/> <port id="pr_f6e752ea-ac90-40a6-bd8a-391b52da3a8b_p1" x="5235.0" y="12080.0"/> <port id="pr_f6e752ea-ac90-40a6-bd8a-391b52da3a8b_p2" x="5265.0" y="12080.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a8382a92-1471-4661-bf28-f463d7238ee5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2734.75" y="17638.426"/> <port id="pr_a8382a92-1471-4661-bf28-f463d7238ee5_p1" x="2754.75" y="17643.426"/> <port id="pr_a8382a92-1471-4661-bf28-f463d7238ee5_p2" x="2724.75" y="17643.426"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_148ead53-8281-494e-9371-7133ee3a08f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> 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id="pr_0d5550f7-4224-4912-9b34-d3607ce6b27d_p2" x="13210.0" y="6665.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1753225d-0158-47df-98a7-72672950739c"> <bbox w="10.0" h="10.0" x="12635.193" y="9160.356"/> <port id="pr_1753225d-0158-47df-98a7-72672950739c_p1" x="12640.193" y="9150.356"/> <port id="pr_1753225d-0158-47df-98a7-72672950739c_p2" x="12640.193" y="9180.356"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d68b9f9-50ea-4a63-8fcc-497eb056e058"> <bbox w="10.0" h="10.0" x="18939.06" y="9674.25"/> <port id="pr_4d68b9f9-50ea-4a63-8fcc-497eb056e058_p1" x="18959.06" y="9679.25"/> <port id="pr_4d68b9f9-50ea-4a63-8fcc-497eb056e058_p2" x="18929.06" y="9679.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f4e17f78-c7c1-4767-b052-dda9e32109d8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20538596</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f4e17f78-c7c1-4767-b052-dda9e32109d8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20538596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21177.06" y="20926.363"/> <port id="pr_f4e17f78-c7c1-4767-b052-dda9e32109d8_p1" x="21197.06" y="20931.363"/> <port id="pr_f4e17f78-c7c1-4767-b052-dda9e32109d8_p2" x="21167.06" y="20931.363"/> </glyph> 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rdf:resource="urn:miriam:pubmed:17910481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20110.56" y="19758.844"/> <port id="pr_8f68cdd3-5460-4c9f-94f1-2fcdb2eb0a83_p1" x="20115.56" y="19748.844"/> <port id="pr_8f68cdd3-5460-4c9f-94f1-2fcdb2eb0a83_p2" x="20115.56" y="19778.844"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2aa41067-eef4-4bf9-a1f7-a3de0d33468c"> <bbox w="10.0" h="10.0" x="7123.0" y="1877.0"/> <port id="pr_2aa41067-eef4-4bf9-a1f7-a3de0d33468c_p1" x="7128.0" y="1867.0"/> <port id="pr_2aa41067-eef4-4bf9-a1f7-a3de0d33468c_p2" x="7128.0" y="1897.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb876e19-8453-4900-a6af-e68359ee925b"> <bbox w="10.0" h="10.0" x="18362.0" y="3063.7058"/> <port id="pr_eb876e19-8453-4900-a6af-e68359ee925b_p1" x="18352.0" y="3068.7058"/> <port id="pr_eb876e19-8453-4900-a6af-e68359ee925b_p2" x="18382.0" y="3068.7058"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fd4ec2cc-8a2c-4f07-bfda-c6f3da391b72"> <bbox w="10.0" h="10.0" x="18849.31" y="15898.5"/> <port id="pr_fd4ec2cc-8a2c-4f07-bfda-c6f3da391b72_p1" x="18854.31" y="15888.5"/> <port id="pr_fd4ec2cc-8a2c-4f07-bfda-c6f3da391b72_p2" x="18854.31" y="15918.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_69ef3628-3dbe-4f20-9b54-5251d3ff1cd3"> <bbox w="10.0" h="10.0" x="5757.0" y="7070.0"/> <port id="pr_69ef3628-3dbe-4f20-9b54-5251d3ff1cd3_p1" x="5747.0" y="7075.0"/> <port id="pr_69ef3628-3dbe-4f20-9b54-5251d3ff1cd3_p2" x="5777.0" y="7075.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cbda9971-e7b5-408c-a995-34354fcfe99b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18455992</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cbda9971-e7b5-408c-a995-34354fcfe99b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18455992"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26595.06" y="19250.0"/> <port id="pr_cbda9971-e7b5-408c-a995-34354fcfe99b_p1" x="26585.06" y="19255.0"/> <port id="pr_cbda9971-e7b5-408c-a995-34354fcfe99b_p2" x="26615.06" y="19255.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_33b5824e-a335-42c3-a5c6-a9707eb7ecc2"> <bbox w="10.0" h="10.0" x="26681.0" y="8133.75"/> <port id="pr_33b5824e-a335-42c3-a5c6-a9707eb7ecc2_p1" x="26686.0" y="8123.75"/> <port id="pr_33b5824e-a335-42c3-a5c6-a9707eb7ecc2_p2" x="26686.0" y="8153.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_80a62205-23c6-421b-b6df-80db7a9119e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10561552</p> <p>caracterization of human ferrochelatase as a Fe-S homodimer</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_80a62205-23c6-421b-b6df-80db7a9119e9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10561552"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19131.809" y="13046.54"/> <port id="pr_80a62205-23c6-421b-b6df-80db7a9119e9_p1" x="19121.809" y="13051.54"/> <port id="pr_80a62205-23c6-421b-b6df-80db7a9119e9_p2" x="19151.809" y="13051.54"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6cbd6655-b1fd-4ef2-892b-1ddd000adb58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21228116</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6cbd6655-b1fd-4ef2-892b-1ddd000adb58"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21228116"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26804.326" y="21398.75"/> <port id="pr_6cbd6655-b1fd-4ef2-892b-1ddd000adb58_p1" x="26809.326" y="21418.75"/> <port id="pr_6cbd6655-b1fd-4ef2-892b-1ddd000adb58_p2" x="26809.326" y="21388.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_48ad12d9-41a5-4d8a-95d4-05804efee7b5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:16099633</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_48ad12d9-41a5-4d8a-95d4-05804efee7b5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16099633"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17478.56" y="21021.5"/> <port id="pr_48ad12d9-41a5-4d8a-95d4-05804efee7b5_p1" x="17483.56" y="21011.5"/> <port id="pr_48ad12d9-41a5-4d8a-95d4-05804efee7b5_p2" x="17483.56" y="21041.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_86fc573b-21ad-49e7-a7ee-329b96658eb6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4626.4263" y="17787.5"/> <port id="pr_86fc573b-21ad-49e7-a7ee-329b96658eb6_p1" x="4631.4263" y="17777.5"/> <port id="pr_86fc573b-21ad-49e7-a7ee-329b96658eb6_p2" x="4631.4263" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_65fbafe5-b34b-40d8-b515-65ff61144018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>In airway smooth muscle cells</p> <p>PMID:21908588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_65fbafe5-b34b-40d8-b515-65ff61144018"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19135.06" y="21525.0"/> <port id="pr_65fbafe5-b34b-40d8-b515-65ff61144018_p1" x="19125.06" y="21530.0"/> <port id="pr_65fbafe5-b34b-40d8-b515-65ff61144018_p2" x="19155.06" y="21530.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_507f4275-e0c4-47a5-8871-32320c992689"> <bbox w="20.0" h="20.0" x="18714.727" y="21286.334"/> <port id="logicglyph_507f4275-e0c4-47a5-8871-32320c992689_p1" x="18704.727" y="21296.334"/> <port id="logicglyph_507f4275-e0c4-47a5-8871-32320c992689_p2" x="18744.727" y="21296.334"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1bc0eaa1-1294-4119-82b5-4e588df09a32"> <bbox w="10.0" h="10.0" x="1117.8333" y="1602.0"/> <port id="pr_1bc0eaa1-1294-4119-82b5-4e588df09a32_p1" x="1122.8333" y="1592.0"/> <port id="pr_1bc0eaa1-1294-4119-82b5-4e588df09a32_p2" x="1122.8333" y="1622.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5d208343-0edd-4f9b-883d-815cf14eb49c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Acetylation of beta-catenin increases its stability</p> <p>PMID:18987336</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5d208343-0edd-4f9b-883d-815cf14eb49c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18987336"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21749.748" y="21138.5"/> <port id="pr_5d208343-0edd-4f9b-883d-815cf14eb49c_p1" x="21739.748" y="21143.5"/> <port id="pr_5d208343-0edd-4f9b-883d-815cf14eb49c_p2" x="21769.748" y="21143.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_95cb553f-d1e9-422a-b4e6-ef66d0ef60ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The exact mechanism is depicted in the cytoplasmic fraction. Although the articles do not mention where exactly the reactions occurs TNKS are found in the cytoplasm and in the nucleus.</p> <p>PMID:17825467</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_95cb553f-d1e9-422a-b4e6-ef66d0ef60ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17825467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22129.31" y="22242.0"/> <port id="pr_95cb553f-d1e9-422a-b4e6-ef66d0ef60ae_p1" x="22119.31" y="22247.0"/> <port id="pr_95cb553f-d1e9-422a-b4e6-ef66d0ef60ae_p2" x="22149.31" y="22247.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_b236499a-4b59-4ffc-b051-12c015b864fa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:25234227</p> <p>NPDK-A and dynamin associate during cytokinesis to promote chromosome stability.</p> <p> Loss of NDPK-A is linked to cytokinesis failure and tetraploidy</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b236499a-4b59-4ffc-b051-12c015b864fa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4904.0" y="14846.0"/> <port id="pr_b236499a-4b59-4ffc-b051-12c015b864fa_p1" x="4909.0" y="14866.0"/> <port id="pr_b236499a-4b59-4ffc-b051-12c015b864fa_p2" x="4909.0" y="14836.0"/> </glyph> <glyph class="and" orientation="horizontal" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14645242</p> <p>autoubiquitinylation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_46cab4f2-f29c-4dc1-abe7-0e512aa0877d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14645242"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24624.06" y="12034.0"/> <port id="pr_46cab4f2-f29c-4dc1-abe7-0e512aa0877d_p1" x="24644.06" y="12039.0"/> <port id="pr_46cab4f2-f29c-4dc1-abe7-0e512aa0877d_p2" x="24614.06" y="12039.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_af19ed7b-a3a8-43b3-9402-0ef6e946d4b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>By CycB*/CDC2*:</p> <p>G2/M transition</p> <p>PMID:16818604</p> <p>For BRCA2 and FANCD2/FANCDI importance in the cytokinesis and localisation at the spindle and role in the propagation of mitosis:</p> <p>PMID:15375219, PMID:19686080</p> <p>CDC2 has to be phosphorylated fot inhibition of G2 to M propagation (called G2 checkpoint). FANCC activates CDC2 phosphorylation</p> <p>PMID:15377654</p> <p>Brca1 ubiquitinates CtIp and in complex they inhibit G2 to M propagation (G2 checkpoint)</p> <p>PMID:16818604, PMID:15485915 </p> <p>BRCA1 and FANCJ in complex inhibit G2 to M propagation (called G2 checkpoint).</p> <p>PMID:15242590</p> <p>FANCM:FAAP24 complex activated G2 phase checpoint (G2 to M propagation inhibition):</p> <p>PMID:18995830</p> <p>ATR kinase activation mediated by MutSalpha and MutLalpha in response to cytotoxic O6-methylguanine adducts. O6-methylguanine adducts recognized by MutSalpha, MutLalpha and BER pathways performs the repair:</p> <p>PMID:16713580, PMID:18543256</p> <p> BER and MMR interaction and G2/M arrest inresponce to o6-meG formation:</p> <p>PMID:14614141</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_af19ed7b-a3a8-43b3-9402-0ef6e946d4b3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16818604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15375219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15377654"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16818604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15485915"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15242590"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18995830"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713580"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18543256"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14614141"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12416.77" y="13478.0"/> <port id="pr_af19ed7b-a3a8-43b3-9402-0ef6e946d4b3_p1" x="12436.77" y="13483.0"/> <port id="pr_af19ed7b-a3a8-43b3-9402-0ef6e946d4b3_p2" x="12406.77" y="13483.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3dcf69c4-59e1-449d-a986-32fd626bf666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17962814</p> <p>Link between spindle checkpoint and ds break DNA repair pathway (C_NHEJ)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3dcf69c4-59e1-449d-a986-32fd626bf666"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17962814"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12380.006" y="14455.91"/> <port id="pr_3dcf69c4-59e1-449d-a986-32fd626bf666_p1" x="12385.006" y="14445.91"/> <port id="pr_3dcf69c4-59e1-449d-a986-32fd626bf666_p2" x="12385.006" y="14475.91"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_765c8136-f38d-4042-bfc1-7c3ee62f3742"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18570872</p> <p>PMID:18621737</p> <p>PMID:23010170</p> <p>Complex I-mediated NF-κB stimulation is caused by cIAP-induced</p> <p>K63-linked polyubiquitination of RIP1 and linear ubiquitin chain</p> <p>assembly complex (LUBAC)-mediated linear ubiquitination of</p> <p>RIP1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_765c8136-f38d-4042-bfc1-7c3ee62f3742"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18570872"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18621737"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22887.06" y="9814.25"/> <port id="pr_765c8136-f38d-4042-bfc1-7c3ee62f3742_p1" x="22877.06" y="9819.25"/> <port id="pr_765c8136-f38d-4042-bfc1-7c3ee62f3742_p2" x="22907.06" y="9819.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d59b88ff-678d-4a6b-904a-e608aedeb2eb"> <bbox w="10.0" h="10.0" x="2800.0" y="3645.0"/> <port id="pr_d59b88ff-678d-4a6b-904a-e608aedeb2eb_p1" x="2790.0" y="3650.0"/> <port id="pr_d59b88ff-678d-4a6b-904a-e608aedeb2eb_p2" x="2820.0" y="3650.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_ebd2e269-5cd4-4efb-8fe1-8c0263196a8a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3500.0" y="13622.0"/> <port id="pr_ebd2e269-5cd4-4efb-8fe1-8c0263196a8a_p1" x="3520.0" y="13627.0"/> <port id="pr_ebd2e269-5cd4-4efb-8fe1-8c0263196a8a_p2" x="3490.0" y="13627.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_470b5d9e-a22d-4d69-a197-2fdfd07b2daa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4054.5" y="17690.0"/> <port id="pr_470b5d9e-a22d-4d69-a197-2fdfd07b2daa_p1" x="4059.5" y="17680.0"/> <port id="pr_470b5d9e-a22d-4d69-a197-2fdfd07b2daa_p2" x="4059.5" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_def3f0fb-bcf8-4a5f-a4b7-2bf2b8385be8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_def3f0fb-bcf8-4a5f-a4b7-2bf2b8385be8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21033.31" y="22325.0"/> <port id="pr_def3f0fb-bcf8-4a5f-a4b7-2bf2b8385be8_p1" x="21023.31" y="22330.0"/> <port id="pr_def3f0fb-bcf8-4a5f-a4b7-2bf2b8385be8_p2" x="21053.31" y="22330.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6af3dd5-9346-4cf2-b4f9-e8e599459137"> <bbox w="10.0" h="10.0" x="24987.06" y="16197.0"/> <port id="pr_a6af3dd5-9346-4cf2-b4f9-e8e599459137_p1" x="24992.06" y="16217.0"/> <port id="pr_a6af3dd5-9346-4cf2-b4f9-e8e599459137_p2" x="24992.06" y="16187.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e2d2889-452a-4448-a144-cb3c2789ebd8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1e2d2889-452a-4448-a144-cb3c2789ebd8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17834.06" y="13008.375"/> <port id="pr_1e2d2889-452a-4448-a144-cb3c2789ebd8_p1" x="17839.06" y="12998.375"/> <port id="pr_1e2d2889-452a-4448-a144-cb3c2789ebd8_p2" x="17839.06" y="13028.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f07afca7-4456-4402-bdcb-bfe9929db210"> <bbox w="10.0" h="10.0" x="28786.17" y="12392.583"/> <port id="pr_f07afca7-4456-4402-bdcb-bfe9929db210_p1" x="28791.17" y="12382.583"/> <port id="pr_f07afca7-4456-4402-bdcb-bfe9929db210_p2" x="28791.17" y="12412.583"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_63f09946-f1b3-41f8-88ca-ed149198147e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4933.266" y="18392.312"/> <port id="pr_63f09946-f1b3-41f8-88ca-ed149198147e_p1" x="4953.266" y="18397.312"/> <port id="pr_63f09946-f1b3-41f8-88ca-ed149198147e_p2" x="4923.266" y="18397.312"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d82c056f-22e9-4d53-bbf8-ef52916d6454"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P53 target genes: P21WAF1 MDM2 PERP NOXA GADD45 DDB2.</p> <p>PMID:15856024</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d82c056f-22e9-4d53-bbf8-ef52916d6454"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15856024"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>USP1 levles are cell cycle regulated USP1 is at the peak during early G1/S phase and declines late S/G2 phase.</p> <p>PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_36ab99c6-698f-4f58-baaa-9df964418ded"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_8afee44d-2d8b-47a4-8eb3-f52a38ffb39c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24106.527" y="14787.643"/> <port id="pr_8afee44d-2d8b-47a4-8eb3-f52a38ffb39c_p1" x="24096.527" y="14792.643"/> <port id="pr_8afee44d-2d8b-47a4-8eb3-f52a38ffb39c_p2" x="24126.527" y="14792.643"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_95ba21cb-eb0f-453c-af87-2f24978c859a"> <bbox w="10.0" h="10.0" x="24191.678" y="13947.005"/> <port id="pr_95ba21cb-eb0f-453c-af87-2f24978c859a_p1" x="24181.678" y="13952.005"/> <port id="pr_95ba21cb-eb0f-453c-af87-2f24978c859a_p2" x="24211.678" y="13952.005"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eae610bf-5214-48a7-a7bb-d53223763117"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:24070470</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eae610bf-5214-48a7-a7bb-d53223763117"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24070470"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28587.81" y="11916.852"/> <port id="pr_eae610bf-5214-48a7-a7bb-d53223763117_p1" x="28607.81" y="11921.852"/> <port id="pr_eae610bf-5214-48a7-a7bb-d53223763117_p2" x="28577.81" y="11921.852"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da8be78c-1485-4296-bea2-eb704f09cedc"> <bbox w="10.0" h="10.0" x="26592.201" y="16081.5"/> <port id="pr_da8be78c-1485-4296-bea2-eb704f09cedc_p1" x="26597.201" y="16101.5"/> <port id="pr_da8be78c-1485-4296-bea2-eb704f09cedc_p2" x="26597.201" y="16071.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5d342fce-606a-4e59-86d3-e217b48e00a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15263019</p> <p>Endocytosis of E-cadherin regulated by Rac and Cdc42 small G proteins through IQGAP1 and actin filaments.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5d342fce-606a-4e59-86d3-e217b48e00a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15263019"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2356.5" y="14049.43"/> <port id="pr_5d342fce-606a-4e59-86d3-e217b48e00a4_p1" x="2376.5" y="14054.43"/> <port id="pr_5d342fce-606a-4e59-86d3-e217b48e00a4_p2" x="2346.5" y="14054.43"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d0747e26-35a7-480a-9712-cee6d07dd93d"> <bbox w="10.0" h="10.0" x="15792.791" y="18445.707"/> <port id="pr_d0747e26-35a7-480a-9712-cee6d07dd93d_p1" x="15782.791" y="18450.707"/> <port id="pr_d0747e26-35a7-480a-9712-cee6d07dd93d_p2" x="15812.791" y="18450.707"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_afa797d6-3761-4751-9c35-0599104925da"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1949.25" y="15298.25"/> <port id="pr_afa797d6-3761-4751-9c35-0599104925da_p1" x="1969.25" y="15303.25"/> <port id="pr_afa797d6-3761-4751-9c35-0599104925da_p2" x="1939.25" y="15303.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2d630ed3-94b9-4d54-9105-93245562a74d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15807660</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d630ed3-94b9-4d54-9105-93245562a74d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15807660"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19419.098" y="14456.539"/> <port 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_85959315-ebf5-4ec4-a198-f25dd1b40c57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22304967"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21901.395" y="21687.25"/> <port id="pr_85959315-ebf5-4ec4-a198-f25dd1b40c57_p1" x="21906.395" y="21677.25"/> <port id="pr_85959315-ebf5-4ec4-a198-f25dd1b40c57_p2" x="21906.395" y="21707.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_770a0db3-8620-4e90-be54-079920d98344"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22315516</p> <p>-Occludin is phosphorylated at S340 by PKC</p> <p>-Occludin is phosphorylated at T383 and S508 by ROCK</p> <p>-Occludin is phosphorylated at Y398, Y402 and Y474 by SRC</p> <p>-Occludin is phosphorylated at T400, T404 and S408 by CK2</p> <p>-Occludin is phosphorylated at S403 and S404 by PKC-N</p> <p>-Occludin is phosphorylated at T424 and T438 by PKC-E</p> <p>-Occludin is phosphorylated at S490 by VEGF</p> <p>PMID:19017651</p> <p>PMID:12604349</p> <p>In mouse, phosphorylation of Occludin by SRC (at Y398, Y402) reduces TIGHT_JUNCTIONS assembly</p> <p>In mouse, phosphorylation of Occludin by SRC (at Y398, Y402) reduces interaction between Occludin and ZO1,2,3</p> <p>PMID:20152177</p> <p>In mouse, phosphorylation of Occludin by SRC (at Y474) increases interaction between Occludin and PI3K</p> <p>In mouse, phosphorylation of Occludin by SRC (at Y474) increases wound healing and migration</p> <p>PMID:12547828</p> <p>Inactive Src delays the oxidative stress-induced disruption of tight junction and accelerates calcium- induced assembly of tight junction in Caco-2 cells.</p> <p>This demonstrates that oxidative stress-induced disruption of tight junction is mediated by the activation of Src.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_770a0db3-8620-4e90-be54-079920d98344"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22315516"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19017651"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12604349"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20152177"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12547828"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1206.75" y="14988.6"/> <port id="pr_770a0db3-8620-4e90-be54-079920d98344_p1" x="1196.75" y="14993.6"/> <port id="pr_770a0db3-8620-4e90-be54-079920d98344_p2" x="1226.75" y="14993.6"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b5747744-af60-46f5-b512-23a40dadb938"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3722.298" y="15037.5"/> <port id="pr_b5747744-af60-46f5-b512-23a40dadb938_p1" x="3727.298" y="15057.5"/> <port id="pr_b5747744-af60-46f5-b512-23a40dadb938_p2" x="3727.298" y="15027.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e78caa31-7f3c-4190-ada0-3ad6532e5e4c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ERK recruitment is enhanced by KSR1. ERK is then phosphorylated by MEK.</p> <p>PMID:19541618</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e78caa31-7f3c-4190-ada0-3ad6532e5e4c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19541618"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9179.311" y="19153.129"/> <port id="pr_e78caa31-7f3c-4190-ada0-3ad6532e5e4c_p1" x="9199.311" y="19158.129"/> <port id="pr_e78caa31-7f3c-4190-ada0-3ad6532e5e4c_p2" x="9169.311" y="19158.129"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c9d1400-07ef-419a-a8b4-9bb566b715cc"> <bbox w="10.0" h="10.0" x="19567.936" y="14507.539"/> <port id="pr_7c9d1400-07ef-419a-a8b4-9bb566b715cc_p1" x="19587.936" y="14512.539"/> <port id="pr_7c9d1400-07ef-419a-a8b4-9bb566b715cc_p2" x="19557.936" y="14512.539"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0c8c00d9-aea7-478e-8dfc-fb4d8de27b17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1 and the consequently liberalised ASK1 binds to TRAF2. Finally TRAF2 appears to activate ASK1 (by phosphorylation) by enhancing and stabilising the oligomerisation of ASK1.</p> <p>PMID:12655147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0c8c00d9-aea7-478e-8dfc-fb4d8de27b17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12655147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11625.502" y="19504.332"/> <port id="pr_0c8c00d9-aea7-478e-8dfc-fb4d8de27b17_p1" x="11630.502" y="19494.332"/> <port id="pr_0c8c00d9-aea7-478e-8dfc-fb4d8de27b17_p2" x="11630.502" y="19524.332"/> </glyph> <glyph class="process" orientation="vertical" id="pr_25b2e32c-b78d-4b82-b6ab-34fcef0bb5c6"> <bbox w="10.0" h="10.0" x="3725.0" y="1740.0"/> <port id="pr_25b2e32c-b78d-4b82-b6ab-34fcef0bb5c6_p1" x="3730.0" y="1730.0"/> <port id="pr_25b2e32c-b78d-4b82-b6ab-34fcef0bb5c6_p2" x="3730.0" y="1760.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_06e22010-0cab-4b04-b70f-941610b53df1"> <bbox w="10.0" h="10.0" x="18179.967" y="1579.5"/> <port id="pr_06e22010-0cab-4b04-b70f-941610b53df1_p1" x="18184.967" y="1569.5"/> <port id="pr_06e22010-0cab-4b04-b70f-941610b53df1_p2" x="18184.967" y="1599.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1873e8f-bb4e-41e0-8ab6-41fa1f5bb7f6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Smurf associates upon binding of Wnt5 to frizzled</p> <p>PMID:19379695</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1873e8f-bb4e-41e0-8ab6-41fa1f5bb7f6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17026.2" y="19788.25"/> <port id="pr_d1873e8f-bb4e-41e0-8ab6-41fa1f5bb7f6_p1" x="17031.2" y="19778.25"/> <port id="pr_d1873e8f-bb4e-41e0-8ab6-41fa1f5bb7f6_p2" x="17031.2" y="19808.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_84fe2f90-0d6e-426e-98d4-1bf4243d712c"> <bbox w="10.0" h="10.0" x="17994.242" y="7742.5"/> <port id="pr_84fe2f90-0d6e-426e-98d4-1bf4243d712c_p1" x="17999.242" y="7732.5"/> <port id="pr_84fe2f90-0d6e-426e-98d4-1bf4243d712c_p2" x="17999.242" y="7762.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1af7e4a-5ac7-4906-b0f8-640ebd3b68b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1af7e4a-5ac7-4906-b0f8-640ebd3b68b9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27646922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19739.09" y="13468.75"/> <port id="pr_d1af7e4a-5ac7-4906-b0f8-640ebd3b68b9_p1" x="19744.09" y="13458.75"/> <port id="pr_d1af7e4a-5ac7-4906-b0f8-640ebd3b68b9_p2" x="19744.09" y="13488.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_86ca7312-8479-4ba8-b7b2-0c3e9676cfb4"> <bbox w="10.0" h="10.0" x="1515.0" y="3486.75"/> <port id="pr_86ca7312-8479-4ba8-b7b2-0c3e9676cfb4_p1" x="1520.0" y="3476.75"/> <port id="pr_86ca7312-8479-4ba8-b7b2-0c3e9676cfb4_p2" x="1520.0" y="3506.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aea555a2-4064-44b4-815b-feba68bcea15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18692468</p> <p>PMID:9926927</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aea555a2-4064-44b4-815b-feba68bcea15"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18692468"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9926927"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20965.723" y="16144.309"/> <port id="pr_aea555a2-4064-44b4-815b-feba68bcea15_p1" x="20970.723" y="16164.309"/> <port id="pr_aea555a2-4064-44b4-815b-feba68bcea15_p2" x="20970.723" y="16134.309"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2379e1d2-23fe-4d5c-9004-13a7560c30c5"> <bbox w="10.0" h="10.0" x="24146.781" y="3995.5044"/> <port id="pr_2379e1d2-23fe-4d5c-9004-13a7560c30c5_p1" x="24136.781" y="4000.5044"/> <port 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y="1519.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_18548631-bf76-4514-980f-b906cde5a1d5"> <bbox w="10.0" h="10.0" x="30931.0" y="2555.0"/> <port id="pr_18548631-bf76-4514-980f-b906cde5a1d5_p1" x="30936.0" y="2545.0"/> <port id="pr_18548631-bf76-4514-980f-b906cde5a1d5_p2" x="30936.0" y="2575.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c1a25e93-923c-40a0-81ff-ead527d7a61e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19057.777" y="10947.398"/> <port id="pr_c1a25e93-923c-40a0-81ff-ead527d7a61e_p1" x="19077.777" y="10952.398"/> <port id="pr_c1a25e93-923c-40a0-81ff-ead527d7a61e_p2" x="19047.777" y="10952.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ac2bbd41-13eb-4052-861b-291c40371ea9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14690596</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ac2bbd41-13eb-4052-861b-291c40371ea9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14690596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23190.258" y="10621.87"/> <port id="pr_ac2bbd41-13eb-4052-861b-291c40371ea9_p1" x="23180.258" y="10626.87"/> <port id="pr_ac2bbd41-13eb-4052-861b-291c40371ea9_p2" x="23210.258" y="10626.87"/> </glyph> <glyph class="process" orientation="vertical" id="pr_486a67b7-bfc0-4731-ae5a-d359b20072ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Recruitment of all components as POLH and RAD6/RAD18 that ubiguitinate PCNA all together activate TLS:</p> <p>PMID:16824193</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_486a67b7-bfc0-4731-ae5a-d359b20072ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16824193"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16993.193" y="15745.41"/> <port id="pr_486a67b7-bfc0-4731-ae5a-d359b20072ed_p1" x="16998.193" y="15765.41"/> <port id="pr_486a67b7-bfc0-4731-ae5a-d359b20072ed_p2" x="16998.193" y="15735.41"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_05831ad5-3d55-4151-ba20-9114add879bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2688.5" y="14876.844"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10647.206" y="17081.443"/> <port id="pr_41931cbb-2789-4b88-83f1-891d6b53a77b_p1" x="10637.206" y="17086.443"/> <port id="pr_41931cbb-2789-4b88-83f1-891d6b53a77b_p2" x="10667.206" y="17086.443"/> </glyph> <glyph class="process" orientation="vertical" id="pr_932cefd6-392b-44cf-99a1-b6fd6caa8716"> <bbox w="10.0" h="10.0" x="16334.182" y="6356.25"/> <port id="pr_932cefd6-392b-44cf-99a1-b6fd6caa8716_p1" x="16339.182" y="6346.25"/> <port id="pr_932cefd6-392b-44cf-99a1-b6fd6caa8716_p2" x="16339.182" y="6376.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3c3c13a4-9aa4-482e-9a28-4ce52b50e9ef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1939.0" y="15154.428"/> <port id="pr_3c3c13a4-9aa4-482e-9a28-4ce52b50e9ef_p1" x="1959.0" y="15159.428"/> <port id="pr_3c3c13a4-9aa4-482e-9a28-4ce52b50e9ef_p2" x="1929.0" y="15159.428"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_821ddb96-123f-4404-b6f3-4764ed660748"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12764189</p> <p>PMID:18815277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_821ddb96-123f-4404-b6f3-4764ed660748"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12764189"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26230.686" y="22865.957"/> <port id="pr_821ddb96-123f-4404-b6f3-4764ed660748_p1" x="26220.686" y="22870.957"/> <port id="pr_821ddb96-123f-4404-b6f3-4764ed660748_p2" x="26250.686" y="22870.957"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc3158e2-e417-45c5-84dc-2280804671c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8978814</p> <p>PMID:8900201</p> <p>PMID:8663580</p> <p>PMID:8710882</p> <p>PMID:11058599</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dc3158e2-e417-45c5-84dc-2280804671c8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8978814"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8900201"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8663580"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8710882"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11058599"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23260.56" y="16888.75"/> <port id="pr_dc3158e2-e417-45c5-84dc-2280804671c8_p1" x="23250.56" y="16893.75"/> <port id="pr_dc3158e2-e417-45c5-84dc-2280804671c8_p2" x="23280.56" y="16893.75"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_4025f26b-0b89-4c15-8ef5-c6700216d54b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3778.1895" y="15034.0"/> <port id="pr_4025f26b-0b89-4c15-8ef5-c6700216d54b_p1" x="3783.1895" y="15054.0"/> <port id="pr_4025f26b-0b89-4c15-8ef5-c6700216d54b_p2" x="3783.1895" y="15024.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c51351aa-8fbf-4604-adc1-d8bab9efb57a"> <bbox w="10.0" h="10.0" x="26800.154" y="13054.0"/> <port id="pr_c51351aa-8fbf-4604-adc1-d8bab9efb57a_p1" x="26820.154" y="13059.0"/> <port id="pr_c51351aa-8fbf-4604-adc1-d8bab9efb57a_p2" x="26790.154" y="13059.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff98ad6c-3a05-4cf7-85e0-8d893cec5c90"> <bbox w="10.0" h="10.0" x="14265.0" y="2060.0"/> <port id="pr_ff98ad6c-3a05-4cf7-85e0-8d893cec5c90_p1" x="14270.0" y="2080.0"/> <port id="pr_ff98ad6c-3a05-4cf7-85e0-8d893cec5c90_p2" x="14270.0" y="2050.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_86501869-7657-4989-860a-c6050a4babb4"> <bbox w="20.0" h="20.0" x="21286.668" y="2137.5"/> <port id="logicglyph_86501869-7657-4989-860a-c6050a4babb4_p1" x="21316.668" y="2147.5"/> <port id="logicglyph_86501869-7657-4989-860a-c6050a4babb4_p2" x="21276.668" y="2147.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_acb7f29c-7f02-48ae-9e7b-67d60f1f1687"> <bbox w="10.0" h="10.0" x="18837.773" y="13121.948"/> <port id="pr_acb7f29c-7f02-48ae-9e7b-67d60f1f1687_p1" x="18827.773" y="13126.948"/> <port id="pr_acb7f29c-7f02-48ae-9e7b-67d60f1f1687_p2" x="18857.773" y="13126.948"/> </glyph> <glyph class="process" orientation="vertical" id="pr_897d142d-09b0-45ad-9bc0-ceb5abcb30b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6233.5" y="18774.5"/> <port id="pr_897d142d-09b0-45ad-9bc0-ceb5abcb30b2_p1" x="6238.5" y="18794.5"/> <port id="pr_897d142d-09b0-45ad-9bc0-ceb5abcb30b2_p2" x="6238.5" y="18764.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ad00d6f2-d774-4775-96b4-6f2eb6b9363c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21934.06" y="11016.0"/> <port id="pr_ad00d6f2-d774-4775-96b4-6f2eb6b9363c_p1" x="21939.06" y="11006.0"/> <port id="pr_ad00d6f2-d774-4775-96b4-6f2eb6b9363c_p2" x="21939.06" y="11036.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_141ef7cb-67f6-429b-ae44-3d0f0dc763e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19561074</p> <p>PI4KIIalpha and PIP5KIbeta are in complex together with DVL. To keep complex clear the enzymes are left outside of this complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_141ef7cb-67f6-429b-ae44-3d0f0dc763e9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22721.06" y="18008.5"/> <port id="pr_141ef7cb-67f6-429b-ae44-3d0f0dc763e9_p1" x="22726.06" y="17998.5"/> <port 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x="17170.0" y="3809.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_431c1dec-5f23-4608-8bc6-f4e47a4bd109"> <bbox w="10.0" h="10.0" x="24854.758" y="12408.0"/> <port id="pr_431c1dec-5f23-4608-8bc6-f4e47a4bd109_p1" x="24844.758" y="12413.0"/> <port id="pr_431c1dec-5f23-4608-8bc6-f4e47a4bd109_p2" x="24874.758" y="12413.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8062ea62-bc0d-48c8-858c-056de0dccd30"> <bbox w="10.0" h="10.0" x="26581.254" y="13893.5"/> <port id="pr_8062ea62-bc0d-48c8-858c-056de0dccd30_p1" x="26586.254" y="13913.5"/> <port id="pr_8062ea62-bc0d-48c8-858c-056de0dccd30_p2" x="26586.254" y="13883.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15bd5a81-b4a0-42b5-b065-07d8e048e107"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20068034</p> <p>in H1299, ITCH downregulates the expression of TXNIP (siRNA against ITCH, ITCH ectopic expression), ITCH interacts with TXNIP and promotes its ubiquitinylation</p> <p>in vitro, in H1299, reconstitution of the ubiquitin-ligase system</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_15bd5a81-b4a0-42b5-b065-07d8e048e107"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20068034"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28944.06" y="10784.0"/> <port id="pr_15bd5a81-b4a0-42b5-b065-07d8e048e107_p1" x="28949.06" y="10774.0"/> <port id="pr_15bd5a81-b4a0-42b5-b065-07d8e048e107_p2" x="28949.06" y="10804.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83c15f96-612b-4b63-b247-9553cd2c56d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16434164</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83c15f96-612b-4b63-b247-9553cd2c56d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16434164"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26795.03" y="21289.424"/> <port id="pr_83c15f96-612b-4b63-b247-9553cd2c56d4_p1" x="26785.03" y="21294.424"/> <port id="pr_83c15f96-612b-4b63-b247-9553cd2c56d4_p2" x="26815.03" y="21294.424"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3cc8636a-7738-430d-8a3e-c8c09d55b3a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15145317</p> <p>The activated IKK complex,</p> <p>predominantly acting through IKKb in an IKKg-dependent</p> <p>manner, catalyzes the phosphorylation of IkBs (at sites</p> <p>equivalent to Ser32 and Ser36 of IkBa), polyubiquitination</p> <p>(at sites equivalent to Lys21 and Lys22 of IkBa) and</p> <p> subsequent degradation by the 26S proteasome. The</p> <p>released NF-kB dimers (in this pathway, most commonly</p> <p>the p50– RelA dimer) translocate to the nucleus, bind DNA</p> <p>and activate gene transcription.</p> <p>PMID:17485448</p> <p>IL10 Iinhibits IKBa‭ ‬phosphorylation and proteasomal degradation and prevents activation of downstream‭ ‬NFkB‭ ‬signaling.</p> <p>PMID:14660645, PMID:18264787, PMID:11460167</p> <p>Activated TAK1 phosphorylates IKK-beta proteins </p> <p>leading to activation of NF-κB downstream of HMGB1..</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3cc8636a-7738-430d-8a3e-c8c09d55b3a8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15145317"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17485448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11460167"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2334.5" y="2939.5"/> <port id="pr_3cc8636a-7738-430d-8a3e-c8c09d55b3a8_p1" x="2324.5" y="2944.5"/> <port id="pr_3cc8636a-7738-430d-8a3e-c8c09d55b3a8_p2" x="2354.5" y="2944.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_581d5f52-e12c-496e-b470-078284ab74fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18846505</p> <p>review</p> <p>PMID:15684387</p> <p>PMID:8108407</p> <p>in Hela</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_581d5f52-e12c-496e-b470-078284ab74fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18846505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15684387"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8108407"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20109.46" y="16175.0"/> <port id="pr_581d5f52-e12c-496e-b470-078284ab74fc_p1" x="20114.46" y="16195.0"/> <port id="pr_581d5f52-e12c-496e-b470-078284ab74fc_p2" x="20114.46" y="16165.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf114a06-7227-409e-91cd-350af609e375"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>contains NLS import higher when stimulated with wnt3</p> <p>PMID:15720724</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bf114a06-7227-409e-91cd-350af609e375"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15720724"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22626.56" y="21808.0"/> <port id="pr_bf114a06-7227-409e-91cd-350af609e375_p1" x="22646.56" y="21813.0"/> <port id="pr_bf114a06-7227-409e-91cd-350af609e375_p2" x="22616.56" y="21813.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_150faf7b-f1ad-4694-ac7b-22e75f87ce47"> <bbox w="10.0" h="10.0" x="14675.0" y="2493.75"/> <port id="pr_150faf7b-f1ad-4694-ac7b-22e75f87ce47_p1" x="14680.0" y="2513.75"/> <port id="pr_150faf7b-f1ad-4694-ac7b-22e75f87ce47_p2" x="14680.0" y="2483.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eb074453-c5ca-4abd-aa54-9364dde473ca"> <bbox w="10.0" h="10.0" x="19940.56" y="15620.5"/> <port id="pr_eb074453-c5ca-4abd-aa54-9364dde473ca_p1" x="19945.56" y="15610.5"/> <port id="pr_eb074453-c5ca-4abd-aa54-9364dde473ca_p2" x="19945.56" y="15640.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d12df9ba-7c29-40bf-802e-ddf9cb44ee50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15509806 PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d12df9ba-7c29-40bf-802e-ddf9cb44ee50"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15509806"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12685.311" y="21239.0"/> <port id="pr_d12df9ba-7c29-40bf-802e-ddf9cb44ee50_p1" x="12675.311" y="21244.0"/> <port id="pr_d12df9ba-7c29-40bf-802e-ddf9cb44ee50_p2" x="12705.311" y="21244.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6a613dd3-77e4-4628-b50a-d3d9e07f0753"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1740.2046" y="16173.0"/> <port id="pr_6a613dd3-77e4-4628-b50a-d3d9e07f0753_p1" x="1730.2046" y="16178.0"/> <port id="pr_6a613dd3-77e4-4628-b50a-d3d9e07f0753_p2" x="1760.2046" y="16178.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a207e34a-f166-43cf-af4b-ea41fafb98de"> <bbox w="10.0" h="10.0" x="20070.275" y="13140.551"/> <port id="pr_a207e34a-f166-43cf-af4b-ea41fafb98de_p1" x="20060.275" y="13145.551"/> <port id="pr_a207e34a-f166-43cf-af4b-ea41fafb98de_p2" x="20090.275" y="13145.551"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9f393896-16e8-4e68-ab03-2675c3ee671e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20023629</p> <p>in Hela and 293T, ectopically expressed USP9X binds and deubiquitinylates MCL1.</p> <p>in human follicular lymphomas, USP9X overexpression correlates with MCL1 expression.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9f393896-16e8-4e68-ab03-2675c3ee671e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20023629"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22324.135" y="14545.0"/> <port id="pr_9f393896-16e8-4e68-ab03-2675c3ee671e_p1" x="22314.135" y="14550.0"/> <port id="pr_9f393896-16e8-4e68-ab03-2675c3ee671e_p2" x="22344.135" y="14550.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4fa100a2-6427-4552-8aab-333692427b2e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19503089</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4fa100a2-6427-4552-8aab-333692427b2e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19503089"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20276.807" y="14425.25"/> <port id="pr_4fa100a2-6427-4552-8aab-333692427b2e_p1" x="20281.807" y="14445.25"/> <port id="pr_4fa100a2-6427-4552-8aab-333692427b2e_p2" x="20281.807" y="14415.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4525a2e2-03a6-489d-bcd0-470e45f06a18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22266654</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4525a2e2-03a6-489d-bcd0-470e45f06a18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22266654"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2349.31" y="21061.5"/> <port id="pr_4525a2e2-03a6-489d-bcd0-470e45f06a18_p1" x="2354.31" y="21081.5"/> <port id="pr_4525a2e2-03a6-489d-bcd0-470e45f06a18_p2" x="2354.31" y="21051.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d5ab586-dd82-4c77-8f69-b04a47499aa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11528470</p> <p>PMID:9295307</p> <p>VEGFR1 (FLT1) is induced by hypoxia through a potential HIF1-dependent mechanis</p> <p>It indicates that this gene is in the same homeostatic cascade as VEGF, EG-VEGF, and Erythoproietin</p> <p>PMID:16887934</p> <p>VEGF, EG-VEGF, TGFB3 are target genes of HIF1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4d5ab586-dd82-4c77-8f69-b04a47499aa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11528470"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9295307"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887934"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5160.5" y="17387.5"/> <port id="pr_4d5ab586-dd82-4c77-8f69-b04a47499aa4_p1" x="5150.5" y="17392.5"/> <port id="pr_4d5ab586-dd82-4c77-8f69-b04a47499aa4_p2" x="5180.5" y="17392.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f0ac1ee1-a08b-423e-9278-16600eed2ac5"> <bbox w="10.0" h="10.0" x="23707.938" y="12965.374"/> <port id="pr_f0ac1ee1-a08b-423e-9278-16600eed2ac5_p1" x="23712.938" y="12955.374"/> <port id="pr_f0ac1ee1-a08b-423e-9278-16600eed2ac5_p2" x="23712.938" y="12985.374"/> </glyph> <glyph class="process" orientation="vertical" id="pr_81b3e66d-0c63-4f32-a54b-238c30cb523c"> <bbox w="10.0" h="10.0" x="19050.703" y="626.25"/> <port id="pr_81b3e66d-0c63-4f32-a54b-238c30cb523c_p1" x="19055.703" y="616.25"/> <port id="pr_81b3e66d-0c63-4f32-a54b-238c30cb523c_p2" x="19055.703" y="646.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_e7f0858f-a3e0-48b3-992c-95ac1c3f45a2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1707.75" y="16173.0"/> <port id="pr_e7f0858f-a3e0-48b3-992c-95ac1c3f45a2_p1" x="1712.75" y="16163.0"/> <port id="pr_e7f0858f-a3e0-48b3-992c-95ac1c3f45a2_p2" x="1712.75" y="16193.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6b49e436-b666-4e81-b762-7369940661b6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16915281</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6b49e436-b666-4e81-b762-7369940661b6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16915281"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22841746"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24706.164" y="15612.375"/> <port id="pr_6b49e436-b666-4e81-b762-7369940661b6_p1" x="24696.164" y="15617.375"/> <port id="pr_6b49e436-b666-4e81-b762-7369940661b6_p2" x="24726.164" y="15617.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c6e99351-6a02-4b3c-bb0a-d43c127cc1cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25197.055" y="13933.939"/> <port id="pr_c6e99351-6a02-4b3c-bb0a-d43c127cc1cf_p1" x="25202.055" y="13953.939"/> <port id="pr_c6e99351-6a02-4b3c-bb0a-d43c127cc1cf_p2" x="25202.055" y="13923.939"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5c28428f-f499-4136-8b83-97ce2b7d453c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11309411</p> <p>Claudin-11 forms a complex with TSPAN3 and ITGB1.</p> <p>This interaction potentially regulates proliferation and migration of oligodendrocytes.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5c28428f-f499-4136-8b83-97ce2b7d453c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11309411"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1650.0" y="15610.731"/> <port id="pr_5c28428f-f499-4136-8b83-97ce2b7d453c_p1" x="1640.0" y="15615.731"/> <port id="pr_5c28428f-f499-4136-8b83-97ce2b7d453c_p2" x="1670.0" y="15615.731"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b5ace725-b720-472d-8b6f-27924f568d04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9157999</p> <p>VEGF increased the level of ETS1 mRNA in human umbifical vein endothelial cells and lung microvascular endothelial cells over 5-fold.</p> <p>Protein levels were shown to increase concordantly.</p> <p>PMID:15111329</p> <p>VEGF induces Ets-1 expression in bovine retinal endothelial cells and its expression is PKC/ERK pathway-dependent. </p> <p>Ets-1 up-regulation is involved in the development of retinal neovascularization, and inhibition of Ets-1 may be beneficial in the treatment of ischemic ocular diseases</p> <p>PMID:12490555</p> <p>Snail is able to induce the expression of Slug and all other neural crest markers (Zic5, FoxD3, Twist and Ets1)</p> <p>PMID:16716598</p> <p>PMID:11708773</p> <p>Endothelin1 is target gene of HIF1</p> <p>PMID:21041997</p> <p>In cells induced to undergo EMT, TGFB also activates the expresion of ZEB1 and ZEB2 through upregulation of ETS1 expression, which then may cooperate with the bHLH transcription factor E47 (TCF3)</p> <p>PMID:17615296</p> <p>TGFB induces ETS1 transcriptional expression.</p> <p>TGFB represses ID2 and ID3 transcriptional expression (PMID:15121845 and PMID:15181457)</p> <p>ID2 may regulate the function of Ets1 to modulate the transcription of ZEB1 and ZEB2 without alteration of the transcription of Ets1.</p> <p>Ets1 may act as an inducer of ZEB1 in collaboration with E47 (TCF3)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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id="pr_c9c88b48-0516-461a-9e8e-dabe81d2a78c_p2" x="6665.1113" y="7033.491"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f586de12-b9dd-4f90-96b2-a54151062841"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16567498</p> <p>PMID:17587822</p> <p>EZH1 and EZH2 are targets of HEYs-mediated transcriptional repression.</p> <p>This finding suggests that TGFB-activated EMT could be controlled through structural histone modification.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f586de12-b9dd-4f90-96b2-a54151062841"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16567498"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17587822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3140.5" y="15704.033"/> <port id="pr_f586de12-b9dd-4f90-96b2-a54151062841_p1" x="3130.5" y="15709.033"/> <port id="pr_f586de12-b9dd-4f90-96b2-a54151062841_p2" x="3160.5" y="15709.033"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f43bba30-6709-4dbd-9358-8fc652d0489c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17192274</p> <p>PMID:22677902</p> <p>PMID:27452906</p> <p>PMID:24030100</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f43bba30-6709-4dbd-9358-8fc652d0489c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17192274"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030100"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5202.5" y="9632.5"/> <port id="pr_f43bba30-6709-4dbd-9358-8fc652d0489c_p1" x="5192.5" y="9637.5"/> <port id="pr_f43bba30-6709-4dbd-9358-8fc652d0489c_p2" x="5222.5" y="9637.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1db35ab1-3da4-46e8-8bc8-e196020b2b8d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11896143</p> <p>in mouse primary neurons, expression of NAIP protects from camptothecin induced cell death</p> <p>in Hela, expression of NAIP protects from etoposide-induced cell death</p> <p>in vitro, with reconbinant proteins, NAIP inhibits CASP7 activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1db35ab1-3da4-46e8-8bc8-e196020b2b8d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11896143"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25246.117" y="13553.512"/> <port id="pr_1db35ab1-3da4-46e8-8bc8-e196020b2b8d_p1" x="25236.117" y="13558.512"/> <port id="pr_1db35ab1-3da4-46e8-8bc8-e196020b2b8d_p2" x="25266.117" y="13558.512"/> </glyph> <glyph class="process" orientation="vertical" id="pr_145a4952-2cd6-4276-bd7d-2c578318a7dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:12000790</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_145a4952-2cd6-4276-bd7d-2c578318a7dc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12000790"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20111.31" y="18419.812"/> <port id="pr_145a4952-2cd6-4276-bd7d-2c578318a7dc_p1" x="20116.31" y="18409.812"/> <port id="pr_145a4952-2cd6-4276-bd7d-2c578318a7dc_p2" x="20116.31" y="18439.812"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a0cd9386-81f9-4b2c-8be7-32266d9e3161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>FOXO3a promotes apoptosis through activation of PUMA.</p> <p>PMID:20978166</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a0cd9386-81f9-4b2c-8be7-32266d9e3161"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20978166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9284.311" y="21044.328"/> <port id="pr_a0cd9386-81f9-4b2c-8be7-32266d9e3161_p1" x="9304.311" y="21049.328"/> <port id="pr_a0cd9386-81f9-4b2c-8be7-32266d9e3161_p2" x="9274.311" y="21049.328"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df03babf-f381-4517-8454-73b724d82abd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>FOR HR activation by IR</p> <p>PMID:20723763</p> <p>For HR activation by UV</p> <p>PMID:21885354, PMID:22987150, PMID:20206282, PMID:19398948, PMID:1575062</p> <p>Interstrand crosslinking agents activate HR</p> <p>PMID:21701511</p> <p>Topoisomerate inhibitors bloch double strand DNA repair by HR, C_NHEJ and Fanconi pathways</p> <p>PMID:23259582</p> <p>For HR</p> <p>PMID:22123462, PMID:20693240</p> <p>FOR Fanconi</p> <p>PMID:21414716, PMID:23157317</p> <p>For activation by Dbait </p> <p>PMID:22068457, PMID:22815765, PMID:22042585, PMID:19621083</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<rdf:li rdf:resource="urn:miriam:pubmed:20206282"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19398948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1575062"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23259582"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22123462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20693240"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21414716"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23157317"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22068457"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22815765"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22042585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19621083"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13136.064" y="14499.4"/> <port id="pr_df03babf-f381-4517-8454-73b724d82abd_p1" x="13126.064" y="14504.4"/> <port id="pr_df03babf-f381-4517-8454-73b724d82abd_p2" x="13156.064" y="14504.4"/> </glyph> <glyph class="process" orientation="vertical" id="pr_37d390da-cf08-462d-9277-303b1c0e7172"> <bbox w="10.0" h="10.0" x="27154.53" y="21519.75"/> <port id="pr_37d390da-cf08-462d-9277-303b1c0e7172_p1" x="27159.53" y="21539.75"/> <port id="pr_37d390da-cf08-462d-9277-303b1c0e7172_p2" x="27159.53" y="21509.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eba83ddc-7ecd-40d8-a953-05d9b678a890"> <bbox w="10.0" h="10.0" x="13165.0" y="1822.5"/> <port id="pr_eba83ddc-7ecd-40d8-a953-05d9b678a890_p1" x="13170.0" y="1842.5"/> <port id="pr_eba83ddc-7ecd-40d8-a953-05d9b678a890_p2" x="13170.0" y="1812.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8afb0640-f2e9-44d9-b5db-abc686d5fb27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3992.4678" y="14410.0"/> <port id="pr_8afb0640-f2e9-44d9-b5db-abc686d5fb27_p1" x="3997.4678" y="14430.0"/> <port id="pr_8afb0640-f2e9-44d9-b5db-abc686d5fb27_p2" x="3997.4678" y="14400.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_585189fe-cac2-45d7-90a0-57ce230ce653"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11278287</p> <p>14-3-3ε plays an important role in the modulation of nerve growth factor-dependent p75NTR/NADE-mediated apoptosis by binding zith NADE</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_585189fe-cac2-45d7-90a0-57ce230ce653"> 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BAD couples survival signals to the cell-intrinsic death machinery</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_939d4a07-3fc4-48d0-b198-26495d8d3839"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9346240"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7209.0" y="6838.0"/> <port id="pr_939d4a07-3fc4-48d0-b198-26495d8d3839_p1" x="7199.0" y="6843.0"/> <port 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<p>PMID:15810077</p> <p>Beta-catenin up-regulates the expression of cyclinD1, c-myc and MMP-7 in human pancreatic cancer: relationships with carcinogenesis and metastasis.</p> <p>PMID:22943793</p> <p>Role of TGFB in regulation of cell cycle:</p> <p>Physiologically, TGFB is a potent inhibitor of cell cycle.</p> <p>It induces expression of p15INK4B and represses expression of c-Myc</p> <p>Low levels of c-Myc allows TGFB to induce p15INK4B and p21CIP1 transcription</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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y="2035.0"/> <port id="pr_545a7098-5605-44ab-9b85-9840562ae637_p2" x="23455.0" y="2005.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_153d4220-eab1-46a2-bfa5-5cc2b4d43cc3"> <bbox w="10.0" h="10.0" x="26519.56" y="11965.5"/> <port id="pr_153d4220-eab1-46a2-bfa5-5cc2b4d43cc3_p1" x="26509.56" y="11970.5"/> <port id="pr_153d4220-eab1-46a2-bfa5-5cc2b4d43cc3_p2" x="26539.56" y="11970.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97a6409b-d05d-4ab0-9c81-8e2307e996c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>binding of G-alpha12 toE-cadherin results of loss of binding of b-catenin from the adherence junction</p> <p>PMID:11136230</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6555.5254" y="14279.25"/> <port id="pr_f3f26e1b-39ef-4a8e-8667-2edf8c2ffee0_p1" x="6545.5254" y="14284.25"/> <port id="pr_f3f26e1b-39ef-4a8e-8667-2edf8c2ffee0_p2" x="6575.5254" y="14284.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15e1cc3b-aacf-4246-9495-be68b8102cb4"> <bbox w="10.0" h="10.0" x="18498.875" y="1389.9412"/> <port id="pr_15e1cc3b-aacf-4246-9495-be68b8102cb4_p1" x="18503.875" y="1379.9412"/> <port id="pr_15e1cc3b-aacf-4246-9495-be68b8102cb4_p2" x="18503.875" y="1409.9412"/> </glyph> <glyph class="process" orientation="vertical" id="pr_484ae6cc-aa6c-4852-9d0b-d0edecbbae3b"> <bbox w="10.0" h="10.0" x="4711.25" y="7583.5"/> <port id="pr_484ae6cc-aa6c-4852-9d0b-d0edecbbae3b_p1" x="4716.25" y="7603.5"/> <port 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x="27044.06" y="9286.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_709dead3-a707-4004-837e-d471d981e6e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19171760</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_709dead3-a707-4004-837e-d471d981e6e9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23459.56" y="18962.75"/> <port id="pr_709dead3-a707-4004-837e-d471d981e6e9_p1" x="23449.56" y="18967.75"/> <port id="pr_709dead3-a707-4004-837e-d471d981e6e9_p2" x="23479.56" y="18967.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bc706918-9728-4d3d-98dd-a1f84afc6bc6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:14976548</p> <p>TGFB stimulates two kinetically coordinated waves of activation of HEY1. </p> <p>Immediate-early activation of HEY1 by TGFB is mediated directly by Smad3/4 binding at two distinct sequences in the distal HEY1 promoter region and does not require Notch signalling. </p> <p>The Smad-dependent, Notch-independent immediate-early activation is followed by a second wave of HEY1 activation.</p> <p>This second wave is mediated by classical Notch-dependent signalling induced through indirect and delayed induction of Jag1 synthesis by TGFB</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bc706918-9728-4d3d-98dd-a1f84afc6bc6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14976548"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2824.0" y="14628.5"/> <port id="pr_bc706918-9728-4d3d-98dd-a1f84afc6bc6_p1" x="2814.0" y="14633.5"/> <port id="pr_bc706918-9728-4d3d-98dd-a1f84afc6bc6_p2" x="2844.0" y="14633.5"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_37af6384-fdc0-4cc9-9bbc-148b0752d55e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CSNK1 (casein kinase 1) but not CSNK2 (casein kinase 2) phosphorylates CTNNB1 at S45.</p> <p>This priming phosphorylation results in subsequent phosphorylation by GSK3B at T41, S37, S33.</p> <p>CTNNB1 that is phosphorylated at S33 and S37 is ultimately recognized by E3-ligase and targeted for proteasomal destruction.</p> <p>PMID:7542250</p> <p>Whereas in the normal cells CTNNB1 (beta-catenin) is found in association with E-cadherin, p120 Cas is not. In the ras-transformed cells, the situation is reversed; tyrosine-phosphorylated p120 Cas, but not tyrosine-phosphorylated CTNNB1, now is detected in E-cadherin complexes.</p> <p>The tyrosine-phosphorylated CTNNB1 also shows increased detergent solubility, suggesting a decreased association with the actin cytoskeleton.</p> <p>decreased tyrosine phosphorylation of CTNNB1 is accompanied by increased interaction with both E-cadherin and the detergent insoluble cytoskeletal fraction</p> <p>PMID:12051714</p> <p>Activation of the canonical Wnt signalling pathway results in stabilisation and nuclear translocation of b-catenin.</p> <p>In the absence of a Wnt signal, b-catenin is phosphorylated at four conserved serine and threonine residues at the N-terminus of the protein, which results in b-catenin ubiquitination and proteasome-dependent degradation. </p> <p>The phosphorylation of 3 of these residues, Thr41, Ser37, and Ser33, is mediated by glycogen synthase kinase-3 (GSK-3) in a sequential manner, beginning from the C-terminal Thr41. </p> <p>It has recently been shown that the GSK-3 dependent phosphorylation of b-catenin requiresprior priming through phosphorylation of Ser45</p> <p>GSK-3b wasfound to be unable to phosphorylate b-catenin at Ser45 in vitro and in intact cells.</p> <p>In vitro, CK1, but not CK2, phosphorylates Ser45. Ser45 phosphorylation in intact cells is not mediated by CK1e, a known positive regulator of Wnt signalling.</p> <p>PMID:11955436</p> <p>Wnt regulation of b-catenin degradation is essential for development and carcinogenesis. </p> <p>b-catenin degradation is initiated upon amino-terminal serine/threonine phosphorylation.</p> <p>This phosphorylation is believed to be performed by GSK3B in complex with tumor suppressor proteins Axin and adnomatous polyposis coli (APC). </p> <p>There is another Axin-associated kinase, whose phosphorylation of b-catenin precedes and is required for subsequent GSK-3 phosphorylation of b-catenin.</p> <p>This priming kinase is casein kinase I -alpha (CSNK1A1).</p> <p>PMID:11967263</p> <p>Tyr-216 phosphorylation in GSK3B is required for GSK-mediated down-regulation of b-catenin activity. </p> <p>PMID:8666229</p> <p>Xenopus GSK3 functions to destabilize b-catenin and thus decrease the amount of b-catenin available for signaling</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_37af6384-fdc0-4cc9-9bbc-148b0752d55e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7542250"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12051714"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11967263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8666229"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1970.1016" y="16157.25"/> <port id="pr_37af6384-fdc0-4cc9-9bbc-148b0752d55e_p1" x="1975.1016" y="16147.25"/> <port id="pr_37af6384-fdc0-4cc9-9bbc-148b0752d55e_p2" x="1975.1016" y="16177.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d5f5c735-9342-427d-9105-23bbdb99b335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15534002</p> <p>PMID:9779982</p> <p>PMID:14585353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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orientation="vertical" id="pr_709848ac-b3b7-437a-ae4c-88d5110f711a"> <bbox w="10.0" h="10.0" x="28729.06" y="9229.0"/> <port id="pr_709848ac-b3b7-437a-ae4c-88d5110f711a_p1" x="28734.06" y="9219.0"/> <port id="pr_709848ac-b3b7-437a-ae4c-88d5110f711a_p2" x="28734.06" y="9249.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_da1cd7fc-ed10-4c5e-bde1-7de2a630ac6c"> <bbox w="20.0" h="20.0" x="28689.62" y="9224.332"/> <port id="logicglyph_da1cd7fc-ed10-4c5e-bde1-7de2a630ac6c_p1" x="28679.62" y="9234.332"/> <port id="logicglyph_da1cd7fc-ed10-4c5e-bde1-7de2a630ac6c_p2" x="28719.62" y="9234.332"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_a9496f65-029a-4cff-b224-52839247ffbd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a9496f65-029a-4cff-b224-52839247ffbd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.311" y="20572.0"/> <port id="pr_a9496f65-029a-4cff-b224-52839247ffbd_p1" x="12677.311" y="20577.0"/> <port id="pr_a9496f65-029a-4cff-b224-52839247ffbd_p2" x="12707.311" y="20577.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a3a697d-fa3d-4d7a-b7e8-9df1275b5022"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1106.0071" y="15526.141"/> <port id="pr_4a3a697d-fa3d-4d7a-b7e8-9df1275b5022_p1" x="1111.0071" y="15516.141"/> <port id="pr_4a3a697d-fa3d-4d7a-b7e8-9df1275b5022_p2" x="1111.0071" y="15546.141"/> </glyph> <glyph class="process" orientation="vertical" id="pr_49af8166-2c23-4258-b8ef-eefff21d0523"> <bbox w="10.0" h="10.0" x="4095.0" y="4394.25"/> <port id="pr_49af8166-2c23-4258-b8ef-eefff21d0523_p1" x="4100.0" y="4384.25"/> <port id="pr_49af8166-2c23-4258-b8ef-eefff21d0523_p2" x="4100.0" y="4414.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d98db0ee-19d5-43b7-83e9-aae27ac46f71"> <bbox w="10.0" h="10.0" x="27189.31" y="16582.75"/> <port id="pr_d98db0ee-19d5-43b7-83e9-aae27ac46f71_p1" x="27179.31" y="16587.75"/> <port id="pr_d98db0ee-19d5-43b7-83e9-aae27ac46f71_p2" x="27209.31" y="16587.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d526c0cb-0e43-4647-9bc5-00cb6d067882"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3395.7131" y="15666.5"/> <port id="pr_d526c0cb-0e43-4647-9bc5-00cb6d067882_p1" x="3415.7131" y="15671.5"/> <port id="pr_d526c0cb-0e43-4647-9bc5-00cb6d067882_p2" x="3385.7131" y="15671.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cbd3c1e5-00ed-4dd7-8212-8d6e651b89d3"> <bbox w="10.0" h="10.0" x="9224.5" y="3856.55"/> <port id="pr_cbd3c1e5-00ed-4dd7-8212-8d6e651b89d3_p1" x="9214.5" y="3861.55"/> <port id="pr_cbd3c1e5-00ed-4dd7-8212-8d6e651b89d3_p2" x="9244.5" y="3861.55"/> </glyph> <glyph class="process" orientation="vertical" id="pr_26ee54cd-bb60-4c84-9cd4-1266b9ced456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26ee54cd-bb60-4c84-9cd4-1266b9ced456"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20806969"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5295.75" y="11032.0"/> <port id="pr_26ee54cd-bb60-4c84-9cd4-1266b9ced456_p1" x="5300.75" y="11022.0"/> <port id="pr_26ee54cd-bb60-4c84-9cd4-1266b9ced456_p2" x="5300.75" y="11052.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d402bcfc-6f9b-4c08-8a0c-153cc89dfde7"> <bbox w="10.0" h="10.0" x="10350.305" y="16985.87"/> <port id="pr_d402bcfc-6f9b-4c08-8a0c-153cc89dfde7_p1" x="10340.305" y="16990.87"/> <port id="pr_d402bcfc-6f9b-4c08-8a0c-153cc89dfde7_p2" x="10370.305" y="16990.87"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d917f772-2e33-495f-8ac1-76c0fb5f913f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> <p>PMID:19440036</p> <p>PMID:19945467</p> <p>PMID:20609352</p> <p>PMID:26597054</p> <p>PMID:17409395</p> <p>PMID:27328425</p> <p>PMID:27572739</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d917f772-2e33-495f-8ac1-76c0fb5f913f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20609352"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3039.0" y="9498.0"/> <port id="pr_d917f772-2e33-495f-8ac1-76c0fb5f913f_p1" x="3059.0" y="9503.0"/> <port id="pr_d917f772-2e33-495f-8ac1-76c0fb5f913f_p2" x="3029.0" y="9503.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4b24ea82-f5ce-4f37-9830-5931b891b615"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MRN complex co-locolises at the FA foci and modulates propagation of ICL repair by Fanconi PMID:15136767, PMID:19622404</p> <p>RPA is required for the replication fork block and remodeling toward DNA repair: </p> <p>PMID:19622404</p> <p>For role of SNM1B in Fanconi and S-phase checkpoint</p> <p>PMID:18469862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4b24ea82-f5ce-4f37-9830-5931b891b615"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15136767"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18469862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15765.611" y="15651.572"/> <port id="pr_4b24ea82-f5ce-4f37-9830-5931b891b615_p1" x="15770.611" y="15641.572"/> <port id="pr_4b24ea82-f5ce-4f37-9830-5931b891b615_p2" x="15770.611" y="15671.572"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_54135cef-5647-4b63-bae4-aadd5f1f2537"> <bbox w="20.0" h="20.0" x="15387.948" y="15843.357"/> <port id="logicglyph_54135cef-5647-4b63-bae4-aadd5f1f2537_p1" x="15377.948" y="15853.357"/> <port id="logicglyph_54135cef-5647-4b63-bae4-aadd5f1f2537_p2" x="15417.948" y="15853.357"/> </glyph> <glyph class="process" orientation="vertical" id="pr_231b0842-5255-417b-bb17-a18ba90ff466"> <bbox w="10.0" h="10.0" x="3112.81" y="22435.375"/> <port id="pr_231b0842-5255-417b-bb17-a18ba90ff466_p1" x="3117.81" y="22455.375"/> <port id="pr_231b0842-5255-417b-bb17-a18ba90ff466_p2" x="3117.81" y="22425.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f1fa0c7-9b84-4521-977c-a73516131757"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19015259</p> <p>TIGAR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f1fa0c7-9b84-4521-977c-a73516131757"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19015259"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18846.75" y="9861.189"/> <port id="pr_8f1fa0c7-9b84-4521-977c-a73516131757_p1" x="18866.75" y="9866.189"/> <port id="pr_8f1fa0c7-9b84-4521-977c-a73516131757_p2" x="18836.75" y="9866.189"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2a1f636d-e19e-4092-b528-b8752d755625"> <bbox w="10.0" h="10.0" x="5525.0" y="3985.0"/> <port id="pr_2a1f636d-e19e-4092-b528-b8752d755625_p1" x="5530.0" y="3975.0"/> <port id="pr_2a1f636d-e19e-4092-b528-b8752d755625_p2" x="5530.0" y="4005.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd1b9d21-4e71-4b91-8526-ec7cd2f9d96c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:11792802</p> <p>Following phosphorylation of R-Smads by TGFBR1, Smad oligomerization is thought to occur.</p> <p>PMID:9670020</p> <p>Smad2 and Smad3 form homo-oligomers upon phosphorylation by the constitutively active TGFBR1</p> <p>This oligomerization does not require Smad4.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fd1b9d21-4e71-4b91-8526-ec7cd2f9d96c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9670020"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6276.975" y="16891.0"/> <port id="pr_fd1b9d21-4e71-4b91-8526-ec7cd2f9d96c_p1" x="6296.975" y="16896.0"/> <port id="pr_fd1b9d21-4e71-4b91-8526-ec7cd2f9d96c_p2" x="6266.975" y="16896.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_22f0ad5c-b476-4c8c-b42e-2e3feadf62a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11568.365" y="16832.166"/> <port id="pr_22f0ad5c-b476-4c8c-b42e-2e3feadf62a4_p1" x="11558.365" y="16837.166"/> <port id="pr_22f0ad5c-b476-4c8c-b42e-2e3feadf62a4_p2" x="11588.365" y="16837.166"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_87605d1b-6584-4092-8e54-d054435e74ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_87605d1b-6584-4092-8e54-d054435e74ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2466.5" y="10101.25"/> <port id="pr_87605d1b-6584-4092-8e54-d054435e74ed_p1" x="2486.5" y="10106.25"/> <port id="pr_87605d1b-6584-4092-8e54-d054435e74ed_p2" x="2456.5" y="10106.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_49b9cc25-137c-4ad0-9e0e-c3d34d98d12b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15036616, PMID:14741051</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_49b9cc25-137c-4ad0-9e0e-c3d34d98d12b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15036616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14741051"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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h="10.0" x="25831.553" y="11764.09"/> <port id="pr_95d6da92-0f1a-4355-a557-31aea937e9f6_p1" x="25836.553" y="11784.09"/> <port id="pr_95d6da92-0f1a-4355-a557-31aea937e9f6_p2" x="25836.553" y="11754.09"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c595e4c-2f99-4bb4-a986-d03e36c9b1e9"> <bbox w="10.0" h="10.0" x="4847.06" y="21906.0"/> <port id="pr_9c595e4c-2f99-4bb4-a986-d03e36c9b1e9_p1" x="4837.06" y="21911.0"/> <port id="pr_9c595e4c-2f99-4bb4-a986-d03e36c9b1e9_p2" x="4867.06" y="21911.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_20997011-767f-4e7d-ae3b-77845b5977e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activation of MEKK2 and MEKK3 is assumed to follow the same mechanisms of MEKK1 activation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10586.969" y="19461.328"/> <port id="pr_20997011-767f-4e7d-ae3b-77845b5977e6_p1" x="10591.969" y="19451.328"/> <port id="pr_20997011-767f-4e7d-ae3b-77845b5977e6_p2" x="10591.969" y="19481.328"/> </glyph> <glyph class="process" orientation="vertical" id="pr_029d7dd4-c9f3-419a-88a8-ce89726b01b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_029d7dd4-c9f3-419a-88a8-ce89726b01b0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6769.0" y="11198.5"/> <port id="pr_029d7dd4-c9f3-419a-88a8-ce89726b01b0_p1" x="6774.0" y="11188.5"/> <port id="pr_029d7dd4-c9f3-419a-88a8-ce89726b01b0_p2" x="6774.0" y="11218.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3ecfc7dd-41fb-45b3-b9c3-f34847683aef"> <bbox w="10.0" h="10.0" x="3229.6738" y="5178.0"/> <port id="pr_3ecfc7dd-41fb-45b3-b9c3-f34847683aef_p1" x="3219.6738" y="5183.0"/> <port id="pr_3ecfc7dd-41fb-45b3-b9c3-f34847683aef_p2" x="3249.6738" y="5183.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_216f4aa8-3a09-4ff1-a288-ca7a7f63ba9f"> <bbox w="10.0" h="10.0" x="2675.3113" y="4106.375"/> <port id="pr_216f4aa8-3a09-4ff1-a288-ca7a7f63ba9f_p1" x="2680.3113" y="4096.375"/> <port id="pr_216f4aa8-3a09-4ff1-a288-ca7a7f63ba9f_p2" x="2680.3113" y="4126.375"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_ccee6e3b-c7d4-4b99-9056-f347d0f6458f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ccee6e3b-c7d4-4b99-9056-f347d0f6458f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5370.375" y="15164.625"/> <port id="pr_ccee6e3b-c7d4-4b99-9056-f347d0f6458f_p1" x="5375.375" y="15184.625"/> <port id="pr_ccee6e3b-c7d4-4b99-9056-f347d0f6458f_p2" x="5375.375" y="15154.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5e434c7a-5c4d-4e38-88ee-c15f9cd0a9ae"> <bbox w="10.0" h="10.0" x="2806.5" y="9842.75"/> <port id="pr_5e434c7a-5c4d-4e38-88ee-c15f9cd0a9ae_p1" x="2826.5" y="9847.75"/> <port id="pr_5e434c7a-5c4d-4e38-88ee-c15f9cd0a9ae_p2" x="2796.5" y="9847.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_db2926cb-42af-4f9a-8d8c-7be2edc4fee3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>PMID:18403754</p> <p>PMID:16607286</p> <p>Keratin-14, 18, 19, Vimentin are putative direct HIF1 target genes</p> <p>http://www.omicsonline.org/1948-5956/JCST-03-035.php</p> <p>Genes induced by HIF-1 in cancer cells include KRT-14, 18, 19, Vimentin:</p> <p>PMID:16077980 </p> <p>the NF-kappaB binding site is located in the human vimentin promoter.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:9216996 PMID:16413481 PMID:17000779 </p> <p>ANNOTATION: it was shown that Med12 binds to Gli1 promoter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0ff80daf-4457-47d8-8703-a0e9f2188bdd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_2de01390-1358-43f8-bb70-739a4e983508"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5311.0" y="18753.398"/> <port id="pr_2de01390-1358-43f8-bb70-739a4e983508_p1" x="5331.0" y="18758.398"/> <port id="pr_2de01390-1358-43f8-bb70-739a4e983508_p2" x="5301.0" y="18758.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_32689096-b2be-48b1-908d-dfa4b0cbcda1"> <bbox w="10.0" h="10.0" x="4127.8936" y="21577.027"/> <port id="pr_32689096-b2be-48b1-908d-dfa4b0cbcda1_p1" x="4132.8936" y="21567.027"/> <port id="pr_32689096-b2be-48b1-908d-dfa4b0cbcda1_p2" x="4132.8936" y="21597.027"/> </glyph> <glyph class="process" orientation="vertical" id="pr_23c81611-5ba8-4a01-bfed-f9dd03f95148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10803458</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_23c81611-5ba8-4a01-bfed-f9dd03f95148"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10803458"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24387.113" y="13352.471"/> <port id="pr_23c81611-5ba8-4a01-bfed-f9dd03f95148_p1" x="24392.113" y="13372.471"/> <port id="pr_23c81611-5ba8-4a01-bfed-f9dd03f95148_p2" x="24392.113" y="13342.471"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7beff828-248d-4d2e-9c3d-a27cd1a76b5f"> <bbox w="10.0" h="10.0" x="23555.377" y="1771.25"/> <port id="pr_7beff828-248d-4d2e-9c3d-a27cd1a76b5f_p1" x="23560.377" y="1791.25"/> <port id="pr_7beff828-248d-4d2e-9c3d-a27cd1a76b5f_p2" x="23560.377" y="1761.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ce1a6863-a115-4c47-8b6e-dde24289cbea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23010170</p> <p>TRADD recruits FADD and caspase-8, forming complex IIA, where caspase-8 is activated and apoptosis is initiated</p> <p>PMID:12887920</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ce1a6863-a115-4c47-8b6e-dde24289cbea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010170"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12887920"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22226.56" y="10183.608"/> <port id="pr_ce1a6863-a115-4c47-8b6e-dde24289cbea_p1" x="22246.56" y="10188.608"/> <port id="pr_ce1a6863-a115-4c47-8b6e-dde24289cbea_p2" x="22216.56" y="10188.608"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e65eb29f-2613-4407-ad4f-692b1ee4caee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19183803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e65eb29f-2613-4407-ad4f-692b1ee4caee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19183803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22486.31" y="21760.0"/> <port id="pr_e65eb29f-2613-4407-ad4f-692b1ee4caee_p1" x="22476.31" y="21765.0"/> <port id="pr_e65eb29f-2613-4407-ad4f-692b1ee4caee_p2" x="22506.31" y="21765.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eb3a16de-3b7b-4126-adb2-7e62472b56a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2106.5" y="18199.951"/> <port id="pr_eb3a16de-3b7b-4126-adb2-7e62472b56a8_p1" x="2111.5" y="18189.951"/> <port id="pr_eb3a16de-3b7b-4126-adb2-7e62472b56a8_p2" x="2111.5" y="18219.951"/> </glyph> <glyph class="process" orientation="vertical" id="pr_09a7067d-dada-477c-82f8-3caddc582258"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24392.207" y="13577.361"/> <port id="pr_09a7067d-dada-477c-82f8-3caddc582258_p1" x="24397.207" y="13597.361"/> <port id="pr_09a7067d-dada-477c-82f8-3caddc582258_p2" x="24397.207" y="13567.361"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1dab7784-7107-4b18-9d1d-bda77827772e"> <bbox w="10.0" h="10.0" x="17710.0" y="2975.0"/> <port id="pr_1dab7784-7107-4b18-9d1d-bda77827772e_p1" x="17715.0" y="2995.0"/> <port id="pr_1dab7784-7107-4b18-9d1d-bda77827772e_p2" x="17715.0" y="2965.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_443b8916-9207-494a-a2c3-3f2517360412"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21606194</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_443b8916-9207-494a-a2c3-3f2517360412"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22315.234" y="19461.75"/> <port id="pr_443b8916-9207-494a-a2c3-3f2517360412_p1" x="22320.234" y="19451.75"/> <port id="pr_443b8916-9207-494a-a2c3-3f2517360412_p2" x="22320.234" y="19481.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c2be2f48-06f8-4856-88cd-6299202c0f38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15145317</p> <p>The activated IKK complex,</p> <p>predominantly acting through IKKb in an IKKg-dependent</p> <p>manner, catalyzes the phosphorylation of IkBs (at sites</p> <p>equivalent to Ser32 and Ser36 of IkBa), polyubiquitination</p> <p>(at sites equivalent to Lys21 and Lys22 of IkBa) and</p> <p> subsequent degradation by the 26S proteasome. The</p> <p>released NF-kB dimers (in this pathway, most commonly</p> <p>the p50– RelA dimer) translocate to the nucleus, bind DNA</p> <p>and activate gene transcription.</p> <p>PMID:17485448</p> <p>IL10 Iinhibits IKBa‭ ‬phosphorylation and proteasomal degradation and prevents activation of downstream‭ ‬NFkB‭ ‬signaling.</p> <p>PMID:14660645, PMID:18264787, PMID:11460167</p> <p>Activated TAK1 phosphorylates IKK-beta proteins </p> <p>leading to activation of NF-κB downstream of HMGB1..</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c2be2f48-06f8-4856-88cd-6299202c0f38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15145317"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17485448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11460167"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28481.0" y="6130.0"/> <port id="pr_c2be2f48-06f8-4856-88cd-6299202c0f38_p1" x="28486.0" y="6120.0"/> <port id="pr_c2be2f48-06f8-4856-88cd-6299202c0f38_p2" x="28486.0" y="6150.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a2fc2bfd-2621-4923-95f8-a5240c136c60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>GJA1 is so-called Connexin 43 or Cx43</p> <p>PMID:16492141</p> <p>Binding partners proteins of Connexin 43 (GJA1):</p> <p>-Kinases: v-Src, c-Src, PKC, PKA, MAPK, Casein kinase 1, Cdc2 kinase</p> <p>-TIGHT_JUNCTIONS scaffold proteins: ZO1, ZO2, caveolin 1</p> <p>-Cytoskeleton: b-catenin, a-tubulin, b-tubulin</p> <p>-Others: Drebrin, NOV, CIP85</p> <p>PMID:10871288</p> <p>Interaction between Connexin 43 (GJA1) and PKC (alpha, betat and gamma subunits)</p> <p>The 3 subunits phosphorylate GJA1 at Ser368 and reduce Gap junctions activity.</p> <p>PMID:10679481</p> <p>Fibroblast growth factor-2 (FGF-2)decreases cardiomyocyte GJ permeability by stimulating phosphorylation of connexin-43</p> <p>FGF-2 activates receptors linked to PKC and MAPK</p> <p>In immunoprecipitation experiments using specific anti-Cx43 antibodies, PKCE but not PKCA coprecipitated with Cx43. </p> <p>FGF-2 increased levels of coprecipitated PKCE, suggesting increased association between PKCE and Cx43 on stimulation.</p> <p>To conclude, PKC mediates the FGF-2–induced effects on cardiac GJs and that PKC likely interacts with and phosphorylates cardiac Cx43 at sites of intercellular contact</p> <p>PMID:9278444</p> <p>Reduction of gap junctional communication in v-src transformed cells is accompanied by tyrosine phosphorylation of the gap junction protein, connexin 43</p> <p>SH3 and SH2 domains of v-Src bind to proline-rich motifs and a phosphorylated tyrosine residue in the C-terminal tail of Cx43</p> <p>PMID:15534005</p> <p>Phosphorylation of Cx43 on S368 has been shown to decrease gap junctional communication via a reduction in unitary channel conductance.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a2fc2bfd-2621-4923-95f8-a5240c136c60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16492141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10871288"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10679481"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9278444"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534005"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1156.0" y="17467.5"/> <port id="pr_a2fc2bfd-2621-4923-95f8-a5240c136c60_p1" x="1161.0" y="17457.5"/> <port id="pr_a2fc2bfd-2621-4923-95f8-a5240c136c60_p2" x="1161.0" y="17487.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a17c27d8-2894-4dbc-9aec-b2bbae8e54c8"> <bbox w="10.0" h="10.0" x="13100.0" y="3947.5"/> <port id="pr_a17c27d8-2894-4dbc-9aec-b2bbae8e54c8_p1" x="13105.0" y="3967.5"/> <port id="pr_a17c27d8-2894-4dbc-9aec-b2bbae8e54c8_p2" x="13105.0" y="3937.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_48fcaa1f-9e84-4a6d-ab6e-83129c8d678b"> <bbox w="10.0" h="10.0" x="3499.06" y="22651.125"/> <port id="pr_48fcaa1f-9e84-4a6d-ab6e-83129c8d678b_p1" x="3519.06" y="22656.125"/> <port id="pr_48fcaa1f-9e84-4a6d-ab6e-83129c8d678b_p2" x="3489.06" y="22656.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b3016f92-3d49-4a4e-bc66-7a91f60394c5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b3016f92-3d49-4a4e-bc66-7a91f60394c5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11278251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5303.75" y="16888.75"/> <port id="pr_b3016f92-3d49-4a4e-bc66-7a91f60394c5_p1" x="5293.75" y="16893.75"/> <port id="pr_b3016f92-3d49-4a4e-bc66-7a91f60394c5_p2" x="5323.75" y="16893.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_216b47d9-508d-4bc2-887a-849c7b03cf1c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17129768</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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h="10.0" x="16263.838" y="3428.25"/> <port id="pr_b467305b-6737-4a87-bfa9-e4960eeb0772_p1" x="16268.838" y="3418.25"/> <port id="pr_b467305b-6737-4a87-bfa9-e4960eeb0772_p2" x="16268.838" y="3448.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60157399-b2b4-476a-a2dc-fff8420fb12b"> <bbox w="10.0" h="10.0" x="28586.0" y="7480.0"/> <port id="pr_60157399-b2b4-476a-a2dc-fff8420fb12b_p1" x="28591.0" y="7470.0"/> <port id="pr_60157399-b2b4-476a-a2dc-fff8420fb12b_p2" x="28591.0" y="7500.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0c2124bc-d151-43bd-a0d8-314fb4dbd309"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12808044</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0c2124bc-d151-43bd-a0d8-314fb4dbd309"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12808044"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1518.0037" y="17678.256"/> <port id="pr_0c2124bc-d151-43bd-a0d8-314fb4dbd309_p1" x="1508.0037" y="17683.256"/> <port id="pr_0c2124bc-d151-43bd-a0d8-314fb4dbd309_p2" x="1538.0037" y="17683.256"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7c315ea0-e05a-4006-ac45-8e2f5657acf1"> <bbox w="10.0" h="10.0" x="21904.682" y="10526.75"/> <port id="pr_7c315ea0-e05a-4006-ac45-8e2f5657acf1_p1" x="21909.682" y="10516.75"/> <port id="pr_7c315ea0-e05a-4006-ac45-8e2f5657acf1_p2" x="21909.682" y="10546.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92735c4a-d3a7-49ab-a862-294df42825e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:28552631</p> <p>PMID:27646922</p> <p>Excess cellular levels of ROS cause damage to proteins, nucleic acids, lipids, membranes and organelles, which can lead to activation of cell death processes such as apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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x="22627.31" y="10896.0"/> <port id="pr_a223bab5-5df3-49f8-8e98-7ed30d199cc9_p2" x="22657.31" y="10896.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_10598147-07a6-4d1d-a8fb-79e93c928f97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:24257061</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_10598147-07a6-4d1d-a8fb-79e93c928f97"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24257061"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28908.914" y="11675.0"/> <port id="pr_10598147-07a6-4d1d-a8fb-79e93c928f97_p1" x="28913.914" y="11665.0"/> <port id="pr_10598147-07a6-4d1d-a8fb-79e93c928f97_p2" x="28913.914" y="11695.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da6f24a5-df19-4da2-982f-631a4dbcdbfd"> <bbox w="10.0" h="10.0" x="13636.926" y="16467.604"/> <port id="pr_da6f24a5-df19-4da2-982f-631a4dbcdbfd_p1" x="13641.926" y="16457.604"/> <port id="pr_da6f24a5-df19-4da2-982f-631a4dbcdbfd_p2" x="13641.926" y="16487.604"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_257d003e-6eb2-4a21-8cb4-051466cf9357"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17703233</p> 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id="pr_53f32684-f5aa-4db8-98ba-ecc5ce34cfbc"> <bbox w="10.0" h="10.0" x="6229.615" y="7320.9062"/> <port id="pr_53f32684-f5aa-4db8-98ba-ecc5ce34cfbc_p1" x="6249.615" y="7325.9062"/> <port id="pr_53f32684-f5aa-4db8-98ba-ecc5ce34cfbc_p2" x="6219.615" y="7325.9062"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c6828872-644c-4ff4-b554-3d8e9233ae25"> <bbox w="10.0" h="10.0" x="6434.68" y="22345.93"/> <port id="pr_c6828872-644c-4ff4-b554-3d8e9233ae25_p1" x="6454.68" y="22350.93"/> <port id="pr_c6828872-644c-4ff4-b554-3d8e9233ae25_p2" x="6424.68" y="22350.93"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50a707b8-c4a4-4a1c-a008-79788f7e32ef"> <bbox w="10.0" h="10.0" x="9660.561" y="18224.5"/> <port id="pr_50a707b8-c4a4-4a1c-a008-79788f7e32ef_p1" x="9665.561" y="18214.5"/> <port id="pr_50a707b8-c4a4-4a1c-a008-79788f7e32ef_p2" x="9665.561" y="18244.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4d0407a3-f1f5-429c-9fb1-8aefad62557d"> <bbox w="10.0" h="10.0" x="26971.0" y="7685.0"/> <port id="pr_4d0407a3-f1f5-429c-9fb1-8aefad62557d_p1" x="26976.0" y="7675.0"/> <port id="pr_4d0407a3-f1f5-429c-9fb1-8aefad62557d_p2" x="26976.0" y="7705.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_779eb7a7-20fa-4e98-80a0-85c0443d2f34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CREB target genes (c-FOS EGR-1 MKP1 BCL2 MMP13).</p> <p>PMID:19815709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_779eb7a7-20fa-4e98-80a0-85c0443d2f34"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19815709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7961.757" y="20732.621"/> <port id="pr_779eb7a7-20fa-4e98-80a0-85c0443d2f34_p1" x="7966.757" y="20722.621"/> <port id="pr_779eb7a7-20fa-4e98-80a0-85c0443d2f34_p2" x="7966.757" y="20752.621"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_238ac8f6-e67b-43e4-b520-15882996caf4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9819392</p> <p>The GAP activity of ARHGAP35 (p190RhoGAP) is specific for RhoA inhibition.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_238ac8f6-e67b-43e4-b520-15882996caf4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9819392"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6046.0" y="14276.61"/> <port id="pr_238ac8f6-e67b-43e4-b520-15882996caf4_p1" x="6036.0" y="14281.61"/> <port id="pr_238ac8f6-e67b-43e4-b520-15882996caf4_p2" x="6066.0" y="14281.61"/> </glyph> <glyph class="process" orientation="vertical" id="pr_869883f2-cc8b-41ab-8c9f-cbf37ea9fa4f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4051.5256" y="12710.0"/> <port id="pr_869883f2-cc8b-41ab-8c9f-cbf37ea9fa4f_p1" x="4056.5256" y="12730.0"/> <port id="pr_869883f2-cc8b-41ab-8c9f-cbf37ea9fa4f_p2" x="4056.5256" y="12700.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3eca272-9c7d-4a61-a551-247bb2658ee2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3eca272-9c7d-4a61-a551-247bb2658ee2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3654.0" y="10048.0"/> <port id="pr_d3eca272-9c7d-4a61-a551-247bb2658ee2_p1" x="3644.0" y="10053.0"/> <port id="pr_d3eca272-9c7d-4a61-a551-247bb2658ee2_p2" x="3674.0" y="10053.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_3caa5ee3-ad88-41e8-885f-88e57e991148"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3716.0" y="14148.258"/> <port id="pr_3caa5ee3-ad88-41e8-885f-88e57e991148_p1" x="3736.0" y="14153.258"/> <port id="pr_3caa5ee3-ad88-41e8-885f-88e57e991148_p2" x="3706.0" y="14153.258"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b959bbe8-9793-4ca8-b9c2-b6b88e6bdc84"> <bbox w="10.0" h="10.0" x="22459.734" y="15893.838"/> <port id="pr_b959bbe8-9793-4ca8-b9c2-b6b88e6bdc84_p1" x="22479.734" y="15898.838"/> <port id="pr_b959bbe8-9793-4ca8-b9c2-b6b88e6bdc84_p2" x="22449.734" y="15898.838"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6c9b133b-4b01-4103-b99a-2944a85324de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21725609</p> <p>PMID:23178297</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6c9b133b-4b01-4103-b99a-2944a85324de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21725609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23178297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2487.8125" y="10615.1875"/> <port id="pr_6c9b133b-4b01-4103-b99a-2944a85324de_p1" x="2492.8125" y="10635.1875"/> <port id="pr_6c9b133b-4b01-4103-b99a-2944a85324de_p2" x="2492.8125" y="10605.1875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5ebc25e1-3ac0-4a6c-9bd4-c1e4ec4302ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24914.06" y="14979.0"/> <port id="pr_5ebc25e1-3ac0-4a6c-9bd4-c1e4ec4302ad_p1" x="24904.06" y="14984.0"/> <port id="pr_5ebc25e1-3ac0-4a6c-9bd4-c1e4ec4302ad_p2" x="24934.06" y="14984.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1d76b11a-37ee-4140-8397-340afdab83f5"> <bbox w="10.0" h="10.0" x="6072.9688" y="5040.5"/> <port id="pr_1d76b11a-37ee-4140-8397-340afdab83f5_p1" x="6062.9688" y="5045.5"/> <port id="pr_1d76b11a-37ee-4140-8397-340afdab83f5_p2" x="6092.9688" y="5045.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f0c92eb-516e-45ca-8334-1e6c9bc0ddf2"> <bbox w="10.0" h="10.0" x="11781.895" y="9485.861"/> <port id="pr_2f0c92eb-516e-45ca-8334-1e6c9bc0ddf2_p1" x="11786.895" y="9505.861"/> <port id="pr_2f0c92eb-516e-45ca-8334-1e6c9bc0ddf2_p2" x="11786.895" y="9475.861"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_567a425c-30f9-4c09-aa84-2a0295517fcc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2692.25" y="17055.5"/> <port id="pr_567a425c-30f9-4c09-aa84-2a0295517fcc_p1" x="2712.25" y="17060.5"/> <port id="pr_567a425c-30f9-4c09-aa84-2a0295517fcc_p2" x="2682.25" y="17060.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_40d80f0f-daf1-45ce-bbdb-ef6f334760d8"> <bbox w="10.0" h="10.0" x="26756.332" y="13187.75"/> <port id="pr_40d80f0f-daf1-45ce-bbdb-ef6f334760d8_p1" x="26761.332" y="13207.75"/> <port id="pr_40d80f0f-daf1-45ce-bbdb-ef6f334760d8_p2" x="26761.332" y="13177.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_73aac173-9668-420e-828d-d240fa444efc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2090.972" y="17174.75"/> <port id="pr_73aac173-9668-420e-828d-d240fa444efc_p1" x="2080.972" y="17179.75"/> <port id="pr_73aac173-9668-420e-828d-d240fa444efc_p2" x="2110.972" y="17179.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0fee9ac8-38dc-41ff-8c6e-169015f6187e"> <bbox w="10.0" h="10.0" x="26537.18" y="13201.5"/> <port id="pr_0fee9ac8-38dc-41ff-8c6e-169015f6187e_p1" x="26542.18" y="13221.5"/> <port id="pr_0fee9ac8-38dc-41ff-8c6e-169015f6187e_p2" x="26542.18" y="13191.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_58c0fb43-c56c-4085-968e-fcf9b9e79ad2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19411070</p> <p>TNFa dramatically enhanced the protein stabilization of Snail1 through NF-kB mediated CSN2 induction.</p> <p>CSN2 induces Snail stabilization by inhibiting its ubiquitination</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_58c0fb43-c56c-4085-968e-fcf9b9e79ad2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19411070"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3626.1235" y="13973.87"/> <port id="pr_58c0fb43-c56c-4085-968e-fcf9b9e79ad2_p1" x="3616.1235" y="13978.87"/> <port id="pr_58c0fb43-c56c-4085-968e-fcf9b9e79ad2_p2" x="3646.1235" y="13978.87"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_09b24141-85b9-4ed6-987f-a1755e58c7d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5821.75" y="14378.625"/> <port id="pr_09b24141-85b9-4ed6-987f-a1755e58c7d0_p1" x="5841.75" y="14383.625"/> <port id="pr_09b24141-85b9-4ed6-987f-a1755e58c7d0_p2" x="5811.75" y="14383.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61f1ff16-7080-462d-8ab2-bfe45ed302c6"> <bbox w="10.0" h="10.0" x="11802.697" y="11674.096"/> <port id="pr_61f1ff16-7080-462d-8ab2-bfe45ed302c6_p1" x="11807.697" y="11664.096"/> <port id="pr_61f1ff16-7080-462d-8ab2-bfe45ed302c6_p2" x="11807.697" y="11694.096"/> </glyph> <glyph class="process" orientation="vertical" id="pr_96768ac9-416e-4c65-b551-37fa0ac1d956"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Clathrin-mediated endocytosis</p> <p>PMID:21397842</p> <p>PMID:20947020</p> <p>PMID:19910923</p> <p>RhoA branch of the PCP -MODULE when Dvl is hyper-phosphorylated by CK_epsilon</p> <p>PMID:18953287</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_96768ac9-416e-4c65-b551-37fa0ac1d956"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_879ba206-b0ec-421b-ade4-a03328a14948_p1" x="22802.06" y="11241.461"/> <port id="pr_879ba206-b0ec-421b-ade4-a03328a14948_p2" x="22832.06" y="11241.461"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_84c469a5-2708-46a8-b38f-02b33ccdff88"> <bbox w="10.0" h="10.0" x="28538.625" y="6054.093"/> <port id="pr_84c469a5-2708-46a8-b38f-02b33ccdff88_p1" x="28528.625" y="6059.093"/> <port id="pr_84c469a5-2708-46a8-b38f-02b33ccdff88_p2" x="28558.625" y="6059.093"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5b8a7cc3-1a97-4cf6-a066-a279d406799b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CK1 delta phosphorylates residues in cluster I: S84, S82, S79, T71 and in cluster II: S5, S8, S11, S14, S17, S20. Note: Experiments were performed in Xenopus</p> <p>PMID:21316585</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b8a7cc3-1a97-4cf6-a066-a279d406799b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15056.311" y="19828.0"/> <port id="pr_5b8a7cc3-1a97-4cf6-a066-a279d406799b_p1" x="15061.311" y="19848.0"/> <port id="pr_5b8a7cc3-1a97-4cf6-a066-a279d406799b_p2" x="15061.311" y="19818.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e09b6fe2-163b-4a33-a1e2-8474bd6cfd30"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e09b6fe2-163b-4a33-a1e2-8474bd6cfd30"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3854.25" y="10675.5"/> <port id="pr_e09b6fe2-163b-4a33-a1e2-8474bd6cfd30_p1" x="3859.25" y="10665.5"/> <port id="pr_e09b6fe2-163b-4a33-a1e2-8474bd6cfd30_p2" x="3859.25" y="10695.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a1e7427-bec1-44d0-a71b-21db1285849d"> <bbox w="10.0" h="10.0" x="3710.392" y="22607.89"/> <port id="pr_5a1e7427-bec1-44d0-a71b-21db1285849d_p1" x="3715.392" y="22597.89"/> <port id="pr_5a1e7427-bec1-44d0-a71b-21db1285849d_p2" x="3715.392" y="22627.89"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1abe0113-3a7a-4d9b-b627-434af4a35e61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3895.25" y="16886.582"/> <port id="pr_1abe0113-3a7a-4d9b-b627-434af4a35e61_p1" x="3900.25" y="16906.582"/> <port id="pr_1abe0113-3a7a-4d9b-b627-434af4a35e61_p2" x="3900.25" y="16876.582"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c31bdc3-4027-4ab5-a919-a06160d8cd34"> <bbox w="10.0" h="10.0" x="23279.562" y="2493.75"/> <port id="pr_8c31bdc3-4027-4ab5-a919-a06160d8cd34_p1" x="23284.562" y="2513.75"/> <port id="pr_8c31bdc3-4027-4ab5-a919-a06160d8cd34_p2" x="23284.562" y="2483.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fd477633-16a4-4095-89a6-0e7bb109d2b8"> <bbox w="10.0" h="10.0" x="5891.5" y="9724.0"/> <port id="pr_fd477633-16a4-4095-89a6-0e7bb109d2b8_p1" x="5896.5" y="9744.0"/> <port id="pr_fd477633-16a4-4095-89a6-0e7bb109d2b8_p2" x="5896.5" y="9714.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b7cc1161-86f5-4e94-9cf8-acd20623278e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3916.962" y="17048.5"/> <port id="pr_b7cc1161-86f5-4e94-9cf8-acd20623278e_p1" x="3906.962" y="17053.5"/> <port id="pr_b7cc1161-86f5-4e94-9cf8-acd20623278e_p2" x="3936.962" y="17053.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7443e657-fe83-4ebc-b97f-0a3d60211436"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> <p>by NRF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7443e657-fe83-4ebc-b97f-0a3d60211436"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19874.207" y="16174.0"/> <port id="pr_7443e657-fe83-4ebc-b97f-0a3d60211436_p1" x="19879.207" y="16194.0"/> <port id="pr_7443e657-fe83-4ebc-b97f-0a3d60211436_p2" x="19879.207" y="16164.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c3594e2e-e9f2-497f-81d5-70cf466148c0"> <bbox w="10.0" h="10.0" x="21405.088" y="6304.4863"/> <port id="pr_c3594e2e-e9f2-497f-81d5-70cf466148c0_p1" x="21425.088" y="6309.4863"/> <port id="pr_c3594e2e-e9f2-497f-81d5-70cf466148c0_p2" x="21395.088" y="6309.4863"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c11989ff-2ce3-44e5-87e1-5371833740e4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18455992</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c11989ff-2ce3-44e5-87e1-5371833740e4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18455992"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26138.008" y="18650.75"/> <port id="pr_c11989ff-2ce3-44e5-87e1-5371833740e4_p1" x="26143.008" y="18640.75"/> <port id="pr_c11989ff-2ce3-44e5-87e1-5371833740e4_p2" x="26143.008" y="18670.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_80fccf62-806f-44a3-b8f1-e08e078d370d"> <bbox w="10.0" h="10.0" x="16055.672" y="15463.877"/> <port id="pr_80fccf62-806f-44a3-b8f1-e08e078d370d_p1" x="16075.672" y="15468.877"/> <port id="pr_80fccf62-806f-44a3-b8f1-e08e078d370d_p2" x="16045.672" y="15468.877"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3c07cd6f-e409-4de4-af07-4fa4ec8dc596"> <bbox w="10.0" h="10.0" x="25929.123" y="20930.0"/> <port id="pr_3c07cd6f-e409-4de4-af07-4fa4ec8dc596_p1" x="25919.123" y="20935.0"/> <port id="pr_3c07cd6f-e409-4de4-af07-4fa4ec8dc596_p2" x="25949.123" y="20935.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a3ab3e2b-2962-473d-92ad-92c7c5c554ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Cadherin internalization can occur through either clathrin-mediated, caveolin-mediated, or macropinocytosis-like pathways. Internalized cadherin is then sorted either for lysosomal degradation or recycling back to the plasma membrane.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a3ab3e2b-2962-473d-92ad-92c7c5c554ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1689.375" y="13507.012"/> <port id="pr_a3ab3e2b-2962-473d-92ad-92c7c5c554ce_p1" x="1694.375" y="13497.012"/> <port id="pr_a3ab3e2b-2962-473d-92ad-92c7c5c554ce_p2" x="1694.375" y="13527.012"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8b850e92-2fef-4144-9c23-912782b315f4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27251.06" y="18771.0"/> <port id="pr_8b850e92-2fef-4144-9c23-912782b315f4_p1" x="27271.06" y="18776.0"/> <port id="pr_8b850e92-2fef-4144-9c23-912782b315f4_p2" x="27241.06" y="18776.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7bf2adf3-ccd3-4668-ae2e-100cff13f34f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5765.25" y="13783.75"/> <port id="pr_7bf2adf3-ccd3-4668-ae2e-100cff13f34f_p1" x="5770.25" y="13773.75"/> <port id="pr_7bf2adf3-ccd3-4668-ae2e-100cff13f34f_p2" x="5770.25" y="13803.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_11aefb44-696c-47e6-8741-39369fe539b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3066.5" y="14647.207"/> <port id="pr_11aefb44-696c-47e6-8741-39369fe539b7_p1" x="3086.5" y="14652.207"/> <port id="pr_11aefb44-696c-47e6-8741-39369fe539b7_p2" x="3056.5" y="14652.207"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db70cc41-7e44-4299-bc5d-47a506f5c95c"> <bbox w="10.0" h="10.0" x="20658.125" y="6542.5"/> <port id="pr_db70cc41-7e44-4299-bc5d-47a506f5c95c_p1" x="20663.125" y="6532.5"/> <port id="pr_db70cc41-7e44-4299-bc5d-47a506f5c95c_p2" x="20663.125" y="6562.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ffc8c993-5bfc-48a5-a50a-d65f8632f9bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4780.0" y="18766.598"/> <port id="pr_ffc8c993-5bfc-48a5-a50a-d65f8632f9bc_p1" x="4800.0" y="18771.598"/> <port id="pr_ffc8c993-5bfc-48a5-a50a-d65f8632f9bc_p2" x="4770.0" y="18771.598"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_80615367-f6d7-4c69-b92e-b9acdb76b014"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>HCLK2*/FANCM/FAAP24/active ATR complex inhibit S-phase:</p> <p>PMID:19282663, PMID:19622404, PMID:18995830</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_80615367-f6d7-4c69-b92e-b9acdb76b014"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19282663"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19622404"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18995830"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13943.393" y="13535.1"/> <port id="pr_80615367-f6d7-4c69-b92e-b9acdb76b014_p1" x="13963.393" y="13540.1"/> <port id="pr_80615367-f6d7-4c69-b92e-b9acdb76b014_p2" x="13933.393" y="13540.1"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6ff3a1a1-1d34-4e03-b6d4-4e008355e781"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5747.25" y="14563.84"/> <port id="pr_6ff3a1a1-1d34-4e03-b6d4-4e008355e781_p1" x="5737.25" y="14568.84"/> <port id="pr_6ff3a1a1-1d34-4e03-b6d4-4e008355e781_p2" x="5767.25" y="14568.84"/> </glyph> <glyph class="process" orientation="vertical" id="pr_43321868-9e01-4938-9a4a-22f65a77ea08"> <bbox w="10.0" h="10.0" x="27906.05" y="7495.0"/> <port id="pr_43321868-9e01-4938-9a4a-22f65a77ea08_p1" x="27911.05" y="7485.0"/> <port id="pr_43321868-9e01-4938-9a4a-22f65a77ea08_p2" x="27911.05" y="7515.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a66c5881-b36d-49c6-92c5-d6b3046544b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MYC activates P14</p> <p>PMID:17158541</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a66c5881-b36d-49c6-92c5-d6b3046544b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17158541"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10684.893" y="20742.0"/> <port id="pr_a66c5881-b36d-49c6-92c5-d6b3046544b4_p1" x="10704.893" y="20747.0"/> <port id="pr_a66c5881-b36d-49c6-92c5-d6b3046544b4_p2" x="10674.893" y="20747.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f67d3dc-0c8b-411d-a151-b446f3d071ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19339977</p> <p>review</p> <p>proposed RSK mediated phosphorylation of RAPTOR might provide a mechanism to overcome the inhibitory effect of AKT1S1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2f67d3dc-0c8b-411d-a151-b446f3d071ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339977"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26594.56" y="11639.25"/> <port id="pr_2f67d3dc-0c8b-411d-a151-b446f3d071ce_p1" x="26599.56" y="11629.25"/> <port id="pr_2f67d3dc-0c8b-411d-a151-b446f3d071ce_p2" x="26599.56" y="11659.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29acde2e-e679-4d2c-a6bf-5d9a19bcf3f8"> <bbox w="10.0" h="10.0" x="21126.715" y="14862.75"/> <port id="pr_29acde2e-e679-4d2c-a6bf-5d9a19bcf3f8_p1" x="21131.715" y="14852.75"/> <port id="pr_29acde2e-e679-4d2c-a6bf-5d9a19bcf3f8_p2" x="21131.715" y="14882.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d01bedc7-e7fa-4420-b376-6561ef647bda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9443821</p> <p>phingosine potentiates the transduction process of stimulus-PLA2 activation, resulting in enhancement of arachidonic acid liberation</p> <p>PMID:22454477</p> <p>Sphingosine mediates TNFα-induced lysosomal membrane permeabilization and ensuing programmed cell death in hepatoma cells.</p> <p>PMID:23567086</p> <p>PMID:17623009</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d01bedc7-e7fa-4420-b376-6561ef647bda"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9443821"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22454477"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23567086"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17623009"/> 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h="10.0" x="12785.0" y="5795.0"/> <port id="pr_1fc6d392-efad-44f8-bf13-7b50e5530270_p1" x="12790.0" y="5785.0"/> <port id="pr_1fc6d392-efad-44f8-bf13-7b50e5530270_p2" x="12790.0" y="5815.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5756d72a-5d46-4b12-802a-7fc00a5e63cc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21841793</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5147.9004" y="17787.5"/> <port id="pr_3da6c63e-1fea-478d-b901-041aff0002a5_p1" x="5152.9004" y="17777.5"/> <port id="pr_3da6c63e-1fea-478d-b901-041aff0002a5_p2" x="5152.9004" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d2e8199-6151-4be0-a0af-81f3516caa88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4528.22" y="17690.0"/> <port id="pr_3d2e8199-6151-4be0-a0af-81f3516caa88_p1" x="4533.22" y="17680.0"/> <port id="pr_3d2e8199-6151-4be0-a0af-81f3516caa88_p2" x="4533.22" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6a286d13-be23-4003-a10c-90c3675b82d7"> <bbox w="10.0" h="10.0" x="24288.18" y="16011.25"/> <port id="pr_6a286d13-be23-4003-a10c-90c3675b82d7_p1" x="24293.18" y="16031.25"/> <port id="pr_6a286d13-be23-4003-a10c-90c3675b82d7_p2" x="24293.18" y="16001.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d188e33-0015-48ca-b48a-73672b4c58ce"> <bbox w="10.0" h="10.0" x="19764.06" y="10629.0"/> <port id="pr_7d188e33-0015-48ca-b48a-73672b4c58ce_p1" x="19754.06" y="10634.0"/> <port id="pr_7d188e33-0015-48ca-b48a-73672b4c58ce_p2" x="19784.06" y="10634.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3916fe70-800c-42a4-9d54-7caa40438cb7"> <bbox w="10.0" h="10.0" x="23625.06" y="21414.0"/> <port id="pr_3916fe70-800c-42a4-9d54-7caa40438cb7_p1" x="23615.06" y="21419.0"/> <port id="pr_3916fe70-800c-42a4-9d54-7caa40438cb7_p2" x="23645.06" y="21419.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_df337f1f-1e49-4e03-93bb-c51833387b17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18158893</p> <p>by FOXO3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_df337f1f-1e49-4e03-93bb-c51833387b17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18158893"/> </rdf:Bag> </bqbiol:isEncodedBy> 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orientation="vertical" id="pr_4e500dbd-bea4-42e8-88b7-277b7907870d"> <bbox w="10.0" h="10.0" x="10629.732" y="1392.0"/> <port id="pr_4e500dbd-bea4-42e8-88b7-277b7907870d_p1" x="10634.732" y="1382.0"/> <port id="pr_4e500dbd-bea4-42e8-88b7-277b7907870d_p2" x="10634.732" y="1412.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0786b55f-716f-44a6-9091-7ec151a7c3d1"> <bbox w="10.0" h="10.0" x="2353.6885" y="4935.0"/> <port id="pr_0786b55f-716f-44a6-9091-7ec151a7c3d1_p1" x="2358.6885" y="4925.0"/> <port id="pr_0786b55f-716f-44a6-9091-7ec151a7c3d1_p2" x="2358.6885" y="4955.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4df1a4c8-5617-4daa-a5f8-d8287b2ad05d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19930715</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4df1a4c8-5617-4daa-a5f8-d8287b2ad05d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4974.25" y="11137.0"/> <port id="pr_4df1a4c8-5617-4daa-a5f8-d8287b2ad05d_p1" x="4979.25" y="11127.0"/> <port id="pr_4df1a4c8-5617-4daa-a5f8-d8287b2ad05d_p2" x="4979.25" y="11157.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_19a76649-1bf6-4c33-8d79-a3c7a48fe9db"> <bbox w="20.0" h="20.0" x="4924.12" y="11086.898"/> <port id="logicglyph_19a76649-1bf6-4c33-8d79-a3c7a48fe9db_p1" x="4934.12" y="11076.898"/> <port id="logicglyph_19a76649-1bf6-4c33-8d79-a3c7a48fe9db_p2" x="4934.12" y="11116.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_70870c04-e7c7-44b4-95c9-df771d13a4bf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10722653</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15735728</p> <p>in mouse haemopoietic cell line TonB210, by AKT, upon expression of BCR-ABL or upon IL3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb6b6894-3a66-4491-ace0-019da927daac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15735728"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29435006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d384b9ad-209b-456a-945c-2c0918a033c1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29435006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3952.75" y="10214.25"/> <port id="pr_d384b9ad-209b-456a-945c-2c0918a033c1_p1" x="3957.75" y="10234.25"/> <port id="pr_d384b9ad-209b-456a-945c-2c0918a033c1_p2" x="3957.75" y="10204.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af43ad76-f2c7-4222-9caa-497d8ccc174a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19736394</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3198.4797" y="14845.0"/> <port id="pr_5188003c-42bc-4c60-b3b5-02727b1f4cd2_p1" x="3203.4797" y="14865.0"/> <port id="pr_5188003c-42bc-4c60-b3b5-02727b1f4cd2_p2" x="3203.4797" y="14835.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ce54868f-ce28-43ea-94b3-7ae89880254d"> <bbox w="10.0" h="10.0" x="10962.929" y="2905.0"/> <port id="pr_ce54868f-ce28-43ea-94b3-7ae89880254d_p1" x="10967.929" y="2895.0"/> <port id="pr_ce54868f-ce28-43ea-94b3-7ae89880254d_p2" x="10967.929" y="2925.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6142a337-9651-4f88-b969-eda8a59d83df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The shift from C_NHEJ to HR is regulated by the CtIP and BRCA1. CDK1-dependent phosphorylation of CtIP regulates the shift: PMID:19357644</p> <p>PMID:15485915</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6142a337-9651-4f88-b969-eda8a59d83df"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19357644"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15485915"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" 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<port id="pr_6f891eda-5251-412f-a104-0c56084be265_p1" x="22741.25" y="4610.0"/> <port id="pr_6f891eda-5251-412f-a104-0c56084be265_p2" x="22771.25" y="4610.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d9b6316-d076-4869-9391-1423aac6b9a3"> <bbox w="10.0" h="10.0" x="20839.06" y="16120.0"/> <port id="pr_2d9b6316-d076-4869-9391-1423aac6b9a3_p1" x="20844.06" y="16140.0"/> <port id="pr_2d9b6316-d076-4869-9391-1423aac6b9a3_p2" x="20844.06" y="16110.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bca5b935-3067-4f18-87ae-bc04c68d7b5e"> <bbox w="10.0" h="10.0" x="27775.129" y="15935.75"/> <port id="pr_bca5b935-3067-4f18-87ae-bc04c68d7b5e_p1" x="27780.129" y="15955.75"/> <port id="pr_bca5b935-3067-4f18-87ae-bc04c68d7b5e_p2" x="27780.129" y="15925.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d2e3ea14-eeb9-4833-a074-20242ae10ad7"> <bbox w="10.0" h="10.0" x="17435.0" y="7885.0"/> <port id="pr_d2e3ea14-eeb9-4833-a074-20242ae10ad7_p1" x="17440.0" y="7875.0"/> <port id="pr_d2e3ea14-eeb9-4833-a074-20242ae10ad7_p2" x="17440.0" y="7905.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d2f92ae5-9c44-4884-904d-fb81878c2fae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11704864</p> <p>in LNCaP human prostate cancer cell line</p> <p>PMID:11313951</p> <p>transrepression by p53</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2f92ae5-9c44-4884-904d-fb81878c2fae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11704864"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313951"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21356.36" y="16162.842"/> <port id="pr_d2f92ae5-9c44-4884-904d-fb81878c2fae_p1" x="21361.36" y="16182.842"/> <port id="pr_d2f92ae5-9c44-4884-904d-fb81878c2fae_p2" x="21361.36" y="16152.842"/> </glyph> <glyph class="process" orientation="vertical" id="pr_df020c60-d557-4329-80d7-9790cd899109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18458340</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_df020c60-d557-4329-80d7-9790cd899109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18458340"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23830.436" y="15731.5"/> <port id="pr_df020c60-d557-4329-80d7-9790cd899109_p1" x="23835.436" y="15721.5"/> <port id="pr_df020c60-d557-4329-80d7-9790cd899109_p2" x="23835.436" y="15751.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_94442ad1-150b-4e6b-8f68-45b0c63fcd75"> <bbox w="10.0" h="10.0" x="13667.197" y="2041.25"/> <port id="pr_94442ad1-150b-4e6b-8f68-45b0c63fcd75_p1" x="13672.197" y="2031.25"/> <port id="pr_94442ad1-150b-4e6b-8f68-45b0c63fcd75_p2" x="13672.197" y="2061.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_674998e3-7ac4-4902-ab62-c35eb91eed42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18078820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_674998e3-7ac4-4902-ab62-c35eb91eed42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18078820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3685.0" y="9143.256"/> <port id="pr_674998e3-7ac4-4902-ab62-c35eb91eed42_p1" x="3675.0" y="9148.256"/> <port id="pr_674998e3-7ac4-4902-ab62-c35eb91eed42_p2" x="3705.0" y="9148.256"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_be87e848-2fd2-4f92-9de1-0915ab8de260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11198.709" y="15084.15"/> <port id="pr_be87e848-2fd2-4f92-9de1-0915ab8de260_p1" x="11188.709" y="15089.15"/> <port id="pr_be87e848-2fd2-4f92-9de1-0915ab8de260_p2" x="11218.709" y="15089.15"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_792fb514-2b5a-40a2-9609-0a8305feefe3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_69e42615-4a16-44e1-b896-75d513968da2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:TGFBR2"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6725.8247" y="16928.875"/> <port id="pr_69e42615-4a16-44e1-b896-75d513968da2_p1" x="6730.8247" y="16948.875"/> <port id="pr_69e42615-4a16-44e1-b896-75d513968da2_p2" x="6730.8247" y="16918.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a91d0e4a-7055-41bb-bf95-e61396559d82"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:21474067</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a91d0e4a-7055-41bb-bf95-e61396559d82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12936.936" y="19165.258"/> <port id="pr_a91d0e4a-7055-41bb-bf95-e61396559d82_p1" x="12956.936" y="19170.258"/> <port id="pr_a91d0e4a-7055-41bb-bf95-e61396559d82_p2" x="12926.936" y="19170.258"/> </glyph> <glyph class="process" orientation="vertical" id="pr_501a466e-0898-4cd6-a619-5699782851a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10441483</p> <p>in vitro with HepG2 nuclear extracts for gel (super)shift assay</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_501a466e-0898-4cd6-a619-5699782851a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10441483"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25176.33" y="16202.023"/> <port id="pr_501a466e-0898-4cd6-a619-5699782851a6_p1" x="25181.33" y="16222.023"/> <port id="pr_501a466e-0898-4cd6-a619-5699782851a6_p2" x="25181.33" y="16192.023"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cef39035-fc51-4134-b11f-bc0e9df7128d"> <bbox w="10.0" h="10.0" x="4277.0625" y="10543.9375"/> <port id="pr_cef39035-fc51-4134-b11f-bc0e9df7128d_p1" x="4267.0625" y="10548.9375"/> <port id="pr_cef39035-fc51-4134-b11f-bc0e9df7128d_p2" x="4297.0625" y="10548.9375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a3fd5437-11d9-494e-a7ef-82e7e8a98152"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15531880</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a3fd5437-11d9-494e-a7ef-82e7e8a98152"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15531880"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14262.561" y="20828.0"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4392.7227" y="17989.625"/> <port id="pr_1e665400-0c30-4360-a6f2-7e01334bb819_p1" x="4397.7227" y="17979.625"/> <port id="pr_1e665400-0c30-4360-a6f2-7e01334bb819_p2" x="4397.7227" y="18009.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1e54d04b-5be2-474b-9e83-bcfeb70caedf"> <bbox w="10.0" h="10.0" x="15202.269" y="10018.414"/> <port id="pr_1e54d04b-5be2-474b-9e83-bcfeb70caedf_p1" x="15192.269" y="10023.414"/> <port id="pr_1e54d04b-5be2-474b-9e83-bcfeb70caedf_p2" x="15222.269" y="10023.414"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ddc6dbf2-9a6d-4906-9314-6a88bd6d7655"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25198.055" y="13977.939"/> <port id="pr_ddc6dbf2-9a6d-4906-9314-6a88bd6d7655_p1" x="25203.055" y="13997.939"/> <port id="pr_ddc6dbf2-9a6d-4906-9314-6a88bd6d7655_p2" x="25203.055" y="13967.939"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb332646-8fde-4d55-8150-c0c525fab913"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17332325</p> <p>TWIST1 binds to E-box elements on AKT2 promoter and enhanced its transcriptional activity</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<title/> </head> <body> <p>PMID:25687758</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6c27f13f-9d07-4c9f-b3d0-992bbd6f9c45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5632.25" y="9719.5"/> <port id="pr_6c27f13f-9d07-4c9f-b3d0-992bbd6f9c45_p1" x="5622.25" y="9724.5"/> <port id="pr_6c27f13f-9d07-4c9f-b3d0-992bbd6f9c45_p2" x="5652.25" y="9724.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c1722ae6-1393-4a65-b457-c63568b609e0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16219762</p> <p>in PC12 by NFE2L2 upon 4-HNE</p> <p>PMID:15521073</p> <p>in bovine arterial endothelial cells, by NFE2L2, upon cadmium</p> <p>PMID:17512463</p> <p>in mouse photoreceptor-derived 661W cells, by NFE2L2, upon 4-HNE</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c1722ae6-1393-4a65-b457-c63568b609e0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16219762"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15521073"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17512463"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25029.615" y="16161.898"/> <port id="pr_c1722ae6-1393-4a65-b457-c63568b609e0_p1" x="25019.615" y="16166.898"/> <port id="pr_c1722ae6-1393-4a65-b457-c63568b609e0_p2" x="25049.615" y="16166.898"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_1f2363e5-d75b-4f59-8c74-ef50c1bb7957"> <bbox w="10.0" h="10.0" x="19104.873" y="11857.75"/> <port id="pr_1f2363e5-d75b-4f59-8c74-ef50c1bb7957_p1" x="19124.873" y="11862.75"/> <port id="pr_1f2363e5-d75b-4f59-8c74-ef50c1bb7957_p2" x="19094.873" y="11862.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ca452101-c3d4-40d0-a254-9c1a49231ec9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID15169778</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13400.061" y="21869.0"/> <port id="pr_ca452101-c3d4-40d0-a254-9c1a49231ec9_p1" x="13405.061" y="21859.0"/> <port id="pr_ca452101-c3d4-40d0-a254-9c1a49231ec9_p2" x="13405.061" y="21889.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_55bb6294-3184-48cd-886f-f14e84f1033f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6003.5" y="14277.375"/> <port id="pr_55bb6294-3184-48cd-886f-f14e84f1033f_p1" x="5993.5" y="14282.375"/> <port id="pr_55bb6294-3184-48cd-886f-f14e84f1033f_p2" x="6023.5" y="14282.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_33cea4e6-697a-482f-8570-2abe60fcf2dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20628572</p> <p>RGS3 and RGS14 are GTP-ase activating proteins for Gi_alpha and Gq_alpha.</p> <p>PMID:10999941</p> <p>PMID:12534294</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_33cea4e6-697a-482f-8570-2abe60fcf2dd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10999941"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12534294"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16760.06" y="18573.25"/> <port id="pr_33cea4e6-697a-482f-8570-2abe60fcf2dd_p1" x="16765.06" y="18593.25"/> <port id="pr_33cea4e6-697a-482f-8570-2abe60fcf2dd_p2" x="16765.06" y="18563.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bbf5efcb-2717-444e-b90c-4c16020635d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14660645, PMID:18264787, PMID:12620219</p> <p>IRAK-1 interacts with the downstream adaptor TRAF6, </p> <p>resulting in formation of a complex that also includes TAK1 and TAB2.</p> <p> IRAK-1 mediates the translocation of TRAF6, TAK1, and TAB2 to the cytosol,</p> <p> where they form a multiprotein complex with other cytosolic proteins, </p> <p>which are needed for stimulation of TAK1 kinase activity.</p> <p>PMID:12150927</p> <p>IRAK3 (IRAK-M) is a negative regulator of Toll-like receptor signaling</p> <p>in macrophages. It prevented dissociation of IRAK and IRAK-4 from MyD88 and formation of IRAK-TRAF6 complexes.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bbf5efcb-2717-444e-b90c-4c16020635d0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12620219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12150927"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1895.0" y="1755.0"/> <port id="pr_bbf5efcb-2717-444e-b90c-4c16020635d0_p1" x="1885.0" y="1760.0"/> <port id="pr_bbf5efcb-2717-444e-b90c-4c16020635d0_p2" x="1915.0" y="1760.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f9dfa6eb-92c9-473f-b340-b1f6e1cc362c"> <bbox w="10.0" h="10.0" x="15020.305" y="15742.659"/> <port id="pr_f9dfa6eb-92c9-473f-b340-b1f6e1cc362c_p1" x="15010.305" y="15747.659"/> <port id="pr_f9dfa6eb-92c9-473f-b340-b1f6e1cc362c_p2" x="15040.305" y="15747.659"/> </glyph> <glyph class="process" orientation="vertical" id="pr_90d5cbed-24cd-4e7d-8c0a-871664f68a01"> <bbox w="10.0" h="10.0" x="20206.25" y="5265.0"/> <port id="pr_90d5cbed-24cd-4e7d-8c0a-871664f68a01_p1" x="20211.25" y="5255.0"/> <port id="pr_90d5cbed-24cd-4e7d-8c0a-871664f68a01_p2" x="20211.25" y="5285.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_beb3b1ba-e5f6-497b-b35d-3d44f4cf174e"> <bbox w="10.0" h="10.0" x="4545.0" y="1290.0"/> <port id="pr_beb3b1ba-e5f6-497b-b35d-3d44f4cf174e_p1" x="4550.0" y="1310.0"/> <port id="pr_beb3b1ba-e5f6-497b-b35d-3d44f4cf174e_p2" x="4550.0" y="1280.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bf6340c0-1cd8-47bc-963f-59b30d00d70b"> <bbox w="10.0" h="10.0" x="13167.533" y="1694.5"/> <port id="pr_bf6340c0-1cd8-47bc-963f-59b30d00d70b_p1" x="13172.533" y="1684.5"/> <port id="pr_bf6340c0-1cd8-47bc-963f-59b30d00d70b_p2" x="13172.533" y="1714.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_900e09d9-ef6b-4ff3-8925-300aeeb91c5f"> <bbox w="10.0" h="10.0" x="17960.06" y="18765.5"/> <port id="pr_900e09d9-ef6b-4ff3-8925-300aeeb91c5f_p1" x="17965.06" y="18785.5"/> <port id="pr_900e09d9-ef6b-4ff3-8925-300aeeb91c5f_p2" x="17965.06" y="18755.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2dabb040-9fc0-437b-81d7-7623c51282b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Involvement of LigIII/XRCC1 in A_NHEJ together with PARP1 </p> <p>PMID:19362533, PMID:21376743, PMID:24050180, PMID:22743550</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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orientation="horizontal" id="pr_672833d5-39a7-4ae9-a237-24fa5a08e4f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25687758</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_672833d5-39a7-4ae9-a237-24fa5a08e4f2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3625.5" y="19013.0"/> <port id="pr_7129043f-7f14-40d9-a895-61a6d61be1f3_p1" x="3630.5" y="19033.0"/> <port id="pr_7129043f-7f14-40d9-a895-61a6d61be1f3_p2" x="3630.5" y="19003.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b9eda376-7629-4324-a41e-1100aa929af2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4863.7666" y="17690.0"/> <port id="pr_b9eda376-7629-4324-a41e-1100aa929af2_p1" x="4868.7666" y="17680.0"/> <port id="pr_b9eda376-7629-4324-a41e-1100aa929af2_p2" x="4868.7666" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aaf2b744-dca5-4b99-b495-76419ef68088"> <bbox w="10.0" h="10.0" x="28456.0" y="6712.5"/> <port id="pr_aaf2b744-dca5-4b99-b495-76419ef68088_p1" x="28446.0" y="6717.5"/> <port id="pr_aaf2b744-dca5-4b99-b495-76419ef68088_p2" x="28476.0" y="6717.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_723074ca-1826-4f30-9c71-a0e19d8f7034"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24940.31" y="13310.25"/> <port id="pr_723074ca-1826-4f30-9c71-a0e19d8f7034_p1" x="24930.31" y="13315.25"/> <port id="pr_723074ca-1826-4f30-9c71-a0e19d8f7034_p2" x="24960.31" y="13315.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cea63ca5-034c-4747-b952-bf3f71446e1a"> <bbox w="10.0" h="10.0" 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id="pr_aadccc3c-d564-499c-9dd9-3787c9c53352_p1" x="28009.06" y="14889.0"/> <port id="pr_aadccc3c-d564-499c-9dd9-3787c9c53352_p2" x="27979.06" y="14889.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1f9a7e7-3dd1-46f4-a532-60716d9b263d"> <bbox w="10.0" h="10.0" x="1150.991" y="3926.75"/> <port id="pr_d1f9a7e7-3dd1-46f4-a532-60716d9b263d_p1" x="1170.991" y="3931.75"/> <port id="pr_d1f9a7e7-3dd1-46f4-a532-60716d9b263d_p2" x="1140.991" y="3931.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_58db5953-9cdc-4d3a-9e1d-f60032a7f9ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19561074 PMID:20460648 PMID:19581931 PMID:21304492 PMID:21498506</p> <p>AMER1 recruits axin</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_58db5953-9cdc-4d3a-9e1d-f60032a7f9ea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20460648"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22118.06" y="17954.5"/> <port id="pr_58db5953-9cdc-4d3a-9e1d-f60032a7f9ea_p1" x="22138.06" y="17959.5"/> <port id="pr_58db5953-9cdc-4d3a-9e1d-f60032a7f9ea_p2" x="22108.06" y="17959.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_222761c1-ea95-4d08-8776-6c9cecf14988"> <bbox w="10.0" h="10.0" x="13057.473" y="10726.106"/> <port id="pr_222761c1-ea95-4d08-8776-6c9cecf14988_p1" x="13077.473" y="10731.106"/> <port id="pr_222761c1-ea95-4d08-8776-6c9cecf14988_p2" x="13047.473" y="10731.106"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2a55a2f5-2c26-4133-bd50-d6de4d75e77a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18056423</p> <p>in mouse liver</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2a55a2f5-2c26-4133-bd50-d6de4d75e77a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18056423"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23002.06" y="14844.0"/> <port id="pr_2a55a2f5-2c26-4133-bd50-d6de4d75e77a_p1" x="23022.06" y="14849.0"/> <port id="pr_2a55a2f5-2c26-4133-bd50-d6de4d75e77a_p2" x="22992.06" y="14849.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b8d01e0e-6730-43ae-a00f-fac60a9bee81"> <bbox w="10.0" h="10.0" x="21420.455" y="15243.369"/> <port id="pr_b8d01e0e-6730-43ae-a00f-fac60a9bee81_p1" x="21410.455" y="15248.369"/> <port id="pr_b8d01e0e-6730-43ae-a00f-fac60a9bee81_p2" x="21440.455" y="15248.369"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b3ac270a-ffd4-4bd6-91fa-85459fa4534c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2895.0" y="16912.0"/> <port id="pr_b3ac270a-ffd4-4bd6-91fa-85459fa4534c_p1" x="2915.0" y="16917.0"/> <port id="pr_b3ac270a-ffd4-4bd6-91fa-85459fa4534c_p2" x="2885.0" y="16917.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_59eed912-e440-43dd-9a08-89706163d99e"> <bbox w="10.0" h="10.0" x="12768.047" y="10739.809"/> <port id="pr_59eed912-e440-43dd-9a08-89706163d99e_p1" x="12758.047" y="10744.809"/> <port id="pr_59eed912-e440-43dd-9a08-89706163d99e_p2" x="12788.047" y="10744.809"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd98e415-9b1f-46cb-b998-498f6f0dfbd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19930715</p> <p>PMID:26597054</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fd98e415-9b1f-46cb-b998-498f6f0dfbd7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4881.0" y="12440.5"/> <port id="pr_fd98e415-9b1f-46cb-b998-498f6f0dfbd7_p1" x="4901.0" y="12445.5"/> <port id="pr_fd98e415-9b1f-46cb-b998-498f6f0dfbd7_p2" x="4871.0" y="12445.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_66429239-5a8c-43c5-92ba-168650853f48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23069999</p> <p>At least five levels of life-death cell regulation via CD95 could be tracked: extracellular, membrane, DISC, mitochondrial, and miRNA</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_66429239-5a8c-43c5-92ba-168650853f48"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23069999"/> </rdf:Bag> </bqbiol:isEncodedBy> 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<head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6d6eb536-5a3a-41a8-a797-82c3015f8838"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12397.811" y="19150.75"/> <port 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x="9444.598" y="3039.25"/> <port id="pr_b44e961b-427e-44cc-a5f8-49c2bd9c6384_p2" x="9444.598" y="3009.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9463026d-53c6-4eb9-af79-2ec5edaa5fbf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:10625301</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9463026d-53c6-4eb9-af79-2ec5edaa5fbf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10625301"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7218.0" y="6666.0"/> <port id="pr_9463026d-53c6-4eb9-af79-2ec5edaa5fbf_p1" x="7238.0" y="6671.0"/> <port id="pr_9463026d-53c6-4eb9-af79-2ec5edaa5fbf_p2" x="7208.0" y="6671.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_695fefe4-f46b-48c6-b386-3e6cc0dbf3ef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11324699</p> <p>PMID:15258919</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_695fefe4-f46b-48c6-b386-3e6cc0dbf3ef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11324699"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15258919"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4474.0" y="6871.5"/> <port id="pr_695fefe4-f46b-48c6-b386-3e6cc0dbf3ef_p1" x="4479.0" y="6861.5"/> <port id="pr_695fefe4-f46b-48c6-b386-3e6cc0dbf3ef_p2" x="4479.0" y="6891.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_606da0fc-cc50-458d-84ce-a884c6e03f89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4537.034" y="17989.125"/> <port id="pr_606da0fc-cc50-458d-84ce-a884c6e03f89_p1" x="4542.034" y="17979.125"/> <port id="pr_606da0fc-cc50-458d-84ce-a884c6e03f89_p2" x="4542.034" y="18009.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3dffc3f9-a2dd-4238-a87c-8897a542bc72"> <bbox w="10.0" h="10.0" x="6715.0" y="4491.25"/> <port id="pr_3dffc3f9-a2dd-4238-a87c-8897a542bc72_p1" x="6720.0" y="4481.25"/> <port id="pr_3dffc3f9-a2dd-4238-a87c-8897a542bc72_p2" x="6720.0" y="4511.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3e7f9ea2-e00d-4d61-b2f9-f78698964349"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" 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regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic protines) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic protines)work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis</p> <p>PMID:22836101</p> <p>BCL2L1 (BCL-X) promotes survival of adult and developing retinal ganglion cells.</p> <p>The activation of the pro-death family member BAX is often the final step before cell death in neurons. </p> <p>Pro-survival family members such as BCL2L1 act to inhibit BAX activation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_54ad1928-ee49-4c7c-840d-ad2d0c09bcc7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22039431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22836101"/> </rdf:Bag> </bqbiol:isEncodedBy> 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class="process" orientation="horizontal" id="pr_e6c0858f-1846-4e65-878c-cc47d190286d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>from unipathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18984.383" y="12888.605"/> <port id="pr_e6c0858f-1846-4e65-878c-cc47d190286d_p1" x="19004.383" y="12893.605"/> <port id="pr_e6c0858f-1846-4e65-878c-cc47d190286d_p2" x="18974.383" y="12893.605"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2401794c-4bbf-4414-90b3-3fc2f6848149"> <bbox w="10.0" h="10.0" x="23437.5" y="932.5"/> <port id="pr_2401794c-4bbf-4414-90b3-3fc2f6848149_p1" x="23442.5" y="922.5"/> <port id="pr_2401794c-4bbf-4414-90b3-3fc2f6848149_p2" x="23442.5" y="952.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_03f2c9b2-01cb-466f-b797-a8e8641e9496"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19465911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03f2c9b2-01cb-466f-b797-a8e8641e9496"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19465911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18387.418" y="14018.336"/> <port 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id="pr_f817a32e-df0a-46b9-a242-25f11a54ccd3_p2" x="12518.056" y="8061.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_01b8e357-79b1-4c9e-a59e-2e86c15fbc40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20678582 PMID:21034673</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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x="25704.06" y="16416.5"/> <port id="pr_d52cf17d-accf-4262-a13e-71fc4575b8a7_p1" x="25709.06" y="16436.5"/> <port id="pr_d52cf17d-accf-4262-a13e-71fc4575b8a7_p2" x="25709.06" y="16406.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7245f759-5fc6-4c26-86b1-23052d2b370f"> <bbox w="10.0" h="10.0" x="22322.357" y="12130.127"/> <port id="pr_7245f759-5fc6-4c26-86b1-23052d2b370f_p1" x="22342.357" y="12135.127"/> <port id="pr_7245f759-5fc6-4c26-86b1-23052d2b370f_p2" x="22312.357" y="12135.127"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_25fce367-ccd0-44c3-82a9-100b67f3de98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9727492</p> <p>in vitro cleavage of BID by CASP8 and GZMB, BID poor substrate for CASP3</p> <p>in Jurkat cleavage of BID by CASP8 upon Fas stimulation</p> <p>in Hela exposed to TNF+CHX cleavage of BID by CASP8</p> <p>PMID:10805722</p> <p>in vitro cleavage of in vitro translated BID by purified granzyme B</p> <p>in Jurkat cells exposed to GZMB+adenovirus, BID cleavage occurs independently of caspases (zVAD-fmk)</p> <p>PMID:11085743</p> <p>in Jurkat cells exposed to GZMB+perforin, Bcl2 over-expression mediated cell protection is abrogated by over-over-expression of BID (wt or CASP8-uncleavable mutant) but of D75 (GZMB in vitro cleavage site) mutant</p> <p>PMID:11085742</p> <p>in Jurkat cells exposed to GZMB+adenovirus+zVAD-fmk, BID is cleaved and localizes to mitochondria</p> <p>PMID:10364179</p> <p>cleavage of BID by CASP8 and CASP3</p> <p>PMID:11832478</p> <p>in vitro by CASP2</p> <p>PMID:18955971</p> <p>LMP causes the proteolytic activation of Bid (which is cleaved by the two lysosomal cathepsins B and D), which then induces MOMP</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_25fce367-ccd0-44c3-82a9-100b67f3de98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9727492"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10805722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11085743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11085742"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10364179"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11832478"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18955971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20906.56" y="11407.637"/> <port id="pr_25fce367-ccd0-44c3-82a9-100b67f3de98_p1" x="20926.56" y="11412.637"/> <port id="pr_25fce367-ccd0-44c3-82a9-100b67f3de98_p2" x="20896.56" y="11412.637"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_75c9daef-2f44-4cef-81e3-f97908a8c7b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17444818</p> <p>ANNOTATION:PTEN is destabilized by phosphorylation on T366 followed by phosphorylation on S370 by GSK3beta.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_75c9daef-2f44-4cef-81e3-f97908a8c7b8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17444818"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12992.311" y="18224.0"/> <port id="pr_75c9daef-2f44-4cef-81e3-f97908a8c7b8_p1" x="12982.311" y="18229.0"/> <port 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in the sequential phosphorylation of LRP6 by CK1 and GSK-3. </p> <p>Phoshorylated LRP6 serves as a docking site for additional Axin-GSK-3 complex, resulting in the disassembly of the destruction complex. </p> <p>Non phosphorylated and thus stabilized b-catenin translocates to the nucleus where it activates transcription of target genes together with LEF/TCFs</p> <p>PMID:19020303</p> <p>When Wnt binds its receptor, Frizzled, beta-catenin is released to translocate from the cytoplasm to the nucleus, where it forms a complex with TCF and/or LEF transcription factors and stimulates cyclin D1 gene transcription</p> <p>(Beta-catenin/TCF)- mediated cyclin D1 gene transcription is further regulated by active Rac signaling, phosphorylation by protein kinase A (PKA)</p> <p>PMID:15377999</p> <p>Rac1-GTP augments nuclear accumulation of b-catenin and physical association of Rac1 with b-catenin and/or TCF-4 may facilitate this process. </p> <p>This culminates in the amplification of b-catenin signaling activity, resulting in enhanced transcriptional activation of perhaps a specific subset of Wnt target genes important in cancer progression.</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells.</p> <p>NLK phosphorylates TCF/LEF factors and inhibits the interaction of the beta-catenin–TCF complex with DNA.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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<extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4f2b1ef0-d394-415b-baf3-ce72030b17dd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21725609"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2010.0" y="9066.0"/> <port id="pr_4f2b1ef0-d394-415b-baf3-ce72030b17dd_p1" x="2000.0" y="9071.0"/> <port id="pr_4f2b1ef0-d394-415b-baf3-ce72030b17dd_p2" x="2030.0" y="9071.0"/> </glyph> <glyph class="uncertain process" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11955434</p> <p>:Activation of P-Rex can be synergistically by PIP3 and Gi-proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_04e98333-d7eb-414f-9d38-f29310fb571f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955434"/> </rdf:Bag> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d929be84-a905-48bb-8672-ec9947d29af2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15618519"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26356.123" y="17907.75"/> <port id="pr_d929be84-a905-48bb-8672-ec9947d29af2_p1" x="26346.123" y="17912.75"/> <port id="pr_d929be84-a905-48bb-8672-ec9947d29af2_p2" x="26376.123" y="17912.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_271fceb7-54ec-4b37-9c92-0d042519be3d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16713974</p> <p>GSK3B inhitits activation (DNA binding) of AP-1 factors.</p> <p>JNK is a classical activator of AP1 transcription factors.</p> <p>Inhibition of JNK downregulates IL10 expression. Probably via</p> <p>AP1.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_271fceb7-54ec-4b37-9c92-0d042519be3d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26781.0" y="6755.0"/> <port id="pr_271fceb7-54ec-4b37-9c92-0d042519be3d_p1" x="26786.0" y="6745.0"/> <port id="pr_271fceb7-54ec-4b37-9c92-0d042519be3d_p2" x="26786.0" y="6775.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f3f4f7ca-f9bb-44a2-8f89-c52626f17c11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6123.817" y="14747.0"/> <port id="pr_f3f4f7ca-f9bb-44a2-8f89-c52626f17c11_p1" x="6128.817" y="14767.0"/> <port id="pr_f3f4f7ca-f9bb-44a2-8f89-c52626f17c11_p2" x="6128.817" y="14737.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c49c7f5b-12ac-451f-be23-cb7bdbe9539a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19574223</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c49c7f5b-12ac-451f-be23-cb7bdbe9539a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19574223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12691.281" y="21781.75"/> <port id="pr_c49c7f5b-12ac-451f-be23-cb7bdbe9539a_p1" x="12696.281" y="21771.75"/> <port id="pr_c49c7f5b-12ac-451f-be23-cb7bdbe9539a_p2" x="12696.281" y="21801.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6759e3c8-3f74-4465-a54b-70482e2c1bd4"> <bbox w="10.0" 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x="21513.81" y="21907.0"/> <port id="pr_e272ce66-2cb3-4ed5-a401-99e0ffc229b8_p1" x="21518.81" y="21897.0"/> <port id="pr_e272ce66-2cb3-4ed5-a401-99e0ffc229b8_p2" x="21518.81" y="21927.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b01ce2e2-96ae-4c96-a6db-b7c9996bd7a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22685.686" y="16599.0"/> <port id="pr_b01ce2e2-96ae-4c96-a6db-b7c9996bd7a9_p1" x="22690.686" y="16619.0"/> <port id="pr_b01ce2e2-96ae-4c96-a6db-b7c9996bd7a9_p2" x="22690.686" y="16589.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_52e427c8-599e-493c-8529-a2a2f7f79d37"> <bbox w="10.0" h="10.0" x="1265.0" y="3486.75"/> <port id="pr_52e427c8-599e-493c-8529-a2a2f7f79d37_p1" x="1270.0" y="3476.75"/> <port 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class="process" orientation="vertical" id="pr_ddecb09d-e696-4af0-ab98-d406ec1c7959"> <bbox w="10.0" h="10.0" x="24865.0" y="2984.0"/> <port id="pr_ddecb09d-e696-4af0-ab98-d406ec1c7959_p1" x="24870.0" y="3004.0"/> <port id="pr_ddecb09d-e696-4af0-ab98-d406ec1c7959_p2" x="24870.0" y="2974.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6dc201d6-49cd-4945-8a09-ae6ea6043d9b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>MTA1 HDAC2 were shown together with NuRD to bind to six3-promoter region.</p> <p>PMID:20682799</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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x="6067.0" y="6605.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c17f228-09bb-45f9-90d1-a5eeb2765cba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7c17f228-09bb-45f9-90d1-a5eeb2765cba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3767.0" y="10079.5"/> <port id="pr_7c17f228-09bb-45f9-90d1-a5eeb2765cba_p1" x="3757.0" y="10084.5"/> <port id="pr_7c17f228-09bb-45f9-90d1-a5eeb2765cba_p2" x="3787.0" y="10084.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_38a5186a-7bd8-4e45-9b84-e2fae087f52c"> <bbox w="10.0" h="10.0" x="12101.311" y="19758.75"/> <port id="pr_38a5186a-7bd8-4e45-9b84-e2fae087f52c_p1" x="12106.311" y="19748.75"/> <port id="pr_38a5186a-7bd8-4e45-9b84-e2fae087f52c_p2" x="12106.311" y="19778.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_39a8438d-00b9-4dd4-a0bb-5d2f132bb7e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21971.06" y="9969.0"/> <port id="pr_39a8438d-00b9-4dd4-a0bb-5d2f132bb7e7_p1" x="21961.06" y="9974.0"/> <port id="pr_39a8438d-00b9-4dd4-a0bb-5d2f132bb7e7_p2" x="21991.06" y="9974.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d107b8f5-e662-4e39-9d5c-4c8d57cfa00d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18555778</p> <p>In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d107b8f5-e662-4e39-9d5c-4c8d57cfa00d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555778"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4143.5" y="17432.91"/> <port id="pr_d107b8f5-e662-4e39-9d5c-4c8d57cfa00d_p1" x="4133.5" y="17437.91"/> <port id="pr_d107b8f5-e662-4e39-9d5c-4c8d57cfa00d_p2" x="4163.5" y="17437.91"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e11aaaf4-efcb-43bb-934d-c77773ffffe0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22757.186" y="16599.0"/> <port id="pr_e11aaaf4-efcb-43bb-934d-c77773ffffe0_p1" x="22777.186" y="16604.0"/> <port id="pr_e11aaaf4-efcb-43bb-934d-c77773ffffe0_p2" x="22747.186" y="16604.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8b4c196-ba14-4465-a1d1-b0ffa7bd04fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f8b4c196-ba14-4465-a1d1-b0ffa7bd04fe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27436.56" y="21692.379"/> <port id="pr_f8b4c196-ba14-4465-a1d1-b0ffa7bd04fe_p1" x="27426.56" y="21697.379"/> <port id="pr_f8b4c196-ba14-4465-a1d1-b0ffa7bd04fe_p2" x="27456.56" y="21697.379"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d9e525a5-5676-4261-9b1a-9138807b4727"> <bbox w="10.0" h="10.0" x="21895.832" y="5361.25"/> <port id="pr_d9e525a5-5676-4261-9b1a-9138807b4727_p1" x="21900.832" y="5351.25"/> <port id="pr_d9e525a5-5676-4261-9b1a-9138807b4727_p2" x="21900.832" y="5381.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_352d9033-82c8-45f9-8ea2-e198f0f8943e"> <bbox w="10.0" h="10.0" x="12850.0" y="7485.0"/> <port id="pr_352d9033-82c8-45f9-8ea2-e198f0f8943e_p1" x="12855.0" y="7475.0"/> <port id="pr_352d9033-82c8-45f9-8ea2-e198f0f8943e_p2" x="12855.0" y="7505.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0f481fc5-4c59-4be9-a710-6aced93d3c2f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5913.75" y="14280.201"/> <port id="pr_0f481fc5-4c59-4be9-a710-6aced93d3c2f_p1" x="5933.75" y="14285.201"/> <port id="pr_0f481fc5-4c59-4be9-a710-6aced93d3c2f_p2" x="5903.75" y="14285.201"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1e2f688f-9265-4457-b9e8-cc8483b251aa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22203675</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1e2f688f-9265-4457-b9e8-cc8483b251aa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22203675"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24149.06" y="18952.574"/> <port id="pr_1e2f688f-9265-4457-b9e8-cc8483b251aa_p1" x="24139.06" y="18957.574"/> <port id="pr_1e2f688f-9265-4457-b9e8-cc8483b251aa_p2" x="24169.06" y="18957.574"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a374b23-3ff9-4746-8734-77f723100007"> <bbox w="10.0" h="10.0" x="18040.0" y="2870.0"/> <port id="pr_4a374b23-3ff9-4746-8734-77f723100007_p1" x="18045.0" y="2860.0"/> <port id="pr_4a374b23-3ff9-4746-8734-77f723100007_p2" x="18045.0" y="2890.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fe7c8b58-c28d-4eef-a817-2242719476a0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fe7c8b58-c28d-4eef-a817-2242719476a0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6869.0" y="11264.0"/> <port id="pr_fe7c8b58-c28d-4eef-a817-2242719476a0_p1" x="6859.0" y="11269.0"/> <port id="pr_fe7c8b58-c28d-4eef-a817-2242719476a0_p2" x="6889.0" y="11269.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57af082c-3bed-4c36-a10e-822c9e03443c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18584027:G, PMID:17965729, PMID:20064462, PMID:18809224</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_57af082c-3bed-4c36-a10e-822c9e03443c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18584027:G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17965729"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20064462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18809224"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13636.926" y="15965.509"/> <port id="pr_57af082c-3bed-4c36-a10e-822c9e03443c_p1" x="13641.926" y="15955.509"/> <port id="pr_57af082c-3bed-4c36-a10e-822c9e03443c_p2" x="13641.926" y="15985.509"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8f050a8b-c383-4f50-8c25-4ff519bacb69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20713600</p> <p>LC3 is phosphorylated by PKA and thus inhibited</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f050a8b-c383-4f50-8c25-4ff519bacb69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713600"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28092.436" y="11965.541"/> <port id="pr_8f050a8b-c383-4f50-8c25-4ff519bacb69_p1" x="28097.436" y="11955.541"/> <port id="pr_8f050a8b-c383-4f50-8c25-4ff519bacb69_p2" x="28097.436" y="11985.541"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3bbbf7f5-8760-41f5-b869-431c75b96872"> <bbox w="10.0" h="10.0" x="7632.5" y="2769.0884"/> <port id="pr_3bbbf7f5-8760-41f5-b869-431c75b96872_p1" x="7622.5" y="2774.0884"/> <port id="pr_3bbbf7f5-8760-41f5-b869-431c75b96872_p2" x="7652.5" y="2774.0884"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_24bb9654-8c2a-4b02-9c1a-57e1ed50543b"> <bbox w="10.0" h="10.0" x="18483.803" y="12042.025"/> <port id="pr_24bb9654-8c2a-4b02-9c1a-57e1ed50543b_p1" x="18473.803" y="12047.025"/> <port id="pr_24bb9654-8c2a-4b02-9c1a-57e1ed50543b_p2" x="18503.803" y="12047.025"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af468660-c856-4b97-bdf2-02873bb85e14"> <bbox w="10.0" h="10.0" x="27452.332" y="2937.0"/> <port id="pr_af468660-c856-4b97-bdf2-02873bb85e14_p1" x="27457.332" y="2927.0"/> <port id="pr_af468660-c856-4b97-bdf2-02873bb85e14_p2" x="27457.332" y="2957.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_44d26b5e-38f7-44ba-8d99-c7c80fb096b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5348.375" y="16568.5"/> <port id="pr_44d26b5e-38f7-44ba-8d99-c7c80fb096b2_p1" x="5338.375" y="16573.5"/> <port id="pr_44d26b5e-38f7-44ba-8d99-c7c80fb096b2_p2" x="5368.375" y="16573.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0bdfd760-b27d-4d10-9d7d-5e98c0cd8bfb"> <bbox w="10.0" h="10.0" x="3778.75" y="10867.25"/> <port id="pr_0bdfd760-b27d-4d10-9d7d-5e98c0cd8bfb_p1" x="3783.75" y="10887.25"/> <port id="pr_0bdfd760-b27d-4d10-9d7d-5e98c0cd8bfb_p2" x="3783.75" y="10857.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1ba7ace2-b838-4521-9e92-a13f7480293a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18497258</p> <p>PMID:11449277</p> <p>PMID:20375059</p> <p>Rad23 negatively regulates SHH signaling but how exactly is unknown. Recently it was shown to be associated with Smo trafficing into cilium</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1ba7ace2-b838-4521-9e92-a13f7480293a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11449277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20375059"/> </rdf:Bag> 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id="pr_24abd9fd-02e5-4b91-ba10-f79c2668245f_p1" x="28169.06" y="9084.0"/> <port id="pr_24abd9fd-02e5-4b91-ba10-f79c2668245f_p2" x="28169.06" y="9114.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c8195780-1640-42e4-8c03-f1cd29cf17e4"> <bbox w="10.0" h="10.0" x="20221.06" y="15936.123"/> <port id="pr_c8195780-1640-42e4-8c03-f1cd29cf17e4_p1" x="20241.06" y="15941.123"/> <port id="pr_c8195780-1640-42e4-8c03-f1cd29cf17e4_p2" x="20211.06" y="15941.123"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4129a9b7-0207-463c-be96-31394a05fc38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29051319</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4129a9b7-0207-463c-be96-31394a05fc38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29051319"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4538.5" y="8871.242"/> <port id="pr_4129a9b7-0207-463c-be96-31394a05fc38_p1" x="4528.5" y="8876.242"/> <port id="pr_4129a9b7-0207-463c-be96-31394a05fc38_p2" x="4558.5" y="8876.242"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7876beda-d4ec-402f-8bb0-ea7913fce859"> <bbox w="10.0" h="10.0" x="27875.625" y="15935.75"/> <port id="pr_7876beda-d4ec-402f-8bb0-ea7913fce859_p1" x="27880.625" y="15955.75"/> <port id="pr_7876beda-d4ec-402f-8bb0-ea7913fce859_p2" x="27880.625" y="15925.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cf82e0ef-3e38-445c-8817-a6817c3148ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20501828</p> <p>by the 3p mature isoform of MIR199A</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cf82e0ef-3e38-445c-8817-a6817c3148ba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20501828"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26108.691" y="13373.913"/> <port id="pr_cf82e0ef-3e38-445c-8817-a6817c3148ba_p1" x="26113.691" y="13393.913"/> <port id="pr_cf82e0ef-3e38-445c-8817-a6817c3148ba_p2" x="26113.691" y="13363.913"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2fc54922-aee1-462e-a968-08affd411289"> <bbox w="10.0" h="10.0" x="26769.229" y="14459.625"/> <port id="pr_2fc54922-aee1-462e-a968-08affd411289_p1" x="26774.229" y="14449.625"/> <port id="pr_2fc54922-aee1-462e-a968-08affd411289_p2" x="26774.229" y="14479.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1ec000a2-a344-4cea-b5e4-5a941f9fb695"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22439866</p> <p>c-Myb regulates matrix metalloproteinases 1/9, and cathepsin D, there is implications for matrix-dependent breast cancer cell invasion and metastasis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1ec000a2-a344-4cea-b5e4-5a941f9fb695"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22439866"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5013.5" y="15893.935"/> <port id="pr_1ec000a2-a344-4cea-b5e4-5a941f9fb695_p1" x="5003.5" y="15898.935"/> <port id="pr_1ec000a2-a344-4cea-b5e4-5a941f9fb695_p2" x="5033.5" y="15898.935"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2201bbfe-4267-44c5-be0d-dd6c503826ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21506126 </p> <p>Phosphorylation of beta-catenin is through an indirect mechanism which is unknown</p> <p>PMID:21303971</p> <p>Path to phosphorylation of b-catenin is not completely depicted here. For full paths see AKT-MODULE</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2201bbfe-4267-44c5-be0d-dd6c503826ca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21506126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21303971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15730.061" y="17995.0"/> <port id="pr_2201bbfe-4267-44c5-be0d-dd6c503826ca_p1" x="15735.061" y="17985.0"/> <port id="pr_2201bbfe-4267-44c5-be0d-dd6c503826ca_p2" x="15735.061" y="18015.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b8aad9f0-f960-485e-bdb2-7078b4f02e7d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> <p>PMID:21053359</p> <p>PMID:17409395</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b8aad9f0-f960-485e-bdb2-7078b4f02e7d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21053359"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2884.75" y="10323.5"/> <port id="pr_b8aad9f0-f960-485e-bdb2-7078b4f02e7d_p1" x="2889.75" y="10343.5"/> <port id="pr_b8aad9f0-f960-485e-bdb2-7078b4f02e7d_p2" x="2889.75" y="10313.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ccae160-1d60-4f6d-8f22-a9e5eb41bd7f"> <bbox w="10.0" h="10.0" x="18563.686" y="22050.5"/> <port id="pr_0ccae160-1d60-4f6d-8f22-a9e5eb41bd7f_p1" x="18553.686" y="22055.5"/> <port id="pr_0ccae160-1d60-4f6d-8f22-a9e5eb41bd7f_p2" x="18583.686" y="22055.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6d5fb3a1-3df8-46f0-bae4-22e684b1487e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18403754</p> <p>PMID:16607286</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6d5fb3a1-3df8-46f0-bae4-22e684b1487e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18403754"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16607286"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2861.75" y="15021.039"/> <port id="pr_6d5fb3a1-3df8-46f0-bae4-22e684b1487e_p1" x="2881.75" y="15026.039"/> <port id="pr_6d5fb3a1-3df8-46f0-bae4-22e684b1487e_p2" x="2851.75" y="15026.039"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2068b05d-bf6f-4698-b7e1-24ee839fdf06"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20817.56" y="14000.0"/> <port id="pr_2068b05d-bf6f-4698-b7e1-24ee839fdf06_p1" x="20807.56" y="14005.0"/> <port id="pr_2068b05d-bf6f-4698-b7e1-24ee839fdf06_p2" x="20837.56" y="14005.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6a645c19-9cc4-42da-a521-af6ba0d40bda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27096756</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6a645c19-9cc4-42da-a521-af6ba0d40bda"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27096756"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4421.0" y="11809.5"/> <port id="pr_6a645c19-9cc4-42da-a521-af6ba0d40bda_p1" x="4426.0" y="11799.5"/> <port id="pr_6a645c19-9cc4-42da-a521-af6ba0d40bda_p2" x="4426.0" y="11829.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d54e527c-ba16-4e6e-9920-601e59ea9073"> <bbox w="10.0" h="10.0" x="19780.0" y="4860.0"/> <port id="pr_d54e527c-ba16-4e6e-9920-601e59ea9073_p1" x="19785.0" y="4850.0"/> <port id="pr_d54e527c-ba16-4e6e-9920-601e59ea9073_p2" x="19785.0" y="4880.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a74366eb-9eae-4197-9429-db99279207fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9859996</p> <p>PMID:10066435</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a74366eb-9eae-4197-9429-db99279207fb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9859996"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10066435"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23428.56" y="10246.0"/> <port id="pr_a74366eb-9eae-4197-9429-db99279207fb_p1" x="23418.56" y="10251.0"/> <port id="pr_a74366eb-9eae-4197-9429-db99279207fb_p2" x="23448.56" y="10251.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_50c32b2a-4839-4a29-ab57-eaafe1c3bd0d"> <bbox w="10.0" h="10.0" x="12097.309" y="9640.323"/> <port id="pr_50c32b2a-4839-4a29-ab57-eaafe1c3bd0d_p1" x="12087.309" y="9645.323"/> <port id="pr_50c32b2a-4839-4a29-ab57-eaafe1c3bd0d_p2" x="12117.309" y="9645.323"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ec6115fd-2ed4-4fe8-8ac9-14a2e6382345"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6129.0" y="15096.4375"/> <port id="pr_ec6115fd-2ed4-4fe8-8ac9-14a2e6382345_p1" x="6149.0" y="15101.4375"/> <port id="pr_ec6115fd-2ed4-4fe8-8ac9-14a2e6382345_p2" x="6119.0" y="15101.4375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_93a5c58a-c344-4934-940f-7706cab42854"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9604935</p> <p>Phosphorylation of ERK-1/2 promotes its homodimerization</p> <p>PMID:18775330</p> <p>Scaffolds and ERK dimers are essential for the activation of cytoplasmic but not nuclear substrates. </p> <p>Dimerization is critical for connecting the scaffolded ERK complex to cognate cytoplasmic substrates. </p> <p>Contrarily, nuclear substrates associate to ERK monomers.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_93a5c58a-c344-4934-940f-7706cab42854"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9604935"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6448.0" y="13655.75"/> <port id="pr_93a5c58a-c344-4934-940f-7706cab42854_p1" x="6453.0" y="13645.75"/> <port id="pr_93a5c58a-c344-4934-940f-7706cab42854_p2" x="6453.0" y="13675.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b5ce3c5e-df2d-4d72-8bfd-f76d886c50fd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1945.5" y="14984.971"/> <port id="pr_b5ce3c5e-df2d-4d72-8bfd-f76d886c50fd_p1" x="1965.5" y="14989.971"/> <port id="pr_b5ce3c5e-df2d-4d72-8bfd-f76d886c50fd_p2" x="1935.5" y="14989.971"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_24b6a2e8-70e9-49ad-b171-cc543b639804"> <bbox w="10.0" h="10.0" x="18565.625" y="6675.0"/> <port id="pr_24b6a2e8-70e9-49ad-b171-cc543b639804_p1" x="18585.625" y="6680.0"/> <port id="pr_24b6a2e8-70e9-49ad-b171-cc543b639804_p2" x="18555.625" y="6680.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_015ac890-fe3b-4d92-bca8-cd45c439700f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4101.7793" y="17690.0"/> <port id="pr_015ac890-fe3b-4d92-bca8-cd45c439700f_p1" x="4106.7793" y="17680.0"/> <port id="pr_015ac890-fe3b-4d92-bca8-cd45c439700f_p2" x="4106.7793" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_baf38929-4f2b-4105-b661-e83ca36e431b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23317.914" y="14541.748"/> <port id="pr_baf38929-4f2b-4105-b661-e83ca36e431b_p1" x="23337.914" y="14546.748"/> <port id="pr_baf38929-4f2b-4105-b661-e83ca36e431b_p2" x="23307.914" y="14546.748"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5de5e2ed-0376-4751-969e-ca9f77c40a65"> <bbox w="10.0" h="10.0" x="13740.0" y="3907.5"/> <port id="pr_5de5e2ed-0376-4751-969e-ca9f77c40a65_p1" x="13745.0" y="3927.5"/> <port id="pr_5de5e2ed-0376-4751-969e-ca9f77c40a65_p2" x="13745.0" y="3897.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d2c1fc94-108b-40c3-b89e-096a0ac581ff"> <bbox w="10.0" h="10.0" x="28381.06" y="10494.75"/> <port id="pr_d2c1fc94-108b-40c3-b89e-096a0ac581ff_p1" x="28371.06" y="10499.75"/> <port id="pr_d2c1fc94-108b-40c3-b89e-096a0ac581ff_p2" x="28401.06" y="10499.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_80474d02-2eb4-4bcb-a7b2-9693e150c035"> <bbox w="10.0" h="10.0" x="10660.65" y="6852.5"/> <port id="pr_80474d02-2eb4-4bcb-a7b2-9693e150c035_p1" x="10665.65" y="6842.5"/> <port id="pr_80474d02-2eb4-4bcb-a7b2-9693e150c035_p2" x="10665.65" y="6872.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1f8879ad-e1d3-46cb-8597-2936551c1624"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3066.5" y="14627.0"/> <port id="pr_1f8879ad-e1d3-46cb-8597-2936551c1624_p1" x="3086.5" y="14632.0"/> <port id="pr_1f8879ad-e1d3-46cb-8597-2936551c1624_p2" x="3056.5" y="14632.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3040cd06-51b3-465a-a3d9-701cc4c7af17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2735.8218" y="14509.5"/> <port id="pr_3040cd06-51b3-465a-a3d9-701cc4c7af17_p1" x="2740.8218" y="14499.5"/> <port id="pr_3040cd06-51b3-465a-a3d9-701cc4c7af17_p2" x="2740.8218" y="14529.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ad11853f-47fb-49f9-9382-0c366c2b6702"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> <p>PMID:17486112</p> <p>by NBN</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ad11853f-47fb-49f9-9382-0c366c2b6702"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17486112"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18616.56" y="16831.5"/> <port id="pr_ad11853f-47fb-49f9-9382-0c366c2b6702_p1" x="18621.56" y="16851.5"/> <port id="pr_ad11853f-47fb-49f9-9382-0c366c2b6702_p2" x="18621.56" y="16821.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f43b5241-76e1-44ad-96e1-0ee6bc8afef1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5719.821" y="17878.0"/> <port id="pr_f43b5241-76e1-44ad-96e1-0ee6bc8afef1_p1" x="5724.821" y="17868.0"/> <port id="pr_f43b5241-76e1-44ad-96e1-0ee6bc8afef1_p2" x="5724.821" y="17898.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_459cd05d-c5bd-4fa3-be1d-ed58a5443942"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_459cd05d-c5bd-4fa3-be1d-ed58a5443942"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6075.5" y="10197.75"/> <port id="pr_459cd05d-c5bd-4fa3-be1d-ed58a5443942_p1" x="6080.5" y="10217.75"/> <port id="pr_459cd05d-c5bd-4fa3-be1d-ed58a5443942_p2" x="6080.5" y="10187.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_92d5e115-5637-4f84-8e2f-dec4b4a25fa0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Synergistic effect on HES1 transcription</p> <p>PMID:19000719</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_92d5e115-5637-4f84-8e2f-dec4b4a25fa0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19000719"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22046.06" y="21229.5"/> <port id="pr_92d5e115-5637-4f84-8e2f-dec4b4a25fa0_p1" x="22036.06" y="21234.5"/> <port id="pr_92d5e115-5637-4f84-8e2f-dec4b4a25fa0_p2" x="22066.06" y="21234.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b89c897c-791b-41fc-8fd4-3e568fad7721"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Fenton reaction</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26787.81" y="9184.125"/> <port id="pr_b89c897c-791b-41fc-8fd4-3e568fad7721_p1" x="26807.81" y="9189.125"/> <port id="pr_b89c897c-791b-41fc-8fd4-3e568fad7721_p2" x="26777.81" y="9189.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2859616c-ee01-49d9-b7ff-7afb316f2382"> <bbox w="10.0" h="10.0" x="9611.941" y="4800.75"/> <port id="pr_2859616c-ee01-49d9-b7ff-7afb316f2382_p1" x="9616.941" y="4820.75"/> <port id="pr_2859616c-ee01-49d9-b7ff-7afb316f2382_p2" x="9616.941" y="4790.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_926a9e92-5d03-4d3c-a56d-cfa7a98f08be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4090.5" y="18273.625"/> <port id="pr_926a9e92-5d03-4d3c-a56d-cfa7a98f08be_p1" x="4095.5" y="18263.625"/> <port id="pr_926a9e92-5d03-4d3c-a56d-cfa7a98f08be_p2" x="4095.5" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9de28017-7a4c-4294-8b4b-09856e18ce48"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3892.5" y="14410.5"/> <port id="pr_9de28017-7a4c-4294-8b4b-09856e18ce48_p1" x="3897.5" y="14430.5"/> <port id="pr_9de28017-7a4c-4294-8b4b-09856e18ce48_p2" x="3897.5" y="14400.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f94d6246-5d71-493a-8c58-69a36f52edc7"> <bbox w="10.0" h="10.0" x="12400.0" y="6620.0"/> <port id="pr_f94d6246-5d71-493a-8c58-69a36f52edc7_p1" x="12405.0" y="6610.0"/> <port id="pr_f94d6246-5d71-493a-8c58-69a36f52edc7_p2" x="12405.0" y="6640.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_75f67377-6a71-4c89-b5fd-5873f6093d94"> <bbox w="10.0" h="10.0" x="13838.777" y="2103.75"/> <port id="pr_75f67377-6a71-4c89-b5fd-5873f6093d94_p1" x="13843.777" y="2093.75"/> <port id="pr_75f67377-6a71-4c89-b5fd-5873f6093d94_p2" x="13843.777" y="2123.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1997b1ed-45fa-4807-8eff-915ae8890755"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17418790</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1997b1ed-45fa-4807-8eff-915ae8890755"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17418790"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22876.066" y="16192.75"/> <port id="pr_1997b1ed-45fa-4807-8eff-915ae8890755_p1" x="22881.066" y="16212.75"/> <port id="pr_1997b1ed-45fa-4807-8eff-915ae8890755_p2" x="22881.066" y="16182.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d8c8380-f3a0-4be0-9896-a433465f562f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19556239</p> </body> </html> </notes> <extension> 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orientation="vertical" id="pr_c84a96e2-f4a8-4a55-9754-25dbaba9b171"> <bbox w="10.0" h="10.0" x="17840.5" y="4729.5"/> <port id="pr_c84a96e2-f4a8-4a55-9754-25dbaba9b171_p1" x="17845.5" y="4749.5"/> <port id="pr_c84a96e2-f4a8-4a55-9754-25dbaba9b171_p2" x="17845.5" y="4719.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_badde62b-5415-4009-8eda-ba467a8e453d"> <bbox w="10.0" h="10.0" x="18530.0" y="5200.0"/> <port id="pr_badde62b-5415-4009-8eda-ba467a8e453d_p1" x="18520.0" y="5205.0"/> <port id="pr_badde62b-5415-4009-8eda-ba467a8e453d_p2" x="18550.0" y="5205.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c050b668-59a8-48c3-87e2-8c81aa379646"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c050b668-59a8-48c3-87e2-8c81aa379646"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2867.125" y="10100.125"/> <port id="pr_c050b668-59a8-48c3-87e2-8c81aa379646_p1" x="2887.125" y="10105.125"/> <port id="pr_c050b668-59a8-48c3-87e2-8c81aa379646_p2" x="2857.125" y="10105.125"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4e71d721-27ec-47dd-9ec5-90e3e601c818"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20564213 </p> <p>ANNOTATION: Not clear how suprresion is regulated by Hedgehog</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4e71d721-27ec-47dd-9ec5-90e3e601c818"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20564213"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26558.06" y="22076.0"/> <port id="pr_4e71d721-27ec-47dd-9ec5-90e3e601c818_p1" x="26548.06" y="22081.0"/> <port id="pr_4e71d721-27ec-47dd-9ec5-90e3e601c818_p2" x="26578.06" y="22081.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_480fcafe-d50f-49a6-a0cc-70f8585f3020"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12624093</p> <p>in mouse embryonic cells, with targeted disruption of either MAP2K4 or MAP2K7, the phosphorylation pattern of JNK reveals sequential phosphorylation by these MAP2KsPMID:19037093</p> <p>under glucose deprivation condition, ROS are generated leading to an inactivation of JNK activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_480fcafe-d50f-49a6-a0cc-70f8585f3020"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12624093"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="MAP2Ksurn:miriam:pubmed:19037093"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21914.06" y="11111.0"/> <port id="pr_480fcafe-d50f-49a6-a0cc-70f8585f3020_p1" x="21919.06" y="11101.0"/> <port id="pr_480fcafe-d50f-49a6-a0cc-70f8585f3020_p2" x="21919.06" y="11131.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_24167fc2-b36d-40f1-896e-ba235e0e6013"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_24167fc2-b36d-40f1-896e-ba235e0e6013"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4204.75" y="11209.25"/> <port id="pr_24167fc2-b36d-40f1-896e-ba235e0e6013_p1" x="4209.75" y="11199.25"/> <port id="pr_24167fc2-b36d-40f1-896e-ba235e0e6013_p2" x="4209.75" y="11229.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db03a638-ceff-4422-8c79-24cde60c54d2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db03a638-ceff-4422-8c79-24cde60c54d2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2262.976" y="8922.428"/> <port id="pr_db03a638-ceff-4422-8c79-24cde60c54d2_p1" x="2267.976" y="8912.428"/> <port id="pr_db03a638-ceff-4422-8c79-24cde60c54d2_p2" x="2267.976" y="8942.428"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_334f5cd2-8400-46dd-aba2-1cb0fd0a397b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2749.75" y="16531.25"/> <port id="pr_334f5cd2-8400-46dd-aba2-1cb0fd0a397b_p1" x="2739.75" y="16536.25"/> <port id="pr_334f5cd2-8400-46dd-aba2-1cb0fd0a397b_p2" x="2769.75" y="16536.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3161e38e-9631-4abf-bfa6-b967b9078b1c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15136036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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x="26557.56" y="21728.0"/> <port id="pr_b70f90ac-540e-45b4-8400-b56141b62ac3_p1" x="26547.56" y="21733.0"/> <port id="pr_b70f90ac-540e-45b4-8400-b56141b62ac3_p2" x="26577.56" y="21733.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_e16d97bb-377e-4147-95fd-f9248403abb4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4460.0" y="14676.5"/> <port id="pr_e16d97bb-377e-4147-95fd-f9248403abb4_p1" x="4450.0" y="14681.5"/> <port id="pr_e16d97bb-377e-4147-95fd-f9248403abb4_p2" x="4480.0" y="14681.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a7be9c0-b517-4795-a9a1-2af0cb77c954"> <bbox w="10.0" h="10.0" x="4895.0" y="3265.5"/> <port id="pr_4a7be9c0-b517-4795-a9a1-2af0cb77c954_p1" x="4900.0" y="3255.5"/> <port 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</glyph> <glyph class="process" orientation="vertical" id="pr_894f5705-f0b0-4d67-994f-3056f65dd6ca"> <bbox w="10.0" h="10.0" x="20490.027" y="15256.25"/> <port id="pr_894f5705-f0b0-4d67-994f-3056f65dd6ca_p1" x="20495.027" y="15276.25"/> <port id="pr_894f5705-f0b0-4d67-994f-3056f65dd6ca_p2" x="20495.027" y="15246.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2a700a61-ec00-4bc1-a563-1a2eabaa5501"> <bbox w="10.0" h="10.0" x="25554.06" y="16514.0"/> <port id="pr_2a700a61-ec00-4bc1-a563-1a2eabaa5501_p1" x="25559.06" y="16534.0"/> <port id="pr_2a700a61-ec00-4bc1-a563-1a2eabaa5501_p2" x="25559.06" y="16504.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_acc22934-2f82-4352-918b-1a80c88ea457"> <bbox w="10.0" h="10.0" x="18729.06" y="15079.0"/> <port id="pr_acc22934-2f82-4352-918b-1a80c88ea457_p1" x="18734.06" y="15099.0"/> <port id="pr_acc22934-2f82-4352-918b-1a80c88ea457_p2" x="18734.06" y="15069.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3e75fab-c1b3-4513-a8a9-02124d624841"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20832730</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3e75fab-c1b3-4513-a8a9-02124d624841"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20832730"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12319.311" y="18132.5"/> <port id="pr_d3e75fab-c1b3-4513-a8a9-02124d624841_p1" x="12309.311" y="18137.5"/> <port id="pr_d3e75fab-c1b3-4513-a8a9-02124d624841_p2" x="12339.311" y="18137.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b6012201-ef55-4fdb-91a3-79abc317983e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24319.31" y="18950.469"/> <port id="pr_b6012201-ef55-4fdb-91a3-79abc317983e_p1" x="24339.31" y="18955.469"/> <port id="pr_b6012201-ef55-4fdb-91a3-79abc317983e_p2" x="24309.31" y="18955.469"/> </glyph> <glyph class="process" orientation="vertical" id="pr_91b7e528-205a-4f68-8f01-3e9835887374"> <bbox w="10.0" h="10.0" x="22288.06" y="11691.0"/> <port id="pr_91b7e528-205a-4f68-8f01-3e9835887374_p1" x="22293.06" y="11681.0"/> <port id="pr_91b7e528-205a-4f68-8f01-3e9835887374_p2" x="22293.06" y="11711.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3c1e6f2a-05d0-4371-aed4-5f50836bb523"> <bbox w="10.0" h="10.0" x="19175.781" y="2021.25"/> <port id="pr_3c1e6f2a-05d0-4371-aed4-5f50836bb523_p1" x="19180.781" y="2041.25"/> <port id="pr_3c1e6f2a-05d0-4371-aed4-5f50836bb523_p2" x="19180.781" y="2011.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6a333e49-d8b7-496f-aea1-5b3f6688ca2c"> <bbox w="10.0" h="10.0" x="18063.06" y="18853.0"/> <port id="pr_6a333e49-d8b7-496f-aea1-5b3f6688ca2c_p1" x="18083.06" y="18858.0"/> <port id="pr_6a333e49-d8b7-496f-aea1-5b3f6688ca2c_p2" x="18053.06" y="18858.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_741c5437-6e56-4298-bf77-e3417902b0ae"> <bbox w="10.0" h="10.0" x="22586.24" y="6896.4307"/> <port id="pr_741c5437-6e56-4298-bf77-e3417902b0ae_p1" x="22591.24" y="6916.4307"/> <port id="pr_741c5437-6e56-4298-bf77-e3417902b0ae_p2" x="22591.24" y="6886.4307"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_227bc9d3-67dd-471f-8590-6e9349a8ec11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5066.3984" y="19009.5"/> <port id="pr_227bc9d3-67dd-471f-8590-6e9349a8ec11_p1" x="5056.3984" y="19014.5"/> <port id="pr_227bc9d3-67dd-471f-8590-6e9349a8ec11_p2" x="5086.3984" y="19014.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a4d7e34-d1bb-4d72-ad32-20ca7f628a5a"> <bbox w="10.0" h="10.0" x="28431.625" y="2786.1875"/> <port id="pr_8a4d7e34-d1bb-4d72-ad32-20ca7f628a5a_p1" x="28436.625" y="2776.1875"/> <port id="pr_8a4d7e34-d1bb-4d72-ad32-20ca7f628a5a_p2" x="28436.625" y="2806.1875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4aa14218-a23f-4e46-99ff-3338afea63bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1880.6866" y="16154.876"/> <port id="pr_4aa14218-a23f-4e46-99ff-3338afea63bc_p1" x="1870.6866" y="16159.876"/> <port id="pr_4aa14218-a23f-4e46-99ff-3338afea63bc_p2" x="1900.6866" y="16159.876"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_89fe2dcb-e12b-4f06-baad-e0602719b474"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17662942</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_89fe2dcb-e12b-4f06-baad-e0602719b474"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662942"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21170.31" y="14701.322"/> <port id="pr_89fe2dcb-e12b-4f06-baad-e0602719b474_p1" x="21160.31" y="14706.322"/> <port id="pr_89fe2dcb-e12b-4f06-baad-e0602719b474_p2" x="21190.31" y="14706.322"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_d32d07f4-2a96-477e-8999-5c00e98bfb19"> <bbox w="20.0" h="20.0" x="21173.219" y="14524.41"/> <port id="logicglyph_d32d07f4-2a96-477e-8999-5c00e98bfb19_p1" x="21183.219" y="14514.41"/> <port id="logicglyph_d32d07f4-2a96-477e-8999-5c00e98bfb19_p2" x="21183.219" y="14554.41"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7e95b8ca-c23d-422b-9ca2-bdc9f3f6cc04"> <bbox w="10.0" h="10.0" x="18525.041" y="14939.5"/> <port id="pr_7e95b8ca-c23d-422b-9ca2-bdc9f3f6cc04_p1" x="18530.041" y="14959.5"/> <port id="pr_7e95b8ca-c23d-422b-9ca2-bdc9f3f6cc04_p2" x="18530.041" y="14929.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f6f3efba-d12d-473b-84c5-50a890e3dd89"> <bbox w="10.0" h="10.0" x="11279.127" y="7556.25"/> <port id="pr_f6f3efba-d12d-473b-84c5-50a890e3dd89_p1" x="11284.127" y="7546.25"/> <port id="pr_f6f3efba-d12d-473b-84c5-50a890e3dd89_p2" x="11284.127" y="7576.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cf4bc323-a009-4e26-a2e3-c61c72621614"> <bbox w="10.0" h="10.0" x="26887.621" y="2596.25"/> <port id="pr_cf4bc323-a009-4e26-a2e3-c61c72621614_p1" x="26892.621" y="2616.25"/> <port id="pr_cf4bc323-a009-4e26-a2e3-c61c72621614_p2" x="26892.621" y="2586.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_11ef099a-d632-4023-9bc8-41ef184ebe90"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9694792, PMID:18805092, PMID:19250909</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_11ef099a-d632-4023-9bc8-41ef184ebe90"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9694792"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18805092"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19250909"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7680.79" y="15408.924"/> <port id="pr_11ef099a-d632-4023-9bc8-41ef184ebe90_p1" x="7685.79" y="15428.924"/> <port id="pr_11ef099a-d632-4023-9bc8-41ef184ebe90_p2" x="7685.79" y="15398.924"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e22836e7-7ae9-421f-8925-cfa59495c2ac"> <bbox w="10.0" h="10.0" x="28971.0" y="8701.053"/> <port id="pr_e22836e7-7ae9-421f-8925-cfa59495c2ac_p1" x="28961.0" y="8706.053"/> <port id="pr_e22836e7-7ae9-421f-8925-cfa59495c2ac_p2" x="28991.0" y="8706.053"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50c99cde-e75e-499c-89b6-405977759a4b"> <bbox w="10.0" h="10.0" x="20052.81" y="10361.5"/> <port id="pr_50c99cde-e75e-499c-89b6-405977759a4b_p1" x="20057.81" y="10351.5"/> <port id="pr_50c99cde-e75e-499c-89b6-405977759a4b_p2" x="20057.81" y="10381.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_a068ce65-3118-443f-8518-e220d6966932"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5024.9043" y="18638.562"/> <port id="pr_a068ce65-3118-443f-8518-e220d6966932_p1" x="5029.9043" y="18658.562"/> <port id="pr_a068ce65-3118-443f-8518-e220d6966932_p2" x="5029.9043" y="18628.562"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b8438dc2-ffe2-4a5f-a9b6-f91f1840faea"> <bbox w="10.0" h="10.0" x="27688.59" y="12402.125"/> <port id="pr_b8438dc2-ffe2-4a5f-a9b6-f91f1840faea_p1" x="27693.59" y="12422.125"/> <port id="pr_b8438dc2-ffe2-4a5f-a9b6-f91f1840faea_p2" x="27693.59" y="12392.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6b2ad933-eb73-4500-82ca-ac5f5992f9e3"> <bbox w="10.0" h="10.0" x="28339.25" y="5109.2275"/> <port id="pr_6b2ad933-eb73-4500-82ca-ac5f5992f9e3_p1" x="28329.25" y="5114.2275"/> <port id="pr_6b2ad933-eb73-4500-82ca-ac5f5992f9e3_p2" x="28359.25" y="5114.2275"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_c90295a5-0c90-4a60-b840-9aa250c2a840"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4126.3477" y="18623.562"/> <port id="pr_c90295a5-0c90-4a60-b840-9aa250c2a840_p1" x="4131.3477" y="18643.562"/> <port id="pr_c90295a5-0c90-4a60-b840-9aa250c2a840_p2" x="4131.3477" y="18613.562"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_006e148b-e4db-48d0-89b3-03d07ed6b05f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21359530</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_006e148b-e4db-48d0-89b3-03d07ed6b05f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21359530"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27431.56" y="21566.525"/> <port id="pr_006e148b-e4db-48d0-89b3-03d07ed6b05f_p1" x="27421.56" y="21571.525"/> <port id="pr_006e148b-e4db-48d0-89b3-03d07ed6b05f_p2" x="27451.56" y="21571.525"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e936e9c2-0acb-4526-84ee-a81d8435b8af"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e936e9c2-0acb-4526-84ee-a81d8435b8af"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2512.75" y="10219.25"/> <port id="pr_e936e9c2-0acb-4526-84ee-a81d8435b8af_p1" x="2517.75" y="10239.25"/> <port id="pr_e936e9c2-0acb-4526-84ee-a81d8435b8af_p2" x="2517.75" y="10209.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_799b0ddf-069c-402c-b58b-c79b2a868fa8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5310.25" y="15501.048"/> <port id="pr_799b0ddf-069c-402c-b58b-c79b2a868fa8_p1" x="5300.25" y="15506.048"/> <port id="pr_799b0ddf-069c-402c-b58b-c79b2a868fa8_p2" x="5330.25" y="15506.048"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd5f280d-4754-4f6e-b472-4ccc04083901"> <bbox w="10.0" h="10.0" x="3764.81" y="22711.75"/> <port id="pr_fd5f280d-4754-4f6e-b472-4ccc04083901_p1" x="3784.81" y="22716.75"/> <port id="pr_fd5f280d-4754-4f6e-b472-4ccc04083901_p2" x="3754.81" y="22716.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6154397d-56fd-44c4-a62f-39721467531f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>from uniprot</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23489.56" y="9614.25"/> <port id="pr_6154397d-56fd-44c4-a62f-39721467531f_p1" x="23494.56" y="9604.25"/> <port id="pr_6154397d-56fd-44c4-a62f-39721467531f_p2" x="23494.56" y="9634.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8bca624-e124-4e72-81c5-86195796140e"> <bbox w="10.0" h="10.0" x="21169.25" y="5332.4443"/> <port id="pr_f8bca624-e124-4e72-81c5-86195796140e_p1" x="21189.25" y="5337.4443"/> <port id="pr_f8bca624-e124-4e72-81c5-86195796140e_p2" x="21159.25" y="5337.4443"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2452885b-34aa-451c-871b-058a8d147c7f"> <bbox w="10.0" h="10.0" x="9530.0" y="2495.0"/> <port id="pr_2452885b-34aa-451c-871b-058a8d147c7f_p1" x="9550.0" y="2500.0"/> <port id="pr_2452885b-34aa-451c-871b-058a8d147c7f_p2" x="9520.0" y="2500.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_46890f00-b349-46b6-bfd5-4ce034dc67d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:16510874</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_46890f00-b349-46b6-bfd5-4ce034dc67d0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21594.629" y="22469.0"/> <port id="pr_46890f00-b349-46b6-bfd5-4ce034dc67d0_p1" x="21599.629" y="22489.0"/> <port id="pr_46890f00-b349-46b6-bfd5-4ce034dc67d0_p2" x="21599.629" y="22459.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8badda67-8633-42aa-ac83-d82ee1a1d9a3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9812896</p> <p>in 267 and MDCK (dog) cell lines</p> <p>in vitro direct phosphorylation with human recombinant proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="16104.0"/> <port id="pr_90e2be49-30dd-46e6-be32-893ccf29eef9_p2" x="28591.326" y="16074.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57aea3be-3484-4b38-928a-d11d6328d41d"> <bbox w="10.0" h="10.0" x="20618.914" y="18799.0"/> <port id="pr_57aea3be-3484-4b38-928a-d11d6328d41d_p1" x="20623.914" y="18819.0"/> <port id="pr_57aea3be-3484-4b38-928a-d11d6328d41d_p2" x="20623.914" y="18789.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_357a4313-f29e-4934-bc88-3d8e4bb68b52"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20308559</p> <p>bioinformatic prediction</p> <p>in HCT116, expression of MIR107 precursor decreases ARNT protein abundance</p> <p>in HCT116, in Hela, in SW480, RNA antisens to MIR107 increases ARNT protein abundance</p> <p>+ luciferase reporter assay using the 3'UTR of ARNT</p> <p>in HCT116, knockdown of endogenous miR-107 increased desferrioxamine(hypoxia mimick)-induced VEGF levels, which is rescued by a expression of ARNT lacking its 3'UTR.</p> <p>in HCT116, pre-miR-107 decreases the ability of HCT116 cells to stimulate endothelial proliferation upon hypoxia (MMT assay)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_357a4313-f29e-4934-bc88-3d8e4bb68b52"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20308559"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8836113</p> <p>GEFs are essential for CDC42 activation. They promote the exchange of GDP to GTP to generate the activated form of CDC42 capable of recognizing downstram targets.</p> <p>PMID:15247287</p> <p>PMID:16968698</p> <p>PMID:17196961</p> <p>DOCK6,9,11 as a GEF of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f0693259-3867-429d-a255-ccfb501ce409"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8836113"/> </rdf:Bag> </bqbiol:isEncodedBy> 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x="3979.5" y="2658.7"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e31dbbd3-fc8e-4a8e-a301-ee78ee593ac7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e31dbbd3-fc8e-4a8e-a301-ee78ee593ac7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> 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id="pr_cc6ff398-3240-4a78-9b1b-96a7cfff878d_p2" x="5812.789" y="4967.1514"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b1263da6-fe21-4769-b23b-6e693fdb4848"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b1263da6-fe21-4769-b23b-6e693fdb4848"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12564.061" y="18569.5"/> <port id="pr_b1263da6-fe21-4769-b23b-6e693fdb4848_p1" x="12569.061" y="18589.5"/> <port id="pr_b1263da6-fe21-4769-b23b-6e693fdb4848_p2" x="12569.061" y="18559.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b304d129-5a6c-4bb3-b98b-f03397044238"> <bbox w="10.0" h="10.0" x="26084.852" y="13803.897"/> <port id="pr_b304d129-5a6c-4bb3-b98b-f03397044238_p1" x="26104.852" y="13808.897"/> <port id="pr_b304d129-5a6c-4bb3-b98b-f03397044238_p2" x="26074.852" y="13808.897"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ae137b12-b991-468e-b0cb-064d6d051eed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17554199</p> <p>by p53</p> <p>PMID:17656095</p> <p>PMID:17540599</p> <p>PMID:17554337</p> <p>PMID:19696787</p> <p>in TIG3 TERT/ΔB-RAF:ER, by ELK1 (siRNA ELK1 and MIR34A PCR; ChIP)</p> <p>in HEK293 by ELK1, gene reporter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ae137b12-b991-468e-b0cb-064d6d051eed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17554199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17656095"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17540599"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17554337"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19696787"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20878.484" y="15997.773"/> <port id="pr_ae137b12-b991-468e-b0cb-064d6d051eed_p1" x="20898.484" y="16002.773"/> <port id="pr_ae137b12-b991-468e-b0cb-064d6d051eed_p2" x="20868.484" y="16002.773"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7dad64e9-1881-4594-b5e3-64340f34258a"> <bbox w="10.0" h="10.0" x="23625.676" y="10650.0"/> <port id="pr_7dad64e9-1881-4594-b5e3-64340f34258a_p1" x="23630.676" y="10670.0"/> <port id="pr_7dad64e9-1881-4594-b5e3-64340f34258a_p2" x="23630.676" y="10640.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e1ffaf97-ba32-4365-83cd-2026e55180fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Fanconi recognition complex as FA core complex recruits NER, HR, TLS proteins that collectively repair the ICL. If Fanconi proteins participating in the recognition are dysactivated, there is no any other mechanism to recognize ILSs, therefore, even if NER, HR and TLS are correct, they will not perform the repair without core Fanconi proteins.</p> <p>PMID:19686080</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e1ffaf97-ba32-4365-83cd-2026e55180fb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14727.987" y="16431.857"/> <port id="pr_e1ffaf97-ba32-4365-83cd-2026e55180fb_p1" x="14747.987" y="16436.857"/> <port id="pr_e1ffaf97-ba32-4365-83cd-2026e55180fb_p2" x="14717.987" y="16436.857"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ec92e0d8-f41b-4c19-a8c3-b10f645a98c8"> <bbox w="10.0" h="10.0" x="30171.0" y="6835.0"/> <port id="pr_ec92e0d8-f41b-4c19-a8c3-b10f645a98c8_p1" x="30176.0" y="6825.0"/> <port id="pr_ec92e0d8-f41b-4c19-a8c3-b10f645a98c8_p2" x="30176.0" y="6855.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_90194c03-9a10-4d4d-b2a9-607e94939d54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5188.5" y="16568.5"/> <port id="pr_90194c03-9a10-4d4d-b2a9-607e94939d54_p1" x="5178.5" y="16573.5"/> <port id="pr_90194c03-9a10-4d4d-b2a9-607e94939d54_p2" x="5208.5" y="16573.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_14faf4b6-7644-42be-8c6b-50bae55ef29b"> <bbox w="10.0" h="10.0" x="21947.229" y="14262.943"/> <port id="pr_14faf4b6-7644-42be-8c6b-50bae55ef29b_p1" x="21967.229" y="14267.943"/> <port id="pr_14faf4b6-7644-42be-8c6b-50bae55ef29b_p2" x="21937.229" y="14267.943"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_80fe101d-6acf-4a45-99d9-944058f32708"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_80fe101d-6acf-4a45-99d9-944058f32708"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14122.311" y="18229.0"/> <port id="pr_80fe101d-6acf-4a45-99d9-944058f32708_p1" x="14112.311" y="18234.0"/> <port id="pr_80fe101d-6acf-4a45-99d9-944058f32708_p2" x="14142.311" y="18234.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a51cd095-3887-4d8e-8afa-013dc45f375e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6152.0" y="15528.137"/> <port id="pr_a51cd095-3887-4d8e-8afa-013dc45f375e_p1" x="6172.0" y="15533.137"/> <port id="pr_a51cd095-3887-4d8e-8afa-013dc45f375e_p2" x="6142.0" y="15533.137"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_90e72fd5-4b59-4dea-9b60-53ed03c46128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22945800</p> <p>PMID:22286765</p> <p>Six1 induces ZEB1 and EMT through transcriptional repression of miR200.</p> <p>PMID:22286770</p> <p>miR-106b, miR-93 and miR-25 are overexpressed in Six1 transgenic mammary glands as compared with control mammary</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_90e72fd5-4b59-4dea-9b60-53ed03c46128"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22945800"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22286765"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22286770"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3636.0" y="16925.842"/> <port id="pr_90e72fd5-4b59-4dea-9b60-53ed03c46128_p1" x="3626.0" y="16930.842"/> <port id="pr_90e72fd5-4b59-4dea-9b60-53ed03c46128_p2" x="3656.0" y="16930.842"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5bfc0c6e-125b-4720-9712-d74129a42eaa"> <bbox w="10.0" h="10.0" x="23518.686" y="13501.5"/> <port id="pr_5bfc0c6e-125b-4720-9712-d74129a42eaa_p1" x="23523.686" y="13491.5"/> <port id="pr_5bfc0c6e-125b-4720-9712-d74129a42eaa_p2" x="23523.686" y="13521.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d257864-32b8-4add-9816-6b38d5d95fa2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11704864</p> <p>Transcriptional regulation of bcl-2 by nuclear factor kappa B</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d257864-32b8-4add-9816-6b38d5d95fa2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11704864"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4936.0" y="14449.0"/> <port id="pr_0d257864-32b8-4add-9816-6b38d5d95fa2_p1" x="4941.0" y="14469.0"/> <port id="pr_0d257864-32b8-4add-9816-6b38d5d95fa2_p2" x="4941.0" y="14439.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_199a6f3d-9f9f-489f-9696-259cbfdaf9c1"> <bbox w="10.0" h="10.0" x="21090.43" y="1503.0"/> <port id="pr_199a6f3d-9f9f-489f-9696-259cbfdaf9c1_p1" x="21095.43" y="1523.0"/> <port id="pr_199a6f3d-9f9f-489f-9696-259cbfdaf9c1_p2" x="21095.43" y="1493.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_95bf57d7-1f70-4942-938c-e2826290598d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23178297</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_95bf57d7-1f70-4942-938c-e2826290598d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23178297"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1826.0" y="10693.021"/> <port id="pr_95bf57d7-1f70-4942-938c-e2826290598d_p1" x="1831.0" y="10683.021"/> <port id="pr_95bf57d7-1f70-4942-938c-e2826290598d_p2" x="1831.0" y="10713.021"/> </glyph> <glyph class="process" orientation="vertical" id="pr_63ebf8ac-1e99-4373-aebd-3a2441888fa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEKK1 can interact with Ras in a GTP-dependent manner. The GTP-dependent coupling of MEKK1 to Ras indicates that MEKK1 may be an effector for those agonists that recruit JNK through Ras-dependent mechanisms.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_63ebf8ac-1e99-4373-aebd-3a2441888fa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10856.91" y="19511.809"/> <port id="pr_63ebf8ac-1e99-4373-aebd-3a2441888fa4_p1" x="10861.91" y="19501.809"/> <port id="pr_63ebf8ac-1e99-4373-aebd-3a2441888fa4_p2" x="10861.91" y="19531.809"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bcc9d463-03d3-4c04-990d-6e892eb177aa"> <bbox w="10.0" h="10.0" x="15885.035" y="7546.25"/> <port id="pr_bcc9d463-03d3-4c04-990d-6e892eb177aa_p1" x="15890.035" y="7536.25"/> <port id="pr_bcc9d463-03d3-4c04-990d-6e892eb177aa_p2" x="15890.035" y="7566.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fa0645cd-0299-4464-a371-a0b1fdc30f50"> <bbox w="10.0" h="10.0" x="4161.6665" y="7170.0"/> <port id="pr_fa0645cd-0299-4464-a371-a0b1fdc30f50_p1" x="4166.6665" y="7190.0"/> <port id="pr_fa0645cd-0299-4464-a371-a0b1fdc30f50_p2" x="4166.6665" y="7160.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e0a0c624-82ac-43a3-b587-e0c1920bba56"> <bbox w="10.0" h="10.0" x="22501.178" y="12058.615"/> <port id="pr_e0a0c624-82ac-43a3-b587-e0c1920bba56_p1" x="22506.178" y="12048.615"/> <port id="pr_e0a0c624-82ac-43a3-b587-e0c1920bba56_p2" x="22506.178" y="12078.615"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3e2486ad-277a-4434-9fa8-d390efa1576a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18971944</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e2486ad-277a-4434-9fa8-d390efa1576a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18971944"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9712.334" y="16896.838"/> <port id="pr_3e2486ad-277a-4434-9fa8-d390efa1576a_p1" x="9732.334" y="16901.838"/> <port id="pr_3e2486ad-277a-4434-9fa8-d390efa1576a_p2" x="9702.334" y="16901.838"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cd155270-b4ae-489e-a19c-7c7bfad7d84f"> <bbox w="10.0" h="10.0" x="21564.793" y="8217.5"/> <port id="pr_cd155270-b4ae-489e-a19c-7c7bfad7d84f_p1" x="21569.793" y="8207.5"/> <port id="pr_cd155270-b4ae-489e-a19c-7c7bfad7d84f_p2" x="21569.793" y="8237.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1a343239-0263-40bd-bc8b-82a5b733ae1f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="17911.691" y="16139.286"/> <port id="pr_1a343239-0263-40bd-bc8b-82a5b733ae1f_p1" x="17901.691" y="16144.286"/> <port id="pr_1a343239-0263-40bd-bc8b-82a5b733ae1f_p2" x="17931.691" y="16144.286"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9853de19-eb86-4218-9b42-ecb29e0b23ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11124803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9853de19-eb86-4218-9b42-ecb29e0b23ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11124803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13679.811" y="20555.477"/> <port id="pr_9853de19-eb86-4218-9b42-ecb29e0b23ae_p1" x="13699.811" y="20560.477"/> <port id="pr_9853de19-eb86-4218-9b42-ecb29e0b23ae_p2" x="13669.811" y="20560.477"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0cecdd25-441b-4d17-b9f4-74f7fc37ea74"> <bbox w="10.0" h="10.0" x="27474.06" y="14724.0"/> <port id="pr_0cecdd25-441b-4d17-b9f4-74f7fc37ea74_p1" x="27479.06" y="14744.0"/> <port id="pr_0cecdd25-441b-4d17-b9f4-74f7fc37ea74_p2" x="27479.06" y="14714.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_79d2702a-6fe9-4746-8ad0-b443f14c246a"> <bbox w="10.0" h="10.0" x="4186.149" y="5026.75"/> <port id="pr_79d2702a-6fe9-4746-8ad0-b443f14c246a_p1" x="4191.149" y="5016.75"/> <port id="pr_79d2702a-6fe9-4746-8ad0-b443f14c246a_p2" x="4191.149" y="5046.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fc668b83-ed9c-46f0-a56b-c3e144903966"> <bbox w="10.0" h="10.0" x="28871.0" y="4535.0"/> <port id="pr_fc668b83-ed9c-46f0-a56b-c3e144903966_p1" x="28876.0" y="4555.0"/> <port id="pr_fc668b83-ed9c-46f0-a56b-c3e144903966_p2" x="28876.0" y="4525.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_0ef3ef4f-b50a-4154-becd-0c11ec4d593e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>MDM2 phosphorylation by ATM inhibits its interaction with p53</p> <p>PMID:15140942</p> <p>Phosphorylation at Ser395</p> <p>PMID:11331603</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0ef3ef4f-b50a-4154-becd-0c11ec4d593e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140942"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11331603"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4313.5" y="14815.5"/> <port id="pr_0ef3ef4f-b50a-4154-becd-0c11ec4d593e_p1" x="4318.5" y="14805.5"/> <port id="pr_0ef3ef4f-b50a-4154-becd-0c11ec4d593e_p2" x="4318.5" y="14835.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_01108381-ce0f-4dae-abcf-24f4193ec790"> <bbox w="10.0" h="10.0" x="27675.129" y="15935.75"/> <port id="pr_01108381-ce0f-4dae-abcf-24f4193ec790_p1" x="27680.129" y="15955.75"/> <port id="pr_01108381-ce0f-4dae-abcf-24f4193ec790_p2" x="27680.129" y="15925.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3ab852f5-848c-4902-ad96-5b50b5ec99f3"> <bbox w="10.0" h="10.0" x="13148.172" y="10708.869"/> <port id="pr_3ab852f5-848c-4902-ad96-5b50b5ec99f3_p1" x="13138.172" y="10713.869"/> <port id="pr_3ab852f5-848c-4902-ad96-5b50b5ec99f3_p2" x="13168.172" y="10713.869"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4fe445ba-e953-40aa-968a-f4a2115c5b6c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1522.5" y="16257.5"/> <port id="pr_4fe445ba-e953-40aa-968a-f4a2115c5b6c_p1" x="1512.5" y="16262.5"/> <port id="pr_4fe445ba-e953-40aa-968a-f4a2115c5b6c_p2" x="1542.5" y="16262.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_04f3ad04-99ab-47a2-a973-cd84458dde6f"> <bbox w="10.0" h="10.0" x="29247.06" y="9854.0"/> <port id="pr_04f3ad04-99ab-47a2-a973-cd84458dde6f_p1" x="29267.06" y="9859.0"/> <port id="pr_04f3ad04-99ab-47a2-a973-cd84458dde6f_p2" x="29237.06" y="9859.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1d8fa95b-462f-4dc3-ae80-1146e35505bb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re631_rc_s3146_rc_re638=FALSE</p> <p>PMID:9381178</p> <p>in FL5.12 (murine pro-B-cell lymphoid cell, IL-3 dependent) BAD phosphorylated upon IL-3</p> <p>in 293T, over-expression of wt Akt or myr-Akt, but not kinase mutant induces phosphorylation of BAD</p> <p>in vitro phosphorylation of BAD by Akt, BAD S112(human S75)A-S136(human S99)A not phosphorylated</p> <p>PMID:8929531</p> <p>2D tryptic peptide mapping identifies S112(human S75) and S136(human S99) as the phospho-sites</p> <p>phsophorylation in FL5.12 in response to IL-3 or PMA</p> <p>PMID:9346240</p> <p>in vitro, purified Akt phosphorylates recombinant BAD at S136(human S99) but not at S112(human S75) (serine mutants)</p> <p>in Balb/c 3T3 upon PDGF or PC12 upon NGF, BAD phosphorylated in an Akt-dependent manner (wortmannin, LY294002)</p> <p>partial evidence for BAD:Akt interaction</p> <p>PMID:10230394</p> <p>mitochondria localized PKA is a BAD-S112(human S75) kinase</p> <p>PMID:10558990</p> <p>in vitro purified activated RSK2/RPS6KA3 phosphorylates a peptide encompassing BAD S112(humanS75) phospho-site. Far less efficient as a BAD-S136 kinase</p> <p>in 293T, over-expression of RSK2 and MEK1 induces phsophorylation of BAD (anti-BAD pS112)</p> <p>in BDNF-treated cerebellar granule cells, BDNF induces S112 phosphorylation of BAD, in a MEK1-dependent manner (PD098059)</p> <p>PMID:10837486</p> <p>RSK is a BAD S112 kinase (anti BAD-phosphoS112)</p> <p>in vitro,</p> <p>in HEK293 upon forskolin TPA isoproterenol or insulin-like growth factor, PKA mediated phosphorylation of S155 of murine BAD (human S118)</p> <p>S118 lies in the BH3 domain of BAD</p> <p>phosphorylation of S155 independent of that of S112/136</p> <p>RSK1-2-3 are BAD S155 kinases</p> <p>PMID:12954615</p> <p>in vitro, murine PIM2 immunoprecipitated from trasfected U2OS phosphorylates BAD</p> <p>in U2OS, PIM2 expression but not that of a kinase dead mutant induces BAD S112 phosphorylation</p> <p>in FDCP1 murine IL3 dependent hematopoietic cells, upon IL3 withdrawal or doxorubicin, PIM2 ectopic expression is protective</p> <p>PMID:15280015</p> <p>BAD S112 phosphorylation by PIM1</p> <p>PMID:17270021</p> <p>in SW480 human colon carcinoma cell line, correlation between PIM3 expression and BAD phosphorylation. siRNA against PIM3 abrogates BAD S112 and S136 phosphorylation and induces apoptosis</p> <p>in a set of human colon cancers, correlation and colocalization of PIM3 and BAD phospho-S112</p> <p>PMID:11493700</p> <p>S6K purified as a BAD kinase from FL5.12 BCL-XL/BAD cells</p> <p>in vitro with recombinant proteins, BAD S136 phosphorylation</p> <p>in FL5.12 by S6K upon IGF, inhibited by rapamycin</p> <p>in ES p70S6K-/- cells, IGF-induced BAD S136 phosphorylation is lost</p> <p>PMID:10611223</p> <p>in FL5.12 upon IL3, PAK1 phosphorylates BAD on S112 and S136, which results in decreased interaction with BCL2 and BCL2L1, and increased interaction with 14-3-3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1d8fa95b-462f-4dc3-ae80-1146e35505bb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9381178"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8929531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9346240"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10230394"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10558990"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10837486"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12954615"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15280015"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17270021"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11493700"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10611223"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20702.436" y="11893.93"/> <port id="pr_1d8fa95b-462f-4dc3-ae80-1146e35505bb_p1" x="20692.436" y="11898.93"/> <port 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id="pr_24528ddd-9c09-44b1-987d-f800f76c3169_p1" x="4191.149" y="5016.75"/> <port id="pr_24528ddd-9c09-44b1-987d-f800f76c3169_p2" x="4191.149" y="5046.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_372602d3-a786-46a7-96ae-c787f2172e23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21738214, PMID:20709625</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_372602d3-a786-46a7-96ae-c787f2172e23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21738214"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20709625"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17720.06" y="18419.0"/> <port id="pr_372602d3-a786-46a7-96ae-c787f2172e23_p1" x="17710.06" y="18424.0"/> <port id="pr_372602d3-a786-46a7-96ae-c787f2172e23_p2" x="17740.06" y="18424.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a56ad980-799e-4396-9492-22911c358c13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_20c9f3c4-cf8e-4743-84f9-1121fb29becc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3655.25" y="10974.5"/> <port id="pr_20c9f3c4-cf8e-4743-84f9-1121fb29becc_p1" x="3660.25" y="10964.5"/> <port id="pr_20c9f3c4-cf8e-4743-84f9-1121fb29becc_p2" x="3660.25" y="10994.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d05833ef-dfc5-4ab9-a4af-6229e8bbaa19"> <bbox w="10.0" h="10.0" x="14276.594" y="6951.4375"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b966acef-4d1b-4c9a-b291-252c47bb00b9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4157.0" y="11965.75"/> <port id="pr_b966acef-4d1b-4c9a-b291-252c47bb00b9_p1" x="4162.0" y="11985.75"/> <port id="pr_b966acef-4d1b-4c9a-b291-252c47bb00b9_p2" x="4162.0" y="11955.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1643d00-d93f-4385-9dfc-9eabc49fb56c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8388392</p> <p>PMID:8226933</p> <p>In the cytoplasm activated MEK1 (Serine phosphorylated) may encounter monomeric, inactive ERK1. </p> <p>ERK1 in its inactive form is not phosphorylated on a critical Threonine (T) and a critical Tyrosine (Y).</p> <p>MEK1 phosphorylates the critical Tyr and Thr on ERK1, converting two ATP to ADP. Phosphorylation of ERK-1 activates its kinase activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1643d00-d93f-4385-9dfc-9eabc49fb56c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8388392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8226933"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6171.5" y="13607.25"/> <port id="pr_d1643d00-d93f-4385-9dfc-9eabc49fb56c_p1" x="6191.5" y="13612.25"/> <port id="pr_d1643d00-d93f-4385-9dfc-9eabc49fb56c_p2" x="6161.5" y="13612.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_3fa6adc7-2812-4321-857b-7038cf901a85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5102.5986" y="18638.562"/> <port id="pr_3fa6adc7-2812-4321-857b-7038cf901a85_p1" x="5107.5986" y="18658.562"/> <port id="pr_3fa6adc7-2812-4321-857b-7038cf901a85_p2" x="5107.5986" y="18628.562"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ad7956c8-0625-4df7-90d3-d594d7e709a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:9753323</p> <p>Heterotrimeric complex Lin2-Lin7-Lin10 (C. elegans)</p> <p>PMID:9822620</p> <p>human lin10 contains 2 PDZ domains</p> <p>human lin10 interacts with mammalian lin2 (CASK)</p> <p>mammalian lin7 interacts with mammalian lin2 (CASK)</p> <p>heterotrimeric complex Lin2-lin7-Lin10 in mouse brain</p> <p>PMID:9753324</p> <p>Trimeric complex Lin2-Lin7-Lin10 in brain. </p> <p>Each protein contains PDZ domains-not involved in complex formation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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orientation="vertical" id="pr_c09ebadb-0da7-4fda-9944-9f1973380525"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4939.294" y="18272.125"/> <port id="pr_c09ebadb-0da7-4fda-9944-9f1973380525_p1" x="4944.294" y="18262.125"/> <port id="pr_c09ebadb-0da7-4fda-9944-9f1973380525_p2" x="4944.294" y="18292.125"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_7a5a7569-0168-4ce9-9758-4e99ebae5316"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22154077, PMID:17522712</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> 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<p>PMID:23418787</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a904a6ad-ef71-4b8d-b705-e69f8c14f714"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3852.065" y="12334.952"/> <port id="pr_a904a6ad-ef71-4b8d-b705-e69f8c14f714_p1" x="3872.065" y="12339.952"/> <port id="pr_a904a6ad-ef71-4b8d-b705-e69f8c14f714_p2" x="3842.065" y="12339.952"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7933c7bd-a975-46e4-9341-cadf65505747"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14651849</p> <p>PMID:19339977</p> <p>review</p> <p>PMID:18692468</p> <p>SESN2 promotes TSC2 phosphorylation, and interacts with both AMPK and TSC2.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7933c7bd-a975-46e4-9341-cadf65505747"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14651849"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18692468"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26125.56" y="11771.833"/> <port id="pr_7933c7bd-a975-46e4-9341-cadf65505747_p1" x="26115.56" y="11776.833"/> <port id="pr_7933c7bd-a975-46e4-9341-cadf65505747_p2" x="26145.56" y="11776.833"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_9b611ad3-c0f8-4a99-9fea-feb1955f8f0e"> <bbox w="20.0" h="20.0" x="26121.951" y="11648.287"/> <port id="logicglyph_9b611ad3-c0f8-4a99-9fea-feb1955f8f0e_p1" x="26131.951" y="11638.287"/> <port id="logicglyph_9b611ad3-c0f8-4a99-9fea-feb1955f8f0e_p2" x="26131.951" y="11678.287"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f15a1848-5920-479f-bae1-3b10d8bc6edf"> <bbox w="10.0" h="10.0" x="27931.06" y="11927.833"/> <port id="pr_f15a1848-5920-479f-bae1-3b10d8bc6edf_p1" x="27921.06" y="11932.833"/> <port id="pr_f15a1848-5920-479f-bae1-3b10d8bc6edf_p2" x="27951.06" y="11932.833"/> </glyph> <glyph class="process" orientation="vertical" id="pr_07c7d253-04e1-4215-bd02-4bdc31854bea"> <bbox w="10.0" h="10.0" x="30547.398" y="5686.25"/> <port id="pr_07c7d253-04e1-4215-bd02-4bdc31854bea_p1" x="30552.398" y="5676.25"/> <port id="pr_07c7d253-04e1-4215-bd02-4bdc31854bea_p2" x="30552.398" y="5706.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ac01a81e-2dc7-4cd1-a19f-2f6577ac8aa4"> <bbox w="10.0" h="10.0" x="27386.326" y="16100.0"/> <port id="pr_ac01a81e-2dc7-4cd1-a19f-2f6577ac8aa4_p1" x="27391.326" y="16120.0"/> <port id="pr_ac01a81e-2dc7-4cd1-a19f-2f6577ac8aa4_p2" x="27391.326" y="16090.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8a70de4d-2b56-46ee-b59a-8b0f1eaa9306"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25069.81" y="14971.229"/> <port id="pr_8a70de4d-2b56-46ee-b59a-8b0f1eaa9306_p1" x="25059.81" y="14976.229"/> <port id="pr_8a70de4d-2b56-46ee-b59a-8b0f1eaa9306_p2" x="25089.81" y="14976.229"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d29a4632-d5b7-4e66-9510-1d78386197de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8836113</p> <p>GEFs are essential for CDC42 activation. They promote the exchange of GDP to GTP to generate the activated form of CDC42 capable of recognizing downstram targets.</p> <p>PMID:10579713</p> <p>ARHGEF31 as a GEF of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d29a4632-d5b7-4e66-9510-1d78386197de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8836113"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10579713"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6116.1284" y="14505.176"/> <port id="pr_d29a4632-d5b7-4e66-9510-1d78386197de_p1" x="6136.1284" y="14510.176"/> <port id="pr_d29a4632-d5b7-4e66-9510-1d78386197de_p2" x="6106.1284" y="14510.176"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_882c60d4-7877-4da5-80f4-840833ef8900"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12791379</p> <p>PMID:10582334</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_882c60d4-7877-4da5-80f4-840833ef8900"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12791379"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10582334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5526.5" y="13286.0"/> <port id="pr_882c60d4-7877-4da5-80f4-840833ef8900_p1" x="5516.5" y="13291.0"/> <port id="pr_882c60d4-7877-4da5-80f4-840833ef8900_p2" x="5546.5" y="13291.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b63c5672-662e-4971-9378-7d10412ae0ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Phosphorylation of NFAT leads to increased DNA binding of NFAT -> increased gene transcription</p> <p>PMID15657416</p> <p>Not sure if dissociation of calcineurin and ERK/MEK occurs</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="16224.311" y="21144.0"/> <port id="pr_b63c5672-662e-4971-9378-7d10412ae0ac_p1" x="16229.311" y="21164.0"/> <port id="pr_b63c5672-662e-4971-9378-7d10412ae0ac_p2" x="16229.311" y="21134.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2b974346-3148-49fa-8b84-cad736861814"> <bbox w="10.0" h="10.0" x="3195.0625" y="10630.9375"/> <port id="pr_2b974346-3148-49fa-8b84-cad736861814_p1" x="3215.0625" y="10635.9375"/> <port id="pr_2b974346-3148-49fa-8b84-cad736861814_p2" x="3185.0625" y="10635.9375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_60a51eb0-2c95-41ea-99c8-667d4b4ec491"> <bbox w="10.0" h="10.0" x="3197.5" y="3813.4883"/> <port id="pr_60a51eb0-2c95-41ea-99c8-667d4b4ec491_p1" x="3217.5" y="3818.4883"/> <port id="pr_60a51eb0-2c95-41ea-99c8-667d4b4ec491_p2" x="3187.5" y="3818.4883"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_bbdf7a79-cccb-4194-a75a-a22565b671ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9113980</p> <p>RhoGDI (so-called ARHGDIA) and GDIG4 (so-called ARHGDIB) are two known GDIs for the Rho-subfamily of GTPases.</p> <p>ARHGDIG is about 50 percent identical to ARHGDIA and ARHGDIB. ARHGFIG binds to CDC42 and RhoA with less affinity compared with ARHGDIA and does not bind with Rac1, Rac2, or Ras.</p> <p>ARHGDIG functions as a GDI for CDC42 but with about 20 times less efficiency than ARHGDIA.</p> <p>PMID:9490022</p> <p>ARHGDIA,B,G are CDC42_GDIs</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bbdf7a79-cccb-4194-a75a-a22565b671ea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9113980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9490022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5571.671" y="14344.75"/> <port id="pr_bbdf7a79-cccb-4194-a75a-a22565b671ea_p1" x="5591.671" y="14349.75"/> <port id="pr_bbdf7a79-cccb-4194-a75a-a22565b671ea_p2" x="5561.671" y="14349.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_20490042-e40e-49f2-b6f4-e1655f8991d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For role of TIM1*/TIPIN in S-phase checkpoint, replication arrest, stalled replication forks stabilisation and DNA repair during S-phase:</p> <p>PMID:17102137, PMID:17116885, PMID:17296725, PMID:19793801, PMID:17582221</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_20490042-e40e-49f2-b6f4-e1655f8991d0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17102137"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17116885"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17296725"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793801"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17582221"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13207.473" y="9695.393"/> <port id="pr_20490042-e40e-49f2-b6f4-e1655f8991d0_p1" x="13197.473" y="9700.393"/> <port id="pr_20490042-e40e-49f2-b6f4-e1655f8991d0_p2" x="13227.473" y="9700.393"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cb5cc772-6526-4d27-8a18-3610ed0fcb2a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>RAC1 modulates cytoskeleton remodeling by activating ARFP2 and PIP5K1</p> <p>PMID:10679324</p> <p>Rac-associated PIP 5-kinase as the PIP 5-kinase isoforms alpha and beta.</p> <p>When added to permeabilized platelets, PIP 5-kinase alpha induced actin filament uncapping and assembly. </p> <p>PIP 5-kinase alpha is a critical mediator of thrombin- and Rac-dependent actin assembly.</p> <p>PMID:14681219</p> <p>PIP5K catalyzes the formation of the phospholipid, phosphatidylinositol 4,5-bisphosphate PIP2</p> <p>RhoA and Rac1 bind and activate PIP5K.</p> <p>3 isoforms of type I PIP5K (alpha,beta, and gamma) have been identified</p> <p>RhoA and Rac1, as well as Cdc42, but not RalA and Rap1A, markedly stimulate PIP2 synthesis by all three PIP5K isoforms expressed in human embryonic kidney 293 cells, both in vitro and in vivo. </p> <p>RhoA-stimulated PIP2 synthesis by the PIP5K isoforms was mediated by the RhoA effector, Rho kinase. </p> <p>Stimulation of PIP5K isoforms by Rac1 and Cdc42 was apparently independent of and additive with RhoA- and Rho-kinase</p> <p>RhoA, and to a lesser extent Rac1, but not Cdc42, interacted in a nucleotide-independent form with all three PIP5K isoforms. </p> <p>Binding of PIP5K isoforms to GTP-bound, but not GDP-bound, RhoA could be displaced by Rho-kinase, suggesting a direct and constitutive PIP5K-Rho GTPase binding, which, however, does not trigger PIP5K activation. </p> <p>Synthesis of PIP2 by the three PIP5K isoforms is controlled by RhoA, acting via Rho-kinase, as well as Rac1 and Cdc42, implicating that regulation of PIP2 synthesis has a central position in signaling by these three Rho GTPases.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cb5cc772-6526-4d27-8a18-3610ed0fcb2a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10679324"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14681219"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6239.0" y="15095.0"/> <port id="pr_cb5cc772-6526-4d27-8a18-3610ed0fcb2a_p1" x="6229.0" y="15100.0"/> <port id="pr_cb5cc772-6526-4d27-8a18-3610ed0fcb2a_p2" x="6259.0" y="15100.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_876211b1-defb-4d3f-9af8-78d59fc1ae8b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16790548</p> <p>in COS-7</p> <p>in vitro</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_876211b1-defb-4d3f-9af8-78d59fc1ae8b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16790548"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18683.56" y="11936.0"/> <port id="pr_876211b1-defb-4d3f-9af8-78d59fc1ae8b_p1" x="18703.56" y="11941.0"/> <port id="pr_876211b1-defb-4d3f-9af8-78d59fc1ae8b_p2" x="18673.56" y="11941.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_69e222af-8641-47e4-9a6c-6dbf06e28519"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24143.06" y="10772.0"/> <port id="pr_69e222af-8641-47e4-9a6c-6dbf06e28519_p1" x="24133.06" y="10777.0"/> <port id="pr_69e222af-8641-47e4-9a6c-6dbf06e28519_p2" x="24163.06" y="10777.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a93924eb-6fba-4a2a-8200-4f1c772a48a3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Damage caused by UV light pyrimidine dimers is repaired by DR</p> <p>For activation by Dbait </p> <p>PMID:22068457, PMID:22815765, PMID:22042585, PMID:19621083</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a93924eb-6fba-4a2a-8200-4f1c772a48a3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22068457"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22815765"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22042585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19621083"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14789.27" y="15121.75"/> <port id="pr_a93924eb-6fba-4a2a-8200-4f1c772a48a3_p1" x="14779.27" y="15126.75"/> <port id="pr_a93924eb-6fba-4a2a-8200-4f1c772a48a3_p2" x="14809.27" y="15126.75"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_d54959e0-831a-43e9-99be-fb40e025b966"> <bbox w="20.0" h="20.0" x="12850.889" y="15077.166"/> <port id="logicglyph_d54959e0-831a-43e9-99be-fb40e025b966_p1" x="12840.889" y="15087.166"/> <port id="logicglyph_d54959e0-831a-43e9-99be-fb40e025b966_p2" x="12880.889" y="15087.166"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc3ea4aa-6e7e-4a2f-a9de-465a3c7035de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23989302</p> <p>PMID:19152186</p> <p>PMID:24403062</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cc3ea4aa-6e7e-4a2f-a9de-465a3c7035de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23989302"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19152186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6953.0" y="11781.625"/> <port id="pr_cc3ea4aa-6e7e-4a2f-a9de-465a3c7035de_p1" x="6958.0" y="11771.625"/> <port id="pr_cc3ea4aa-6e7e-4a2f-a9de-465a3c7035de_p2" x="6958.0" y="11801.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e9cbca39-5148-434b-8b0a-92a88a1e09ab"> <bbox w="10.0" h="10.0" x="13808.672" y="5422.9375"/> <port id="pr_e9cbca39-5148-434b-8b0a-92a88a1e09ab_p1" x="13813.672" y="5412.9375"/> <port id="pr_e9cbca39-5148-434b-8b0a-92a88a1e09ab_p2" x="13813.672" y="5442.9375"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f089744b-7231-4be6-afa1-3fc9ae0f77a5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1874.0" y="12842.5"/> <port id="pr_f089744b-7231-4be6-afa1-3fc9ae0f77a5_p1" x="1864.0" y="12847.5"/> <port id="pr_f089744b-7231-4be6-afa1-3fc9ae0f77a5_p2" x="1894.0" y="12847.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bf0cf4e2-2485-43ed-a6df-9c172378d2f7"> <bbox w="10.0" h="10.0" x="24666.297" y="16019.25"/> <port id="pr_bf0cf4e2-2485-43ed-a6df-9c172378d2f7_p1" x="24671.297" y="16039.25"/> <port id="pr_bf0cf4e2-2485-43ed-a6df-9c172378d2f7_p2" x="24671.297" y="16009.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fdbabdd8-9191-46ae-a14a-9e97253144de"> <bbox w="10.0" h="10.0" x="19341.281" y="1535.5"/> <port id="pr_fdbabdd8-9191-46ae-a14a-9e97253144de_p1" x="19346.281" y="1555.5"/> <port id="pr_fdbabdd8-9191-46ae-a14a-9e97253144de_p2" x="19346.281" y="1525.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e8886e34-068b-4ca7-9f4f-1dff3d2b07c6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2805.3809" y="18034.75"/> <port id="pr_e8886e34-068b-4ca7-9f4f-1dff3d2b07c6_p1" x="2810.3809" y="18024.75"/> <port id="pr_e8886e34-068b-4ca7-9f4f-1dff3d2b07c6_p2" x="2810.3809" y="18054.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_51efb4b5-57a5-4553-93f8-a109fba2718c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Ubiquitination of Prickle by Smurf</p> <p>PMID:19379695</p> <p>PMID:20930545</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_51efb4b5-57a5-4553-93f8-a109fba2718c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19379695"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20930545"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16997.31" y="20075.75"/> <port id="pr_51efb4b5-57a5-4553-93f8-a109fba2718c_p1" x="17002.31" y="20065.75"/> <port id="pr_51efb4b5-57a5-4553-93f8-a109fba2718c_p2" x="17002.31" y="20095.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_35c56933-25ac-461c-b87e-cf7e13057704"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Cross-talk between small GTPase signaling pathways.</p> <p>PMID:12134164</p> <p>PMID:7673236</p> <p>HRAS activates TIAM1 which is a GEF for Rac1.</p> <p>RalBP1 (which is an effector for RalA and RalB) inactivates Rac1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_35c56933-25ac-461c-b87e-cf7e13057704"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12134164"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7673236"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6327.6753" y="14279.57"/> <port id="pr_35c56933-25ac-461c-b87e-cf7e13057704_p1" x="6317.6753" y="14284.57"/> <port id="pr_35c56933-25ac-461c-b87e-cf7e13057704_p2" x="6347.6753" y="14284.57"/> </glyph> <glyph class="process" orientation="vertical" id="pr_df00651b-73f3-44de-a421-c5b165105a2e"> <bbox w="10.0" h="10.0" x="23596.098" y="16086.5"/> <port id="pr_df00651b-73f3-44de-a421-c5b165105a2e_p1" x="23601.098" y="16106.5"/> <port id="pr_df00651b-73f3-44de-a421-c5b165105a2e_p2" x="23601.098" y="16076.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e5b7112-b7c3-4189-9feb-e29e5ac6492e"> <bbox w="10.0" h="10.0" x="20391.057" y="16607.438"/> <port id="pr_1e5b7112-b7c3-4189-9feb-e29e5ac6492e_p1" x="20396.057" y="16627.438"/> <port id="pr_1e5b7112-b7c3-4189-9feb-e29e5ac6492e_p2" x="20396.057" y="16597.438"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_857d68f2-bc68-4af4-bf56-4a7b7672e730"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:10579725</p> <p>PMID:12124386</p> <p>in murine bone marrow IL3-dependent 32D cells, upon IL3 withdrawal</p> <p>in vitro</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_857d68f2-bc68-4af4-bf56-4a7b7672e730"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10579725"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12124386"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26715.31" y="10932.0"/> <port id="pr_857d68f2-bc68-4af4-bf56-4a7b7672e730_p1" x="26705.31" y="10937.0"/> <port id="pr_857d68f2-bc68-4af4-bf56-4a7b7672e730_p2" x="26735.31" y="10937.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f428cb63-1270-4d7a-bf05-75ed335cfcf2"> <bbox w="10.0" h="10.0" x="1652.5" y="3775.0"/> <port id="pr_f428cb63-1270-4d7a-bf05-75ed335cfcf2_p1" x="1642.5" y="3780.0"/> <port id="pr_f428cb63-1270-4d7a-bf05-75ed335cfcf2_p2" x="1672.5" y="3780.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9fc36a61-1656-4f68-8558-9afd839605ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9065430</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9fc36a61-1656-4f68-8558-9afd839605ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9065430"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25528.81" y="10894.5"/> <port id="pr_9fc36a61-1656-4f68-8558-9afd839605ce_p1" x="25548.81" y="10899.5"/> <port id="pr_9fc36a61-1656-4f68-8558-9afd839605ce_p2" x="25518.81" y="10899.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3198adc3-5497-4395-af25-0916e1d6fb68"> <bbox w="10.0" h="10.0" x="26895.898" y="16200.25"/> <port id="pr_3198adc3-5497-4395-af25-0916e1d6fb68_p1" x="26900.898" y="16190.25"/> <port id="pr_3198adc3-5497-4395-af25-0916e1d6fb68_p2" x="26900.898" y="16220.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da07d7c0-c12b-4816-9d61-cfdc4ba50a83"> <bbox w="10.0" h="10.0" x="30321.0" y="2735.0"/> <port id="pr_da07d7c0-c12b-4816-9d61-cfdc4ba50a83_p1" x="30326.0" y="2755.0"/> <port id="pr_da07d7c0-c12b-4816-9d61-cfdc4ba50a83_p2" x="30326.0" y="2725.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00a1d68b-9359-4034-be67-feab051359a1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17593948</p> <p>PMID:18235236</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_00a1d68b-9359-4034-be67-feab051359a1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18235236"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18025.06" y="18136.656"/> <port id="pr_00a1d68b-9359-4034-be67-feab051359a1_p1" x="18030.06" y="18126.656"/> <port id="pr_00a1d68b-9359-4034-be67-feab051359a1_p2" x="18030.06" y="18156.656"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d71793e6-f3af-44c1-a528-fce1c33b8698"> <bbox w="10.0" h="10.0" x="4734.6914" y="8004.5"/> <port id="pr_d71793e6-f3af-44c1-a528-fce1c33b8698_p1" x="4739.6914" y="7994.5"/> <port id="pr_d71793e6-f3af-44c1-a528-fce1c33b8698_p2" x="4739.6914" y="8024.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ce67de1f-daeb-4d24-830f-6227171187c0"> <bbox w="10.0" h="10.0" x="3407.06" y="21015.0"/> <port id="pr_ce67de1f-daeb-4d24-830f-6227171187c0_p1" x="3397.06" y="21020.0"/> <port id="pr_ce67de1f-daeb-4d24-830f-6227171187c0_p2" x="3427.06" y="21020.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_33280f9c-7060-44cb-ac34-09a02f23f5c5"> <bbox w="10.0" h="10.0" x="12076.938" y="15042.5"/> <port id="pr_33280f9c-7060-44cb-ac34-09a02f23f5c5_p1" x="12081.938" y="15032.5"/> <port id="pr_33280f9c-7060-44cb-ac34-09a02f23f5c5_p2" x="12081.938" y="15062.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_68d3139c-9eae-4bfb-b8f7-eaf1723691f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25346.06" y="19446.0"/> <port id="pr_68d3139c-9eae-4bfb-b8f7-eaf1723691f0_p1" x="25351.06" y="19436.0"/> <port id="pr_68d3139c-9eae-4bfb-b8f7-eaf1723691f0_p2" x="25351.06" y="19466.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_53f5c3c3-5fc7-4fd6-a685-4b28c3d0cdbf"> <bbox w="10.0" h="10.0" x="891.41125" y="3794.75"/> <port id="pr_53f5c3c3-5fc7-4fd6-a685-4b28c3d0cdbf_p1" x="896.41125" y="3784.75"/> <port id="pr_53f5c3c3-5fc7-4fd6-a685-4b28c3d0cdbf_p2" x="896.41125" y="3814.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d48fc1f1-5050-4f01-bb74-b712975475fa"> <bbox w="10.0" h="10.0" x="9152.643" y="16262.332"/> <port id="pr_d48fc1f1-5050-4f01-bb74-b712975475fa_p1" x="9157.643" y="16252.332"/> <port id="pr_d48fc1f1-5050-4f01-bb74-b712975475fa_p2" x="9157.643" y="16282.332"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a0b15b36-30a5-431f-bb64-103fb5810c46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BRIT1*/E2F1 complex activates BRCA1 and CHEK1 transcription during S-phase and G2/M checkpoints:</p> <p>PMID:15220350, PMID:18660752, PMID:20376879</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a0b15b36-30a5-431f-bb64-103fb5810c46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15220350"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18660752"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20376879"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15202.269" y="10665.171"/> <port id="pr_a0b15b36-30a5-431f-bb64-103fb5810c46_p1" x="15192.269" y="10670.171"/> <port id="pr_a0b15b36-30a5-431f-bb64-103fb5810c46_p2" x="15222.269" y="10670.171"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fcb8d74b-7ab8-40de-9009-996cf225af3b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3712.878" y="14639.75"/> <port id="pr_fcb8d74b-7ab8-40de-9009-996cf225af3b_p1" x="3717.878" y="14659.75"/> <port id="pr_fcb8d74b-7ab8-40de-9009-996cf225af3b_p2" x="3717.878" y="14629.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d4bf558e-888b-4cdb-8d1b-30ba65211161"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5053.0464" y="17787.5"/> <port id="pr_d4bf558e-888b-4cdb-8d1b-30ba65211161_p1" x="5058.0464" y="17777.5"/> <port id="pr_d4bf558e-888b-4cdb-8d1b-30ba65211161_p2" x="5058.0464" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f24194d4-2163-4e59-8447-95e9c3ba37cc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2640.5" y="16874.762"/> <port id="pr_f24194d4-2163-4e59-8447-95e9c3ba37cc_p1" x="2660.5" y="16879.762"/> <port id="pr_f24194d4-2163-4e59-8447-95e9c3ba37cc_p2" x="2630.5" y="16879.762"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_88ea3cb4-5070-4651-a9f9-9675881a28a2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17569865 PMID:20229235</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_88ea3cb4-5070-4651-a9f9-9675881a28a2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17569865"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20229235"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22295.56" y="17684.25"/> <port id="pr_88ea3cb4-5070-4651-a9f9-9675881a28a2_p1" x="22285.56" y="17689.25"/> <port id="pr_88ea3cb4-5070-4651-a9f9-9675881a28a2_p2" x="22315.56" y="17689.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eee795a3-ac75-4d7a-b4b5-831d168135f1"> <bbox w="10.0" h="10.0" x="24830.543" y="15950.25"/> <port id="pr_eee795a3-ac75-4d7a-b4b5-831d168135f1_p1" x="24820.543" y="15955.25"/> <port id="pr_eee795a3-ac75-4d7a-b4b5-831d168135f1_p2" x="24850.543" y="15955.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fa642b46-7cac-4384-b714-3a96202b5801"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11641274</p> <p>PMID:12080085</p> <p>PMID:12042299</p> <p>PMID:12215170</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fa642b46-7cac-4384-b714-3a96202b5801"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11641274"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12080085"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12042299"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12215170"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22841746"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23506.686" y="16739.0"/> <port id="pr_fa642b46-7cac-4384-b714-3a96202b5801_p1" x="23511.686" y="16729.0"/> <port id="pr_fa642b46-7cac-4384-b714-3a96202b5801_p2" x="23511.686" y="16759.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_8b968ce6-b93e-4b32-9e43-ff223672a450"> <bbox w="20.0" h="20.0" x="23668.94" y="16728.99"/> <port id="logicglyph_8b968ce6-b93e-4b32-9e43-ff223672a450_p1" x="23698.94" y="16738.99"/> <port id="logicglyph_8b968ce6-b93e-4b32-9e43-ff223672a450_p2" x="23658.94" y="16738.99"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb0a0e27-4aea-485b-a740-795528423f94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P53 target genes: P21WAF1 MDM2 PERP NOXA GADD45 DDB2.</p> <p>The MDM2 gene is transcriptionally inhibited by P14.</p> <p>PMID:15856024 PMID:17158541</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cb0a0e27-4aea-485b-a740-795528423f94"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15856024"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17158541"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10796.168" y="20649.43"/> <port id="pr_cb0a0e27-4aea-485b-a740-795528423f94_p1" x="10801.168" y="20639.43"/> <port id="pr_cb0a0e27-4aea-485b-a740-795528423f94_p2" x="10801.168" y="20669.43"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_772cdd02-a14c-4211-aeaa-a80a0699531b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PDK1 is a PI3K target leading to activation of P70 and subsequent cell growth. Signaling proteins with pleckstrin-homology (PH) domains accumulate at sites of PI3K activation by directly binding to PI(345)P3. Of particular interest are the protein serine-threonine kinases Akt and phosphoinositide-dependent kinase 1 (PDK1). Association with PI(345)P3 at the membrane brings these proteins into proximity and facilitates phosphorylation of Akt by PDK1. This phosphorylation stimulates the catalytic activity of Akt resulting in the phosphorylation of a host of other proteins that affect cell growth cell cycle entry and cell survival.</p> <p>PMID:12040186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_772cdd02-a14c-4211-aeaa-a80a0699531b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1261.3556" y="15396.791"/> <port id="pr_9ca8f141-6bff-453f-b65c-1a91297ad5d5_p1" x="1266.3556" y="15386.791"/> <port id="pr_9ca8f141-6bff-453f-b65c-1a91297ad5d5_p2" x="1266.3556" y="15416.791"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ec6f66d-2015-4f6e-beb8-9e7c66c6636c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ec6f66d-2015-4f6e-beb8-9e7c66c6636c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12104.781" y="19377.5"/> <port id="pr_2ec6f66d-2015-4f6e-beb8-9e7c66c6636c_p1" x="12109.781" y="19367.5"/> <port id="pr_2ec6f66d-2015-4f6e-beb8-9e7c66c6636c_p2" x="12109.781" y="19397.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9f378b66-96de-4066-b0b7-e2ea64b94015"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11955436</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9f378b66-96de-4066-b0b7-e2ea64b94015"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20111.31" y="19079.406"/> <port id="pr_9f378b66-96de-4066-b0b7-e2ea64b94015_p1" x="20116.31" y="19069.406"/> <port id="pr_9f378b66-96de-4066-b0b7-e2ea64b94015_p2" x="20116.31" y="19099.406"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c50ddcc8-38ee-4a59-935e-d13b06c97bbc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c50ddcc8-38ee-4a59-935e-d13b06c97bbc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21091.56" y="22213.48"/> <port id="pr_c50ddcc8-38ee-4a59-935e-d13b06c97bbc_p1" x="21081.56" y="22218.48"/> <port id="pr_c50ddcc8-38ee-4a59-935e-d13b06c97bbc_p2" x="21111.56" y="22218.48"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1dd58f1f-e337-460f-9783-00cd0fe1662f"> <bbox w="10.0" h="10.0" x="4169.75" y="4743.3906"/> <port id="pr_1dd58f1f-e337-460f-9783-00cd0fe1662f_p1" x="4159.75" y="4748.3906"/> <port id="pr_1dd58f1f-e337-460f-9783-00cd0fe1662f_p2" x="4189.75" y="4748.3906"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_54c4c31e-a580-4b37-9eec-13eada8af2d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11594.965" y="15132.744"/> <port id="pr_54c4c31e-a580-4b37-9eec-13eada8af2d5_p1" x="11584.965" y="15137.744"/> <port id="pr_54c4c31e-a580-4b37-9eec-13eada8af2d5_p2" x="11614.965" y="15137.744"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9821f4ca-1360-42c6-9975-fc720843eb8e"> <bbox w="10.0" h="10.0" x="30794.477" y="2130.0"/> <port id="pr_9821f4ca-1360-42c6-9975-fc720843eb8e_p1" x="30799.477" y="2120.0"/> <port id="pr_9821f4ca-1360-42c6-9975-fc720843eb8e_p2" x="30799.477" y="2150.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5536be79-df87-4947-96a2-93e46189d34a"> <bbox w="10.0" h="10.0" x="29111.809" y="13639.02"/> <port id="pr_5536be79-df87-4947-96a2-93e46189d34a_p1" x="29101.809" y="13644.02"/> <port id="pr_5536be79-df87-4947-96a2-93e46189d34a_p2" x="29131.809" y="13644.02"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc63fb96-2b9e-4733-9001-92370d088d0b"> <bbox w="10.0" h="10.0" x="22392.242" y="8187.5"/> <port id="pr_cc63fb96-2b9e-4733-9001-92370d088d0b_p1" x="22397.242" y="8177.5"/> <port id="pr_cc63fb96-2b9e-4733-9001-92370d088d0b_p2" x="22397.242" y="8207.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1b2fb462-0623-4793-b077-93877abb5b14"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23377657</p> <p>PMID:11323415</p> <p>PMID:19037093</p> <p>Phosphorylation of Bcl-2 by JNK1 substantially reduce the affinity of BCL2 for Beclin1 leading to activation of autophagy</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1b2fb462-0623-4793-b077-93877abb5b14"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11323415"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19037093"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27336.56" y="11306.5"/> <port id="pr_1b2fb462-0623-4793-b077-93877abb5b14_p1" x="27341.56" y="11296.5"/> <port id="pr_1b2fb462-0623-4793-b077-93877abb5b14_p2" x="27341.56" y="11326.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4e5d75c5-3bb8-4cf9-ad3f-cbf009abb32d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Results supported the notion that KSR1 coupled activated ERK1/2 selectively to its substrate cPLA2 (PLA2G4A) in response to signals generated at lipid rafts.</p> <p>MAPKs activate cPLA2 (PLA2G4A) by phosphorylation.</p> <p>PMID:19114553 PMID:8381049</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4e5d75c5-3bb8-4cf9-ad3f-cbf009abb32d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19114553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8381049"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9544.394" y="19828.668"/> <port id="pr_4e5d75c5-3bb8-4cf9-ad3f-cbf009abb32d_p1" x="9534.394" y="19833.668"/> <port id="pr_4e5d75c5-3bb8-4cf9-ad3f-cbf009abb32d_p2" x="9564.394" y="19833.668"/> </glyph> <glyph class="process" orientation="vertical" id="pr_241ace03-42dc-42b4-9790-1d95019ac7cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18625707, PMID:22624377</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_241ace03-42dc-42b4-9790-1d95019ac7cf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18625707"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22624377"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2469.31" y="21166.5"/> <port id="pr_241ace03-42dc-42b4-9790-1d95019ac7cf_p1" x="2474.31" y="21186.5"/> <port id="pr_241ace03-42dc-42b4-9790-1d95019ac7cf_p2" x="2474.31" y="21156.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16df714a-a61a-4930-8831-18ebcfb56a13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_16df714a-a61a-4930-8831-18ebcfb56a13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12190.864" y="21022.0"/> <port id="pr_16df714a-a61a-4930-8831-18ebcfb56a13_p1" x="12195.864" y="21012.0"/> <port id="pr_16df714a-a61a-4930-8831-18ebcfb56a13_p2" x="12195.864" y="21042.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e9a3140-349b-4df3-8b0c-911a45353e43"> <bbox w="10.0" h="10.0" x="29671.0" y="8011.8438"/> <port id="pr_3e9a3140-349b-4df3-8b0c-911a45353e43_p1" x="29676.0" y="8001.8438"/> <port id="pr_3e9a3140-349b-4df3-8b0c-911a45353e43_p2" x="29676.0" y="8031.8438"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb79220a-2bd7-4424-8fac-5f68b9b25ddd"> <bbox w="10.0" h="10.0" x="12713.586" y="9160.932"/> <port id="pr_bb79220a-2bd7-4424-8fac-5f68b9b25ddd_p1" x="12718.586" y="9150.932"/> <port id="pr_bb79220a-2bd7-4424-8fac-5f68b9b25ddd_p2" x="12718.586" y="9180.932"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f46aa62-6d78-45dd-ac3c-83834be84c43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1849.531" y="17313.25"/> <port id="pr_6f46aa62-6d78-45dd-ac3c-83834be84c43_p1" x="1854.531" y="17303.25"/> <port id="pr_6f46aa62-6d78-45dd-ac3c-83834be84c43_p2" x="1854.531" y="17333.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c7646013-12dc-4232-9a47-227009e0630d"> <bbox w="10.0" h="10.0" x="6735.0" y="3950.0"/> <port id="pr_c7646013-12dc-4232-9a47-227009e0630d_p1" x="6740.0" y="3940.0"/> <port id="pr_c7646013-12dc-4232-9a47-227009e0630d_p2" x="6740.0" y="3970.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ea4c12a1-5452-4a31-b8f9-a31a1cf81a00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5625.75" y="13783.75"/> <port id="pr_ea4c12a1-5452-4a31-b8f9-a31a1cf81a00_p1" x="5630.75" y="13773.75"/> <port id="pr_ea4c12a1-5452-4a31-b8f9-a31a1cf81a00_p2" x="5630.75" y="13803.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_310a8335-4894-41d8-acbe-c7f2964d6cc8"> <bbox w="10.0" h="10.0" x="6242.0" y="7155.0"/> <port id="pr_310a8335-4894-41d8-acbe-c7f2964d6cc8_p1" x="6247.0" y="7175.0"/> <port id="pr_310a8335-4894-41d8-acbe-c7f2964d6cc8_p2" x="6247.0" y="7145.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b36c4762-9237-4247-b019-dc86afccc34c"> <bbox w="10.0" h="10.0" x="21074.81" y="14756.5"/> <port id="pr_b36c4762-9237-4247-b019-dc86afccc34c_p1" x="21079.81" y="14746.5"/> <port id="pr_b36c4762-9237-4247-b019-dc86afccc34c_p2" x="21079.81" y="14776.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_032f6216-2928-476a-a3f5-b2c56581b6cd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5408.6807" y="16177.791"/> <port id="pr_032f6216-2928-476a-a3f5-b2c56581b6cd_p1" x="5413.6807" y="16167.791"/> <port id="pr_032f6216-2928-476a-a3f5-b2c56581b6cd_p2" x="5413.6807" y="16197.791"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4042235a-bdec-489e-9aee-6a5a9d2b3c93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11875494</p> <p>IL10-induced p38 phosphorylation.</p> <p>PMID:20435894</p> <p>SHIP inhibit MAPKp38 activation and prevent </p> <p>MKNK1 phosphorylation by inhibiting the p38MAPK </p> <p>pathway downstream of IL10.</p> <p>PMID:10925299</p> <p>IL13 induces p38 MAPK phosphorilation and activation, p38 MAPK participates in arginase activation downstream of IL13.</p> <p>PMID:23508573</p> <p>HMGB1 induces activation (phosphorylation) of p38 via TLR4.</p> <p>PMID:12811837, PMID:16713974</p> <p>TLR signaling can induces STAT1 phosphorylation via p38 and potentiate IFNG signaling.</p> <p>PMID:16713974</p> <p>TLR2 activates (induces phosphorylation of) ERKs, JNKs, and p38 rapidly and transiently in control macrophages.</p> <p>This activation is inhibited by IFNG signaling.</p> <p>PMID:11438547, PMID:24378531</p> <p>Both TNFR1 and TNFR2 signaling pathways are needed for activation of p38 MAPK.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4042235a-bdec-489e-9aee-6a5a9d2b3c93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11875494"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20435894"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10925299"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23508573"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12811837"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11438547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24378531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5355.0" y="3265.5"/> <port id="pr_4042235a-bdec-489e-9aee-6a5a9d2b3c93_p1" x="5360.0" y="3255.5"/> <port id="pr_4042235a-bdec-489e-9aee-6a5a9d2b3c93_p2" x="5360.0" y="3285.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f35d2f24-794f-43cf-a3cf-d1a993ec96fc"> <bbox w="10.0" h="10.0" x="11343.0" y="1547.0"/> <port id="pr_f35d2f24-794f-43cf-a3cf-d1a993ec96fc_p1" x="11348.0" y="1537.0"/> <port id="pr_f35d2f24-794f-43cf-a3cf-d1a993ec96fc_p2" x="11348.0" y="1567.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_93240fa5-fb99-49d1-8aac-d6e06b24d522"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2822.5" y="14664.5"/> <port id="pr_93240fa5-fb99-49d1-8aac-d6e06b24d522_p1" x="2812.5" y="14669.5"/> <port id="pr_93240fa5-fb99-49d1-8aac-d6e06b24d522_p2" x="2842.5" y="14669.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bcdcf1b6-ea77-4dc0-b270-afb6bac52bc9"> <bbox w="10.0" h="10.0" x="10858.27" y="10658.5"/> <port id="pr_bcdcf1b6-ea77-4dc0-b270-afb6bac52bc9_p1" x="10863.27" y="10678.5"/> <port id="pr_bcdcf1b6-ea77-4dc0-b270-afb6bac52bc9_p2" x="10863.27" y="10648.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3f2fbfed-8e81-4b7b-abf8-3767b32d6e40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15807660</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3f2fbfed-8e81-4b7b-abf8-3767b32d6e40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15807660"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19453.596" y="14457.686"/> <port id="pr_3f2fbfed-8e81-4b7b-abf8-3767b32d6e40_p1" x="19443.596" y="14462.686"/> <port id="pr_3f2fbfed-8e81-4b7b-abf8-3767b32d6e40_p2" x="19473.596" y="14462.686"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4f557e44-2eec-4774-8faf-ebe69440fa95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3705.0" y="19049.223"/> <port id="pr_4f557e44-2eec-4774-8faf-ebe69440fa95_p1" x="3725.0" y="19054.223"/> <port id="pr_4f557e44-2eec-4774-8faf-ebe69440fa95_p2" x="3695.0" y="19054.223"/> </glyph> <glyph class="process" orientation="vertical" id="pr_73713bfd-1067-4f1d-9567-63badec34c17"> <bbox w="10.0" h="10.0" x="18734.06" y="10809.0"/> <port id="pr_73713bfd-1067-4f1d-9567-63badec34c17_p1" x="18739.06" y="10799.0"/> <port id="pr_73713bfd-1067-4f1d-9567-63badec34c17_p2" x="18739.06" y="10829.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1f86ee7e-0d18-4d40-8621-81f7a8d795aa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2956.5" y="14627.652"/> <port id="pr_1f86ee7e-0d18-4d40-8621-81f7a8d795aa_p1" x="2946.5" y="14632.652"/> <port id="pr_1f86ee7e-0d18-4d40-8621-81f7a8d795aa_p2" x="2976.5" y="14632.652"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02d0d70a-9361-4318-9a26-39b5b01be64b"> <bbox w="10.0" h="10.0" x="19736.06" y="16115.5"/> <port id="pr_02d0d70a-9361-4318-9a26-39b5b01be64b_p1" x="19741.06" y="16135.5"/> <port id="pr_02d0d70a-9361-4318-9a26-39b5b01be64b_p2" x="19741.06" y="16105.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b9489855-a2d4-46b5-9309-0f97c34d8bb7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PFK is a tetramer of the 1 to 3 of the different isoforms. Its exact composition depends on the cell type.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19101.06" y="10086.939"/> <port id="pr_b9489855-a2d4-46b5-9309-0f97c34d8bb7_p1" x="19106.06" y="10106.939"/> <port id="pr_b9489855-a2d4-46b5-9309-0f97c34d8bb7_p2" x="19106.06" y="10076.939"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_405d51a8-a8b9-4a82-87c5-048b62c35f04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_405d51a8-a8b9-4a82-87c5-048b62c35f04"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20806969"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5364.0" y="11569.0"/> <port id="pr_405d51a8-a8b9-4a82-87c5-048b62c35f04_p1" x="5354.0" y="11574.0"/> <port id="pr_405d51a8-a8b9-4a82-87c5-048b62c35f04_p2" x="5384.0" y="11574.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ac52604c-226f-4e10-b4ae-db41c4acb972"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18001824</p> <p>PMID:18006705</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ac52604c-226f-4e10-b4ae-db41c4acb972"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18001824"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18006705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18406.56" y="16579.0"/> <port id="pr_ac52604c-226f-4e10-b4ae-db41c4acb972_p1" x="18411.56" y="16599.0"/> <port id="pr_ac52604c-226f-4e10-b4ae-db41c4acb972_p2" x="18411.56" y="16569.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e453c24-677c-4754-b386-f241f911c88a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The Mdm2 protein is involved in an autoregulatory feedback loop with P53 thus controlling its activity. Increased P53 levels transactivate the MDM2 promoter causing its upregulation. The translated protein then binds to P53 and transports it to the proteasome for ubiquitin-mediated degradation.</p> <p>PMID:17158541</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e453c24-677c-4754-b386-f241f911c88a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17158541"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10818.918" y="20514.43"/> <port id="pr_3e453c24-677c-4754-b386-f241f911c88a_p1" x="10823.918" y="20534.43"/> <port id="pr_3e453c24-677c-4754-b386-f241f911c88a_p2" x="10823.918" y="20504.43"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_866b7bae-7f58-48db-aa27-f884f1519a72"> <bbox w="10.0" h="10.0" x="3139.75" y="9201.5"/> <port id="pr_866b7bae-7f58-48db-aa27-f884f1519a72_p1" x="3159.75" y="9206.5"/> <port id="pr_866b7bae-7f58-48db-aa27-f884f1519a72_p2" x="3129.75" y="9206.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_822112a1-f3a1-47dd-b558-d32b0887f08c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24376.56" y="11506.0"/> <port id="pr_822112a1-f3a1-47dd-b558-d32b0887f08c_p1" x="24366.56" y="11511.0"/> <port id="pr_822112a1-f3a1-47dd-b558-d32b0887f08c_p2" x="24396.56" y="11511.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c21345d9-557c-4f3b-ae23-625c16231248"> <bbox w="10.0" h="10.0" x="21735.34" y="16121.5"/> <port id="pr_c21345d9-557c-4f3b-ae23-625c16231248_p1" x="21740.34" y="16141.5"/> <port id="pr_c21345d9-557c-4f3b-ae23-625c16231248_p2" x="21740.34" y="16111.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_589b026b-f788-4d4d-b47e-4994bb7284ec"> <bbox w="10.0" h="10.0" x="27424.06" y="13414.0"/> <port id="pr_589b026b-f788-4d4d-b47e-4994bb7284ec_p1" x="27429.06" y="13404.0"/> <port id="pr_589b026b-f788-4d4d-b47e-4994bb7284ec_p2" x="27429.06" y="13434.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3afde091-aa85-4ba2-84ba-2eb8aa1b65d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20360384 PMID:16740475</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3afde091-aa85-4ba2-84ba-2eb8aa1b65d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20360384"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16740475"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27767.936" y="20656.5"/> <port id="pr_3afde091-aa85-4ba2-84ba-2eb8aa1b65d4_p1" x="27772.936" y="20646.5"/> <port id="pr_3afde091-aa85-4ba2-84ba-2eb8aa1b65d4_p2" x="27772.936" y="20676.5"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_dcedf007-bb09-4ffd-96d8-5ad83cdefb45"> <bbox w="20.0" h="20.0" x="27619.31" y="20713.25"/> <port id="logicglyph_dcedf007-bb09-4ffd-96d8-5ad83cdefb45_p1" x="27609.31" y="20723.25"/> <port id="logicglyph_dcedf007-bb09-4ffd-96d8-5ad83cdefb45_p2" x="27649.31" y="20723.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef3f8e0f-4c3c-4c08-b9f5-382aa522c1a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1508.25" y="15932.5"/> <port id="pr_ef3f8e0f-4c3c-4c08-b9f5-382aa522c1a9_p1" x="1498.25" y="15937.5"/> <port id="pr_ef3f8e0f-4c3c-4c08-b9f5-382aa522c1a9_p2" x="1528.25" y="15937.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e14dfd2-165e-45de-8fed-0bb7a0000321"> <bbox w="10.0" h="10.0" x="21452.436" y="14942.859"/> <port id="pr_2e14dfd2-165e-45de-8fed-0bb7a0000321_p1" x="21472.436" y="14947.859"/> <port id="pr_2e14dfd2-165e-45de-8fed-0bb7a0000321_p2" x="21442.436" y="14947.859"/> </glyph> <glyph class="process" orientation="vertical" id="pr_25c3a7bc-0d07-426b-b555-045b38178106"> <bbox w="10.0" h="10.0" x="27280.404" y="13034.25"/> <port id="pr_25c3a7bc-0d07-426b-b555-045b38178106_p1" x="27285.404" y="13054.25"/> <port id="pr_25c3a7bc-0d07-426b-b555-045b38178106_p2" x="27285.404" y="13024.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_622cc07b-3ba9-4f69-90e5-d487102dd351"> <bbox w="10.0" h="10.0" x="23547.043" y="14833.75"/> <port id="pr_622cc07b-3ba9-4f69-90e5-d487102dd351_p1" x="23552.043" y="14853.75"/> <port id="pr_622cc07b-3ba9-4f69-90e5-d487102dd351_p2" x="23552.043" y="14823.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a98f226-15f9-4437-94e9-d56889df7a8a"> <bbox w="10.0" h="10.0" x="3230.788" y="4056.25"/> <port id="pr_4a98f226-15f9-4437-94e9-d56889df7a8a_p1" x="3235.788" y="4046.25"/> <port id="pr_4a98f226-15f9-4437-94e9-d56889df7a8a_p2" x="3235.788" y="4076.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6190ff3-3999-4d1d-bcfe-820c8a87aa2d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P38 and not JNK or ERK can phosphorylate CHOP/GADD153 (DDIT3).</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a6190ff3-3999-4d1d-bcfe-820c8a87aa2d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10596.973" y="20525.168"/> <port id="pr_a6190ff3-3999-4d1d-bcfe-820c8a87aa2d_p1" x="10601.973" y="20515.168"/> <port id="pr_a6190ff3-3999-4d1d-bcfe-820c8a87aa2d_p2" x="10601.973" y="20545.168"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da899649-a440-4f4e-9a7b-a7c6f7fd09be"> <bbox w="10.0" h="10.0" x="925.0" y="4320.75"/> <port id="pr_da899649-a440-4f4e-9a7b-a7c6f7fd09be_p1" x="930.0" y="4310.75"/> <port id="pr_da899649-a440-4f4e-9a7b-a7c6f7fd09be_p2" x="930.0" y="4340.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3737dd22-5a0d-4f32-a495-291a0bb7b244"> <bbox w="10.0" h="10.0" x="11176.34" y="7105.25"/> <port id="pr_3737dd22-5a0d-4f32-a495-291a0bb7b244_p1" x="11181.34" y="7095.25"/> <port id="pr_3737dd22-5a0d-4f32-a495-291a0bb7b244_p2" x="11181.34" y="7125.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_41a18630-6446-4038-92b0-d611538ccbff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22286770 </p> <p>The inhibitory Smad7 mRNA is repressed by MIR106B, MIR93, MIR25.</p> <p>Smad7 antagonizes TGF-b signaling through multiple mechanisms, including binding to TGFBR1 and interfering with recruitment and downstream phosphorylation and activation of Smad2 and Smad3.</p> <p>Smad7 also functions to recruit E3 ubiquitin ligases to TGRFBR1, resulting in its degradation.</p> <p>Repression of Smad7 therefore activates TGF-beta signaling.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_41a18630-6446-4038-92b0-d611538ccbff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22286770"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11278251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6718.133" y="16062.936"/> <port id="pr_41a18630-6446-4038-92b0-d611538ccbff_p1" x="6723.133" y="16082.936"/> <port id="pr_41a18630-6446-4038-92b0-d611538ccbff_p2" x="6723.133" y="16052.936"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e39fecfd-d114-422a-acae-d247f0ab4adf"> <bbox w="10.0" h="10.0" x="12668.853" y="10291.736"/> <port id="pr_e39fecfd-d114-422a-acae-d247f0ab4adf_p1" x="12673.853" y="10311.736"/> <port id="pr_e39fecfd-d114-422a-acae-d247f0ab4adf_p2" x="12673.853" y="10281.736"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c53a886e-2919-43bb-b0b7-69f565dcbfe0"> <bbox w="10.0" h="10.0" x="24460.06" y="16178.5"/> <port id="pr_c53a886e-2919-43bb-b0b7-69f565dcbfe0_p1" x="24465.06" y="16198.5"/> <port id="pr_c53a886e-2919-43bb-b0b7-69f565dcbfe0_p2" x="24465.06" y="16168.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cb94435e-5355-4d12-89a1-e27aa9d0bcbd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19662.81" y="16449.0"/> <port id="pr_cb94435e-5355-4d12-89a1-e27aa9d0bcbd_p1" x="19652.81" y="16454.0"/> <port id="pr_cb94435e-5355-4d12-89a1-e27aa9d0bcbd_p2" x="19682.81" y="16454.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d0b79cd8-351f-41ef-9260-b09da395cc82"> <bbox w="10.0" h="10.0" x="23503.266" y="1746.25"/> <port id="pr_d0b79cd8-351f-41ef-9260-b09da395cc82_p1" x="23508.266" y="1766.25"/> <port id="pr_d0b79cd8-351f-41ef-9260-b09da395cc82_p2" x="23508.266" y="1736.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_16a4ce7b-7fc1-454c-b127-0b549b5fde11"> <bbox w="10.0" h="10.0" x="11062.979" y="11434.188"/> <port id="pr_16a4ce7b-7fc1-454c-b127-0b549b5fde11_p1" x="11082.979" y="11439.188"/> <port id="pr_16a4ce7b-7fc1-454c-b127-0b549b5fde11_p2" x="11052.979" y="11439.188"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_275aebd6-0b3a-44aa-9acd-aaefcfd8e974"> <bbox w="10.0" h="10.0" x="4581.3125" y="9921.9375"/> <port id="pr_275aebd6-0b3a-44aa-9acd-aaefcfd8e974_p1" x="4601.3125" y="9926.9375"/> <port id="pr_275aebd6-0b3a-44aa-9acd-aaefcfd8e974_p2" x="4571.3125" y="9926.9375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c81abb8-64f7-4cb2-b85c-e96a5ed8d9dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PLC-beta_2 and 3 are activated by the beta-and gamma subunit of the G-protein class q</p> <p>PMID:20553968</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9c81abb8-64f7-4cb2-b85c-e96a5ed8d9dd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20553968"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14965.561" y="18255.367"/> <port id="pr_9c81abb8-64f7-4cb2-b85c-e96a5ed8d9dd_p1" x="14985.561" y="18260.367"/> <port id="pr_9c81abb8-64f7-4cb2-b85c-e96a5ed8d9dd_p2" x="14955.561" y="18260.367"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_21e3bda8-3ba1-44d5-919b-cc78de8f0170"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1236.5" y="14279.757"/> <port id="pr_21e3bda8-3ba1-44d5-919b-cc78de8f0170_p1" x="1226.5" y="14284.757"/> <port id="pr_21e3bda8-3ba1-44d5-919b-cc78de8f0170_p2" x="1256.5" y="14284.757"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e4d32186-8f1f-43aa-a4e8-ca4f6723695f"> <bbox w="10.0" h="10.0" x="28121.516" y="13746.684"/> <port id="pr_e4d32186-8f1f-43aa-a4e8-ca4f6723695f_p1" x="28126.516" y="13766.684"/> <port id="pr_e4d32186-8f1f-43aa-a4e8-ca4f6723695f_p2" x="28126.516" y="13736.684"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ffe84aec-a425-456d-89b7-aa60df96c87c"> <bbox w="10.0" h="10.0" x="27022.348" y="15280.25"/> <port id="pr_ffe84aec-a425-456d-89b7-aa60df96c87c_p1" x="27027.348" y="15300.25"/> <port id="pr_ffe84aec-a425-456d-89b7-aa60df96c87c_p2" x="27027.348" y="15270.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_feca35d7-0715-444b-8cfd-0335769ef100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6448.5" y="14692.225"/> <port id="pr_feca35d7-0715-444b-8cfd-0335769ef100_p1" x="6438.5" y="14697.225"/> <port id="pr_feca35d7-0715-444b-8cfd-0335769ef100_p2" x="6468.5" y="14697.225"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77d08375-dfea-4a6d-a9e0-4bf9f8849b1f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16314495</p> <p>in C2C12 mouse myoblasts</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_77d08375-dfea-4a6d-a9e0-4bf9f8849b1f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16314495"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19954.2" y="16175.0"/> <port id="pr_77d08375-dfea-4a6d-a9e0-4bf9f8849b1f_p1" x="19959.2" 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<p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19662498</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7bdb27a4-a5f7-4e75-91a5-dca45c787177"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19662498"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13462.186" y="18074.25"/> <port id="pr_7bdb27a4-a5f7-4e75-91a5-dca45c787177_p1" x="13467.186" y="18064.25"/> <port id="pr_7bdb27a4-a5f7-4e75-91a5-dca45c787177_p2" x="13467.186" y="18094.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0387a72e-47db-4929-92f7-49def57c2579"> <bbox w="10.0" h="10.0" x="17732.367" y="1725.0"/> <port id="pr_0387a72e-47db-4929-92f7-49def57c2579_p1" x="17737.367" y="1745.0"/> <port id="pr_0387a72e-47db-4929-92f7-49def57c2579_p2" x="17737.367" y="1715.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e96b03d7-c204-45e0-819b-ed1587e82be2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e96b03d7-c204-45e0-819b-ed1587e82be2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4136.125" y="9452.5"/> <port id="pr_e96b03d7-c204-45e0-819b-ed1587e82be2_p1" x="4156.125" y="9457.5"/> <port id="pr_e96b03d7-c204-45e0-819b-ed1587e82be2_p2" x="4126.125" y="9457.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f208635f-3208-4673-9c7a-ad54d28835d6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f208635f-3208-4673-9c7a-ad54d28835d6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5245.0" y="12105.0"/> <port id="pr_f208635f-3208-4673-9c7a-ad54d28835d6_p1" x="5265.0" y="12110.0"/> <port id="pr_f208635f-3208-4673-9c7a-ad54d28835d6_p2" x="5235.0" y="12110.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_9006ba1a-b7df-439e-8b55-f712c443ce49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3703.5" y="18506.943"/> <port id="pr_9006ba1a-b7df-439e-8b55-f712c443ce49_p1" x="3723.5" y="18511.943"/> <port id="pr_9006ba1a-b7df-439e-8b55-f712c443ce49_p2" x="3693.5" y="18511.943"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d41f97c6-9a07-4174-bf97-98c3f837851b"> <bbox w="10.0" h="10.0" x="4005.0" y="4300.0"/> <port id="pr_d41f97c6-9a07-4174-bf97-98c3f837851b_p1" x="4010.0" y="4290.0"/> <port id="pr_d41f97c6-9a07-4174-bf97-98c3f837851b_p2" x="4010.0" y="4320.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c45fa706-e712-4e2f-830f-99b230a5201b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>p107 interacts with c-Myc and inhibits c-Myc activity and G1/S propagation:</p> <p>PMID:8076603</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c45fa706-e712-4e2f-830f-99b230a5201b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8076603"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12056.984" y="9705.609"/> <port id="pr_c45fa706-e712-4e2f-830f-99b230a5201b_p1" x="12076.984" y="9710.609"/> <port id="pr_c45fa706-e712-4e2f-830f-99b230a5201b_p2" x="12046.984" y="9710.609"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c736fb67-cc7f-4d5b-8196-a10b668af669"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15199070</p> <p>ARF binds to and inhibits MYC, in a p53 independent manner. ARF induces MYC localization to nucleolus</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c736fb67-cc7f-4d5b-8196-a10b668af669"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15199070"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24261.06" y="16976.406"/> <port id="pr_c736fb67-cc7f-4d5b-8196-a10b668af669_p1" x="24251.06" y="16981.406"/> <port id="pr_c736fb67-cc7f-4d5b-8196-a10b668af669_p2" x="24281.06" y="16981.406"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_78a0af37-ba2c-4a07-a137-e5109bcd33d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>HIPK2 phosphorylates S33 and S37 residues as GSK3 without priming b-catenin first</p> <p>PMID:20307497</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_78a0af37-ba2c-4a07-a137-e5109bcd33d5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20307497"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21605.31" y="21138.5"/> <port id="pr_78a0af37-ba2c-4a07-a137-e5109bcd33d5_p1" x="21625.31" y="21143.5"/> <port id="pr_78a0af37-ba2c-4a07-a137-e5109bcd33d5_p2" x="21595.31" y="21143.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc0f2161-a79c-434e-a25d-42c837e9b3ff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11069105</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dc0f2161-a79c-434e-a25d-42c837e9b3ff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11069105"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19157.06" y="9688.25"/> <port id="pr_dc0f2161-a79c-434e-a25d-42c837e9b3ff_p1" x="19177.06" y="9693.25"/> <port id="pr_dc0f2161-a79c-434e-a25d-42c837e9b3ff_p2" x="19147.06" y="9693.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f1ae8371-a900-43b5-b263-6a01a2e197de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5978.994" y="14673.0"/> <port id="pr_f1ae8371-a900-43b5-b263-6a01a2e197de_p1" x="5983.994" y="14693.0"/> <port id="pr_f1ae8371-a900-43b5-b263-6a01a2e197de_p2" x="5983.994" y="14663.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9d2b7fc3-7e13-4e5d-beb1-33069af4fdf1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9d2b7fc3-7e13-4e5d-beb1-33069af4fdf1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21033.31" y="22325.0"/> <port id="pr_9d2b7fc3-7e13-4e5d-beb1-33069af4fdf1_p1" x="21023.31" y="22330.0"/> <port id="pr_9d2b7fc3-7e13-4e5d-beb1-33069af4fdf1_p2" x="21053.31" y="22330.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ec4fd05-d14e-47f8-a366-2aad1863cfb4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18687677</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0ec4fd05-d14e-47f8-a366-2aad1863cfb4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18687677"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21778.184" y="13581.626"/> <port id="pr_0ec4fd05-d14e-47f8-a366-2aad1863cfb4_p1" x="21768.184" y="13586.626"/> <port id="pr_0ec4fd05-d14e-47f8-a366-2aad1863cfb4_p2" x="21798.184" y="13586.626"/> </glyph> <glyph class="process" orientation="vertical" id="pr_acf5be17-6862-4a67-aa1c-b99dd757e527"> <bbox w="10.0" h="10.0" x="28410.43" y="15940.25"/> <port id="pr_acf5be17-6862-4a67-aa1c-b99dd757e527_p1" x="28415.43" y="15960.25"/> <port id="pr_acf5be17-6862-4a67-aa1c-b99dd757e527_p2" x="28415.43" y="15930.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f9d7c963-6fab-47ae-a4ba-bd2c735b0b7b"> <bbox w="10.0" h="10.0" x="22712.066" y="14621.5"/> <port id="pr_f9d7c963-6fab-47ae-a4ba-bd2c735b0b7b_p1" x="22717.066" y="14641.5"/> <port id="pr_f9d7c963-6fab-47ae-a4ba-bd2c735b0b7b_p2" x="22717.066" y="14611.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_614a918e-1298-4a6e-b2a9-76af9feadae3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Recruited GRKs (GRK2 and GRK3) phosphorylate GPCR and increase its affinity for binding beta-ARRESTIN.</p> <p>PMID:11226259</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_d807370c-7d1b-4fa0-a3a6-9a50ab73316e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5187.5" y="16467.875"/> <port id="pr_d807370c-7d1b-4fa0-a3a6-9a50ab73316e_p1" x="5177.5" y="16472.875"/> <port id="pr_d807370c-7d1b-4fa0-a3a6-9a50ab73316e_p2" x="5207.5" y="16472.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea7ed8b4-f0bf-4459-a30b-9d5e0ff04b38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19549685</p> <p>Caspase cleavage of Atg4D stimulates GABARAP-L1 processing and triggers mitochondrial targeting and apoptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ea7ed8b4-f0bf-4459-a30b-9d5e0ff04b38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19549685"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28074.436" y="11836.615"/> <port id="pr_ea7ed8b4-f0bf-4459-a30b-9d5e0ff04b38_p1" x="28094.436" y="11841.615"/> <port id="pr_ea7ed8b4-f0bf-4459-a30b-9d5e0ff04b38_p2" x="28064.436" y="11841.615"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b005fbe2-b192-404c-a91f-6a1e71ebdc73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Only the Galpha_q subunit can activate PLC-beta</p> <p>PMID:11395409</p> <p>PMID:19359428</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b005fbe2-b192-404c-a91f-6a1e71ebdc73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11395409"/> </rdf:Bag> 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process" orientation="vertical" id="pr_3578ae6e-29fe-4f8d-af8b-810962ae62e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5668.798" y="14278.25"/> <port id="pr_3578ae6e-29fe-4f8d-af8b-810962ae62e2_p1" x="5673.798" y="14298.25"/> <port id="pr_3578ae6e-29fe-4f8d-af8b-810962ae62e2_p2" x="5673.798" y="14268.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_838b0680-08f7-410e-9e37-5290e521cdcb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5476.0" y="17943.5"/> <port id="pr_838b0680-08f7-410e-9e37-5290e521cdcb_p1" x="5481.0" y="17963.5"/> <port id="pr_838b0680-08f7-410e-9e37-5290e521cdcb_p2" x="5481.0" y="17933.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_764c88dd-eec9-48a5-852a-c2961a305348"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5189.0" y="16713.277"/> <port id="pr_764c88dd-eec9-48a5-852a-c2961a305348_p1" x="5179.0" y="16718.277"/> <port id="pr_764c88dd-eec9-48a5-852a-c2961a305348_p2" x="5209.0" y="16718.277"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a0ea3ad3-e8d4-4c54-974b-0eed9e6f8607"> <bbox w="10.0" h="10.0" x="27496.06" y="9334.0"/> <port id="pr_a0ea3ad3-e8d4-4c54-974b-0eed9e6f8607_p1" x="27486.06" y="9339.0"/> <port 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<p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Mechanism is unknown, it is speculate that translocalisation occurs through calpain-sensitive proteins.</p> <p>PMID:21266584</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fc98ea00-09e7-4034-b4f8-4a7d40096ae2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21266584"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6c88c98b-20de-4ab5-9216-0bd8b3445f3c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22833265"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23800.31" y="21307.5"/> <port id="pr_6c88c98b-20de-4ab5-9216-0bd8b3445f3c_p1" x="23790.31" y="21312.5"/> <port id="pr_6c88c98b-20de-4ab5-9216-0bd8b3445f3c_p2" x="23820.31" y="21312.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1a949865-f99f-4555-a60e-093aeb684fae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2108.9844" y="18003.816"/> <port id="pr_1a949865-f99f-4555-a60e-093aeb684fae_p1" x="2113.9844" y="17993.816"/> <port id="pr_1a949865-f99f-4555-a60e-093aeb684fae_p2" x="2113.9844" y="18023.816"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f524d14b-e273-409e-ab0c-ac8b244c600c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f524d14b-e273-409e-ab0c-ac8b244c600c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2263.75" y="10317.0"/> <port id="pr_f524d14b-e273-409e-ab0c-ac8b244c600c_p1" x="2268.75" y="10337.0"/> <port id="pr_f524d14b-e273-409e-ab0c-ac8b244c600c_p2" x="2268.75" y="10307.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b0595d94-675d-41ad-86aa-a1511ff87a22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5338.5" y="17347.5"/> <port id="pr_b0595d94-675d-41ad-86aa-a1511ff87a22_p1" x="5328.5" y="17352.5"/> <port id="pr_b0595d94-675d-41ad-86aa-a1511ff87a22_p2" x="5358.5" y="17352.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_77bf9d9b-4298-485a-98e3-157c340f1db4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3922.2495" y="16672.5"/> <port id="pr_77bf9d9b-4298-485a-98e3-157c340f1db4_p1" x="3942.2495" y="16677.5"/> <port id="pr_77bf9d9b-4298-485a-98e3-157c340f1db4_p2" x="3912.2495" y="16677.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_19983940-cf19-4fd1-8451-426b58da18b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19576224</p> </body> </html> </notes> <extension> <annotation 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id="pr_c56ff5d3-7b7e-4b2c-809e-95f08b235aae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1667.5" y="12811.5"/> <port id="pr_c56ff5d3-7b7e-4b2c-809e-95f08b235aae_p1" x="1657.5" y="12816.5"/> <port id="pr_c56ff5d3-7b7e-4b2c-809e-95f08b235aae_p2" x="1687.5" y="12816.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_91f6866a-c264-4853-9c15-731955131ce7"> <bbox w="10.0" h="10.0" x="27284.06" y="15414.0"/> <port id="pr_91f6866a-c264-4853-9c15-731955131ce7_p1" x="27274.06" y="15419.0"/> <port id="pr_91f6866a-c264-4853-9c15-731955131ce7_p2" x="27304.06" y="15419.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea45e213-c07d-45c6-b4cc-201bb8234944"> <bbox w="10.0" h="10.0" x="2295.1108" y="4607.5"/> <port id="pr_ea45e213-c07d-45c6-b4cc-201bb8234944_p1" x="2285.1108" y="4612.5"/> <port id="pr_ea45e213-c07d-45c6-b4cc-201bb8234944_p2" x="2315.1108" y="4612.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bcb778e3-5d0a-4dbc-a5fe-a9e4efbf90b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>For C_NHEJ activation by IR</p> <p>PMID:20691907, PMID:23012265, PMID:21785230</p> <p>For C_NHEJ activation by UV</p> <p>PMID:17293412, PMID:15367581</p> <p>Topoisomerate inhibitors bloch double strand DNA repair by HR, C_NHEJ and Fanconi pathways</p> <p>PMID:23259582</p> <p>For HR</p> <p>PMID:22123462, PMID:20693240</p> <p>For Fanconi</p> <p>PMID:21414716, PMID:23157317</p> <p>For activation by Dbait </p> <p>PMID:22068457, PMID:22815765, PMID:22042585, PMID:19621083</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bcb778e3-5d0a-4dbc-a5fe-a9e4efbf90b2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22258607"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19267553"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18256616"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20691907"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23012265"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21785230"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17293412"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15367581"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23259582"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22123462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20693240"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21414716"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23157317"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22068457"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22815765"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22042585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19621083"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12478.143" y="15201.494"/> <port id="pr_bcb778e3-5d0a-4dbc-a5fe-a9e4efbf90b2_p1" x="12483.143" y="15191.494"/> <port id="pr_bcb778e3-5d0a-4dbc-a5fe-a9e4efbf90b2_p2" x="12483.143" y="15221.494"/> </glyph> <glyph class="process" orientation="vertical" id="pr_58195728-0093-4dac-a251-8c26180fd71a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Translation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="8523.814" y="20597.23"/> <port id="pr_58195728-0093-4dac-a251-8c26180fd71a_p1" x="8528.814" y="20617.23"/> <port id="pr_58195728-0093-4dac-a251-8c26180fd71a_p2" x="8528.814" y="20587.23"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4e1e543d-c274-42e3-88ea-0ad953b0a430"> <bbox w="10.0" h="10.0" x="11525.0" y="7745.0"/> <port id="pr_4e1e543d-c274-42e3-88ea-0ad953b0a430_p1" x="11530.0" y="7735.0"/> <port id="pr_4e1e543d-c274-42e3-88ea-0ad953b0a430_p2" x="11530.0" y="7765.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6c393528-6a8d-4bf3-9743-695463cfa173"> <bbox w="10.0" h="10.0" x="23943.31" y="14259.52"/> <port id="pr_6c393528-6a8d-4bf3-9743-695463cfa173_p1" x="23963.31" y="14264.52"/> <port id="pr_6c393528-6a8d-4bf3-9743-695463cfa173_p2" x="23933.31" y="14264.52"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4499b843-cfd2-40a8-a864-9f3e37083373"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4499b843-cfd2-40a8-a864-9f3e37083373"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22841746"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18362.06" y="10562.595"/> <port id="pr_4499b843-cfd2-40a8-a864-9f3e37083373_p1" x="18382.06" y="10567.595"/> <port id="pr_4499b843-cfd2-40a8-a864-9f3e37083373_p2" x="18352.06" y="10567.595"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c4657fc8-9b37-49b9-8c21-fc89e757497b"> <bbox w="10.0" h="10.0" x="12075.473" y="16031.984"/> <port id="pr_c4657fc8-9b37-49b9-8c21-fc89e757497b_p1" x="12065.473" y="16036.984"/> <port id="pr_c4657fc8-9b37-49b9-8c21-fc89e757497b_p2" x="12095.473" y="16036.984"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d1d4429-d78d-4fa8-8153-feca4b4af169"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Without RIPK4 upon wnt3 stimulation 25% of HeLa cells show DVL2 in puncta. Co-transfection of RIPK4 increases this number to more than 75%</p> <p>PMID:23371553</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d1d4429-d78d-4fa8-8153-feca4b4af169"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23371553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25320.56" y="18894.0"/> <port id="pr_0d1d4429-d78d-4fa8-8153-feca4b4af169_p1" x="25325.56" y="18914.0"/> <port 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x="27238.047" y="15006.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_606aa494-b3c0-4c75-adef-e4965ce2f040"> <bbox w="10.0" h="10.0" x="3159.0383" y="3292.1875"/> <port id="pr_606aa494-b3c0-4c75-adef-e4965ce2f040_p1" x="3149.0383" y="3297.1875"/> <port id="pr_606aa494-b3c0-4c75-adef-e4965ce2f040_p2" x="3179.0383" y="3297.1875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d83e8a68-30c0-4519-aa20-657da97480a5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20460378</p> <p>in breast cancer cell lines MDA-435, MDA-231, MCF7 and SKBr3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4625.375" y="10189.625"/> <port id="pr_2cfb2b79-7bbf-46fd-8b0b-62e1c880b411_p1" x="4615.375" y="10194.625"/> <port id="pr_2cfb2b79-7bbf-46fd-8b0b-62e1c880b411_p2" x="4645.375" y="10194.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_875bda8e-17f7-4a9a-9510-405ebd6e83a2"> <bbox w="10.0" h="10.0" x="18939.06" y="9695.25"/> <port id="pr_875bda8e-17f7-4a9a-9510-405ebd6e83a2_p1" x="18959.06" y="9700.25"/> <port id="pr_875bda8e-17f7-4a9a-9510-405ebd6e83a2_p2" x="18929.06" y="9700.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_cfb6ed62-a48f-4dcd-b1a3-72385e88983a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1923.3807" y="16433.0"/> <port id="pr_cfb6ed62-a48f-4dcd-b1a3-72385e88983a_p1" x="1928.3807" y="16453.0"/> <port id="pr_cfb6ed62-a48f-4dcd-b1a3-72385e88983a_p2" x="1928.3807" y="16423.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c737894b-115c-4402-9264-58c6df46df6f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12718878</p> <p>TGFB can activate ATF3 transcription via direct binding of Smad proteins to the ATF3 promoter.</p> <p>Then Smad3, Smad4, and ATF3 Bind to the Id1 Promoter in Response to TGFB</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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<head> <title/> </head> <body> <p>References:</p> <p>PMID:9115213</p> <p>S70 phosphorylation of BCL2 necessary for its antiapoptotic function</p> <p>in NSF/N1.H7 mouse leukemia cells BCL2 mutants transfection) in response to IL-3, etoposide, or bryostatin-1, a PKC activator</p> <p>PMID:9738012</p> <p>suggest that PRKCA is the main PRKC BCL2 kinase in HL60 human acute myeloid leukemia cell line</p> <p>PMID:10677502</p> <p>ERK1/2 is a BCL2 S70 kinase in NSF/N1.H7 cells stimulated with IL-3</p> <p>in vitro direct phosphorylation</p> <p>PMID:11323415</p> <p>JNK is a BCL2 S70 kinase in NSF/N1.H7 cells upon IL-3 withdrawal</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c4275a3b-654f-43e5-aab9-16d873ad50c5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9115213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9738012"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10677502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11323415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22984.06" y="13079.0"/> <port id="pr_c4275a3b-654f-43e5-aab9-16d873ad50c5_p1" x="22989.06" y="13069.0"/> <port id="pr_c4275a3b-654f-43e5-aab9-16d873ad50c5_p2" x="22989.06" y="13099.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_876ef045-f2e3-4fc5-81d2-f31075c5c53d"> <bbox w="10.0" h="10.0" x="5305.0" y="4800.0"/> <port id="pr_876ef045-f2e3-4fc5-81d2-f31075c5c53d_p1" x="5295.0" y="4805.0"/> <port id="pr_876ef045-f2e3-4fc5-81d2-f31075c5c53d_p2" x="5325.0" y="4805.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b17cd1fc-9fcb-4e71-8fa4-8b4ff2b0fdd4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16585195</p> <p>in Hela cells, CA9 expression upon hypoxia is impaired by siRNA against HIF1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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id="pr_a1554502-6856-4956-bb75-4402dfebb1f2_p2" x="9181.1875" y="4571.293"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_31ff5f2f-4742-48a0-aadd-fb2d64da9545"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18477453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_31ff5f2f-4742-48a0-aadd-fb2d64da9545"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18477453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27953.06" y="17640.543"/> <port id="pr_31ff5f2f-4742-48a0-aadd-fb2d64da9545_p1" x="27943.06" y="17645.543"/> <port id="pr_31ff5f2f-4742-48a0-aadd-fb2d64da9545_p2" x="27973.06" y="17645.543"/> </glyph> <glyph class="process" orientation="vertical" id="pr_431fc578-dc43-4f7d-a277-27ff3bb31832"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4934.7817" y="17987.625"/> <port id="pr_431fc578-dc43-4f7d-a277-27ff3bb31832_p1" x="4939.7817" y="17977.625"/> <port id="pr_431fc578-dc43-4f7d-a277-27ff3bb31832_p2" x="4939.7817" y="18007.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_90cfab9b-12f7-4f8b-8529-6423594bca26"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19628817</p> <p>SDH5 is required for SDHA flavination (inferred from yeast)</p> <p>SDH5 primarily soluble and localized in mitochondrial matrix (inferred from yeast)</p> <p>SDH5 mutation segregates with disease in a family with paraganglioma</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_90cfab9b-12f7-4f8b-8529-6423594bca26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19628817"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18486.81" y="14177.434"/> <port id="pr_90cfab9b-12f7-4f8b-8529-6423594bca26_p1" x="18506.81" y="14182.434"/> <port id="pr_90cfab9b-12f7-4f8b-8529-6423594bca26_p2" x="18476.81" y="14182.434"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7151c2b9-5411-456c-bd11-0dacedf2c64c"> <bbox w="10.0" h="10.0" x="22105.56" y="22097.25"/> <port id="pr_7151c2b9-5411-456c-bd11-0dacedf2c64c_p1" x="22095.56" y="22102.25"/> <port id="pr_7151c2b9-5411-456c-bd11-0dacedf2c64c_p2" x="22125.56" y="22102.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b79a4a2a-7bbd-4a4c-ba18-e3861385fcbd"> <bbox w="10.0" h="10.0" x="25960.31" y="21810.0"/> <port id="pr_b79a4a2a-7bbd-4a4c-ba18-e3861385fcbd_p1" x="25950.31" y="21815.0"/> <port id="pr_b79a4a2a-7bbd-4a4c-ba18-e3861385fcbd_p2" x="25980.31" y="21815.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8efd9ae6-d217-4cc1-ba22-e5033bb1c511"> <bbox w="10.0" h="10.0" x="22067.24" y="13485.061"/> <port id="pr_8efd9ae6-d217-4cc1-ba22-e5033bb1c511_p1" x="22087.24" y="13490.061"/> <port id="pr_8efd9ae6-d217-4cc1-ba22-e5033bb1c511_p2" x="22057.24" y="13490.061"/> </glyph> <glyph class="process" orientation="vertical" id="pr_08b23364-ac76-4d1e-8dd8-f350fd13b063"> <bbox w="10.0" h="10.0" x="13806.865" y="2046.25"/> <port id="pr_08b23364-ac76-4d1e-8dd8-f350fd13b063_p1" x="13811.865" y="2036.25"/> <port id="pr_08b23364-ac76-4d1e-8dd8-f350fd13b063_p2" x="13811.865" y="2066.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d04bec3-a4d0-4bdb-a050-6cde095796b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4359.295" y="15021.25"/> <port id="pr_0d04bec3-a4d0-4bdb-a050-6cde095796b2_p1" x="4364.295" y="15041.25"/> <port id="pr_0d04bec3-a4d0-4bdb-a050-6cde095796b2_p2" x="4364.295" y="15011.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b65fd19a-940a-46ec-a0e0-6b8ecefbf804"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Sprouty is induced by activated ERK through phosphorylation on Tyr55. It positively regulates EGFR signalling by sequestering Cbl whereas it negatively regulates FGFR signalling by sequestering Grb2 from FSR2.</p> <p>PMID:15173823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b65fd19a-940a-46ec-a0e0-6b8ecefbf804"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15173823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10113.061" y="20142.0"/> <port id="pr_b65fd19a-940a-46ec-a0e0-6b8ecefbf804_p1" x="10118.061" y="20132.0"/> <port id="pr_b65fd19a-940a-46ec-a0e0-6b8ecefbf804_p2" x="10118.061" y="20162.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0c3f6527-478b-47cb-a376-9a10b5c16839"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18680434</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0c3f6527-478b-47cb-a376-9a10b5c16839"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18680434"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2508.56" y="21305.0"/> <port id="pr_0c3f6527-478b-47cb-a376-9a10b5c16839_p1" x="2498.56" y="21310.0"/> <port id="pr_0c3f6527-478b-47cb-a376-9a10b5c16839_p2" x="2528.56" y="21310.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cd654384-fc83-4f47-9326-5ab1a2deaa01"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9829964</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cd654384-fc83-4f47-9326-5ab1a2deaa01"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9829964"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13570.186" y="21967.0"/> <port id="pr_cd654384-fc83-4f47-9326-5ab1a2deaa01_p1" x="13560.186" y="21972.0"/> <port id="pr_cd654384-fc83-4f47-9326-5ab1a2deaa01_p2" x="13590.186" y="21972.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_36ee6a7c-e16a-427e-b9f4-5bfafd013b0f"> <bbox w="10.0" h="10.0" x="6100.5" y="7364.625"/> <port id="pr_36ee6a7c-e16a-427e-b9f4-5bfafd013b0f_p1" x="6105.5" y="7384.625"/> <port id="pr_36ee6a7c-e16a-427e-b9f4-5bfafd013b0f_p2" x="6105.5" y="7354.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0baf6974-42e7-48e7-a0b5-ccb6c95c192e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2725.75" y="17725.25"/> <port id="pr_0baf6974-42e7-48e7-a0b5-ccb6c95c192e_p1" x="2715.75" y="17730.25"/> <port id="pr_0baf6974-42e7-48e7-a0b5-ccb6c95c192e_p2" x="2745.75" y="17730.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cbdbb3a0-62fd-4192-9238-66abfedbfd19"> <bbox w="10.0" h="10.0" x="29182.81" y="9078.125"/> <port id="pr_cbdbb3a0-62fd-4192-9238-66abfedbfd19_p1" x="29187.81" y="9068.125"/> <port id="pr_cbdbb3a0-62fd-4192-9238-66abfedbfd19_p2" x="29187.81" y="9098.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_44e95c75-d04a-4eb7-b131-346001247188"> <bbox w="10.0" h="10.0" x="12077.361" y="15199.0"/> <port id="pr_44e95c75-d04a-4eb7-b131-346001247188_p1" x="12067.361" y="15204.0"/> <port id="pr_44e95c75-d04a-4eb7-b131-346001247188_p2" x="12097.361" y="15204.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_50a282a9-c827-4e1f-879b-40b2f117ccf5"> <bbox w="10.0" h="10.0" x="18875.56" y="12465.5"/> <port id="pr_50a282a9-c827-4e1f-879b-40b2f117ccf5_p1" x="18895.56" y="12470.5"/> <port id="pr_50a282a9-c827-4e1f-879b-40b2f117ccf5_p2" x="18865.56" y="12470.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a3a6853-142e-42e9-9637-86a1ad5ff76c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22032831, PMID:15805468, PMID:20473778</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9a3a6853-142e-42e9-9637-86a1ad5ff76c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22032831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15805468"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20473778"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5537.06" y="20317.0"/> <port id="pr_9a3a6853-142e-42e9-9637-86a1ad5ff76c_p1" x="5542.06" y="20307.0"/> <port id="pr_9a3a6853-142e-42e9-9637-86a1ad5ff76c_p2" x="5542.06" y="20337.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ec945ccc-72a1-44a7-b1d1-e59ff17597e6"> <bbox w="10.0" h="10.0" x="9955.0" y="4320.0"/> <port id="pr_ec945ccc-72a1-44a7-b1d1-e59ff17597e6_p1" x="9960.0" y="4310.0"/> <port id="pr_ec945ccc-72a1-44a7-b1d1-e59ff17597e6_p2" x="9960.0" y="4340.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f26c39c5-260f-47e9-927d-2c0c65ef75f9"> <bbox w="10.0" h="10.0" x="6839.1074" y="6129.5"/> <port id="pr_f26c39c5-260f-47e9-927d-2c0c65ef75f9_p1" x="6844.1074" y="6119.5"/> <port id="pr_f26c39c5-260f-47e9-927d-2c0c65ef75f9_p2" x="6844.1074" y="6149.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f479a88-a74a-4087-bc03-4098902c920a"> <bbox w="10.0" h="10.0" x="21010.56" y="15572.955"/> <port id="pr_8f479a88-a74a-4087-bc03-4098902c920a_p1" x="21030.56" y="15577.955"/> <port id="pr_8f479a88-a74a-4087-bc03-4098902c920a_p2" x="21000.56" y="15577.955"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_483d539e-ed49-4bcc-8ce1-6cd2f3b01cc0"> <bbox w="10.0" h="10.0" x="19164.057" y="11556.962"/> <port id="pr_483d539e-ed49-4bcc-8ce1-6cd2f3b01cc0_p1" x="19154.057" y="11561.962"/> <port id="pr_483d539e-ed49-4bcc-8ce1-6cd2f3b01cc0_p2" x="19184.057" y="11561.962"/> </glyph> <glyph class="process" orientation="vertical" id="pr_adbfddac-be59-439a-b952-ba2bae86442d"> <bbox w="10.0" h="10.0" x="26680.193" y="15336.5"/> <port id="pr_adbfddac-be59-439a-b952-ba2bae86442d_p1" x="26685.193" y="15326.5"/> <port id="pr_adbfddac-be59-439a-b952-ba2bae86442d_p2" x="26685.193" y="15356.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b8c0a574-8e16-45cf-b222-aaafca0da1d3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27656.56" y="11391.5"/> <port id="pr_b8c0a574-8e16-45cf-b222-aaafca0da1d3_p1" x="27646.56" y="11396.5"/> <port id="pr_b8c0a574-8e16-45cf-b222-aaafca0da1d3_p2" x="27676.56" y="11396.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a468b856-8d77-499b-b962-43c972a97bc0"> <bbox w="10.0" h="10.0" x="28900.285" y="16005.25"/> <port id="pr_a468b856-8d77-499b-b962-43c972a97bc0_p1" x="28905.285" y="16025.25"/> <port id="pr_a468b856-8d77-499b-b962-43c972a97bc0_p2" x="28905.285" y="15995.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_faed46bb-0085-4b73-99ef-05235a8fa8a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16054035</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_faed46bb-0085-4b73-99ef-05235a8fa8a9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054035"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21574.0"/> <port id="pr_faed46bb-0085-4b73-99ef-05235a8fa8a9_p1" x="26547.56" y="21579.0"/> <port id="pr_faed46bb-0085-4b73-99ef-05235a8fa8a9_p2" x="26577.56" y="21579.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cef46985-465c-4cce-8a76-4a81786b5764"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21725609</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cef46985-465c-4cce-8a76-4a81786b5764"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21725609"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2006.75" y="8905.5"/> <port id="pr_cef46985-465c-4cce-8a76-4a81786b5764_p1" x="2011.75" y="8925.5"/> <port id="pr_cef46985-465c-4cce-8a76-4a81786b5764_p2" x="2011.75" y="8895.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8e09f67b-3392-4fe1-8a15-12c19f9cecde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9130713</p> <p>PMID:10075695</p> <p>in 293T, IP</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e09f67b-3392-4fe1-8a15-12c19f9cecde"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9130713"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10075695"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22352.498" y="14123.74"/> <port id="pr_8e09f67b-3392-4fe1-8a15-12c19f9cecde_p1" x="22372.498" y="14128.74"/> <port id="pr_8e09f67b-3392-4fe1-8a15-12c19f9cecde_p2" x="22342.498" y="14128.74"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2dc2e615-b6e9-4b98-a074-736b8ddd2dd9"> <bbox w="10.0" h="10.0" x="16210.936" y="19438.75"/> <port id="pr_2dc2e615-b6e9-4b98-a074-736b8ddd2dd9_p1" x="16230.936" y="19443.75"/> <port id="pr_2dc2e615-b6e9-4b98-a074-736b8ddd2dd9_p2" x="16200.936" y="19443.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e1c3cffe-ac0b-4ccb-a97f-1fdafd58704d"> <bbox w="10.0" h="10.0" x="20556.31" y="10464.0"/> <port id="pr_e1c3cffe-ac0b-4ccb-a97f-1fdafd58704d_p1" x="20576.31" y="10469.0"/> <port id="pr_e1c3cffe-ac0b-4ccb-a97f-1fdafd58704d_p2" x="20546.31" y="10469.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_7fccc3cd-bcd2-4059-9e0e-6a7ae4b77ff3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18813803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7fccc3cd-bcd2-4059-9e0e-6a7ae4b77ff3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="20874.566"/> <port id="pr_7fccc3cd-bcd2-4059-9e0e-6a7ae4b77ff3_p1" x="26547.56" y="20879.566"/> <port id="pr_7fccc3cd-bcd2-4059-9e0e-6a7ae4b77ff3_p2" x="26577.56" y="20879.566"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9089ea72-fb2b-4e67-a076-9ec9abf2c467"> <bbox w="10.0" h="10.0" x="13151.393" y="9577.312"/> <port id="pr_9089ea72-fb2b-4e67-a076-9ec9abf2c467_p1" x="13171.393" y="9582.312"/> <port id="pr_9089ea72-fb2b-4e67-a076-9ec9abf2c467_p2" x="13141.393" y="9582.312"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8de3c895-5365-4312-9bd8-697449eb29ed"> <bbox w="10.0" h="10.0" x="19518.936" y="14529.186"/> <port id="pr_8de3c895-5365-4312-9bd8-697449eb29ed_p1" x="19538.936" y="14534.186"/> <port id="pr_8de3c895-5365-4312-9bd8-697449eb29ed_p2" x="19508.936" y="14534.186"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e79d568f-8eb1-4757-86a3-9bf59e6134c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11064451</p> <p>DUSP1</p> <p>PMID:11359773</p> <p>DUSP16</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e79d568f-8eb1-4757-86a3-9bf59e6134c4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11064451"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11359773"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21934.06" y="11212.5"/> <port id="pr_e79d568f-8eb1-4757-86a3-9bf59e6134c4_p1" x="21939.06" y="11232.5"/> <port id="pr_e79d568f-8eb1-4757-86a3-9bf59e6134c4_p2" x="21939.06" y="11202.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c8832187-9f3e-4bf3-af62-bc24ab3a9045"> <bbox w="10.0" h="10.0" x="18004.06" y="9899.0"/> <port id="pr_c8832187-9f3e-4bf3-af62-bc24ab3a9045_p1" x="17994.06" y="9904.0"/> <port id="pr_c8832187-9f3e-4bf3-af62-bc24ab3a9045_p2" x="18024.06" y="9904.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4467005a-90fe-4dce-a777-d90ad438772f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>The transcription complex containing P300 initiates transcription of genes that are involved in differentiation.</p> <p>PMID:20920541</p> <p>The repressor complex is is by default present on the enhancers of wnt-target genes</p> <p>PMID:16510874</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4467005a-90fe-4dce-a777-d90ad438772f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20920541"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510874"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21921.56" y="22028.922"/> <port id="pr_4467005a-90fe-4dce-a777-d90ad438772f_p1" x="21911.56" y="22033.922"/> <port id="pr_4467005a-90fe-4dce-a777-d90ad438772f_p2" x="21941.56" y="22033.922"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b6a8a93b-7c4d-4421-97bc-44f99855f2cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22237395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b6a8a93b-7c4d-4421-97bc-44f99855f2cb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22237395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11597.242" y="15199.494"/> <port id="pr_b6a8a93b-7c4d-4421-97bc-44f99855f2cb_p1" x="11617.242" y="15204.494"/> <port id="pr_b6a8a93b-7c4d-4421-97bc-44f99855f2cb_p2" x="11587.242" y="15204.494"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e9ab2911-3a29-400d-a48b-b75670f299fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21081489</p> <p>miR-200b interacts with the Ets-encoding RNA to exert translational repression</p> <p>PMID:20706219</p> <p>ETS1, WASF3 and WAVE3 are targeted by MIR-200B</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9ab2911-3a29-400d-a48b-b75670f299fb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21081489"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3145.5" y="17761.75"/> <port id="pr_e9ab2911-3a29-400d-a48b-b75670f299fb_p1" x="3150.5" y="17751.75"/> <port id="pr_e9ab2911-3a29-400d-a48b-b75670f299fb_p2" x="3150.5" y="17781.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8f544fa0-34d4-4d6c-8ed4-b60cafefc682"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11175744</p> <p>in vitro, Y2H</p> <p>in vitro, GST pulldown</p> <p>in transfected Hela cells, coIP</p> <p>in Hela cells expressing fluorescent proein fusions, XAF1 is nuclear and its co-expression with XIAP induces XIAP nuclear retention</p> <p>in vitro, XIAP mediated inhibition of CASP3 activity is blocked by XAF1</p> <p>in HEL-299 human embryonic lung cells, XAF1 expression reverts the protective effect of XIAP expression toward serum deprivation-induced cell death</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f544fa0-34d4-4d6c-8ed4-b60cafefc682"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11175744"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22565.316" y="16133.5"/> <port id="pr_8f544fa0-34d4-4d6c-8ed4-b60cafefc682_p1" x="22570.316" y="16123.5"/> <port id="pr_8f544fa0-34d4-4d6c-8ed4-b60cafefc682_p2" x="22570.316" y="16153.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bf40ecc7-9d69-4e93-a636-0b70ee2ae2a7"> <bbox w="10.0" h="10.0" x="26976.326" y="16094.5"/> <port id="pr_bf40ecc7-9d69-4e93-a636-0b70ee2ae2a7_p1" x="26981.326" y="16114.5"/> <port id="pr_bf40ecc7-9d69-4e93-a636-0b70ee2ae2a7_p2" x="26981.326" y="16084.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0a4eddc6-6c9b-4c97-a09a-96cee91b6723"> <bbox w="10.0" h="10.0" x="24333.0" y="5264.472"/> <port id="pr_0a4eddc6-6c9b-4c97-a09a-96cee91b6723_p1" x="24353.0" y="5269.472"/> <port id="pr_0a4eddc6-6c9b-4c97-a09a-96cee91b6723_p2" x="24323.0" y="5269.472"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f64500a-b6a9-43b1-9740-5dd71d844162"> <bbox w="10.0" h="10.0" x="11826.25" y="1577.0"/> <port id="pr_3f64500a-b6a9-43b1-9740-5dd71d844162_p1" x="11831.25" y="1567.0"/> <port id="pr_3f64500a-b6a9-43b1-9740-5dd71d844162_p2" x="11831.25" y="1597.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c53d6929-26db-447f-bba3-548babf649de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14627988</p> <p>in mouse macrophages</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c53d6929-26db-447f-bba3-548babf649de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14627988"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23882.309" y="16155.342"/> <port id="pr_c53d6929-26db-447f-bba3-548babf649de_p1" x="23887.309" y="16175.342"/> <port id="pr_c53d6929-26db-447f-bba3-548babf649de_p2" x="23887.309" y="16145.342"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7d37a677-f739-449d-8e0e-205bb0d17d31"> <bbox w="10.0" h="10.0" x="21984.43" y="22841.75"/> <port id="pr_7d37a677-f739-449d-8e0e-205bb0d17d31_p1" x="21989.43" y="22831.75"/> <port id="pr_7d37a677-f739-449d-8e0e-205bb0d17d31_p2" x="21989.43" y="22861.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6bb8b7fd-e5a6-4847-943a-783a2aaad454"> <bbox w="10.0" h="10.0" x="25577.965" y="2556.25"/> <port id="pr_6bb8b7fd-e5a6-4847-943a-783a2aaad454_p1" x="25567.965" y="2561.25"/> <port id="pr_6bb8b7fd-e5a6-4847-943a-783a2aaad454_p2" x="25597.965" y="2561.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_32ccce94-733c-42e3-9dea-256833663479"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18464261</p> <p>in human squamous cell carcinoma from the tongue</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_32ccce94-733c-42e3-9dea-256833663479"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18464261"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23034.154" y="15957.25"/> <port id="pr_32ccce94-733c-42e3-9dea-256833663479_p1" x="23039.154" y="15977.25"/> <port id="pr_32ccce94-733c-42e3-9dea-256833663479_p2" x="23039.154" y="15947.25"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_ed555d32-98ff-4ac1-bd03-4f04161e0050"> <bbox w="20.0" h="20.0" x="23371.691" y="15741.87"/> <port id="logicglyph_ed555d32-98ff-4ac1-bd03-4f04161e0050_p1" x="23401.691" y="15751.87"/> <port id="logicglyph_ed555d32-98ff-4ac1-bd03-4f04161e0050_p2" x="23361.691" y="15751.87"/> </glyph> <glyph class="process" orientation="vertical" id="pr_05e7eb66-975e-4fed-b3c0-f28fae8c646b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>from KEGG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18542.686" y="11403.845"/> <port id="pr_05e7eb66-975e-4fed-b3c0-f28fae8c646b_p1" x="18547.686" y="11393.845"/> <port id="pr_05e7eb66-975e-4fed-b3c0-f28fae8c646b_p2" x="18547.686" y="11423.845"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_a4bfba95-66e8-4cfa-ba28-9fcee1070a14"> <bbox w="20.0" h="20.0" x="18236.201" y="11476.541"/> <port id="logicglyph_a4bfba95-66e8-4cfa-ba28-9fcee1070a14_p1" x="18226.201" y="11486.541"/> <port id="logicglyph_a4bfba95-66e8-4cfa-ba28-9fcee1070a14_p2" x="18266.201" y="11486.541"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2156d4af-e46e-425b-bdf8-f10505007f7d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:27439607</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2156d4af-e46e-425b-bdf8-f10505007f7d"> <bqbiol:isEncodedBy> 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y="9569.748"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1471fb01-1ecd-48e8-b6c9-09dd58b21e0a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19112.873" y="13476.3125"/> <port id="pr_1471fb01-1ecd-48e8-b6c9-09dd58b21e0a_p1" x="19132.873" y="13481.3125"/> <port id="pr_1471fb01-1ecd-48e8-b6c9-09dd58b21e0a_p2" x="19102.873" y="13481.3125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_119c1c3b-d183-4517-b149-dcc7c95bb978"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Upon ligand-induced TNFR1 trimerisation (not modelled) the TNFR1 death domain binds the death domain of the platform adapter protein TRADD. In contrast TNFR2 does not possess a death domain and instead binds directly to TRAF proteins (TRAF2).</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_119c1c3b-d183-4517-b149-dcc7c95bb978"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10140.557" y="19061.46"/> <port id="pr_119c1c3b-d183-4517-b149-dcc7c95bb978_p1" x="10130.557" y="19066.46"/> <port id="pr_119c1c3b-d183-4517-b149-dcc7c95bb978_p2" x="10160.557" y="19066.46"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_57a0c298-c618-414e-80f5-a57462227401"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:7479768</p> <p>PMID:8262969</p> <p>ABR and BCR as a GAP of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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id="pr_8121c209-5a13-481a-9146-f3997958925b_p2" x="21365.625" y="6611.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_abe792fd-14e2-42b5-8840-76432519ac35"> <bbox w="10.0" h="10.0" x="2595.9814" y="3468.75"/> <port id="pr_abe792fd-14e2-42b5-8840-76432519ac35_p1" x="2600.9814" y="3488.75"/> <port id="pr_abe792fd-14e2-42b5-8840-76432519ac35_p2" x="2600.9814" y="3458.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2b5a7269-3171-4301-9ced-0febcddef6ff"> <bbox w="10.0" h="10.0" x="11552.5" y="5717.5"/> <port id="pr_2b5a7269-3171-4301-9ced-0febcddef6ff_p1" x="11557.5" y="5737.5"/> <port id="pr_2b5a7269-3171-4301-9ced-0febcddef6ff_p2" x="11557.5" y="5707.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f95cc47-d7a7-4dab-a39f-87e23f7f8b92"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22286770</p> <p>inhibitory Smad7 mRNA is a target for all 3 members of MIR106B/25 subfamily (MIR106B, MIR93, MIR25)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2f95cc47-d7a7-4dab-a39f-87e23f7f8b92"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22286770"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2748.5" y="17949.0"/> <port 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<title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5752.5" y="18572.5"/> <port id="pr_ff0f39a6-d9b1-4eb4-bedc-aa341eb556b1_p1" x="5757.5" y="18562.5"/> <port id="pr_ff0f39a6-d9b1-4eb4-bedc-aa341eb556b1_p2" x="5757.5" y="18592.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d8559780-800a-4849-97bc-a6e780dead1f"> <bbox w="10.0" h="10.0" x="25869.06" y="14254.0"/> <port id="pr_d8559780-800a-4849-97bc-a6e780dead1f_p1" x="25859.06" y="14259.0"/> <port id="pr_d8559780-800a-4849-97bc-a6e780dead1f_p2" x="25889.06" y="14259.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5e063aff-ebf2-427d-ac9b-22f9fad2b3e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1828.5" y="12843.0"/> <port id="pr_5e063aff-ebf2-427d-ac9b-22f9fad2b3e9_p1" x="1818.5" y="12848.0"/> <port id="pr_5e063aff-ebf2-427d-ac9b-22f9fad2b3e9_p2" x="1848.5" y="12848.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_605915a2-dbe1-449d-b687-b1c8668aed29"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3169.274" y="14214.25"/> <port id="pr_605915a2-dbe1-449d-b687-b1c8668aed29_p1" x="3174.274" y="14234.25"/> <port id="pr_605915a2-dbe1-449d-b687-b1c8668aed29_p2" x="3174.274" y="14204.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_228347cc-c487-4a94-a035-dbfec8dcc996"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20710043</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_228347cc-c487-4a94-a035-dbfec8dcc996"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20710043"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20903.31" y="22377.857"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17490644</p> <p>Snai1 and TCF3 (E47) upregulate both mRNA and protein level of ID1</p> <p>This upregulation depends on SP1 or AP1 co-transcription factors</p> <p>Erk contributes to the recruitment or assembly of proteins to Id-1 promoter</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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healthy individuals, but not from ATM-deficient AT patients, upon H2O2PMID:12546687</p> <p>In normoxic cells, the very low AMP/ATP ratio (about 0.05) keeps AMPK mainly in the inactive form</p> <p>PMID:19942859</p> <p>PMID:23030059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c0cfac77-7963-4ce3-a13c-2a71a2a8f4fb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15509864"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8910387"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19197243"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20160076"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="H2O2urn:miriam:pubmed:12546687"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19942859"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25897.56" y="11443.5"/> <port id="pr_c0cfac77-7963-4ce3-a13c-2a71a2a8f4fb_p1" x="25887.56" y="11448.5"/> <port id="pr_c0cfac77-7963-4ce3-a13c-2a71a2a8f4fb_p2" x="25917.56" y="11448.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c76e3188-ea42-4ca6-beed-219770f7476e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="29293.06" y="10557.0"/> <port id="pr_c76e3188-ea42-4ca6-beed-219770f7476e_p1" x="29313.06" y="10562.0"/> <port id="pr_c76e3188-ea42-4ca6-beed-219770f7476e_p2" x="29283.06" y="10562.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_df6b03e8-7086-4bd7-bc5d-b8a03f0377a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>cf. Rb pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21846.56" y="16509.0"/> <port id="pr_df6b03e8-7086-4bd7-bc5d-b8a03f0377a8_p1" x="21851.56" y="16529.0"/> <port id="pr_df6b03e8-7086-4bd7-bc5d-b8a03f0377a8_p2" x="21851.56" y="16499.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_21bed053-b426-416b-94b8-b10e7c0aef64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_21bed053-b426-416b-94b8-b10e7c0aef64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28284838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3759.6936" y="11418.5"/> <port id="pr_21bed053-b426-416b-94b8-b10e7c0aef64_p1" x="3764.6936" y="11408.5"/> <port id="pr_21bed053-b426-416b-94b8-b10e7c0aef64_p2" x="3764.6936" y="11438.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02a5136e-b45c-459b-9a45-54755961fff0"> <bbox w="10.0" h="10.0" x="4241.528" y="4869.25"/> <port id="pr_02a5136e-b45c-459b-9a45-54755961fff0_p1" x="4246.528" y="4859.25"/> <port id="pr_02a5136e-b45c-459b-9a45-54755961fff0_p2" x="4246.528" y="4889.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3a30ae48-e76b-47b1-8e72-482940b30ccf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12138125</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3a30ae48-e76b-47b1-8e72-482940b30ccf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26190.56" y="20773.0"/> <port id="pr_3a30ae48-e76b-47b1-8e72-482940b30ccf_p1" x="26180.56" y="20778.0"/> <port id="pr_3a30ae48-e76b-47b1-8e72-482940b30ccf_p2" x="26210.56" y="20778.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ee2f7d4-c5b0-493f-808d-5509224afcaa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18078820</p> <p>PMID:22137788</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6ee2f7d4-c5b0-493f-808d-5509224afcaa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18078820"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22137788"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3428.2307" y="9148.346"/> <port id="pr_6ee2f7d4-c5b0-493f-808d-5509224afcaa_p1" x="3433.2307" y="9168.346"/> <port id="pr_6ee2f7d4-c5b0-493f-808d-5509224afcaa_p2" x="3433.2307" y="9138.346"/> </glyph> <glyph class="process" orientation="vertical" id="pr_35a7bb0c-1423-4016-a3fe-976cd6072a41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15684387</p> <p>by NRF1 and NRF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_35a7bb0c-1423-4016-a3fe-976cd6072a41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15684387"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20029.441" y="16178.5"/> <port id="pr_35a7bb0c-1423-4016-a3fe-976cd6072a41_p1" x="20034.441" y="16198.5"/> <port id="pr_35a7bb0c-1423-4016-a3fe-976cd6072a41_p2" x="20034.441" y="16168.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c1d7b078-84e6-4bda-b8cf-9ecd0c3a3f96"> <bbox w="10.0" h="10.0" x="27486.326" y="16304.0"/> <port id="pr_c1d7b078-84e6-4bda-b8cf-9ecd0c3a3f96_p1" x="27491.326" y="16324.0"/> <port id="pr_c1d7b078-84e6-4bda-b8cf-9ecd0c3a3f96_p2" x="27491.326" y="16294.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_58b87cd5-ff34-46de-a390-34c221e5af72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Any other mechanism of ERK activation not explicitly modelled.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="9674.144" y="20110.668"/> <port id="pr_58b87cd5-ff34-46de-a390-34c221e5af72_p1" x="9664.144" y="20115.668"/> <port id="pr_58b87cd5-ff34-46de-a390-34c221e5af72_p2" x="9694.144" y="20115.668"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_89c7653e-58b1-4437-a192-da93c8a49781"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>in vitro by CASP3, CASP7, CASP8</p> <p>in Ba/F3 upon IL3 deprivation, in FDCP1 upon IL3 deprivation, in U937 upon serum starvation, z-VAD-fmk inhibitable cleavagePMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_89c7653e-58b1-4437-a192-da93c8a49781"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="cleavageurn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27951.81" y="11624.0"/> <port id="pr_89c7653e-58b1-4437-a192-da93c8a49781_p1" x="27941.81" y="11629.0"/> <port id="pr_89c7653e-58b1-4437-a192-da93c8a49781_p2" x="27971.81" y="11629.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_70d0be62-d601-4051-be86-86b5fc2f64d2"> <bbox w="10.0" h="10.0" x="17833.56" y="20531.0"/> <port id="pr_70d0be62-d601-4051-be86-86b5fc2f64d2_p1" x="17853.56" y="20536.0"/> <port id="pr_70d0be62-d601-4051-be86-86b5fc2f64d2_p2" x="17823.56" y="20536.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3921193b-731a-46dd-9111-6a0f43dc6f8e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TGF-?? exerts its biological effects by binding to a cell surface receptor complex composed of type I (TbRI) and type II (TbRII) receptor serine/threonine kinases. Upon ligand binding TbRII phosphorylates and activates TbRI which subsequently phosphorylates the cytoplasmic Smad2 and Smad3 proteins. Phosphorylated Smad proteins form stable complexes with a common partner Smad4. The activated Smad2/4 and Smad3/4 complexes translocate into the nucleus where the Smad oligomers induce transcriptional activation (or inhibition) of specific target genes.</p> <p>PMID:21614932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3921193b-731a-46dd-9111-6a0f43dc6f8e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11488.061" y="20319.0"/> <port id="pr_3921193b-731a-46dd-9111-6a0f43dc6f8e_p1" x="11493.061" y="20309.0"/> <port id="pr_3921193b-731a-46dd-9111-6a0f43dc6f8e_p2" x="11493.061" y="20339.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c759d775-53bb-4423-8d06-b5f61c99e51a"> <bbox w="10.0" h="10.0" x="12065.233" y="9422.195"/> <port id="pr_c759d775-53bb-4423-8d06-b5f61c99e51a_p1" x="12070.233" y="9412.195"/> <port id="pr_c759d775-53bb-4423-8d06-b5f61c99e51a_p2" x="12070.233" y="9442.195"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c89ff07-619a-4358-ac9c-cfea684ccaea"> <bbox w="10.0" h="10.0" x="22260.691" y="21435.0"/> <port id="pr_8c89ff07-619a-4358-ac9c-cfea684ccaea_p1" x="22265.691" y="21455.0"/> <port id="pr_8c89ff07-619a-4358-ac9c-cfea684ccaea_p2" x="22265.691" y="21425.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_396195b9-88c0-411b-b2e6-39ef1ee047c1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Nuclear shuttling of activated P38 is assumed similarly to ERK.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10724.576" y="20347.592"/> <port id="pr_396195b9-88c0-411b-b2e6-39ef1ee047c1_p1" x="10744.576" y="20352.592"/> <port id="pr_396195b9-88c0-411b-b2e6-39ef1ee047c1_p2" x="10714.576" y="20352.592"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b607dbdb-befb-4fc6-bd3d-afd051e727ac"> <bbox w="10.0" h="10.0" x="18613.125" y="7518.75"/> <port id="pr_b607dbdb-befb-4fc6-bd3d-afd051e727ac_p1" x="18618.125" y="7508.75"/> <port id="pr_b607dbdb-befb-4fc6-bd3d-afd051e727ac_p2" x="18618.125" y="7538.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_8d750df5-6c5c-4ebd-9463-cbe0db4ca5d6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3697.75" y="19023.5"/> <port id="pr_8d750df5-6c5c-4ebd-9463-cbe0db4ca5d6_p1" x="3717.75" y="19028.5"/> <port id="pr_8d750df5-6c5c-4ebd-9463-cbe0db4ca5d6_p2" x="3687.75" y="19028.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a0422274-4926-43c1-a4e3-0c2b0259d941"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20712011</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a0422274-4926-43c1-a4e3-0c2b0259d941"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20712011"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26791.56" y="20795.45"/> <port id="pr_a0422274-4926-43c1-a4e3-0c2b0259d941_p1" x="26781.56" y="20800.45"/> <port id="pr_a0422274-4926-43c1-a4e3-0c2b0259d941_p2" x="26811.56" y="20800.45"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f347f3b-e252-46e3-bc4c-48966539a271"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f347f3b-e252-46e3-bc4c-48966539a271"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6353.25" y="10416.0"/> <port id="pr_5f347f3b-e252-46e3-bc4c-48966539a271_p1" x="6358.25" y="10436.0"/> <port id="pr_5f347f3b-e252-46e3-bc4c-48966539a271_p2" x="6358.25" y="10406.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b1391beb-b464-4727-af2b-cb6bd8ddde6c"> <bbox w="10.0" h="10.0" x="12143.77" y="15084.5"/> <port id="pr_b1391beb-b464-4727-af2b-cb6bd8ddde6c_p1" x="12148.77" y="15074.5"/> <port id="pr_b1391beb-b464-4727-af2b-cb6bd8ddde6c_p2" x="12148.77" y="15104.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_71e4ed6f-75dc-4956-a1da-f5742786bfd9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> <p>PMID:18813293</p> <p>review</p> <p>through RAD50</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_71e4ed6f-75dc-4956-a1da-f5742786bfd9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813293"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18172.81" y="16739.0"/> <port id="pr_71e4ed6f-75dc-4956-a1da-f5742786bfd9_p1" x="18162.81" y="16744.0"/> <port id="pr_71e4ed6f-75dc-4956-a1da-f5742786bfd9_p2" x="18192.81" y="16744.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e005d8c5-c197-40a1-b662-82ce03841a66"> <bbox w="10.0" h="10.0" x="12355.074" y="18828.111"/> <port id="pr_e005d8c5-c197-40a1-b662-82ce03841a66_p1" x="12360.074" y="18818.111"/> <port id="pr_e005d8c5-c197-40a1-b662-82ce03841a66_p2" x="12360.074" y="18848.111"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d40cb3a-e836-4cb2-a8a3-a46775ddabd8"> <bbox w="10.0" h="10.0" x="22877.5" y="3251.3638"/> <port id="pr_0d40cb3a-e836-4cb2-a8a3-a46775ddabd8_p1" x="22867.5" y="3256.3638"/> <port id="pr_0d40cb3a-e836-4cb2-a8a3-a46775ddabd8_p2" x="22897.5" y="3256.3638"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5acecc79-924d-4d6a-ae56-30d718811a5f"> <bbox w="10.0" h="10.0" x="3608.625" y="9511.746"/> <port id="pr_5acecc79-924d-4d6a-ae56-30d718811a5f_p1" x="3598.625" y="9516.746"/> <port id="pr_5acecc79-924d-4d6a-ae56-30d718811a5f_p2" x="3628.625" y="9516.746"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_87dbdb2c-0745-4627-986a-7ad900afb960"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18083840</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_87dbdb2c-0745-4627-986a-7ad900afb960"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18083840"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11051.925" y="13862.286"/> <port id="pr_87dbdb2c-0745-4627-986a-7ad900afb960_p1" x="11071.925" y="13867.286"/> <port id="pr_87dbdb2c-0745-4627-986a-7ad900afb960_p2" x="11041.925" y="13867.286"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b3400ca5-5b02-4e1e-9d8e-1d49b196ceea"> <bbox w="10.0" h="10.0" x="5538.56" y="21887.0"/> <port id="pr_b3400ca5-5b02-4e1e-9d8e-1d49b196ceea_p1" x="5528.56" y="21892.0"/> <port id="pr_b3400ca5-5b02-4e1e-9d8e-1d49b196ceea_p2" x="5558.56" y="21892.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_5c78664e-d3ab-4af2-aec6-6cd517c0e294"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:16969074</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5c78664e-d3ab-4af2-aec6-6cd517c0e294"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16969074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18404.31" y="22051.0"/> <port id="pr_5c78664e-d3ab-4af2-aec6-6cd517c0e294_p1" x="18394.31" y="22056.0"/> <port id="pr_5c78664e-d3ab-4af2-aec6-6cd517c0e294_p2" x="18424.31" y="22056.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d42c717e-44e8-4b40-a0c5-b6940bd0e31a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d42c717e-44e8-4b40-a0c5-b6940bd0e31a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4628.25" y="10402.5"/> <port id="pr_d42c717e-44e8-4b40-a0c5-b6940bd0e31a_p1" x="4633.25" y="10422.5"/> <port id="pr_d42c717e-44e8-4b40-a0c5-b6940bd0e31a_p2" x="4633.25" y="10392.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_081c0220-49d9-4978-bf24-79a89b362d04"> <bbox w="10.0" h="10.0" x="26512.922" y="12805.25"/> <port id="pr_081c0220-49d9-4978-bf24-79a89b362d04_p1" x="26517.922" y="12825.25"/> <port id="pr_081c0220-49d9-4978-bf24-79a89b362d04_p2" x="26517.922" y="12795.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f4a4698-4329-4518-b908-f0e7c2fb8130"> <bbox w="10.0" h="10.0" x="17958.531" y="1604.5"/> <port id="pr_2f4a4698-4329-4518-b908-f0e7c2fb8130_p1" x="17963.531" y="1594.5"/> <port id="pr_2f4a4698-4329-4518-b908-f0e7c2fb8130_p2" x="17963.531" y="1624.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d903a78c-b098-4087-993d-494870ce5625"> <bbox w="10.0" h="10.0" x="12895.061" y="20461.5"/> <port id="pr_d903a78c-b098-4087-993d-494870ce5625_p1" x="12900.061" y="20451.5"/> <port id="pr_d903a78c-b098-4087-993d-494870ce5625_p2" x="12900.061" y="20481.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a314e49-7904-4b68-85d4-0753df5f89c4"> <bbox w="10.0" h="10.0" x="2318.6782" y="4805.0"/> <port id="pr_8a314e49-7904-4b68-85d4-0753df5f89c4_p1" x="2323.6782" y="4795.0"/> <port id="pr_8a314e49-7904-4b68-85d4-0753df5f89c4_p2" x="2323.6782" y="4825.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_960cd294-aca7-47ba-849d-76738e699dab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID15084260</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12525.061" y="20583.625"/> <port id="pr_960cd294-aca7-47ba-849d-76738e699dab_p1" x="12530.061" y="20573.625"/> <port id="pr_960cd294-aca7-47ba-849d-76738e699dab_p2" x="12530.061" y="20603.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_402fd55d-3d40-4257-9075-2c8463789f8d"> <bbox w="10.0" h="10.0" x="2962.732" y="4020.7441"/> <port id="pr_402fd55d-3d40-4257-9075-2c8463789f8d_p1" x="2952.732" y="4025.7441"/> <port id="pr_402fd55d-3d40-4257-9075-2c8463789f8d_p2" x="2982.732" y="4025.7441"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c3d9a1a-1977-4c09-93cc-4f621613753a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16434164</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7c3d9a1a-1977-4c09-93cc-4f621613753a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16434164"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26799.186" y="21269.447"/> <port id="pr_7c3d9a1a-1977-4c09-93cc-4f621613753a_p1" x="26789.186" y="21274.447"/> <port id="pr_7c3d9a1a-1977-4c09-93cc-4f621613753a_p2" x="26819.186" y="21274.447"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dcaf245c-6f68-4c99-b932-5da8ca465d80"> <bbox w="10.0" h="10.0" x="23370.314" y="15973.75"/> <port id="pr_dcaf245c-6f68-4c99-b932-5da8ca465d80_p1" x="23360.314" y="15978.75"/> <port id="pr_dcaf245c-6f68-4c99-b932-5da8ca465d80_p2" x="23390.314" y="15978.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64db69de-b4b7-430a-8ede-43c9e81d9e59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Sprouty is induced by activated ERK through phosphorylation on Tyr55. It positively regulates EGFR signalling by sequestering Cbl whereas it negatively regulates FGFR signalling by sequestering Grb2 from FSR2.</p> <p>PMID:15173823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64db69de-b4b7-430a-8ede-43c9e81d9e59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15173823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10009.311" y="20139.0"/> <port 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tumor cells. Targeting p53 to mitochondria is sufficient to launch apoptosis. </p> <p>Evidence that p53 translocation to the mitochondria occurs in vivo in irradiatedthymocytes was shown. </p> <p>Further, p53 can directly induce permeabilization of the outer mitochondrial membrane by forming complexes with the protective BCL2L1, resulting in cytochrome c release. </p> <p>p53 binds to BCL2L1 via its DNA binding domain. </p> <p>Tumor-derived transactivation-deficient mutants of p53 concomitantly lose the ability to interact with BCL2L1 and promote cytochrome c release.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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orientation="horizontal" id="pr_40764fc1-9538-47af-ae08-8acd3f4c9a72"> <bbox w="10.0" h="10.0" x="16582.5" y="8441.793"/> <port id="pr_40764fc1-9538-47af-ae08-8acd3f4c9a72_p1" x="16602.5" y="8446.793"/> <port id="pr_40764fc1-9538-47af-ae08-8acd3f4c9a72_p2" x="16572.5" y="8446.793"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a8c7725a-a5e4-4ee1-af4b-df941c4cedb5"> <bbox w="10.0" h="10.0" x="20008.854" y="14793.109"/> <port id="pr_a8c7725a-a5e4-4ee1-af4b-df941c4cedb5_p1" x="20013.854" y="14813.109"/> <port id="pr_a8c7725a-a5e4-4ee1-af4b-df941c4cedb5_p2" x="20013.854" y="14783.109"/> </glyph> <glyph class="process" orientation="vertical" id="pr_692c7fcf-95c9-4130-b620-59aae195b82d"> <bbox w="10.0" h="10.0" x="27422.012" y="15389.0"/> <port id="pr_692c7fcf-95c9-4130-b620-59aae195b82d_p1" x="27427.012" y="15409.0"/> <port id="pr_692c7fcf-95c9-4130-b620-59aae195b82d_p2" x="27427.012" y="15379.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cafc24ae-7be3-41f1-a60f-1f7dd356bcc4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>A small fraction of both ERK and GSK3 is constitutively found in a protease-protected mitochondrial compartment. How this fraction of ERK and GSK3 enters mitochondria is an open question.</p> <p>PMID:20080742</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cafc24ae-7be3-41f1-a60f-1f7dd356bcc4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20080742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9390.389" y="20141.344"/> <port id="pr_cafc24ae-7be3-41f1-a60f-1f7dd356bcc4_p1" x="9410.389" y="20146.344"/> <port id="pr_cafc24ae-7be3-41f1-a60f-1f7dd356bcc4_p2" x="9380.389" y="20146.344"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ee0ad505-569e-4e2f-ae52-ad14c1d9e3ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18420585</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ee0ad505-569e-4e2f-ae52-ad14c1d9e3ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18420585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22250.084" y="11943.26"/> <port id="pr_ee0ad505-569e-4e2f-ae52-ad14c1d9e3ac_p1" x="22255.084" y="11933.26"/> <port id="pr_ee0ad505-569e-4e2f-ae52-ad14c1d9e3ac_p2" x="22255.084" y="11963.26"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_6a3419da-5a70-49df-8817-001d2e2e5952"> <bbox w="20.0" h="20.0" x="22082.03" y="11962.037"/> <port id="logicglyph_6a3419da-5a70-49df-8817-001d2e2e5952_p1" x="22072.03" y="11972.037"/> <port id="logicglyph_6a3419da-5a70-49df-8817-001d2e2e5952_p2" x="22112.03" y="11972.037"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1c46cbcb-b9d7-4b60-8ce0-ac924f7ba9ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10531306</p> <p>allosterinc inhibition of HK1 by glucose 6P</p> <p>PMID:11078441</p> <p>HK inhibition by long-chain acyl-CoAs</p> <p>PMID:10760476</p> <p>PMID:7130182</p> <p>GCK inhibition by long-chain acyl-CoAs</p> <p>PMID:12931191</p> <p>in mouse liver mitochondria GCK activation by phosphorylated BAD within a mitochondrial protein complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1c46cbcb-b9d7-4b60-8ce0-ac924f7ba9ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10531306"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11078441"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10760476"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7130182"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12931191"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18304.06" y="9705.25"/> <port id="pr_1c46cbcb-b9d7-4b60-8ce0-ac924f7ba9ac_p1" x="18309.06" y="9695.25"/> <port id="pr_1c46cbcb-b9d7-4b60-8ce0-ac924f7ba9ac_p2" x="18309.06" y="9725.25"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_13220f68-6f34-4019-a826-7f43b0040ab6"> <bbox w="20.0" h="20.0" x="18355.564" y="9689.435"/> <port id="logicglyph_13220f68-6f34-4019-a826-7f43b0040ab6_p1" x="18385.564" y="9699.435"/> <port id="logicglyph_13220f68-6f34-4019-a826-7f43b0040ab6_p2" x="18345.564" y="9699.435"/> </glyph> <glyph class="process" orientation="vertical" id="pr_35f72c33-d971-4ef3-acfa-fbe34fa57d46"> <bbox w="10.0" h="10.0" x="23378.928" y="1663.75"/> <port id="pr_35f72c33-d971-4ef3-acfa-fbe34fa57d46_p1" x="23383.928" y="1683.75"/> <port id="pr_35f72c33-d971-4ef3-acfa-fbe34fa57d46_p2" x="23383.928" y="1653.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b621b3c3-8832-40a9-9ea6-d04301fd9ef2"> <bbox w="10.0" h="10.0" x="13355.0" y="4816.875"/> <port id="pr_b621b3c3-8832-40a9-9ea6-d04301fd9ef2_p1" x="13360.0" y="4806.875"/> <port id="pr_b621b3c3-8832-40a9-9ea6-d04301fd9ef2_p2" x="13360.0" y="4836.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aae1611c-3643-4b2d-8078-cc8639093bb9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19203586</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aae1611c-3643-4b2d-8078-cc8639093bb9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19203586"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21046.625" y="16147.684"/> <port id="pr_aae1611c-3643-4b2d-8078-cc8639093bb9_p1" x="21051.625" y="16167.684"/> <port id="pr_aae1611c-3643-4b2d-8078-cc8639093bb9_p2" x="21051.625" y="16137.684"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00bb4c8d-fae7-4601-9456-1d85023643e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4636.248" y="18273.836"/> <port id="pr_00bb4c8d-fae7-4601-9456-1d85023643e1_p1" x="4641.248" y="18263.836"/> <port id="pr_00bb4c8d-fae7-4601-9456-1d85023643e1_p2" x="4641.248" y="18293.836"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61e99d47-ee1f-4f79-a6df-bb6776da0371"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5299.7607" y="17961.0"/> <port id="pr_61e99d47-ee1f-4f79-a6df-bb6776da0371_p1" x="5304.7607" y="17951.0"/> <port id="pr_61e99d47-ee1f-4f79-a6df-bb6776da0371_p2" x="5304.7607" y="17981.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_87d10bec-5ea7-4eef-9f2d-622c538bfb46"> <bbox w="10.0" h="10.0" x="15767.211" y="18445.707"/> <port id="pr_87d10bec-5ea7-4eef-9f2d-622c538bfb46_p1" x="15757.211" y="18450.707"/> <port id="pr_87d10bec-5ea7-4eef-9f2d-622c538bfb46_p2" x="15787.211" y="18450.707"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9e27f75b-f505-4fab-a9f2-1e644aea3324"> <bbox w="10.0" h="10.0" x="16073.561" y="18281.0"/> <port id="pr_9e27f75b-f505-4fab-a9f2-1e644aea3324_p1" x="16093.561" y="18286.0"/> <port id="pr_9e27f75b-f505-4fab-a9f2-1e644aea3324_p2" x="16063.561" y="18286.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4437da69-3873-4634-b77a-8dc418295b96"> <bbox w="10.0" h="10.0" x="5206.0" y="8228.7"/> <port id="pr_4437da69-3873-4634-b77a-8dc418295b96_p1" x="5226.0" y="8233.7"/> <port id="pr_4437da69-3873-4634-b77a-8dc418295b96_p2" x="5196.0" y="8233.7"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba853012-68a3-43c8-8ff4-3533a04a2b12"> <bbox w="10.0" h="10.0" x="20172.56" y="10206.0"/> <port id="pr_ba853012-68a3-43c8-8ff4-3533a04a2b12_p1" x="20177.56" y="10196.0"/> <port id="pr_ba853012-68a3-43c8-8ff4-3533a04a2b12_p2" x="20177.56" y="10226.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c42e7af5-9ca1-4854-8bb4-b1dc3e378e18"> <bbox w="10.0" h="10.0" x="20958.812" y="7022.5"/> <port id="pr_c42e7af5-9ca1-4854-8bb4-b1dc3e378e18_p1" x="20963.812" y="7012.5"/> <port id="pr_c42e7af5-9ca1-4854-8bb4-b1dc3e378e18_p2" x="20963.812" y="7042.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_75809626-6fb3-4073-905d-249a881e89b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22370635</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_75809626-6fb3-4073-905d-249a881e89b3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22370635"/> </rdf:Bag> 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id="pr_69e3cd5f-73c0-4ba0-9aac-fa72c3010e9a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_69e3cd5f-73c0-4ba0-9aac-fa72c3010e9a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Rac1 binds to BAIAP2 which in turn associates with WASF2.</p> <p>This stimulates ARP2/3 and leads to actin cytoskeleal polymerization.</p> <p>PMID:16702231</p> <p>WAVE2 (so-called WASF2) activates the ARP2/3 complex for Rac-induced actin polymerization during lamellipodium formation</p> <p>PMID:9843499</p> <p>WASF (WAVE) as regulator of actin reorganization downstream of Rac.</p> <p>Expressed WAVE induces the formation of actin filament clusters.</p> <p>WAVE plays a critical role downstream of Rac in regulating the actin cytoskeleton required for mem- brane ruffling</p> <p>PMID:12054568</p> <p>WAVE2 serves a functional partner of IRSp53 by regulating its interaction with Rac.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_662ca196-4945-41ed-a77a-b684843dabb8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16702231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9843499"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12054568"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6298.0" y="15207.5"/> <port id="pr_662ca196-4945-41ed-a77a-b684843dabb8_p1" 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<title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18281283</p> <p>production of NF-kappaB2 p52 is not tumorigenic but predisposes mice to inflammatory autoimmune disease by repressing Bim expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_676e4058-f0cc-461c-b8ae-6f67a97ed9b7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18281283"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_6108ccfe-204d-4f1d-8591-06eb9958b666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15082531</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 cell cycle arrest.</p> <p>PMID:23140366</p> <p>p16INK4a activates the pRB tumor suppressor, which silences certain proproliferative genes(E2F) by heterochromatinization, thereby instituting a stringent arrest of cell proliferation</p> <p>PMID:19440234</p> <p>p21 suppresses E2F1-dependent Wnt4 expression, thereby controlling cellular growth.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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id="pr_d5c11aa2-0f24-4ea7-b72a-df51a0ee0e35"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19701191</p> <p>Dac1 primarly functions in beta-catenin-independent MODULEs</p> <p>PMID:21718540</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d5c11aa2-0f24-4ea7-b72a-df51a0ee0e35"> 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rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7174.263" y="5902.052"/> <port id="pr_4af976c4-ab98-44e5-8bca-84f9ddfb9895_p1" x="7179.263" y="5922.052"/> <port id="pr_4af976c4-ab98-44e5-8bca-84f9ddfb9895_p2" x="7179.263" y="5892.052"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4cf311a6-680d-4336-b7f4-ecf73120f9e6"> <bbox w="10.0" h="10.0" x="9116.955" y="5129.7227"/> <port id="pr_4cf311a6-680d-4336-b7f4-ecf73120f9e6_p1" x="9121.955" y="5149.7227"/> <port id="pr_4cf311a6-680d-4336-b7f4-ecf73120f9e6_p2" x="9121.955" y="5119.7227"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5e706d9d-37db-40ef-9624-054ebae9da1a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15688067</p> <p>Alpha-actinin servers a link between cytoskeletal actin (in stress fibres) and vinculin at the focal contacts.</p> <p>Phosphorylation of alpha-actinin by FAK1 (PTK2) redues this ability of linking actin to vinculin, thus prevents the maturation of focal contacts.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5e706d9d-37db-40ef-9624-054ebae9da1a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15688067"/> </rdf:Bag> 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id="pr_a6e5fa54-5adf-4a42-90e4-94d983cdfee7"> <bbox w="10.0" h="10.0" x="16415.69" y="8439.35"/> <port id="pr_a6e5fa54-5adf-4a42-90e4-94d983cdfee7_p1" x="16435.69" y="8444.35"/> <port id="pr_a6e5fa54-5adf-4a42-90e4-94d983cdfee7_p2" x="16405.69" y="8444.35"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aed549f9-6283-40c4-8704-2fbfe9999333"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16332722, PMID:15136767</p> <p>ATR binds stalled fork and phosphorylates CHK1 that activates checkpoint, stops cell cycle</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aed549f9-6283-40c4-8704-2fbfe9999333"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16332722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15136767"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11288.895" y="11829.334"/> <port id="pr_aed549f9-6283-40c4-8704-2fbfe9999333_p1" x="11293.895" y="11819.334"/> <port id="pr_aed549f9-6283-40c4-8704-2fbfe9999333_p2" x="11293.895" y="11849.334"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_f6f51705-93a7-40c4-831e-10250d782837"> <bbox w="20.0" h="20.0" x="11293.208" y="14811.778"/> <port id="logicglyph_f6f51705-93a7-40c4-831e-10250d782837_p1" x="11303.208" y="14841.778"/> <port id="logicglyph_f6f51705-93a7-40c4-831e-10250d782837_p2" x="11303.208" y="14801.778"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb378c22-7444-4faa-aa67-7c53de922bcb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15753124</p> <p>in CHO cell with overexpressed human insulin receptor, by AKT2, upon insulin stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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id="pr_1558e29f-55fc-4664-9e27-b38b9d3404f0_p1" x="5680.9453" y="16100.161"/> <port id="pr_1558e29f-55fc-4664-9e27-b38b9d3404f0_p2" x="5710.9453" y="16100.161"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d3d0754-6534-4ad4-9e21-82b75db34d4c"> <bbox w="10.0" h="10.0" x="28451.0" y="7551.25"/> <port id="pr_1d3d0754-6534-4ad4-9e21-82b75db34d4c_p1" x="28456.0" y="7541.25"/> <port id="pr_1d3d0754-6534-4ad4-9e21-82b75db34d4c_p2" x="28456.0" y="7571.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a0c6e588-66ca-4289-90ab-c44610a6d01b"> <bbox w="10.0" h="10.0" x="4940.0" y="2575.5"/> <port id="pr_a0c6e588-66ca-4289-90ab-c44610a6d01b_p1" x="4945.0" y="2595.5"/> <port id="pr_a0c6e588-66ca-4289-90ab-c44610a6d01b_p2" x="4945.0" y="2565.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f8b66f05-3a58-4c5a-ba84-408c42a1a09f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11394904</p> <p>PMID:10652228</p> <p>GEF activity of MCF2 (DBL) towards CDC42 or Rac1 is enhanced upon TNK2 (ACK1) phosphorylation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f8b66f05-3a58-4c5a-ba84-408c42a1a09f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1329.5" y="12689.5"/> <port id="pr_ef5dddae-5e5a-46d5-95ed-a9b1b269736f_p1" x="1319.5" y="12694.5"/> <port id="pr_ef5dddae-5e5a-46d5-95ed-a9b1b269736f_p2" x="1349.5" y="12694.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a5b5f6f-c597-4e59-ac8e-c4759d42e2d4"> <bbox w="10.0" h="10.0" x="13462.811" y="18005.25"/> <port id="pr_9a5b5f6f-c597-4e59-ac8e-c4759d42e2d4_p1" x="13467.811" y="18025.25"/> <port id="pr_9a5b5f6f-c597-4e59-ac8e-c4759d42e2d4_p2" x="13467.811" y="17995.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fee55f7a-49a5-4adf-8011-d27e87fa494a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> <p>PMID:19440036</p> <p>PMID:19945467</p> <p>PMID:26597054</p> <p>PMID:17409395</p> <p>PMID:27328425</p> <p>PMID:27572739</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fee55f7a-49a5-4adf-8011-d27e87fa494a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_98903026-febc-477d-8045-519fb2c6f857_p2" x="28571.121" y="14868.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3ceb08d1-7a24-4cfc-9451-c78e8e40a4d1"> <bbox w="10.0" h="10.0" x="25484.176" y="11215.95"/> <port id="pr_3ceb08d1-7a24-4cfc-9451-c78e8e40a4d1_p1" x="25489.176" y="11205.95"/> <port id="pr_3ceb08d1-7a24-4cfc-9451-c78e8e40a4d1_p2" x="25489.176" y="11235.95"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9c2e9dfe-1549-4641-b897-4558af2716b7"> <bbox w="10.0" h="10.0" x="26961.0" y="8047.5"/> <port id="pr_9c2e9dfe-1549-4641-b897-4558af2716b7_p1" x="26966.0" y="8037.5"/> <port id="pr_9c2e9dfe-1549-4641-b897-4558af2716b7_p2" x="26966.0" y="8067.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_145fabb7-dee2-46e8-aabc-a9c96f9788f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1749.75" y="15044.923"/> <port id="pr_145fabb7-dee2-46e8-aabc-a9c96f9788f0_p1" x="1769.75" y="15049.923"/> <port id="pr_145fabb7-dee2-46e8-aabc-a9c96f9788f0_p2" x="1739.75" y="15049.923"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fed71910-ec77-4cf8-a66b-cdcfb6f9f024"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18936100</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fed71910-ec77-4cf8-a66b-cdcfb6f9f024"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18936100"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21342.56" y="21068.5"/> <port id="pr_fed71910-ec77-4cf8-a66b-cdcfb6f9f024_p1" x="21347.56" y="21088.5"/> <port id="pr_fed71910-ec77-4cf8-a66b-cdcfb6f9f024_p2" x="21347.56" y="21058.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d892099c-cffa-4e09-9666-18cae604292b"> <bbox w="10.0" h="10.0" x="3031.0557" y="9305.25"/> <port id="pr_d892099c-cffa-4e09-9666-18cae604292b_p1" x="3021.0557" y="9310.25"/> <port id="pr_d892099c-cffa-4e09-9666-18cae604292b_p2" x="3051.0557" y="9310.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c9d4af99-95c3-454c-afb4-b7704209e9f6"> <bbox w="10.0" h="10.0" x="11500.174" y="8483.125"/> <port id="pr_c9d4af99-95c3-454c-afb4-b7704209e9f6_p1" x="11490.174" y="8488.125"/> <port id="pr_c9d4af99-95c3-454c-afb4-b7704209e9f6_p2" x="11520.174" y="8488.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9dc0ddc0-890e-488c-a011-e7c0138c720c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16984892</p> <p>in MEFs upon cisPlatin, reversed by JNK1 KO</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9dc0ddc0-890e-488c-a011-e7c0138c720c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16984892"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21484.06" y="16769.0"/> <port id="pr_9dc0ddc0-890e-488c-a011-e7c0138c720c_p1" x="21474.06" y="16774.0"/> <port id="pr_9dc0ddc0-890e-488c-a011-e7c0138c720c_p2" x="21504.06" y="16774.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e2b43711-a191-4189-978d-15aa0d8ee81e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1848.125" y="15047.945"/> <port id="pr_e2b43711-a191-4189-978d-15aa0d8ee81e_p1" x="1868.125" y="15052.945"/> <port id="pr_e2b43711-a191-4189-978d-15aa0d8ee81e_p2" x="1838.125" y="15052.945"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b81a60c7-4a9a-4661-9e9e-3d6308604d60"> <bbox w="10.0" h="10.0" x="3205.9375" y="9443.75"/> <port id="pr_b81a60c7-4a9a-4661-9e9e-3d6308604d60_p1" x="3225.9375" y="9448.75"/> <port id="pr_b81a60c7-4a9a-4661-9e9e-3d6308604d60_p2" x="3195.9375" y="9448.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8ce6a2b0-f394-4270-9df1-c3d4be2886ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8ce6a2b0-f394-4270-9df1-c3d4be2886ba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5672.25" y="12089.553"/> <port id="pr_8ce6a2b0-f394-4270-9df1-c3d4be2886ba_p1" x="5662.25" y="12094.553"/> <port id="pr_8ce6a2b0-f394-4270-9df1-c3d4be2886ba_p2" x="5692.25" y="12094.553"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0800a347-7c39-4f81-a5f1-1edfbf761a9e"> <bbox w="10.0" h="10.0" x="4624.0" y="7045.25"/> <port id="pr_0800a347-7c39-4f81-a5f1-1edfbf761a9e_p1" x="4644.0" y="7050.25"/> <port id="pr_0800a347-7c39-4f81-a5f1-1edfbf761a9e_p2" x="4614.0" y="7050.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b6cd17ee-7618-42f7-9d82-0b99457bc7fe"> <bbox w="10.0" h="10.0" x="13377.364" y="9822.768"/> <port id="pr_b6cd17ee-7618-42f7-9d82-0b99457bc7fe_p1" x="13397.364" y="9827.768"/> <port id="pr_b6cd17ee-7618-42f7-9d82-0b99457bc7fe_p2" x="13367.364" y="9827.768"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f224c788-4c10-4572-92cb-7f1d09af2a2e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1141.5" y="12797.5"/> <port id="pr_f224c788-4c10-4572-92cb-7f1d09af2a2e_p1" x="1146.5" y="12787.5"/> <port id="pr_f224c788-4c10-4572-92cb-7f1d09af2a2e_p2" x="1146.5" y="12817.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_468b8150-cebf-4ff6-b807-bd96b11dc191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2312.25" y="17839.375"/> <port id="pr_468b8150-cebf-4ff6-b807-bd96b11dc191_p1" x="2317.25" y="17829.375"/> <port id="pr_468b8150-cebf-4ff6-b807-bd96b11dc191_p2" x="2317.25" y="17859.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_87ae9a61-62a9-42ab-9e46-2d6e68258895"> <bbox w="10.0" h="10.0" x="26303.81" y="21403.998"/> <port id="pr_87ae9a61-62a9-42ab-9e46-2d6e68258895_p1" x="26308.81" y="21393.998"/> <port id="pr_87ae9a61-62a9-42ab-9e46-2d6e68258895_p2" x="26308.81" y="21423.998"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_2de703fb-6f61-4c5c-bdfa-db23d6733f45"> <bbox w="20.0" h="20.0" x="26239.393" y="21404.0"/> <port id="logicglyph_2de703fb-6f61-4c5c-bdfa-db23d6733f45_p1" x="26229.393" y="21414.0"/> <port id="logicglyph_2de703fb-6f61-4c5c-bdfa-db23d6733f45_p2" x="26269.393" y="21414.0"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_0dd2a7cb-04cc-47b7-ac2d-0f50dfeec28a"> <bbox w="20.0" h="20.0" x="26173.56" y="21493.25"/> <port id="logicglyph_0dd2a7cb-04cc-47b7-ac2d-0f50dfeec28a_p1" x="26163.56" y="21503.25"/> <port id="logicglyph_0dd2a7cb-04cc-47b7-ac2d-0f50dfeec28a_p2" x="26203.56" y="21503.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_52e0dfb7-7516-4865-a18c-efd362e628e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17891140</p> <p>PMID:17106237</p> <p>PMID:22885520</p> <p>PMID:18612260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_52e0dfb7-7516-4865-a18c-efd362e628e1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17891140"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17106237"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22885520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18612260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27410.207" y="11184.25"/> <port id="pr_52e0dfb7-7516-4865-a18c-efd362e628e1_p1" x="27415.207" y="11174.25"/> <port id="pr_52e0dfb7-7516-4865-a18c-efd362e628e1_p2" x="27415.207" y="11204.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4568b789-9a20-46c2-97a2-a0a6a0a7f61e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20661.81" y="11965.125"/> <port id="pr_4568b789-9a20-46c2-97a2-a0a6a0a7f61e_p1" x="20666.81" y="11955.125"/> <port id="pr_4568b789-9a20-46c2-97a2-a0a6a0a7f61e_p2" x="20666.81" y="11985.125"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_07b29eb7-fb22-4977-8191-b6c771157176"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15459715</p> <p>PMID:15448698</p> <p>Dual regulation of Snail by GSK3B-mediated phosphorylation in control of EMT.</p> <p>Snail is highly unstable, with a short half-life about 25 min.</p> <p>GSK-3b binds to and phosphorylates Snail at two consensus motifs to dually regulate the function of this protein.</p> <p>Phosphorylation of the first motif regulates its b-Trcp-mediated ubiquitination, whereas phosphorylation of the second motif controls its subcellular localization.</p> <p>A variant of Snail (Snail-6SA), which abolishes these phosphorylations, is much more stable and resides exclusively in the nucleus to induce EMT</p> <p>Inhibition of GSK-3b results in the upregulation of Snail and downregulation of E-cadherin in vivo</p> <p>Thus, the inhibition of GSK-3b by many extracellular pathways suppresses the phosphorylation of Snail and hence induces the nuclear localization and protein stabilization of Snail, which leads to EMT.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_07b29eb7-fb22-4977-8191-b6c771157176"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15448698"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3444.4243" y="14570.551"/> <port id="pr_07b29eb7-fb22-4977-8191-b6c771157176_p1" x="3464.4243" y="14575.551"/> <port id="pr_07b29eb7-fb22-4977-8191-b6c771157176_p2" x="3434.4243" y="14575.551"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ffc98556-0b36-41e9-8161-4ca81181589d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2417.75" y="16640.15"/> <port id="pr_ffc98556-0b36-41e9-8161-4ca81181589d_p1" x="2407.75" y="16645.15"/> <port id="pr_ffc98556-0b36-41e9-8161-4ca81181589d_p2" x="2437.75" y="16645.15"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d5bf370-b9be-4bb0-9dfc-8b6cc0895662"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16540666</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7d5bf370-b9be-4bb0-9dfc-8b6cc0895662"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16540666"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4435.667" y="10640.0"/> <port id="pr_7d5bf370-b9be-4bb0-9dfc-8b6cc0895662_p1" x="4425.667" y="10645.0"/> <port id="pr_7d5bf370-b9be-4bb0-9dfc-8b6cc0895662_p2" x="4455.667" y="10645.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_f1ac79c0-840e-4347-933b-1d0c1ede19a2"> <bbox w="20.0" h="20.0" x="6144.0" y="9521.0"/> <port id="logicglyph_f1ac79c0-840e-4347-933b-1d0c1ede19a2_p1" x="6174.0" y="9531.0"/> <port id="logicglyph_f1ac79c0-840e-4347-933b-1d0c1ede19a2_p2" x="6134.0" y="9531.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9bc315e5-bf31-4722-8f80-752aa3f1e591"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9bc315e5-bf31-4722-8f80-752aa3f1e591"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4579.5625" y="9366.746"/> <port id="pr_9bc315e5-bf31-4722-8f80-752aa3f1e591_p1" x="4599.5625" y="9371.746"/> <port id="pr_9bc315e5-bf31-4722-8f80-752aa3f1e591_p2" x="4569.5625" y="9371.746"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a356199-0e52-448c-abd9-69cc92b40641"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activated caspase-9 cleaves and activates caspase-3 leading to apoptosis.</p> <p>PMID:9390557</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8a356199-0e52-448c-abd9-69cc92b40641"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9390557"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9371.561" y="19846.0"/> <port id="pr_8a356199-0e52-448c-abd9-69cc92b40641_p1" x="9376.561" y="19866.0"/> <port id="pr_8a356199-0e52-448c-abd9-69cc92b40641_p2" x="9376.561" y="19836.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7863433b-ea14-4382-bc21-08deebd92faf"> <bbox w="10.0" h="10.0" x="26805.566" y="21275.75"/> <port id="pr_7863433b-ea14-4382-bc21-08deebd92faf_p1" x="26810.566" y="21295.75"/> <port id="pr_7863433b-ea14-4382-bc21-08deebd92faf_p2" x="26810.566" y="21265.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_db2da833-7973-47bf-a59a-23bb7ce83ace"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13982.565" y="15050.697"/> <port id="pr_db2da833-7973-47bf-a59a-23bb7ce83ace_p1" x="13972.565" y="15055.697"/> <port id="pr_db2da833-7973-47bf-a59a-23bb7ce83ace_p2" x="14002.565" y="15055.697"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f5ed1f37-172b-4047-858d-5e774cc54743"> <bbox w="10.0" h="10.0" x="15586.25" y="3042.5"/> <port id="pr_f5ed1f37-172b-4047-858d-5e774cc54743_p1" x="15591.25" y="3032.5"/> <port id="pr_f5ed1f37-172b-4047-858d-5e774cc54743_p2" x="15591.25" y="3062.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d2660384-2e3b-45c6-b134-bb8d6250e120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16115917</p> <p>phosphorylation at S461 (isoform PFKFB3-ACG) in different tumor cells</p> <p>in COS-7, expression of a phosphomimetic mutant enhances glycolysis</p> <p>PMID:17712357</p> <p>by AMPK review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16939974</p> <p>neurotrophin binding to Trk receptors results in receptor dimerization and autophosphorylation of their cytoplasmic kinase domains</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9162a3bd-4106-4a4b-b92e-427181177e3b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16939974"/> 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id="pr_19d2fcf5-9385-4c93-9821-f0289df9988c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18381890</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_19d2fcf5-9385-4c93-9821-f0289df9988c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18381890"/> </rdf:Bag> 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orientation="horizontal" id="pr_f55fd621-adfb-40e5-bb61-1f544df5b17d"> <bbox w="10.0" h="10.0" x="26244.06" y="15164.5"/> <port id="pr_f55fd621-adfb-40e5-bb61-1f544df5b17d_p1" x="26234.06" y="15169.5"/> <port id="pr_f55fd621-adfb-40e5-bb61-1f544df5b17d_p2" x="26264.06" y="15169.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_924b91fb-e358-4eb9-ac58-c8a889da6852"> <bbox w="10.0" h="10.0" x="11502.5" y="5717.5"/> <port id="pr_924b91fb-e358-4eb9-ac58-c8a889da6852_p1" x="11507.5" y="5737.5"/> <port id="pr_924b91fb-e358-4eb9-ac58-c8a889da6852_p2" x="11507.5" y="5707.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_34aeb21f-8356-435c-86a4-27ac09c974fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11801603</p> <p>in 293T, interaction of overexpressed proteins, by coIP</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_f1909b17-ae72-4a25-aa95-a42d1478268c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24403062</p> <p>PMID:22073279</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f1909b17-ae72-4a25-aa95-a42d1478268c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22073279"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5593.5" y="10896.0"/> <port id="pr_f1909b17-ae72-4a25-aa95-a42d1478268c_p1" x="5613.5" y="10901.0"/> <port id="pr_f1909b17-ae72-4a25-aa95-a42d1478268c_p2" x="5583.5" y="10901.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_719dfb94-c572-4a7d-9740-21a133f179bf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>IP3 diffuses through the cytosol and binds to receptors on the endoplasmic reticulum causing the release of calcium ions (Ca2+) into the cytosol.</p> <p>http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/S/Second_messengers.html</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="7752.6113" y="19484.75"/> <port id="pr_719dfb94-c572-4a7d-9740-21a133f179bf_p1" 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<p>References:</p> <p>PMID:10783894</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ed2833f-9604-438f-bf5d-9d408fb359ad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10783894"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22320.473" y="16163.75"/> <port id="pr_9ed2833f-9604-438f-bf5d-9d408fb359ad_p1" x="22325.473" y="16183.75"/> <port id="pr_9ed2833f-9604-438f-bf5d-9d408fb359ad_p2" x="22325.473" y="16153.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_baf58535-5977-4ba5-b3b3-f2885529c522"> <bbox w="10.0" h="10.0" x="28896.326" y="16314.0"/> <port id="pr_baf58535-5977-4ba5-b3b3-f2885529c522_p1" x="28901.326" y="16334.0"/> <port id="pr_baf58535-5977-4ba5-b3b3-f2885529c522_p2" x="28901.326" y="16304.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d686b18d-7841-4575-9d40-099e798fde10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15145317</p> <p>The activated IKK complex</p> <p>catalyzes the phosphorylation of IkBs (at sites</p> <p>equivalent to Ser32 and Ser36 of IkBa), polyubiquitination</p> <p>(at sites equivalent to Lys21 and Lys22 of IkBa) and</p> <p> subsequent degradation by the 26S proteasome. The</p> <p>released NF-kB dimers (in this pathway, most commonly</p> <p>the p50– RelA dimer) translocate to the nucleus, bind DNA</p> <p>and activate gene transcription.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d686b18d-7841-4575-9d40-099e798fde10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15145317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2395.3728" y="3176.2524"/> <port id="pr_d686b18d-7841-4575-9d40-099e798fde10_p1" x="2400.3728" y="3166.2524"/> <port id="pr_d686b18d-7841-4575-9d40-099e798fde10_p2" x="2400.3728" y="3196.2524"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8d5dc869-3660-4c17-94cf-ab1baf34c000"> <bbox w="10.0" h="10.0" x="26474.125" y="2056.9092"/> <port id="pr_8d5dc869-3660-4c17-94cf-ab1baf34c000_p1" x="26464.125" y="2061.9092"/> <port id="pr_8d5dc869-3660-4c17-94cf-ab1baf34c000_p2" x="26494.125" y="2061.9092"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8306b174-d77d-49d5-aa08-a77e6732659f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20946121</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8306b174-d77d-49d5-aa08-a77e6732659f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20946121"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26798.488" y="20894.271"/> <port id="pr_8306b174-d77d-49d5-aa08-a77e6732659f_p1" x="26788.488" y="20899.271"/> <port id="pr_8306b174-d77d-49d5-aa08-a77e6732659f_p2" x="26818.488" y="20899.271"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3ea5f90b-c1dc-4b85-b79a-47f28cb85acd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18718909</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3ea5f90b-c1dc-4b85-b79a-47f28cb85acd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18718909"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23194.03" y="16157.5"/> <port id="pr_3ea5f90b-c1dc-4b85-b79a-47f28cb85acd_p1" x="23199.03" y="16177.5"/> <port id="pr_3ea5f90b-c1dc-4b85-b79a-47f28cb85acd_p2" x="23199.03" y="16147.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c1611390-6c22-45f5-9b03-6bbc431bbb44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19131971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c1611390-6c22-45f5-9b03-6bbc431bbb44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18551.56" y="21692.445"/> <port id="pr_c1611390-6c22-45f5-9b03-6bbc431bbb44_p1" x="18541.56" y="21697.445"/> <port id="pr_c1611390-6c22-45f5-9b03-6bbc431bbb44_p2" x="18571.56" y="21697.445"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6575cf78-4d2b-42dd-825b-cc0ee4f70e0a"> <bbox w="10.0" h="10.0" x="28191.0" y="5640.0"/> <port id="pr_6575cf78-4d2b-42dd-825b-cc0ee4f70e0a_p1" x="28196.0" y="5630.0"/> <port id="pr_6575cf78-4d2b-42dd-825b-cc0ee4f70e0a_p2" x="28196.0" y="5660.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_09f3cdf7-0cc7-42d1-8e98-cc0978252ae8"> <bbox w="10.0" h="10.0" x="20877.139" y="12864.75"/> <port id="pr_09f3cdf7-0cc7-42d1-8e98-cc0978252ae8_p1" x="20882.139" y="12884.75"/> <port id="pr_09f3cdf7-0cc7-42d1-8e98-cc0978252ae8_p2" x="20882.139" y="12854.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8b394182-5f8f-41ff-a93f-86246b99188c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9774977</p> <p>ASK1 activation by TRAF2 upon TNF</p> <p>PMID:18292600</p> <p>in vascular endothelial cell, by DAB2IP</p> <p>PMID:15310755</p> <p>DAB2IP</p> <p>PMID:16252010</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b394182-5f8f-41ff-a93f-86246b99188c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9774977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18292600"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15310755"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16252010"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22559.06" y="10424.0"/> <port id="pr_8b394182-5f8f-41ff-a93f-86246b99188c_p1" x="22549.06" y="10429.0"/> <port id="pr_8b394182-5f8f-41ff-a93f-86246b99188c_p2" x="22579.06" y="10429.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_53285347-eef6-4f81-98ac-83dabe2c02fa"> <bbox w="20.0" h="20.0" x="22606.06" y="10388.495"/> <port id="logicglyph_53285347-eef6-4f81-98ac-83dabe2c02fa_p1" x="22636.06" y="10398.495"/> <port id="logicglyph_53285347-eef6-4f81-98ac-83dabe2c02fa_p2" x="22596.06" y="10398.495"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a579971-692e-4c00-8fb2-482640738d4e"> <bbox w="10.0" h="10.0" x="21328.416" y="6935.625"/> <port id="pr_9a579971-692e-4c00-8fb2-482640738d4e_p1" x="21333.416" y="6925.625"/> <port id="pr_9a579971-692e-4c00-8fb2-482640738d4e_p2" x="21333.416" y="6955.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff47e698-0069-449d-970a-62261cd7b314"> <bbox w="10.0" h="10.0" x="17261.367" y="1530.5"/> <port id="pr_ff47e698-0069-449d-970a-62261cd7b314_p1" x="17266.367" y="1550.5"/> <port id="pr_ff47e698-0069-449d-970a-62261cd7b314_p2" x="17266.367" y="1520.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_386f1cb2-54de-4f53-954b-cad4797dc59b"> <bbox w="10.0" h="10.0" x="23534.06" y="12669.0"/> <port id="pr_386f1cb2-54de-4f53-954b-cad4797dc59b_p1" x="23524.06" y="12674.0"/> <port id="pr_386f1cb2-54de-4f53-954b-cad4797dc59b_p2" x="23554.06" y="12674.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dd26580e-c9e6-4180-b17a-6dfc233f33a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1448.3844" y="15002.531"/> <port id="pr_dd26580e-c9e6-4180-b17a-6dfc233f33a9_p1" x="1453.3844" y="14992.531"/> <port id="pr_dd26580e-c9e6-4180-b17a-6dfc233f33a9_p2" x="1453.3844" y="15022.531"/> </glyph> <glyph class="process" orientation="vertical" id="pr_74bb1a34-7475-43a7-b251-5639a0087c1f"> <bbox w="10.0" h="10.0" x="9905.0" y="3896.25"/> <port id="pr_74bb1a34-7475-43a7-b251-5639a0087c1f_p1" x="9910.0" y="3886.25"/> <port id="pr_74bb1a34-7475-43a7-b251-5639a0087c1f_p2" x="9910.0" y="3916.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e98e3f6b-7a59-4fa6-816b-25daa4b065ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18006705</p> <p>PMID:18583988</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e98e3f6b-7a59-4fa6-816b-25daa4b065ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18006705"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18583988"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14749.035" y="15273.641"/> <port id="pr_e98e3f6b-7a59-4fa6-816b-25daa4b065ce_p1" x="14769.035" y="15278.641"/> <port id="pr_e98e3f6b-7a59-4fa6-816b-25daa4b065ce_p2" x="14739.035" y="15278.641"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5bfcacf4-1122-4e50-b04b-1173f1097995"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18212054</p> <p>by MIR106B</p> <p>PMID:15797377</p> <p>in A549 by mTOR, as shown by inhibition of CDKN1A translation upon RAD001, a rapamycin derivative</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5bfcacf4-1122-4e50-b04b-1173f1097995"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18212054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15797377"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21489.422" y="15747.25"/> <port id="pr_5bfcacf4-1122-4e50-b04b-1173f1097995_p1" x="21494.422" y="15767.25"/> <port id="pr_5bfcacf4-1122-4e50-b04b-1173f1097995_p2" x="21494.422" y="15737.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_033344d1-2629-45f5-8015-bd0925e59b57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>APC complex/CDH1(de-phosphorylated)-induce M phase exit:</p> <p>PMID:11598127</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17533374</p> <p>HIF-1 and NF-kappaB upregulates CXCR1 and CXCR2 expression</p> <p>PMID:23869868</p> <p>Chemokine receptor CXCR2 is transactivated by p53</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0851f308-d4e1-4e9c-bd58-c796d93def55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_80e0b63b-7a8d-45ef-a582-5eca7ff445e9_p1" x="13281.973" y="10799.856"/> <port id="pr_80e0b63b-7a8d-45ef-a582-5eca7ff445e9_p2" x="13281.973" y="10829.856"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16770f6c-227b-4d4c-8873-c045b4b1ca10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20348948 PMID:19960541</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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IL3-deprivation induced apoptosis</p> <p>in vitro, incubation of isolated mitochondria with recombinant BECN1 C-terminal cleavage product triggers release of Omi/HtrA2 and cytochrome c</p> <p>PMID:11832478</p> <p>in vitro CASP2 unlike CASP8 induce release of CYCS , DIABLO and AIF form purified mitochondria from Hela cells PMID:PMID:23242420</p> <p>calpain-mediated Bax and Atg5 cleavage resulted in the collapse of the mitochondrial membrane potential and cytochrome c release</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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<p>Recruitment of CTNNB1 via the degradation complex of APC/AXIN1 is regulated by a series of ordered phosphorylation events.</p> <p>Phosphorylation of AXIN1 by CSNK1 (casein kinase 1) and GSK3B can increase axin binding to CTNNB1.</p> <p>PMID:8638126</p> <p>PMID:11487578</p> <p>PMID:15327768</p> <p>AXIN1 also promotes phosphorylation of APC by CSNK1 and GSK3B.</p> <p>Phosphorylated APC has higher affinity to CTNNB1.</p> <p>PMID:12554650</p> <p>Finally, these phosphorylation events allo CTNNB1 to be a more efficient substrate of both CSNK1 (at S45) and the GSK3B (at T41, S33, S37).</p> <p>The affinity of phosphorylated APC to CTNNB1 is higher than that of phosphorylated AXIN1. </p> <p>Therefore upon phosphorylation, APC can displace AXIN1 from CTNNB1, allowing AXIN1 to bind another molecule of CTNNB1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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rdf:resource="urn:miriam:pubmed:11487578"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15327768"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12554650"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1501.5" y="16084.5"/> <port id="pr_e62dba3e-9f48-4945-b53e-1eaef64e29b9_p1" x="1491.5" y="16089.5"/> <port id="pr_e62dba3e-9f48-4945-b53e-1eaef64e29b9_p2" x="1521.5" y="16089.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_de7c9800-997a-49bb-8a03-404c09136d5c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11689443</p> <p>in 293T, in Hela, in L929, interaction between ectopically expressed tagged ASK1 and PPP5</p> <p>in Hela, PPP5 expression inhibits ASK1 activity</p> <p>in vitro, purified ASK1 dephosphorylated by recombinant PPP5</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_de7c9800-997a-49bb-8a03-404c09136d5c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22644.06" y="10529.0"/> <port id="pr_de7c9800-997a-49bb-8a03-404c09136d5c_p1" x="22649.06" y="10549.0"/> <port id="pr_de7c9800-997a-49bb-8a03-404c09136d5c_p2" x="22649.06" y="10519.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8fbcd5cb-d9f2-4a9c-b02a-6dc4e8844196"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8fbcd5cb-d9f2-4a9c-b02a-6dc4e8844196"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11909.588" y="20901.5"/> <port id="pr_8fbcd5cb-d9f2-4a9c-b02a-6dc4e8844196_p1" x="11914.588" y="20921.5"/> <port id="pr_8fbcd5cb-d9f2-4a9c-b02a-6dc4e8844196_p2" x="11914.588" y="20891.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b0648668-793a-4261-8797-2574ebd74b51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Rac1 stimulates actin polymerization by activation of WAS protein family (WASF1 and WASF2)</p> <p>PMID:16212495</p> <p>PMID:9843499</p> <p>PMID:16702231</p> <p>PMID:12181570</p> <p>Rac1 binds to NCKAP1 and CYFIP2 and also promotes NCK1 binding to NCKAP1.</p> <p>This binding inhibits NCKAP1 and CYFIP2 binding to WASF1 and promotes release of the complex of WASF1 and BRK1, thus activating WASF1.</p> <p>Activated WASF1 then stimulates ARP2/3 that mediates actin cytoskeletal polymerizatioin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b0648668-793a-4261-8797-2574ebd74b51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16212495"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9843499"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16702231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12181570"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6468.0" y="15206.5"/> <port id="pr_b0648668-793a-4261-8797-2574ebd74b51_p1" x="6458.0" y="15211.5"/> <port id="pr_b0648668-793a-4261-8797-2574ebd74b51_p2" x="6488.0" y="15211.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_58b82901-f1cc-4a57-9afc-3ff0efcacaa3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16857965</p> <p>identification by Y2H</p> <p>co-IP</p> <p>in vitro, HAX1 prevents the processing of CASP9</p> <p>in rat cardiac myocytes, HAX1 prevents the processing of CASP9 and attenuates apoptosis induced by hypoxia/reperfusion (ectopic expression, RNA interfernce)</p> <p>interaction takes place within mitochondria (data not shown)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_58b82901-f1cc-4a57-9afc-3ff0efcacaa3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16857965"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21267.06" y="13008.777"/> <port id="pr_58b82901-f1cc-4a57-9afc-3ff0efcacaa3_p1" x="21287.06" y="13013.777"/> <port id="pr_58b82901-f1cc-4a57-9afc-3ff0efcacaa3_p2" x="21257.06" y="13013.777"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e863c85-3e79-47f7-8d63-7984b9befcf7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7991614</p> <p>in A549, in rat lung, upon hyperoxia, decreased ACO2 activity</p> <p>PMID:7768942</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6e863c85-3e79-47f7-8d63-7984b9befcf7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7991614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7768942"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18999.81" y="14967.25"/> <port id="pr_6e863c85-3e79-47f7-8d63-7984b9befcf7_p1" x="18989.81" y="14972.25"/> <port id="pr_6e863c85-3e79-47f7-8d63-7984b9befcf7_p2" x="19019.81" y="14972.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8badc261-14fb-43da-aa4d-8ac618ced29a"> <bbox w="10.0" h="10.0" x="27391.56" y="14264.0"/> <port id="pr_8badc261-14fb-43da-aa4d-8ac618ced29a_p1" x="27411.56" y="14269.0"/> <port id="pr_8badc261-14fb-43da-aa4d-8ac618ced29a_p2" x="27381.56" y="14269.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b75f2c46-1bce-4819-b180-b760169680e5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12404124</p> <p>nitric oxide inhibits acid and neutral sphingomyelinases through generation of cyclic GMP and activation of protein kinase G</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b75f2c46-1bce-4819-b180-b760169680e5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12404124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19810.31" y="10321.5"/> <port id="pr_b75f2c46-1bce-4819-b180-b760169680e5_p1" x="19815.31" y="10311.5"/> <port id="pr_b75f2c46-1bce-4819-b180-b760169680e5_p2" x="19815.31" y="10341.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a391421a-7f29-4b21-a3b5-b45e904bdcff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3147.75" y="13947.5"/> <port id="pr_a391421a-7f29-4b21-a3b5-b45e904bdcff_p1" x="3152.75" y="13937.5"/> <port id="pr_a391421a-7f29-4b21-a3b5-b45e904bdcff_p2" x="3152.75" y="13967.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f9e15f7d-b06a-475f-b663-530632c51b68"> <bbox w="10.0" h="10.0" x="28630.285" y="16005.25"/> <port id="pr_f9e15f7d-b06a-475f-b663-530632c51b68_p1" x="28635.285" y="16025.25"/> <port id="pr_f9e15f7d-b06a-475f-b663-530632c51b68_p2" x="28635.285" y="15995.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_39974205-acc9-42bf-8a52-247ca390790b"> <bbox w="10.0" h="10.0" x="2334.567" y="10522.25"/> <port id="pr_39974205-acc9-42bf-8a52-247ca390790b_p1" x="2339.567" y="10542.25"/> <port id="pr_39974205-acc9-42bf-8a52-247ca390790b_p2" x="2339.567" y="10512.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2c420412-3acb-4490-b482-9d36b36f78bd"> <bbox w="10.0" h="10.0" x="18409.31" y="14735.0"/> <port id="pr_2c420412-3acb-4490-b482-9d36b36f78bd_p1" x="18429.31" y="14740.0"/> <port id="pr_2c420412-3acb-4490-b482-9d36b36f78bd_p2" x="18399.31" y="14740.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e3a6e5e5-9c36-4eb2-8364-2d3a6c5eed84"> <bbox w="10.0" h="10.0" x="19245.072" y="14965.75"/> <port id="pr_e3a6e5e5-9c36-4eb2-8364-2d3a6c5eed84_p1" x="19235.072" y="14970.75"/> <port id="pr_e3a6e5e5-9c36-4eb2-8364-2d3a6c5eed84_p2" x="19265.072" y="14970.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_b25b0bdf-6b97-49af-b49e-6c9a60d2a95f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1208.6145" y="12838.291"/> <port id="pr_b25b0bdf-6b97-49af-b49e-6c9a60d2a95f_p1" x="1213.6145" y="12828.291"/> <port id="pr_b25b0bdf-6b97-49af-b49e-6c9a60d2a95f_p2" x="1213.6145" y="12858.291"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_46d9b383-4235-4e1d-aaa9-0512ab9b3f68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1746.0" y="13625.29"/> <port id="pr_46d9b383-4235-4e1d-aaa9-0512ab9b3f68_p1" x="1736.0" y="13630.29"/> <port id="pr_46d9b383-4235-4e1d-aaa9-0512ab9b3f68_p2" x="1766.0" y="13630.29"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_129f6e0f-bcb2-42e7-a7a5-5cfcdf65276c"> <bbox w="10.0" h="10.0" x="5063.0" y="1122.2307"/> <port id="pr_129f6e0f-bcb2-42e7-a7a5-5cfcdf65276c_p1" x="5083.0" y="1127.2307"/> <port id="pr_129f6e0f-bcb2-42e7-a7a5-5cfcdf65276c_p2" x="5053.0" y="1127.2307"/> </glyph> <glyph class="process" orientation="vertical" id="pr_734c8ec2-addb-4c01-885b-d56dba973e91"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4340.204" y="18273.625"/> <port id="pr_734c8ec2-addb-4c01-885b-d56dba973e91_p1" x="4345.204" y="18263.625"/> <port id="pr_734c8ec2-addb-4c01-885b-d56dba973e91_p2" x="4345.204" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bcbe0cbc-a493-42c7-9c42-a038b1f532b9"> <bbox w="10.0" h="10.0" x="12669.465" y="4473.125"/> <port id="pr_bcbe0cbc-a493-42c7-9c42-a038b1f532b9_p1" x="12674.465" y="4463.125"/> <port id="pr_bcbe0cbc-a493-42c7-9c42-a038b1f532b9_p2" x="12674.465" y="4493.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bf8dd2fc-decb-4eef-bc6b-636aca6d4d4f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>TLS Fanconi</p> <p>References:</p> <p>Reaction (id=ce_re180, name=; CellCycle_DNArepair_18_12_2010_Version3.xml)</p> <p>Phosphorilated Rev1 is the activator and the modulator of the TLC pathway in response to DNA damage and by cell cycle regulation</p> <p>PMID:17035102</p> <p>Several TLS polymerases participate in Fanconi in combination with HR and NER</p> <p>PoL iota bypasses T-T adducts and dA-N6_BPDE, but only with assistance of Polkappa or Pol zeta:</p> <p>PMID:15189446, PMID:12466554 (major)</p> <p>Depending on the DNA damage, different TLS polymerases will be activated:</p> <p>PMID:19225445</p> <p>REV1 interacts with many TLS polymerases:</p> <p>PMID:14657033</p> <p>Polyubiquitination of PCNA activates prone-free mechanisms of lesions by-pass </p> <p>PMID:19217833, PMID:18157158</p> <p>For TLS </p> <p>PMID:19258535</p> <p>FA core complex regulates REV1 and activated TLS</p> <p>PMID:22266823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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id="logicglyph_208f85a7-b4ea-43d2-9e33-9c356d170a08_p1" x="16482.668" y="16341.166"/> <port id="logicglyph_208f85a7-b4ea-43d2-9e33-9c356d170a08_p2" x="16482.668" y="16301.166"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0c0aafbe-9218-46b8-bf1e-326e27bf3f12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9765397</p> <p>PMID:10604474</p> <p>PMID:16179260</p> <p>PMID:17106237</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b6d5533f-0a19-4063-a190-892b6506f270"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26073.248" y="20879.0"/> <port id="pr_b6d5533f-0a19-4063-a190-892b6506f270_p1" x="26078.248" y="20899.0"/> <port id="pr_b6d5533f-0a19-4063-a190-892b6506f270_p2" x="26078.248" y="20869.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_573d754d-d4e5-44b1-829e-e009a66dffca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5430.383" y="16177.291"/> <port id="pr_573d754d-d4e5-44b1-829e-e009a66dffca_p1" x="5420.383" y="16182.291"/> <port id="pr_573d754d-d4e5-44b1-829e-e009a66dffca_p2" x="5450.383" y="16182.291"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_475aa84e-d814-4f72-962e-8a00c118422d"> <bbox w="10.0" h="10.0" x="24653.31" y="11916.504"/> <port id="pr_475aa84e-d814-4f72-962e-8a00c118422d_p1" x="24673.31" y="11921.504"/> <port id="pr_475aa84e-d814-4f72-962e-8a00c118422d_p2" x="24643.31" y="11921.504"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6a69690d-f56c-4b3f-bf6e-b542ad5559ab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17116881</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6a69690d-f56c-4b3f-bf6e-b542ad5559ab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17116881"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20958.504" y="14101.5"/> <port id="pr_6a69690d-f56c-4b3f-bf6e-b542ad5559ab_p1" x="20948.504" y="14106.5"/> <port id="pr_6a69690d-f56c-4b3f-bf6e-b542ad5559ab_p2" x="20978.504" y="14106.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_30fa8b06-b93f-45ba-985d-834e9fcffc45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Actually the whole MIR-34 family targets AXIN2</p> <p>PMID:22421157</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24686170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7f6abd30-4561-4ee4-a165-37390439db6d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2965.5" y="10755.5"/> <port id="pr_7f6abd30-4561-4ee4-a165-37390439db6d_p1" x="2970.5" y="10775.5"/> <port id="pr_7f6abd30-4561-4ee4-a165-37390439db6d_p2" x="2970.5" y="10745.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d7d30542-a10b-4626-873f-c61b8d4f5cf5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Calcium activates the Ras GAP CAPRI (RASA4) that translocates to the PM and downregulates any Ras that is activated on this compartment by the exchange factor SOS.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d7d30542-a10b-4626-873f-c61b8d4f5cf5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8300.436" y="19128.154"/> <port id="pr_d7d30542-a10b-4626-873f-c61b8d4f5cf5_p1" x="8320.436" y="19133.154"/> <port id="pr_d7d30542-a10b-4626-873f-c61b8d4f5cf5_p2" x="8290.436" y="19133.154"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99a4ab21-0858-4415-93aa-d307d970dd36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4480.5996" y="17787.5"/> <port id="pr_99a4ab21-0858-4415-93aa-d307d970dd36_p1" x="4485.5996" y="17777.5"/> <port id="pr_99a4ab21-0858-4415-93aa-d307d970dd36_p2" x="4485.5996" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b1e407fb-458c-4225-94ed-0a4559b148e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5979.75" y="15320.5"/> <port id="pr_b1e407fb-458c-4225-94ed-0a4559b148e1_p1" x="5969.75" y="15325.5"/> <port id="pr_b1e407fb-458c-4225-94ed-0a4559b148e1_p2" x="5999.75" y="15325.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_38d54dc3-ecdf-4c8a-8783-7e3a7294d95a"> <bbox w="10.0" h="10.0" x="26941.0" y="2745.0"/> <port id="pr_38d54dc3-ecdf-4c8a-8783-7e3a7294d95a_p1" x="26946.0" y="2765.0"/> <port id="pr_38d54dc3-ecdf-4c8a-8783-7e3a7294d95a_p2" x="26946.0" y="2735.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0edb30fa-e1c2-4918-af8d-cf1a04b6d4b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3535.5" y="19104.258"/> <port id="pr_0edb30fa-e1c2-4918-af8d-cf1a04b6d4b9_p1" x="3555.5" y="19109.258"/> <port id="pr_0edb30fa-e1c2-4918-af8d-cf1a04b6d4b9_p2" x="3525.5" y="19109.258"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_795bc4cd-afca-43af-9313-1a1f89b9ab43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The component kinases of the ERK cascade Raf-1 MEK and ERK assemble using beta-ARRESTIN as a scaffold and leading to activation of ERK. Endocytosis of these receptor/beta-ARRESTIN complexes by clathrin-coated pits results in the targeting of activated ERK to endosomal vesicles.</p> <p>The beta-ARRESTIN occupied receptor undergoes internalisation into early endosomes. At the early endosome stage beta-ARRESTIN recruits both MEK1/2 and ERK1/2 and is likely to facilitate their activation upon GPCR stimulation.</p> <p>PMID:11226259 PMID:19565474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_795bc4cd-afca-43af-9313-1a1f89b9ab43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11226259"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19565474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9117.633" y="19684.793"/> <port id="pr_795bc4cd-afca-43af-9313-1a1f89b9ab43_p1" x="9107.633" y="19689.793"/> <port id="pr_795bc4cd-afca-43af-9313-1a1f89b9ab43_p2" x="9137.633" y="19689.793"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_202e9599-371d-4210-8f5c-b38be7c2342a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Shown in Xenopus embryos that dimerisation of XFZ3 correlates with activation. 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class="process" orientation="horizontal" id="pr_0ceb5871-a5e8-4341-8f8b-b12df8c9e6c2"> <bbox w="10.0" h="10.0" x="12105.0" y="6055.0"/> <port id="pr_0ceb5871-a5e8-4341-8f8b-b12df8c9e6c2_p1" x="12095.0" y="6060.0"/> <port id="pr_0ceb5871-a5e8-4341-8f8b-b12df8c9e6c2_p2" x="12125.0" y="6060.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e086808e-57bf-4c8e-a2cc-9eb8a2fddda3"> <bbox w="10.0" h="10.0" x="21979.06" y="11016.0"/> <port id="pr_e086808e-57bf-4c8e-a2cc-9eb8a2fddda3_p1" x="21999.06" y="11021.0"/> <port id="pr_e086808e-57bf-4c8e-a2cc-9eb8a2fddda3_p2" x="21969.06" y="11021.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0bad6d3b-1fa7-4097-baf6-0b1217043a03"> <bbox w="10.0" h="10.0" x="20105.52" y="15977.13"/> <port id="pr_0bad6d3b-1fa7-4097-baf6-0b1217043a03_p1" x="20125.52" y="15982.13"/> <port id="pr_0bad6d3b-1fa7-4097-baf6-0b1217043a03_p2" x="20095.52" y="15982.13"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15f04123-d67d-436e-9181-dd979762532a"> <bbox w="10.0" h="10.0" x="27190.914" y="15935.75"/> <port id="pr_15f04123-d67d-436e-9181-dd979762532a_p1" x="27195.914" y="15955.75"/> <port id="pr_15f04123-d67d-436e-9181-dd979762532a_p2" x="27195.914" y="15925.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9c0db0f2-430a-4a0d-b776-93dbb7975d87"> <bbox w="10.0" h="10.0" x="29036.0" y="6156.25"/> <port id="pr_9c0db0f2-430a-4a0d-b776-93dbb7975d87_p1" x="29041.0" y="6146.25"/> <port id="pr_9c0db0f2-430a-4a0d-b776-93dbb7975d87_p2" x="29041.0" y="6176.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9bb25e92-6888-4bc2-95f4-a225c97f7ab9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>PMID:15866889</p> <p>Fibronectin binds to alphaV/beta3 integrins supports persistent migration( directional cell migration)</p> <p>Fibronectin binds to alpha5/beta1 integrins supports random migration.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9bb25e92-6888-4bc2-95f4-a225c97f7ab9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15866889"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4945.7617" y="18879.828"/> <port id="pr_9bb25e92-6888-4bc2-95f4-a225c97f7ab9_p1" x="4950.7617" y="18869.828"/> <port id="pr_9bb25e92-6888-4bc2-95f4-a225c97f7ab9_p2" x="4950.7617" y="18899.828"/> </glyph> <glyph class="process" orientation="vertical" id="pr_80650b31-e7d5-42a5-8214-e8c600d60b34"> <bbox w="10.0" h="10.0" x="14303.75" y="1672.0"/> <port id="pr_80650b31-e7d5-42a5-8214-e8c600d60b34_p1" x="14308.75" y="1662.0"/> <port 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<p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1713.4845" y="18671.562"/> <port id="pr_dbfc4e95-85ec-459e-bf3f-3412ccabf713_p1" x="1703.4845" y="18676.562"/> <port id="pr_dbfc4e95-85ec-459e-bf3f-3412ccabf713_p2" x="1733.4845" y="18676.562"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_28426c13-4f38-4f7c-b830-bb2a32bc1e25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14747474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_28426c13-4f38-4f7c-b830-bb2a32bc1e25"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14747474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23036.81" y="13786.938"/> <port id="pr_28426c13-4f38-4f7c-b830-bb2a32bc1e25_p1" x="23026.81" y="13791.938"/> <port id="pr_28426c13-4f38-4f7c-b830-bb2a32bc1e25_p2" x="23056.81" y="13791.938"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_7886a986-22b8-4a37-9fa0-6741f940df70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9822663</p> <p>FYN is required for VAV1 phosphorylation and thus activation.</p> <p>PMID:15699036</p> <p>tyrosine phosphorylation of beta3 integrin and aVb3-mediated adhesion are required for VAV1 assocaition and Rho activation.</p> <p>Vav1 associates with aVb3 upon cell adhesion to vitronectin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7886a986-22b8-4a37-9fa0-6741f940df70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9822663"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15699036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5941.25" y="14710.821"/> <port id="pr_7886a986-22b8-4a37-9fa0-6741f940df70_p1" x="5961.25" y="14715.821"/> <port id="pr_7886a986-22b8-4a37-9fa0-6741f940df70_p2" x="5931.25" y="14715.821"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d6b34867-c6e6-4c7e-93b2-0fb9f953a5ff"> <bbox w="10.0" h="10.0" x="11023.135" y="4444.375"/> <port id="pr_d6b34867-c6e6-4c7e-93b2-0fb9f953a5ff_p1" x="11028.135" y="4434.375"/> <port id="pr_d6b34867-c6e6-4c7e-93b2-0fb9f953a5ff_p2" x="11028.135" y="4464.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1546f5b8-c585-4ca6-8350-da2f5dad8ca2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16434164</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1546f5b8-c585-4ca6-8350-da2f5dad8ca2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16434164"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26804.184" y="21611.25"/> <port id="pr_1546f5b8-c585-4ca6-8350-da2f5dad8ca2_p1" x="26809.184" y="21631.25"/> <port id="pr_1546f5b8-c585-4ca6-8350-da2f5dad8ca2_p2" x="26809.184" y="21601.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b64f79f-2fc4-45ae-881f-3cc364b73c8b"> <bbox w="10.0" h="10.0" x="11912.632" y="21506.0"/> <port id="pr_8b64f79f-2fc4-45ae-881f-3cc364b73c8b_p1" x="11917.632" y="21496.0"/> <port id="pr_8b64f79f-2fc4-45ae-881f-3cc364b73c8b_p2" x="11917.632" y="21526.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5d1718a7-535b-487c-b1bf-d5d83fd19b3b"> <bbox w="10.0" h="10.0" x="10020.0" y="4440.0"/> <port id="pr_5d1718a7-535b-487c-b1bf-d5d83fd19b3b_p1" x="10010.0" y="4445.0"/> <port id="pr_5d1718a7-535b-487c-b1bf-d5d83fd19b3b_p2" x="10040.0" y="4445.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d20b6d48-8c66-4f8c-b653-fd70e98e4f76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21965663, PMID:12063245</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d20b6d48-8c66-4f8c-b653-fd70e98e4f76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21965663"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12063245"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18127.06" y="19098.0"/> <port id="pr_d20b6d48-8c66-4f8c-b653-fd70e98e4f76_p1" x="18132.06" y="19088.0"/> <port id="pr_d20b6d48-8c66-4f8c-b653-fd70e98e4f76_p2" x="18132.06" y="19118.0"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_3c6cf981-2186-4014-9dcb-49d3120b263b"> <bbox w="20.0" h="20.0" x="18491.727" y="18801.334"/> <port id="logicglyph_3c6cf981-2186-4014-9dcb-49d3120b263b_p1" x="18521.727" y="18811.334"/> <port id="logicglyph_3c6cf981-2186-4014-9dcb-49d3120b263b_p2" x="18481.727" y="18811.334"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4242cb02-47f7-4be4-9053-43d3619b9b7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23030059</p> <p>PMID:23974797</p> <p>PMID:21358617</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4242cb02-47f7-4be4-9053-43d3619b9b7e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23974797"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21358617"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27536.56" y="11411.5"/> <port id="pr_4242cb02-47f7-4be4-9053-43d3619b9b7e_p1" x="27541.56" y="11401.5"/> <port id="pr_4242cb02-47f7-4be4-9053-43d3619b9b7e_p2" x="27541.56" y="11431.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_43b5e1a7-f3a7-434b-bfa0-71313e693f73"> <bbox w="10.0" h="10.0" x="4677.75" y="10675.75"/> <port id="pr_43b5e1a7-f3a7-434b-bfa0-71313e693f73_p1" x="4697.75" y="10680.75"/> <port id="pr_43b5e1a7-f3a7-434b-bfa0-71313e693f73_p2" x="4667.75" y="10680.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_21a5da1f-c685-42b3-9a16-39ac153cf4d0"> <bbox w="10.0" h="10.0" x="17844.06" y="12575.5"/> <port id="pr_21a5da1f-c685-42b3-9a16-39ac153cf4d0_p1" x="17849.06" y="12565.5"/> <port id="pr_21a5da1f-c685-42b3-9a16-39ac153cf4d0_p2" x="17849.06" y="12595.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eceb4688-4e78-48c8-adce-7066462bb897"> <bbox w="10.0" h="10.0" x="22662.81" y="11426.693"/> <port id="pr_eceb4688-4e78-48c8-adce-7066462bb897_p1" x="22652.81" y="11431.693"/> <port id="pr_eceb4688-4e78-48c8-adce-7066462bb897_p2" x="22682.81" y="11431.693"/> </glyph> <glyph class="process" orientation="vertical" id="pr_95fe2f01-643d-431f-b1a7-399fd314dbb4"> <bbox w="10.0" h="10.0" x="30301.0" y="7810.0"/> <port id="pr_95fe2f01-643d-431f-b1a7-399fd314dbb4_p1" x="30306.0" y="7830.0"/> <port id="pr_95fe2f01-643d-431f-b1a7-399fd314dbb4_p2" x="30306.0" y="7800.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ec963875-17c4-4139-bde6-050c276eea08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21969.06" y="9905.111"/> <port id="pr_ec963875-17c4-4139-bde6-050c276eea08_p1" x="21959.06" y="9910.111"/> <port id="pr_ec963875-17c4-4139-bde6-050c276eea08_p2" x="21989.06" y="9910.111"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_51f13da5-56db-4019-8df1-b055570d9d2f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10792026</p> <p>Nitric oxide inhibits tumor necrosis factor-alpha-induced apoptosis by reducing the generation of ceramide.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_51f13da5-56db-4019-8df1-b055570d9d2f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10792026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20499.06" y="10754.0"/> <port id="pr_51f13da5-56db-4019-8df1-b055570d9d2f_p1" x="20489.06" y="10759.0"/> <port id="pr_51f13da5-56db-4019-8df1-b055570d9d2f_p2" x="20519.06" y="10759.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1291a5f2-1862-49b0-849b-dc782f082c49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5410.9062" y="18869.0"/> <port id="pr_1291a5f2-1862-49b0-849b-dc782f082c49_p1" x="5415.9062" y="18859.0"/> <port id="pr_1291a5f2-1862-49b0-849b-dc782f082c49_p2" x="5415.9062" y="18889.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_dab8e405-31c2-42a9-9320-4379163c2898"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22024162</p> <p>PMID:21909380</p> <p>PMID:17823410</p> <p>PMID:22134354</p> <p>PMID:22160706</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dab8e405-31c2-42a9-9320-4379163c2898"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22024162"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21909380"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17823410"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22134354"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22160706"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3641.0" y="17599.0"/> <port id="pr_dab8e405-31c2-42a9-9320-4379163c2898_p1" x="3631.0" y="17604.0"/> <port id="pr_dab8e405-31c2-42a9-9320-4379163c2898_p2" x="3661.0" y="17604.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc4cbf67-d4f6-465e-9650-c93a5ed23037"> <bbox w="10.0" h="10.0" x="3800.4" y="1827.0"/> <port id="pr_cc4cbf67-d4f6-465e-9650-c93a5ed23037_p1" x="3805.4" y="1817.0"/> <port id="pr_cc4cbf67-d4f6-465e-9650-c93a5ed23037_p2" x="3805.4" y="1847.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c7248c35-3914-4376-9161-6d1344fe2005"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22465479</p> <p>PI3K phosphorylates phosphatidylinositol-4,5-bisphosphate (PIP2) to generate phosphatidylinositol-3,4,5-trisphosphate (PIP3), in a reaction that can be reversed by the PIP3 phosphatase PTEN</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c7248c35-3914-4376-9161-6d1344fe2005"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22465479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20874.06" y="9344.0"/> <port id="pr_c7248c35-3914-4376-9161-6d1344fe2005_p1" x="20864.06" y="9349.0"/> <port id="pr_c7248c35-3914-4376-9161-6d1344fe2005_p2" x="20894.06" y="9349.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_80dc55a2-3abc-40b6-b8de-f010a63b506f"> <bbox w="10.0" h="10.0" x="13032.5" y="4531.875"/> <port id="pr_80dc55a2-3abc-40b6-b8de-f010a63b506f_p1" x="13022.5" y="4536.875"/> <port id="pr_80dc55a2-3abc-40b6-b8de-f010a63b506f_p2" x="13052.5" y="4536.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ce644d6-4dbb-4e5a-a30d-a9af6dc1a458"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11031250</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ce644d6-4dbb-4e5a-a30d-a9af6dc1a458"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11031250"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24536.56" y="16702.0"/> <port id="pr_2ce644d6-4dbb-4e5a-a30d-a9af6dc1a458_p1" x="24541.56" y="16722.0"/> <port id="pr_2ce644d6-4dbb-4e5a-a30d-a9af6dc1a458_p2" x="24541.56" y="16692.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cf4b6238-3f54-4bf6-b762-2fb8ed271298"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17646672</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cf4b6238-3f54-4bf6-b762-2fb8ed271298"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17646672"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12459.186" y="21147.0"/> <port id="pr_cf4b6238-3f54-4bf6-b762-2fb8ed271298_p1" x="12464.186" y="21137.0"/> <port id="pr_cf4b6238-3f54-4bf6-b762-2fb8ed271298_p2" x="12464.186" y="21167.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_96e6b69c-e10a-4a0c-bbef-40c8e844b456"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15684387</p> <p>by NRF1 and NRF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_96e6b69c-e10a-4a0c-bbef-40c8e844b456"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15684387"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20076.902" y="16181.25"/> <port id="pr_96e6b69c-e10a-4a0c-bbef-40c8e844b456_p1" x="20081.902" y="16201.25"/> <port id="pr_96e6b69c-e10a-4a0c-bbef-40c8e844b456_p2" x="20081.902" y="16171.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5afc6183-e99b-4145-8032-90c2165d5767"> <bbox w="10.0" h="10.0" x="4575.0605" y="4843.75"/> <port id="pr_5afc6183-e99b-4145-8032-90c2165d5767_p1" x="4580.0605" y="4833.75"/> <port id="pr_5afc6183-e99b-4145-8032-90c2165d5767_p2" x="4580.0605" y="4863.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d7a4a38f-4b88-4c14-8209-b486e274e6ab"> <bbox w="10.0" h="10.0" x="14129.832" y="17201.492"/> <port id="pr_d7a4a38f-4b88-4c14-8209-b486e274e6ab_p1" x="14134.832" y="17191.492"/> <port id="pr_d7a4a38f-4b88-4c14-8209-b486e274e6ab_p2" x="14134.832" y="17221.492"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83a2be7a-81dc-4b41-92d7-4bea8a106229"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> <p>PMID:19203579</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83a2be7a-81dc-4b41-92d7-4bea8a106229"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19203579"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19119.06" y="16749.0"/> <port id="pr_83a2be7a-81dc-4b41-92d7-4bea8a106229_p1" x="19139.06" y="16754.0"/> <port id="pr_83a2be7a-81dc-4b41-92d7-4bea8a106229_p2" x="19109.06" y="16754.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1706ff5e-1b63-4fac-8dd4-4e5984c91744"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15659826</p> <p>Increased expression and translocation of lysosomal cathepsins contribute to macrophage apoptosis in atherogenesis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1706ff5e-1b63-4fac-8dd4-4e5984c91744"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15659826"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20574.06" y="11010.875"/> <port id="pr_1706ff5e-1b63-4fac-8dd4-4e5984c91744_p1" x="20579.06" y="11030.875"/> <port id="pr_1706ff5e-1b63-4fac-8dd4-4e5984c91744_p2" x="20579.06" y="11000.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cfe8e042-3e8e-400e-ab60-3ba2157e7b0c"> <bbox w="10.0" h="10.0" x="22936.56" y="16772.0"/> <port id="pr_cfe8e042-3e8e-400e-ab60-3ba2157e7b0c_p1" x="22941.56" y="16792.0"/> <port id="pr_cfe8e042-3e8e-400e-ab60-3ba2157e7b0c_p2" x="22941.56" y="16762.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b25d78f-3d55-4e47-992d-234d2e5e2440"> <bbox w="10.0" h="10.0" x="11550.539" y="17254.75"/> <port id="pr_8b25d78f-3d55-4e47-992d-234d2e5e2440_p1" x="11555.539" y="17244.75"/> <port id="pr_8b25d78f-3d55-4e47-992d-234d2e5e2440_p2" x="11555.539" y="17274.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1d5b2c9-54f6-4c81-9c54-5948f8085b15"> <bbox w="10.0" h="10.0" x="18496.174" y="21128.0"/> <port id="pr_d1d5b2c9-54f6-4c81-9c54-5948f8085b15_p1" x="18516.174" y="21133.0"/> <port id="pr_d1d5b2c9-54f6-4c81-9c54-5948f8085b15_p2" x="18486.174" y="21133.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_56f454b1-390e-4841-80e2-a668c92fc0b5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10949025</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_56f454b1-390e-4841-80e2-a668c92fc0b5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949025"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24546.06" y="15074.0"/> <port id="pr_56f454b1-390e-4841-80e2-a668c92fc0b5_p1" x="24536.06" y="15079.0"/> <port id="pr_56f454b1-390e-4841-80e2-a668c92fc0b5_p2" x="24566.06" y="15079.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e8d314d-e64a-4ab7-ad7a-45b8de086dc0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID15084260</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12470.686" y="20681.0"/> <port id="pr_1e8d314d-e64a-4ab7-ad7a-45b8de086dc0_p1" x="12475.686" y="20701.0"/> <port id="pr_1e8d314d-e64a-4ab7-ad7a-45b8de086dc0_p2" x="12475.686" y="20671.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ee8ebf09-b554-448e-84fe-16af1c0a7bc6"> <bbox w="10.0" h="10.0" x="29166.326" y="16314.0"/> <port id="pr_ee8ebf09-b554-448e-84fe-16af1c0a7bc6_p1" x="29171.326" y="16334.0"/> <port id="pr_ee8ebf09-b554-448e-84fe-16af1c0a7bc6_p2" x="29171.326" y="16304.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_55b8b580-662e-428b-ad5d-3b08719d5284"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25198.055" y="13955.939"/> <port id="pr_55b8b580-662e-428b-ad5d-3b08719d5284_p1" x="25203.055" y="13975.939"/> <port id="pr_55b8b580-662e-428b-ad5d-3b08719d5284_p2" x="25203.055" y="13945.939"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ab93c682-734e-44a9-a0ba-be9d1790fd3e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2032.2468" y="18941.197"/> <port id="pr_ab93c682-734e-44a9-a0ba-be9d1790fd3e_p1" x="2037.2468" y="18931.197"/> <port id="pr_ab93c682-734e-44a9-a0ba-be9d1790fd3e_p2" x="2037.2468" y="18961.197"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dc28c3b8-d0b7-4d7a-b69c-4bff17360f08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4846.25" y="13397.75"/> <port id="pr_dc28c3b8-d0b7-4d7a-b69c-4bff17360f08_p1" x="4851.25" y="13417.75"/> <port id="pr_dc28c3b8-d0b7-4d7a-b69c-4bff17360f08_p2" x="4851.25" y="13387.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2aaae666-e588-444e-8548-ca0501f04842"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2aaae666-e588-444e-8548-ca0501f04842"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6392.75" y="10655.5"/> <port id="pr_2aaae666-e588-444e-8548-ca0501f04842_p1" x="6397.75" y="10675.5"/> <port id="pr_2aaae666-e588-444e-8548-ca0501f04842_p2" x="6397.75" y="10645.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b59a252-4d8c-4f06-b566-4ffa66960fb0"> <bbox w="10.0" h="10.0" x="28629.967" y="13904.0"/> <port id="pr_0b59a252-4d8c-4f06-b566-4ffa66960fb0_p1" x="28649.967" y="13909.0"/> <port id="pr_0b59a252-4d8c-4f06-b566-4ffa66960fb0_p2" x="28619.967" y="13909.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ab999d6c-798b-44d7-9763-90ff2fde09a5"> <bbox w="10.0" h="10.0" x="4397.0" y="6205.0"/> <port id="pr_ab999d6c-798b-44d7-9763-90ff2fde09a5_p1" x="4402.0" y="6195.0"/> <port id="pr_ab999d6c-798b-44d7-9763-90ff2fde09a5_p2" x="4402.0" y="6225.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6dab47d6-eae5-4700-890a-6754a54848e6"> <bbox w="10.0" h="10.0" x="21246.73" y="4482.5"/> <port id="pr_6dab47d6-eae5-4700-890a-6754a54848e6_p1" x="21251.73" y="4472.5"/> <port id="pr_6dab47d6-eae5-4700-890a-6754a54848e6_p2" x="21251.73" y="4502.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f4199c13-f626-4a99-b438-43b81d117cb0"> <bbox w="10.0" h="10.0" x="14465.877" y="1910.7146"/> <port id="pr_f4199c13-f626-4a99-b438-43b81d117cb0_p1" x="14485.877" y="1915.7146"/> <port id="pr_f4199c13-f626-4a99-b438-43b81d117cb0_p2" x="14455.877" y="1915.7146"/> </glyph> <glyph class="process" orientation="vertical" id="pr_49e5c0b7-7164-4318-8cf3-d09ab2892a33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_49e5c0b7-7164-4318-8cf3-d09ab2892a33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19679.379" y="16177.75"/> <port id="pr_49e5c0b7-7164-4318-8cf3-d09ab2892a33_p1" x="19684.379" y="16197.75"/> <port id="pr_49e5c0b7-7164-4318-8cf3-d09ab2892a33_p2" x="19684.379" y="16167.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea558cf2-df37-4472-ab24-85588e94e6c9"> <bbox w="10.0" h="10.0" x="15199.893" y="9502.061"/> <port id="pr_ea558cf2-df37-4472-ab24-85588e94e6c9_p1" x="15189.893" y="9507.061"/> <port id="pr_ea558cf2-df37-4472-ab24-85588e94e6c9_p2" x="15219.893" y="9507.061"/> </glyph> <glyph class="process" orientation="vertical" id="pr_07ffd652-45f0-4465-9b0f-26999948f7ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21262972</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_07ffd652-45f0-4465-9b0f-26999948f7ea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21262972"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16281.061" y="18758.844"/> <port id="pr_07ffd652-45f0-4465-9b0f-26999948f7ea_p1" x="16286.061" y="18748.844"/> <port id="pr_07ffd652-45f0-4465-9b0f-26999948f7ea_p2" x="16286.061" y="18778.844"/> </glyph> <glyph class="process" orientation="vertical" id="pr_87d776d2-8524-40b7-a683-286bf665c2bc"> <bbox w="10.0" h="10.0" x="26894.352" y="21867.0"/> <port id="pr_87d776d2-8524-40b7-a683-286bf665c2bc_p1" x="26899.352" y="21857.0"/> <port id="pr_87d776d2-8524-40b7-a683-286bf665c2bc_p2" x="26899.352" y="21887.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_94ce3bf7-3235-4b42-8af2-38c05bf4f5c3"> <bbox w="10.0" h="10.0" x="11020.625" y="4534.375"/> <port id="pr_94ce3bf7-3235-4b42-8af2-38c05bf4f5c3_p1" x="11025.625" y="4524.375"/> <port id="pr_94ce3bf7-3235-4b42-8af2-38c05bf4f5c3_p2" x="11025.625" y="4554.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_11e96f8b-ae35-4e42-96c9-1fb1d18f9926"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24505.936" y="14305.25"/> <port id="pr_11e96f8b-ae35-4e42-96c9-1fb1d18f9926_p1" x="24495.936" y="14310.25"/> <port id="pr_11e96f8b-ae35-4e42-96c9-1fb1d18f9926_p2" x="24525.936" y="14310.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ab6f56a7-58d6-4a4b-8704-354132f80849"> <bbox w="10.0" h="10.0" x="25283.186" y="10065.1875"/> 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<head> <title/> </head> <body> <p>References:</p> <p>PMID:19788416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb1b2727-1372-4caf-81bb-f0d4549678c7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788416"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10730.428" y="11233.991"/> <port id="pr_fb1b2727-1372-4caf-81bb-f0d4549678c7_p1" x="10735.428" y="11223.991"/> <port 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orientation="vertical" id="pr_8f4c0af5-d1ee-4f7b-bd69-01c504c007ee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1715.25" y="15625.5"/> <port id="pr_8f4c0af5-d1ee-4f7b-bd69-01c504c007ee_p1" x="1720.25" y="15615.5"/> <port id="pr_8f4c0af5-d1ee-4f7b-bd69-01c504c007ee_p2" x="1720.25" y="15645.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_03a4c571-c229-486a-85c2-cc79b8872988"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23605.06" y="10722.75"/> <port id="pr_03a4c571-c229-486a-85c2-cc79b8872988_p1" x="23610.06" y="10742.75"/> <port 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y="12036.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ba25b054-9771-4c81-bdf2-075b647da087"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>The protein is Parsylated but cannot be depicted as such in the program. Glutamic acids are parsylated.</p> <p>PMID:17825467</p> <p>Both TNKS are required for parsylation of AXIN1/2</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ba25b054-9771-4c81-bdf2-075b647da087"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17825467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24701.06" y="18689.0"/> <port id="pr_ba25b054-9771-4c81-bdf2-075b647da087_p1" x="24691.06" y="18694.0"/> <port id="pr_ba25b054-9771-4c81-bdf2-075b647da087_p2" x="24721.06" y="18694.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_661e60f1-9fe9-4099-82a5-6f601befa36f"> <bbox w="10.0" h="10.0" x="28121.326" y="16249.0"/> <port id="pr_661e60f1-9fe9-4099-82a5-6f601befa36f_p1" x="28111.326" y="16254.0"/> <port id="pr_661e60f1-9fe9-4099-82a5-6f601befa36f_p2" x="28141.326" y="16254.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e5b11767-6536-4809-904f-1580e08f4f50"> <bbox w="10.0" h="10.0" x="21468.562" y="3767.0"/> <port id="pr_e5b11767-6536-4809-904f-1580e08f4f50_p1" x="21473.562" y="3757.0"/> <port id="pr_e5b11767-6536-4809-904f-1580e08f4f50_p2" x="21473.562" y="3787.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ac1d807-536d-43cd-9e6e-f76650be0af0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12668723</p> <p>Snail binds directly to the E-boxes of the promoters of claudin et occludin genes, resulting in complete repression of their promoter activity</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0ac1d807-536d-43cd-9e6e-f76650be0af0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12668723"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2864.0" y="15569.582"/> <port id="pr_0ac1d807-536d-43cd-9e6e-f76650be0af0_p1" x="2884.0" y="15574.582"/> <port id="pr_0ac1d807-536d-43cd-9e6e-f76650be0af0_p2" x="2854.0" y="15574.582"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4622a158-0d15-4d46-9737-41dab95cc000"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3641.0" y="17354.682"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11050388</p> <p>FOXO3</p> <p>PMID:19494111</p> <p>FOXO3, in Hep3B human hepatocarcinoma cell line</p> <p>PMID:17604722</p> <p>CHOP CEBPA</p> <p>PMID:11495903</p> <p>JNK</p> <p>PMID:11301023</p> <p>JNK, in neurons</p> <p>in SH-EP, in NB15 neuroblastoma cell lines expressing a FOXO3-ER fusion, upon 4OHT. BIM knock down protects from apoptosis</p> <p>PMID:18281283</p> <p>in mouse lymphocytes with targeted expression of p52</p> <p>PMID:14684737</p> <p>in NIH3T3, the 3 major isoforms are upregulated by E2F1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64acfe07-8600-46a5-a717-0e4eb046e81b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11050388"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_58645f03-f380-4d2b-b5ad-eb19ad9bf2dc_p1" x="18721.0" y="3665.0"/> <port id="pr_58645f03-f380-4d2b-b5ad-eb19ad9bf2dc_p2" x="18721.0" y="3695.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eccabc2a-f317-439d-9e35-bc5ba18e61f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1953.5" y="15817.082"/> <port id="pr_eccabc2a-f317-439d-9e35-bc5ba18e61f2_p1" x="1973.5" y="15822.082"/> <port id="pr_eccabc2a-f317-439d-9e35-bc5ba18e61f2_p2" x="1943.5" y="15822.082"/> </glyph> <glyph class="process" orientation="vertical" id="pr_405978d8-a4ee-4e29-9f55-fcecf577fa1f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PRR binds to subunits ATP6V0C/D of the ATPase to lower the pH in the endosome. The reason for this is unknown but it is speculated that a lower pH is required for remodeling of the actin skeleton. However, v-ATPase is necessary for signaling</p> <p>PMID:21796133</p> <p>PMID:21380625</p> <p>PMID:20093472</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_405978d8-a4ee-4e29-9f55-fcecf577fa1f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21796133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15363.811" y="19477.25"/> <port id="pr_405978d8-a4ee-4e29-9f55-fcecf577fa1f_p1" x="15368.811" y="19497.25"/> <port id="pr_405978d8-a4ee-4e29-9f55-fcecf577fa1f_p2" x="15368.811" y="19467.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_55462b0e-2767-41ae-81ac-e6518fa6f7bb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_55462b0e-2767-41ae-81ac-e6518fa6f7bb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4544.5" y="11856.5"/> <port id="pr_55462b0e-2767-41ae-81ac-e6518fa6f7bb_p1" x="4549.5" y="11846.5"/> <port id="pr_55462b0e-2767-41ae-81ac-e6518fa6f7bb_p2" x="4549.5" y="11876.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_88b89fd0-0691-44bf-8740-1e095ed9a8f8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6610.25" y="14380.8125"/> <port id="pr_88b89fd0-0691-44bf-8740-1e095ed9a8f8_p1" x="6600.25" y="14385.8125"/> <port id="pr_88b89fd0-0691-44bf-8740-1e095ed9a8f8_p2" x="6630.25" y="14385.8125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52c22484-9ac1-432b-b6fc-476ff82aa778"> <bbox w="10.0" h="10.0" x="27168.5" y="2816.25"/> <port id="pr_52c22484-9ac1-432b-b6fc-476ff82aa778_p1" x="27158.5" y="2821.25"/> <port id="pr_52c22484-9ac1-432b-b6fc-476ff82aa778_p2" x="27188.5" y="2821.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c31c4d17-d452-4e1f-b359-c8a1912495ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Autophosphorylation of PTK2:</p> <p>PMID:7529872</p> <p>PMID:19339212</p> <p>PMID:7657702</p> <p>PMID:16919435</p> <p>Autophosphorylation of PTK2 at Y397 creates binding site for CSK, a member of Scr family kinases.</p> <p>In response to integrin engagement with the ECM, FAK is autophosphorylated predominantly on Y397</p> <p>This Y397 is the consensus binding site for the SH2 domain of c-Src (CSK)</p> <p>PMID:11114741</p> <p>Interaction of CSK with FAK leads to phosphorylation of FAK on other tyrosine residues including Y407, 576, 577, 861, 925/</p> <p>These phosphorylation events promote PTK2 to its maximal catalytic activity.</p> <p>Upon autophosphorylation of FAK, a signaling complex of FAK, CSK binds to and can phosphorylate various adaptor proteins such as p130Cas and paxillin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c31c4d17-d452-4e1f-b359-c8a1912495ba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7529872"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19339212"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7657702"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16919435"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11114741"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5782.25" y="18060.0"/> <port id="pr_c31c4d17-d452-4e1f-b359-c8a1912495ba_p1" x="5772.25" y="18065.0"/> <port id="pr_c31c4d17-d452-4e1f-b359-c8a1912495ba_p2" x="5802.25" y="18065.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9110895a-9ec4-4425-9e48-f09ab08116d6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11442.546" y="15749.947"/> <port id="pr_9110895a-9ec4-4425-9e48-f09ab08116d6_p1" x="11432.546" y="15754.947"/> <port id="pr_9110895a-9ec4-4425-9e48-f09ab08116d6_p2" x="11462.546" y="15754.947"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_291b7e87-1894-4d52-9c0f-148a7163ff24"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Link between MMR and Fanconi:</p> <p>PMID:17581638</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_291b7e87-1894-4d52-9c0f-148a7163ff24"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17581638"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14815.848" y="16095.428"/> <port id="pr_291b7e87-1894-4d52-9c0f-148a7163ff24_p1" x="14805.848" y="16100.428"/> <port id="pr_291b7e87-1894-4d52-9c0f-148a7163ff24_p2" x="14835.848" y="16100.428"/> </glyph> <glyph class="process" orientation="vertical" id="pr_84e66f91-d3d4-48bd-9705-a88e580dab9e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22266654, PMID:22634377</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_84e66f91-d3d4-48bd-9705-a88e580dab9e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22266654"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22634377"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2390.06" y="21171.5"/> <port id="pr_84e66f91-d3d4-48bd-9705-a88e580dab9e_p1" x="2395.06" y="21191.5"/> <port id="pr_84e66f91-d3d4-48bd-9705-a88e580dab9e_p2" x="2395.06" y="21161.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a307b075-585a-4e74-b99b-a388eec04afb"> <bbox w="10.0" h="10.0" x="26384.06" y="9338.25"/> <port id="pr_a307b075-585a-4e74-b99b-a388eec04afb_p1" x="26389.06" y="9328.25"/> <port id="pr_a307b075-585a-4e74-b99b-a388eec04afb_p2" x="26389.06" y="9358.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0fef85d1-922f-40b9-9f07-c633894361e5"> <bbox w="10.0" h="10.0" x="5335.0" y="2545.0"/> <port id="pr_0fef85d1-922f-40b9-9f07-c633894361e5_p1" x="5355.0" y="2550.0"/> <port id="pr_0fef85d1-922f-40b9-9f07-c633894361e5_p2" x="5325.0" y="2550.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1bc07a7a-6f71-4edd-9f63-1f788d07f6e4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5678.5156" y="13689.5"/> <port id="pr_1bc07a7a-6f71-4edd-9f63-1f788d07f6e4_p1" x="5683.5156" y="13679.5"/> <port id="pr_1bc07a7a-6f71-4edd-9f63-1f788d07f6e4_p2" x="5683.5156" y="13709.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f7ceaf47-187c-43c2-9163-e2617a9efb80"> <bbox w="10.0" h="10.0" x="18289.41" y="6103.836"/> <port id="pr_f7ceaf47-187c-43c2-9163-e2617a9efb80_p1" x="18294.41" y="6093.836"/> <port id="pr_f7ceaf47-187c-43c2-9163-e2617a9efb80_p2" x="18294.41" y="6123.836"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_a67d1e6d-c24b-4e66-806c-4e966e0f8e12"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10197981</p> <p>PMID:12193595</p> <p>PMID:16156666</p> <p>Erk kinases phosphorylate Smad2 and Smad3 at specific sites in the region linking the DNA-binding domain and the transcriptional activation domain. </p> <p>These sites are separate from the TGFB receptor phosphorylation sites that activate Smad nuclear translocation.</p> <p>Feedback loop: TGFB activates Ras/Raf/Mek/Erk signaling (PMID:17673906) and Erk reduces TGFB/Smads transcriptional activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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id="pr_f1f68572-dfe7-40ba-a574-53cb1c0cfc64_p1" x="25062.34" y="14201.5"/> <port id="pr_f1f68572-dfe7-40ba-a574-53cb1c0cfc64_p2" x="25092.34" y="14201.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0e9869ac-9de5-4682-baf5-02e598402de7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID: 12094222 </p> <p>VAV proteins activate RAC1 via induction of GDP/GTP exchange.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1232.2078" y="15160.262"/> <port id="pr_59822bd9-dd8a-47fc-b968-91f5122353ec_p1" x="1252.2078" y="15165.262"/> <port id="pr_59822bd9-dd8a-47fc-b968-91f5122353ec_p2" x="1222.2078" y="15165.262"/> </glyph> <glyph class="process" orientation="vertical" id="pr_95e96a7b-116e-420a-aaf8-ea961cc725c4"> <bbox w="10.0" h="10.0" x="27054.56" y="19678.5"/> <port id="pr_95e96a7b-116e-420a-aaf8-ea961cc725c4_p1" x="27059.56" y="19698.5"/> <port id="pr_95e96a7b-116e-420a-aaf8-ea961cc725c4_p2" x="27059.56" y="19668.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8a343a5-a776-4ca6-977f-26213ccb92c5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11031250</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d8a343a5-a776-4ca6-977f-26213ccb92c5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11031250"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24380.248" y="16541.0"/> <port id="pr_d8a343a5-a776-4ca6-977f-26213ccb92c5_p1" x="24385.248" y="16561.0"/> <port 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id="logicglyph_d431dbf1-4bb6-4391-a235-5c29a8ce80f4_p1" x="22608.4" y="9646.797"/> <port id="logicglyph_d431dbf1-4bb6-4391-a235-5c29a8ce80f4_p2" x="22648.4" y="9646.797"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_92e61335-87c6-43f3-8b67-bde67ceb67c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Grb2 recruits the docking protein Gab1 which is tyrosine phosphorylated by EGFR or FGFR leading to recruitment and activation of the PI3K-Akt cell survival pathway.</p> <p>PMID:15567848</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_92e61335-87c6-43f3-8b67-bde67ceb67c9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15567848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8195.936" y="19423.953"/> <port id="pr_92e61335-87c6-43f3-8b67-bde67ceb67c9_p1" x="8185.9355" y="19428.953"/> <port id="pr_92e61335-87c6-43f3-8b67-bde67ceb67c9_p2" x="8215.936" y="19428.953"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_80e6f079-708f-4a1e-950b-d4ee8bf5f4ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Grb2 recruits the docking protein Gab1 which is tyrosine phosphorylated by FGFR leading to recruitment and activation of the PI3K-Akt cell survival pathway.</p> <p>PMID:15567848</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_80e6f079-708f-4a1e-950b-d4ee8bf5f4ad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15567848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8446.561" y="19477.0"/> <port id="pr_80e6f079-708f-4a1e-950b-d4ee8bf5f4ad_p1" 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<p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8ef77666-c4ff-4240-9c11-302ca1496c0b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23140366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> 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w="10.0" h="10.0" x="25385.936" y="10065.1875"/> <port id="pr_3c468c23-6975-420d-bd7f-b0bbece479de_p1" x="25390.936" y="10055.1875"/> <port id="pr_3c468c23-6975-420d-bd7f-b0bbece479de_p2" x="25390.936" y="10085.1875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29351773-b161-48e2-b41e-e9320ff34800"> <bbox w="10.0" h="10.0" x="26094.06" y="12879.0"/> <port id="pr_29351773-b161-48e2-b41e-e9320ff34800_p1" x="26099.06" y="12869.0"/> <port id="pr_29351773-b161-48e2-b41e-e9320ff34800_p2" x="26099.06" y="12899.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fdfa3c81-5e5a-496a-897f-2a42b1ba2fd0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19662498</p> <p>PMID:19387550</p> <p>PMID:18566586</p> </body> </html> </notes> <extension> <annotation xmlns="" 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<port id="pr_fdfa3c81-5e5a-496a-897f-2a42b1ba2fd0_p1" x="13635.0625" y="17847.5"/> <port id="pr_fdfa3c81-5e5a-496a-897f-2a42b1ba2fd0_p2" x="13635.0625" y="17817.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b4d707c6-9d7f-493c-8774-8110d05b7c8b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19543238</p> <p>PMID:21172653</p> <p>The UNC5H dependence receptors promote apoptosis in the absence of their ligand, netrin-1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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class="process" orientation="vertical" id="pr_7c8dca1f-88b6-4d90-a847-b35f094f106a"> <bbox w="10.0" h="10.0" x="11126.135" y="7481.25"/> <port id="pr_7c8dca1f-88b6-4d90-a847-b35f094f106a_p1" x="11131.135" y="7471.25"/> <port id="pr_7c8dca1f-88b6-4d90-a847-b35f094f106a_p2" x="11131.135" y="7501.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_66764bbe-5b62-43dd-98ec-541da706f41f"> <bbox w="10.0" h="10.0" x="19946.31" y="14535.0"/> <port id="pr_66764bbe-5b62-43dd-98ec-541da706f41f_p1" x="19951.31" y="14555.0"/> <port id="pr_66764bbe-5b62-43dd-98ec-541da706f41f_p2" x="19951.31" y="14525.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d49b867-5453-4a9a-aac3-f5dc494d6bfb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> <p>engagement of mTOR in mTORC1 does not titrate it out of mTORC2</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26675.48" y="11341.0625"/> <port id="pr_3d49b867-5453-4a9a-aac3-f5dc494d6bfb_p1" x="26680.48" y="11331.0625"/> <port id="pr_3d49b867-5453-4a9a-aac3-f5dc494d6bfb_p2" x="26680.48" y="11361.0625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_90cd0146-8531-4928-95db-927339a8ca06"> <bbox w="10.0" h="10.0" x="22084.875" y="6777.0117"/> <port id="pr_90cd0146-8531-4928-95db-927339a8ca06_p1" x="22104.875" y="6782.0117"/> <port id="pr_90cd0146-8531-4928-95db-927339a8ca06_p2" x="22074.875" y="6782.0117"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f1683cb4-0334-4304-98c7-b0899eabd734"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23691193</p> <p>PMID:25687758</p> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f1683cb4-0334-4304-98c7-b0899eabd734"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23691193"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5211.0" y="9495.5"/> <port id="pr_f1683cb4-0334-4304-98c7-b0899eabd734_p1" x="5201.0" y="9500.5"/> <port id="pr_f1683cb4-0334-4304-98c7-b0899eabd734_p2" x="5231.0" y="9500.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_945d7d04-09b1-4c76-b7a5-f7d166ebff5b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15070779</p> <p>WNK4 binds and phosphorylates claudins 1–4.</p> <p>Claudins 1–4 are known to be involved in the regulation of paracellular ion permeability. </p> <p>The increases in phosphorylation of claudins were greater in cells expressing the mutant WNK4 than in cells expressing wild-type protein. </p> <p>Disease-causing mutant WNK4 increases paracellular chloride permeability and phosphorylates claudins.</p> <p>So the phosphorylation of Claudins 1-4 by WNK4 involves in the regulation of paracellular ion permeability</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_945d7d04-09b1-4c76-b7a5-f7d166ebff5b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15070779"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1451.0" y="15502.5"/> <port id="pr_945d7d04-09b1-4c76-b7a5-f7d166ebff5b_p1" x="1441.0" y="15507.5"/> <port id="pr_945d7d04-09b1-4c76-b7a5-f7d166ebff5b_p2" x="1471.0" y="15507.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b82abb76-be35-46a0-8e12-d595235d7130"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19706769</p> <p>in HEK293, co-precipitation of ectopically expressed tagged proteins</p> <p>in HeLa cells infected with G0S2-HA Ad virus, co-precipitation of endogenous BCL2 with HA antibody</p> <p>in HCT116 (transient transfection), interaction detected by FRET</p> <p>Competition between G0S2 and BAX for binding to BCL2</p> <p>in HEK293, co-IP experiments with tagged protein shows that G0S2 competes with BAX for binding to BCL2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b82abb76-be35-46a0-8e12-d595235d7130"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19706769"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22814.56" y="13970.7"/> <port id="pr_b82abb76-be35-46a0-8e12-d595235d7130_p1" x="22834.56" y="13975.7"/> <port id="pr_b82abb76-be35-46a0-8e12-d595235d7130_p2" x="22804.56" y="13975.7"/> </glyph> <glyph class="process" orientation="vertical" id="pr_74123232-a902-4367-bfe7-ee340aea86ac"> <bbox w="10.0" h="10.0" x="20059.836" y="15930.186"/> <port id="pr_74123232-a902-4367-bfe7-ee340aea86ac_p1" x="20064.836" y="15950.186"/> <port id="pr_74123232-a902-4367-bfe7-ee340aea86ac_p2" x="20064.836" y="15920.186"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1bc4aeb2-e03a-4062-bc50-54dfff2a86f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8955077</p> <p>in HepG3</p> <p>PMID:8089148</p> <p>in Hela and HepG3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1bc4aeb2-e03a-4062-bc50-54dfff2a86f7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8955077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8089148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22955.28" y="16194.25"/> <port id="pr_1bc4aeb2-e03a-4062-bc50-54dfff2a86f7_p1" x="22960.28" y="16214.25"/> <port id="pr_1bc4aeb2-e03a-4062-bc50-54dfff2a86f7_p2" x="22960.28" y="16184.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_f973ca33-5b45-4b86-98f7-43a93cc0e6a4"> <bbox w="10.0" h="10.0" x="12738.223" y="21172.25"/> <port id="pr_f973ca33-5b45-4b86-98f7-43a93cc0e6a4_p1" x="12743.223" y="21192.25"/> <port id="pr_f973ca33-5b45-4b86-98f7-43a93cc0e6a4_p2" x="12743.223" y="21162.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_79891daa-b7f9-471c-afa2-4dc1ca9f2b04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20027184</p> <p>PMID:21474067</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_79891daa-b7f9-471c-afa2-4dc1ca9f2b04"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027184"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21474067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12310.727" y="18075.938"/> <port id="pr_79891daa-b7f9-471c-afa2-4dc1ca9f2b04_p1" x="12300.727" y="18080.938"/> <port id="pr_79891daa-b7f9-471c-afa2-4dc1ca9f2b04_p2" x="12330.727" y="18080.938"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dbafe5f1-39e4-49aa-adc5-a4a290786cfd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15980428</p> <p>PMID:19284610</p> <p>The associations between Cx43 and ZO-1 and ZO-2 proteins were shown to be under cell-cycle stage-specific control. </p> <p>Connexin 43 interacts preferentially</p> <p>with ZO-1 during G0 stage, whereas the interaction with ZO-2 is approximately the same during the various stages</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dbafe5f1-39e4-49aa-adc5-a4a290786cfd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15980428"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19284610"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1383.0078" y="17369.387"/> <port id="pr_dbafe5f1-39e4-49aa-adc5-a4a290786cfd_p1" x="1373.0078" y="17374.387"/> <port id="pr_dbafe5f1-39e4-49aa-adc5-a4a290786cfd_p2" x="1403.0078" y="17374.387"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0edf0d69-956d-4d25-a50a-04a0654b41e1"> <bbox w="10.0" h="10.0" x="22527.0" y="4061.813"/> <port id="pr_0edf0d69-956d-4d25-a50a-04a0654b41e1_p1" x="22517.0" y="4066.813"/> <port id="pr_0edf0d69-956d-4d25-a50a-04a0654b41e1_p2" x="22547.0" y="4066.813"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ebf0db4-48f2-49c7-828d-54b863fe7307"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18046414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2ebf0db4-48f2-49c7-828d-54b863fe7307"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18046414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20405.186" y="16148.625"/> <port id="pr_2ebf0db4-48f2-49c7-828d-54b863fe7307_p1" x="20410.186" y="16168.625"/> <port id="pr_2ebf0db4-48f2-49c7-828d-54b863fe7307_p2" x="20410.186" y="16138.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb036cfb-191a-40f1-9198-c5c0cf490f51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:28747251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb036cfb-191a-40f1-9198-c5c0cf490f51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27380.404" y="13039.25"/> <port id="pr_fb036cfb-191a-40f1-9198-c5c0cf490f51_p1" x="27385.404" y="13029.25"/> <port id="pr_fb036cfb-191a-40f1-9198-c5c0cf490f51_p2" x="27385.404" y="13059.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_36e07372-7308-49b9-880f-d5dbb7479acf"> <bbox w="10.0" h="10.0" x="27735.854" y="6322.5"/> <port id="pr_36e07372-7308-49b9-880f-d5dbb7479acf_p1" x="27740.854" y="6312.5"/> <port id="pr_36e07372-7308-49b9-880f-d5dbb7479acf_p2" x="27740.854" y="6342.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f4768dbe-526d-4087-a0ec-4f1ec2da5d82"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f4768dbe-526d-4087-a0ec-4f1ec2da5d82"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:LIFR"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="505.0" y="3216.0"/> <port id="pr_f4768dbe-526d-4087-a0ec-4f1ec2da5d82_p1" x="510.0" y="3206.0"/> <port id="pr_f4768dbe-526d-4087-a0ec-4f1ec2da5d82_p2" x="510.0" y="3236.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5a54c32-deb7-45c6-a695-32ab2175a278"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15866889</p> <p>The ARP2_3 complex and Cofilin are involved in protrusion at the leading edge: the actin-severing activity of cofilin and the actin-branching activity of Arp2_3 act in synergy to drive the extension of lamellipodia.</p> <p>Cofilin is also required for the maintenance of a polarized cytoskeleton and thus for directional cell migration.</p> <p>Integrins control motile strategy through a Rho-cofilin pathway.</p> <p>Adhesion to fibronectin by a5b1 integrin leads to phosphorylation and thus inactivation of cofilin. </p> <p>Cells thus fail to polarize their cytoskeleton but extend thin protrusion with cell-matrix adhesions in multiple directions.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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</head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18321.56" y="16554.0"/> <port id="pr_40ee98a3-edc3-4d58-9a0a-a4946e9a018f_p1" x="18341.56" y="16559.0"/> <port id="pr_40ee98a3-edc3-4d58-9a0a-a4946e9a018f_p2" x="18311.56" y="16559.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f077fb6-233b-4265-9e99-7651d3821f36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22370635</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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class="process" orientation="vertical" id="pr_3c34b278-36af-4d57-a317-3c055ef9105d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5987.03" y="15024.5"/> <port id="pr_3c34b278-36af-4d57-a317-3c055ef9105d_p1" x="5992.03" y="15014.5"/> <port id="pr_3c34b278-36af-4d57-a317-3c055ef9105d_p2" x="5992.03" y="15044.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aa15ae82-613e-4ac3-82c8-d40d933f8fc9"> <bbox w="10.0" h="10.0" x="12935.205" y="19034.75"/> <port id="pr_aa15ae82-613e-4ac3-82c8-d40d933f8fc9_p1" x="12955.205" y="19039.75"/> <port id="pr_aa15ae82-613e-4ac3-82c8-d40d933f8fc9_p2" x="12925.205" y="19039.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d84b9235-a5bd-44fa-bdd1-0f9012f121cd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19960022</p> <p>by MIR34A and MIR449A</p> <p>PMID:18755897</p> <p>by MIR34A</p> <p>PMID:20185821</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d84b9235-a5bd-44fa-bdd1-0f9012f121cd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19960022"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5748.0225" y="14602.893"/> <port id="pr_2efe6655-79e3-4013-9137-1c2d1507995c_p1" x="5738.0225" y="14607.893"/> <port id="pr_2efe6655-79e3-4013-9137-1c2d1507995c_p2" x="5768.0225" y="14607.893"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e3bf786e-1fa3-471c-b8c0-d4a9f2de61e5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21667018</p> <p>Rac1B is an alternatively spliced form of Rac1 gene.</p> <p>Rac1B does not lead to lamellipodia formation, or the activation of PAK1, AKT1, or c-Jun-NH2- kinase activities. </p> <p>However, Rac1B retains the ability to stimulate the NF-kappa-B pathway.</p> <p>PMID:16001073</p> <p>MMP3 can induce the expression of RACB1.</p> <p>RACB1 increases the cellular levels of ROS, causing an upregulation of Snail and induction of EMT.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e3bf786e-1fa3-471c-b8c0-d4a9f2de61e5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21667018"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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class="process" orientation="vertical" id="pr_3bafa4fd-c98b-4290-8c68-685b82ff60cd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21320469</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3bafa4fd-c98b-4290-8c68-685b82ff60cd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21320469"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3122.9773" y="9004.318"/> <port id="pr_3bafa4fd-c98b-4290-8c68-685b82ff60cd_p1" x="3127.9773" y="8994.318"/> <port id="pr_3bafa4fd-c98b-4290-8c68-685b82ff60cd_p2" x="3127.9773" y="9024.318"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_03f05d05-c4cb-4f5e-ab91-4ea910015b5d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="992.8334" y="17463.0"/> <port id="pr_03f05d05-c4cb-4f5e-ab91-4ea910015b5d_p1" x="982.8334" y="17468.0"/> <port id="pr_03f05d05-c4cb-4f5e-ab91-4ea910015b5d_p2" x="1012.8334" y="17468.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f2097ee5-1d5a-4df5-a94d-3a89fdf33f4f"> <bbox w="10.0" h="10.0" x="27624.06" y="14144.0"/> <port id="pr_f2097ee5-1d5a-4df5-a94d-3a89fdf33f4f_p1" x="27644.06" y="14149.0"/> <port id="pr_f2097ee5-1d5a-4df5-a94d-3a89fdf33f4f_p2" x="27614.06" y="14149.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7df1cd46-b6f1-432c-ba3e-be5d78ec8986"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25136802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7df1cd46-b6f1-432c-ba3e-be5d78ec8986"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25136802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3349.5" y="9453.25"/> <port id="pr_7df1cd46-b6f1-432c-ba3e-be5d78ec8986_p1" x="3354.5" y="9443.25"/> <port id="pr_7df1cd46-b6f1-432c-ba3e-be5d78ec8986_p2" x="3354.5" y="9473.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_474d687b-f320-4b26-8e22-6f82cae12b54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15155580</p> <p>Snail regulates cell-cycle progression and survival:</p> <p>Snail regulates components of the early to late G1 transition and the G1/S checkpoint.</p> <p>Snail represses Cyclin D2 transcription and increases p21/Cip1 transcription.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_474d687b-f320-4b26-8e22-6f82cae12b54"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15155580"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3281.7407" y="14844.5"/> <port id="pr_474d687b-f320-4b26-8e22-6f82cae12b54_p1" x="3286.7407" y="14864.5"/> <port id="pr_474d687b-f320-4b26-8e22-6f82cae12b54_p2" x="3286.7407" y="14834.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b8ea5ad7-6871-4c5a-bb04-28f46ad3d0e9"> <bbox w="10.0" h="10.0" x="9710.248" y="16588.23"/> <port id="pr_b8ea5ad7-6871-4c5a-bb04-28f46ad3d0e9_p1" x="9700.248" y="16593.23"/> <port id="pr_b8ea5ad7-6871-4c5a-bb04-28f46ad3d0e9_p2" x="9730.248" y="16593.23"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_392a0e72-126b-474f-aeba-950d9a94ebd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13142.341" y="14429.15"/> <port id="pr_392a0e72-126b-474f-aeba-950d9a94ebd7_p1" x="13162.341" y="14434.15"/> <port id="pr_392a0e72-126b-474f-aeba-950d9a94ebd7_p2" x="13132.341" y="14434.15"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a40daf8e-08c7-46ca-87c0-fb233d2a0ad7"> <bbox w="10.0" h="10.0" x="11005.645" y="9448.375"/> <port id="pr_a40daf8e-08c7-46ca-87c0-fb233d2a0ad7_p1" x="11010.645" y="9438.375"/> <port id="pr_a40daf8e-08c7-46ca-87c0-fb233d2a0ad7_p2" x="11010.645" y="9468.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9453fc56-16f5-42df-ad0c-488eb3b65662"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:9865696</p> <p>Phosphorylation of Smad2 induces dissociation from SARA </p> <p>with concomitant formation of Smad2/ Smad4 complexes </p> <p>and nuclear translocation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9453fc56-16f5-42df-ad0c-488eb3b65662"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9865696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6379.5" y="16685.04"/> <port id="pr_9453fc56-16f5-42df-ad0c-488eb3b65662_p1" x="6369.5" y="16690.04"/> <port id="pr_9453fc56-16f5-42df-ad0c-488eb3b65662_p2" x="6399.5" y="16690.04"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9a334a61-d615-4d7c-82ef-6bbeab6da81d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2689.75" y="17295.402"/> <port id="pr_9a334a61-d615-4d7c-82ef-6bbeab6da81d_p1" x="2709.75" y="17300.402"/> <port id="pr_9a334a61-d615-4d7c-82ef-6bbeab6da81d_p2" x="2679.75" y="17300.402"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8d5720bb-419b-41f3-bf60-cd7d2c31542d"> <bbox w="10.0" h="10.0" x="23871.73" y="16190.342"/> <port id="pr_8d5720bb-419b-41f3-bf60-cd7d2c31542d_p1" x="23876.73" y="16210.342"/> <port id="pr_8d5720bb-419b-41f3-bf60-cd7d2c31542d_p2" x="23876.73" y="16180.342"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f32993d-d04a-49c6-a5e6-28f1ea779fa4"> <bbox w="10.0" h="10.0" x="3880.0" y="3645.0"/> <port id="pr_5f32993d-d04a-49c6-a5e6-28f1ea779fa4_p1" x="3885.0" y="3635.0"/> <port id="pr_5f32993d-d04a-49c6-a5e6-28f1ea779fa4_p2" x="3885.0" y="3665.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f9bc2c6-1a11-4ae6-953a-f8cd85abab4b"> <bbox w="10.0" h="10.0" x="18815.0" y="2855.0"/> <port id="pr_8f9bc2c6-1a11-4ae6-953a-f8cd85abab4b_p1" x="18805.0" y="2860.0"/> <port id="pr_8f9bc2c6-1a11-4ae6-953a-f8cd85abab4b_p2" x="18835.0" y="2860.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_49856687-ab57-4023-871e-7b66d835da06"> <bbox w="10.0" h="10.0" x="26783.762" y="15911.75"/> <port id="pr_49856687-ab57-4023-871e-7b66d835da06_p1" x="26788.762" y="15931.75"/> <port id="pr_49856687-ab57-4023-871e-7b66d835da06_p2" x="26788.762" y="15901.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b2efa2a-7b6b-4cbe-87d6-fcaee33280ea"> <bbox w="10.0" h="10.0" x="19580.936" y="14465.1875"/> <port id="pr_0b2efa2a-7b6b-4cbe-87d6-fcaee33280ea_p1" x="19600.936" y="14470.1875"/> <port id="pr_0b2efa2a-7b6b-4cbe-87d6-fcaee33280ea_p2" x="19570.936" y="14470.1875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0385b984-5bdf-4496-a6b2-5acaebc9c94c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18519670</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0385b984-5bdf-4496-a6b2-5acaebc9c94c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18519670"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20911.56" y="22652.0"/> <port id="pr_0385b984-5bdf-4496-a6b2-5acaebc9c94c_p1" x="20901.56" y="22657.0"/> <port id="pr_0385b984-5bdf-4496-a6b2-5acaebc9c94c_p2" x="20931.56" y="22657.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7bddae45-2ecb-43f9-807a-14d55dc42bbc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4839.6123" y="18273.625"/> <port id="pr_7bddae45-2ecb-43f9-807a-14d55dc42bbc_p1" x="4844.6123" y="18263.625"/> <port id="pr_7bddae45-2ecb-43f9-807a-14d55dc42bbc_p2" x="4844.6123" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_86af2113-1666-49c5-9b4d-7ae191f44a86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>DUSP5 represents an inducible ERK-specific MKP and it functions as both a nuclear anchor and inactivator of ERK MODULE:MAPK in mammalian cells.</p> <p>PMID:17052211</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_86af2113-1666-49c5-9b4d-7ae191f44a86"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052211"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8211.316" y="20534.812"/> <port id="pr_86af2113-1666-49c5-9b4d-7ae191f44a86_p1" x="8216.316" y="20524.812"/> <port id="pr_86af2113-1666-49c5-9b4d-7ae191f44a86_p2" x="8216.316" y="20554.812"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f1c4bbc-63d4-4fba-aa6d-9861bed02978"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25687758</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3f1c4bbc-63d4-4fba-aa6d-9861bed02978"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6837.0" y="10001.5"/> <port id="pr_3f1c4bbc-63d4-4fba-aa6d-9861bed02978_p1" x="6842.0" y="9991.5"/> <port id="pr_3f1c4bbc-63d4-4fba-aa6d-9861bed02978_p2" x="6842.0" y="10021.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_2e61cbae-4ab7-42ab-9834-701ccdc5102e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6060.8213" y="14279.25"/> <port id="pr_2e61cbae-4ab7-42ab-9834-701ccdc5102e_p1" x="6080.8213" y="14284.25"/> <port id="pr_2e61cbae-4ab7-42ab-9834-701ccdc5102e_p2" x="6050.8213" y="14284.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3673b98e-96a7-456e-9364-b6b359fe179d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313945 PMID:11940581</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4d8e0e3f-27d0-4c52-acc9-6b0c83c3d631"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18243099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10877.925" y="13865.285"/> <port id="pr_4d8e0e3f-27d0-4c52-acc9-6b0c83c3d631_p1" x="10882.925" y="13885.285"/> <port id="pr_4d8e0e3f-27d0-4c52-acc9-6b0c83c3d631_p2" x="10882.925" y="13855.285"/> </glyph> <glyph class="process" orientation="horizontal" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15766528</p> <p>in Hela, DUSP1-16-6-10, in response to TNF</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d3595a0-c9c3-4630-85aa-4caca43e0228"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15766528"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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h="10.0" x="23408.793" y="13145.25"/> <port id="pr_5af7c997-62af-47de-bce7-2c52e5b8b288_p1" x="23413.793" y="13165.25"/> <port id="pr_5af7c997-62af-47de-bce7-2c52e5b8b288_p2" x="23413.793" y="13135.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dae9157f-6ad2-40da-990d-e994d0662cb6"> <bbox w="10.0" h="10.0" x="28466.56" y="9092.75"/> <port id="pr_dae9157f-6ad2-40da-990d-e994d0662cb6_p1" x="28471.56" y="9082.75"/> <port id="pr_dae9157f-6ad2-40da-990d-e994d0662cb6_p2" x="28471.56" y="9112.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_426faf10-1b77-4650-b088-5ddef8c32ae2"> <bbox w="10.0" h="10.0" x="7639.557" y="6377.0"/> <port id="pr_426faf10-1b77-4650-b088-5ddef8c32ae2_p1" x="7644.557" y="6367.0"/> <port id="pr_426faf10-1b77-4650-b088-5ddef8c32ae2_p2" x="7644.557" y="6397.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16cdfd86-bab4-40e4-b704-0329a78e79d3"> <bbox w="10.0" h="10.0" x="3385.0" y="4061.25"/> <port id="pr_16cdfd86-bab4-40e4-b704-0329a78e79d3_p1" x="3390.0" y="4051.25"/> <port id="pr_16cdfd86-bab4-40e4-b704-0329a78e79d3_p2" x="3390.0" y="4081.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f898df71-3dd3-47cf-b95c-ca626aa6aa65"> <bbox w="10.0" h="10.0" x="28394.06" y="9980.25"/> <port id="pr_f898df71-3dd3-47cf-b95c-ca626aa6aa65_p1" x="28414.06" y="9985.25"/> <port id="pr_f898df71-3dd3-47cf-b95c-ca626aa6aa65_p2" x="28384.06" y="9985.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d98fcabc-0178-4533-9cc0-a7344f78120e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19293287</p> <p>in SH-SY5Y human neuroblastoma cell line</p> <p>in Swiss-3T3 mouse fibroblast cell line</p> <p>in primary human lung fibroblasts</p> <p>in H1299 human non-small cell lung carcinoma cell line (p53 null) with ectopic expression of p53, identification of the miRNA site in the UTR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d98fcabc-0178-4533-9cc0-a7344f78120e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19293287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23868.31" y="15952.75"/> <port id="pr_d98fcabc-0178-4533-9cc0-a7344f78120e_p1" x="23858.31" y="15957.75"/> <port id="pr_d98fcabc-0178-4533-9cc0-a7344f78120e_p2" x="23888.31" y="15957.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ea2a1ee2-8c97-486c-8306-51f5ba600e94"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218261</p> <p>PMID:17218260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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x="4497.0" y="6325.0"/> <port id="pr_cb26d4b6-cb69-40f6-a92c-6c49d385400c_p1" x="4502.0" y="6315.0"/> <port id="pr_cb26d4b6-cb69-40f6-a92c-6c49d385400c_p2" x="4502.0" y="6345.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ee7dc630-cde8-4dd2-b04d-913c94cc6ec7"> <bbox w="10.0" h="10.0" x="21661.25" y="5275.0"/> <port id="pr_ee7dc630-cde8-4dd2-b04d-913c94cc6ec7_p1" x="21666.25" y="5265.0"/> <port id="pr_ee7dc630-cde8-4dd2-b04d-913c94cc6ec7_p2" x="21666.25" y="5295.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_5c89b9a4-9b65-4440-971a-86d2b89e8baa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="996.8334" y="18013.0"/> <port id="pr_5c89b9a4-9b65-4440-971a-86d2b89e8baa_p1" x="1001.8334" y="18033.0"/> <port id="pr_5c89b9a4-9b65-4440-971a-86d2b89e8baa_p2" x="1001.8334" y="18003.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3a1803b0-0a79-42f7-bc30-9fc6d7eee619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16782875</p> <p>from microarray data, third hit after LDHA and HK2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3a1803b0-0a79-42f7-bc30-9fc6d7eee619"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16782875"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24446.762" y="16160.705"/> <port id="pr_3a1803b0-0a79-42f7-bc30-9fc6d7eee619_p1" x="24451.762" y="16180.705"/> <port id="pr_3a1803b0-0a79-42f7-bc30-9fc6d7eee619_p2" x="24451.762" y="16150.705"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b5c379b-f513-4c83-8278-823e04be48b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>A small fraction of both ERK and GSK3 is constitutively found in a protease-protected mitochondrial compartment. How this fraction of ERK and GSK3 enters mitochondria is an open question.</p> <p>PMID:20080742</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b5c379b-f513-4c83-8278-823e04be48b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20080742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8311.789" y="19924.477"/> <port id="pr_8b5c379b-f513-4c83-8278-823e04be48b4_p1" x="8316.789" y="19944.477"/> <port id="pr_8b5c379b-f513-4c83-8278-823e04be48b4_p2" x="8316.789" y="19914.477"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7566120e-7c8a-4529-a8fd-82d7f191425d"> <bbox w="10.0" h="10.0" x="4195.0" y="4300.0"/> <port id="pr_7566120e-7c8a-4529-a8fd-82d7f191425d_p1" x="4200.0" y="4290.0"/> <port id="pr_7566120e-7c8a-4529-a8fd-82d7f191425d_p2" x="4200.0" y="4320.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_660c71e1-ac87-47e0-adee-a45eeac2267a"> <bbox w="10.0" h="10.0" x="975.0" y="2510.0"/> <port id="pr_660c71e1-ac87-47e0-adee-a45eeac2267a_p1" x="980.0" y="2500.0"/> <port id="pr_660c71e1-ac87-47e0-adee-a45eeac2267a_p2" x="980.0" y="2530.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4a48ade7-e916-4c45-8035-17d96667b980"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10944114</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4a48ade7-e916-4c45-8035-17d96667b980"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10944114"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24516.06" y="14843.75"/> <port id="pr_4a48ade7-e916-4c45-8035-17d96667b980_p1" x="24506.06" y="14848.75"/> <port id="pr_4a48ade7-e916-4c45-8035-17d96667b980_p2" x="24536.06" y="14848.75"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_dff66b1b-48f9-493a-96c6-de29d54e33e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15688067</p> <p>Alpha-actinin is a cytoskeletal protein that binds to viculin (VCL).</p> <p>Via this binding, Alpha-actinin crosslinks actin (in actomyosin stress fibres) and tether them to the focal contacts.</p> <p>Phosphorylation of alpha-actinin by FAK1 (PTK2) reduces the crossliking of stress fibres and prevents the maturation of focal contacts.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4885.0" y="16828.453"/> <port id="pr_3e900970-8670-46ab-aec5-fe99130939be_p1" x="4905.0" y="16833.453"/> <port id="pr_3e900970-8670-46ab-aec5-fe99130939be_p2" x="4875.0" y="16833.453"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_34723730-b7cc-4a35-b965-358d4944d267"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_34723730-b7cc-4a35-b965-358d4944d267"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20806969"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5695.0" y="11652.0"/> <port id="pr_34723730-b7cc-4a35-b965-358d4944d267_p1" x="5685.0" y="11657.0"/> <port id="pr_34723730-b7cc-4a35-b965-358d4944d267_p2" x="5715.0" y="11657.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_34b4d9b8-a4ab-4fcf-a163-e37524e46115"> <bbox w="10.0" h="10.0" x="12360.0" y="7560.0"/> <port id="pr_34b4d9b8-a4ab-4fcf-a163-e37524e46115_p1" x="12365.0" y="7550.0"/> <port id="pr_34b4d9b8-a4ab-4fcf-a163-e37524e46115_p2" x="12365.0" y="7580.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_788e3530-c34f-4a69-95f8-56e6cfdbfe4d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16328026 PMID:17035233</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_788e3530-c34f-4a69-95f8-56e6cfdbfe4d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16328026"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17035233"/> 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id="pr_3dd6c687-e967-4d96-8373-926bb23d99af"> <bbox w="10.0" h="10.0" x="12569.2" y="1697.0"/> <port id="pr_3dd6c687-e967-4d96-8373-926bb23d99af_p1" x="12574.2" y="1687.0"/> <port id="pr_3dd6c687-e967-4d96-8373-926bb23d99af_p2" x="12574.2" y="1717.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dc3b153d-a411-4cc5-9047-c7ac0d5171b2"> <bbox w="10.0" h="10.0" x="20755.0" y="455.0"/> <port id="pr_dc3b153d-a411-4cc5-9047-c7ac0d5171b2_p1" x="20760.0" y="445.0"/> <port id="pr_dc3b153d-a411-4cc5-9047-c7ac0d5171b2_p2" x="20760.0" y="475.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af3c27b9-65c7-4ba1-88c0-b1b341e0f984"> <bbox w="10.0" h="10.0" x="26046.56" y="10068.375"/> <port id="pr_af3c27b9-65c7-4ba1-88c0-b1b341e0f984_p1" x="26051.56" y="10088.375"/> <port id="pr_af3c27b9-65c7-4ba1-88c0-b1b341e0f984_p2" x="26051.56" y="10058.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_32d82a17-34c2-443f-9bb8-68de4524bcb2"> <bbox w="10.0" h="10.0" x="24606.56" y="16173.5"/> <port id="pr_32d82a17-34c2-443f-9bb8-68de4524bcb2_p1" x="24611.56" y="16193.5"/> <port id="pr_32d82a17-34c2-443f-9bb8-68de4524bcb2_p2" x="24611.56" y="16163.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8b62a0ed-e41b-4958-87d9-c544fab80d57"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10411906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8b62a0ed-e41b-4958-87d9-c544fab80d57"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10411906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22206.06" y="10527.625"/> <port id="pr_8b62a0ed-e41b-4958-87d9-c544fab80d57_p1" x="22226.06" y="10532.625"/> <port id="pr_8b62a0ed-e41b-4958-87d9-c544fab80d57_p2" x="22196.06" y="10532.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_425a3502-c327-4e88-b9af-42388a181234"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6398.05" y="18628.947"/> <port id="pr_425a3502-c327-4e88-b9af-42388a181234_p1" x="6403.05" y="18618.947"/> <port id="pr_425a3502-c327-4e88-b9af-42388a181234_p2" x="6403.05" y="18648.947"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dcd68086-cd69-4502-8a8e-fa94314696c5"> <bbox w="10.0" h="10.0" x="28114.06" y="10171.5"/> <port id="pr_dcd68086-cd69-4502-8a8e-fa94314696c5_p1" x="28119.06" y="10161.5"/> <port id="pr_dcd68086-cd69-4502-8a8e-fa94314696c5_p2" x="28119.06" y="10191.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d918373f-e7da-42f3-bc10-8297a6d79358"> <bbox w="10.0" h="10.0" x="21039.277" y="10944.0"/> <port id="pr_d918373f-e7da-42f3-bc10-8297a6d79358_p1" x="21059.277" y="10949.0"/> <port id="pr_d918373f-e7da-42f3-bc10-8297a6d79358_p2" x="21029.277" y="10949.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bfc20768-3ba7-4120-b804-d8549d0a1563"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Caspase9 is phosphorylated on Thr125 in a MEK1/2-dependent manner in vivo. Furthermore caspase9 is efficiently phosphorylated on Thr125 by ERK in vitro suggesting that it is targeted directly by ERK in vivo. This is one of the ways ERK plays its anti-apoptotic role.</p> <p>PMID:12792650</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bfc20768-3ba7-4120-b804-d8549d0a1563"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12792650"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9171.311" y="19892.0"/> <port id="pr_bfc20768-3ba7-4120-b804-d8549d0a1563_p1" x="9176.311" y="19912.0"/> <port id="pr_bfc20768-3ba7-4120-b804-d8549d0a1563_p2" x="9176.311" y="19882.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f3be2c6d-41cc-4c54-9338-3700fb0d0963"> <bbox w="10.0" h="10.0" x="27634.06" y="14424.0"/> <port id="pr_f3be2c6d-41cc-4c54-9338-3700fb0d0963_p1" x="27624.06" y="14429.0"/> <port id="pr_f3be2c6d-41cc-4c54-9338-3700fb0d0963_p2" x="27654.06" y="14429.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_380395d4-88bb-428d-b4b9-fec5c7b613bb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8602368, PMID:9421511, PMID:7544491</p> <p>The human and mouse TERC gene sequences are related and display elements typical of RNA polymerase II. In addition, TERC is not polyadenylated nor oligoadenylated, being characteristic of RNA polymerase II products. </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_380395d4-88bb-428d-b4b9-fec5c7b613bb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8602368"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9421511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7544491"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6488.06" y="22278.25"/> <port id="pr_380395d4-88bb-428d-b4b9-fec5c7b613bb_p1" x="6493.06" y="22268.25"/> <port id="pr_380395d4-88bb-428d-b4b9-fec5c7b613bb_p2" x="6493.06" y="22298.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e84fc9db-9f92-41f1-9f77-9e5defe07342"> <bbox w="10.0" h="10.0" x="20597.5" y="4878.75"/> <port id="pr_e84fc9db-9f92-41f1-9f77-9e5defe07342_p1" x="20587.5" y="4883.75"/> <port id="pr_e84fc9db-9f92-41f1-9f77-9e5defe07342_p2" x="20617.5" y="4883.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d2cde59c-621f-488f-b4a1-e019b518259a"> <bbox w="10.0" h="10.0" x="13968.668" y="5423.4375"/> <port id="pr_d2cde59c-621f-488f-b4a1-e019b518259a_p1" x="13973.668" y="5413.4375"/> <port id="pr_d2cde59c-621f-488f-b4a1-e019b518259a_p2" x="13973.668" y="5443.4375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_37bf0f00-b875-40c1-9e9e-ccca6042d171"> <bbox w="10.0" h="10.0" x="27174.06" y="14664.0"/> <port id="pr_37bf0f00-b875-40c1-9e9e-ccca6042d171_p1" x="27164.06" y="14669.0"/> <port id="pr_37bf0f00-b875-40c1-9e9e-ccca6042d171_p2" x="27194.06" y="14669.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e9b45102-b160-4a9a-9555-20f6e642f1f5"> <bbox w="10.0" h="10.0" x="30949.092" y="2130.0"/> <port id="pr_e9b45102-b160-4a9a-9555-20f6e642f1f5_p1" x="30939.092" y="2135.0"/> <port id="pr_e9b45102-b160-4a9a-9555-20f6e642f1f5_p2" x="30969.092" y="2135.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e199f330-0b30-4d19-86e3-d91ce963ab11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15854902</p> <p>PMID:19299511</p> <p>in vitro reconstituted system, FKBP8 is not required for TORC1 activation by RHEB</p> <p>PMID:20484410</p> <p>AMPC induced phosphorylation of MTORC2 through PKA</p> <p>PMID:12777372</p> <p>PMID:22025673</p> <p>PMID:19942859</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e199f330-0b30-4d19-86e3-d91ce963ab11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15854902"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19299511"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20484410"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12777372"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22025673"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19942859"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27358.31" y="11779.0"/> <port id="pr_e199f330-0b30-4d19-86e3-d91ce963ab11_p1" x="27348.31" y="11784.0"/> <port id="pr_e199f330-0b30-4d19-86e3-d91ce963ab11_p2" x="27378.31" y="11784.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c889f7c1-4628-4a39-850c-0a0e7b8652bd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21506126</p> <p>This phosphorylated of b-catenin bypasses the canonical wnt-MODULE and enters directly the nucleus where it is transcriptionally active</p> <p>PMID:16476742</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c889f7c1-4628-4a39-850c-0a0e7b8652bd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21506126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16476742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15730.061" y="18293.549"/> <port id="pr_c889f7c1-4628-4a39-850c-0a0e7b8652bd_p1" x="15735.061" y="18283.549"/> <port id="pr_c889f7c1-4628-4a39-850c-0a0e7b8652bd_p2" x="15735.061" y="18313.549"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1fd47681-a119-4010-bb5a-5e7963bad515"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16408030</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1fd47681-a119-4010-bb5a-5e7963bad515"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16408030"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21226.436" y="13393.5"/> <port id="pr_1fd47681-a119-4010-bb5a-5e7963bad515_p1" x="21216.436" y="13398.5"/> <port id="pr_1fd47681-a119-4010-bb5a-5e7963bad515_p2" x="21246.436" y="13398.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2648654e-ddc4-421e-a43e-a5a4f824d5f5"> <bbox w="10.0" h="10.0" x="5283.0" y="6317.75"/> <port id="pr_2648654e-ddc4-421e-a43e-a5a4f824d5f5_p1" x="5288.0" y="6307.75"/> <port id="pr_2648654e-ddc4-421e-a43e-a5a4f824d5f5_p2" x="5288.0" y="6337.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a0464438-735f-49e4-b553-a7962c4afeab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a0464438-735f-49e4-b553-a7962c4afeab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25931.06" y="22469.328"/> <port id="pr_a0464438-735f-49e4-b553-a7962c4afeab_p1" x="25951.06" y="22474.328"/> <port id="pr_a0464438-735f-49e4-b553-a7962c4afeab_p2" x="25921.06" y="22474.328"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_fbbec3f5-d89f-42e3-a824-fe1426893574"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1623.5" y="12811.5"/> <port id="pr_fbbec3f5-d89f-42e3-a824-fe1426893574_p1" x="1613.5" y="12816.5"/> <port id="pr_fbbec3f5-d89f-42e3-a824-fe1426893574_p2" x="1643.5" y="12816.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c7c9728a-bec6-4d23-8363-1688a110bd74"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15379897</p> <p>in CCF-STTG1 human glial cells (EMSA + supershift with HRE derived from the PKM2 promoter)</p> <p>PMID:8089148</p> <p>in Hela and HepG3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c7c9728a-bec6-4d23-8363-1688a110bd74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15379897"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8089148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23039.05" y="16159.75"/> <port id="pr_c7c9728a-bec6-4d23-8363-1688a110bd74_p1" x="23044.05" y="16179.75"/> <port id="pr_c7c9728a-bec6-4d23-8363-1688a110bd74_p2" x="23044.05" y="16149.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c56ececb-03cf-4b49-a0c2-6a71f816e1d5"> <bbox w="10.0" h="10.0" x="23931.686" y="14103.375"/> <port id="pr_c56ececb-03cf-4b49-a0c2-6a71f816e1d5_p1" x="23951.686" y="14108.375"/> <port id="pr_c56ececb-03cf-4b49-a0c2-6a71f816e1d5_p2" x="23921.686" y="14108.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3b3a6c1d-7a94-4e04-8480-6ec61f562b63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20118229</p> <p>by PPM1D</p> <p>PMID:20101220</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3b3a6c1d-7a94-4e04-8480-6ec61f562b63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20118229"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20101220"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18186.56" y="16489.0"/> <port id="pr_3b3a6c1d-7a94-4e04-8480-6ec61f562b63_p1" x="18206.56" y="16494.0"/> <port id="pr_3b3a6c1d-7a94-4e04-8480-6ec61f562b63_p2" x="18176.56" y="16494.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_afee8477-05af-428c-a4c1-f915b13467a0"> <bbox w="10.0" h="10.0" x="28791.0" y="3225.0"/> <port id="pr_afee8477-05af-428c-a4c1-f915b13467a0_p1" x="28796.0" y="3215.0"/> <port id="pr_afee8477-05af-428c-a4c1-f915b13467a0_p2" x="28796.0" y="3245.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_07a8de19-a616-4ef6-944f-edc4fb5a0964"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12070128</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_07a8de19-a616-4ef6-944f-edc4fb5a0964"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12070128"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10591.623" y="10763.318"/> <port id="pr_07a8de19-a616-4ef6-944f-edc4fb5a0964_p1" x="10596.623" y="10753.318"/> <port id="pr_07a8de19-a616-4ef6-944f-edc4fb5a0964_p2" x="10596.623" y="10783.318"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b8ac7468-7e4c-4002-8e92-8d165a9302c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4763.755" y="16774.293"/> <port id="pr_b8ac7468-7e4c-4002-8e92-8d165a9302c4_p1" x="4753.755" y="16779.293"/> <port id="pr_b8ac7468-7e4c-4002-8e92-8d165a9302c4_p2" x="4783.755" y="16779.293"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_bc688b20-db6e-4eb0-ba67-be2fcbc8d3f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3644.6328" y="16393.818"/> <port id="pr_bc688b20-db6e-4eb0-ba67-be2fcbc8d3f3_p1" x="3634.6328" y="16398.818"/> <port id="pr_bc688b20-db6e-4eb0-ba67-be2fcbc8d3f3_p2" x="3664.6328" y="16398.818"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d543f980-55e8-4524-b7ae-17ebe061f507"> <bbox w="10.0" h="10.0" x="5151.199" y="2778.75"/> <port id="pr_d543f980-55e8-4524-b7ae-17ebe061f507_p1" x="5156.199" y="2768.75"/> <port id="pr_d543f980-55e8-4524-b7ae-17ebe061f507_p2" x="5156.199" y="2798.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_43bed204-32aa-4f86-a1d3-cd48e3ea549b"> <bbox w="10.0" h="10.0" x="20478.89" y="16162.5"/> <port id="pr_43bed204-32aa-4f86-a1d3-cd48e3ea549b_p1" x="20483.89" y="16182.5"/> <port id="pr_43bed204-32aa-4f86-a1d3-cd48e3ea549b_p2" x="20483.89" y="16152.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_23cf79f5-fa94-4e15-a859-f2d3482cacf3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25687758</p> </body> </html> </notes> <extension> <annotation xmlns="" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2062.25" y="14928.006"/> <port id="pr_157a8bb3-a4b7-4bea-b20a-7e31c994eb98_p1" x="2052.25" y="14933.006"/> <port id="pr_157a8bb3-a4b7-4bea-b20a-7e31c994eb98_p2" x="2082.25" y="14933.006"/> </glyph> <glyph class="process" orientation="vertical" id="pr_89b4c660-4e8d-441e-9409-2b26e76a8d9d"> <bbox w="10.0" h="10.0" x="21126.715" y="14862.75"/> <port id="pr_89b4c660-4e8d-441e-9409-2b26e76a8d9d_p1" x="21131.715" y="14882.75"/> <port id="pr_89b4c660-4e8d-441e-9409-2b26e76a8d9d_p2" x="21131.715" y="14852.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1cdef88e-4781-4e9e-b094-8e4a617e4d2f"> <bbox w="10.0" h="10.0" x="27529.06" y="14424.0"/> <port id="pr_1cdef88e-4781-4e9e-b094-8e4a617e4d2f_p1" x="27519.06" y="14429.0"/> <port id="pr_1cdef88e-4781-4e9e-b094-8e4a617e4d2f_p2" x="27549.06" y="14429.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0778f5c9-415c-4b76-87b6-de4a7eb0878c"> <bbox w="10.0" h="10.0" x="5375.0" y="1455.0"/> <port id="pr_0778f5c9-415c-4b76-87b6-de4a7eb0878c_p1" x="5380.0" y="1445.0"/> <port id="pr_0778f5c9-415c-4b76-87b6-de4a7eb0878c_p2" x="5380.0" y="1475.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1531b33e-1557-494e-8c63-f476052c3837"> <bbox w="10.0" h="10.0" x="1501.4286" y="3802.0"/> <port id="pr_1531b33e-1557-494e-8c63-f476052c3837_p1" x="1506.4286" y="3792.0"/> <port id="pr_1531b33e-1557-494e-8c63-f476052c3837_p2" x="1506.4286" y="3822.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_99f68f3b-037e-47a6-8022-6a37d5b6523b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6003.565" y="14678.607"/> <port id="pr_99f68f3b-037e-47a6-8022-6a37d5b6523b_p1" x="6023.565" y="14683.607"/> <port id="pr_99f68f3b-037e-47a6-8022-6a37d5b6523b_p2" x="5993.565" y="14683.607"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b162bf44-d5cc-457a-bb40-2a3f1e61ec27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>LAP contains an integrin-binding site called RBD</p> <p>Several RBD-binding integrins are able to activate latnet TGFB complex through binding this site.</p> <p>PMID:21909923</p> <p>The previously mentionned integrins are: a8b1, aVb1, aVb5, aVb6, aVb8.</p> <p>In the complex Ingergin-large latent TGFB complex, I picked aVb6 as example. But a8b1, aVb1, aVb5, and aVb8 can active TGFB with the same mechanism.</p> <p>MMP13 activates TGFB by cleavage of LAP</p> <p>Plasmin activates TGFB by cleavage of LAP</p> <p>MMP9 activates TGFB by cleavage of LAP</p> <p>Integrin aVb6 activates the ECM-bound latent TGFB1 and TGFB3 by traction, without participation of MMPs, so no hydrolyse or clevage</p> <p>Integrin aVb8 and MMP14 (so-called MT1-MMP) cooperate to activate the ECM-bound latent TGFB1 and TGFB3: </p> <p>-Integrin aVb8 binds LAP from the large latent complex</p> <p>-MMP14 then is recruited to cleave LAP</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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x="2735.5" y="3445.2666"/> <port id="pr_35991dc3-2ee2-4748-992c-926775a1bc8a_p2" x="2705.5" y="3445.2666"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_04ce4e53-af2a-4971-9eec-b00a680cb7f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5783.1904" y="13689.5"/> <port id="pr_04ce4e53-af2a-4971-9eec-b00a680cb7f0_p1" x="5788.1904" y="13679.5"/> <port id="pr_04ce4e53-af2a-4971-9eec-b00a680cb7f0_p2" x="5788.1904" y="13709.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_13015ec4-5a9b-44a4-8436-fc78dc1ad2ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2803.09" y="19020.5"/> <port id="pr_13015ec4-5a9b-44a4-8436-fc78dc1ad2ca_p1" x="2808.09" y="19010.5"/> <port id="pr_13015ec4-5a9b-44a4-8436-fc78dc1ad2ca_p2" x="2808.09" y="19040.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e78794b-e9e3-49ad-9daa-5e0d338bff55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11279185</p> <p>Stimulation via CD95 or CD40 activates ASM and triggers a translocation of the enzyme onto the cell surface</p> <p>PMID:12531547</p> <p>PMID:8663014</p> <p>Upon ligation of TNF-α, TNF-R1 recruits FAN through its N-SMase activation domain (NSD) and activates N-SMase</p> <p>PMID:1330325</p> <p>TNF activates NF-kappa B by phosphatidylcholine-specific phospholipase C-induced "acidic" sphingomyelin breakdown.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6e78794b-e9e3-49ad-9daa-5e0d338bff55"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11279185"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12531547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8663014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1330325"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22453.56" y="9204.0"/> <port id="pr_6e78794b-e9e3-49ad-9daa-5e0d338bff55_p1" x="22443.56" y="9209.0"/> <port id="pr_6e78794b-e9e3-49ad-9daa-5e0d338bff55_p2" x="22473.56" y="9209.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ce3c9ee5-8560-4f11-bb7d-606a74275de2"> <bbox w="10.0" h="10.0" x="9859.061" y="18388.875"/> <port id="pr_ce3c9ee5-8560-4f11-bb7d-606a74275de2_p1" x="9879.061" y="18393.875"/> <port id="pr_ce3c9ee5-8560-4f11-bb7d-606a74275de2_p2" x="9849.061" y="18393.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fbb2cbc2-cd9f-4817-934e-5de93e859483"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1058.6582" y="14901.4"/> <port id="pr_fbb2cbc2-cd9f-4817-934e-5de93e859483_p1" x="1063.6582" y="14891.4"/> <port id="pr_fbb2cbc2-cd9f-4817-934e-5de93e859483_p2" x="1063.6582" y="14921.4"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c990f3c7-2338-47fa-ae29-ca5a3e41ac3c"> <bbox w="10.0" h="10.0" x="17884.5" y="1475.75"/> <port id="pr_c990f3c7-2338-47fa-ae29-ca5a3e41ac3c_p1" x="17874.5" y="1480.75"/> <port id="pr_c990f3c7-2338-47fa-ae29-ca5a3e41ac3c_p2" x="17904.5" y="1480.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82754742-35f5-44ff-9b04-db0a34c9f9b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>After having translocated to the plasma membrane KSR1 is able to interact with activated B-Raf and ERK.</p> <p>PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_82754742-35f5-44ff-9b04-db0a34c9f9b8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9208.061" y="19001.027"/> <port id="pr_82754742-35f5-44ff-9b04-db0a34c9f9b8_p1" x="9198.061" y="19006.027"/> <port id="pr_82754742-35f5-44ff-9b04-db0a34c9f9b8_p2" x="9228.061" y="19006.027"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_753d715e-a8cb-421a-ad9d-951076ca6c73"> <bbox w="10.0" h="10.0" x="11148.922" y="13784.002"/> <port id="pr_753d715e-a8cb-421a-ad9d-951076ca6c73_p1" x="11138.922" y="13789.002"/> <port id="pr_753d715e-a8cb-421a-ad9d-951076ca6c73_p2" x="11168.922" y="13789.002"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fc7e715c-35b3-452e-818d-c837f4358ae8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fc7e715c-35b3-452e-818d-c837f4358ae8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2296.75" y="10220.25"/> <port id="pr_fc7e715c-35b3-452e-818d-c837f4358ae8_p1" x="2301.75" y="10240.25"/> <port id="pr_fc7e715c-35b3-452e-818d-c837f4358ae8_p2" x="2301.75" y="10210.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_41acb574-b9da-4bbc-930b-51afbc4f5c41"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18813803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_41acb574-b9da-4bbc-930b-51afbc4f5c41"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26796.355" y="20679.418"/> <port id="pr_41acb574-b9da-4bbc-930b-51afbc4f5c41_p1" x="26786.355" y="20684.418"/> <port id="pr_41acb574-b9da-4bbc-930b-51afbc4f5c41_p2" x="26816.355" y="20684.418"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_66d5913f-e138-406b-a6cd-4a0e1ed00bd3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15721744</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_66d5913f-e138-406b-a6cd-4a0e1ed00bd3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15721744"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21387.348" y="9145.33"/> <port id="pr_66d5913f-e138-406b-a6cd-4a0e1ed00bd3_p1" x="21377.348" y="9150.33"/> <port id="pr_66d5913f-e138-406b-a6cd-4a0e1ed00bd3_p2" x="21407.348" y="9150.33"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3f109f93-9edb-4d62-be7c-47aa3b38af25"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9632793</p> <p>in vitro techniques for proteine-DNA interactions, using Hela extracts and synthetic DNA from LDHA promoter</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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y="13464.0"/> <port id="pr_ce685ddf-d002-410b-9f83-9f42f5daaaf7_p1" x="22352.238" y="13469.0"/> <port id="pr_ce685ddf-d002-410b-9f83-9f42f5daaaf7_p2" x="22322.238" y="13469.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50527d6e-a7f5-4b0e-b923-ee76a4e8a8ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:28747251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_50527d6e-a7f5-4b0e-b923-ee76a4e8a8ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26879.506" y="13186.5"/> <port id="pr_50527d6e-a7f5-4b0e-b923-ee76a4e8a8ce_p1" x="26884.506" y="13176.5"/> <port id="pr_50527d6e-a7f5-4b0e-b923-ee76a4e8a8ce_p2" x="26884.506" y="13206.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1a75884-d790-427b-b0cd-b7a7b71b8421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15766528</p> <p>in murine fibroblasts, by IKKbeta</p> <p>PMID:10492402</p> <p>TNF or IL1 induction of cloned SOD2 full gene requires an intronic NFkB site</p> <p>PMID:18280257</p> <p>in human neuroblastoma by NFkB, upon all-trans-retinoic acid (ATRA)</p> <p>PMID:12239572</p> <p>in DLD-1 human colon carcinoma cells upon 4OHT mediated activation of ectopic an FOXO3-ER</p> <p>in MEFs upon lentiviral expression of FOXO3 or FOXO4</p> <p>in 293T upon LY294002, blocked by expression of a dominant negative FOXO3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1a75884-d790-427b-b0cd-b7a7b71b8421"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15766528"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10492402"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18280257"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12239572"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24200.77" y="16189.552"/> <port id="pr_d1a75884-d790-427b-b0cd-b7a7b71b8421_p1" x="24205.77" y="16209.552"/> <port id="pr_d1a75884-d790-427b-b0cd-b7a7b71b8421_p2" x="24205.77" y="16179.552"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5848fddf-4b28-4c39-9139-423694a004ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20889716</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5848fddf-4b28-4c39-9139-423694a004ea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20889716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27335.81" y="18579.0"/> <port id="pr_5848fddf-4b28-4c39-9139-423694a004ea_p1" x="27340.81" y="18599.0"/> <port id="pr_5848fddf-4b28-4c39-9139-423694a004ea_p2" x="27340.81" y="18569.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f9ae6c2f-1801-4efc-8d93-a6b522272fa2"> <bbox w="10.0" h="10.0" x="29986.0" y="5015.0"/> <port id="pr_f9ae6c2f-1801-4efc-8d93-a6b522272fa2_p1" x="30006.0" y="5020.0"/> <port id="pr_f9ae6c2f-1801-4efc-8d93-a6b522272fa2_p2" x="29976.0" y="5020.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83ce183f-ac3d-45ca-a440-7c46f1324d08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19219074</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83ce183f-ac3d-45ca-a440-7c46f1324d08"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19219074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26181.436" y="20482.0"/> <port id="pr_83ce183f-ac3d-45ca-a440-7c46f1324d08_p1" x="26171.436" y="20487.0"/> <port id="pr_83ce183f-ac3d-45ca-a440-7c46f1324d08_p2" x="26201.436" y="20487.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1d1d7fc-aace-422c-8044-c61ce62508bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11283613</p> <p>Miz-1 regulates expression of p15INK4b</p> <p>The Myc/Miz1 complex binds to the p15 promoter</p> <p>Myc inhibits binding of p300 to Miz-1</p> <p>Myc inhibits expression of p15INK4B by binding to Miz-1 (Myc represses p15INK4B by interacting with Miz1)</p> <p>PMID:11283614</p> <p>Disruption of the Myc-Miz1 interaction prevents repression of p15INK4B by Myc.</p> <p>TGFB relieves Myc-mediated repression of p15INK4B by downregulating Myc bound to the p15INK4B transcriptional initiator region.</p> <p>At the same time TGFB induces the formation of a Smad transcriptional complex that recognizes the p15INK4B promoter.</p> <p>Is is proposed that by relieving the Myc-mediated repression of p15INK4B, TGFB allows this gene to be activated by the Smad complex.</p> <p>TGFB signaling controls p15INK4B activation by 2 coupled events: transactivation and relief of repression.</p> <p>PMID:10454538</p> <p>Myc prevents inhibition of G1 CDKs by TGFB.</p> <p>Inhibition of the p15 promoter by c-Myc.</p> <p>Enforced expression of Myc abrogates p15INK4B induction and CDK inhibition by TGFB</p> <p>Myc downregulation by TGFB is required for Activation of the p15Ink4b G1 Arrest Pathway</p> <p>3 populations of endogenous CDK4: Latent pools (400 kDa, source of CDK4 for Cyclin D), Active CDK4-CyclinD complex, Inactive monomeric CDK4</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1d1d7fc-aace-422c-8044-c61ce62508bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283613"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10454538"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4099.1924" y="14532.0"/> <port id="pr_d1d1d7fc-aace-422c-8044-c61ce62508bc_p1" x="4104.1924" y="14552.0"/> <port id="pr_d1d1d7fc-aace-422c-8044-c61ce62508bc_p2" x="4104.1924" y="14522.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb940f1c-848e-48d3-bde9-770a9e14b883"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PoLL in C_NHEJ:</p> <p>PMID:16738138</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb940f1c-848e-48d3-bde9-770a9e14b883"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16738138"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12812.974" y="16474.994"/> <port id="pr_fb940f1c-848e-48d3-bde9-770a9e14b883_p1" x="12817.974" y="16464.994"/> <port id="pr_fb940f1c-848e-48d3-bde9-770a9e14b883_p2" x="12817.974" y="16494.994"/> </glyph> <glyph class="process" orientation="vertical" id="pr_62082b80-37ea-4eb1-87b5-c403942606ab"> <bbox w="10.0" h="10.0" x="20032.412" y="6204.2637"/> <port id="pr_62082b80-37ea-4eb1-87b5-c403942606ab_p1" x="20037.412" y="6224.2637"/> <port id="pr_62082b80-37ea-4eb1-87b5-c403942606ab_p2" x="20037.412" y="6194.2637"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7467df53-daf1-4f5e-9c5f-184bf8196921"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7467df53-daf1-4f5e-9c5f-184bf8196921"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28294.436" y="11965.791"/> <port id="pr_7467df53-daf1-4f5e-9c5f-184bf8196921_p1" x="28284.436" y="11970.791"/> <port id="pr_7467df53-daf1-4f5e-9c5f-184bf8196921_p2" x="28314.436" y="11970.791"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8d9db3d5-7a49-4788-aa0b-d8da2c06a7b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25224.35" y="13850.233"/> <port id="pr_8d9db3d5-7a49-4788-aa0b-d8da2c06a7b2_p1" x="25214.35" y="13855.233"/> <port id="pr_8d9db3d5-7a49-4788-aa0b-d8da2c06a7b2_p2" x="25244.35" y="13855.233"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3d06da33-5b18-409f-bf70-d3d91bdd77d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20531300</p> <p>PMID:11340079</p> <p>FLASH coordinates NF-kappa B activity via TRAF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3d06da33-5b18-409f-bf70-d3d91bdd77d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20531300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340079"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23493.686" y="9868.25"/> <port id="pr_3d06da33-5b18-409f-bf70-d3d91bdd77d4_p1" x="23513.686" y="9873.25"/> <port id="pr_3d06da33-5b18-409f-bf70-d3d91bdd77d4_p2" x="23483.686" y="9873.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2db72c99-7a97-4fe6-b2aa-128b76658e6a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1712.5" y="18862.785"/> <port id="pr_2db72c99-7a97-4fe6-b2aa-128b76658e6a_p1" x="1702.5" y="18867.785"/> <port 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x="13510.0" y="1991.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_abb80c8e-5924-4439-8a8b-64e0aa700bba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10055.213" y="17089.125"/> <port id="pr_abb80c8e-5924-4439-8a8b-64e0aa700bba_p1" x="10045.213" y="17094.125"/> <port id="pr_abb80c8e-5924-4439-8a8b-64e0aa700bba_p2" x="10075.213" y="17094.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c967983-364f-42c6-a261-09cb5cc15bdb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19641494</p> <p>cloning and in vitro demonstration of the catalytic activity of the human isoform</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8c967983-364f-42c6-a261-09cb5cc15bdb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19641494"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23710.56" y="9496.625"/> <port id="pr_8c967983-364f-42c6-a261-09cb5cc15bdb_p1" x="23715.56" y="9486.625"/> <port id="pr_8c967983-364f-42c6-a261-09cb5cc15bdb_p2" x="23715.56" y="9516.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8017c2cd-364c-4674-a0ed-b64f34855dd0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18636226</p> <p>PMID:19887899</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8017c2cd-364c-4674-a0ed-b64f34855dd0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19887899"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13058.561" y="20498.25"/> <port id="pr_8017c2cd-364c-4674-a0ed-b64f34855dd0_p1" x="13063.561" y="20488.25"/> <port id="pr_8017c2cd-364c-4674-a0ed-b64f34855dd0_p2" x="13063.561" y="20518.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_010fdbc6-dcaf-45e0-a7fa-a83980d035fd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15029247</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_010fdbc6-dcaf-45e0-a7fa-a83980d035fd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15029247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23066.56" y="12786.121"/> <port id="pr_010fdbc6-dcaf-45e0-a7fa-a83980d035fd_p1" x="23056.56" y="12791.121"/> <port id="pr_010fdbc6-dcaf-45e0-a7fa-a83980d035fd_p2" x="23086.56" y="12791.121"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c703bb06-285b-4605-af21-733e54bc21ab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5865.0" y="14895.541"/> <port id="pr_c703bb06-285b-4605-af21-733e54bc21ab_p1" x="5885.0" y="14900.541"/> <port id="pr_c703bb06-285b-4605-af21-733e54bc21ab_p2" x="5855.0" y="14900.541"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5fdcae7b-6955-4c85-ba34-ca7b21b42a31"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17143293</p> <p>The size of the LEF/TCF family is small: approximately 4 members in vertebrates.</p> <p>The LEF/TCF family exhibits extensive patterns of alternative splicing, alternative promoter usage and activities of both repression and activation.</p> <p>All LEF/TCFs bind b-catenin.</p> <p>PMID:17143294</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5fdcae7b-6955-4c85-ba34-ca7b21b42a31"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143293"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143294"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2815.5" y="16066.906"/> <port id="pr_5fdcae7b-6955-4c85-ba34-ca7b21b42a31_p1" x="2835.5" y="16071.906"/> <port id="pr_5fdcae7b-6955-4c85-ba34-ca7b21b42a31_p2" x="2805.5" y="16071.906"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9538c91d-9baf-47c9-9498-a87563ae1d76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9604935</p> <p>Phosphorylation of ERK-1/2 promotes its homodimerization</p> <p>PMID:18775330</p> <p>Scaffolds and ERK dimers are essential for the activation of cytoplasmic but not nuclear substrates. </p> <p>Dimerization is critical for connecting the scaffolded ERK complex to cognate cytoplasmic substrates. </p> <p>Contrarily, nuclear substrates associate to ERK monomers.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9538c91d-9baf-47c9-9498-a87563ae1d76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9604935"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6106.0" y="13655.75"/> <port id="pr_9538c91d-9baf-47c9-9498-a87563ae1d76_p1" x="6111.0" y="13645.75"/> <port id="pr_9538c91d-9baf-47c9-9498-a87563ae1d76_p2" x="6111.0" y="13675.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_68e13bb9-1446-4c68-9339-31f84b5994f3"> <bbox w="10.0" h="10.0" x="2274.3584" y="2658.0095"/> <port id="pr_68e13bb9-1446-4c68-9339-31f84b5994f3_p1" x="2279.3584" y="2648.0095"/> <port id="pr_68e13bb9-1446-4c68-9339-31f84b5994f3_p2" x="2279.3584" y="2678.0095"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0995bdeb-093a-47ab-9f33-aff48c8e0f80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16713974</p> <p>TLR signaling activates and IFNG inhibits PI3K pathway</p> <p>PMID:11907067, PMID:15536084</p> <p>SYK kinaze directly interacts with PI3K(p85) and activates perforin  granule movement and polarization via PI3K /RAC1/PAK1/MEK /ERK pathway</p> <p>PMID:10426994 </p> <p>Phosphorylated DAP10 directly interacts with regulatory subunit (p85) of PI3K and activates downstream pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0995bdeb-093a-47ab-9f33-aff48c8e0f80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11907067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536084"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10426994 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4030.0" y="2360.0"/> <port id="pr_0995bdeb-093a-47ab-9f33-aff48c8e0f80_p1" x="4035.0" y="2350.0"/> <port id="pr_0995bdeb-093a-47ab-9f33-aff48c8e0f80_p2" x="4035.0" y="2380.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cbb2781a-f457-4b83-a361-44c8763f9d8a"> <bbox w="10.0" h="10.0" x="29481.375" y="8696.25"/> <port id="pr_cbb2781a-f457-4b83-a361-44c8763f9d8a_p1" x="29486.375" y="8686.25"/> <port id="pr_cbb2781a-f457-4b83-a361-44c8763f9d8a_p2" x="29486.375" y="8716.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1b245ec1-f19c-43e0-b87a-e8576b625f5b"> <bbox w="10.0" h="10.0" x="5023.909" y="5724.0"/> <port id="pr_1b245ec1-f19c-43e0-b87a-e8576b625f5b_p1" x="5028.909" y="5714.0"/> <port id="pr_1b245ec1-f19c-43e0-b87a-e8576b625f5b_p2" x="5028.909" y="5744.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3e8d80b0-7f88-4fec-9c5a-5feb16187e20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17991864</p> <p>RHEB competes with mTOR for FKBP8 binding, thus alleviating FKBP8-mediated inhibition of mTORC1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e8d80b0-7f88-4fec-9c5a-5feb16187e20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17991864"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26725.31" y="11992.612"/> <port id="pr_3e8d80b0-7f88-4fec-9c5a-5feb16187e20_p1" x="26715.31" y="11997.612"/> <port id="pr_3e8d80b0-7f88-4fec-9c5a-5feb16187e20_p2" x="26745.31" y="11997.612"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e64b86c8-93db-49dd-9976-b9b13ad32dc0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22753312</p> <p>A direct link between ZEB2 and miRNA-192 in the diabetic kidney.</p> <p>miRNA-192 expression is regulated by both the p53 and TGFb pathways</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e64b86c8-93db-49dd-9976-b9b13ad32dc0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22753312"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3112.2373" y="17946.75"/> <port id="pr_e64b86c8-93db-49dd-9976-b9b13ad32dc0_p1" x="3117.2373" y="17936.75"/> <port id="pr_e64b86c8-93db-49dd-9976-b9b13ad32dc0_p2" x="3117.2373" y="17966.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6106858f-f52b-4d8a-a28c-1eac55bcbc4b"> <bbox w="10.0" h="10.0" x="6394.1006" y="22176.75"/> <port id="pr_6106858f-f52b-4d8a-a28c-1eac55bcbc4b_p1" x="6399.1006" y="22196.75"/> <port id="pr_6106858f-f52b-4d8a-a28c-1eac55bcbc4b_p2" x="6399.1006" y="22166.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bc0264dd-ff03-4c70-a868-76ae14061078"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bc0264dd-ff03-4c70-a868-76ae14061078"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21032.0" y="22212.25"/> <port id="pr_bc0264dd-ff03-4c70-a868-76ae14061078_p1" x="21037.0" y="22232.25"/> <port id="pr_bc0264dd-ff03-4c70-a868-76ae14061078_p2" x="21037.0" y="22202.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8e8106a1-6919-4f79-9865-5165736915cd"> <bbox w="10.0" h="10.0" x="17825.0" y="4125.0"/> <port id="pr_8e8106a1-6919-4f79-9865-5165736915cd_p1" x="17830.0" y="4115.0"/> <port id="pr_8e8106a1-6919-4f79-9865-5165736915cd_p2" x="17830.0" y="4145.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6fc293b4-958c-45bb-b33f-652b567a9e48"> <bbox w="10.0" h="10.0" x="10153.875" y="4440.0"/> <port id="pr_6fc293b4-958c-45bb-b33f-652b567a9e48_p1" x="10143.875" y="4445.0"/> <port id="pr_6fc293b4-958c-45bb-b33f-652b567a9e48_p2" x="10173.875" y="4445.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb96532a-554c-4e53-afb7-1d9bb4592e5e"> <bbox w="10.0" h="10.0" x="1385.0625" y="1362.0"/> <port id="pr_fb96532a-554c-4e53-afb7-1d9bb4592e5e_p1" x="1390.0625" y="1352.0"/> <port id="pr_fb96532a-554c-4e53-afb7-1d9bb4592e5e_p2" x="1390.0625" y="1382.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8502ab99-a3ff-49ea-8821-cfc083472bc3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>GJB1 is so-called Connexin 32 or Cx32</p> <p>PMID:9592087</p> <p>Cx32 (GJB1) interacts with Cx26(GJB2), Cx46(GJA3), and Cx50(GJA8) but failing to do so with Cx40(GJA5).</p> <p>PMID:15782139</p> <p>Cx32 has a strong tumor-suppressive effect on a human metastatic renal cell carcinoma cell line.</p> <p>Cx32-dependent inactivation of Src decreased the production of VEGF via the suppression of Stat3 activation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8502ab99-a3ff-49ea-8821-cfc083472bc3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9592087"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15782139"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1350.1748" y="18021.0"/> <port id="pr_8502ab99-a3ff-49ea-8821-cfc083472bc3_p1" x="1355.1748" y="18011.0"/> <port id="pr_8502ab99-a3ff-49ea-8821-cfc083472bc3_p2" x="1355.1748" y="18041.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c705787c-2356-48b4-a9dd-e7ea828b4a44"> <bbox w="10.0" h="10.0" x="3716.6062" y="2458.4514"/> <port id="pr_c705787c-2356-48b4-a9dd-e7ea828b4a44_p1" x="3721.6062" y="2478.4514"/> <port id="pr_c705787c-2356-48b4-a9dd-e7ea828b4a44_p2" x="3721.6062" y="2448.4514"/> </glyph> <glyph class="process" orientation="vertical" id="pr_04ef8877-9525-4280-9555-8223b15a06e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> <p>PMID:22166994</p> <p>PMID:23030059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_04ef8877-9525-4280-9555-8223b15a06e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28099.602" y="10969.459"/> <port id="pr_04ef8877-9525-4280-9555-8223b15a06e2_p1" x="28104.602" y="10959.459"/> <port id="pr_04ef8877-9525-4280-9555-8223b15a06e2_p2" x="28104.602" y="10989.459"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f84e3b4-4514-4405-8fa1-5c5c9dd627f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24959.06" y="13654.0"/> <port id="pr_8f84e3b4-4514-4405-8fa1-5c5c9dd627f7_p1" x="24949.06" y="13659.0"/> <port id="pr_8f84e3b4-4514-4405-8fa1-5c5c9dd627f7_p2" x="24979.06" y="13659.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_45703591-ea4e-4a58-bf0a-ae1f20327cf3"> <bbox w="10.0" h="10.0" x="17896.56" y="16450.0"/> <port id="pr_45703591-ea4e-4a58-bf0a-ae1f20327cf3_p1" x="17886.56" y="16455.0"/> <port id="pr_45703591-ea4e-4a58-bf0a-ae1f20327cf3_p2" x="17916.56" y="16455.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b5e79af2-7f8f-4046-8691-298e52157d07"> <bbox w="10.0" h="10.0" x="3955.0" y="1685.0"/> <port id="pr_b5e79af2-7f8f-4046-8691-298e52157d07_p1" x="3960.0" y="1675.0"/> <port id="pr_b5e79af2-7f8f-4046-8691-298e52157d07_p2" x="3960.0" y="1705.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c6c7d162-df1f-4b4a-b27c-76fd8800015d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c6c7d162-df1f-4b4a-b27c-76fd8800015d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5029.0" y="14451.0"/> <port id="pr_c6c7d162-df1f-4b4a-b27c-76fd8800015d_p1" x="5034.0" y="14471.0"/> <port id="pr_c6c7d162-df1f-4b4a-b27c-76fd8800015d_p2" x="5034.0" y="14441.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5833129a-9bc9-429e-bff8-efd386c52ea8"> <bbox w="10.0" h="10.0" x="12472.824" y="16157.004"/> <port 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<title/> </head> <body> <p>References:</p> <p>PMID:19960022</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aab6dc79-9d28-4032-bc3f-77d18f5af54f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19960022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21948.56" y="15976.0"/> <port id="pr_aab6dc79-9d28-4032-bc3f-77d18f5af54f_p1" x="21953.56" y="15996.0"/> <port 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x="5481.0" y="6092.6826"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db45929b-edad-4601-98c7-d400ede60b45"> <bbox w="10.0" h="10.0" x="23095.0" y="7890.0"/> <port id="pr_db45929b-edad-4601-98c7-d400ede60b45_p1" x="23100.0" y="7880.0"/> <port id="pr_db45929b-edad-4601-98c7-d400ede60b45_p2" x="23100.0" y="7910.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45f1e6a4-9f2a-481b-bc7b-8e43f8870a75"> <bbox w="10.0" h="10.0" x="27747.967" y="13591.0"/> <port id="pr_45f1e6a4-9f2a-481b-bc7b-8e43f8870a75_p1" x="27752.967" y="13581.0"/> <port id="pr_45f1e6a4-9f2a-481b-bc7b-8e43f8870a75_p2" x="27752.967" y="13611.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_31d2adf6-a704-4e63-b938-92dd24cede17"> <bbox w="10.0" h="10.0" x="26384.06" y="9189.0"/> <port id="pr_31d2adf6-a704-4e63-b938-92dd24cede17_p1" x="26389.06" y="9179.0"/> <port id="pr_31d2adf6-a704-4e63-b938-92dd24cede17_p2" x="26389.06" y="9209.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef105282-be18-46d4-9e23-b8205f3ae848"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2481.5" y="17085.797"/> <port id="pr_ef105282-be18-46d4-9e23-b8205f3ae848_p1" x="2501.5" y="17090.797"/> <port id="pr_ef105282-be18-46d4-9e23-b8205f3ae848_p2" x="2471.5" y="17090.797"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_65385912-25c6-4869-beee-9e5b374112ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18845789</p> <p>unphosphorylated TP53 from coIP experiments with okadaic acid (PKC inhibitor) or ceramide C2 (potent inductor of PP1/2A</p> <p>PMID:26801188</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_65385912-25c6-4869-beee-9e5b374112ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18845789"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26801188"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22819.56" y="13596.875"/> <port id="pr_65385912-25c6-4869-beee-9e5b374112ae_p1" x="22839.56" y="13601.875"/> <port id="pr_65385912-25c6-4869-beee-9e5b374112ae_p2" x="22809.56" y="13601.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_39992ebf-8c35-4948-9975-12b02d25bd1f"> <bbox w="10.0" h="10.0" x="29504.0" y="3059.3335"/> <port id="pr_39992ebf-8c35-4948-9975-12b02d25bd1f_p1" x="29524.0" y="3064.3335"/> <port id="pr_39992ebf-8c35-4948-9975-12b02d25bd1f_p2" x="29494.0" y="3064.3335"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0c325019-ed72-4d69-b78c-f4328d43d54e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17804805</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0c325019-ed72-4d69-b78c-f4328d43d54e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17804805"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24531.56" y="18158.86"/> <port id="pr_0c325019-ed72-4d69-b78c-f4328d43d54e_p1" x="24521.56" y="18163.86"/> <port id="pr_0c325019-ed72-4d69-b78c-f4328d43d54e_p2" x="24551.56" y="18163.86"/> </glyph> <glyph class="process" orientation="vertical" id="pr_593c750e-123b-4545-8879-1c63a1a0ec5d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Dihydroxyacetone phosphate lies in the glycolysis metabolic pathway, and is one of the two products of breakdown of fructose 1,6-bisphosphate, along with glyceraldehyde 3-phosphate.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18734.06" y="10199.0625"/> <port id="pr_593c750e-123b-4545-8879-1c63a1a0ec5d_p1" x="18739.06" y="10189.0625"/> <port id="pr_593c750e-123b-4545-8879-1c63a1a0ec5d_p2" x="18739.06" y="10219.0625"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_85290a19-c90e-4952-b8d2-28e02b727f16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6591.4814" y="18795.25"/> <port id="pr_85290a19-c90e-4952-b8d2-28e02b727f16_p1" x="6611.4814" y="18800.25"/> <port 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x="20209.186" y="10978.666"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3a15166c-0cd7-4a0e-9a3c-5e3e28329ad7"> <bbox w="10.0" h="10.0" x="20556.31" y="10404.0"/> <port id="pr_3a15166c-0cd7-4a0e-9a3c-5e3e28329ad7_p1" x="20576.31" y="10409.0"/> <port id="pr_3a15166c-0cd7-4a0e-9a3c-5e3e28329ad7_p2" x="20546.31" y="10409.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00033394-0eea-4dd7-b7cf-6801fd333e07"> <bbox w="10.0" h="10.0" x="2391.4458" y="4746.875"/> <port id="pr_00033394-0eea-4dd7-b7cf-6801fd333e07_p1" x="2396.4458" y="4736.875"/> <port id="pr_00033394-0eea-4dd7-b7cf-6801fd333e07_p2" x="2396.4458" y="4766.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a8b39e89-4bec-410b-87c5-0b0e35830552"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19449109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a8b39e89-4bec-410b-87c5-0b0e35830552"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19449109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7246.0" y="7815.5"/> <port id="pr_a8b39e89-4bec-410b-87c5-0b0e35830552_p1" x="7251.0" y="7835.5"/> <port id="pr_a8b39e89-4bec-410b-87c5-0b0e35830552_p2" x="7251.0" y="7805.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6165bb75-a74e-4675-b031-1107873db394"> <bbox w="10.0" h="10.0" x="15758.074" y="466.5625"/> <port id="pr_6165bb75-a74e-4675-b031-1107873db394_p1" x="15748.074" y="471.5625"/> <port id="pr_6165bb75-a74e-4675-b031-1107873db394_p2" x="15778.074" y="471.5625"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3fe0b4eb-ca5b-468c-8464-2da8475a08ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:15140221 PMID:18813803 PMID:18698484</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3fe0b4eb-ca5b-468c-8464-2da8475a08ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140221"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18698484"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26556.56" y="20787.0"/> <port id="pr_3fe0b4eb-ca5b-468c-8464-2da8475a08ed_p1" x="26546.56" y="20792.0"/> <port id="pr_3fe0b4eb-ca5b-468c-8464-2da8475a08ed_p2" x="26576.56" y="20792.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3be82519-189e-4f3f-8e4c-ef1f7d5467e8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24936.56" y="16914.0"/> <port id="pr_3be82519-189e-4f3f-8e4c-ef1f7d5467e8_p1" x="24941.56" y="16934.0"/> <port id="pr_3be82519-189e-4f3f-8e4c-ef1f7d5467e8_p2" x="24941.56" y="16904.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_db89ae10-723e-4cc4-ab39-dffd0df493d8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>Regulation of HIF-1a protein synthesis</p> <p>MNK phosphorylates eIF-4E and stimulates its activity directly. </p> <p>Active eIF-4E increases the rate of HIF1A-mRNA translation into HIF1A protein.</p> <p>PMID:16887934</p> <p>PMID:9159130</p> <p>HIF-1B (ARNT) is constitutively expressed and itsmRNA and protein are maintained at constant levels regardless of oxygen availability</p> <p>PMID:9278421</p> <p>HIF-1A protein has a short half-life (t1/2 = 5 min) and is highly regulated by oxygen</p> <p>PMID:9746763</p> <p>The transcription and synthesis of HIF-1A are constitutive and seem not to be affected by oxygen. </p> <p>PMID:7539918</p> <p>In normoxia, the HIF-1A proteins are rapidly degraded, resulting in essentially no detectable HIF-1A protein.</p> <p>PMID:8943284</p> <p>During hypoxia, HIF-1A becomes stabilized and translocates from the cytoplasm to the nucleus, where it dimerizes with HIF-1B and the HIF complex formed becomes transcriptionally active</p> <p>PMID:1823643</p> <p>The activated HIF complex then associates with HREs in the regulatory regions of target genes and binds the transcriptional coactivators to induce gene expression.</p> <p>PMID:15451019</p> <p>Tight regulation of the stability and subsequent transactivational function of HIF-1A is chiefly controlled by its post-translation modifications, such as hydroxylation, ubiquitination, acetylation, and phosphorylation</p> <p>The modification of HIF-1A occurs within several domains.</p> <p>PMID:10403805</p> <p>PMID:11566883</p> <p>PMID:12829734</p> <p>In normoxia, hydroxylation of 2 proline residues and acetylation of a lysine residue in its ODDD promote interaction of HIF-1A with the von Hippel-Lindau (pVHL) ubiquitin E3 ligase complex (Srinivas et al., 1999; Masson et al., 2001).</p> <p>PMID:12080085</p> <p>pVHL complex tags HIF-1A with ubiquitin and thereby marks it for degradation by the 26S proteasome. </p> <p>In addition, hydroxylation of an asparagine residue in the C-TAD inhibits the association of HIF-1A with CBP/p300 and thus inhibits its transcriptional activity (Lando et al., 2002a).</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db89ae10-723e-4cc4-ab39-dffd0df493d8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13130303"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16887934"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9159130"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9278421"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9746763"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7539918"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8943284"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1823643"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15451019"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10403805"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11566883"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12080085"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4269.87" y="14080.43"/> <port id="pr_db89ae10-723e-4cc4-ab39-dffd0df493d8_p1" x="4274.87" y="14100.43"/> <port id="pr_db89ae10-723e-4cc4-ab39-dffd0df493d8_p2" x="4274.87" y="14070.43"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6ae89e78-5f17-4468-bf1a-2db28fa58c56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5693.5576" y="13687.5"/> <port id="pr_6ae89e78-5f17-4468-bf1a-2db28fa58c56_p1" x="5713.5576" y="13692.5"/> <port id="pr_6ae89e78-5f17-4468-bf1a-2db28fa58c56_p2" x="5683.5576" y="13692.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dcd6b9f5-6cdd-4d33-9471-6ca0e25c81f6"> <bbox w="10.0" h="10.0" x="16710.355" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f056321-5245-47fe-9354-3247c6303d7c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22833265"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23800.31" y="21400.5"/> <port id="pr_8f056321-5245-47fe-9354-3247c6303d7c_p1" x="23790.31" y="21405.5"/> <port id="pr_8f056321-5245-47fe-9354-3247c6303d7c_p2" x="23820.31" y="21405.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_042df86d-9230-4c40-a694-ab74c446a77a"> <bbox w="10.0" h="10.0" x="7447.0" y="7183.0"/> <port 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</glyph> <glyph class="process" orientation="vertical" id="pr_2cbd8000-c08c-4bd6-a77d-6bd9c62695ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Under pathological conditions this complex will be formed. This complex has synergistic positive effect on myc gene expression.</p> <p>PMID:15576399</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2cbd8000-c08c-4bd6-a77d-6bd9c62695ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15576399"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22409.34" y="21477.5"/> <port id="pr_2cbd8000-c08c-4bd6-a77d-6bd9c62695ac_p1" x="22414.34" y="21467.5"/> <port id="pr_2cbd8000-c08c-4bd6-a77d-6bd9c62695ac_p2" x="22414.34" y="21497.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c8966fde-b8d8-408c-9d70-8b8a7b830461"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16158046</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="pr_d0ed0032-7959-43f7-a406-018ff935605c_p2" x="23582.5" y="952.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a03beecd-5394-497b-a4db-c803bd23de4e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4769.2153" y="17690.0"/> <port id="pr_a03beecd-5394-497b-a4db-c803bd23de4e_p1" x="4774.2153" y="17680.0"/> <port id="pr_a03beecd-5394-497b-a4db-c803bd23de4e_p2" x="4774.2153" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_229242de-f7cf-4419-99a0-cae770e6213a"> <bbox w="10.0" h="10.0" x="5820.093" y="5223.8125"/> <port id="pr_229242de-f7cf-4419-99a0-cae770e6213a_p1" x="5810.093" y="5228.8125"/> <port id="pr_229242de-f7cf-4419-99a0-cae770e6213a_p2" x="5840.093" y="5228.8125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b3fab70-6260-4872-94dd-b225a03ab271"> <bbox w="10.0" h="10.0" x="25912.06" y="11777.438"/> <port id="pr_0b3fab70-6260-4872-94dd-b225a03ab271_p1" x="25902.06" y="11782.438"/> <port id="pr_0b3fab70-6260-4872-94dd-b225a03ab271_p2" x="25932.06" y="11782.438"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e856d300-69ef-48a2-b619-b21c1accb259"> <bbox w="10.0" h="10.0" x="18452.06" y="20860.5"/> <port id="pr_e856d300-69ef-48a2-b619-b21c1accb259_p1" x="18457.06" y="20850.5"/> <port id="pr_e856d300-69ef-48a2-b619-b21c1accb259_p2" x="18457.06" y="20880.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_16793e83-ab1c-45e3-9608-37759c6e3918"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15989956</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_16793e83-ab1c-45e3-9608-37759c6e3918"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15989956"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21218.56" y="16869.0"/> <port id="pr_16793e83-ab1c-45e3-9608-37759c6e3918_p1" x="21208.56" y="16874.0"/> <port id="pr_16793e83-ab1c-45e3-9608-37759c6e3918_p2" x="21238.56" y="16874.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3066c6f2-d6d1-4d5a-9613-6ba6173d053a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6463.0" y="14761.5"/> <port id="pr_3066c6f2-d6d1-4d5a-9613-6ba6173d053a_p1" x="6453.0" y="14766.5"/> <port id="pr_3066c6f2-d6d1-4d5a-9613-6ba6173d053a_p2" x="6483.0" y="14766.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dfba03df-9d16-47c1-bfc5-666e23a1fd61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22311.56" y="12100.75"/> <port id="pr_dfba03df-9d16-47c1-bfc5-666e23a1fd61_p1" x="22316.56" y="12090.75"/> <port id="pr_dfba03df-9d16-47c1-bfc5-666e23a1fd61_p2" x="22316.56" y="12120.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_689c3a98-8cf0-482d-a11f-db7b4f4d5e2e"> <bbox w="10.0" h="10.0" x="27301.0" y="3155.0"/> <port id="pr_689c3a98-8cf0-482d-a11f-db7b4f4d5e2e_p1" x="27306.0" y="3145.0"/> <port id="pr_689c3a98-8cf0-482d-a11f-db7b4f4d5e2e_p2" x="27306.0" y="3175.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_11b8015b-97c9-4c32-9952-ba8492dd5542"> <bbox w="10.0" h="10.0" x="6102.1025" y="20727.5"/> <port id="pr_11b8015b-97c9-4c32-9952-ba8492dd5542_p1" x="6122.1025" y="20732.5"/> <port id="pr_11b8015b-97c9-4c32-9952-ba8492dd5542_p2" x="6092.1025" y="20732.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fbb1080d-592d-4d83-b48e-66b833f46af8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>continue with dvl puncta formation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24761.31" y="18560.75"/> <port id="pr_fbb1080d-592d-4d83-b48e-66b833f46af8_p1" x="24781.31" y="18565.75"/> <port id="pr_fbb1080d-592d-4d83-b48e-66b833f46af8_p2" x="24751.31" y="18565.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f92d7392-d7a2-4b53-a275-d0b97f0ae72b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17537911</p> <p>Ectopic expression of any one of (Twist, Snail, or Goosecoid) led to induction of both FOXC2 mRNA and protein expression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f92d7392-d7a2-4b53-a275-d0b97f0ae72b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17537911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4076.5" y="16797.5"/> <port id="pr_f92d7392-d7a2-4b53-a275-d0b97f0ae72b_p1" x="4066.5" y="16802.5"/> <port id="pr_f92d7392-d7a2-4b53-a275-d0b97f0ae72b_p2" x="4096.5" y="16802.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a872102c-7dc6-48bd-940e-876beb61d519"> <bbox w="10.0" h="10.0" x="5265.0" y="4705.0"/> <port id="pr_a872102c-7dc6-48bd-940e-876beb61d519_p1" x="5255.0" y="4710.0"/> <port id="pr_a872102c-7dc6-48bd-940e-876beb61d519_p2" x="5285.0" y="4710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2b2faf4c-53cf-46b1-bfc5-96a638ae7548"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19729.123" y="11529.0625"/> <port id="pr_2b2faf4c-53cf-46b1-bfc5-96a638ae7548_p1" x="19719.123" y="11534.0625"/> <port id="pr_2b2faf4c-53cf-46b1-bfc5-96a638ae7548_p2" x="19749.123" y="11534.0625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb190e81-af6f-4e61-8a25-3f3fe16b4266"> <bbox w="10.0" h="10.0" x="19908.52" y="4770.0"/> <port id="pr_fb190e81-af6f-4e61-8a25-3f3fe16b4266_p1" x="19913.52" y="4760.0"/> <port id="pr_fb190e81-af6f-4e61-8a25-3f3fe16b4266_p2" x="19913.52" y="4790.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a77ec9b1-4d09-491a-b5aa-34064a7a9325"> <bbox w="10.0" h="10.0" x="22148.057" y="20125.5"/> <port id="pr_a77ec9b1-4d09-491a-b5aa-34064a7a9325_p1" x="22168.057" y="20130.5"/> <port id="pr_a77ec9b1-4d09-491a-b5aa-34064a7a9325_p2" x="22138.057" y="20130.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7855d900-c72a-4fa8-8529-9cdc20c5bffe"> <bbox w="10.0" h="10.0" x="18528.867" y="6625.1406"/> <port id="pr_7855d900-c72a-4fa8-8529-9cdc20c5bffe_p1" x="18533.867" y="6615.1406"/> <port id="pr_7855d900-c72a-4fa8-8529-9cdc20c5bffe_p2" x="18533.867" y="6645.1406"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b9a6b211-7250-45cf-922c-9204c8d36527"> <bbox w="10.0" h="10.0" x="24991.018" y="16028.25"/> <port id="pr_b9a6b211-7250-45cf-922c-9204c8d36527_p1" x="24996.018" y="16048.25"/> <port id="pr_b9a6b211-7250-45cf-922c-9204c8d36527_p2" x="24996.018" y="16018.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e8a0da30-72a8-47c4-8339-f8d85a9ee6e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>In response to genotoxic stress such as DNA damage PUMA is transactivated by P53 (leading to apoptosis).</p> <p>PMID:19641508</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e8a0da30-72a8-47c4-8339-f8d85a9ee6e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19641508"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9655.971" y="21062.678"/> <port id="pr_e8a0da30-72a8-47c4-8339-f8d85a9ee6e7_p1" x="9675.971" y="21067.678"/> <port id="pr_e8a0da30-72a8-47c4-8339-f8d85a9ee6e7_p2" x="9645.971" y="21067.678"/> </glyph> <glyph class="process" orientation="vertical" id="pr_092440dc-5504-4796-bfd0-2b573d4a5fa9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:11741536</p> <p>in MCF7 upon TNF</p> <p>in Hela upon TNF + CHX</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_092440dc-5504-4796-bfd0-2b573d4a5fa9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11741536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22951.06" y="10236.0"/> <port id="pr_092440dc-5504-4796-bfd0-2b573d4a5fa9_p1" x="22956.06" y="10226.0"/> <port id="pr_092440dc-5504-4796-bfd0-2b573d4a5fa9_p2" x="22956.06" y="10256.0"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_4a454686-0386-46b2-8fd3-cffda6de4279"> <bbox w="20.0" h="20.0" x="24889.209" y="13683.707"/> <port id="logicglyph_4a454686-0386-46b2-8fd3-cffda6de4279_p1" x="24899.209" y="13713.707"/> <port id="logicglyph_4a454686-0386-46b2-8fd3-cffda6de4279_p2" x="24899.209" y="13673.707"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2425c728-d4a2-4c2e-b721-f4abec42c8fd"> <bbox w="10.0" h="10.0" x="6320.0" y="3982.5"/> <port id="pr_2425c728-d4a2-4c2e-b721-f4abec42c8fd_p1" x="6325.0" y="3972.5"/> <port id="pr_2425c728-d4a2-4c2e-b721-f4abec42c8fd_p2" x="6325.0" y="4002.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9241b049-45b0-4411-866d-8e1ba704742f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21908588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9241b049-45b0-4411-866d-8e1ba704742f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19493.56" y="21524.5"/> <port id="pr_9241b049-45b0-4411-866d-8e1ba704742f_p1" x="19483.56" y="21529.5"/> <port id="pr_9241b049-45b0-4411-866d-8e1ba704742f_p2" x="19513.56" y="21529.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_bbc14a55-eede-4d2b-b842-912ab7f9835c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18813803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bbc14a55-eede-4d2b-b842-912ab7f9835c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="20967.0"/> <port id="pr_bbc14a55-eede-4d2b-b842-912ab7f9835c_p1" x="26547.56" y="20972.0"/> <port id="pr_bbc14a55-eede-4d2b-b842-912ab7f9835c_p2" x="26577.56" y="20972.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cf09e4f6-e834-43ae-a499-643137e94a96"> <bbox w="10.0" h="10.0" x="4465.0" y="4717.25"/> <port id="pr_cf09e4f6-e834-43ae-a499-643137e94a96_p1" x="4470.0" y="4707.25"/> <port id="pr_cf09e4f6-e834-43ae-a499-643137e94a96_p2" x="4470.0" y="4737.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69579fa4-084e-4856-9e8b-f86e560c400b"> <bbox w="10.0" h="10.0" x="10918.485" y="11238.33"/> <port id="pr_69579fa4-084e-4856-9e8b-f86e560c400b_p1" x="10923.485" y="11228.33"/> <port id="pr_69579fa4-084e-4856-9e8b-f86e560c400b_p2" x="10923.485" y="11258.33"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4190e119-6d50-4f23-8c23-50a9fdcdc84a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11989976</p> <p>PMID:17959595</p> <p>Caspase1,3 promote proteosomal degradation of ARHGDIB</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4190e119-6d50-4f23-8c23-50a9fdcdc84a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11989976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17959595"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4862.266" y="14041.62"/> <port id="pr_4190e119-6d50-4f23-8c23-50a9fdcdc84a_p1" x="4882.266" y="14046.62"/> <port id="pr_4190e119-6d50-4f23-8c23-50a9fdcdc84a_p2" x="4852.266" y="14046.62"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7e0dbca4-acd3-4c0b-97f4-5f4ab364c616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23178297</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7e0dbca4-acd3-4c0b-97f4-5f4ab364c616"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23178297"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2040.5" y="10532.803"/> <port id="pr_7e0dbca4-acd3-4c0b-97f4-5f4ab364c616_p1" x="2060.5" y="10537.803"/> <port id="pr_7e0dbca4-acd3-4c0b-97f4-5f4ab364c616_p2" x="2030.5" y="10537.803"/> </glyph> <glyph class="process" orientation="vertical" id="pr_63a93f7d-5a39-481b-a76d-43cb3fcf077b"> <bbox w="10.0" h="10.0" x="17774.5" y="1352.9166"/> <port id="pr_63a93f7d-5a39-481b-a76d-43cb3fcf077b_p1" x="17779.5" y="1372.9166"/> <port id="pr_63a93f7d-5a39-481b-a76d-43cb3fcf077b_p2" x="17779.5" y="1342.9166"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_47ac6dc0-05a7-41f7-800f-3e3b00b26776"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P38 is able to suppress RAS-dependent JNK activation (probably through PRAK and MK2).</p> <p>PMID:10978313</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_47ac6dc0-05a7-41f7-800f-3e3b00b26776"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10978313"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10479.375" y="20118.25"/> <port id="pr_47ac6dc0-05a7-41f7-800f-3e3b00b26776_p1" x="10469.375" y="20123.25"/> <port id="pr_47ac6dc0-05a7-41f7-800f-3e3b00b26776_p2" x="10499.375" y="20123.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_317fcbe1-66c3-4a49-a4f9-372fe43b6514"> <bbox w="10.0" h="10.0" x="4869.0" y="7361.0"/> <port id="pr_317fcbe1-66c3-4a49-a4f9-372fe43b6514_p1" x="4859.0" y="7366.0"/> <port id="pr_317fcbe1-66c3-4a49-a4f9-372fe43b6514_p2" x="4889.0" y="7366.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_02575ccd-5fe0-4f51-a55d-6077f25dc526"> <bbox w="10.0" h="10.0" x="12368.311" y="21006.5"/> <port id="pr_02575ccd-5fe0-4f51-a55d-6077f25dc526_p1" x="12358.311" y="21011.5"/> <port id="pr_02575ccd-5fe0-4f51-a55d-6077f25dc526_p2" x="12388.311" y="21011.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df75c43a-6625-428a-88be-c6a6ba61b6ee"> <bbox w="10.0" h="10.0" x="23457.56" y="17144.0"/> <port id="pr_df75c43a-6625-428a-88be-c6a6ba61b6ee_p1" x="23447.56" y="17149.0"/> <port id="pr_df75c43a-6625-428a-88be-c6a6ba61b6ee_p2" x="23477.56" y="17149.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fce90fe6-f3ba-4c64-ad9c-48ecf5bbba08"> <bbox w="10.0" h="10.0" x="3587.894" y="1488.0"/> <port id="pr_fce90fe6-f3ba-4c64-ad9c-48ecf5bbba08_p1" x="3592.894" y="1508.0"/> <port id="pr_fce90fe6-f3ba-4c64-ad9c-48ecf5bbba08_p2" x="3592.894" y="1478.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7dac7c52-3f8a-4055-946b-e533b8aa150c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> <p>PMID:16540666</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7dac7c52-3f8a-4055-946b-e533b8aa150c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16540666"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3944.75" y="10977.5"/> <port id="pr_7dac7c52-3f8a-4055-946b-e533b8aa150c_p1" x="3949.75" y="10967.5"/> <port id="pr_7dac7c52-3f8a-4055-946b-e533b8aa150c_p2" x="3949.75" y="10997.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_78813a50-3cdf-4b48-8ca4-5bd48730b8cc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22302.207" y="12007.375"/> <port id="pr_78813a50-3cdf-4b48-8ca4-5bd48730b8cc_p1" x="22307.207" y="11997.375"/> <port id="pr_78813a50-3cdf-4b48-8ca4-5bd48730b8cc_p2" x="22307.207" y="12027.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a325e96e-8fad-4b15-87fa-c110b3800de9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:23321667</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a325e96e-8fad-4b15-87fa-c110b3800de9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23321667"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23834.23" y="22530.25"/> <port id="pr_a325e96e-8fad-4b15-87fa-c110b3800de9_p1" x="23839.23" y="22550.25"/> <port id="pr_a325e96e-8fad-4b15-87fa-c110b3800de9_p2" x="23839.23" y="22520.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cfbe82d2-e1d5-4dc8-8bfa-dca13fbf143f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9130713</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cfbe82d2-e1d5-4dc8-8bfa-dca13fbf143f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9130713"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22352.574" y="13954.0"/> <port id="pr_cfbe82d2-e1d5-4dc8-8bfa-dca13fbf143f_p1" x="22372.574" y="13959.0"/> <port 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<title/> </head> <body> <p>References:</p> <p>PMID:10653665</p> <p>fructose 6-phosphate was found to be a potent activator (60-fold) of the unphosphorylated recombinant enzyme</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e02f87f8-5719-4aec-a0d5-6e0f0e00bbdf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10653665"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18333.303" 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x="5923.207" y="7112.5"/> <port id="pr_feb47409-3933-41b6-8cba-aec8596bb118_p2" x="5953.207" y="7112.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f0bf90b5-8fca-4b91-ac83-c9f427cf256a"> <bbox w="10.0" h="10.0" x="14350.417" y="2498.75"/> <port id="pr_f0bf90b5-8fca-4b91-ac83-c9f427cf256a_p1" x="14355.417" y="2518.75"/> <port id="pr_f0bf90b5-8fca-4b91-ac83-c9f427cf256a_p2" x="14355.417" y="2488.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb500d96-e328-490c-98e6-1e9ae27f5965"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19935649</p> <p>Expression of Bmi1, Sox2, p63 was reduced after ZEB1 knockdown.</p> <p>ZEB1 knockdown not only resulted in reduced invasion and metastasis, but also in reduced tumorigenicity.</p> <p>ZEB1 is also necessary for the self-renewing capacity.</p> <p>ZEB1 is crucial for drug resistance in pancreatic cancer cells. This supports data showing that EMT activators (Twist and Snail) confer anti-apoptotic properties</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb500d96-e328-490c-98e6-1e9ae27f5965"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19935649"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4706.75" y="17080.322"/> <port id="pr_eb500d96-e328-490c-98e6-1e9ae27f5965_p1" x="4696.75" y="17085.322"/> <port id="pr_eb500d96-e328-490c-98e6-1e9ae27f5965_p2" x="4726.75" y="17085.322"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_8f0d511f-5cea-49aa-aef9-73c787ab541a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9822605</p> <p>Phosphorylated Vav-2 was found to be active on RhoA, RhoB and the more distantly related RhoG protein</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f0d511f-5cea-49aa-aef9-73c787ab541a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9822605"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5755.652" y="14628.679"/> <port id="pr_8f0d511f-5cea-49aa-aef9-73c787ab541a_p1" x="5745.652" y="14633.679"/> <port id="pr_8f0d511f-5cea-49aa-aef9-73c787ab541a_p2" x="5775.652" y="14633.679"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ce644fb9-c985-4d65-8209-8ea18de76ff3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11788820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ce644fb9-c985-4d65-8209-8ea18de76ff3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11788820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25059.06" y="12907.0"/> <port id="pr_ce644fb9-c985-4d65-8209-8ea18de76ff3_p1" x="25079.06" y="12912.0"/> <port id="pr_ce644fb9-c985-4d65-8209-8ea18de76ff3_p2" x="25049.06" y="12912.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e3c84486-bc6d-4a23-bc69-523f3e0377ca"> <bbox w="10.0" h="10.0" x="5292.5454" y="4275.625"/> <port id="pr_e3c84486-bc6d-4a23-bc69-523f3e0377ca_p1" x="5297.5454" y="4265.625"/> <port id="pr_e3c84486-bc6d-4a23-bc69-523f3e0377ca_p2" x="5297.5454" y="4295.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3abb8279-a1f4-4a13-9363-3c9573a8b508"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16122419</p> <p>in murine cells by FOXO1:PGC!alpha</p> <p>PMID:10364186</p> <p>in Hela by NRF1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3abb8279-a1f4-4a13-9363-3c9573a8b508"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16122419"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10364186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22396.754" y="16161.75"/> <port id="pr_3abb8279-a1f4-4a13-9363-3c9573a8b508_p1" x="22401.754" y="16181.75"/> <port id="pr_3abb8279-a1f4-4a13-9363-3c9573a8b508_p2" x="22401.754" y="16151.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8583165e-6e87-41ec-834e-4b26281cd5a1"> <bbox w="10.0" h="10.0" x="5354.125" y="10285.5"/> <port id="pr_8583165e-6e87-41ec-834e-4b26281cd5a1_p1" x="5359.125" y="10305.5"/> <port id="pr_8583165e-6e87-41ec-834e-4b26281cd5a1_p2" x="5359.125" y="10275.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_03e02af6-d11c-4c04-9606-7adc2c3bfb0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17603935 </p> <p>Tumor necrosis factor-alpha-induced reactive oxygen species formation is mediated by JNK1-dependent ferritin degradation and elevation of labile iron pool.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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id="pr_b2e6adcf-20bf-419f-8b4d-8f09b98e7279_p1" x="17321.82" y="4877.125"/> <port id="pr_b2e6adcf-20bf-419f-8b4d-8f09b98e7279_p2" x="17321.82" y="4907.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_be38a619-deb5-4067-99fb-8193b1ec95c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20424262</p> <p>Ammonia derived from Glutaminolysis is a diffusible regulator of Autophagy</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:11779461</p> <p>PMID:18256687</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b19e2748-232f-4273-8d4d-009e1b9550b6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11779461"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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class="process" orientation="horizontal" id="pr_e5cf8bfe-c12a-48f5-8929-78d1e7dca611"> <bbox w="10.0" h="10.0" x="21094.06" y="16729.0"/> <port id="pr_e5cf8bfe-c12a-48f5-8929-78d1e7dca611_p1" x="21084.06" y="16734.0"/> <port id="pr_e5cf8bfe-c12a-48f5-8929-78d1e7dca611_p2" x="21114.06" y="16734.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ecc748fc-16b3-4be4-8c8f-dc2935c099ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18281283</p> <p>production of NF-kappaB2 p52 is not tumorigenic but predisposes mice to inflammatory autoimmune disease by repressing Bim expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ecc748fc-16b3-4be4-8c8f-dc2935c099ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18281283"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4794.768" y="14101.25"/> <port id="pr_ecc748fc-16b3-4be4-8c8f-dc2935c099ce_p1" x="4799.768" y="14121.25"/> <port id="pr_ecc748fc-16b3-4be4-8c8f-dc2935c099ce_p2" x="4799.768" y="14091.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db77d9d2-4c52-4e39-823a-a9c7727a6d8e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:22745173</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db77d9d2-4c52-4e39-823a-a9c7727a6d8e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22745173"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18662.06" y="22148.0"/> <port id="pr_db77d9d2-4c52-4e39-823a-a9c7727a6d8e_p1" x="18667.06" y="22138.0"/> <port id="pr_db77d9d2-4c52-4e39-823a-a9c7727a6d8e_p2" x="18667.06" y="22168.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_75d60ce2-e00d-4125-8518-22ef8b4df5da"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9113980</p> <p>RhoGDI (so-called ARHGDIA) and GDIG4 (so-called ARHGDIB) are two known GDIs for the Rho-subfamily of GTPases.</p> <p>ARHGDIG is about 50 percent identical to ARHGDIA and ARHGDIB. ARHGFIG binds to CDC42 and RhoA with less affinity compared with ARHGDIA and does not bind with Rac1, Rac2, or Ras.</p> <p>ARHGDIG functions as a GDI for CDC42 but with about 20 times less efficiency than ARHGDIA.</p> <p>PMID:9490022</p> <p>ARHGDIA,B,G are CDC42_GDIs</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_75d60ce2-e00d-4125-8518-22ef8b4df5da"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9113980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9490022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5572.2744" y="14362.25"/> <port id="pr_75d60ce2-e00d-4125-8518-22ef8b4df5da_p1" x="5592.2744" y="14367.25"/> <port id="pr_75d60ce2-e00d-4125-8518-22ef8b4df5da_p2" x="5562.2744" y="14367.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc897d74-8353-45ce-9670-06785e86140f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dc897d74-8353-45ce-9670-06785e86140f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12285.811" y="21386.094"/> <port id="pr_dc897d74-8353-45ce-9670-06785e86140f_p1" x="12305.811" y="21391.094"/> <port id="pr_dc897d74-8353-45ce-9670-06785e86140f_p2" x="12275.811" y="21391.094"/> </glyph> <glyph class="process" orientation="vertical" id="pr_46d102f8-10de-4486-a669-3bba075c639d"> <bbox w="10.0" h="10.0" x="12195.0" y="5418.75"/> <port id="pr_46d102f8-10de-4486-a669-3bba075c639d_p1" x="12200.0" y="5438.75"/> <port id="pr_46d102f8-10de-4486-a669-3bba075c639d_p2" x="12200.0" y="5408.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7cdf767e-3a35-4245-9485-268b0b382dd7"> <bbox w="10.0" h="10.0" x="26344.06" y="10044.625"/> <port id="pr_7cdf767e-3a35-4245-9485-268b0b382dd7_p1" x="26349.06" y="10034.625"/> <port id="pr_7cdf767e-3a35-4245-9485-268b0b382dd7_p2" x="26349.06" y="10064.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3c88b02a-0051-4817-a5ce-876f37552d5b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19543238</p> <p>PMID:21172653</p> <p>The UNC5H dependence receptors promote apoptosis in the absence of their ligand, netrin-1</p> <p>in the absence of netrin-1, recruitment of PP2A to UNC5H2/B allows the activation of DAPk via a PP2A-mediated dephosphorylation</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_3c88b02a-0051-4817-a5ce-876f37552d5b_p2" x="19642.09" y="9196.332"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3fa8e035-7e26-4bf5-8adf-99cd9efe6b3d"> <bbox w="10.0" h="10.0" x="14475.0" y="2493.75"/> <port id="pr_3fa8e035-7e26-4bf5-8adf-99cd9efe6b3d_p1" x="14480.0" y="2513.75"/> <port id="pr_3fa8e035-7e26-4bf5-8adf-99cd9efe6b3d_p2" x="14480.0" y="2483.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d05173af-7025-41f2-bee9-89fa6d2a1cfc"> <bbox w="10.0" h="10.0" x="16644.508" y="17672.09"/> <port id="pr_d05173af-7025-41f2-bee9-89fa6d2a1cfc_p1" x="16649.508" y="17662.09"/> <port id="pr_d05173af-7025-41f2-bee9-89fa6d2a1cfc_p2" x="16649.508" y="17692.09"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_1014afad-425b-4f66-b752-45e09337a9df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24376839</p> <p>PTP4A3 is implicated in cell adhesion and the regulation of focal adhesion components including integrin beta-1, Src, paxillin and p130Cas</p> <p>Similarly, PTP4A3 promotes cell invasion by increasing MMP2 activity and decreasing the expression of the MMP inhibitor, TIMP2. </p> <p>PTP4A3 is also involved in EMT: PTP4A3 overexpression in colorectal carcinoma cells downregulates epithelial markers (E-cadherin, plakoglobin, and integrin beta-3) and upregulates expression of mesenchymal markers (fibronectin and snail1).</p> <p>PMID:23691193</p> <p>Src-mediated phosphorylation of PTP4A3 Is required for Rho activation, motility and invasion promoted by PTP4A3.</p> <p>http://d-scholarship.pitt.edu/18634/1/Zimmerman_ETD-2013.pdf</p> <p>c-MYC activity was able to increase Ptp4a3 gene expression in a fibroblast cell culture model. </p> <p>Tumors from the Ptp4a3-null mice had elevated levels of both IGF1Rβ and c-MYC compared to tumors replete with PTP4A3.</p> <p>Ptp4a3-null cells displayed less migration compared to wildtype cells and loss of VEGF-induced phosphorylation of SRC protein. </p> <p>Reduced migration and SRC activation were also observed when human endothelial cells were treated with a small molecule inhibitor of PTP4A3.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1014afad-425b-4f66-b752-45e09337a9df"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24376839"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23691193"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2537.25" y="17156.0"/> <port id="pr_1014afad-425b-4f66-b752-45e09337a9df_p1" x="2542.25" y="17146.0"/> <port id="pr_1014afad-425b-4f66-b752-45e09337a9df_p2" x="2542.25" y="17176.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9c2282c7-b755-4592-95b8-3e2de1d3a475"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9029219</p> <p>PMID:16326698</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<bbox w="10.0" h="10.0" x="12705.973" y="9043.856"/> <port id="pr_ffed15ef-4abf-4c55-a5e8-202817daed4d_p1" x="12695.973" y="9048.856"/> <port id="pr_ffed15ef-4abf-4c55-a5e8-202817daed4d_p2" x="12725.973" y="9048.856"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff256050-cba8-4f8a-8e50-457e8a67ff6a"> <bbox w="10.0" h="10.0" x="5645.707" y="22061.53"/> <port id="pr_ff256050-cba8-4f8a-8e50-457e8a67ff6a_p1" x="5650.707" y="22081.53"/> <port id="pr_ff256050-cba8-4f8a-8e50-457e8a67ff6a_p2" x="5650.707" y="22051.53"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e6369d44-44c6-4858-b2bb-f87d7801e616"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19561074 </p> <p>PI4KIIalpha and PIP5KIbeta are in complex together with DVL. To keep complex clear the enzymes are left outside of this complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e6369d44-44c6-4858-b2bb-f87d7801e616"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19561074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22725.06" y="18116.0"/> <port id="pr_e6369d44-44c6-4858-b2bb-f87d7801e616_p1" x="22730.06" y="18106.0"/> <port id="pr_e6369d44-44c6-4858-b2bb-f87d7801e616_p2" x="22730.06" y="18136.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_81703e4a-5738-41b9-9ef5-3195d1765a47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18809224</p> <p>Complex RNF8:MDC1 ubiquitinates Ku80 and causes it's dissociation from DNA and degradation.This bring to shift from C_NHEJ to HR:</p> <p>PMID:18001825, PMID:18678709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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x="14571.547" y="15197.373"/> <port id="pr_4497b8ae-d06a-4c8c-a4e9-a65158ef09f0_p2" x="14541.547" y="15197.373"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_16cdb093-7032-4dae-895c-3e33d70db4bb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21118996 PMID:15082531 </p> <p>Auto-phosphorylation</p> <p>HIPK2 may induce autophoshorylationMaps_Modules_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_30109f71-3c8e-44fb-ab1d-b4ebcacc589d"> <bbox w="10.0" h="10.0" x="12880.811" y="20627.5"/> <port id="pr_30109f71-3c8e-44fb-ab1d-b4ebcacc589d_p1" x="12885.811" y="20647.5"/> <port id="pr_30109f71-3c8e-44fb-ab1d-b4ebcacc589d_p2" x="12885.811" y="20617.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_03331c48-99ec-49be-ab20-036223584438"> <bbox w="10.0" h="10.0" x="13930.0" y="2580.0"/> <port id="pr_03331c48-99ec-49be-ab20-036223584438_p1" x="13935.0" y="2600.0"/> <port id="pr_03331c48-99ec-49be-ab20-036223584438_p2" x="13935.0" y="2570.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dbfd6182-7e15-4290-ad7c-0a78424a4d15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21376121</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_04051037-94b2-49c0-ba3a-a69c6f45ebdc"> <bbox w="10.0" h="10.0" x="2959.1729" y="2749.875"/> <port id="pr_04051037-94b2-49c0-ba3a-a69c6f45ebdc_p1" x="2964.1729" y="2739.875"/> <port id="pr_04051037-94b2-49c0-ba3a-a69c6f45ebdc_p2" x="2964.1729" y="2769.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9d9f5c96-0785-4fe7-8d1a-39001e529e99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6537.002" y="18458.0"/> <port id="pr_9d9f5c96-0785-4fe7-8d1a-39001e529e99_p1" x="6542.002" y="18448.0"/> <port id="pr_9d9f5c96-0785-4fe7-8d1a-39001e529e99_p2" x="6542.002" y="18478.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1a8a8039-b62e-483b-a491-543d71433487"> <bbox w="10.0" h="10.0" x="26942.883" y="13651.5"/> <port id="pr_1a8a8039-b62e-483b-a491-543d71433487_p1" x="26932.883" y="13656.5"/> <port id="pr_1a8a8039-b62e-483b-a491-543d71433487_p2" x="26962.883" y="13656.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6fc7e8f7-cfec-49e3-a5dc-ff2c54025665"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6fc7e8f7-cfec-49e3-a5dc-ff2c54025665"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2377.0" y="9189.5"/> <port id="pr_6fc7e8f7-cfec-49e3-a5dc-ff2c54025665_p1" x="2382.0" y="9179.5"/> <port id="pr_6fc7e8f7-cfec-49e3-a5dc-ff2c54025665_p2" x="2382.0" y="9209.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_adf26a4f-cbd1-4db7-a91c-68ca438d197f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5161.0" y="15154.0"/> <port id="pr_adf26a4f-cbd1-4db7-a91c-68ca438d197f_p1" x="5181.0" y="15159.0"/> <port id="pr_adf26a4f-cbd1-4db7-a91c-68ca438d197f_p2" x="5151.0" y="15159.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_187cfc18-8419-4b4b-a0f6-1003489c3ead"> <bbox w="10.0" h="10.0" x="20670.635" y="14648.875"/> <port id="pr_187cfc18-8419-4b4b-a0f6-1003489c3ead_p1" x="20675.635" y="14668.875"/> <port id="pr_187cfc18-8419-4b4b-a0f6-1003489c3ead_p2" x="20675.635" y="14638.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fff99d12-8456-4f64-8f84-0360075a172b"> <bbox w="10.0" h="10.0" x="20974.06" y="11284.0"/> <port id="pr_fff99d12-8456-4f64-8f84-0360075a172b_p1" x="20964.06" y="11289.0"/> <port id="pr_fff99d12-8456-4f64-8f84-0360075a172b_p2" x="20994.06" y="11289.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_71ab249a-658b-4c97-8008-c1aa0cdbf21e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>BCL9 is a target gene of the wnt pathway.</p> <p>PMID:18627596</p> <p>However not known which transcription complex is involved either with CBP or P300. I have chosen this complex randomly</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_71ab249a-658b-4c97-8008-c1aa0cdbf21e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18627596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21996.56" y="22633.0"/> <port id="pr_71ab249a-658b-4c97-8008-c1aa0cdbf21e_p1" x="21986.56" y="22638.0"/> <port id="pr_71ab249a-658b-4c97-8008-c1aa0cdbf21e_p2" x="22016.56" y="22638.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b18f9ac4-5f6c-43f6-8c84-dcd25007d078"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11331587</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b18f9ac4-5f6c-43f6-8c84-dcd25007d078"> <bqbiol:isEncodedBy> <rdf:Bag> 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class="process" orientation="vertical" id="pr_ac129f38-2515-49ff-945d-2c39b51cb6eb"> <bbox w="10.0" h="10.0" x="10437.827" y="5568.8125"/> <port id="pr_ac129f38-2515-49ff-945d-2c39b51cb6eb_p1" x="10442.827" y="5588.8125"/> <port id="pr_ac129f38-2515-49ff-945d-2c39b51cb6eb_p2" x="10442.827" y="5558.8125"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3f00faed-eb55-489f-b445-c7dc9bbac71f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18813803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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class="process" orientation="horizontal" id="pr_2644cb9f-7578-40ba-afeb-07201c534476"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15140942</p> <p>Phosphorylations on p53 prevent its binding to MDM2.</p> <p>PMID:15574337</p> <p>S186 phosphorylation of MDM2 by AKT favors the binding of MDM2 to p53 and its following degradation.</p> <p>PMID:19448627</p> <p>Complex of p53, MDM2 and Slug faciliates the proteasomal degradation of Slug by MDM2.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2f1de43e-4e26-497f-86bc-03d8e5930e13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25897829"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2497.0" y="11093.209"/> <port id="pr_2f1de43e-4e26-497f-86bc-03d8e5930e13_p1" x="2487.0" y="11098.209"/> <port id="pr_2f1de43e-4e26-497f-86bc-03d8e5930e13_p2" x="2517.0" y="11098.209"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_799472af-2564-4b17-87db-f4ca8dd37d04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18829532</p> <p>PMID:9819392</p> <p>PTK6 and CSK both can phosphorylate ARHGAP35 (p190) at Y1105</p> <p>RasGAP actvity of RASA1 is reduced when associated with ARHGAP35 which is a specific GAP for RhoA</p> <p>ARHGAP35 is tyrosine-phosphorylated. </p> <p>The association of ARHGAP35 (p190) with RASA1 (p120) is promoted and stabilized by phosphorylation of p190 at Y1105 by CSK or by PTK6.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_799472af-2564-4b17-87db-f4ca8dd37d04"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID :24954210 </p> <p>DNA damage may reduce ARF (=p14 ARF) protein levels by inducing its degradation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4284.5" y="14022.5"/> <port id="pr_60bf2801-9cfb-48bf-9b04-ae0dfcb53c11_p1" x="4289.5" y="14042.5"/> <port id="pr_60bf2801-9cfb-48bf-9b04-ae0dfcb53c11_p2" x="4289.5" y="14012.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f6e63030-6fbc-4dd1-aaa8-ff8031f09033"> <bbox w="10.0" h="10.0" x="22824.06" y="10551.39"/> <port id="pr_f6e63030-6fbc-4dd1-aaa8-ff8031f09033_p1" x="22829.06" y="10541.39"/> <port id="pr_f6e63030-6fbc-4dd1-aaa8-ff8031f09033_p2" x="22829.06" y="10571.39"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_905db90a-7d0a-4fa5-9535-97ab9de05ff8"> <bbox w="10.0" h="10.0" x="872.5345" y="4174.75"/> <port 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x="23615.06" y="21281.0"/> <port id="pr_b8d09015-2471-47f8-a712-9db778d2dc46_p2" x="23645.06" y="21281.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4726b894-f542-4a9c-be75-528744955382"> <bbox w="10.0" h="10.0" x="19521.06" y="15559.04"/> <port id="pr_4726b894-f542-4a9c-be75-528744955382_p1" x="19541.06" y="15564.04"/> <port id="pr_4726b894-f542-4a9c-be75-528744955382_p2" x="19511.06" y="15564.04"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77e7f960-df24-4f96-829d-71c3fd28a68b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MKP-1 (DUSP1) preferentially inactivates JNK and P38.</p> <p>PMID:19436832</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_77e7f960-df24-4f96-829d-71c3fd28a68b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19436832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9813.262" y="20508.5"/> <port id="pr_77e7f960-df24-4f96-829d-71c3fd28a68b_p1" x="9818.262" y="20498.5"/> <port id="pr_77e7f960-df24-4f96-829d-71c3fd28a68b_p2" x="9818.262" y="20528.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ffa5aca3-95da-4cb3-a87e-5e800c69d1c3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16878133 PMID:18550634</p> <p>Not known which miRNA of the miR-17-92 polycistron is reponsible for degradation of Tsp1 and CTGF not known which miRNA is responsible therefor miR-17-3p is shown in complex</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ffa5aca3-95da-4cb3-a87e-5e800c69d1c3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16878133"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18550634"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27514.06" y="21965.0"/> <port id="pr_ffa5aca3-95da-4cb3-a87e-5e800c69d1c3_p1" x="27504.06" y="21970.0"/> <port id="pr_ffa5aca3-95da-4cb3-a87e-5e800c69d1c3_p2" x="27534.06" y="21970.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b364c409-c702-4aa9-b413-374104088b1b"> <bbox w="10.0" h="10.0" x="21038.502" y="10849.0"/> <port id="pr_b364c409-c702-4aa9-b413-374104088b1b_p1" x="21058.502" y="10854.0"/> <port id="pr_b364c409-c702-4aa9-b413-374104088b1b_p2" x="21028.502" y="10854.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7f37dd11-bce5-4def-a8e8-3e9992838deb"> <bbox w="10.0" h="10.0" x="6580.0" y="2905.0"/> <port id="pr_7f37dd11-bce5-4def-a8e8-3e9992838deb_p1" x="6570.0" y="2910.0"/> <port id="pr_7f37dd11-bce5-4def-a8e8-3e9992838deb_p2" x="6600.0" y="2910.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f345479-2c6f-464e-bb29-e5dde7f050e5"> <bbox w="10.0" h="10.0" x="26781.912" y="16082.125"/> <port id="pr_5f345479-2c6f-464e-bb29-e5dde7f050e5_p1" x="26786.912" y="16102.125"/> <port id="pr_5f345479-2c6f-464e-bb29-e5dde7f050e5_p2" x="26786.912" y="16072.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_986c26b6-53b6-4d28-b21f-140e47684d67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20448.31" y="11709.608"/> <port id="pr_986c26b6-53b6-4d28-b21f-140e47684d67_p1" x="20438.31" y="11714.608"/> <port id="pr_986c26b6-53b6-4d28-b21f-140e47684d67_p2" x="20468.31" y="11714.608"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4e22a2f1-2b42-4a4b-bed7-763a00455ee5"> <bbox w="10.0" h="10.0" x="1055.0" y="3741.0"/> <port id="pr_4e22a2f1-2b42-4a4b-bed7-763a00455ee5_p1" x="1060.0" y="3731.0"/> <port id="pr_4e22a2f1-2b42-4a4b-bed7-763a00455ee5_p2" x="1060.0" y="3761.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_29e81489-ce71-494f-a3f6-8b0a671c3230"> <bbox w="10.0" h="10.0" x="5814.3965" y="7152.531"/> <port id="pr_29e81489-ce71-494f-a3f6-8b0a671c3230_p1" x="5804.3965" y="7157.531"/> <port id="pr_29e81489-ce71-494f-a3f6-8b0a671c3230_p2" x="5834.3965" y="7157.531"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_835c10b4-6e64-4b70-b834-03571c57e957"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3198.25" y="16281.302"/> <port id="pr_835c10b4-6e64-4b70-b834-03571c57e957_p1" x="3218.25" y="16286.302"/> <port id="pr_835c10b4-6e64-4b70-b834-03571c57e957_p2" x="3188.25" y="16286.302"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b6e5ff5-e5c2-4140-9a8c-96b6932feb96"> <bbox w="10.0" h="10.0" x="17420.0" y="2945.0"/> <port id="pr_8b6e5ff5-e5c2-4140-9a8c-96b6932feb96_p1" x="17425.0" y="2935.0"/> <port id="pr_8b6e5ff5-e5c2-4140-9a8c-96b6932feb96_p2" x="17425.0" y="2965.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7642a26e-00c0-4b42-84bf-ccf710680b01"> <bbox w="10.0" h="10.0" x="22459.973" y="14249.875"/> <port id="pr_7642a26e-00c0-4b42-84bf-ccf710680b01_p1" x="22449.973" y="14254.875"/> <port id="pr_7642a26e-00c0-4b42-84bf-ccf710680b01_p2" x="22479.973" y="14254.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_00b36d94-8445-41a2-8f8a-865ac8e852ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2896.5" y="17055.762"/> <port id="pr_00b36d94-8445-41a2-8f8a-865ac8e852ca_p1" x="2916.5" y="17060.762"/> <port id="pr_00b36d94-8445-41a2-8f8a-865ac8e852ca_p2" x="2886.5" y="17060.762"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_351e942e-1398-4456-8895-5edee0de3550"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15300255</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<p>PMID:17129768</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f04a014-e9ba-430d-a0cb-c5ef840eebee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17129768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10602.316" y="15770.852"/> <port id="pr_8f04a014-e9ba-430d-a0cb-c5ef840eebee_p1" x="10622.316" y="15775.852"/> <port id="pr_8f04a014-e9ba-430d-a0cb-c5ef840eebee_p2" x="10592.316" y="15775.852"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c908b717-bfb3-4232-bab2-c5ed3adde518"> <bbox w="10.0" h="10.0" x="28406.326" y="16084.0"/> <port id="pr_c908b717-bfb3-4232-bab2-c5ed3adde518_p1" x="28411.326" y="16104.0"/> <port id="pr_c908b717-bfb3-4232-bab2-c5ed3adde518_p2" x="28411.326" y="16074.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_69da965f-e1c1-491d-849c-fc01a6c415f4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3019.0" y="12553.5"/> <port id="pr_69da965f-e1c1-491d-849c-fc01a6c415f4_p1" x="3039.0" y="12558.5"/> <port id="pr_69da965f-e1c1-491d-849c-fc01a6c415f4_p2" x="3009.0" y="12558.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_837ffc5c-1a46-4a4b-987b-6e953855f863"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3362.746" y="14403.0"/> <port id="pr_837ffc5c-1a46-4a4b-987b-6e953855f863_p1" x="3367.746" y="14423.0"/> <port id="pr_837ffc5c-1a46-4a4b-987b-6e953855f863_p2" x="3367.746" y="14393.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_15d3d030-e281-4e1e-83eb-1c1b022c3a1a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27227.383" y="22432.775"/> <port id="pr_15d3d030-e281-4e1e-83eb-1c1b022c3a1a_p1" x="27247.383" y="22437.775"/> <port 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id="pr_758bfcc7-9a52-4f22-a34e-b3f8006d652e_p2" x="20393.32" y="14565.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a97359a6-1c8c-45e6-8ad2-5f8dbed444ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16112081</p> <p>In vitro, GrinchGEF (ARHGEF10L) induced the GDP/ GTP exchange at RhoA, but not at Rac1 or Cdc42. </p> <p>In intact cells, GrinchGEF induced specifically Rho activation and enhanced RhoA,B,C-specific downstream effect.</p> <p>GrinchGEF, similar to its relative p164-RhoGEF (ARHGEF17), is a Rho-specific GEF. </p> <p>Although RhoA, B, and C have different cellular functions, and some regulators and effectors show preferential interaction with these Rho isoforms, GrinchGEF apparently does not distinguish between RhoA,B,C and similarly activates these Rho proteins</p> <p>Confidence_begin:</p> 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y="14554.821"/> </glyph> <glyph class="process" orientation="vertical" id="pr_796aae50-4f50-44eb-8f1c-e875de7080d4"> <bbox w="10.0" h="10.0" x="625.0" y="3400.75"/> <port id="pr_796aae50-4f50-44eb-8f1c-e875de7080d4_p1" x="630.0" y="3390.75"/> <port id="pr_796aae50-4f50-44eb-8f1c-e875de7080d4_p2" x="630.0" y="3420.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b38b7ac4-c9b3-425e-beee-5497b5f65259"> <bbox w="10.0" h="10.0" x="18003.125" y="6660.0"/> <port id="pr_b38b7ac4-c9b3-425e-beee-5497b5f65259_p1" x="18008.125" y="6680.0"/> <port id="pr_b38b7ac4-c9b3-425e-beee-5497b5f65259_p2" x="18008.125" y="6650.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e87b534f-958c-4603-a998-748fb56eef42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6483.0264" y="15704.133"/> <port id="pr_425401c9-394f-43dd-8ff1-4c7341614adc_p1" x="6473.0264" y="15709.133"/> <port id="pr_425401c9-394f-43dd-8ff1-4c7341614adc_p2" x="6503.0264" y="15709.133"/> </glyph> <glyph class="process" orientation="vertical" id="pr_989e3430-a317-45a1-8577-4c8f8abab3fc"> <bbox w="10.0" h="10.0" x="2815.0" y="3471.25"/> <port id="pr_989e3430-a317-45a1-8577-4c8f8abab3fc_p1" x="2820.0" y="3461.25"/> <port id="pr_989e3430-a317-45a1-8577-4c8f8abab3fc_p2" x="2820.0" y="3491.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f943442-49e4-40b0-b778-a2427a3121c6"> <bbox w="10.0" h="10.0" x="20300.0" y="2475.0"/> <port id="pr_6f943442-49e4-40b0-b778-a2427a3121c6_p1" x="20305.0" y="2495.0"/> <port id="pr_6f943442-49e4-40b0-b778-a2427a3121c6_p2" x="20305.0" y="2465.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_95da22de-5621-4362-87b1-26d39903ad90"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10021362</p> <p>PMID:18815277</p> <p>PMID:17430994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_95da22de-5621-4362-87b1-26d39903ad90"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10021362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17430994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26319.242" y="17761.775"/> <port id="pr_95da22de-5621-4362-87b1-26d39903ad90_p1" x="26339.242" y="17766.775"/> <port id="pr_95da22de-5621-4362-87b1-26d39903ad90_p2" x="26309.242" y="17766.775"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_54320959-fe51-4483-bd57-bf41efd6fe0f"> <bbox w="10.0" h="10.0" x="5833.25" y="5234.375"/> <port id="pr_54320959-fe51-4483-bd57-bf41efd6fe0f_p1" x="5853.25" y="5239.375"/> <port id="pr_54320959-fe51-4483-bd57-bf41efd6fe0f_p2" x="5823.25" y="5239.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_13976488-4887-46bd-aaab-de8d253d011d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>DYRK1A/B primes NFAT in the nucleus, DYRK2 in the cytosol</p> <p>PMID:16511445</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_13976488-4887-46bd-aaab-de8d253d011d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16511445"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18766.31" y="19550.0"/> <port id="pr_13976488-4887-46bd-aaab-de8d253d011d_p1" x="18756.31" y="19555.0"/> <port id="pr_13976488-4887-46bd-aaab-de8d253d011d_p2" x="18786.31" y="19555.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_329b37e4-75a5-42a9-909c-ffbd5b076677"> <bbox w="10.0" h="10.0" x="12764.723" y="12078.909"/> <port id="pr_329b37e4-75a5-42a9-909c-ffbd5b076677_p1" x="12754.723" y="12083.909"/> <port id="pr_329b37e4-75a5-42a9-909c-ffbd5b076677_p2" x="12784.723" y="12083.909"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2a64eed5-1384-407d-afd1-41e30490b0fa"> <bbox w="10.0" h="10.0" x="1125.0" y="3486.75"/> <port id="pr_2a64eed5-1384-407d-afd1-41e30490b0fa_p1" x="1130.0" y="3476.75"/> <port id="pr_2a64eed5-1384-407d-afd1-41e30490b0fa_p2" x="1130.0" y="3506.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_55f64599-3538-4e2e-9ca3-7c9384eee94e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10884395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_55f64599-3538-4e2e-9ca3-7c9384eee94e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10884395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12971.034" y="12839.994"/> <port id="pr_55f64599-3538-4e2e-9ca3-7c9384eee94e_p1" x="12976.034" y="12829.994"/> <port id="pr_55f64599-3538-4e2e-9ca3-7c9384eee94e_p2" x="12976.034" y="12859.994"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7743dab3-dd27-4e41-80a5-123743b9696a"> <bbox w="10.0" h="10.0" x="27101.0" y="8336.25"/> <port id="pr_7743dab3-dd27-4e41-80a5-123743b9696a_p1" x="27106.0" y="8326.25"/> <port id="pr_7743dab3-dd27-4e41-80a5-123743b9696a_p2" x="27106.0" y="8356.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d77c7c5e-ce93-4562-8af8-4a1bc99c83ad"> <bbox w="10.0" h="10.0" x="3480.56" y="22396.25"/> <port id="pr_d77c7c5e-ce93-4562-8af8-4a1bc99c83ad_p1" x="3500.56" y="22401.25"/> <port id="pr_d77c7c5e-ce93-4562-8af8-4a1bc99c83ad_p2" x="3470.56" y="22401.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dde74ce5-95fb-480b-b350-cf4825b6a29c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21416054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dde74ce5-95fb-480b-b350-cf4825b6a29c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21416054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21083.998" y="21800.5"/> <port id="pr_dde74ce5-95fb-480b-b350-cf4825b6a29c_p1" x="21088.998" y="21790.5"/> <port id="pr_dde74ce5-95fb-480b-b350-cf4825b6a29c_p2" x="21088.998" y="21820.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_48be301f-bcad-4ada-8704-a5dcddc9a9f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18936100</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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class="process" orientation="vertical" id="pr_9e67cb82-95e8-4ac8-89a3-e5d04cc0f758"> <bbox w="10.0" h="10.0" x="4125.0" y="3480.0"/> <port id="pr_9e67cb82-95e8-4ac8-89a3-e5d04cc0f758_p1" x="4130.0" y="3470.0"/> <port id="pr_9e67cb82-95e8-4ac8-89a3-e5d04cc0f758_p2" x="4130.0" y="3500.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cca1c8c8-5842-4865-888e-4e4309e0dc8b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21486225</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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process" orientation="horizontal" id="pr_5ef3f8d6-793d-4e51-b3ea-66e64ba2c805"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12582.1875" y="15405.994"/> <port id="pr_5ef3f8d6-793d-4e51-b3ea-66e64ba2c805_p1" x="12572.1875" y="15410.994"/> <port id="pr_5ef3f8d6-793d-4e51-b3ea-66e64ba2c805_p2" x="12602.1875" y="15410.994"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0aa0bc41-5c5e-409f-bc7e-b7e668363201"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0aa0bc41-5c5e-409f-bc7e-b7e668363201"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21091.56" y="22230.02"/> <port id="pr_0aa0bc41-5c5e-409f-bc7e-b7e668363201_p1" x="21081.56" y="22235.02"/> <port id="pr_0aa0bc41-5c5e-409f-bc7e-b7e668363201_p2" x="21111.56" y="22235.02"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f5beee06-bc0d-4c02-a112-fa308aab2cee"> <bbox w="10.0" h="10.0" x="11621.538" y="10547.32"/> <port id="pr_f5beee06-bc0d-4c02-a112-fa308aab2cee_p1" x="11626.538" y="10537.32"/> <port id="pr_f5beee06-bc0d-4c02-a112-fa308aab2cee_p2" x="11626.538" y="10567.32"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a279cea9-a6cd-4a41-b0c6-1024139470ca"> <bbox w="10.0" h="10.0" x="10467.859" y="15416.494"/> <port id="pr_a279cea9-a6cd-4a41-b0c6-1024139470ca_p1" x="10487.859" y="15421.494"/> <port id="pr_a279cea9-a6cd-4a41-b0c6-1024139470ca_p2" x="10457.859" y="15421.494"/> </glyph> <glyph class="process" orientation="vertical" id="pr_890a7a88-ac3a-4132-84f6-768092b136f6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10217147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_890a7a88-ac3a-4132-84f6-768092b136f6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10217147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12375.561" y="21202.0"/> <port id="pr_890a7a88-ac3a-4132-84f6-768092b136f6_p1" x="12380.561" y="21192.0"/> <port id="pr_890a7a88-ac3a-4132-84f6-768092b136f6_p2" x="12380.561" y="21222.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2c49dd8a-ae05-4e58-b5f5-6e647594b354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218261</p> <p>PMID:17218260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2c49dd8a-ae05-4e58-b5f5-6e647594b354"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218261"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12448.717" y="18458.5"/> <port id="pr_2c49dd8a-ae05-4e58-b5f5-6e647594b354_p1" x="12453.717" y="18448.5"/> <port id="pr_2c49dd8a-ae05-4e58-b5f5-6e647594b354_p2" x="12453.717" y="18478.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7c82638d-be64-41ac-a660-444168b33679"> <bbox w="10.0" h="10.0" x="26876.326" y="16084.0"/> <port id="pr_7c82638d-be64-41ac-a660-444168b33679_p1" x="26881.326" y="16104.0"/> <port id="pr_7c82638d-be64-41ac-a660-444168b33679_p2" x="26881.326" y="16074.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_a5d26ae1-69a7-4e91-b5fc-3bbf7552ac58"> <bbox w="20.0" h="20.0" x="27128.82" y="16002.125"/> <port id="logicglyph_a5d26ae1-69a7-4e91-b5fc-3bbf7552ac58_p1" x="27158.82" y="16012.125"/> <port id="logicglyph_a5d26ae1-69a7-4e91-b5fc-3bbf7552ac58_p2" x="27118.82" y="16012.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b2257909-8fdb-4cf5-a4f6-e0cc05c237b6"> <bbox w="10.0" h="10.0" x="12006.561" y="21721.248"/> <port id="pr_b2257909-8fdb-4cf5-a4f6-e0cc05c237b6_p1" x="12026.561" y="21726.248"/> <port id="pr_b2257909-8fdb-4cf5-a4f6-e0cc05c237b6_p2" x="11996.561" y="21726.248"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a97f4ee0-311b-4448-bdf9-d1e44fbd4671"> <bbox w="10.0" h="10.0" x="23896.56" y="22606.0"/> <port id="pr_a97f4ee0-311b-4448-bdf9-d1e44fbd4671_p1" x="23901.56" y="22596.0"/> <port id="pr_a97f4ee0-311b-4448-bdf9-d1e44fbd4671_p2" x="23901.56" y="22626.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3c39f1b2-b195-4a1b-ad57-2fe9e2e5c9b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19691.81" y="14616.75"/> <port id="pr_3c39f1b2-b195-4a1b-ad57-2fe9e2e5c9b3_p1" x="19696.81" y="14606.75"/> <port id="pr_3c39f1b2-b195-4a1b-ad57-2fe9e2e5c9b3_p2" x="19696.81" y="14636.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b05f6b1f-cc7b-4ffa-9d4f-06c608f4cbd1"> <bbox w="10.0" h="10.0" x="19973.4" y="3872.125"/> <port id="pr_b05f6b1f-cc7b-4ffa-9d4f-06c608f4cbd1_p1" x="19978.4" y="3862.125"/> <port id="pr_b05f6b1f-cc7b-4ffa-9d4f-06c608f4cbd1_p2" x="19978.4" y="3892.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_37f21e86-3ace-4512-b744-64d78afecc36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16286006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_37f21e86-3ace-4512-b744-64d78afecc36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16286006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12112.705" y="18685.586"/> <port id="pr_37f21e86-3ace-4512-b744-64d78afecc36_p1" x="12117.705" y="18675.586"/> <port id="pr_37f21e86-3ace-4512-b744-64d78afecc36_p2" x="12117.705" y="18705.586"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_40d82514-5a3d-4feb-b71c-c4e79ea04466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17496911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_40d82514-5a3d-4feb-b71c-c4e79ea04466"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22637.06" y="10834.0"/> <port id="pr_40d82514-5a3d-4feb-b71c-c4e79ea04466_p1" x="22627.06" y="10839.0"/> <port id="pr_40d82514-5a3d-4feb-b71c-c4e79ea04466_p2" x="22657.06" y="10839.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_22a9616e-67ba-4e91-8aa3-bafc3f617bef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5339.0" y="17442.422"/> <port id="pr_22a9616e-67ba-4e91-8aa3-bafc3f617bef_p1" x="5329.0" y="17447.422"/> <port id="pr_22a9616e-67ba-4e91-8aa3-bafc3f617bef_p2" x="5359.0" y="17447.422"/> </glyph> <glyph class="process" orientation="vertical" id="pr_39545f3b-d697-4927-b18f-c98e54052738"> <bbox w="10.0" h="10.0" x="29463.785" y="7426.25"/> <port id="pr_39545f3b-d697-4927-b18f-c98e54052738_p1" x="29468.785" y="7416.25"/> <port 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class="process" orientation="vertical" id="pr_e8d40cab-ee90-40c2-9a16-e37b58cd4449"> <bbox w="10.0" h="10.0" x="11892.186" y="8116.875"/> <port id="pr_e8d40cab-ee90-40c2-9a16-e37b58cd4449_p1" x="11897.186" y="8106.875"/> <port id="pr_e8d40cab-ee90-40c2-9a16-e37b58cd4449_p2" x="11897.186" y="8136.875"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_9937a576-61cf-4868-9ed7-e61e8ddd0553"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1216.0" y="12690.5"/> <port id="pr_9937a576-61cf-4868-9ed7-e61e8ddd0553_p1" x="1206.0" y="12695.5"/> <port id="pr_9937a576-61cf-4868-9ed7-e61e8ddd0553_p2" x="1236.0" y="12695.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_039ee694-0c1b-42bd-9a88-1ad7d788d871"> <bbox w="10.0" h="10.0" x="3875.0" y="3546.25"/> <port id="pr_039ee694-0c1b-42bd-9a88-1ad7d788d871_p1" x="3880.0" y="3536.25"/> <port id="pr_039ee694-0c1b-42bd-9a88-1ad7d788d871_p2" x="3880.0" y="3566.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba83283e-1b30-4d65-bdfb-a22c70c8fd7e"> <bbox w="10.0" h="10.0" x="20309.768" y="6762.0"/> <port id="pr_ba83283e-1b30-4d65-bdfb-a22c70c8fd7e_p1" x="20314.768" y="6752.0"/> <port id="pr_ba83283e-1b30-4d65-bdfb-a22c70c8fd7e_p2" x="20314.768" y="6782.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_32d9ddfb-4e48-4c6f-adf3-2ebe20f1d96c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> <p>PMID:19440036</p> <p>PMID:19945467</p> <p>PMID:26597054</p> <p>PMID:17409395</p> <p>PMID:27328425</p> <p>PMID:27572739</p> <p>PMID:24030100</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_32d9ddfb-4e48-4c6f-adf3-2ebe20f1d96c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24030100"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3039.0" y="9505.653"/> <port id="pr_32d9ddfb-4e48-4c6f-adf3-2ebe20f1d96c_p1" x="3029.0" y="9510.653"/> <port id="pr_32d9ddfb-4e48-4c6f-adf3-2ebe20f1d96c_p2" x="3059.0" y="9510.653"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a284a236-46e2-483b-95d6-36f9afb2d228"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21506126, PMID:21303971</p> <p>Path to phosphorylation of b-catenin is not completely depicted here. For full paths see AKT-pathway</p> <p>Activated CaSR inhibits phosphorylation of b-catenin, exact mechanism unknown</p> <p>PMID:22094462</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a284a236-46e2-483b-95d6-36f9afb2d228"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21506126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21303971"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22094462"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18835.844" y="17990.5"/> <port id="pr_a284a236-46e2-483b-95d6-36f9afb2d228_p1" x="18840.844" y="17980.5"/> <port id="pr_a284a236-46e2-483b-95d6-36f9afb2d228_p2" x="18840.844" y="18010.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_05f98d09-162b-48da-b036-f18fd7305404"> <bbox w="10.0" h="10.0" x="5300.0" y="4755.0"/> <port id="pr_05f98d09-162b-48da-b036-f18fd7305404_p1" x="5290.0" y="4760.0"/> <port id="pr_05f98d09-162b-48da-b036-f18fd7305404_p2" x="5320.0" y="4760.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9ccb63e9-cd29-404c-b085-8b36f33a62cc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11157976</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ccb63e9-cd29-404c-b085-8b36f33a62cc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11157976"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24810.105" y="14374.1"/> <port id="pr_9ccb63e9-cd29-404c-b085-8b36f33a62cc_p1" x="24800.105" y="14379.1"/> <port id="pr_9ccb63e9-cd29-404c-b085-8b36f33a62cc_p2" x="24830.105" y="14379.1"/> </glyph> <glyph class="process" orientation="vertical" id="pr_51ddbb11-c619-4b5f-9d2c-5f69dcbc7735"> <bbox w="10.0" h="10.0" x="13867.46" y="2041.25"/> <port id="pr_51ddbb11-c619-4b5f-9d2c-5f69dcbc7735_p1" x="13872.46" y="2031.25"/> <port id="pr_51ddbb11-c619-4b5f-9d2c-5f69dcbc7735_p2" x="13872.46" y="2061.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5439af5c-431c-4a20-a113-39f4d149f481"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5439af5c-431c-4a20-a113-39f4d149f481"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14106.811" y="18441.25"/> <port id="pr_5439af5c-431c-4a20-a113-39f4d149f481_p1" x="14126.811" y="18446.25"/> <port id="pr_5439af5c-431c-4a20-a113-39f4d149f481_p2" x="14096.811" y="18446.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_fbf98cee-cdd1-4668-bd82-e8df64e1acde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID19244250</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12686.311" y="21288.0"/> <port id="pr_fbf98cee-cdd1-4668-bd82-e8df64e1acde_p1" x="12676.311" y="21293.0"/> <port id="pr_fbf98cee-cdd1-4668-bd82-e8df64e1acde_p2" x="12706.311" y="21293.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_23363cb3-833d-4ca3-98ae-4048f68bdf37"> <bbox w="10.0" h="10.0" x="12700.72" y="13806.678"/> <port id="pr_23363cb3-833d-4ca3-98ae-4048f68bdf37_p1" x="12705.72" y="13796.678"/> <port id="pr_23363cb3-833d-4ca3-98ae-4048f68bdf37_p2" x="12705.72" y="13826.678"/> </glyph> <glyph class="process" orientation="vertical" id="pr_03b2217e-831c-4617-acfb-fe41020ab099"> <bbox w="10.0" h="10.0" x="11479.948" y="11228.25"/> <port id="pr_03b2217e-831c-4617-acfb-fe41020ab099_p1" x="11484.948" y="11218.25"/> <port id="pr_03b2217e-831c-4617-acfb-fe41020ab099_p2" x="11484.948" y="11248.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d6d3809-173c-45fa-8bc0-a4af1d865a0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2858.5" y="15805.052"/> <port id="pr_4d6d3809-173c-45fa-8bc0-a4af1d865a0d_p1" x="2878.5" y="15810.052"/> <port id="pr_4d6d3809-173c-45fa-8bc0-a4af1d865a0d_p2" x="2848.5" y="15810.052"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1abe6acd-b8e5-4ea4-ac13-8668cdc7a43a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22825514</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1abe6acd-b8e5-4ea4-ac13-8668cdc7a43a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22825514"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6199.0" y="9488.268"/> <port id="pr_1abe6acd-b8e5-4ea4-ac13-8668cdc7a43a_p1" x="6219.0" y="9493.268"/> <port id="pr_1abe6acd-b8e5-4ea4-ac13-8668cdc7a43a_p2" x="6189.0" y="9493.268"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b054f6db-8d5d-4720-b570-14c405308057"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6103.5" y="15389.066"/> <port id="pr_b054f6db-8d5d-4720-b570-14c405308057_p1" x="6123.5" y="15394.066"/> <port id="pr_b054f6db-8d5d-4720-b570-14c405308057_p2" x="6093.5" y="15394.066"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9b37764e-3df2-4447-9ae2-05a845b6fb7c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21602792 </p> <p>In presence of WNT ligand</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9b37764e-3df2-4447-9ae2-05a845b6fb7c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21602792"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20803.31" y="18165.0"/> <port id="pr_9b37764e-3df2-4447-9ae2-05a845b6fb7c_p1" x="20808.31" y="18155.0"/> <port id="pr_9b37764e-3df2-4447-9ae2-05a845b6fb7c_p2" x="20808.31" y="18185.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0e2b8e8a-3271-4023-9a1b-01b9f304740e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5578.5" y="16178.891"/> <port id="pr_0e2b8e8a-3271-4023-9a1b-01b9f304740e_p1" x="5568.5" y="16183.891"/> <port id="pr_0e2b8e8a-3271-4023-9a1b-01b9f304740e_p2" x="5598.5" y="16183.891"/> </glyph> <glyph class="process" orientation="vertical" id="pr_96a42529-3fff-4d79-ab59-d0ff3b363c48"> <bbox w="10.0" h="10.0" x="12684.407" y="6625.0"/> <port id="pr_96a42529-3fff-4d79-ab59-d0ff3b363c48_p1" x="12689.407" y="6615.0"/> <port id="pr_96a42529-3fff-4d79-ab59-d0ff3b363c48_p2" x="12689.407" y="6645.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_11100ad0-95e1-4dd1-b7ba-6606400eecef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21172648</p> <p>in the absence of ligand, the intracellular domain of monomeric UNC5B undergoes cleavage and conformational changes that enable binding of the PR65b subunit of PP2A. This drives dephosphorylation and activation of DAPK, thereby inducing proapoptotic signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_11100ad0-95e1-4dd1-b7ba-6606400eecef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21172648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19811.086" y="9243.431"/> <port id="pr_11100ad0-95e1-4dd1-b7ba-6606400eecef_p1" x="19801.086" y="9248.431"/> <port id="pr_11100ad0-95e1-4dd1-b7ba-6606400eecef_p2" x="19831.086" y="9248.431"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13bb2af9-2162-47e7-b865-ce9adc271c86"> <bbox w="10.0" h="10.0" x="755.0" y="3795.5"/> <port id="pr_13bb2af9-2162-47e7-b865-ce9adc271c86_p1" x="760.0" y="3785.5"/> <port id="pr_13bb2af9-2162-47e7-b865-ce9adc271c86_p2" x="760.0" y="3815.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61c103a7-8e01-4d50-8438-717b8ca55f73"> <bbox w="10.0" h="10.0" x="20980.0" y="3626.25"/> <port id="pr_61c103a7-8e01-4d50-8438-717b8ca55f73_p1" x="20985.0" y="3616.25"/> <port id="pr_61c103a7-8e01-4d50-8438-717b8ca55f73_p2" x="20985.0" y="3646.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9e94a1f1-ee4a-457a-8635-63e6ccbb5782"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID : PMID:17055429</p> <p>MYC stimulate P53 and ARF</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9e94a1f1-ee4a-457a-8635-63e6ccbb5782"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4172.162" y="15040.5"/> <port id="pr_9e94a1f1-ee4a-457a-8635-63e6ccbb5782_p1" x="4177.162" y="15060.5"/> <port id="pr_9e94a1f1-ee4a-457a-8635-63e6ccbb5782_p2" x="4177.162" y="15030.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2790f078-2370-4217-b421-8bd18cba5402"> <bbox w="10.0" h="10.0" x="12675.0" y="7480.0"/> <port id="pr_2790f078-2370-4217-b421-8bd18cba5402_p1" x="12680.0" y="7470.0"/> <port id="pr_2790f078-2370-4217-b421-8bd18cba5402_p2" x="12680.0" y="7500.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8e3def36-3b59-4227-a423-536cc83b28e2"> <bbox w="10.0" h="10.0" x="19645.166" y="1569.5"/> <port id="pr_8e3def36-3b59-4227-a423-536cc83b28e2_p1" x="19650.166" y="1559.5"/> <port id="pr_8e3def36-3b59-4227-a423-536cc83b28e2_p2" x="19650.166" y="1589.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_194aacf7-3de5-480a-9ab9-6a9fc6e70baf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5429.5063" y="15105.75"/> <port id="pr_194aacf7-3de5-480a-9ab9-6a9fc6e70baf_p1" x="5449.5063" y="15110.75"/> <port id="pr_194aacf7-3de5-480a-9ab9-6a9fc6e70baf_p2" x="5419.5063" y="15110.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97e52bd3-3c79-4be0-9852-49b513ed2a98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:22898821,</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_97e52bd3-3c79-4be0-9852-49b513ed2a98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22898821"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18404.56" y="20510.824"/> <port id="pr_97e52bd3-3c79-4be0-9852-49b513ed2a98_p1" x="18394.56" y="20515.824"/> <port id="pr_97e52bd3-3c79-4be0-9852-49b513ed2a98_p2" x="18424.56" y="20515.824"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a86a8188-987c-40a8-ab40-e2a8544b487c"> <bbox w="10.0" h="10.0" x="12393.871" y="11233.551"/> <port id="pr_a86a8188-987c-40a8-ab40-e2a8544b487c_p1" x="12398.871" y="11253.551"/> <port id="pr_a86a8188-987c-40a8-ab40-e2a8544b487c_p2" x="12398.871" y="11223.551"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64268e16-bd09-4261-9d38-fbf9dc77f397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11463391</p> <p>by p53</p> <p>PMID:11463392</p> <p>PMID:14634023</p> <p>in Saos-2, by p73</p> <p>PMID:14684737</p> <p>in NIH3T3 and in Saos-2, by E2F1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64268e16-bd09-4261-9d38-fbf9dc77f397"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463391"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14634023"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14684737"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21127.08" y="16151.035"/> <port id="pr_64268e16-bd09-4261-9d38-fbf9dc77f397_p1" x="21132.08" y="16171.035"/> <port id="pr_64268e16-bd09-4261-9d38-fbf9dc77f397_p2" x="21132.08" y="16141.035"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ca6c606-df56-41ac-9c0d-e39dadb49e7c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID : 26548401</p> <p>miR-302c was found to inhibit IL-8 expression and restrain tumor invasion and metastasis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4039.959" y="14996.25"/> <port id="pr_5ca6c606-df56-41ac-9c0d-e39dadb49e7c_p1" x="4044.959" y="15016.25"/> <port id="pr_5ca6c606-df56-41ac-9c0d-e39dadb49e7c_p2" x="4044.959" y="14986.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4d08469b-95dd-4f19-b992-a73fcbceae3f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4d08469b-95dd-4f19-b992-a73fcbceae3f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19996099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27722.373" y="20731.357"/> <port id="pr_4d08469b-95dd-4f19-b992-a73fcbceae3f_p1" x="27727.373" y="20721.357"/> <port id="pr_4d08469b-95dd-4f19-b992-a73fcbceae3f_p2" x="27727.373" y="20751.357"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c77ea037-c1ff-4bc6-874e-599cc90db8a9"> <bbox w="10.0" h="10.0" x="21060.0" y="2486.111"/> <port id="pr_c77ea037-c1ff-4bc6-874e-599cc90db8a9_p1" x="21050.0" y="2491.111"/> <port id="pr_c77ea037-c1ff-4bc6-874e-599cc90db8a9_p2" x="21080.0" y="2491.111"/> </glyph> <glyph class="process" orientation="vertical" id="pr_956f7bdc-6dc4-431d-983d-689450fb71b7"> <bbox w="10.0" h="10.0" x="22405.56" y="9981.625"/> <port id="pr_956f7bdc-6dc4-431d-983d-689450fb71b7_p1" x="22410.56" y="10001.625"/> <port id="pr_956f7bdc-6dc4-431d-983d-689450fb71b7_p2" x="22410.56" y="9971.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_855db223-97d7-4266-964c-67b60a37df61"> <bbox w="10.0" h="10.0" x="28248.367" y="15229.0"/> <port id="pr_855db223-97d7-4266-964c-67b60a37df61_p1" x="28268.367" y="15234.0"/> <port id="pr_855db223-97d7-4266-964c-67b60a37df61_p2" x="28238.367" y="15234.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_129d0222-2831-422d-a436-4990dbd880ef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14980220</p> <p>in vitro with in vitro translated proteins</p> <p>in H460 cells (endogenously expressed proteins), upon 3-Cl-AHPC</p> <p>effect of Bcl2 phosphorylation on binding to NUR77 unknown, even if loop region of Bcl2 between BH3 and BH4, which contains the phosphorylation sites, domain was mapped as the interaction domain</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_129d0222-2831-422d-a436-4990dbd880ef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14980220"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22809.56" y="14124.0"/> <port id="pr_129d0222-2831-422d-a436-4990dbd880ef_p1" x="22829.56" y="14129.0"/> <port id="pr_129d0222-2831-422d-a436-4990dbd880ef_p2" x="22799.56" y="14129.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_be3cf36d-16a9-4276-878e-3c2166c392aa"> <bbox w="10.0" h="10.0" x="11173.473" y="9701.856"/> <port id="pr_be3cf36d-16a9-4276-878e-3c2166c392aa_p1" x="11178.473" y="9691.856"/> <port id="pr_be3cf36d-16a9-4276-878e-3c2166c392aa_p2" x="11178.473" y="9721.856"/> </glyph> <glyph class="process" orientation="vertical" id="pr_195492ae-64cb-4348-b4ae-6f512371c4d6"> <bbox w="10.0" h="10.0" x="19653.65" y="14953.75"/> <port id="pr_195492ae-64cb-4348-b4ae-6f512371c4d6_p1" x="19658.65" y="14973.75"/> <port id="pr_195492ae-64cb-4348-b4ae-6f512371c4d6_p2" x="19658.65" y="14943.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6a0a98e3-dc0a-4348-99ad-0c7a8d85facb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6a0a98e3-dc0a-4348-99ad-0c7a8d85facb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21035.31" y="22454.25"/> <port id="pr_6a0a98e3-dc0a-4348-99ad-0c7a8d85facb_p1" x="21040.31" y="22444.25"/> <port id="pr_6a0a98e3-dc0a-4348-99ad-0c7a8d85facb_p2" x="21040.31" y="22474.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a462983a-1176-4461-9564-7e415fd840c2"> <bbox w="10.0" h="10.0" x="26971.477" y="17643.824"/> <port id="pr_a462983a-1176-4461-9564-7e415fd840c2_p1" x="26991.477" y="17648.824"/> <port id="pr_a462983a-1176-4461-9564-7e415fd840c2_p2" x="26961.477" y="17648.824"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_28d9fba5-4069-4c1e-8f3c-c5f50d569177"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>in vitro by CASP3, CASP7, CASP8</p> <p>in Ba/F3 upon IL3 deprivation, in FDCP1 upon IL3 deprivation, in U937 upon serum starvation, z-VAD-fmk inhibitable cleavage</p> <p>in Ba/F3 upon doxorubicin or etoposide or anti-FasPMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_28d9fba5-4069-4c1e-8f3c-c5f50d569177"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="anti-Fasurn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27831.56" y="11436.5"/> <port id="pr_28d9fba5-4069-4c1e-8f3c-c5f50d569177_p1" x="27821.56" y="11441.5"/> <port id="pr_28d9fba5-4069-4c1e-8f3c-c5f50d569177_p2" x="27851.56" y="11441.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_424d679c-765b-4a47-8cf2-ae472457b97c"> <bbox w="10.0" h="10.0" x="6695.0" y="4160.0"/> <port id="pr_424d679c-765b-4a47-8cf2-ae472457b97c_p1" x="6700.0" y="4150.0"/> <port id="pr_424d679c-765b-4a47-8cf2-ae472457b97c_p2" x="6700.0" y="4180.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_db06d5f1-36fc-43df-b505-fc52203743be"> <bbox w="10.0" h="10.0" x="9172.561" y="18394.75"/> <port id="pr_db06d5f1-36fc-43df-b505-fc52203743be_p1" x="9162.561" y="18399.75"/> <port id="pr_db06d5f1-36fc-43df-b505-fc52203743be_p2" x="9192.561" y="18399.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6abfbd89-e7e2-40b8-8ba4-78f5a2420335"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19788417</p> <p>PMID:16977332</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6abfbd89-e7e2-40b8-8ba4-78f5a2420335"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788417"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16977332"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13524.221" y="18405.0"/> <port id="pr_6abfbd89-e7e2-40b8-8ba4-78f5a2420335_p1" x="13529.221" y="18395.0"/> <port id="pr_6abfbd89-e7e2-40b8-8ba4-78f5a2420335_p2" x="13529.221" y="18425.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_19dbebbf-678e-4edb-9258-484fabf800de"> <bbox w="10.0" h="10.0" x="4929.589" y="2799.25"/> <port id="pr_19dbebbf-678e-4edb-9258-484fabf800de_p1" x="4934.589" y="2789.25"/> <port id="pr_19dbebbf-678e-4edb-9258-484fabf800de_p2" x="4934.589" y="2819.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_172c1848-cecd-4019-9bf1-5a90317e4039"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>SSB convert to DSB in S phase during DNA replication</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11117.27" y="15258.266"/> <port id="pr_172c1848-cecd-4019-9bf1-5a90317e4039_p1" x="11107.27" y="15263.266"/> <port id="pr_172c1848-cecd-4019-9bf1-5a90317e4039_p2" x="11137.27" y="15263.266"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56cb6fb7-ae4c-4e6c-80cf-046f59ad330b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>kegg cell cycle</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12581.732" y="10307.377"/> <port id="pr_56cb6fb7-ae4c-4e6c-80cf-046f59ad330b_p1" x="12586.732" y="10297.377"/> <port id="pr_56cb6fb7-ae4c-4e6c-80cf-046f59ad330b_p2" x="12586.732" y="10327.377"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4852897a-2b89-4a79-ae7e-c86e1c344117"> <bbox w="10.0" h="10.0" x="23692.06" y="22626.0"/> <port id="pr_4852897a-2b89-4a79-ae7e-c86e1c344117_p1" x="23682.06" y="22631.0"/> <port id="pr_4852897a-2b89-4a79-ae7e-c86e1c344117_p2" x="23712.06" y="22631.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_05999add-c8ab-457b-a260-e2dacedbed63"> <bbox w="10.0" h="10.0" x="16912.666" y="1579.375"/> <port id="pr_05999add-c8ab-457b-a260-e2dacedbed63_p1" x="16917.666" y="1569.375"/> <port id="pr_05999add-c8ab-457b-a260-e2dacedbed63_p2" x="16917.666" y="1599.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d4a13b28-2cab-4982-b3bc-4ce24cd9b120"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12931191</p> <p>in mouse liver mitochondria, protein complex purification</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d4a13b28-2cab-4982-b3bc-4ce24cd9b120"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12931191"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20526.06" y="11883.319"/> <port id="pr_d4a13b28-2cab-4982-b3bc-4ce24cd9b120_p1" x="20516.06" y="11888.319"/> <port id="pr_d4a13b28-2cab-4982-b3bc-4ce24cd9b120_p2" x="20546.06" y="11888.319"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f0f07b7f-acef-4609-a332-5fc07ef9486e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PAR1 is activated by cleavage of exodomain at Arg41-Ser42</p> <p>PMID:14652070</p> <p>PAR1 can be activated by MMP1</p> <p>PMID:15707890</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f0f07b7f-acef-4609-a332-5fc07ef9486e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14652070"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15707890"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14942.561" y="17760.5"/> <port id="pr_f0f07b7f-acef-4609-a332-5fc07ef9486e_p1" x="14932.561" y="17765.5"/> <port id="pr_f0f07b7f-acef-4609-a332-5fc07ef9486e_p2" x="14962.561" y="17765.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ce1b36a5-e2f9-440d-bc2d-9e0c15786d92"> <bbox w="10.0" h="10.0" x="26475.154" y="13014.0"/> <port id="pr_ce1b36a5-e2f9-440d-bc2d-9e0c15786d92_p1" x="26495.154" y="13019.0"/> <port id="pr_ce1b36a5-e2f9-440d-bc2d-9e0c15786d92_p2" x="26465.154" y="13019.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6fa1b500-e765-4520-a9af-aab525e41a5a"> <bbox w="10.0" h="10.0" x="12942.061" y="17706.268"/> <port id="pr_6fa1b500-e765-4520-a9af-aab525e41a5a_p1" x="12932.061" y="17711.268"/> <port id="pr_6fa1b500-e765-4520-a9af-aab525e41a5a_p2" x="12962.061" y="17711.268"/> </glyph> <glyph class="process" orientation="vertical" id="pr_49fab96d-9025-40cb-b766-56ce910e3044"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29435006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_49fab96d-9025-40cb-b766-56ce910e3044"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29435006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3917.75" y="10303.5"/> <port id="pr_49fab96d-9025-40cb-b766-56ce910e3044_p1" x="3922.75" y="10323.5"/> <port id="pr_49fab96d-9025-40cb-b766-56ce910e3044_p2" x="3922.75" y="10293.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4d7dac63-8e63-4974-b109-5a87a52dcb5f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1950.051" y="18652.566"/> <port id="pr_4d7dac63-8e63-4974-b109-5a87a52dcb5f_p1" x="1940.051" y="18657.566"/> <port id="pr_4d7dac63-8e63-4974-b109-5a87a52dcb5f_p2" x="1970.051" y="18657.566"/> </glyph> <glyph class="process" orientation="vertical" id="pr_40907109-7fb6-44ee-bc2d-92655fcf2483"> <bbox w="10.0" h="10.0" x="5985.0" y="1755.0"/> <port id="pr_40907109-7fb6-44ee-bc2d-92655fcf2483_p1" x="5990.0" y="1745.0"/> <port id="pr_40907109-7fb6-44ee-bc2d-92655fcf2483_p2" x="5990.0" y="1775.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_32e0fa84-9a76-43d6-9332-e9d2d0e0694f"> <bbox w="10.0" h="10.0" x="9955.0" y="4396.25"/> <port id="pr_32e0fa84-9a76-43d6-9332-e9d2d0e0694f_p1" x="9960.0" y="4386.25"/> <port id="pr_32e0fa84-9a76-43d6-9332-e9d2d0e0694f_p2" x="9960.0" y="4416.25"/> </glyph> <glyph class="process" 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<bbox w="10.0" h="10.0" x="27769.86" y="9129.5"/> <port id="pr_fd778c5c-4802-4972-8fdb-41d706bf645c_p1" x="27774.86" y="9119.5"/> <port id="pr_fd778c5c-4802-4972-8fdb-41d706bf645c_p2" x="27774.86" y="9149.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_8d102833-822f-4138-9a6c-23764d9e60d8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5747.206" y="14615.785"/> <port id="pr_8d102833-822f-4138-9a6c-23764d9e60d8_p1" x="5737.206" y="14620.785"/> <port id="pr_8d102833-822f-4138-9a6c-23764d9e60d8_p2" x="5767.206" y="14620.785"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c906136e-b989-4f8d-bd4d-6d3ff164a5a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c906136e-b989-4f8d-bd4d-6d3ff164a5a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22921416"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox 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</glyph> <glyph class="and" orientation="vertical" id="logicglyph_2a55055b-6757-4070-af72-d58a6d1035ef"> <bbox w="20.0" h="20.0" x="27376.531" y="17697.701"/> <port id="logicglyph_2a55055b-6757-4070-af72-d58a6d1035ef_p1" x="27386.531" y="17687.701"/> <port id="logicglyph_2a55055b-6757-4070-af72-d58a6d1035ef_p2" x="27386.531" y="17727.701"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b345aa0c-c89f-4406-88f5-a6387b272d0f"> <bbox w="10.0" h="10.0" x="18313.0" y="2335.0"/> <port id="pr_b345aa0c-c89f-4406-88f5-a6387b272d0f_p1" x="18318.0" y="2325.0"/> <port id="pr_b345aa0c-c89f-4406-88f5-a6387b272d0f_p2" x="18318.0" y="2355.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8116b98d-39cb-4f74-814e-636a2b7ae7eb"> <bbox w="10.0" h="10.0" x="5540.0" y="4352.5"/> <port id="pr_8116b98d-39cb-4f74-814e-636a2b7ae7eb_p1" x="5545.0" y="4342.5"/> <port id="pr_8116b98d-39cb-4f74-814e-636a2b7ae7eb_p2" x="5545.0" y="4372.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_563e62dd-c771-49f7-9ed3-37688f8baf4a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11389439</p> <p>PMID:11591730</p> <p>by p53</p> <p>PMID:11559530</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_563e62dd-c771-49f7-9ed3-37688f8baf4a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11389439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11591730"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11559530"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21669.574" y="16160.299"/> <port id="pr_563e62dd-c771-49f7-9ed3-37688f8baf4a_p1" x="21674.574" y="16180.299"/> <port id="pr_563e62dd-c771-49f7-9ed3-37688f8baf4a_p2" x="21674.574" y="16150.299"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0e3fa330-894d-49a3-a1ac-f38dd242fe51"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:23140366</p> <p>p16INK4a activates the pRB tumor suppressor, which silences certain proproliferative genes by heterochromatinization, thereby instituting a stringent arrest of cell proliferation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0e3fa330-894d-49a3-a1ac-f38dd242fe51"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23140366"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3167.0786" y="14438.125"/> <port id="pr_0e3fa330-894d-49a3-a1ac-f38dd242fe51_p1" x="3172.0786" y="14458.125"/> <port id="pr_0e3fa330-894d-49a3-a1ac-f38dd242fe51_p2" x="3172.0786" y="14428.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d50ae9cb-23b2-467e-8a1d-51b624176f5d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19446321</p> <p>ANNOTATION:complex formation with DEPTOR antagonize/inhibits MTOR kinase activity</p> <p>PMID:19706736</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d50ae9cb-23b2-467e-8a1d-51b624176f5d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19446321"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19706736"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13802.38" y="19478.598"/> <port id="pr_d50ae9cb-23b2-467e-8a1d-51b624176f5d_p1" x="13822.38" y="19483.598"/> <port id="pr_d50ae9cb-23b2-467e-8a1d-51b624176f5d_p2" x="13792.38" y="19483.598"/> </glyph> <glyph class="process" orientation="vertical" id="pr_339b9f58-79c9-4511-ad85-a721b7514670"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218261</p> <p>PMID:17218260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_339b9f58-79c9-4511-ad85-a721b7514670"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218261"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12554.186" y="18458.0"/> <port id="pr_339b9f58-79c9-4511-ad85-a721b7514670_p1" x="12559.186" y="18448.0"/> <port id="pr_339b9f58-79c9-4511-ad85-a721b7514670_p2" x="12559.186" y="18478.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_40dfd5c9-acaa-4910-9065-22b6ec54bd3f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_40dfd5c9-acaa-4910-9065-22b6ec54bd3f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2992.25" y="10515.0"/> <port id="pr_40dfd5c9-acaa-4910-9065-22b6ec54bd3f_p1" x="2982.25" y="10520.0"/> <port id="pr_40dfd5c9-acaa-4910-9065-22b6ec54bd3f_p2" x="3012.25" y="10520.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_355fbe25-aac0-430b-a61c-b8efcdfed29f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CREB target genes (c-FOS EGR-1 MKP1 BCL2 MMP13).</p> <p>PMID:19815709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_355fbe25-aac0-430b-a61c-b8efcdfed29f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19815709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7962.3584" y="20732.807"/> <port id="pr_355fbe25-aac0-430b-a61c-b8efcdfed29f_p1" x="7967.3584" y="20722.807"/> <port id="pr_355fbe25-aac0-430b-a61c-b8efcdfed29f_p2" x="7967.3584" y="20752.807"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0bb281ee-8658-4d4a-a58d-3a497c7bab40"> <bbox w="10.0" h="10.0" x="20938.56" y="20742.0"/> <port id="pr_0bb281ee-8658-4d4a-a58d-3a497c7bab40_p1" x="20928.56" y="20747.0"/> <port id="pr_0bb281ee-8658-4d4a-a58d-3a497c7bab40_p2" x="20958.56" y="20747.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f94da367-0b49-48e9-b7a3-6418aa585018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26555.06" y="23078.75"/> <port id="pr_f94da367-0b49-48e9-b7a3-6418aa585018_p1" x="26545.06" y="23083.75"/> <port id="pr_f94da367-0b49-48e9-b7a3-6418aa585018_p2" x="26575.06" y="23083.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a4a33caa-7a9d-4d86-a9f2-f3a6b4472cde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a4a33caa-7a9d-4d86-a9f2-f3a6b4472cde"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2300.0" y="9022.75"/> <port id="pr_a4a33caa-7a9d-4d86-a9f2-f3a6b4472cde_p1" x="2305.0" y="9012.75"/> <port id="pr_a4a33caa-7a9d-4d86-a9f2-f3a6b4472cde_p2" x="2305.0" y="9042.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_36a6d43f-9fae-46b5-8cce-8fd005510ced"> <bbox w="10.0" h="10.0" x="6203.0" y="6600.0"/> <port id="pr_36a6d43f-9fae-46b5-8cce-8fd005510ced_p1" x="6193.0" y="6605.0"/> <port id="pr_36a6d43f-9fae-46b5-8cce-8fd005510ced_p2" x="6223.0" y="6605.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fb437a8a-c2e6-4258-9276-d3e072591cd1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1580.75" y="13541.375"/> <port id="pr_fb437a8a-c2e6-4258-9276-d3e072591cd1_p1" x="1570.75" y="13546.375"/> <port id="pr_fb437a8a-c2e6-4258-9276-d3e072591cd1_p2" x="1600.75" y="13546.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0ba83334-ff93-4d12-a222-decc26b1058c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>B-Raf is recruited on the plasma membrane by activated Ras.</p> <p>Activated Ras functions as an adapter that binds to Raf kinases with high a???nity and causes their translocation to the cell membrane where Raf activation takes place.</p> <p>RasGTP and Sur-8 allow dephosphorylation of N-ter 14-3-3 binding site of Raf (not modelled) and thus its recruitment.</p> <p>PMID:19541618 PMID:11023813 PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5453.0425" y="16178.309"/> <port id="pr_260451ec-6aea-4dc1-8e2c-5fa6c0967063_p1" x="5443.0425" y="16183.309"/> <port id="pr_260451ec-6aea-4dc1-8e2c-5fa6c0967063_p2" x="5473.0425" y="16183.309"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6ecc443b-cfdf-4f0d-8f94-7d35289ebeb5"> <bbox w="10.0" h="10.0" x="25722.25" y="2085.9988"/> <port id="pr_6ecc443b-cfdf-4f0d-8f94-7d35289ebeb5_p1" x="25742.25" y="2090.9988"/> <port id="pr_6ecc443b-cfdf-4f0d-8f94-7d35289ebeb5_p2" x="25712.25" y="2090.9988"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f3f811c0-b1a2-4766-a933-403734c2be26"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18931676, PMID:19686080, PMID:17296736</p> <p>Link between cell cycle and activation of Fanconi pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f3f811c0-b1a2-4766-a933-403734c2be26"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18931676"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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y="13887.233"/> <port id="pr_673cff07-c4f3-4e20-9b1c-663d5287ad2b_p1" x="25216.35" y="13892.233"/> <port id="pr_673cff07-c4f3-4e20-9b1c-663d5287ad2b_p2" x="25246.35" y="13892.233"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1b8f2c40-bada-4bcb-9617-78c21cba2128"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21053359</p> <p>PMID:18471976</p> <p>PMID:21084277</p> <p>PMID:23178297</p> <p>PMID:20609352</p> <p>PMID:22073279</p> <p>PMID:22970020</p> <p>PMID:21811102</p> <p>PMID:25139404</p> <p>PMID:24403062</p> <p>PMID:22073279</p> <p>PMID:27526109</p> <p>PMID:27222233</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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<port id="pr_d6970155-85f2-437e-aef0-22f248f48e79_p2" x="5964.293" y="4884.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dea79d81-54f8-4401-a0ef-c52d3985cc59"> <bbox w="10.0" h="10.0" x="15425.0" y="2925.0"/> <port id="pr_dea79d81-54f8-4401-a0ef-c52d3985cc59_p1" x="15430.0" y="2945.0"/> <port id="pr_dea79d81-54f8-4401-a0ef-c52d3985cc59_p2" x="15430.0" y="2915.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c5d58399-8ac2-45f6-902f-9e7de7292bae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19490890</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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The exact mechanism is unknown except that v-ATPase is involved in the process.</p> <p>PMID:20699474</p> <p>PMID:21380625</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f42bbb7a-9143-4923-acc8-8c715f09a1ba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20699474"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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<p>PMID:20589835</p> <p>Our results indicate that MT1-MMP is a direct down-stream target in the Wnt signaling pathway, and that one of the ways accumulated beta-catenin contributes to colorectal carcinogenesis is by transactivating this gene.</p> <p>MT1-MMP is one target gene of Lef-1/Tcf-4 (Takahashi et al, 2002)</p> <p>PMID:16556862</p> <p>NF-κB is an important transcriptional factor of MT1-MMP expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64cf6a42-1549-4054-890e-52dd71f8fe8a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16393692"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20506250"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23014.06" y="11116.0"/> <port id="pr_acdc29e5-d301-48b4-8f78-12d033709e2a_p1" x="23034.06" y="11121.0"/> <port id="pr_acdc29e5-d301-48b4-8f78-12d033709e2a_p2" x="23004.06" y="11121.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f72eeec-e3aa-428f-b1ae-3f2440ae4243"> <bbox w="10.0" h="10.0" x="18520.572" y="12806.375"/> <port id="pr_6f72eeec-e3aa-428f-b1ae-3f2440ae4243_p1" x="18525.572" y="12796.375"/> <port id="pr_6f72eeec-e3aa-428f-b1ae-3f2440ae4243_p2" x="18525.572" y="12826.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_062cc478-a232-42ba-8c88-ecab3fda60b3"> <bbox w="10.0" h="10.0" x="31281.0" y="2555.0"/> <port id="pr_062cc478-a232-42ba-8c88-ecab3fda60b3_p1" x="31286.0" y="2545.0"/> <port id="pr_062cc478-a232-42ba-8c88-ecab3fda60b3_p2" x="31286.0" y="2575.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8a9483cc-bec3-441d-b09e-f629b7fbe127"> <bbox w="10.0" h="10.0" x="9149.125" y="5559.831"/> <port id="pr_8a9483cc-bec3-441d-b09e-f629b7fbe127_p1" x="9139.125" y="5564.831"/> <port id="pr_8a9483cc-bec3-441d-b09e-f629b7fbe127_p2" x="9169.125" y="5564.831"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_de0110aa-aaeb-4abd-8e6d-c550e7880548"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12792650</p> <p>okadaic acid</p> <p>PMID:16888006</p> <p>in a murine T cell line stably transfected with the human IL2R, IL2 withdrawal induces PP1 alpha catalytic subunit PP1CA dephosphorylation and activation and CASP9 dephosphorylation</p> </body> </html> </notes> <extension> <annotation xmlns="" 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<p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_28f3e04d-0ff1-4e54-b0c1-03dd9729e148"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14963330"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4785.5" y="13763.568"/> <port id="pr_28f3e04d-0ff1-4e54-b0c1-03dd9729e148_p1" x="4805.5" y="13768.568"/> <port id="pr_28f3e04d-0ff1-4e54-b0c1-03dd9729e148_p2" x="4775.5" y="13768.568"/> </glyph> <glyph class="process" orientation="vertical" id="pr_300e42da-21ee-4851-b60b-acacf89dacd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20562099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_300e42da-21ee-4851-b60b-acacf89dacd7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20562099"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21396.06" y="18243.5"/> <port id="pr_300e42da-21ee-4851-b60b-acacf89dacd7_p1" x="21401.06" y="18233.5"/> <port id="pr_300e42da-21ee-4851-b60b-acacf89dacd7_p2" x="21401.06" y="18263.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_59e4fbe6-7b63-4223-93a7-182057d828db"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>In general, growth factor stimulation leads to the activation of receptor tyrosine kinases and to the phosphorylation of the receptor tail.</p> <p>The resultant phosphotyrosines form docking sites for adaptator proteins (e.g. GRB2 via its SH2 domain).</p> <p>The SH3 domain of adaptator (e.g. GRB2) then binds to the proline-rich motifs in the GTP exchange factor (i.e. GEF) for RAS (e.g. SOS)</p> <p>Via this process that GEF (e.g. SOS) is recruited to the membrane where it colocalizes with and activates Ras.</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dd2a937c-0c45-4f0c-9aae-56cf4b5bc7dc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8061610"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18808.746" y="10244.878"/> <port id="pr_dd2a937c-0c45-4f0c-9aae-56cf4b5bc7dc_p1" x="18828.746" y="10249.878"/> <port id="pr_dd2a937c-0c45-4f0c-9aae-56cf4b5bc7dc_p2" x="18798.746" y="10249.878"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1442e1a4-6c71-4be5-b904-e095eea1530e"> <bbox w="10.0" h="10.0" x="27121.0" y="8133.75"/> <port id="pr_1442e1a4-6c71-4be5-b904-e095eea1530e_p1" x="27126.0" y="8123.75"/> <port id="pr_1442e1a4-6c71-4be5-b904-e095eea1530e_p2" x="27126.0" y="8153.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef2b0a11-abe6-4105-8845-61c935036721"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9603954</p> <p>rapamycin-induced inhibition of CCND1 translation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> <p>PMID:9488723</p> <p>PMID:11571274</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5d6fa858-e548-432f-b8b6-560634de9ec9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9488723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11571274"/> </rdf:Bag> 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id="pr_dcd65c13-ed43-49ff-bafd-5e5e4726c9bd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19176523</p> <p>upon oxidative stress</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dcd65c13-ed43-49ff-bafd-5e5e4726c9bd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19176523"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d7e956fd-0044-4001-9896-ad95ca44e856"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23306204"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15806138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20122174"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21763.56" y="22676.0"/> <port id="pr_d7e956fd-0044-4001-9896-ad95ca44e856_p1" x="21753.56" y="22681.0"/> <port id="pr_d7e956fd-0044-4001-9896-ad95ca44e856_p2" x="21783.56" y="22681.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_23a525b5-241d-42f6-8b85-5493827f1364"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PFK is a tetramer of the 1 to 3 of the different isoforms. Its exact composition depends on the cell type.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19102.06" y="10065.689"/> <port id="pr_23a525b5-241d-42f6-8b85-5493827f1364_p1" x="19122.06" y="10070.689"/> <port id="pr_23a525b5-241d-42f6-8b85-5493827f1364_p2" x="19092.06" y="10070.689"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_33b24597-dc87-4956-955a-cc0329bf98c0"> <bbox w="10.0" h="10.0" x="13224.061" y="20917.0"/> <port id="pr_33b24597-dc87-4956-955a-cc0329bf98c0_p1" x="13214.061" y="20922.0"/> <port id="pr_33b24597-dc87-4956-955a-cc0329bf98c0_p2" x="13244.061" y="20922.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_513458f1-51b7-4619-82e1-51540dfb5878"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4109.031" y="16722.5"/> <port id="pr_513458f1-51b7-4619-82e1-51540dfb5878_p1" x="4129.031" y="16727.5"/> <port id="pr_513458f1-51b7-4619-82e1-51540dfb5878_p2" x="4099.031" y="16727.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ed9bf1e3-8106-426f-9cfa-ea16fb00cf89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16540666</p> <p>PMID:20681446</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_e0324a72-b5ee-44af-89f4-ad81cd77a912"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9878069</p> <p>Human eukaryotic translation initiation factor 4G (eIF4G) recruits mnk1 to phosphorylate eIF4E.</p> <p>PMID:9155017</p> <p>In vitro, Mnk1 rapidly phosphorylates eIF-4E at the physiologically relevant site, Ser209</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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x="4338.253" y="17787.5"/> <port id="pr_8a765b9b-ac6a-431f-bc88-794f4f0afb98_p1" x="4343.253" y="17777.5"/> <port id="pr_8a765b9b-ac6a-431f-bc88-794f4f0afb98_p2" x="4343.253" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_71a9fdd1-55a6-42ee-8df3-f51d2a890cbb"> <bbox w="10.0" h="10.0" x="225.0" y="3117.5"/> <port id="pr_71a9fdd1-55a6-42ee-8df3-f51d2a890cbb_p1" x="230.0" y="3137.5"/> <port id="pr_71a9fdd1-55a6-42ee-8df3-f51d2a890cbb_p2" x="230.0" y="3107.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9b5987b1-8a74-4971-84c2-2f07c9725c37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<port id="pr_a99d2f00-7543-42a4-a824-738d1f05c8f0_p2" x="4876.25" y="3091.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1a19969-1113-4fe4-b1aa-6d93d2b85bf3"> <bbox w="10.0" h="10.0" x="28221.0" y="7296.25"/> <port id="pr_d1a19969-1113-4fe4-b1aa-6d93d2b85bf3_p1" x="28226.0" y="7286.25"/> <port id="pr_d1a19969-1113-4fe4-b1aa-6d93d2b85bf3_p2" x="28226.0" y="7316.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ce6bacd-d177-429e-b968-5ac130c08761"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1690.875" y="13600.3"/> <port id="pr_0ce6bacd-d177-429e-b968-5ac130c08761_p1" x="1680.875" y="13605.3"/> <port id="pr_0ce6bacd-d177-429e-b968-5ac130c08761_p2" x="1710.875" y="13605.3"/> </glyph> <glyph class="process" orientation="vertical" id="pr_898821fb-1316-4341-b55b-04fa34f041dd"> <bbox w="10.0" h="10.0" x="5224.3916" y="1320.0"/> <port id="pr_898821fb-1316-4341-b55b-04fa34f041dd_p1" x="5229.3916" y="1340.0"/> <port id="pr_898821fb-1316-4341-b55b-04fa34f041dd_p2" x="5229.3916" y="1310.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_85183b6e-0733-413c-9456-0302693f16c7"> <bbox w="10.0" h="10.0" x="3819.06" y="22194.0"/> <port id="pr_85183b6e-0733-413c-9456-0302693f16c7_p1" x="3839.06" y="22199.0"/> <port id="pr_85183b6e-0733-413c-9456-0302693f16c7_p2" x="3809.06" y="22199.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56a7a496-0553-4ca0-afc3-cc64b8be6272"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:12000740</p> <p>in Hela upon TNF+CHX</p> <p>in Jurkat upon anti FAS</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_56a7a496-0553-4ca0-afc3-cc64b8be6272"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12000740"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26224.06" y="9452.0"/> <port id="pr_56a7a496-0553-4ca0-afc3-cc64b8be6272_p1" x="26229.06" y="9472.0"/> <port id="pr_56a7a496-0553-4ca0-afc3-cc64b8be6272_p2" x="26229.06" y="9442.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d94fdea0-9bdd-49ef-b461-3537ec0a6b97"> <bbox w="10.0" h="10.0" x="22171.885" y="14535.75"/> <port id="pr_d94fdea0-9bdd-49ef-b461-3537ec0a6b97_p1" x="22191.885" y="14540.75"/> <port id="pr_d94fdea0-9bdd-49ef-b461-3537ec0a6b97_p2" x="22161.885" y="14540.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d94d81cc-dfa2-4883-abec-28806638a31b"> <bbox w="10.0" h="10.0" x="28121.326" y="16274.0"/> <port id="pr_d94d81cc-dfa2-4883-abec-28806638a31b_p1" x="28111.326" y="16279.0"/> <port id="pr_d94d81cc-dfa2-4883-abec-28806638a31b_p2" x="28141.326" y="16279.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_569f7c15-1075-4385-ba47-5b8082ddba4e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18955971</p> <p>LMP causes the proteolytic activation of Bid (which is cleaved by the two lysosomal cathepsins B and D), which then induces MOMP</p> <p>PMID:16966373</p> <p>PMID:17670831</p> <p>PMID:11427496</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_569f7c15-1075-4385-ba47-5b8082ddba4e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18955971"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16966373"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17670831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11427496"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20800.56" y="11260.5"/> <port id="pr_569f7c15-1075-4385-ba47-5b8082ddba4e_p1" x="20790.56" y="11265.5"/> <port id="pr_569f7c15-1075-4385-ba47-5b8082ddba4e_p2" x="20820.56" y="11265.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_163bcb9e-9d39-4fe6-9e00-ac6feab54cee"> <bbox w="10.0" h="10.0" x="27099.125" y="8538.75"/> <port id="pr_163bcb9e-9d39-4fe6-9e00-ac6feab54cee_p1" x="27104.125" y="8528.75"/> <port id="pr_163bcb9e-9d39-4fe6-9e00-ac6feab54cee_p2" x="27104.125" y="8558.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7fe528d4-e985-4d9c-bd66-8e1be4f5e188"> <bbox w="10.0" h="10.0" x="4879.25" y="11106.0"/> <port id="pr_7fe528d4-e985-4d9c-bd66-8e1be4f5e188_p1" x="4884.25" y="11096.0"/> <port id="pr_7fe528d4-e985-4d9c-bd66-8e1be4f5e188_p2" x="4884.25" y="11126.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_097aaddb-243d-4131-b8ce-a33ad7de8d54"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5147.4214" y="17690.0"/> <port id="pr_097aaddb-243d-4131-b8ce-a33ad7de8d54_p1" x="5152.4214" y="17680.0"/> <port id="pr_097aaddb-243d-4131-b8ce-a33ad7de8d54_p2" x="5152.4214" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cfc546d5-43a7-426a-b534-12a87c8d5919"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18408758</p> <p>in human epithelial ovarian cancer cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cfc546d5-43a7-426a-b534-12a87c8d5919"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18408758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23813.22" y="13129.75"/> <port id="pr_cfc546d5-43a7-426a-b534-12a87c8d5919_p1" x="23818.22" y="13149.75"/> <port id="pr_cfc546d5-43a7-426a-b534-12a87c8d5919_p2" x="23818.22" y="13119.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d4c1eec5-2a92-48a6-82ce-6d99eebf080c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19798104</p> <p>in HCT116 human colon cancer cells</p> <p>in U2OS (luciferase gene reporter)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d4c1eec5-2a92-48a6-82ce-6d99eebf080c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19798104"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20570.467" y="16153.625"/> <port id="pr_d4c1eec5-2a92-48a6-82ce-6d99eebf080c_p1" x="20575.467" y="16173.625"/> <port id="pr_d4c1eec5-2a92-48a6-82ce-6d99eebf080c_p2" x="20575.467" y="16143.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b46029b9-803a-4e45-b8fd-26a48f8d7ba9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18857.81" y="11720.25"/> <port id="pr_b46029b9-803a-4e45-b8fd-26a48f8d7ba9_p1" x="18847.81" y="11725.25"/> <port id="pr_b46029b9-803a-4e45-b8fd-26a48f8d7ba9_p2" x="18877.81" y="11725.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f352fbd0-0726-4065-aa5c-9962bdb591d5"> <bbox 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9865696</p> <p>SARA interacts directly with Smad2 and Smad3</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3b9ac707-8f70-411c-86b7-17f25b71bc4a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9865696"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20543981</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_81045c20-b3dc-43d7-9581-1667331b7e91"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20543981"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23996.06" y="18353.5"/> <port id="pr_81045c20-b3dc-43d7-9581-1667331b7e91_p1" x="24001.06" y="18343.5"/> <port id="pr_81045c20-b3dc-43d7-9581-1667331b7e91_p2" x="24001.06" y="18373.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f366bdc6-00a4-42fc-8610-b67314ccdac1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15210107</p> <p>reviews the differerent hypothesis concerning the biochemical events leading to activation of CASP9</p> <p>PMID:12773388</p> <p>in vitro, survivin and HBXIP together inhibits CASP9 processing and activation</p> <p>in HT1080 cells, coexpression of BIRC5 and HBXIP suppresses staurosporin-induced apoptosis</p> <p>in cell extracts from Hela transfected with siRNA against HBXIP, CYCS induced caspase activation is suppressed</p> <p>PMID:10329646</p> <p>by NOD1</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_f366bdc6-00a4-42fc-8610-b67314ccdac1_p1" x="24509.06" y="14379.0"/> <port id="pr_f366bdc6-00a4-42fc-8610-b67314ccdac1_p2" x="24539.06" y="14379.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7f2bd242-2a6d-44fd-a993-4eeef2d87ccd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17928295</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5320.5" y="17485.125"/> <port id="pr_f8f8f805-60c6-496d-9737-a3ca3c19a5d9_p1" x="5310.5" y="17490.125"/> <port id="pr_f8f8f805-60c6-496d-9737-a3ca3c19a5d9_p2" x="5340.5" y="17490.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8150afe2-fba3-41cf-8b93-12a8d7e22210"> <bbox w="10.0" h="10.0" x="21124.25" y="16102.0"/> <port id="pr_8150afe2-fba3-41cf-8b93-12a8d7e22210_p1" x="21129.25" y="16122.0"/> <port id="pr_8150afe2-fba3-41cf-8b93-12a8d7e22210_p2" x="21129.25" y="16092.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_66af4b51-768f-4baa-8d0b-2d486fe424a8"> <bbox w="10.0" h="10.0" x="28113.36" y="7661.25"/> <port id="pr_66af4b51-768f-4baa-8d0b-2d486fe424a8_p1" x="28118.36" y="7651.25"/> <port id="pr_66af4b51-768f-4baa-8d0b-2d486fe424a8_p2" x="28118.36" y="7681.25"/> </glyph> <glyph class="omitted process" 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orientation="horizontal" id="pr_a552b0c8-c288-40b3-9bc3-11f7e5b9a32f"> <bbox w="10.0" h="10.0" x="8303.215" y="16044.486"/> <port id="pr_a552b0c8-c288-40b3-9bc3-11f7e5b9a32f_p1" x="8323.215" y="16049.486"/> <port id="pr_a552b0c8-c288-40b3-9bc3-11f7e5b9a32f_p2" x="8293.215" y="16049.486"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d6293338-9b1f-4907-9857-fd6faf60e17c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27198.648" y="22752.25"/> <port id="pr_d6293338-9b1f-4907-9857-fd6faf60e17c_p1" x="27188.648" y="22757.25"/> <port id="pr_d6293338-9b1f-4907-9857-fd6faf60e17c_p2" x="27218.648" y="22757.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b811801-58f3-424a-b8ea-417bc6e7a0e8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4244.5654" y="17690.0"/> <port id="pr_8b811801-58f3-424a-b8ea-417bc6e7a0e8_p1" x="4249.5654" y="17680.0"/> <port id="pr_8b811801-58f3-424a-b8ea-417bc6e7a0e8_p2" x="4249.5654" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1002fbf6-9957-4bb8-b55b-61859c187e98"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11331587</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1002fbf6-9957-4bb8-b55b-61859c187e98"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11331587"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27127.56" y="17664.59"/> <port id="pr_1002fbf6-9957-4bb8-b55b-61859c187e98_p1" x="27147.56" y="17669.59"/> <port id="pr_1002fbf6-9957-4bb8-b55b-61859c187e98_p2" x="27117.56" y="17669.59"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7b6553c8-0c44-49dc-8edb-19a28066053c"> <bbox w="10.0" h="10.0" x="18561.438" y="1528.0"/> <port id="pr_7b6553c8-0c44-49dc-8edb-19a28066053c_p1" x="18566.438" y="1548.0"/> <port id="pr_7b6553c8-0c44-49dc-8edb-19a28066053c_p2" x="18566.438" y="1518.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d5d325c-8939-4d7b-a659-50ba6cc2cfb4"> <bbox w="10.0" h="10.0" x="23188.914" y="6730.8115"/> <port id="pr_5d5d325c-8939-4d7b-a659-50ba6cc2cfb4_p1" x="23193.914" y="6750.8115"/> <port id="pr_5d5d325c-8939-4d7b-a659-50ba6cc2cfb4_p2" x="23193.914" y="6720.8115"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f6621ad5-c39d-4a3d-a9a5-9389fd029666"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20531300</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f6621ad5-c39d-4a3d-a9a5-9389fd029666"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20531300"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23462.06" y="9105.666"/> <port id="pr_f6621ad5-c39d-4a3d-a9a5-9389fd029666_p1" x="23482.06" y="9110.666"/> <port id="pr_f6621ad5-c39d-4a3d-a9a5-9389fd029666_p2" x="23452.06" y="9110.666"/> </glyph> <glyph class="process" orientation="vertical" id="pr_42931499-df10-4872-ba39-940197e8c70c"> <bbox w="10.0" h="10.0" x="9785.0" y="4105.0"/> <port id="pr_42931499-df10-4872-ba39-940197e8c70c_p1" x="9790.0" y="4125.0"/> <port id="pr_42931499-df10-4872-ba39-940197e8c70c_p2" x="9790.0" y="4095.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_11671892-02b0-4be7-94e4-d37afa2689e6"> <bbox w="10.0" h="10.0" x="28607.81" y="15529.0"/> <port id="pr_11671892-02b0-4be7-94e4-d37afa2689e6_p1" x="28612.81" y="15519.0"/> <port id="pr_11671892-02b0-4be7-94e4-d37afa2689e6_p2" x="28612.81" y="15549.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8341a2f0-710e-4863-b70a-97f893a46223"> <bbox w="10.0" h="10.0" x="26654.06" y="9229.0"/> <port id="pr_8341a2f0-710e-4863-b70a-97f893a46223_p1" x="26659.06" y="9219.0"/> <port id="pr_8341a2f0-710e-4863-b70a-97f893a46223_p2" x="26659.06" y="9249.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aa84d954-fea9-4afd-ba29-d471a4e4d7ef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11121431</p> <p>PMID:15157156</p> <p>PMID:15229651</p> <p>Nischarin binds preferentially to the cytoplasmic tail of ITGA5 subunit ti inhibit cell migration.</p> <p>Nischarin is not found in focal adhesion sites.</p> <p>Once integrins enter into adhesion sites, Nischarin is released, allowing it to bind to the activated PAK1 in order to inactive PAK1..</p> <p>This binding is enhaced by active Rac1.</p> <p>The ability of Nischarin to inhibit PAK1 is related to its ability to inhibit cell motility.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa84d954-fea9-4afd-ba29-d471a4e4d7ef"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11121431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15157156"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15229651"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5488.917" y="15974.385"/> <port id="pr_aa84d954-fea9-4afd-ba29-d471a4e4d7ef_p1" x="5478.917" y="15979.385"/> <port id="pr_aa84d954-fea9-4afd-ba29-d471a4e4d7ef_p2" x="5508.917" y="15979.385"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d362a2a2-2876-4847-9b62-b3c4dab89937"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18497317</p> <p>Notch1, Hey1, and Hey2 physically interact with and repress the function of the transcription factor RUNX2.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d362a2a2-2876-4847-9b62-b3c4dab89937"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2819.0" y="14702.5"/> <port id="pr_d362a2a2-2876-4847-9b62-b3c4dab89937_p1" x="2809.0" y="14707.5"/> <port id="pr_d362a2a2-2876-4847-9b62-b3c4dab89937_p2" x="2839.0" y="14707.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_18188241-f03e-46dc-804b-232f21da7d9f"> <bbox w="10.0" h="10.0" x="21909.06" y="12649.0"/> <port id="pr_18188241-f03e-46dc-804b-232f21da7d9f_p1" x="21899.06" y="12654.0"/> <port id="pr_18188241-f03e-46dc-804b-232f21da7d9f_p2" x="21929.06" y="12654.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b8836301-c65c-4bcf-81c7-38152d04c327"> <bbox w="10.0" h="10.0" x="23735.314" y="15953.125"/> <port id="pr_b8836301-c65c-4bcf-81c7-38152d04c327_p1" x="23740.314" y="15973.125"/> <port id="pr_b8836301-c65c-4bcf-81c7-38152d04c327_p2" x="23740.314" y="15943.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6a393d45-e8a5-49d5-ae11-8b384851850f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15760909</p> <p>endogenous c-FLIP(L) functions primarily as an inhibitor of death receptor-mediated apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6a393d45-e8a5-49d5-ae11-8b384851850f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15760909"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25220.154" y="9154.363"/> <port id="pr_6a393d45-e8a5-49d5-ae11-8b384851850f_p1" x="25210.154" y="9159.363"/> <port id="pr_6a393d45-e8a5-49d5-ae11-8b384851850f_p2" x="25240.154" y="9159.363"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3c76ab6a-7727-45b7-8589-bde9c6156ada"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3c76ab6a-7727-45b7-8589-bde9c6156ada"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24952.383" y="18606.629"/> <port id="pr_3c76ab6a-7727-45b7-8589-bde9c6156ada_p1" x="24942.383" y="18611.629"/> <port id="pr_3c76ab6a-7727-45b7-8589-bde9c6156ada_p2" x="24972.383" y="18611.629"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c3364331-e136-4196-95a7-cc66583b598e"> <bbox w="10.0" h="10.0" x="19964.31" y="10761.125"/> <port id="pr_c3364331-e136-4196-95a7-cc66583b598e_p1" x="19969.31" y="10751.125"/> <port id="pr_c3364331-e136-4196-95a7-cc66583b598e_p2" x="19969.31" y="10781.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3cfbe3a6-b738-4f7d-88d0-ddeef3a6e8ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20064462, </p> <p>MRN complex in A_NHEJ: PMID:19362533, PMID:19654615, PMID:19892829</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3cfbe3a6-b738-4f7d-88d0-ddeef3a6e8ec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20064462"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19362533"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19654615"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19892829"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13686.576" y="14625.643"/> <port id="pr_3cfbe3a6-b738-4f7d-88d0-ddeef3a6e8ec_p1" x="13691.576" y="14615.643"/> <port id="pr_3cfbe3a6-b738-4f7d-88d0-ddeef3a6e8ec_p2" x="13691.576" y="14645.643"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0b4d44ac-f5e9-4e70-8c82-7e3ef5fdd04d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0b4d44ac-f5e9-4e70-8c82-7e3ef5fdd04d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18656.81" y="13152.25"/> <port id="pr_0b4d44ac-f5e9-4e70-8c82-7e3ef5fdd04d_p1" x="18661.81" y="13142.25"/> <port id="pr_0b4d44ac-f5e9-4e70-8c82-7e3ef5fdd04d_p2" x="18661.81" y="13172.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e787eb18-d314-4176-8581-d6c82906e4e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19225151</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e787eb18-d314-4176-8581-d6c82906e4e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19225151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13900.667" y="19885.5"/> <port id="pr_e787eb18-d314-4176-8581-d6c82906e4e7_p1" x="13920.667" y="19890.5"/> <port id="pr_e787eb18-d314-4176-8581-d6c82906e4e7_p2" x="13890.667" y="19890.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_89888511-8c09-4ab9-9eaa-e7deba5eacbd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6121.9414" y="14775.0"/> <port id="pr_89888511-8c09-4ab9-9eaa-e7deba5eacbd_p1" x="6141.9414" y="14780.0"/> <port id="pr_89888511-8c09-4ab9-9eaa-e7deba5eacbd_p2" x="6111.9414" y="14780.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a5a4a572-c9ce-421f-ada3-91ab2274cc45"> <bbox w="10.0" h="10.0" x="27989.06" y="14858.666"/> <port id="pr_a5a4a572-c9ce-421f-ada3-91ab2274cc45_p1" x="28009.06" y="14863.666"/> <port id="pr_a5a4a572-c9ce-421f-ada3-91ab2274cc45_p2" x="27979.06" y="14863.666"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_3b28085c-4ef8-48df-9ad6-f4125c5fe0d8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4567.8486" y="17113.676"/> <port id="pr_3b28085c-4ef8-48df-9ad6-f4125c5fe0d8_p1" x="4557.8486" y="17118.676"/> <port id="pr_3b28085c-4ef8-48df-9ad6-f4125c5fe0d8_p2" x="4587.8486" y="17118.676"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8873765f-1e83-44a4-98b6-d9a4f4bde7f9"> <bbox w="10.0" h="10.0" x="2945.0" y="4426.25"/> <port id="pr_8873765f-1e83-44a4-98b6-d9a4f4bde7f9_p1" x="2950.0" y="4416.25"/> <port id="pr_8873765f-1e83-44a4-98b6-d9a4f4bde7f9_p2" x="2950.0" y="4446.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e22a1bf-60f1-4be3-ab2d-2ba9a9e8d2f9"> <bbox w="10.0" h="10.0" x="3877.419" y="22778.117"/> <port id="pr_6e22a1bf-60f1-4be3-ab2d-2ba9a9e8d2f9_p1" x="3867.419" y="22783.117"/> <port id="pr_6e22a1bf-60f1-4be3-ab2d-2ba9a9e8d2f9_p2" x="3897.419" y="22783.117"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f3644195-8e81-4b33-8865-e845e09db74a"> <bbox w="10.0" h="10.0" x="15637.0" y="4261.3174"/> <port id="pr_f3644195-8e81-4b33-8865-e845e09db74a_p1" x="15627.0" y="4266.3174"/> <port id="pr_f3644195-8e81-4b33-8865-e845e09db74a_p2" x="15657.0" y="4266.3174"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ad7d4b41-6bdf-441a-b9f9-76aa6f2b2d70"> <bbox w="10.0" h="10.0" x="3476.0625" y="10489.4375"/> <port id="pr_ad7d4b41-6bdf-441a-b9f9-76aa6f2b2d70_p1" x="3496.0625" y="10494.4375"/> <port id="pr_ad7d4b41-6bdf-441a-b9f9-76aa6f2b2d70_p2" x="3466.0625" y="10494.4375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f3e2bea-468d-446f-b0b9-6cf398542b78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19072.81" y="16656.5"/> <port id="pr_3f3e2bea-468d-446f-b0b9-6cf398542b78_p1" x="19077.81" y="16646.5"/> <port id="pr_3f3e2bea-468d-446f-b0b9-6cf398542b78_p2" x="19077.81" y="16676.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2728d248-9311-456f-b38a-67da26edb123"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11149925</p> <p>2 classes of negative regulators of Rho proteins have been described. GAPs and GDIs.</p> <p>Rho proteins have relatively slow intrinsic rates of GTP hydrolysis that can be accelerated by GAPs (GTPase activating proteins).</p> <p>Another class of proteins shown to inhibit the release of GDP from Rho proteins, GDIs (GDP Dissociation Inhibitors (GDIs) have been described.</p> <p>Perhaps more important than their effects on the GDP/GTP cycle is the ability of GDIs to solubilize membrane-associated Rho proteins.</p> <p>RhoA is sequestered in the cytosol by a RhoGDI-dependent and -independent mechanisms.</p> <p>RhoGDI binding is not affected by the length of the prenyl chain (farnesylation versus geranylgeranylation)</p> <p>Palmitoylation blocks RhoGDI binding. </p> <p>PMID:9113980</p> <p>GDIs play a primary role in modulating the activation of GTPases and may also be critical for the cellular compartmentalization of GTPases.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2728d248-9311-456f-b38a-67da26edb123"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11149925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9113980"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5412.875" y="14508.0"/> <port id="pr_2728d248-9311-456f-b38a-67da26edb123_p1" x="5417.875" y="14498.0"/> <port id="pr_2728d248-9311-456f-b38a-67da26edb123_p2" x="5417.875" y="14528.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cbc373b7-f8e5-4658-bec3-cf6cac1256bd"> <bbox w="10.0" h="10.0" x="25868.887" y="2087.5"/> <port id="pr_cbc373b7-f8e5-4658-bec3-cf6cac1256bd_p1" x="25888.887" y="2092.5"/> <port id="pr_cbc373b7-f8e5-4658-bec3-cf6cac1256bd_p2" x="25858.887" y="2092.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0e45ee4a-41df-4ce2-a0ef-131aa1991ddb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18297062</p> <p>TWIST is a downstream target of HIF-1</p> <p>Hypoxia or HIF-1 induces EMT through the direct activation of TWIST expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0e45ee4a-41df-4ce2-a0ef-131aa1991ddb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18297062"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3557.0" y="16220.797"/> <port id="pr_0e45ee4a-41df-4ce2-a0ef-131aa1991ddb_p1" x="3577.0" y="16225.797"/> <port id="pr_0e45ee4a-41df-4ce2-a0ef-131aa1991ddb_p2" x="3547.0" y="16225.797"/> </glyph> <glyph class="process" orientation="vertical" id="pr_32c44a2e-3c0b-41b5-97d5-d96895a67f5d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12958364</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_32c44a2e-3c0b-41b5-97d5-d96895a67f5d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12958364"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16711.06" y="19475.871"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8631357</p> <p>enzymatic characterization of the human enzyme</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b242350e-d4ca-487b-9869-cf4adef50fbc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8631357"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27876.191" y="10587.885"/> <port id="pr_b242350e-d4ca-487b-9869-cf4adef50fbc_p1" x="27881.191" y="10577.885"/> <port id="pr_b242350e-d4ca-487b-9869-cf4adef50fbc_p2" x="27881.191" y="10607.885"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6cbc3604-b65e-48d9-8fa5-12ffd505f115"> <bbox w="10.0" h="10.0" x="3845.0" y="1708.75"/> <port id="pr_6cbc3604-b65e-48d9-8fa5-12ffd505f115_p1" x="3850.0" y="1698.75"/> <port id="pr_6cbc3604-b65e-48d9-8fa5-12ffd505f115_p2" x="3850.0" y="1728.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6466a65a-da81-4142-8211-937f992a8df5"> <bbox w="10.0" h="10.0" x="10259.334" y="16185.236"/> <port id="pr_6466a65a-da81-4142-8211-937f992a8df5_p1" x="10264.334" y="16175.236"/> <port id="pr_6466a65a-da81-4142-8211-937f992a8df5_p2" x="10264.334" y="16205.236"/> </glyph> <glyph class="process" orientation="vertical" id="pr_788aab8a-b6f7-46bf-bdf9-71c79bfa086f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14654780</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_788aab8a-b6f7-46bf-bdf9-71c79bfa086f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14654780"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13267.144" y="11232.5"/> <port id="pr_788aab8a-b6f7-46bf-bdf9-71c79bfa086f_p1" x="13272.144" y="11222.5"/> <port id="pr_788aab8a-b6f7-46bf-bdf9-71c79bfa086f_p2" x="13272.144" y="11252.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c239bd1c-ef03-40cc-929f-f3edb6b97e50"> <bbox w="10.0" h="10.0" x="11653.033" y="14814.3"/> <port id="pr_c239bd1c-ef03-40cc-929f-f3edb6b97e50_p1" x="11643.033" y="14819.3"/> <port id="pr_c239bd1c-ef03-40cc-929f-f3edb6b97e50_p2" x="11673.033" y="14819.3"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13639096-46b8-4450-a539-b24672f6d45a"> <bbox w="10.0" h="10.0" x="17537.531" y="1613.2188"/> <port id="pr_13639096-46b8-4450-a539-b24672f6d45a_p1" x="17542.531" y="1603.2188"/> <port id="pr_13639096-46b8-4450-a539-b24672f6d45a_p2" x="17542.531" y="1633.2188"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_29d70e3d-9033-4bc6-8754-192fdfe74f40"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8836113</p> <p>GEFs are essential for CDC42 activation. They promote the exchange of GDP to GTP to generate the activated form of CDC42 capable of recognizing downstram targets.</p> <p>PMID:11889037</p> <p>ARHGAP14 (MCF2L or DBS) as a GEF of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_29d70e3d-9033-4bc6-8754-192fdfe74f40"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8836113"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11889037"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6235.25" y="14298.421"/> <port id="pr_29d70e3d-9033-4bc6-8754-192fdfe74f40_p1" x="6255.25" y="14303.421"/> <port id="pr_29d70e3d-9033-4bc6-8754-192fdfe74f40_p2" x="6225.25" y="14303.421"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ab12b8ce-20fd-495e-925e-39513ca98e7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3706.0" y="19071.488"/> <port id="pr_ab12b8ce-20fd-495e-925e-39513ca98e7e_p1" x="3726.0" y="19076.488"/> <port id="pr_ab12b8ce-20fd-495e-925e-39513ca98e7e_p2" x="3696.0" y="19076.488"/> </glyph> <glyph class="process" orientation="horizontal" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4863.384" y="17787.5"/> <port id="pr_ce136bfe-5b79-4a6d-a116-98129fe51774_p1" x="4868.384" y="17777.5"/> <port id="pr_ce136bfe-5b79-4a6d-a116-98129fe51774_p2" x="4868.384" y="17807.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b8a1eb61-d39a-4aef-a9a2-7178e7e7e784"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16169709</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="10583.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dd010bfb-4358-4568-911d-b2912937f90f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16227588</p> <p>PMID:17891140</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dd010bfb-4358-4568-911d-b2912937f90f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16227588"/> 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serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 association with Grb2 and Sos</p> <p>PMID:12767520</p> <p>Upon IGF stimulation, the activated IGF1R recruits and directly phosphorylates SHC1, leading to cellular proliferation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7a3e69e8-81b7-4aee-85ff-5c0dc180fb79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17673906"/> </rdf:Bag> 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id="pr_e7eeb61b-1bdc-4fcc-a8fd-e6e6e4ea705d_p2" x="17765.168" y="7178.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_daef8556-8108-4638-b37c-6cf5c11f85c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_daef8556-8108-4638-b37c-6cf5c11f85c2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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association of CyclinB and PTC occurs when cell is in G2/M arrest</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26978.06" y="17809.91"/> <port id="pr_c4c30385-b9b4-4e32-8e7f-4c745f05a796_p1" x="26968.06" y="17814.91"/> <port id="pr_c4c30385-b9b4-4e32-8e7f-4c745f05a796_p2" x="26998.06" y="17814.91"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_ba6cfa27-2d80-495c-9cb1-0a73c262de02"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8836113</p> <p>GEFs are essential for CDC42 activation. They promote the exchange of GDP to GTP to generate the activated form of CDC42 capable of recognizing downstram targets.</p> <p>PMID:15743413</p> <p>PMID:11429692</p> <p>FGD1,4 are GEFs of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ba6cfa27-2d80-495c-9cb1-0a73c262de02"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8836113"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15743413"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11429692"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6543.4375" y="14331.75"/> <port id="pr_ba6cfa27-2d80-495c-9cb1-0a73c262de02_p1" x="6548.4375" y="14351.75"/> <port id="pr_ba6cfa27-2d80-495c-9cb1-0a73c262de02_p2" x="6548.4375" y="14321.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_600ef7f4-ac26-45bf-95f1-9c611c716f12"> <bbox w="10.0" h="10.0" x="2987.625" y="11157.375"/> <port id="pr_600ef7f4-ac26-45bf-95f1-9c611c716f12_p1" x="2992.625" y="11177.375"/> <port id="pr_600ef7f4-ac26-45bf-95f1-9c611c716f12_p2" x="2992.625" y="11147.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_72c74bcf-7c7d-452b-ac3b-3282cd588bfc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PDK1 is a PI3K target leading to activation of P70 and subsequent cell growth.</p> <p>PMID:12040186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_72c74bcf-7c7d-452b-ac3b-3282cd588bfc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8979.959" y="21074.18"/> <port id="pr_72c74bcf-7c7d-452b-ac3b-3282cd588bfc_p1" x="8969.959" y="21079.18"/> <port id="pr_72c74bcf-7c7d-452b-ac3b-3282cd588bfc_p2" x="8999.959" y="21079.18"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f4df5a16-1d3f-45b3-91a2-b790462662bd"> <bbox w="10.0" h="10.0" x="20797.5" y="3220.1665"/> <port id="pr_f4df5a16-1d3f-45b3-91a2-b790462662bd_p1" x="20787.5" y="3225.1665"/> <port id="pr_f4df5a16-1d3f-45b3-91a2-b790462662bd_p2" x="20817.5" y="3225.1665"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_406e1997-ed0f-4da6-8478-cc219951330e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19772495</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_406e1997-ed0f-4da6-8478-cc219951330e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19772495"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13077.422" y="15640.232"/> <port id="pr_406e1997-ed0f-4da6-8478-cc219951330e_p1" x="13097.422" y="15645.232"/> <port id="pr_406e1997-ed0f-4da6-8478-cc219951330e_p2" x="13067.422" y="15645.232"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d75a6a37-371c-4f6b-804f-693b66859362"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9859994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d75a6a37-371c-4f6b-804f-693b66859362"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9859994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15476.061" y="18128.5"/> <port id="pr_d75a6a37-371c-4f6b-804f-693b66859362_p1" x="15481.061" y="18118.5"/> <port id="pr_d75a6a37-371c-4f6b-804f-693b66859362_p2" x="15481.061" y="18148.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9476b9a9-9f7d-403f-bb8a-715e44d3d9dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activated caspase-9 cleaves and activates caspase-3 leading to apoptosis.</p> <p>PMID:9390557</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9476b9a9-9f7d-403f-bb8a-715e44d3d9dc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9390557"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7524.1934" y="20329.63"/> <port id="pr_9476b9a9-9f7d-403f-bb8a-715e44d3d9dc_p1" x="7529.1934" y="20319.63"/> <port id="pr_9476b9a9-9f7d-403f-bb8a-715e44d3d9dc_p2" x="7529.1934" y="20349.63"/> </glyph> <glyph class="process" orientation="vertical" id="pr_be22403a-c086-49ad-8a3f-c31a5cf99b5c"> <bbox w="10.0" h="10.0" x="11125.942" y="7571.25"/> <port id="pr_be22403a-c086-49ad-8a3f-c31a5cf99b5c_p1" x="11130.942" y="7561.25"/> <port id="pr_be22403a-c086-49ad-8a3f-c31a5cf99b5c_p2" x="11130.942" y="7591.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e7fe3dbf-5fb6-4f31-a622-81e257c8068e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4389.545" y="18273.625"/> <port id="pr_e7fe3dbf-5fb6-4f31-a622-81e257c8068e_p1" x="4394.545" y="18263.625"/> <port id="pr_e7fe3dbf-5fb6-4f31-a622-81e257c8068e_p2" x="4394.545" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c7f88cce-fd86-4d9d-be5a-46df2c156157"> <bbox w="10.0" h="10.0" x="23109.518" y="15970.75"/> <port id="pr_c7f88cce-fd86-4d9d-be5a-46df2c156157_p1" x="23114.518" y="15990.75"/> <port id="pr_c7f88cce-fd86-4d9d-be5a-46df2c156157_p2" x="23114.518" y="15960.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_e71354a3-64e4-4fb0-84f9-c87ee4462383"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16396903 PMID:20107231 PMID:16054035 PMID:16406505 PMID:16880536 PMID:17000779</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e71354a3-64e4-4fb0-84f9-c87ee4462383"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16396903"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20107231"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16406505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16880536"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17000779"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21280.0"/> <port id="pr_e71354a3-64e4-4fb0-84f9-c87ee4462383_p1" x="26547.56" y="21285.0"/> <port id="pr_e71354a3-64e4-4fb0-84f9-c87ee4462383_p2" x="26577.56" y="21285.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a8ea275-8644-4795-91b3-65e31aeb2046"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4958.5137" y="17787.5"/> <port id="pr_5a8ea275-8644-4795-91b3-65e31aeb2046_p1" x="4963.5137" y="17777.5"/> <port id="pr_5a8ea275-8644-4795-91b3-65e31aeb2046_p2" x="4963.5137" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a5b0b1d3-fbb7-497f-b0cc-ac224155b833"> <bbox w="10.0" h="10.0" x="21096.414" y="6935.625"/> <port id="pr_a5b0b1d3-fbb7-497f-b0cc-ac224155b833_p1" x="21101.414" y="6925.625"/> <port id="pr_a5b0b1d3-fbb7-497f-b0cc-ac224155b833_p2" x="21101.414" y="6955.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f0d459a4-a483-4a88-8c34-7e18240bdf3f"> <bbox w="10.0" h="10.0" x="12707.362" y="13864.686"/> <port id="pr_f0d459a4-a483-4a88-8c34-7e18240bdf3f_p1" x="12727.362" y="13869.686"/> <port id="pr_f0d459a4-a483-4a88-8c34-7e18240bdf3f_p2" x="12697.362" y="13869.686"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_18b859c8-4669-4886-815b-d05ed8aa320f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14536078</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18b859c8-4669-4886-815b-d05ed8aa320f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14536078"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13362.311" y="20861.75"/> <port id="pr_18b859c8-4669-4886-815b-d05ed8aa320f_p1" x="13352.311" y="20866.75"/> <port id="pr_18b859c8-4669-4886-815b-d05ed8aa320f_p2" x="13382.311" y="20866.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_02a91a76-f6f7-4b96-b38b-31cba70cc03f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>KLF8 recruits P300</p> <p>PMID:22761862 PMID:20107328</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<bbox w="10.0" h="10.0" x="11644.047" y="14476.164"/> <port id="pr_e63d7160-cef7-4c12-a8f2-0150a972a068_p1" x="11634.047" y="14481.164"/> <port id="pr_e63d7160-cef7-4c12-a8f2-0150a972a068_p2" x="11664.047" y="14481.164"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7e0e6f0d-b08f-4551-a8f4-6bb1a5187d92"> <bbox w="10.0" h="10.0" x="29130.43" y="15940.25"/> <port id="pr_7e0e6f0d-b08f-4551-a8f4-6bb1a5187d92_p1" x="29135.43" y="15960.25"/> <port id="pr_7e0e6f0d-b08f-4551-a8f4-6bb1a5187d92_p2" x="29135.43" y="15930.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7a969b21-7ce4-4d8c-a59c-336688672d6d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4768.5967" y="17787.5"/> <port 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y="3206.0"/> <port id="pr_443f5235-1afa-4015-8731-4f2191ab98c3_p2" x="360.0" y="3236.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8d8b7c58-edd6-4ef2-99bd-e90cf4c6d653"> <bbox w="10.0" h="10.0" x="3731.1265" y="4394.25"/> <port id="pr_8d8b7c58-edd6-4ef2-99bd-e90cf4c6d653_p1" x="3736.1265" y="4384.25"/> <port id="pr_8d8b7c58-edd6-4ef2-99bd-e90cf4c6d653_p2" x="3736.1265" y="4414.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_080eb16e-5765-4b31-837d-38f3d829639f"> <bbox w="10.0" h="10.0" x="23390.81" y="15616.75"/> <port id="pr_080eb16e-5765-4b31-837d-38f3d829639f_p1" x="23380.81" y="15621.75"/> <port id="pr_080eb16e-5765-4b31-837d-38f3d829639f_p2" x="23410.81" y="15621.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_143a6d82-a5ef-4c42-a208-4952bb9c27dc"> <bbox w="10.0" h="10.0" x="21740.06" y="18929.0"/> <port id="pr_143a6d82-a5ef-4c42-a208-4952bb9c27dc_p1" x="21745.06" y="18919.0"/> <port id="pr_143a6d82-a5ef-4c42-a208-4952bb9c27dc_p2" x="21745.06" y="18949.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_66f6c411-a55f-48a2-b2b5-af78548c990a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1900.0" y="12920.0"/> <port id="pr_66f6c411-a55f-48a2-b2b5-af78548c990a_p1" x="1905.0" y="12910.0"/> <port id="pr_66f6c411-a55f-48a2-b2b5-af78548c990a_p2" x="1905.0" y="12940.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c43c4ff6-1919-4423-aaad-97b437e220fd"> <bbox w="10.0" h="10.0" x="25769.06" y="14489.0"/> <port id="pr_c43c4ff6-1919-4423-aaad-97b437e220fd_p1" x="25774.06" y="14479.0"/> <port id="pr_c43c4ff6-1919-4423-aaad-97b437e220fd_p2" x="25774.06" y="14509.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eee47075-282d-462e-adcd-90d76babc6a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19115206</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eee47075-282d-462e-adcd-90d76babc6a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19115206"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5152.0" y="11779.75"/> <port id="pr_eee47075-282d-462e-adcd-90d76babc6a6_p1" x="5157.0" y="11769.75"/> <port id="pr_eee47075-282d-462e-adcd-90d76babc6a6_p2" x="5157.0" y="11799.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e0524416-abf1-49f5-a9fa-27793d4017f5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16680151</p> <p>PMID:20452955</p> <p>PMID:19216069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e0524416-abf1-49f5-a9fa-27793d4017f5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16680151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20452955"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19216069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12933.811" y="21765.25"/> <port id="pr_e0524416-abf1-49f5-a9fa-27793d4017f5_p1" x="12938.811" y="21755.25"/> <port id="pr_e0524416-abf1-49f5-a9fa-27793d4017f5_p2" x="12938.811" y="21785.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_365561f4-4596-450b-971f-c835227b504c"> <bbox w="10.0" h="10.0" x="4005.0" y="4394.25"/> <port id="pr_365561f4-4596-450b-971f-c835227b504c_p1" x="4010.0" y="4384.25"/> <port id="pr_365561f4-4596-450b-971f-c835227b504c_p2" x="4010.0" y="4414.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_26cf8cbd-5988-418b-ab3e-c06d081037d1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18398454</p> <p>PMID:16449207</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26cf8cbd-5988-418b-ab3e-c06d081037d1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18398454"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16449207"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9519.178" y="16667.121"/> <port id="pr_26cf8cbd-5988-418b-ab3e-c06d081037d1_p1" x="9524.178" y="16687.121"/> <port id="pr_26cf8cbd-5988-418b-ab3e-c06d081037d1_p2" x="9524.178" y="16657.121"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb48c822-73bb-48ba-9575-c253de90f9d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18328430</p> <p>MIR17HG transactivation by E2F1</p> <p>PMID:15944709</p> <p>MIR17-92 cluster transactivation by MYC</p> <p>PMID:19696742</p> <p>MIR17HG transactivation repressed by TP53. Proposed mechanism: TP53- and TBP- binding sites overlaps.</p> <p>in human colorectal carcinoma HCT116 (TP53 competent cells), MIR17HG repression upon hypoxia and TP53 stabilization.</p> <p>in human colorectal carcinoma cells HCT116 and LOVO, this effect is blocked by siRNA against TP53</p> <p>in HCT116 and LOVO, siRNA against MYC represses MIR17-92 expression</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bb48c822-73bb-48ba-9575-c253de90f9d5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18328430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15944709"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19696742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21862.77" y="16148.5"/> <port id="pr_bb48c822-73bb-48ba-9575-c253de90f9d5_p1" x="21867.77" y="16168.5"/> <port id="pr_bb48c822-73bb-48ba-9575-c253de90f9d5_p2" x="21867.77" y="16138.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d5e769f-284a-4364-ac22-063633e12396"> <bbox w="10.0" h="10.0" x="25727.264" y="16095.0"/> <port id="pr_1d5e769f-284a-4364-ac22-063633e12396_p1" x="25732.264" y="16115.0"/> <port id="pr_1d5e769f-284a-4364-ac22-063633e12396_p2" x="25732.264" y="16085.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b24ffb56-5449-4238-a85e-ce2282560ffe"> <bbox w="10.0" h="10.0" x="28565.426" y="14649.0"/> <port id="pr_b24ffb56-5449-4238-a85e-ce2282560ffe_p1" x="28570.426" y="14639.0"/> <port id="pr_b24ffb56-5449-4238-a85e-ce2282560ffe_p2" x="28570.426" y="14669.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b445f2d-bd7e-4732-b997-7e69e4cfd578"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0b445f2d-bd7e-4732-b997-7e69e4cfd578"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5548.0176" y="9868.4795"/> <port id="pr_0b445f2d-bd7e-4732-b997-7e69e4cfd578_p1" x="5568.0176" y="9873.4795"/> <port id="pr_0b445f2d-bd7e-4732-b997-7e69e4cfd578_p2" x="5538.0176" y="9873.4795"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7affcf60-90cb-40ae-a1c4-308e7c311358"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19440234</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7affcf60-90cb-40ae-a1c4-308e7c311358"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13084.311" y="19814.938"/> <port id="pr_7affcf60-90cb-40ae-a1c4-308e7c311358_p1" x="13074.311" y="19819.938"/> <port id="pr_7affcf60-90cb-40ae-a1c4-308e7c311358_p2" x="13104.311" y="19819.938"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9a341ff6-155e-4688-b593-a2d9ed8cdeb6"> <bbox w="10.0" h="10.0" x="19912.232" y="4841.25"/> <port id="pr_9a341ff6-155e-4688-b593-a2d9ed8cdeb6_p1" x="19917.232" y="4831.25"/> <port id="pr_9a341ff6-155e-4688-b593-a2d9ed8cdeb6_p2" x="19917.232" y="4861.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ad93616b-6935-487f-99c7-d1aaadfc3e71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1098.2046" y="15674.447"/> <port id="pr_ad93616b-6935-487f-99c7-d1aaadfc3e71_p1" x="1103.2046" y="15664.447"/> <port id="pr_ad93616b-6935-487f-99c7-d1aaadfc3e71_p2" x="1103.2046" y="15694.447"/> </glyph> <glyph class="process" orientation="vertical" id="pr_109b968e-6975-4a62-beae-1e6bcd01f325"> <bbox w="10.0" h="10.0" x="11017.707" y="9900.756"/> <port id="pr_109b968e-6975-4a62-beae-1e6bcd01f325_p1" x="11022.707" y="9890.756"/> <port id="pr_109b968e-6975-4a62-beae-1e6bcd01f325_p2" x="11022.707" y="9920.756"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7b754e11-dff3-4e8f-8af8-946b00a55a50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2861.75" y="15093.887"/> <port id="pr_7b754e11-dff3-4e8f-8af8-946b00a55a50_p1" x="2881.75" y="15098.887"/> <port id="pr_7b754e11-dff3-4e8f-8af8-946b00a55a50_p2" x="2851.75" y="15098.887"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cba43f5b-216b-42ca-9e1c-f8cdee1925e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26152.352" y="10824.314"/> <port id="pr_cba43f5b-216b-42ca-9e1c-f8cdee1925e1_p1" x="26172.352" y="10829.314"/> <port id="pr_cba43f5b-216b-42ca-9e1c-f8cdee1925e1_p2" x="26142.352" y="10829.314"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9945b64b-b161-43d6-a1a2-2eab83ce73c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22064479, PMID:22634377</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_42511bb0-9062-471a-bcdb-eeee9310df02"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17444818</p> <p>ANNOTATION:PTEN is destabilized by phosphorylation on T366 followed by phosphorylation on S370 by GSK3beta.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<body> <p>Map modules:</p> <p>References:</p> <p>PMID:21051859</p> <p>TCF3 (E47) is upregulated by Snail1, Snail2, Zeb1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e5ba37a7-d73d-4a71-bab3-6091751a1b96"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21051859"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4079.0" y="16721.5"/> <port 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y="13364.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4e9470f1-a4b1-4611-a1b6-1bce2e637cd2"> <bbox w="10.0" h="10.0" x="16974.223" y="1512.0322"/> <port id="pr_4e9470f1-a4b1-4611-a1b6-1bce2e637cd2_p1" x="16979.223" y="1532.0322"/> <port id="pr_4e9470f1-a4b1-4611-a1b6-1bce2e637cd2_p2" x="16979.223" y="1502.0322"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e7bec32-9b51-45cd-80f2-5f35be3d0948"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18128.553" y="11980.125"/> <port id="pr_6e7bec32-9b51-45cd-80f2-5f35be3d0948_p1" x="18118.553" y="11985.125"/> <port id="pr_6e7bec32-9b51-45cd-80f2-5f35be3d0948_p2" x="18148.553" y="11985.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c309428d-472b-4264-875e-7efb89e1322c"> <bbox w="10.0" h="10.0" x="10079.061" y="4188.071"/> <port id="pr_c309428d-472b-4264-875e-7efb89e1322c_p1" x="10084.061" y="4178.071"/> <port id="pr_c309428d-472b-4264-875e-7efb89e1322c_p2" x="10084.061" y="4208.071"/> </glyph> <glyph class="process" orientation="vertical" id="pr_47deabbe-e7e3-41e8-af42-b7fbcd443cad"> <bbox w="10.0" h="10.0" x="23530.0" y="8100.0"/> <port id="pr_47deabbe-e7e3-41e8-af42-b7fbcd443cad_p1" x="23535.0" y="8090.0"/> <port id="pr_47deabbe-e7e3-41e8-af42-b7fbcd443cad_p2" x="23535.0" y="8120.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8552c225-8982-4ffb-9f3a-66bfed34bbec"> <bbox w="10.0" h="10.0" x="17922.31" y="20646.75"/> <port id="pr_8552c225-8982-4ffb-9f3a-66bfed34bbec_p1" x="17912.31" y="20651.75"/> <port id="pr_8552c225-8982-4ffb-9f3a-66bfed34bbec_p2" x="17942.31" y="20651.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0f38e880-29e2-4cad-8210-c29e1a5004e5"> <bbox w="10.0" h="10.0" x="4948.25" y="5961.0"/> <port id="pr_0f38e880-29e2-4cad-8210-c29e1a5004e5_p1" x="4938.25" y="5966.0"/> <port id="pr_0f38e880-29e2-4cad-8210-c29e1a5004e5_p2" x="4968.25" y="5966.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_87fe9a8c-c452-47a8-9c3c-74e1940741ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1607.75" y="15087.181"/> <port id="pr_87fe9a8c-c452-47a8-9c3c-74e1940741ae_p1" x="1597.75" y="15092.181"/> <port id="pr_87fe9a8c-c452-47a8-9c3c-74e1940741ae_p2" x="1627.75" y="15092.181"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf180994-d412-480a-a8b5-2e066d5602f9"> <bbox w="10.0" h="10.0" x="16011.25" y="1025.0"/> <port id="pr_bf180994-d412-480a-a8b5-2e066d5602f9_p1" x="16001.25" y="1030.0"/> <port id="pr_bf180994-d412-480a-a8b5-2e066d5602f9_p2" x="16031.25" y="1030.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e7417183-af42-40b7-bba8-0e590e823582"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15609097</p> <p>CTNNB1 (beta-catenin) binds with high affinity to the distal Cadherin cytoplasmic tail.</p> <p>Cadherin recruits CTNNA1 (alpha-catenin) to the complex.</p> <p>CTNNA1 (alpha-catenin) binds to Actin filaments directly</p> <p>CTNNA1 (alpha-catenin) and can also associate with other actin-binding proteins (MLLT4 or Formin)</p> <p>CTNND1 (delta-catenin or p120) binds directly to Cadherin independently of the other catenins.</p> <p>Catenins/Cadherin complex can further interact with a range of singaling molecules which participate in either cellular signaling or control of cytoskeletal dynamics.</p> <p>Stability of Cadherin/Catenins complex and thereby the integrity of adherens junctions is controlled by phosphorylation/dephosphorylation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e7417183-af42-40b7-bba8-0e590e823582"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15609097"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1923.6411" y="15802.994"/> <port id="pr_e7417183-af42-40b7-bba8-0e590e823582_p1" x="1943.6411" y="15807.994"/> <port id="pr_e7417183-af42-40b7-bba8-0e590e823582_p2" x="1913.6411" y="15807.994"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f93037eb-7e06-4b98-838f-1fac51e36b90"> <bbox w="10.0" h="10.0" x="9044.25" y="5765.0"/> <port id="pr_f93037eb-7e06-4b98-838f-1fac51e36b90_p1" x="9034.25" y="5770.0"/> <port id="pr_f93037eb-7e06-4b98-838f-1fac51e36b90_p2" x="9064.25" y="5770.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_c469abed-c697-483e-8425-b115879ca605"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1241.5679" y="15080.5"/> <port id="pr_c469abed-c697-483e-8425-b115879ca605_p1" x="1246.5679" y="15100.5"/> <port id="pr_c469abed-c697-483e-8425-b115879ca605_p2" x="1246.5679" y="15070.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_85e0eed3-72eb-43f2-af74-63be8218f656"> <bbox w="10.0" h="10.0" x="2185.644" y="4701.375"/> <port id="pr_85e0eed3-72eb-43f2-af74-63be8218f656_p1" x="2190.644" y="4691.375"/> <port id="pr_85e0eed3-72eb-43f2-af74-63be8218f656_p2" x="2190.644" y="4721.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_15f35437-f95d-4e32-becb-ca82e71cb07b"> <bbox w="10.0" h="10.0" x="21593.31" y="11307.762"/> <port id="pr_15f35437-f95d-4e32-becb-ca82e71cb07b_p1" x="21583.31" y="11312.762"/> <port id="pr_15f35437-f95d-4e32-becb-ca82e71cb07b_p2" x="21613.31" y="11312.762"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d69719c-9729-4092-a208-c8ac35547e6e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16517405</p> <p>HIF</p> <p>PMID:16517406</p> <p>PMID:17785433</p> <p>by MYC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d69719c-9729-4092-a208-c8ac35547e6e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16517405"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16517406"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17785433"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22801.31" y="16187.75"/> <port id="pr_2d69719c-9729-4092-a208-c8ac35547e6e_p1" x="22806.31" y="16207.75"/> <port id="pr_2d69719c-9729-4092-a208-c8ac35547e6e_p2" x="22806.31" y="16177.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_77280622-3d8a-41e6-ba88-687f6cb9eb34"> <bbox w="10.0" h="10.0" x="9277.0" y="3686.2222"/> <port id="pr_77280622-3d8a-41e6-ba88-687f6cb9eb34_p1" x="9267.0" y="3691.2222"/> <port id="pr_77280622-3d8a-41e6-ba88-687f6cb9eb34_p2" x="9297.0" y="3691.2222"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4b4423ab-05cb-4785-8c16-96b5db279020"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2419.0" y="16762.25"/> <port id="pr_4b4423ab-05cb-4785-8c16-96b5db279020_p1" x="2409.0" y="16767.25"/> <port id="pr_4b4423ab-05cb-4785-8c16-96b5db279020_p2" x="2439.0" y="16767.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ca9e32a4-819d-44a7-8892-926f438eb664"> <bbox w="10.0" h="10.0" x="24923.941" y="15945.75"/> <port id="pr_ca9e32a4-819d-44a7-8892-926f438eb664_p1" x="24913.941" y="15950.75"/> <port id="pr_ca9e32a4-819d-44a7-8892-926f438eb664_p2" x="24943.941" y="15950.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_16b3da0d-315b-46a4-9e3f-6d482c79c110"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9726962</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_16b3da0d-315b-46a4-9e3f-6d482c79c110"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9726962"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25818.06" y="15443.5"/> <port id="pr_16b3da0d-315b-46a4-9e3f-6d482c79c110_p1" x="25838.06" y="15448.5"/> <port id="pr_16b3da0d-315b-46a4-9e3f-6d482c79c110_p2" x="25808.06" y="15448.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ec151205-6c41-4302-bd61-9bf0503f533e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12221096</p> <p>XPLN (so-called ARHGEF3) is a guanine nucleotide exchange factor for RhoA and RhoB, but not RhoC.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ec151205-6c41-4302-bd61-9bf0503f533e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12221096"/> </rdf:Bag> 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id="pr_7bb13929-3cd7-4326-bda1-46bf342832f9_p1" x="12820.0" y="3612.5"/> <port id="pr_7bb13929-3cd7-4326-bda1-46bf342832f9_p2" x="12820.0" y="3582.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_45cf5514-2463-4e03-b10f-1b8c0178af80"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11546872</p> <p>in HEK293T, coIP</p> <p>Y2H</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_45cf5514-2463-4e03-b10f-1b8c0178af80"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11546872"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22612.23" y="13484.52"/> <port id="pr_45cf5514-2463-4e03-b10f-1b8c0178af80_p1" x="22632.23" y="13489.52"/> <port id="pr_45cf5514-2463-4e03-b10f-1b8c0178af80_p2" x="22602.23" y="13489.52"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52e634ab-1c3b-489a-8208-3c6452d4c421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12531547</p> <p>The release of ceramide in small rafts correlates with the fusion of these small membrane domains to large platforms and the trapping of receptor molecules within ceramide-enriched membrane platforms</p> <p>PMID:26801188</p> </body> </html> </notes> 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id="pr_52e634ab-1c3b-489a-8208-3c6452d4c421_p2" x="22902.81" y="9178.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8a5af77-2d18-44e9-8758-8a34420cefb1"> <bbox w="10.0" h="10.0" x="5864.505" y="4609.25"/> <port id="pr_d8a5af77-2d18-44e9-8758-8a34420cefb1_p1" x="5869.505" y="4599.25"/> <port id="pr_d8a5af77-2d18-44e9-8758-8a34420cefb1_p2" x="5869.505" y="4629.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60ad31a7-6fa4-47a4-a1d1-4dab4800cf76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4344.4824" y="17989.125"/> <port id="pr_60ad31a7-6fa4-47a4-a1d1-4dab4800cf76_p1" x="4349.4824" y="17979.125"/> <port id="pr_60ad31a7-6fa4-47a4-a1d1-4dab4800cf76_p2" x="4349.4824" y="18009.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1ccbf604-6db2-4c44-88a7-88c533e0ea26"> <bbox w="10.0" h="10.0" x="10835.012" y="3777.0"/> <port id="pr_1ccbf604-6db2-4c44-88a7-88c533e0ea26_p1" x="10840.012" y="3767.0"/> <port id="pr_1ccbf604-6db2-4c44-88a7-88c533e0ea26_p2" x="10840.012" y="3797.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_796ca411-e2c4-4aaf-a285-f54f825e9e90"> <bbox w="10.0" h="10.0" x="19845.0" y="8320.25"/> <port id="pr_796ca411-e2c4-4aaf-a285-f54f825e9e90_p1" x="19850.0" y="8340.25"/> <port id="pr_796ca411-e2c4-4aaf-a285-f54f825e9e90_p2" x="19850.0" y="8310.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d14a40c-3d3d-4bc6-970c-9fdc859afdcb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>NAME:(Integrin aVb3/L1CAM)</p> <p>Map modules:</p> <p>MODULE:CELL_CELL_ADHESIONS, MODULE:ADHERENS_JUNCTIONS</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:8636223</p> <p>Integrin aVb3 is distinct in its capacity to recognize the sequence Arg-Gly-Asp (RGD) in many extra-cellular matrix (ECM) components. </p> <p>aVb3 can also interact with the neural cell adhesion molecule L1CAM; a member of the immunoglobulin superfamily (IgSF). In other words, aVb3 undergoes heterophilic binding with L1CAM</p> <p>M21 cells display some aVb3-dependent adhesion and spreading on immunopurified human L1. Ligation between this ligand and aVb3 was also observed to promote significant haptotactic cell migration. </p> <p>Significant aVb3-dependent adhesion and spreading was evident on a L1 fragment containing Ig-like domains 4, 5, and 6. </p> <p>Importantly, mutation of an RGD sequence present in the sixth Ig-like domain of L1 abrogated M21 cell adhesion. </p> <p>Despite high levels of L1 expression the M21 melanoma cells did not display significant adhesion via a homophilic L1-L1 interaction. </p> <p>These data suggest that M21 melanoma cells recognize and adhere to L1 through a mechanism that is primarily heterophilic and integrin dependent. </p> <p>Finally, we present evidence that melanoma cells can shed and deposit L1 in occluding ECM. </p> <p>aVb3 may recognize L1 in a cell-cell or cell-substrate interaction.</p> <p>PMID:11553709</p> <p>Tumor metastasis involves many stage-specific adhesive interactions. The expression of several cell adhesion molecules, notably the integrin aVb3 has been associated with the metastatic potential of tumor cells. </p> <p>In the context of in vitro monolayer of human lung microvascular, L1CAM was shown to serve as a potential ligand for aVb3 during melanoma transendothelial migration.</p> <p>Also, polyclonal antibodies against L1 partially inhibited the transendothelial migration of melanoma cells. </p> <p>However, addition of both L1 and aVb3 antibodies did not show additive effects, suggesting that they are components of the same adhesion system.</p> <p>Together, the data suggest that interactions between the integrin aVb3 on melanoma cells and L1 on endothelial cells play an important role in the transendothelial migration of melanoma cells.</p> <p>Integrin aVb3 on melanoma cells, and not endothelial cells, is involved in the transmigration process.</p> <p>Because L1 is expressed in both melanoma and endothelial cells, it is possible that L1-L1 homophilic interactions at the heterotypic contacts might play a role in the transmigration of melanoma cells.</p> <p>The data thus indicate that transendothelial migration does not involve L1-L1 homophilic binding.</p> <p>These results led us to speculate that L1 on endothelial cells, and not melanoma cells, has a role during transendothelial migration of melanoma cells</p> <p>PMID:9003039</p> <p>L1 also interacts heterophilically with laminin in the context of mouse small cerebellar neurons</p> <p>Integrins (b1, a3, a6) could be shown to bind to laminin by a b1-dependent adhesion mechanism. </p> <p>L1 was demonstrated to bind in a concentration-dependent and saturating manner to laminin. </p> <p>Furthermore, antibodies to the Ig-like domains of L1 and b1 integrin inhibited partially cell adhesion to laminin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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class="process" orientation="vertical" id="pr_d3ec6123-3bca-4076-9bea-741d72f06d5f"> <bbox w="10.0" h="10.0" x="12320.547" y="9886.445"/> <port id="pr_d3ec6123-3bca-4076-9bea-741d72f06d5f_p1" x="12325.547" y="9876.445"/> <port id="pr_d3ec6123-3bca-4076-9bea-741d72f06d5f_p2" x="12325.547" y="9906.445"/> </glyph> <glyph class="process" orientation="vertical" id="pr_022ce290-3784-4003-9559-89e1a24ed65d"> <bbox w="10.0" h="10.0" x="23491.469" y="12657.75"/> <port id="pr_022ce290-3784-4003-9559-89e1a24ed65d_p1" x="23496.469" y="12677.75"/> <port id="pr_022ce290-3784-4003-9559-89e1a24ed65d_p2" x="23496.469" y="12647.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_626a92c5-9450-4aca-bdf2-99a44295a950"> <bbox w="10.0" h="10.0" x="29040.43" y="15940.25"/> <port id="pr_626a92c5-9450-4aca-bdf2-99a44295a950_p1" x="29045.43" y="15960.25"/> <port id="pr_626a92c5-9450-4aca-bdf2-99a44295a950_p2" x="29045.43" y="15930.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_191c14a4-13b6-4de4-8efa-23d9a7bce2ed"> <bbox w="10.0" h="10.0" x="23591.06" y="14880.092"/> <port id="pr_191c14a4-13b6-4de4-8efa-23d9a7bce2ed_p1" x="23581.06" y="14885.092"/> <port id="pr_191c14a4-13b6-4de4-8efa-23d9a7bce2ed_p2" x="23611.06" y="14885.092"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4e767dfd-8505-4817-ae82-30a42dcc195c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>LEF1 has been identified to be involved in transcription of the MIR371-373 cluster. Only unknown if either P300 or CTBP is involved.</p> <p>PMID:22020335</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4e767dfd-8505-4817-ae82-30a42dcc195c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22020335"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20903.31" y="22554.0"/> <port id="pr_4e767dfd-8505-4817-ae82-30a42dcc195c_p1" x="20893.31" y="22559.0"/> <port 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<p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2311.75" y="17872.875"/> <port id="pr_c5ffe638-dc4f-4568-84af-63f7613ccd3d_p1" x="2316.75" y="17862.875"/> <port id="pr_c5ffe638-dc4f-4568-84af-63f7613ccd3d_p2" x="2316.75" y="17892.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f9b5153-8e01-4920-bbf0-cbaee269024e"> <bbox w="10.0" h="10.0" x="23464.14" y="3828.75"/> <port id="pr_6f9b5153-8e01-4920-bbf0-cbaee269024e_p1" x="23469.14" y="3818.75"/> <port id="pr_6f9b5153-8e01-4920-bbf0-cbaee269024e_p2" x="23469.14" y="3848.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f676a09-7f5e-4014-a103-9f1e6edf9ba0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22032831, PMID:20959453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3f676a09-7f5e-4014-a103-9f1e6edf9ba0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22032831"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20959453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5901.5884" y="20160.172"/> <port id="pr_3f676a09-7f5e-4014-a103-9f1e6edf9ba0_p1" x="5906.5884" y="20180.172"/> <port id="pr_3f676a09-7f5e-4014-a103-9f1e6edf9ba0_p2" x="5906.5884" y="20150.172"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb716a5a-6695-4910-9986-4bd145d39fc0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18931676</p> <p>PMID:19686080</p> <p>Link between cell cycle and activation of Fanconi pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb716a5a-6695-4910-9986-4bd145d39fc0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18931676"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16766.516" y="16456.604"/> <port id="pr_eb716a5a-6695-4910-9986-4bd145d39fc0_p1" x="16786.516" y="16461.604"/> <port id="pr_eb716a5a-6695-4910-9986-4bd145d39fc0_p2" x="16756.516" y="16461.604"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29e89b4a-cf1b-44f5-9ef4-b76a548b649a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15317858</p> <p>in rat PC12 cells pheochromocytoma cells, upon activation of a ER-AKT1 fusion protein by 4OHT</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_29e89b4a-cf1b-44f5-9ef4-b76a548b649a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15317858"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24212.105" y="16159.91"/> <port id="pr_29e89b4a-cf1b-44f5-9ef4-b76a548b649a_p1" x="24217.105" y="16179.91"/> <port id="pr_29e89b4a-cf1b-44f5-9ef4-b76a548b649a_p2" x="24217.105" y="16149.91"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60574c58-f706-4a9c-af46-bbd95e70605a"> <bbox w="10.0" h="10.0" x="27337.967" y="13811.0"/> <port id="pr_60574c58-f706-4a9c-af46-bbd95e70605a_p1" x="27342.967" y="13801.0"/> <port id="pr_60574c58-f706-4a9c-af46-bbd95e70605a_p2" x="27342.967" y="13831.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_54e52330-1a4c-481e-b2e8-2fdd6b0cc22c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17446862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_54e52330-1a4c-481e-b2e8-2fdd6b0cc22c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17446862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27618.56" y="10897.533"/> <port id="pr_54e52330-1a4c-481e-b2e8-2fdd6b0cc22c_p1" x="27608.56" y="10902.533"/> <port id="pr_54e52330-1a4c-481e-b2e8-2fdd6b0cc22c_p2" x="27638.56" y="10902.533"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e4a6b8c5-ba47-4e63-9f79-8a79650a2bba"> <bbox w="10.0" h="10.0" x="25415.56" y="11669.0"/> <port id="pr_e4a6b8c5-ba47-4e63-9f79-8a79650a2bba_p1" x="25435.56" y="11674.0"/> <port id="pr_e4a6b8c5-ba47-4e63-9f79-8a79650a2bba_p2" x="25405.56" y="11674.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6add7b5-9c5c-40ce-804d-569f3c20fdae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26804.344" y="21349.25"/> <port id="pr_a6add7b5-9c5c-40ce-804d-569f3c20fdae_p1" x="26809.344" y="21369.25"/> <port id="pr_a6add7b5-9c5c-40ce-804d-569f3c20fdae_p2" x="26809.344" y="21339.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_087d169c-7563-48e8-af2f-8ae926a97378"> <bbox w="10.0" h="10.0" x="26914.627" y="15454.65"/> <port id="pr_087d169c-7563-48e8-af2f-8ae926a97378_p1" x="26934.627" y="15459.65"/> <port id="pr_087d169c-7563-48e8-af2f-8ae926a97378_p2" x="26904.627" y="15459.65"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_53fc4277-81b7-42fa-b304-6efdd753d840"> <bbox w="10.0" h="10.0" x="5535.0" y="6805.0"/> <port id="pr_53fc4277-81b7-42fa-b304-6efdd753d840_p1" x="5525.0" y="6810.0"/> <port id="pr_53fc4277-81b7-42fa-b304-6efdd753d840_p2" x="5555.0" y="6810.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ba0e0484-a149-498f-8a7b-4d0fad3d7806"> <bbox w="10.0" h="10.0" x="28076.326" y="16299.0"/> <port id="pr_ba0e0484-a149-498f-8a7b-4d0fad3d7806_p1" x="28066.326" y="16304.0"/> <port id="pr_ba0e0484-a149-498f-8a7b-4d0fad3d7806_p2" x="28096.326" y="16304.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_748db5f7-9c94-4a85-8817-bca777489ac5"> <bbox w="10.0" h="10.0" x="2636.7803" y="9696.492"/> <port id="pr_748db5f7-9c94-4a85-8817-bca777489ac5_p1" x="2641.7803" y="9686.492"/> <port id="pr_748db5f7-9c94-4a85-8817-bca777489ac5_p2" x="2641.7803" y="9716.492"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f711e3a3-43e9-42bd-8679-e9c6fd37f3eb"> <bbox w="10.0" h="10.0" x="28710.145" y="11412.643"/> <port id="pr_f711e3a3-43e9-42bd-8679-e9c6fd37f3eb_p1" x="28700.145" y="11417.643"/> <port id="pr_f711e3a3-43e9-42bd-8679-e9c6fd37f3eb_p2" x="28730.145" y="11417.643"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2bb97630-f273-406e-b5f2-b770b384a5f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to products</p> <p>PMID:18087291</p> <p>review, more specifically retention of NBN</p> <p>PMID:18001824</p> <p>NBN interacts even with MDC1 mutated on its 3 phosphoacceptor sites</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2bb97630-f273-406e-b5f2-b770b384a5f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18087291"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18001824"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18091.56" y="16629.0"/> <port id="pr_2bb97630-f273-406e-b5f2-b770b384a5f0_p1" x="18111.56" y="16634.0"/> <port id="pr_2bb97630-f273-406e-b5f2-b770b384a5f0_p2" x="18081.56" y="16634.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db5a0454-f9b8-4003-acad-03f6dd085226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15534002</p> <p>PMID:9779982</p> <p>PMID:14585353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db5a0454-f9b8-4003-acad-03f6dd085226"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15534002"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9779982"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14585353"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12210.081" y="17770.879"/> <port id="pr_db5a0454-f9b8-4003-acad-03f6dd085226_p1" x="12215.081" y="17790.879"/> <port id="pr_db5a0454-f9b8-4003-acad-03f6dd085226_p2" x="12215.081" y="17760.879"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a8aedd1-b00d-405e-97e1-abdc9e7c80c6"> <bbox w="10.0" h="10.0" x="745.0" y="3292.5"/> <port id="pr_4a8aedd1-b00d-405e-97e1-abdc9e7c80c6_p1" x="750.0" y="3282.5"/> <port id="pr_4a8aedd1-b00d-405e-97e1-abdc9e7c80c6_p2" x="750.0" y="3312.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e618907f-e7c7-4e83-aa2f-9fbfe8f7abd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2689.75" y="17334.695"/> <port id="pr_e618907f-e7c7-4e83-aa2f-9fbfe8f7abd7_p1" x="2709.75" y="17339.695"/> <port 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<p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4197.29" y="17690.0"/> <port id="pr_d36bdebd-f114-452e-8749-eb634c8fbf08_p1" x="4202.29" y="17680.0"/> <port id="pr_d36bdebd-f114-452e-8749-eb634c8fbf08_p2" x="4202.29" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da372bbb-cebf-4d9e-827b-6d17e4df8ae4"> <bbox w="10.0" h="10.0" x="19354.145" y="11975.366"/> <port id="pr_da372bbb-cebf-4d9e-827b-6d17e4df8ae4_p1" x="19359.145" y="11965.366"/> <port id="pr_da372bbb-cebf-4d9e-827b-6d17e4df8ae4_p2" x="19359.145" y="11995.366"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dde64e9c-6442-4225-861e-9488ab9e6405"> <bbox w="10.0" h="10.0" x="27109.06" y="14564.0"/> <port id="pr_dde64e9c-6442-4225-861e-9488ab9e6405_p1" x="27099.06" y="14569.0"/> <port id="pr_dde64e9c-6442-4225-861e-9488ab9e6405_p2" x="27129.06" y="14569.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a8a79cf1-0588-441f-8114-b6b6b6e1b8c7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Phosphorylated TCF/LEF transcription factor dissociates and is replaced by another unphosphorylated one. For example TCF3 (repressor) is phosphorylated by HIPK2 and will dissociate from the complex and is replaced by TCF1.</p> <p>PMID:21285352</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a8a79cf1-0588-441f-8114-b6b6b6e1b8c7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285352"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22194.936" y="21654.375"/> <port id="pr_a8a79cf1-0588-441f-8114-b6b6b6e1b8c7_p1" x="22199.936" y="21644.375"/> <port id="pr_a8a79cf1-0588-441f-8114-b6b6b6e1b8c7_p2" x="22199.936" y="21674.375"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_e3923223-4f87-4b08-8ec6-d41d51886d85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21502402</p> <p>Phosphorylation of serine 68 of Twist1 stabilizes Twist1 protein and promotes breast cancer cell invasiveness.</p> <p>Twist1 can be phosphorylated in vitro at Serin 68 by MAPKs (p38MAPKs, JNKs, ERK1/2)</p> <p>This phosphorylation is required for Twist1 protein stability.</p> <p>pSer 68 stabilizes Twist1 by protecting Twist1 from ubiquitination</p> <p>Ser 68 phosphorylation is required for Twist1- promoted EMT and breast cancer cell invasion</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> 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id="pr_50c3bedf-3945-4174-af0d-ae99982b98c7"> <bbox w="10.0" h="10.0" x="9139.375" y="5055.012"/> <port id="pr_50c3bedf-3945-4174-af0d-ae99982b98c7_p1" x="9129.375" y="5060.012"/> <port id="pr_50c3bedf-3945-4174-af0d-ae99982b98c7_p2" x="9159.375" y="5060.012"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d5bb32a-72a1-490a-8b51-61d66f4e55f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5310.25" y="15575.126"/> <port id="pr_0d5bb32a-72a1-490a-8b51-61d66f4e55f2_p1" x="5300.25" y="15580.126"/> <port id="pr_0d5bb32a-72a1-490a-8b51-61d66f4e55f2_p2" x="5330.25" y="15580.126"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8eda8cda-2afb-43fd-9fe5-40509081316c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>CnA binds to MEK1, MEK1 binds to ERK2 and ERK2 phosphorylates NFAT</p> <p>PMID15657416</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="16088.061" y="21246.0"/> <port id="pr_8eda8cda-2afb-43fd-9fe5-40509081316c_p1" x="16078.061" y="21251.0"/> <port id="pr_8eda8cda-2afb-43fd-9fe5-40509081316c_p2" x="16108.061" y="21251.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7da9582d-2cdf-4b66-a18e-5fadf813e8ee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15753124</p> <p>effect of AKT2 mediated phosphorylation of STXBP4 on GLUT4</p> <p>reviews the involvement of VAMP2 and STX4</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7da9582d-2cdf-4b66-a18e-5fadf813e8ee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15753124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18134.06" y="9244.0"/> <port id="pr_7da9582d-2cdf-4b66-a18e-5fadf813e8ee_p1" x="18139.06" y="9264.0"/> <port id="pr_7da9582d-2cdf-4b66-a18e-5fadf813e8ee_p2" x="18139.06" y="9234.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_1d4ebe1c-81c2-4f53-9712-cb7980340a30"> <bbox w="20.0" h="20.0" x="18111.121" y="9271.866"/> <port id="logicglyph_1d4ebe1c-81c2-4f53-9712-cb7980340a30_p1" x="18121.121" y="9301.866"/> <port id="logicglyph_1d4ebe1c-81c2-4f53-9712-cb7980340a30_p2" x="18121.121" y="9261.866"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6c075ca4-6fb4-45fa-8c8c-0dfa34309042"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6c075ca4-6fb4-45fa-8c8c-0dfa34309042"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9069260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6616.405" y="13251.9375"/> <port id="pr_6c075ca4-6fb4-45fa-8c8c-0dfa34309042_p1" x="6636.405" y="13256.9375"/> <port id="pr_6c075ca4-6fb4-45fa-8c8c-0dfa34309042_p2" x="6606.405" y="13256.9375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3babb585-eac1-45a2-8794-53e87d3d0a6f"> <bbox w="10.0" h="10.0" x="19407.81" y="16123.5"/> <port id="pr_3babb585-eac1-45a2-8794-53e87d3d0a6f_p1" x="19412.81" y="16143.5"/> <port id="pr_3babb585-eac1-45a2-8794-53e87d3d0a6f_p2" x="19412.81" y="16113.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_526a9632-dcdf-464c-ab43-579b606f93c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>In addition to Grb2/SOS PLCG and SRC are also recruited to activated PTKRs at the PM.</p> <p>Activation of the TCR results in tyrosine phosphorylation of the ?? chain of the receptor by Src family kinases and the resulting phosphotyrosines serve to recruit ZAP-70 (not modelled) that in turn phosphorylates the scaffold protein LAT (not modelled) at multiple sites.</p> <p>Recruitment to the membrane and tyrosine phosphorylation enhance the enzymatic activity of PLC-g leading to the formation of two second messengers diacylglycerol (DAG) and inositol 145-trisphosphate (IP3). IP3 releases Ca2+ from internal stores which in turn acts in concert with DAG to translocate protein kinase C (PKC) to the cell membrane and stimulate its enzymatic activity.</p> <p>PMID:19615955 PMID:16488589 PMID:15567848</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_526a9632-dcdf-464c-ab43-579b606f93c8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19615955"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15567848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7602.06" y="18907.014"/> <port id="pr_526a9632-dcdf-464c-ab43-579b606f93c8_p1" x="7592.06" y="18912.014"/> <port id="pr_526a9632-dcdf-464c-ab43-579b606f93c8_p2" x="7622.06" y="18912.014"/> </glyph> <glyph class="process" orientation="vertical" id="pr_141482da-7ee2-43b1-ae66-d4d477590d37"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15867354</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="10123.356"/> <port id="pr_ab9b857e-7225-4ba9-9a39-3e31588ec19a_p2" x="12914.973" y="10123.356"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2d9e195d-aa7a-422d-97fd-9a2b20949248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23010170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d9e195d-aa7a-422d-97fd-9a2b20949248"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22495.56" y="9911.625"/> <port id="pr_2d9e195d-aa7a-422d-97fd-9a2b20949248_p1" x="22485.56" y="9916.625"/> <port id="pr_2d9e195d-aa7a-422d-97fd-9a2b20949248_p2" x="22515.56" y="9916.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e94d100b-ef8f-4c25-ba5a-27832df03a6d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23989302</p> <p>PMID:19152186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4e8bd310-e183-4956-93b2-413f3a0ee72f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17030191"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16736.06" y="19620.75"/> <port id="pr_4e8bd310-e183-4956-93b2-413f3a0ee72f_p1" x="16756.06" y="19625.75"/> <port id="pr_4e8bd310-e183-4956-93b2-413f3a0ee72f_p2" x="16726.06" y="19625.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d3c0397d-fd6e-4e5b-9e88-5cbf80e29bf1"> <bbox w="10.0" h="10.0" x="15650.0" y="7580.0"/> <port id="pr_d3c0397d-fd6e-4e5b-9e88-5cbf80e29bf1_p1" x="15655.0" y="7570.0"/> <port id="pr_d3c0397d-fd6e-4e5b-9e88-5cbf80e29bf1_p2" x="15655.0" y="7600.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_10a252c8-362a-48af-b38f-21e0b8830e45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BCL2 protein can target Raf-1 (C-Raf) to mitochondria.</p> <p>PMID:8929532</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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x="10652.25" y="614.375"/> <port id="pr_b3c32b93-cfe1-43cb-8b74-26b79021a710_p2" x="10652.25" y="644.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00617b7a-40e0-4b8e-84f4-84f01e4344d9"> <bbox w="10.0" h="10.0" x="2985.0" y="2406.25"/> <port id="pr_00617b7a-40e0-4b8e-84f4-84f01e4344d9_p1" x="2990.0" y="2396.25"/> <port id="pr_00617b7a-40e0-4b8e-84f4-84f01e4344d9_p2" x="2990.0" y="2426.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e73ee0fa-34ac-4900-9425-4ef20f55552b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>VAV1,2 are GEFs for Rac1.</p> <p>PMID:11080163</p> <p>VAV2 is recruited by the CD19 co-receptor of the B cells and participates in the B cell receptor signaling.</p> <p>PMID:12165654</p> <p>in the T cell, VAV1 forms complex with LCP2. </p> <p>This complex is involved in the T cell receptor and CD28 signaling cascades.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e73ee0fa-34ac-4900-9425-4ef20f55552b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11080163"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12165654"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5997.3457" y="14642.429"/> <port id="pr_e73ee0fa-34ac-4900-9425-4ef20f55552b_p1" x="6017.3457" y="14647.429"/> <port id="pr_e73ee0fa-34ac-4900-9425-4ef20f55552b_p2" x="5987.3457" y="14647.429"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_8de6887b-e328-4f00-ab29-6e07cf8cd2c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9228084</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ac6ac5e-32f4-4e02-a038-ab05f75d6313"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9228084"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16975.56" y="18124.5"/> <port id="pr_5ac6ac5e-32f4-4e02-a038-ab05f75d6313_p1" x="16995.56" y="18129.5"/> <port id="pr_5ac6ac5e-32f4-4e02-a038-ab05f75d6313_p2" x="16965.56" y="18129.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f4623537-b0c0-400c-b7a3-53183830bb5a"> <bbox w="10.0" h="10.0" x="19170.0" y="1890.0"/> <port id="pr_f4623537-b0c0-400c-b7a3-53183830bb5a_p1" x="19175.0" y="1910.0"/> <port id="pr_f4623537-b0c0-400c-b7a3-53183830bb5a_p2" x="19175.0" y="1880.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d3efab1c-0943-46d1-a054-dc418fd2530c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>GJB5 is so-called Connexin 31.1</p> <p>PMID:21777377</p> <p>Cx31.1 (GJB5) is predominantly expressed in the testes and the skin epidermis.</p> <p>Cx31.1 rarely form functional gap junction channels, either with itself or with other Cx isoforms.</p> <p>Gap junctions play important roles in various physiologic functions such as regulation of cell proliferation, cell differentiation, tissue development and cell apoptosis. </p> <p>In most cases, Cxs act as tumour suppressors: Gap junctions play an important role as tumour suppressors in maintaining cell differentiation and preventing transformation</p> <p>Cx31.1 reduced tumour cell proliferation, anchorage-independent growth, migration and invasion. </p> <p>Moreover, development of tumours in a xenograft model was suppressed by Cx31.1, suggesting that Cx31.1 may act as a tumour suppressor in NSCLC cell lines.</p> <p>Further studies are required to investigate the mechanism by which Cx31.1 repress cyclin D3 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1256.3914" y="15439.5"/> <port id="pr_bab975c3-7e7f-4e63-83ba-66448ac00e15_p1" x="1276.3914" y="15444.5"/> <port id="pr_bab975c3-7e7f-4e63-83ba-66448ac00e15_p2" x="1246.3914" y="15444.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0a54062e-27dc-4497-afce-259b92a4c2bf"> <bbox w="10.0" h="10.0" x="22258.5" y="4234.793"/> <port id="pr_0a54062e-27dc-4497-afce-259b92a4c2bf_p1" x="22248.5" y="4239.793"/> <port id="pr_0a54062e-27dc-4497-afce-259b92a4c2bf_p2" x="22278.5" y="4239.793"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1fd94048-fc2c-4de4-b030-c68ece0e269b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Mxi2 is a splicing isoform of P38. It directly interacts with ERK1/2. Mxi2 prolongs ERK activation (in the nucleus) by binding.</p> <p>Mxi2 could suffice to promote the transport of ERK1/2 to the nucleus in the absence of further stimulation.</p> <p>PMID:12697810 PMID:17255949</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1fd94048-fc2c-4de4-b030-c68ece0e269b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12697810"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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TNF-alpha-induced activation of NF-kappaB via FLASH</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f9c7aed0-4e93-47c5-86e4-10221ae00da5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15592525"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22677.186" y="9885.3125"/> <port id="pr_f9c7aed0-4e93-47c5-86e4-10221ae00da5_p1" x="22697.186" y="9890.3125"/> <port 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x="6268.875" y="7403.75"/> <port id="pr_701c5311-46f5-4522-a706-45c391cf50e5_p1" x="6258.875" y="7408.75"/> <port id="pr_701c5311-46f5-4522-a706-45c391cf50e5_p2" x="6288.875" y="7408.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_87d8bcd5-b260-4da7-8a83-1528beddebd4"> <bbox w="10.0" h="10.0" x="2565.0" y="4348.5"/> <port id="pr_87d8bcd5-b260-4da7-8a83-1528beddebd4_p1" x="2570.0" y="4338.5"/> <port id="pr_87d8bcd5-b260-4da7-8a83-1528beddebd4_p2" x="2570.0" y="4368.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_ddb1abbd-ed15-40a9-9e2d-4c0ef7b8d1b5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>TGFbeta activates Notch</p> <p>PMID:22363130</p> <p>PMID:22330899</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_ddb1abbd-ed15-40a9-9e2d-4c0ef7b8d1b5_p2" x="1252.3132" y="14214.055"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2a56e919-3a1a-49f1-8956-61c06e22d579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID18493594</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="27435.56" y="21977.18"/> <port id="pr_2a56e919-3a1a-49f1-8956-61c06e22d579_p1" x="27425.56" y="21982.18"/> <port id="pr_2a56e919-3a1a-49f1-8956-61c06e22d579_p2" x="27455.56" y="21982.18"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f191b66-d37c-478f-943d-2e6285aa2998"> <bbox w="10.0" h="10.0" x="29213.0" y="5445.25"/> <port id="pr_8f191b66-d37c-478f-943d-2e6285aa2998_p1" x="29203.0" y="5450.25"/> <port id="pr_8f191b66-d37c-478f-943d-2e6285aa2998_p2" x="29233.0" y="5450.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0bbf3fc6-1c65-4a2d-ad5c-eda7ec5547e7"> <bbox w="10.0" h="10.0" x="9472.5" y="2880.0"/> <port id="pr_0bbf3fc6-1c65-4a2d-ad5c-eda7ec5547e7_p1" x="9492.5" y="2885.0"/> <port id="pr_0bbf3fc6-1c65-4a2d-ad5c-eda7ec5547e7_p2" x="9462.5" y="2885.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_379bfe80-a011-45d8-a086-f4b8ecaad6f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19798104</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_379bfe80-a011-45d8-a086-f4b8ecaad6f2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19798104"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20829.56" y="16649.0"/> <port id="pr_379bfe80-a011-45d8-a086-f4b8ecaad6f2_p1" x="20849.56" y="16654.0"/> <port id="pr_379bfe80-a011-45d8-a086-f4b8ecaad6f2_p2" x="20819.56" y="16654.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f98b9e0e-473b-4f57-a0ff-5609b3555720"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1516.0" y="12777.398"/> <port id="pr_f98b9e0e-473b-4f57-a0ff-5609b3555720_p1" x="1506.0" y="12782.398"/> <port id="pr_f98b9e0e-473b-4f57-a0ff-5609b3555720_p2" x="1536.0" y="12782.398"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1c6f3968-5389-494b-adf5-fc2eeea49bba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5383.918" y="14875.5"/> <port id="pr_1c6f3968-5389-494b-adf5-fc2eeea49bba_p1" x="5388.918" y="14865.5"/> <port id="pr_1c6f3968-5389-494b-adf5-fc2eeea49bba_p2" x="5388.918" y="14895.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_7545fd68-0b50-4e88-91d0-21795788ac33"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19590512</p> <p>Siva1 and mdm2</p> <p>PMID:15989956</p> <p>HUWE1</p> <p>PMID:19960022</p> <p>effect of SIRT1 K382-deacetylation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7545fd68-0b50-4e88-91d0-21795788ac33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19590512"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15989956"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19960022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21189.06" y="16479.0"/> <port id="pr_7545fd68-0b50-4e88-91d0-21795788ac33_p1" x="21179.06" y="16484.0"/> <port id="pr_7545fd68-0b50-4e88-91d0-21795788ac33_p2" x="21209.06" y="16484.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fa428b12-3258-4285-a68e-9820bc97e7c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fa428b12-3258-4285-a68e-9820bc97e7c9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2358.5" y="10102.25"/> <port id="pr_fa428b12-3258-4285-a68e-9820bc97e7c9_p1" x="2348.5" y="10107.25"/> <port id="pr_fa428b12-3258-4285-a68e-9820bc97e7c9_p2" x="2378.5" y="10107.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9735b29-91e1-4e71-9c47-1516776b8583"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Fanconi pathway is regulated at two levels:1. FANCD2 and FANCI uiquitination by UBE2T for Fanconi foci association. Followed by FANCD2 and FANCI DE-uiquitination by USP1/UAF1 to allow the repair process: </p> <p>PMID:19217432, PMID:18082604, PMID:19075014, PMID:18082605, PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c9735b29-91e1-4e71-9c47-1516776b8583"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082604"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19075014"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082605"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14453.627" y="16236.356"/> <port id="pr_c9735b29-91e1-4e71-9c47-1516776b8583_p1" x="14458.627" y="16256.356"/> <port id="pr_c9735b29-91e1-4e71-9c47-1516776b8583_p2" x="14458.627" y="16226.356"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b0d81b09-a580-495e-9070-94f396859aab"> <bbox w="10.0" h="10.0" x="8771.061" y="18394.75"/> <port id="pr_b0d81b09-a580-495e-9070-94f396859aab_p1" x="8776.061" y="18384.75"/> <port id="pr_b0d81b09-a580-495e-9070-94f396859aab_p2" x="8776.061" y="18414.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1edf6a4d-0e9b-4d15-8fdc-73335f246de4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MLK3 and MLK2 two MAP3Ks of JNK pathway can interact with RAC1 in a GTP-dependent manner.</p> <p>MEKK2 and MEKK3 can activate JNK P38 and ERK pathways.</p> <p>TAO kinases are novel MAP3Ks that specifically regulate P38s.</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>MEKK1 selectively activates the endogenous JNK pathway. MEKK1 can activate MEK4 and MEK7 in vivo.</p> <p>MEKK4 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TAK1 is a MAP3K. It is able to activate both JNK and P38 pathways.</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF. TAK1 can phosphorylate and activate MEK4 MEK3 and MEK6.</p> <p>MLK3 has the potential to positively regulate the ERK/MODULE:MAPK pathway by directly phosphorylating and activating MEK.</p> <p>Expression of GADD45 genes in mammalian cells strongly activates co-expressed MTK1 as well as P38 and JNK the MAPKs downstream of MTK1. TAO kinases are MAP3Ks that function upstream of P38 and JNK.</p> <p>PMID:11274345 PMID:12738796 PMID:18855897 PMID:21614932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1edf6a4d-0e9b-4d15-8fdc-73335f246de4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12738796"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18855897"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11447.807" y="20008.668"/> <port id="pr_1edf6a4d-0e9b-4d15-8fdc-73335f246de4_p1" x="11467.807" y="20013.668"/> <port id="pr_1edf6a4d-0e9b-4d15-8fdc-73335f246de4_p2" x="11437.807" y="20013.668"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7c80490f-fbde-4bba-bf82-018b72ce09ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17038621, PMID:15677884</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7c80490f-fbde-4bba-bf82-018b72ce09ea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17038621"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15677884"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11148.07" y="11234.492"/> <port id="pr_7c80490f-fbde-4bba-bf82-018b72ce09ea_p1" x="11153.07" y="11254.492"/> <port id="pr_7c80490f-fbde-4bba-bf82-018b72ce09ea_p2" x="11153.07" y="11224.492"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_26ca641c-e318-4026-8305-7805f5c45be6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26ca641c-e318-4026-8305-7805f5c45be6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12686.311" y="21406.0"/> <port id="pr_26ca641c-e318-4026-8305-7805f5c45be6_p1" x="12676.311" y="21411.0"/> <port id="pr_26ca641c-e318-4026-8305-7805f5c45be6_p2" x="12706.311" y="21411.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7fdfec6a-a85b-4a90-9c12-85a619846352"> <bbox w="10.0" h="10.0" x="23802.06" y="9709.25"/> <port id="pr_7fdfec6a-a85b-4a90-9c12-85a619846352_p1" x="23792.06" y="9714.25"/> <port id="pr_7fdfec6a-a85b-4a90-9c12-85a619846352_p2" x="23822.06" y="9714.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dede992f-2fc0-4a62-80b9-085bd596c52b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25687758</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dede992f-2fc0-4a62-80b9-085bd596c52b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25687758"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6106.5" y="10366.0"/> <port id="pr_dede992f-2fc0-4a62-80b9-085bd596c52b_p1" x="6111.5" y="10386.0"/> <port id="pr_dede992f-2fc0-4a62-80b9-085bd596c52b_p2" x="6111.5" y="10356.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9b38c9d4-0275-4c00-ba9f-caa0ee0468e0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:16680151</p> <p>PMID:20452955</p> <p>PMID:19216069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9b38c9d4-0275-4c00-ba9f-caa0ee0468e0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16680151"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20452955"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19216069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12492.061" y="20509.5"/> <port id="pr_9b38c9d4-0275-4c00-ba9f-caa0ee0468e0_p1" x="12482.061" y="20514.5"/> <port id="pr_9b38c9d4-0275-4c00-ba9f-caa0ee0468e0_p2" x="12512.061" y="20514.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8e1258ac-81c3-4b8b-883d-aac844600ca8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10048576</p> <p>The gene expressions of MMP-1, MMP-3, and MMP-9 and gelatinolytic activity of MMP-9 were significantly increased in high ETS-1 expression cells. </p> <p>Low ETS-1 expression cells could not spread on a vitronectin substratum, and the phosphorylation of focal adhesion kinase was markedly impaired because of the reduced expression of integrin b3</p> <p>PMID:16079281</p> <p>MMP-9 transcription is activated in response to Snail expression</p> <p>Oncogenic H-Ras (RasV12) synergistically co-operates with Snail in the induction of MMP-9 transcription and expression.</p> <p>Phosphorylated Sp-1 is recruited to the MMP-9 promoter following activation of the Erk1/2 pathway</p> <p>PMID:19564415</p> <p>The transcription factor FOXO3, negatively regulated by binding to 14-3-3 protein family, induces MMP9 and MMP13 expression.</p> <p>This explains the role of FOXO3 in promoting tumor invasion. </p> <p>PMID:22439866</p> <p>c-Myb strongly increased the expression/activity of cathepsin D and matrix metalloproteinase (MMP) 9 and significantly downregulated MMP1.</p> <p>PMID:8844971</p> <p>Molecular mechanism of transcriptional activation of human gelatinase B (=MMP9) by proximal promoter. (NFKB)</p> <p>PMID:16556862</p> <p>ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groups</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e1258ac-81c3-4b8b-883d-aac844600ca8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10048576"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16079281"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19564415"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22439866"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8844971"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2939.5" y="17400.25"/> <port id="pr_8e1258ac-81c3-4b8b-883d-aac844600ca8_p1" x="2959.5" y="17405.25"/> <port id="pr_8e1258ac-81c3-4b8b-883d-aac844600ca8_p2" x="2929.5" y="17405.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_fa19d3b3-0bdb-44f2-97a2-7de714b4af4b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3412.25" y="16303.721"/> <port id="pr_fa19d3b3-0bdb-44f2-97a2-7de714b4af4b_p1" x="3402.25" y="16308.721"/> <port id="pr_fa19d3b3-0bdb-44f2-97a2-7de714b4af4b_p2" x="3432.25" y="16308.721"/> </glyph> <glyph class="process" orientation="vertical" id="pr_efef4121-70fe-4ca2-ad14-2ddadda20735"> <bbox w="10.0" h="10.0" x="5540.0" y="4276.25"/> <port id="pr_efef4121-70fe-4ca2-ad14-2ddadda20735_p1" x="5545.0" y="4266.25"/> <port id="pr_efef4121-70fe-4ca2-ad14-2ddadda20735_p2" x="5545.0" y="4296.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a9582d10-d7fa-4b58-a467-cd5f25f452b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a9582d10-d7fa-4b58-a467-cd5f25f452b1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4637.2617" y="18879.75"/> <port id="pr_a9582d10-d7fa-4b58-a467-cd5f25f452b1_p1" x="4642.2617" y="18869.75"/> <port id="pr_a9582d10-d7fa-4b58-a467-cd5f25f452b1_p2" x="4642.2617" y="18899.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_66dbd862-9718-4cf5-be04-6293383a5c3a"> <bbox w="10.0" h="10.0" x="9605.0" y="7583.75"/> <port id="pr_66dbd862-9718-4cf5-be04-6293383a5c3a_p1" x="9610.0" y="7573.75"/> <port id="pr_66dbd862-9718-4cf5-be04-6293383a5c3a_p2" x="9610.0" y="7603.75"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_7eff1b24-0736-4c73-afff-876e406ac52e"> <bbox w="20.0" h="20.0" x="13393.334" y="5796.25"/> <port id="logicglyph_7eff1b24-0736-4c73-afff-876e406ac52e_p1" x="13423.334" y="5806.25"/> <port id="logicglyph_7eff1b24-0736-4c73-afff-876e406ac52e_p2" x="13383.334" y="5806.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64c3c77d-1d20-4af4-b5e7-3904826dc7ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21118996</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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<head> <title/> </head> <body> <p>References:</p> <p>PMID:18292600</p> <p>AIP1 recruits phosphatase PP2A to ASK1 in tumor necrosis factor-induced ASK1-JNK activation</p> <p>PMID:10734135</p> <p>PMID:8974401</p> <p>PMID:15310755</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e871d0e3-44e8-445c-b08d-1dee63f3f6fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18292600"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10734135"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8974401"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15310755"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22476.617" y="10026.25"/> <port id="pr_e871d0e3-44e8-445c-b08d-1dee63f3f6fc_p1" x="22481.617" y="10016.25"/> <port id="pr_e871d0e3-44e8-445c-b08d-1dee63f3f6fc_p2" x="22481.617" y="10046.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a2bee0aa-3e32-4730-b25a-e2049a32a51b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21081489</p> <p>miR-200b interacts with the ETS1 to exert translational repression</p> <p>It is not clear yet whether miR-200b targets Ets1 for degradation, or it only inhibits translation of Ets1.</p> <p>PMID:14517404</p> <p>Fibroblast growth factor FGF1, a prototypic member of the FGF family, has the ability to stimulate angiogenesis in an in vivo model of angiogenesis.</p> <p>Eggs received secreted FGF1 showed a significant increase in vascularization when compared to eggs received vector alone plasmids. </p> <p>PMID:16272825</p> <p>This FGF1-mediated angiogenesis involves in the PI3K/AKT pathway.</p> <p>Blocked PI3K pathway via LY294002 in FGF1-transfected CAMs (chicken chorio- allantoic membrane) significantly inhibited angiogenesis</p> <p>PMID:16682805</p> <p>Both activity and mRNA expression levels of the Ets1 molecule were increased in response to FGF1 overexpression</p> <p>Ets-1 activation is a requisite for FGF1-mediated angiogenesis in vivo.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fbf6ebee-8d6d-4fc5-8e65-226c7aecd415"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15084260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12438.311" y="20465.836"/> <port id="pr_fbf6ebee-8d6d-4fc5-8e65-226c7aecd415_p1" x="12443.311" y="20485.836"/> <port id="pr_fbf6ebee-8d6d-4fc5-8e65-226c7aecd415_p2" x="12443.311" y="20455.836"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b46af3e3-a4ee-4a96-8d04-e2afe14cb076"> <bbox w="10.0" h="10.0" x="27032.436" y="14652.75"/> <port id="pr_b46af3e3-a4ee-4a96-8d04-e2afe14cb076_p1" x="27022.436" y="14657.75"/> <port id="pr_b46af3e3-a4ee-4a96-8d04-e2afe14cb076_p2" x="27052.436" y="14657.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_006798ff-1aac-4c69-b47e-684685788d09"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_006798ff-1aac-4c69-b47e-684685788d09"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20806969"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5422.2" y="11671.0"/> <port id="pr_006798ff-1aac-4c69-b47e-684685788d09_p1" x="5427.2" y="11661.0"/> <port id="pr_006798ff-1aac-4c69-b47e-684685788d09_p2" x="5427.2" y="11691.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9c6ec7d2-2c22-4bc3-9119-bc7b57f228e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13114.301" y="17232.145"/> <port id="pr_9c6ec7d2-2c22-4bc3-9119-bc7b57f228e1_p1" x="13134.301" y="17237.145"/> <port id="pr_9c6ec7d2-2c22-4bc3-9119-bc7b57f228e1_p2" x="13104.301" y="17237.145"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_076761f1-3d66-4726-9d1c-4878fd2c142e"> <bbox w="10.0" h="10.0" x="19485.56" y="15658.0"/> <port id="pr_076761f1-3d66-4726-9d1c-4878fd2c142e_p1" x="19475.56" y="15663.0"/> <port id="pr_076761f1-3d66-4726-9d1c-4878fd2c142e_p2" x="19505.56" y="15663.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a26f16f8-567e-4d2a-bb69-1545414124b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a26f16f8-567e-4d2a-bb69-1545414124b2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23140366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> 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id="pr_18e624f4-70f7-4131-9767-3efd2f832535"> <bbox w="10.0" h="10.0" x="13925.0" y="2503.75"/> <port id="pr_18e624f4-70f7-4131-9767-3efd2f832535_p1" x="13930.0" y="2523.75"/> <port id="pr_18e624f4-70f7-4131-9767-3efd2f832535_p2" x="13930.0" y="2493.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dc1601d9-a211-4ba9-8d47-fe32a5d079a1"> <bbox w="10.0" h="10.0" x="28884.06" y="9164.0"/> <port id="pr_dc1601d9-a211-4ba9-8d47-fe32a5d079a1_p1" x="28889.06" y="9154.0"/> <port id="pr_dc1601d9-a211-4ba9-8d47-fe32a5d079a1_p2" x="28889.06" y="9184.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_38934632-c4ef-4148-89e1-f980314b5d67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Kremen interacts w/ RSPO1 thereby releasing LRP5/6 which can is used for canonical wnt signalling</p> <p>PMID:12050670</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_38934632-c4ef-4148-89e1-f980314b5d67"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12050670"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24566.06" y="18255.75"/> <port id="pr_38934632-c4ef-4148-89e1-f980314b5d67_p1" x="24586.06" y="18260.75"/> <port id="pr_38934632-c4ef-4148-89e1-f980314b5d67_p2" 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class="process" orientation="vertical" id="pr_8bf5cce3-e260-4896-89e6-2827d9179c19"> <bbox w="10.0" h="10.0" x="5929.4346" y="4759.25"/> <port id="pr_8bf5cce3-e260-4896-89e6-2827d9179c19_p1" x="5934.4346" y="4749.25"/> <port id="pr_8bf5cce3-e260-4896-89e6-2827d9179c19_p2" x="5934.4346" y="4779.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e93b211e-b04a-4efa-9d24-04e30d0dc59c"> <bbox w="10.0" h="10.0" x="2477.25" y="4823.875"/> <port id="pr_e93b211e-b04a-4efa-9d24-04e30d0dc59c_p1" x="2497.25" y="4828.875"/> <port id="pr_e93b211e-b04a-4efa-9d24-04e30d0dc59c_p2" x="2467.25" y="4828.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc1023f8-da58-4210-9994-6a45dd5bcd13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_bcc8802f-9509-42bf-a75d-a76d40c61ee3"> <bbox w="10.0" h="10.0" x="19983.324" y="6248.028"/> <port id="pr_bcc8802f-9509-42bf-a75d-a76d40c61ee3_p1" x="19973.324" y="6253.028"/> <port id="pr_bcc8802f-9509-42bf-a75d-a76d40c61ee3_p2" x="20003.324" y="6253.028"/> </glyph> <glyph class="process" orientation="vertical" id="pr_441a5c27-a7a6-4aec-9ea7-adf06bb536d5"> <bbox w="10.0" h="10.0" x="9630.0" y="6155.0"/> <port id="pr_441a5c27-a7a6-4aec-9ea7-adf06bb536d5_p1" x="9635.0" y="6175.0"/> <port id="pr_441a5c27-a7a6-4aec-9ea7-adf06bb536d5_p2" x="9635.0" y="6145.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f215b7db-95fa-4004-b830-7762357e1b23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3143.6348" y="19024.0"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19234442</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_80c90ad9-b934-4a4b-b284-70b2e1e24b9a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19234442"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18086.56" y="16454.0"/> <port id="pr_80c90ad9-b934-4a4b-b284-70b2e1e24b9a_p1" x="18091.56" y="16444.0"/> <port id="pr_80c90ad9-b934-4a4b-b284-70b2e1e24b9a_p2" x="18091.56" y="16474.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8c8cedd9-becb-4f66-bb63-0c2161154df8"> <bbox w="10.0" h="10.0" x="21133.84" y="15929.686"/> <port id="pr_8c8cedd9-becb-4f66-bb63-0c2161154df8_p1" x="21138.84" y="15949.686"/> <port id="pr_8c8cedd9-becb-4f66-bb63-0c2161154df8_p2" x="21138.84" y="15919.686"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cc23768c-be3d-46cd-b409-3ee7b1c97cb1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18636226</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cc23768c-be3d-46cd-b409-3ee7b1c97cb1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13871.561" y="20798.96"/> <port id="pr_cc23768c-be3d-46cd-b409-3ee7b1c97cb1_p1" x="13861.561" y="20803.96"/> <port id="pr_cc23768c-be3d-46cd-b409-3ee7b1c97cb1_p2" x="13891.561" y="20803.96"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5bde8589-39f6-4059-aab2-32c603d58c4a"> <bbox w="10.0" h="10.0" x="10165.761" y="17966.5"/> <port id="pr_5bde8589-39f6-4059-aab2-32c603d58c4a_p1" x="10170.761" y="17956.5"/> <port id="pr_5bde8589-39f6-4059-aab2-32c603d58c4a_p2" x="10170.761" y="17986.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ac43c9fc-0616-4311-a30e-69120043e840"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24686170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ac43c9fc-0616-4311-a30e-69120043e840"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3266.25" y="10779.25"/> <port id="pr_ac43c9fc-0616-4311-a30e-69120043e840_p1" x="3271.25" y="10769.25"/> <port id="pr_ac43c9fc-0616-4311-a30e-69120043e840_p2" x="3271.25" y="10799.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dcaccb3d-aeed-4eb4-9589-b63b2dd1903f"> <bbox w="10.0" h="10.0" x="28816.31" y="11777.0"/> <port id="pr_dcaccb3d-aeed-4eb4-9589-b63b2dd1903f_p1" x="28836.31" y="11782.0"/> <port id="pr_dcaccb3d-aeed-4eb4-9589-b63b2dd1903f_p2" x="28806.31" y="11782.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8884c5e1-05e2-4876-8ec7-620ed27a5010"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3656.5122" y="13907.25"/> <port id="pr_8884c5e1-05e2-4876-8ec7-620ed27a5010_p1" x="3661.5122" y="13927.25"/> <port id="pr_8884c5e1-05e2-4876-8ec7-620ed27a5010_p2" x="3661.5122" y="13897.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e7a62180-0698-4145-a45b-7e8a45a0cfde"> <bbox w="10.0" h="10.0" x="30456.18" y="2245.0"/> <port id="pr_e7a62180-0698-4145-a45b-7e8a45a0cfde_p1" x="30476.18" y="2250.0"/> <port id="pr_e7a62180-0698-4145-a45b-7e8a45a0cfde_p2" x="30446.18" y="2250.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9f5a21b2-db74-46c7-90e7-47ef38a82a5d"> <bbox w="10.0" h="10.0" x="29377.06" y="16594.0"/> <port id="pr_9f5a21b2-db74-46c7-90e7-47ef38a82a5d_p1" x="29397.06" y="16599.0"/> <port id="pr_9f5a21b2-db74-46c7-90e7-47ef38a82a5d_p2" x="29367.06" y="16599.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02dd9aa9-446f-4054-8b2f-1be920542e56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19530.81" y="13824.0"/> <port id="pr_02dd9aa9-446f-4054-8b2f-1be920542e56_p1" x="19535.81" y="13844.0"/> <port id="pr_02dd9aa9-446f-4054-8b2f-1be920542e56_p2" x="19535.81" y="13814.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fedfad23-6260-46b5-9957-f91861affc63"> <bbox w="10.0" h="10.0" x="14105.0" y="1790.0"/> <port id="pr_fedfad23-6260-46b5-9957-f91861affc63_p1" x="14110.0" y="1810.0"/> <port id="pr_fedfad23-6260-46b5-9957-f91861affc63_p2" x="14110.0" y="1780.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_86ede6ef-e257-4754-afd6-ed3281281890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16371461</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_86ede6ef-e257-4754-afd6-ed3281281890"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16371461"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26919.06" y="18771.0"/> <port id="pr_86ede6ef-e257-4754-afd6-ed3281281890_p1" x="26939.06" y="18776.0"/> <port id="pr_86ede6ef-e257-4754-afd6-ed3281281890_p2" x="26909.06" y="18776.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1fb7ae9-e7b4-492a-8728-5ff4065338f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21442356</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f1fb7ae9-e7b4-492a-8728-5ff4065338f2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21442356"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26805.545" y="21292.25"/> <port id="pr_f1fb7ae9-e7b4-492a-8728-5ff4065338f2_p1" x="26810.545" y="21312.25"/> <port id="pr_f1fb7ae9-e7b4-492a-8728-5ff4065338f2_p2" x="26810.545" y="21282.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c2e025df-228c-4a4a-903c-2e115647bd3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24376.686" y="11567.75"/> <port id="pr_c2e025df-228c-4a4a-903c-2e115647bd3a_p1" x="24366.686" y="11572.75"/> <port id="pr_c2e025df-228c-4a4a-903c-2e115647bd3a_p2" x="24396.686" y="11572.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4eb6872a-9f99-43df-b150-c1f8d061c097"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18208354</p> <p>TP53 downregulates the activity of the MCL1 gene promoter in Hela and HEK293</p> <p>mainly through an unkown mechanism. Critical importance of the -41 to +16 region that correspond to TATA-BP and other basal transcription factors binding</p> <p>also through down regulation of Sp1</p> <p>PMID:19808698</p> <p>in MV4-11 cells, a human biphenotypic B myelomonocytic leukemia that displays FLT3-ITD mutation (constitutive FLT3 signalling), STAT5* siRNA prevents MCL1 expression</p> <p>PMID:11160159</p> <p>in large granular lymphocyte high STAT3 activity correlates with MCL1 expression, AG-490 JAK inhibitors induce apoptosis and decreases MCL1 expression.</p> <p>in NIH3T3, upon v-src, STAT3 dependent expression of MCL1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4eb6872a-9f99-43df-b150-c1f8d061c097"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18208354"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19808698"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11160159"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21194.727" y="16185.496"/> <port id="pr_4eb6872a-9f99-43df-b150-c1f8d061c097_p1" x="21199.727" y="16205.496"/> <port id="pr_4eb6872a-9f99-43df-b150-c1f8d061c097_p2" x="21199.727" y="16175.496"/> </glyph> <glyph class="process" orientation="vertical" id="pr_184808e7-67ab-469a-a62e-de146ac7b675"> <bbox w="10.0" h="10.0" x="19029.18" y="13828.094"/> <port id="pr_184808e7-67ab-469a-a62e-de146ac7b675_p1" x="19034.18" y="13818.094"/> <port id="pr_184808e7-67ab-469a-a62e-de146ac7b675_p2" x="19034.18" y="13848.094"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b8d74c14-0efc-4669-914a-1bb3a25551bb"> <bbox w="10.0" h="10.0" x="5235.625" y="10097.5"/> <port id="pr_b8d74c14-0efc-4669-914a-1bb3a25551bb_p1" x="5240.625" y="10117.5"/> <port id="pr_b8d74c14-0efc-4669-914a-1bb3a25551bb_p2" x="5240.625" y="10087.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6b58b2b3-ed99-4e7c-b327-e4683ef291be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23082994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6b58b2b3-ed99-4e7c-b327-e4683ef291be"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23082994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14632.097" y="16985.203"/> <port id="pr_6b58b2b3-ed99-4e7c-b327-e4683ef291be_p1" x="14622.097" y="16990.203"/> <port id="pr_6b58b2b3-ed99-4e7c-b327-e4683ef291be_p2" x="14652.097" y="16990.203"/> </glyph> <glyph class="process" orientation="vertical" id="pr_84c3c69c-f10e-439c-ab4c-2964e234ffe7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:12217801</p> <p>in Jurkat, Fas induces HRK expression and DREAM:HRK-promoter dissociation (EMSA), which is blocked by z-VAD-fmk</p> <p>in vitro, caspase 3 could cleave DREAM</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_84c3c69c-f10e-439c-ab4c-2964e234ffe7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12217801"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22608.06" y="16812.0"/> <port id="pr_84c3c69c-f10e-439c-ab4c-2964e234ffe7_p1" x="22613.06" y="16802.0"/> <port id="pr_84c3c69c-f10e-439c-ab4c-2964e234ffe7_p2" x="22613.06" y="16832.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1e1fb2b7-4d6a-4e4d-85a3-24877bf4676f"> <bbox w="10.0" h="10.0" x="26764.31" y="22174.934"/> <port id="pr_1e1fb2b7-4d6a-4e4d-85a3-24877bf4676f_p1" x="26754.31" y="22179.934"/> <port id="pr_1e1fb2b7-4d6a-4e4d-85a3-24877bf4676f_p2" x="26784.31" y="22179.934"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1cc7c66-a635-4e68-ad97-1a5fb943a155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylation of beta-catenin (CTNNB1) by GSK-3beta (GSK3B) causes its degradation</p> <p>PMID:16039586</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1cc7c66-a635-4e68-ad97-1a5fb943a155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16039586"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7820.81" y="20270.5"/> <port id="pr_d1cc7c66-a635-4e68-ad97-1a5fb943a155_p1" x="7840.81" y="20275.5"/> <port id="pr_d1cc7c66-a635-4e68-ad97-1a5fb943a155_p2" x="7810.81" y="20275.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a996d9c5-96f2-4932-9dd3-58b5a53fccd5"> <bbox w="10.0" h="10.0" x="21295.31" y="14159.128"/> <port id="pr_a996d9c5-96f2-4932-9dd3-58b5a53fccd5_p1" x="21315.31" y="14164.128"/> <port id="pr_a996d9c5-96f2-4932-9dd3-58b5a53fccd5_p2" x="21285.31" y="14164.128"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_26b3a5c9-1e2c-4ea8-8836-970cce6c9f4c"> <bbox w="10.0" h="10.0" x="13484.561" y="21312.0"/> <port id="pr_26b3a5c9-1e2c-4ea8-8836-970cce6c9f4c_p1" x="13504.561" y="21317.0"/> <port id="pr_26b3a5c9-1e2c-4ea8-8836-970cce6c9f4c_p2" x="13474.561" y="21317.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4e515d30-e089-4c48-addd-47c6e128cd4b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19705.81" y="13824.0"/> <port id="pr_4e515d30-e089-4c48-addd-47c6e128cd4b_p1" x="19710.81" y="13844.0"/> <port id="pr_4e515d30-e089-4c48-addd-47c6e128cd4b_p2" x="19710.81" y="13814.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a13952a6-8314-4f78-a588-dc24f7940505"> <bbox w="10.0" h="10.0" x="11429.473" y="10603.856"/> <port id="pr_a13952a6-8314-4f78-a588-dc24f7940505_p1" x="11419.473" y="10608.856"/> <port id="pr_a13952a6-8314-4f78-a588-dc24f7940505_p2" x="11449.473" y="10608.856"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a291a5ad-406a-491c-9996-7f2dd07603f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex.</p> <p>PMID:18039929</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a291a5ad-406a-491c-9996-7f2dd07603f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18039929"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9604.311" y="19898.332"/> <port id="pr_a291a5ad-406a-491c-9996-7f2dd07603f0_p1" x="9624.311" y="19903.332"/> <port id="pr_a291a5ad-406a-491c-9996-7f2dd07603f0_p2" x="9594.311" y="19903.332"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1e8d493e-83b3-4e19-90d4-c2ef591eba32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2890.5" y="16636.5"/> <port id="pr_1e8d493e-83b3-4e19-90d4-c2ef591eba32_p1" x="2910.5" y="16641.5"/> <port id="pr_1e8d493e-83b3-4e19-90d4-c2ef591eba32_p2" x="2880.5" y="16641.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f4b405e9-b9ec-4487-9382-c279108e17b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f4b405e9-b9ec-4487-9382-c279108e17b1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21245165"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27518.56" y="21872.793"/> <port id="pr_f4b405e9-b9ec-4487-9382-c279108e17b1_p1" x="27508.56" y="21877.793"/> <port id="pr_f4b405e9-b9ec-4487-9382-c279108e17b1_p2" x="27538.56" y="21877.793"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9d862e35-5018-45d0-95ea-cc8a40cf4ecc"> <bbox w="10.0" h="10.0" x="21636.549" y="3847.2085"/> <port id="pr_9d862e35-5018-45d0-95ea-cc8a40cf4ecc_p1" x="21641.549" y="3837.2085"/> <port id="pr_9d862e35-5018-45d0-95ea-cc8a40cf4ecc_p2" x="21641.549" y="3867.2085"/> </glyph> <glyph class="process" orientation="vertical" id="pr_650dde77-c04c-40c9-bbc3-39ccafca87f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6802.756" y="16888.855"/> <port id="pr_650dde77-c04c-40c9-bbc3-39ccafca87f0_p1" x="6807.756" y="16908.855"/> <port id="pr_650dde77-c04c-40c9-bbc3-39ccafca87f0_p2" x="6807.756" y="16878.855"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b4bb053-e8d2-49fe-ad9f-4687b7952028"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2475.25" y="18501.0"/> <port id="pr_0b4bb053-e8d2-49fe-ad9f-4687b7952028_p1" x="2465.25" y="18506.0"/> <port id="pr_0b4bb053-e8d2-49fe-ad9f-4687b7952028_p2" x="2495.25" y="18506.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ee67a8e9-635c-40ce-abe6-e7dd92d48e20"> <bbox w="10.0" h="10.0" x="8378.529" y="17937.0"/> <port id="pr_ee67a8e9-635c-40ce-abe6-e7dd92d48e20_p1" x="8383.529" y="17927.0"/> <port id="pr_ee67a8e9-635c-40ce-abe6-e7dd92d48e20_p2" x="8383.529" y="17957.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_68204824-c884-4cef-bdc4-9c55dad86b34"> <bbox w="10.0" h="10.0" x="28466.125" y="3167.0"/> <port id="pr_68204824-c884-4cef-bdc4-9c55dad86b34_p1" x="28456.125" y="3172.0"/> <port id="pr_68204824-c884-4cef-bdc4-9c55dad86b34_p2" x="28486.125" y="3172.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7fab64ef-3026-4a0d-909f-5b427b5ff449"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22345654</p> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7fab64ef-3026-4a0d-909f-5b427b5ff449"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22345654"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20806969"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2748.1895" y="11097.47"/> <port id="pr_7fab64ef-3026-4a0d-909f-5b427b5ff449_p1" x="2753.1895" y="11087.47"/> <port id="pr_7fab64ef-3026-4a0d-909f-5b427b5ff449_p2" x="2753.1895" y="11117.47"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2f62657e-8868-4877-bebd-9c38dc914e78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>testtest</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23136.56" y="13204.0"/> <port id="pr_2f62657e-8868-4877-bebd-9c38dc914e78_p1" x="23126.56" y="13209.0"/> <port id="pr_2f62657e-8868-4877-bebd-9c38dc914e78_p2" x="23156.56" y="13209.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d6aa6b50-6c0a-498a-95df-8e99a4b10723"> <bbox w="10.0" h="10.0" x="6297.0" y="6410.0"/> <port id="pr_d6aa6b50-6c0a-498a-95df-8e99a4b10723_p1" x="6302.0" y="6400.0"/> <port id="pr_d6aa6b50-6c0a-498a-95df-8e99a4b10723_p2" x="6302.0" y="6430.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a967b22-cb69-46d6-ba88-48c26a3f0f4c"> <bbox w="10.0" h="10.0" x="23615.0" y="7897.0"/> <port id="pr_5a967b22-cb69-46d6-ba88-48c26a3f0f4c_p1" x="23620.0" y="7887.0"/> <port id="pr_5a967b22-cb69-46d6-ba88-48c26a3f0f4c_p2" x="23620.0" y="7917.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_850771bd-0532-4fb1-9300-a17bd9381d7e"> <bbox w="10.0" h="10.0" x="14546.256" y="14280.059"/> <port id="pr_850771bd-0532-4fb1-9300-a17bd9381d7e_p1" x="14566.256" y="14285.059"/> <port id="pr_850771bd-0532-4fb1-9300-a17bd9381d7e_p2" x="14536.256" y="14285.059"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_75f90f28-a13a-48e2-b508-cbb10ed71ebd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reviewed in the uniprot entries for PDP1 and PDPR</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19621.941" y="14862.458"/> <port id="pr_75f90f28-a13a-48e2-b508-cbb10ed71ebd_p1" x="19641.941" y="14867.458"/> <port id="pr_75f90f28-a13a-48e2-b508-cbb10ed71ebd_p2" x="19611.941" y="14867.458"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d063894-b193-4796-bea1-dea4b811a4df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1497.6595" y="14016.07"/> <port id="pr_0d063894-b193-4796-bea1-dea4b811a4df_p1" x="1502.6595" y="14006.07"/> <port id="pr_0d063894-b193-4796-bea1-dea4b811a4df_p2" x="1502.6595" y="14036.07"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6da8f2f1-429a-4e32-a62e-9bfb29465010"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15810077</p> <p>Beta-catenin up-regulates the expression of cyclinD1, c-myc and MMP-7 in human pancreatic cancer: relationships with carcinogenesis and metastasis.</p> <p>PMID:19020303</p> <p>When Wnt binds its receptor, Frizzled, beta-catenin is released to translocate from the cytoplasm to the nucleus, where it forms a complex with TCF and/or LEF transcription factors and stimulates cyclin D1 gene transcription</p> <p>(Beta-catenin/TCF)- mediated cyclin D1 gene transcription is further regulated by active Rac signaling, phosphorylation by protein kinase A (PKA)</p> <p>PMID:10318916</p> <p>The cyclin D1 gene is a direct target for transactivation by the beta-catenin/LEF-1 pathway through a LEF-1 binding site in the cyclin D1 promoter.</p> <p>PMID:10201372</p> <p>beta-catenin activates transcription from the cyclin D1 promoter, and that sequences within the promoter that are related to consensus TCF/LEF-binding sites are necessary for activation</p> <p>PMID:14712077</p> <p>PMID:12663502</p> <p>Cyclin D1 over-expression correlates with beta-catenin activation</p> <p>PMID:15377999</p> <p>Rac1-GTP augments nuclear accumulation of b-catenin and physical association of Rac1 with b-catenin and/or TCF-4 may facilitate this process. </p> <p>This culminates in the amplification of b-catenin signaling activity, resulting in enhanced transcriptional activation of perhaps a specific subset of Wnt target genes important in cancer progression.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6da8f2f1-429a-4e32-a62e-9bfb29465010"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15810077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19020303"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10318916"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10201372"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14712077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12663502"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15377999"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3362.4795" y="14845.5"/> <port id="pr_6da8f2f1-429a-4e32-a62e-9bfb29465010_p1" x="3367.4795" y="14865.5"/> <port id="pr_6da8f2f1-429a-4e32-a62e-9bfb29465010_p2" x="3367.4795" y="14835.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3bde5219-72ea-4c74-bef8-9ef6d33a263f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19284.31" y="9775.405"/> <port id="pr_3bde5219-72ea-4c74-bef8-9ef6d33a263f_p1" x="19289.31" y="9765.405"/> <port id="pr_3bde5219-72ea-4c74-bef8-9ef6d33a263f_p2" x="19289.31" y="9795.405"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1df5a20b-d530-4c0c-8a5b-a5a893b151f9"> <bbox w="10.0" h="10.0" x="28671.0" y="2925.0"/> <port id="pr_1df5a20b-d530-4c0c-8a5b-a5a893b151f9_p1" x="28676.0" y="2915.0"/> <port id="pr_1df5a20b-d530-4c0c-8a5b-a5a893b151f9_p2" x="28676.0" y="2945.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6816623a-794d-4c1a-b69b-d3c0df145fe7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6816623a-794d-4c1a-b69b-d3c0df145fe7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12662.061" y="18598.77"/> <port id="pr_6816623a-794d-4c1a-b69b-d3c0df145fe7_p1" x="12652.061" y="18603.77"/> <port id="pr_6816623a-794d-4c1a-b69b-d3c0df145fe7_p2" x="12682.061" y="18603.77"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d9a11d13-7764-48ee-9892-e3333918bec8"> <bbox w="10.0" h="10.0" x="17122.5" y="4712.5"/> <port id="pr_d9a11d13-7764-48ee-9892-e3333918bec8_p1" x="17142.5" y="4717.5"/> <port id="pr_d9a11d13-7764-48ee-9892-e3333918bec8_p2" x="17112.5" y="4717.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e44f0643-999a-412c-889b-fe5bf3eaa629"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>RSK2 is a well known ERK substrate in the cytoplasm and has been shown to undergo autophosphorylation after ERK phosphorylation.</p> <p>RSKs interact with ERK and dissociate upon activation. </p> <p>Results suggested that KSR1 was the scaffold utilised by ERK1/2 for activating cPLA2 but not RSK1.</p> <p>PMID:15239952 PMID:15187187 PMID:19114553</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e44f0643-999a-412c-889b-fe5bf3eaa629"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15239952"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15187187"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19114553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9285.811" y="20193.832"/> <port id="pr_e44f0643-999a-412c-889b-fe5bf3eaa629_p1" x="9290.811" y="20183.832"/> <port id="pr_e44f0643-999a-412c-889b-fe5bf3eaa629_p2" x="9290.811" y="20213.832"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2e1790c5-3b24-4755-9d86-8660800b5073"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16959574</p> <p>in different murine cell lines, inhibited upon Wnt signalling</p> <p>in HEK293</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2e1790c5-3b24-4755-9d86-8660800b5073"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16959574"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26275.81" y="11770.666"/> <port id="pr_2e1790c5-3b24-4755-9d86-8660800b5073_p1" x="26265.81" y="11775.666"/> <port id="pr_2e1790c5-3b24-4755-9d86-8660800b5073_p2" x="26295.81" y="11775.666"/> </glyph> <glyph class="process" orientation="vertical" id="pr_38e3f1b5-b884-4507-a0e9-d578e7f86a60"> <bbox w="10.0" h="10.0" x="20544.318" y="626.25"/> <port id="pr_38e3f1b5-b884-4507-a0e9-d578e7f86a60_p1" x="20549.318" y="616.25"/> <port id="pr_38e3f1b5-b884-4507-a0e9-d578e7f86a60_p2" x="20549.318" y="646.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_40cfc675-e867-4c87-b0b6-93e9de245b05"> <bbox w="10.0" h="10.0" x="29041.0" y="5235.0"/> <port id="pr_40cfc675-e867-4c87-b0b6-93e9de245b05_p1" x="29046.0" y="5225.0"/> <port id="pr_40cfc675-e867-4c87-b0b6-93e9de245b05_p2" x="29046.0" y="5255.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_11ee4756-5893-4547-8c0d-b5b1e6cc13ff"> <bbox w="10.0" h="10.0" x="6155.0" y="3538.75"/> <port id="pr_11ee4756-5893-4547-8c0d-b5b1e6cc13ff_p1" x="6160.0" y="3528.75"/> <port id="pr_11ee4756-5893-4547-8c0d-b5b1e6cc13ff_p2" x="6160.0" y="3558.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_05960421-9d88-478b-97b4-30b16d4ddcc8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17588722</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_05960421-9d88-478b-97b4-30b16d4ddcc8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17588722"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17986.164" y="21136.5"/> <port id="pr_05960421-9d88-478b-97b4-30b16d4ddcc8_p1" x="17991.164" y="21126.5"/> <port id="pr_05960421-9d88-478b-97b4-30b16d4ddcc8_p2" x="17991.164" y="21156.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dd348c9f-cafd-4d63-84b1-64ff0a69e711"> <bbox w="10.0" h="10.0" x="22005.0" y="6155.0"/> <port id="pr_dd348c9f-cafd-4d63-84b1-64ff0a69e711_p1" x="22010.0" y="6145.0"/> <port id="pr_dd348c9f-cafd-4d63-84b1-64ff0a69e711_p2" x="22010.0" y="6175.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_859d7911-2739-4b3b-89a6-95418872d59b"> <bbox w="10.0" h="10.0" x="24013.594" y="4551.0825"/> <port id="pr_859d7911-2739-4b3b-89a6-95418872d59b_p1" x="24003.594" y="4556.0825"/> <port id="pr_859d7911-2739-4b3b-89a6-95418872d59b_p2" x="24033.594" y="4556.0825"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f47ea3d4-f0df-4520-abd1-bdb5d9951d05"> <bbox w="10.0" h="10.0" x="27397.691" y="6688.75"/> <port id="pr_f47ea3d4-f0df-4520-abd1-bdb5d9951d05_p1" x="27402.691" y="6678.75"/> <port id="pr_f47ea3d4-f0df-4520-abd1-bdb5d9951d05_p2" x="27402.691" y="6708.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_77b4ae79-8d70-46d8-be9e-89bb1450ec2c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1953.0" y="17585.162"/> <port id="pr_77b4ae79-8d70-46d8-be9e-89bb1450ec2c_p1" x="1973.0" y="17590.162"/> <port id="pr_77b4ae79-8d70-46d8-be9e-89bb1450ec2c_p2" x="1943.0" y="17590.162"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7f11f807-7734-4b0e-b2e7-6e20b6cd6e3c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3977.4304" y="15040.0"/> <port id="pr_7f11f807-7734-4b0e-b2e7-6e20b6cd6e3c_p1" x="3982.4304" y="15060.0"/> <port id="pr_7f11f807-7734-4b0e-b2e7-6e20b6cd6e3c_p2" x="3982.4304" y="15030.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0e6b7214-7e8f-4ea0-ae69-631d6831f5d2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20223821</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0e6b7214-7e8f-4ea0-ae69-631d6831f5d2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20223821"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15192.248" y="18016.023"/> <port id="pr_0e6b7214-7e8f-4ea0-ae69-631d6831f5d2_p1" x="15212.248" y="18021.023"/> <port id="pr_0e6b7214-7e8f-4ea0-ae69-631d6831f5d2_p2" x="15182.248" y="18021.023"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_18b459a9-ca40-4462-ace2-4a26a7111fd3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16556862</p> <p>ROS regulate MMP gene expression and activation of proenzymes. MMP-1, MMP-2, MMP-7, and MMP-9 are activated by ROS through interactions with thiol groups</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18b459a9-ca40-4462-ace2-4a26a7111fd3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16556862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2942.5" y="17295.125"/> <port id="pr_18b459a9-ca40-4462-ace2-4a26a7111fd3_p1" x="2962.5" y="17300.125"/> <port id="pr_18b459a9-ca40-4462-ace2-4a26a7111fd3_p2" x="2932.5" y="17300.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_424d25ff-d71f-4208-8012-f08b4a6adf00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16402909</p> <p>PMID:12657629</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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orientation="horizontal" id="pr_ac394335-692e-43c2-9f8d-b9970745d4cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27036022</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ac394335-692e-43c2-9f8d-b9970745d4cb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27036022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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orientation="vertical" id="pr_7a8034cc-7482-4327-b88d-061b01d5925a"> <bbox w="10.0" h="10.0" x="17710.0" y="2975.0"/> <port id="pr_7a8034cc-7482-4327-b88d-061b01d5925a_p1" x="17715.0" y="2965.0"/> <port id="pr_7a8034cc-7482-4327-b88d-061b01d5925a_p2" x="17715.0" y="2995.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_06efa9e2-ab7c-4a33-83fe-e9414692bce2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>GJB5 is so-called Connexin 31.1</p> <p>PMID:21777377</p> <p>Expression of Cx31.1 reduced mesenchymal marker vimentin level and increased epithelial marker cytokeratin 18 level, indicating that Cx31.1 may regulate molecular pathways leading to a reverse of the EMT process.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16491118</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_860cb179-00e7-40df-b522-f9f57769a04d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16491118"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20911.56" y="22692.0"/> <port 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x="29595.445" y="7228.958"/> <port id="pr_d50aa029-e41a-42cc-9a17-2ce7d0a532f2_p2" x="29595.445" y="7258.958"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_f132844f-ff5a-40fe-894f-248712480ab0"> <bbox w="20.0" h="20.0" x="29326.0" y="3875.0"/> <port id="logicglyph_f132844f-ff5a-40fe-894f-248712480ab0_p1" x="29336.0" y="3865.0"/> <port id="logicglyph_f132844f-ff5a-40fe-894f-248712480ab0_p2" x="29336.0" y="3905.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d394a85b-60e0-44d7-95ac-a04699e1307d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11980723</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d394a85b-60e0-44d7-95ac-a04699e1307d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11980723"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12329.311" y="21558.5"/> <port id="pr_d394a85b-60e0-44d7-95ac-a04699e1307d_p1" x="12334.311" y="21548.5"/> <port id="pr_d394a85b-60e0-44d7-95ac-a04699e1307d_p2" x="12334.311" y="21578.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c90a98bd-f7d0-44bd-b85a-ddec1000db42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9819415</p> <p>Nuclear exports is required for degradation of p53 by MDM2</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c90a98bd-f7d0-44bd-b85a-ddec1000db42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9819415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4465.053" y="14000.053"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>We postulate a model in which ERK activation inhibits GSK3 activity (by phosphorylation) its association to CYPD and CYPD phosphorylation (by GSK3) leading to PTP desensitisation.</p> <p>PMID:20080742</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2c30457b-7155-4e06-a1be-2a7a96fbfddb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20080742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8781.061" y="19577.0"/> <port id="pr_2c30457b-7155-4e06-a1be-2a7a96fbfddb_p1" x="8786.061" y="19597.0"/> <port id="pr_2c30457b-7155-4e06-a1be-2a7a96fbfddb_p2" x="8786.061" y="19567.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_91a54e65-4747-4d8c-933c-878147941902"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19498109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_91a54e65-4747-4d8c-933c-878147941902"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19498109"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19022.56" y="12354.0"/> <port id="pr_91a54e65-4747-4d8c-933c-878147941902_p1" x="19027.56" y="12344.0"/> <port id="pr_91a54e65-4747-4d8c-933c-878147941902_p2" x="19027.56" y="12374.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6082b79f-e52e-463a-8d65-935568f7f962"> <bbox w="10.0" h="10.0" x="12923.811" y="18291.5"/> <port id="pr_6082b79f-e52e-463a-8d65-935568f7f962_p1" x="12928.811" y="18281.5"/> <port id="pr_6082b79f-e52e-463a-8d65-935568f7f962_p2" x="12928.811" y="18311.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_19aa4bbe-1af8-46df-ad9d-b1212408a3ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18046414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_19aa4bbe-1af8-46df-ad9d-b1212408a3ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18046414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20317.773" y="16166.125"/> <port id="pr_19aa4bbe-1af8-46df-ad9d-b1212408a3ae_p1" x="20322.773" y="16186.125"/> <port id="pr_19aa4bbe-1af8-46df-ad9d-b1212408a3ae_p2" x="20322.773" y="16156.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ef17b9cd-7a07-4723-9c10-1e8a840915ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19321440</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ef17b9cd-7a07-4723-9c10-1e8a840915ac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19321440"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11930.311" y="20359.5"/> <port id="pr_ef17b9cd-7a07-4723-9c10-1e8a840915ac_p1" x="11935.311" y="20379.5"/> <port id="pr_ef17b9cd-7a07-4723-9c10-1e8a840915ac_p2" x="11935.311" y="20349.5"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_d2bc863c-2d79-4bdf-861a-d52e200f26fb"> <bbox w="20.0" h="20.0" x="12018.061" y="20172.75"/> <port id="logicglyph_d2bc863c-2d79-4bdf-861a-d52e200f26fb_p1" x="12028.061" y="20162.75"/> <port id="logicglyph_d2bc863c-2d79-4bdf-861a-d52e200f26fb_p2" x="12028.061" y="20202.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e87e1889-c0d2-4cb8-a79b-e80a71fd0c0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11980723</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e87e1889-c0d2-4cb8-a79b-e80a71fd0c0d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11980723"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12329.311" y="21676.5"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_519ed5e7-bbe7-4b29-95ce-6b6f3091dcb9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10992.527" y="19508.67"/> <port id="pr_519ed5e7-bbe7-4b29-95ce-6b6f3091dcb9_p1" x="10997.527" y="19498.67"/> <port id="pr_519ed5e7-bbe7-4b29-95ce-6b6f3091dcb9_p2" x="10997.527" y="19528.67"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c90cf619-cc4d-4be4-8a80-a13ed8530bab"> <bbox w="10.0" h="10.0" x="28741.56" y="11892.0"/> <port id="pr_c90cf619-cc4d-4be4-8a80-a13ed8530bab_p1" x="28761.56" y="11897.0"/> <port id="pr_c90cf619-cc4d-4be4-8a80-a13ed8530bab_p2" x="28731.56" y="11897.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_07a35d2b-a6dc-436a-a420-34f55ac21986"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6119.0" y="13758.0"/> <port id="pr_07a35d2b-a6dc-436a-a420-34f55ac21986_p1" x="6124.0" y="13748.0"/> <port id="pr_07a35d2b-a6dc-436a-a420-34f55ac21986_p2" x="6124.0" y="13778.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f06ed7a4-4986-4272-9052-2b9128baba8a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10950869</p> <p>direct activation of BAK by tBID</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f06ed7a4-4986-4272-9052-2b9128baba8a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10950869"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22755.883" y="14703.125"/> <port id="pr_f06ed7a4-4986-4272-9052-2b9128baba8a_p1" x="22775.883" y="14708.125"/> <port id="pr_f06ed7a4-4986-4272-9052-2b9128baba8a_p2" x="22745.883" y="14708.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b84134e8-9f16-4993-81ae-1728b31a2391"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17996703</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b84134e8-9f16-4993-81ae-1728b31a2391"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17996703"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7399.7695" y="15682.0"/> <port id="pr_b84134e8-9f16-4993-81ae-1728b31a2391_p1" x="7404.7695" y="15702.0"/> <port id="pr_b84134e8-9f16-4993-81ae-1728b31a2391_p2" x="7404.7695" y="15672.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e9dafd7d-d2c7-4fba-bf74-fd69b6963a19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9294162</p> <p>PMID:9733516</p> <p>in HT1080, upon TNF, blocked by the expression of the IkBalpha super-repressor form</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9dafd7d-d2c7-4fba-bf74-fd69b6963a19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9294162"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9733516"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_e891c505-52b9-43a3-bb2e-5060296136c8"> <bbox w="10.0" h="10.0" x="4635.0605" y="7176.4375"/> <port id="pr_e891c505-52b9-43a3-bb2e-5060296136c8_p1" x="4640.0605" y="7196.4375"/> <port id="pr_e891c505-52b9-43a3-bb2e-5060296136c8_p2" x="4640.0605" y="7166.4375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_06269ec8-713c-499a-a27c-daabf07744a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19864431</p> <p>PMID:12150925</p> <p>PMID:15755954</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_06269ec8-713c-499a-a27c-daabf07744a8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19864431"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12150925"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15755954"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14077.48" y="19179.25"/> <port id="pr_06269ec8-713c-499a-a27c-daabf07744a8_p1" x="14067.48" y="19184.25"/> <port id="pr_06269ec8-713c-499a-a27c-daabf07744a8_p2" x="14097.48" y="19184.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_0b6ac5e3-a31a-4d44-803e-5cb314ae8b0b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12953.02" y="15324.988"/> <port id="pr_0b6ac5e3-a31a-4d44-803e-5cb314ae8b0b_p1" x="12943.02" y="15329.988"/> <port id="pr_0b6ac5e3-a31a-4d44-803e-5cb314ae8b0b_p2" x="12973.02" y="15329.988"/> </glyph> <glyph class="process" orientation="vertical" id="pr_36430d84-2703-43a4-9b6b-2ac87046f7e1"> <bbox w="10.0" h="10.0" x="13910.5" y="960.0"/> <port id="pr_36430d84-2703-43a4-9b6b-2ac87046f7e1_p1" x="13915.5" y="950.0"/> <port id="pr_36430d84-2703-43a4-9b6b-2ac87046f7e1_p2" x="13915.5" y="980.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa2212a6-9f1c-481d-9871-0127a3c81588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4910.952" y="17787.5"/> <port id="pr_aa2212a6-9f1c-481d-9871-0127a3c81588_p1" x="4915.952" y="17777.5"/> <port id="pr_aa2212a6-9f1c-481d-9871-0127a3c81588_p2" x="4915.952" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_28cfb1d9-b672-4199-8536-e44fd5648783"> <bbox w="10.0" h="10.0" x="11115.984" y="9606.504"/> <port id="pr_28cfb1d9-b672-4199-8536-e44fd5648783_p1" x="11105.984" y="9611.504"/> <port id="pr_28cfb1d9-b672-4199-8536-e44fd5648783_p2" x="11135.984" y="9611.504"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0986350b-c0f9-48eb-9cbf-1f745e129bd5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0986350b-c0f9-48eb-9cbf-1f745e129bd5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22921416"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10067.338" y="16944.0"/> <port id="pr_0986350b-c0f9-48eb-9cbf-1f745e129bd5_p1" x="10057.338" y="16949.0"/> <port id="pr_0986350b-c0f9-48eb-9cbf-1f745e129bd5_p2" x="10087.338" y="16949.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_801340c0-c8eb-48a9-8736-088ea3d7021f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19218564</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_801340c0-c8eb-48a9-8736-088ea3d7021f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19218564"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15745.561" y="21043.0"/> <port id="pr_801340c0-c8eb-48a9-8736-088ea3d7021f_p1" x="15735.561" y="21048.0"/> <port id="pr_801340c0-c8eb-48a9-8736-088ea3d7021f_p2" x="15765.561" y="21048.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_990ff29c-e3a2-4e47-a911-ac287046660f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:7493931</p> <p>in HepG2 by HIF1 (EMSA, reporter plasmids)</p> <p>PMID:9525945</p> <p>in chinese hamster ovary cells by HIF1</p> <p>PMID:15059920</p> <p>in Saos2, in human embryonal rhabdomyosarcoma derived RD (ATCC no. CCL-136), in murine skeletal muscle-derived C2C12 myoblasts (ATCC no. CRL-1772), by TP53 (luciferase reporter)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_990ff29c-e3a2-4e47-a911-ac287046660f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7493931"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9525945"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15059920"/> </rdf:Bag> </bqbiol:isEncodedBy> 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4207.868" y="12707.5"/> <port id="pr_afe5f6f3-d63d-4a1f-b896-51ff4100d98b_p1" x="4212.868" y="12727.5"/> <port id="pr_afe5f6f3-d63d-4a1f-b896-51ff4100d98b_p2" x="4212.868" y="12697.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_51194462-2d03-4b61-9c03-b3c8bae13070"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> <p>logical:rc_re1266_rc_s4082_rc_re1267=FALSE</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25676.3" y="11702.2"/> <port id="pr_51194462-2d03-4b61-9c03-b3c8bae13070_p1" x="25681.3" y="11692.2"/> <port id="pr_51194462-2d03-4b61-9c03-b3c8bae13070_p2" x="25681.3" y="11722.2"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fa2f0d47-b624-4ae7-a807-32130a0ce70f"> <bbox w="10.0" h="10.0" x="19716.982" y="15931.186"/> <port id="pr_fa2f0d47-b624-4ae7-a807-32130a0ce70f_p1" x="19721.982" y="15951.186"/> <port id="pr_fa2f0d47-b624-4ae7-a807-32130a0ce70f_p2" x="19721.982" y="15921.186"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b77a1af0-7945-4a09-81a3-fc76067fc3fe"> <bbox w="10.0" h="10.0" x="2936.7378" y="2872.5"/> <port id="pr_b77a1af0-7945-4a09-81a3-fc76067fc3fe_p1" x="2941.7378" y="2862.5"/> <port id="pr_b77a1af0-7945-4a09-81a3-fc76067fc3fe_p2" x="2941.7378" y="2892.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_314e5402-00ef-41dc-a087-cb5ce0f45fb8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:12809600</p> <p>PMID:22710166</p> <p>The active ligand–receptor complex is a heterotetrameric complex</p> <p>This complex consists of an active dimer of TGFB and homodimers of both TGFBRI and TGFBR2. </p> <p>Within the active receptor complex, TGFBR2 autophosphorylates itself and catalyzes transphosphorylation of the TGFBR1.</p> <p>Transphosphorylation of the TGFBRI activates its kinase activity.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_314e5402-00ef-41dc-a087-cb5ce0f45fb8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12809600"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22710166"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6740.484" y="16515.125"/> <port id="pr_314e5402-00ef-41dc-a087-cb5ce0f45fb8_p1" x="6745.484" y="16535.125"/> <port id="pr_314e5402-00ef-41dc-a087-cb5ce0f45fb8_p2" x="6745.484" y="16505.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_28ff3290-f54e-4a31-873e-f2b3cca2b67e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4243.586" y="17787.5"/> <port id="pr_28ff3290-f54e-4a31-873e-f2b3cca2b67e_p1" x="4248.586" y="17777.5"/> <port id="pr_28ff3290-f54e-4a31-873e-f2b3cca2b67e_p2" x="4248.586" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ea8b8e4-ba7c-498c-9e69-28f4cde824ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0ea8b8e4-ba7c-498c-9e69-28f4cde824ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6493.5" y="11367.75"/> <port id="pr_0ea8b8e4-ba7c-498c-9e69-28f4cde824ce_p1" x="6513.5" y="11372.75"/> <port id="pr_0ea8b8e4-ba7c-498c-9e69-28f4cde824ce_p2" x="6483.5" y="11372.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_70c1dc6d-3f37-408b-972d-6045c135aaef"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24403.93" y="14121.0"/> <port id="pr_70c1dc6d-3f37-408b-972d-6045c135aaef_p1" x="24408.93" y="14141.0"/> <port id="pr_70c1dc6d-3f37-408b-972d-6045c135aaef_p2" x="24408.93" y="14111.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2d038bb3-2db3-454c-9c2a-d15a69b8dc3d"> <bbox w="10.0" h="10.0" x="21619.297" y="15262.857"/> <port id="pr_2d038bb3-2db3-454c-9c2a-d15a69b8dc3d_p1" x="21609.297" y="15267.857"/> <port id="pr_2d038bb3-2db3-454c-9c2a-d15a69b8dc3d_p2" x="21639.297" y="15267.857"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e24307af-e89e-4a57-b9f7-a2796ae9e34b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20731704</p> <p>PMID:21317430</p> <p>In NMuMG cells treated with TGFB1 Snail1 RNA and protein are induced 1 h after addition of the cytokine preceding Zeb1 up-regulation that requires 6–8 h. </p> <p>Zeb1 gene expression is caused by increased RNA levels but also by enhanced protein stability and is markedly dependent on Snail1 because depletion of this protein prevents Zeb1 protein and RNA up-regulation</p> <p>PMID:22406545</p> <p>TGFB can activate both SNAI1 and SNAI2 and thus promote EMT via both SMAD-dependent and -independent pathways</p> <p>PMID:14623871</p> <p>Activation of Slug (SNAI2) by two mechanisms: </p> <p>-transcriptional activation of Slug by the CTNNB1and TCF/LEF complex</p> <p>-activation of the ERK pathway. </p> <p>When adherens junctions are established in dense cultures, ErbB1/2 and the ERK pathway become inactive, CTNNB1 is localized at adherens junctions, Slug expression is reduced, and E-cadherin transcription is induced. </p> <p>Antibody-mediated disruption of adherens junctions led to nuclear CTNNB1 localization and enhanced beta-catenin signaling, induction of Slug and inhibition of E-cadherin expression.</p> <p>PMID:17093497</p> <p>PMID:12490555</p> <p>Snail1 induces Snail2 transcription.</p> <p>Snail is able to induce the expression of Slug and all other neural crest markers (Zic5, FoxD3, Twist and Ets1)</p> <p>PMID:16510505</p> <p>Snail2 activates the Snail2 promoter</p> <p>PMID:21199805</p> <p>Twist1 binds to an E-box on the proximate Snail2 promoter to induce its transcription.</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>PMID:17550342</p> <p>Activation of KIT by binding to KITLG induces SNAI2 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e24307af-e89e-4a57-b9f7-a2796ae9e34b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20731704"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21317430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22406545"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14623871"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17093497"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12490555"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16510505"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21199805"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16831886"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18832382"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17550342"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3770.369" y="16499.0"/> <port id="pr_e24307af-e89e-4a57-b9f7-a2796ae9e34b_p1" x="3760.369" y="16504.0"/> <port id="pr_e24307af-e89e-4a57-b9f7-a2796ae9e34b_p2" x="3790.369" y="16504.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a2391966-e1e9-4c5f-96e7-033e51c93a98"> <bbox w="10.0" h="10.0" x="6872.5537" y="6965.5"/> <port id="pr_a2391966-e1e9-4c5f-96e7-033e51c93a98_p1" x="6877.5537" y="6955.5"/> <port id="pr_a2391966-e1e9-4c5f-96e7-033e51c93a98_p2" x="6877.5537" y="6985.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6bcb15e-fd21-4224-82e2-c57d676aae7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17409411</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a6bcb15e-fd21-4224-82e2-c57d676aae7e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409411"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20682.578" y="16186.875"/> <port id="pr_a6bcb15e-fd21-4224-82e2-c57d676aae7e_p1" x="20687.578" y="16206.875"/> <port id="pr_a6bcb15e-fd21-4224-82e2-c57d676aae7e_p2" x="20687.578" y="16176.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5a41ec8c-153f-40b1-b3c1-fa360c2c44be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19557001</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5a41ec8c-153f-40b1-b3c1-fa360c2c44be"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19557001"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25979.06" y="12308.0"/> <port id="pr_5a41ec8c-153f-40b1-b3c1-fa360c2c44be_p1" x="25999.06" y="12313.0"/> <port id="pr_5a41ec8c-153f-40b1-b3c1-fa360c2c44be_p2" x="25969.06" y="12313.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_342cae98-9652-44c5-9391-ad280d91206a"> <bbox w="10.0" h="10.0" x="19754.186" y="11617.625"/> <port id="pr_342cae98-9652-44c5-9391-ad280d91206a_p1" x="19759.186" y="11607.625"/> <port id="pr_342cae98-9652-44c5-9391-ad280d91206a_p2" x="19759.186" y="11637.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3163af53-6123-4b2b-8c4d-8c594926519a"> <bbox w="10.0" h="10.0" x="17386.27" y="15496.0"/> <port id="pr_3163af53-6123-4b2b-8c4d-8c594926519a_p1" x="17391.27" y="15486.0"/> <port id="pr_3163af53-6123-4b2b-8c4d-8c594926519a_p2" x="17391.27" y="15516.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5e3c2541-b5ec-4931-9e63-fd27126fe929"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5310.25" y="15740.227"/> <port id="pr_5e3c2541-b5ec-4931-9e63-fd27126fe929_p1" x="5300.25" y="15745.227"/> <port 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<p>PMID:15509864</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a25cf31f-a2d6-424e-92cc-ffc119897096"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15509864"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25609.06" y="11403.5"/> <port id="pr_a25cf31f-a2d6-424e-92cc-ffc119897096_p1" x="25599.06" y="11408.5"/> <port id="pr_a25cf31f-a2d6-424e-92cc-ffc119897096_p2" x="25629.06" y="11408.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6c872fc6-7bc2-4eaf-ab78-5afcd9d714ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18403754</p> <p>PMID:16607286</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6c872fc6-7bc2-4eaf-ab78-5afcd9d714ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18403754"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16607286"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2893.5" y="17025.725"/> <port id="pr_6c872fc6-7bc2-4eaf-ab78-5afcd9d714ce_p1" x="2913.5" y="17030.725"/> <port id="pr_6c872fc6-7bc2-4eaf-ab78-5afcd9d714ce_p2" x="2883.5" y="17030.725"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fdeeaf4c-1900-448f-be64-2155a974752b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Several MAP3Ks upstream of JNK bind RAC1 in a GTP-dependent manner (involving Grb2).</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fdeeaf4c-1900-448f-be64-2155a974752b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8549.807" y="18984.637"/> <port id="pr_fdeeaf4c-1900-448f-be64-2155a974752b_p1" x="8539.807" y="18989.637"/> <port id="pr_fdeeaf4c-1900-448f-be64-2155a974752b_p2" x="8569.807" y="18989.637"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c4b50b9-54b1-420d-9c59-76321ba474bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22816.766" y="11268.0"/> <port id="pr_9c4b50b9-54b1-420d-9c59-76321ba474bc_p1" x="22806.766" y="11273.0"/> <port id="pr_9c4b50b9-54b1-420d-9c59-76321ba474bc_p2" x="22836.766" y="11273.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1425ab46-c1db-42a5-ab21-62be6b88ed3d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21518799</p> <p>PMID:22753312</p> <p>PMID:21209780</p> <p>PMID:18376396</p> <p>ZEB1 and ZEB2 contain one and two sites, respectively that are targeted by miRNA-205</p> <p>PMID:19244118</p> <p>miR-205 targets N-chimaerin, ErbB3, E2F1, E2F5, ZEB2, and protein kinase C-epsilon.</p> 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<bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18376396"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19244118"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3358.5" y="17943.582"/> <port id="pr_1425ab46-c1db-42a5-ab21-62be6b88ed3d_p1" x="3363.5" y="17933.582"/> <port id="pr_1425ab46-c1db-42a5-ab21-62be6b88ed3d_p2" x="3363.5" y="17963.582"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd8a75d8-0fa2-453c-944e-cede5260dce4"> <bbox w="10.0" h="10.0" x="4748.0" y="8226.0"/> <port id="pr_bd8a75d8-0fa2-453c-944e-cede5260dce4_p1" x="4768.0" y="8231.0"/> <port id="pr_bd8a75d8-0fa2-453c-944e-cede5260dce4_p2" x="4738.0" y="8231.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_37fef0df-7210-4d72-a444-dc81da185ba0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_37fef0df-7210-4d72-a444-dc81da185ba0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4445.75" y="11294.25"/> <port id="pr_37fef0df-7210-4d72-a444-dc81da185ba0_p1" x="4450.75" y="11284.25"/> <port id="pr_37fef0df-7210-4d72-a444-dc81da185ba0_p2" x="4450.75" y="11314.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f0dc5651-b1fe-4e26-94cc-3c626406302b"> <bbox w="10.0" h="10.0" x="11258.459" y="7386.25"/> <port id="pr_f0dc5651-b1fe-4e26-94cc-3c626406302b_p1" x="11263.459" y="7376.25"/> <port id="pr_f0dc5651-b1fe-4e26-94cc-3c626406302b_p2" x="11263.459" y="7406.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_29e94d8c-3acd-4479-aff5-2d9e6d472c11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16885213</p> <p>PMID:18815277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_29e94d8c-3acd-4479-aff5-2d9e6d472c11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26817.436" y="22537.586"/> <port id="pr_29e94d8c-3acd-4479-aff5-2d9e6d472c11_p1" x="26837.436" y="22542.586"/> <port id="pr_29e94d8c-3acd-4479-aff5-2d9e6d472c11_p2" x="26807.436" y="22542.586"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_652d0423-102d-447f-87e3-a72a7f365044"> <bbox w="10.0" h="10.0" x="2719.375" y="2860.625"/> <port id="pr_652d0423-102d-447f-87e3-a72a7f365044_p1" x="2709.375" y="2865.625"/> <port id="pr_652d0423-102d-447f-87e3-a72a7f365044_p2" x="2739.375" y="2865.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2cd64d39-007b-4d46-a7f9-43c3c19292a0"> <bbox w="10.0" h="10.0" x="11054.047" y="10082.6045"/> <port id="pr_2cd64d39-007b-4d46-a7f9-43c3c19292a0_p1" x="11044.047" y="10087.6045"/> <port id="pr_2cd64d39-007b-4d46-a7f9-43c3c19292a0_p2" x="11074.047" y="10087.6045"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_036d6609-8c96-4d27-ada3-9070fbb997bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:17910481</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_036d6609-8c96-4d27-ada3-9070fbb997bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17910481"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20307.477" y="19871.0"/> <port id="pr_036d6609-8c96-4d27-ada3-9070fbb997bc_p1" x="20297.477" y="19876.0"/> <port id="pr_036d6609-8c96-4d27-ada3-9070fbb997bc_p2" x="20327.477" y="19876.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5dde96e6-0376-446d-99c4-58d69bffaced"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P53 target genes: P21WAF1 MDM2 PERP NOXA GADD45 DDB2.</p> <p>PMID:15856024</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5dde96e6-0376-446d-99c4-58d69bffaced"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15856024"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10807.546" y="20700.133"/> <port id="pr_5dde96e6-0376-446d-99c4-58d69bffaced_p1" x="10812.546" y="20690.133"/> <port id="pr_5dde96e6-0376-446d-99c4-58d69bffaced_p2" x="10812.546" y="20720.133"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b150c2c4-3f2b-4919-afab-c267e1b88f11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5600.25" y="13449.75"/> <port id="pr_b150c2c4-3f2b-4919-afab-c267e1b88f11_p1" x="5605.25" y="13469.75"/> <port id="pr_b150c2c4-3f2b-4919-afab-c267e1b88f11_p2" x="5605.25" y="13439.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc2abd77-f7e5-4f16-a19e-0e40b1d50c4d"> <bbox w="10.0" h="10.0" x="27239.06" y="16749.0"/> <port id="pr_dc2abd77-f7e5-4f16-a19e-0e40b1d50c4d_p1" x="27259.06" y="16754.0"/> <port id="pr_dc2abd77-f7e5-4f16-a19e-0e40b1d50c4d_p2" x="27229.06" y="16754.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa4163a4-d5a1-429b-9ee5-a43f4d301380"> <bbox w="10.0" h="10.0" x="19344.186" y="11618.125"/> <port id="pr_aa4163a4-d5a1-429b-9ee5-a43f4d301380_p1" x="19349.186" y="11608.125"/> <port id="pr_aa4163a4-d5a1-429b-9ee5-a43f4d301380_p2" x="19349.186" y="11638.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fc0316bb-5d0c-4675-a1ee-c8d366a7872b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19356.31" y="9902.595"/> <port id="pr_fc0316bb-5d0c-4675-a1ee-c8d366a7872b_p1" x="19376.31" y="9907.595"/> <port id="pr_fc0316bb-5d0c-4675-a1ee-c8d366a7872b_p2" x="19346.31" y="9907.595"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_219f8007-6f0d-4492-aedf-d16f2625ece6"> <bbox w="10.0" h="10.0" x="985.665" y="4060.5"/> <port id="pr_219f8007-6f0d-4492-aedf-d16f2625ece6_p1" x="1005.665" y="4065.5"/> <port id="pr_219f8007-6f0d-4492-aedf-d16f2625ece6_p2" x="975.665" y="4065.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da592b7a-3ad7-4298-93e4-461c34e26716"> <bbox w="10.0" h="10.0" x="29061.0" y="5515.0"/> <port id="pr_da592b7a-3ad7-4298-93e4-461c34e26716_p1" x="29066.0" y="5535.0"/> <port id="pr_da592b7a-3ad7-4298-93e4-461c34e26716_p2" x="29066.0" y="5505.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4fd1d46a-e71e-4004-bb12-f3aeca61de2e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15944709</p> <p>MIR20A and MIR17 repress E2F1. MYC, through MIR17 and MIR20A, inactivates E2F1 at the post-transcriptional level.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4fd1d46a-e71e-4004-bb12-f3aeca61de2e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15944709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23361.066" y="15559.621"/> <port id="pr_4fd1d46a-e71e-4004-bb12-f3aeca61de2e_p1" x="23351.066" y="15564.621"/> <port id="pr_4fd1d46a-e71e-4004-bb12-f3aeca61de2e_p2" x="23381.066" y="15564.621"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_fdd418aa-9821-494c-ba05-c652ffa16490"> <bbox w="20.0" h="20.0" x="20696.488" y="15770.556"/> <port id="logicglyph_fdd418aa-9821-494c-ba05-c652ffa16490_p1" x="20686.488" y="15780.556"/> <port id="logicglyph_fdd418aa-9821-494c-ba05-c652ffa16490_p2" x="20726.488" y="15780.556"/> </glyph> <glyph class="process" orientation="vertical" id="pr_33346607-c0eb-491e-b571-63c948af1f8d"> <bbox w="10.0" h="10.0" x="22179.348" y="22648.0"/> <port id="pr_33346607-c0eb-491e-b571-63c948af1f8d_p1" x="22184.348" y="22638.0"/> <port id="pr_33346607-c0eb-491e-b571-63c948af1f8d_p2" x="22184.348" y="22668.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e2abc55d-979f-419a-98f7-ee31d2edfc00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18555778</p> <p>In response to oncogenic stress, both IL6 and IL8 genes were activatedbythe transcription factorC/EBPb,upon its recruitment to either promoter.</p> <p>PMID:18555777</p> <p>There is a positive feedback loop between IL6 and CEBP that help maintain the senescence state</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e2abc55d-979f-419a-98f7-ee31d2edfc00"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18555777"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4139.5" y="17485.453"/> <port id="pr_e2abc55d-979f-419a-98f7-ee31d2edfc00_p1" x="4129.5" y="17490.453"/> <port id="pr_e2abc55d-979f-419a-98f7-ee31d2edfc00_p2" x="4159.5" y="17490.453"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b6e84726-cd27-49dc-a143-e63268ea73f8"> <bbox w="10.0" h="10.0" x="24073.031" y="4522.0864"/> <port id="pr_b6e84726-cd27-49dc-a143-e63268ea73f8_p1" x="24093.031" y="4527.0864"/> <port id="pr_b6e84726-cd27-49dc-a143-e63268ea73f8_p2" x="24063.031" y="4527.0864"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_62227cb3-5575-4216-a4bf-64830a521eda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11972333</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_62227cb3-5575-4216-a4bf-64830a521eda"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11972333"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9701.854" y="15823.439"/> <port 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x="24070.031" y="4281.5557"/> <port id="pr_6aa6a5e6-7bca-4e22-b297-04d7d8ca8195_p2" x="24040.031" y="4281.5557"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a53d7813-f717-44e6-9bd5-a4370a4329d9"> <bbox w="10.0" h="10.0" x="18091.93" y="1400.0"/> <port id="pr_a53d7813-f717-44e6-9bd5-a4370a4329d9_p1" x="18096.93" y="1390.0"/> <port id="pr_a53d7813-f717-44e6-9bd5-a4370a4329d9_p2" x="18096.93" y="1420.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1874138c-25d0-43bd-82a0-adc7ec767131"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PKCalpha directly phosphorylates and activates Raf-1.</p> <p>PMID:8321321</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1874138c-25d0-43bd-82a0-adc7ec767131"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8321321"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8572.07" y="19689.617"/> <port id="pr_1874138c-25d0-43bd-82a0-adc7ec767131_p1" x="8562.07" y="19694.617"/> <port id="pr_1874138c-25d0-43bd-82a0-adc7ec767131_p2" x="8592.07" y="19694.617"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a150aafa-d68b-4e22-9abd-c9d18777730a"> <bbox w="10.0" h="10.0" x="28504.06" y="10234.0"/> <port id="pr_a150aafa-d68b-4e22-9abd-c9d18777730a_p1" x="28494.06" y="10239.0"/> <port id="pr_a150aafa-d68b-4e22-9abd-c9d18777730a_p2" x="28524.06" y="10239.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d2ac731a-b006-42f7-8ed5-b7e462921ba4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5907.25" y="13865.0"/> <port id="pr_d2ac731a-b006-42f7-8ed5-b7e462921ba4_p1" x="5912.25" y="13885.0"/> <port id="pr_d2ac731a-b006-42f7-8ed5-b7e462921ba4_p2" x="5912.25" y="13855.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1332bec4-d677-4b26-a455-9d03b6ebde5e"> <bbox w="10.0" h="10.0" x="6227.5835" y="6778.5"/> <port id="pr_1332bec4-d677-4b26-a455-9d03b6ebde5e_p1" x="6232.5835" y="6768.5"/> <port id="pr_1332bec4-d677-4b26-a455-9d03b6ebde5e_p2" x="6232.5835" y="6798.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c6872612-77e4-4d51-9805-71bbf7891fc9"> <bbox w="10.0" h="10.0" x="4387.625" y="5101.49"/> <port id="pr_c6872612-77e4-4d51-9805-71bbf7891fc9_p1" x="4407.625" y="5106.49"/> <port id="pr_c6872612-77e4-4d51-9805-71bbf7891fc9_p2" x="4377.625" y="5106.49"/> </glyph> <glyph class="process" orientation="vertical" id="pr_26bd2edb-1c0b-405c-add0-7da90e42b00c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5052.871" y="17690.0"/> <port id="pr_26bd2edb-1c0b-405c-add0-7da90e42b00c_p1" x="5057.871" y="17680.0"/> <port id="pr_26bd2edb-1c0b-405c-add0-7da90e42b00c_p2" x="5057.871" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_80695a6d-6e33-49f8-966f-7d2913116fb8"> <bbox w="10.0" h="10.0" x="4009.3037" y="22745.027"/> <port id="pr_80695a6d-6e33-49f8-966f-7d2913116fb8_p1" x="4014.3037" y="22765.027"/> <port id="pr_80695a6d-6e33-49f8-966f-7d2913116fb8_p2" x="4014.3037" y="22735.027"/> </glyph> <glyph class="process" orientation="vertical" id="pr_103abf72-5460-4fe2-a53c-4399ac8a0b49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>RasGRP1 is a C1-domain containing protein that is activated by DAG and Ca2+ in a manner analogous to members of the PKC family.</p> <p>PMID:17496910</p> <p>DAG remains in the inner layer of the plasma membrane. It recruits Protein Kinase C (PKC) ??? a calcium-dependent kinase that phosphorylates many other proteins that bring about the changes in the cell.</p> <p>http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/S/Second_messengers.html</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_103abf72-5460-4fe2-a53c-4399ac8a0b49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7843.616" y="19100.0"/> <port id="pr_103abf72-5460-4fe2-a53c-4399ac8a0b49_p1" x="7848.616" y="19120.0"/> <port id="pr_103abf72-5460-4fe2-a53c-4399ac8a0b49_p2" x="7848.616" y="19090.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf222938-43fb-449a-a8cf-866ab978f420"> <bbox w="10.0" h="10.0" x="2475.56" y="21670.75"/> <port id="pr_bf222938-43fb-449a-a8cf-866ab978f420_p1" x="2465.56" y="21675.75"/> <port id="pr_bf222938-43fb-449a-a8cf-866ab978f420_p2" x="2495.56" y="21675.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4ccbeef9-fe96-4b28-ac66-a881cd831b6e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4605.25" y="17151.195"/> <port 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x="20471.562" y="7253.75"/> <port id="pr_bb4352d0-4208-4d65-ada6-4f52de8c1fba_p2" x="20471.562" y="7223.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7dc28962-ed4b-4611-8cf0-77e532be4007"> <bbox w="10.0" h="10.0" x="22795.0" y="5365.0"/> <port id="pr_7dc28962-ed4b-4611-8cf0-77e532be4007_p1" x="22800.0" y="5355.0"/> <port id="pr_7dc28962-ed4b-4611-8cf0-77e532be4007_p2" x="22800.0" y="5385.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_25167557-47ee-4918-86b7-0bcb71b6b206"> <bbox w="10.0" h="10.0" x="25435.06" y="16094.0"/> <port id="pr_25167557-47ee-4918-86b7-0bcb71b6b206_p1" x="25440.06" y="16114.0"/> <port id="pr_25167557-47ee-4918-86b7-0bcb71b6b206_p2" x="25440.06" y="16084.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_074bc99f-0721-438c-9b4e-5820780c8da2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12990.721" y="15377.5"/> <port id="pr_074bc99f-0721-438c-9b4e-5820780c8da2_p1" x="12980.721" y="15382.5"/> <port id="pr_074bc99f-0721-438c-9b4e-5820780c8da2_p2" x="13010.721" y="15382.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_db1e833d-8e50-4414-a19f-b7ed2d2b8796"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6290.799" y="14763.149"/> <port id="pr_db1e833d-8e50-4414-a19f-b7ed2d2b8796_p1" x="6310.799" y="14768.149"/> <port id="pr_db1e833d-8e50-4414-a19f-b7ed2d2b8796_p2" x="6280.799" y="14768.149"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd84e1cf-2734-4d45-9684-9fdc72eb3eeb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21887410</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bd84e1cf-2734-4d45-9684-9fdc72eb3eeb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21887410"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23786.56" y="12764.0"/> <port id="pr_bd84e1cf-2734-4d45-9684-9fdc72eb3eeb_p1" x="23776.56" y="12769.0"/> <port id="pr_bd84e1cf-2734-4d45-9684-9fdc72eb3eeb_p2" x="23806.56" y="12769.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_678c4ae9-c870-46d3-a280-9ccc8a5fec3b"> <bbox w="10.0" h="10.0" x="27934.06" y="9266.0"/> <port id="pr_678c4ae9-c870-46d3-a280-9ccc8a5fec3b_p1" x="27939.06" y="9256.0"/> <port id="pr_678c4ae9-c870-46d3-a280-9ccc8a5fec3b_p2" x="27939.06" y="9286.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1c235472-96f2-4854-b0dc-f7ff4d24b212"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1c235472-96f2-4854-b0dc-f7ff4d24b212"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10949026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14031.561" y="18222.0"/> <port id="pr_1c235472-96f2-4854-b0dc-f7ff4d24b212_p1" x="14021.561" y="18227.0"/> <port id="pr_1c235472-96f2-4854-b0dc-f7ff4d24b212_p2" x="14051.561" y="18227.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cf6b5d42-b2c6-4990-9a97-c8867c93a537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4170.0" y="14906.75"/> <port id="pr_cf6b5d42-b2c6-4990-9a97-c8867c93a537_p1" x="4175.0" y="14926.75"/> <port id="pr_cf6b5d42-b2c6-4990-9a97-c8867c93a537_p2" x="4175.0" y="14896.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e74f0d8-b6bc-4647-a758-ac82aa93e7c3"> <bbox w="10.0" h="10.0" x="15534.4" y="1499.5"/> <port id="pr_1e74f0d8-b6bc-4647-a758-ac82aa93e7c3_p1" x="15539.4" y="1489.5"/> <port id="pr_1e74f0d8-b6bc-4647-a758-ac82aa93e7c3_p2" x="15539.4" y="1519.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_bece297e-fa5a-4dc0-b438-d7cb61d5dc55"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5251.0386" y="14286.25"/> <port id="pr_bece297e-fa5a-4dc0-b438-d7cb61d5dc55_p1" x="5256.0386" y="14306.25"/> <port id="pr_bece297e-fa5a-4dc0-b438-d7cb61d5dc55_p2" x="5256.0386" y="14276.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4df0ff2e-9ae6-4489-8a5b-0ed841e2ea7d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21818122, PMID:22433952</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4df0ff2e-9ae6-4489-8a5b-0ed841e2ea7d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21818122"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22433952"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2890.06" y="21195.0"/> <port id="pr_4df0ff2e-9ae6-4489-8a5b-0ed841e2ea7d_p1" x="2895.06" y="21185.0"/> <port id="pr_4df0ff2e-9ae6-4489-8a5b-0ed841e2ea7d_p2" x="2895.06" y="21215.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_26441a1a-293b-4ac2-b213-bb74f407e018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:14660645, PMID:18264787, PMID:11460167</p> <p>Activated TAK1 phosphorylates IKK-beta proteins </p> <p>leading to activation of NF-κB downstream of HMGB1. </p> <p>PMID:21232017, PMID:21133840, PMID:17301840</p> <p>PMID:24958845, PMID:24699077</p> <p>The LUBAC complex ubiquitinates NEMO, a subunit of the IKK complex downstream of TNF and upregulates IkBa degradetion.</p> <p>PMID:11280761</p> <p> VEGF signaling blocs TNF-α induced activation of IκB kinase (IKK complex).This decreased IKK activation correlated with the inhibition of IκBα phosphorylation and degradation of IκBα and IκBε in HPCs, and this inhibition is inhdependent or FLT1 and KDR</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26441a1a-293b-4ac2-b213-bb74f407e018"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14660645"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18264787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11460167"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21232017"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21133840"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17301840"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24958845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24699077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11280761"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28491.0" y="5020.0"/> <port id="pr_26441a1a-293b-4ac2-b213-bb74f407e018_p1" x="28496.0" y="5010.0"/> <port id="pr_26441a1a-293b-4ac2-b213-bb74f407e018_p2" x="28496.0" y="5040.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f159a39f-d939-4bfb-a68e-8a666947a36d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5595.077" y="16095.771"/> <port id="pr_f159a39f-d939-4bfb-a68e-8a666947a36d_p1" x="5585.077" y="16100.771"/> <port id="pr_f159a39f-d939-4bfb-a68e-8a666947a36d_p2" x="5615.077" y="16100.771"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1ccceda1-95f8-4d3f-a1e1-b739f5e9a46f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:16446366</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1ccceda1-95f8-4d3f-a1e1-b739f5e9a46f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16446366"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16444.06" y="19075.0"/> <port id="pr_1ccceda1-95f8-4d3f-a1e1-b739f5e9a46f_p1" x="16464.06" y="19080.0"/> <port id="pr_1ccceda1-95f8-4d3f-a1e1-b739f5e9a46f_p2" x="16434.06" y="19080.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b2c650c3-64e8-42e3-9a85-347015ed0ac3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Upon wnt signalling beta-catenin is not degraded and can enter the nucleus</p> <p>BCL9 and PYGO stimulate translocation of b-catenin.</p> <p>PMID:15208637</p> <p>No active transport of b-catenin localisation of b-catenin by retention of the binding partners</p> <p>PMID:16554443</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b2c650c3-64e8-42e3-9a85-347015ed0ac3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15208637"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16554443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" 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id="pr_b5b22574-8150-42e5-9866-8498f375ca5f_p1" x="18855.0" y="3665.0"/> <port id="pr_b5b22574-8150-42e5-9866-8498f375ca5f_p2" x="18855.0" y="3695.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c195b9ff-861d-41c3-97fb-8f1769e41fc2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19725819</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19935649</p> <p>Targets of miR-200c include stem cell factors, such as Bmi1, Sox2 and KLF4</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c5bb5cc0-bb29-4eb0-baa2-4e8f0a20cdc8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19935649"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23589069</p> <p>PMID:22131018</p> <p>PMID:29556339</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_575e8f29-4eef-4f19-86e0-22ac9e2ee743"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23589069"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22131018"/> </rdf:Bag> 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id="pr_2b1d7ed7-a6a9-4d2e-9688-892260a18359_p2" x="12620.445" y="7786.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_41516296-76db-4859-ac41-50b86428e06e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22841746</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_41516296-76db-4859-ac41-50b86428e06e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22841746"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18081.123" y="9524.25"/> <port id="pr_41516296-76db-4859-ac41-50b86428e06e_p1" x="18071.123" y="9529.25"/> <port id="pr_41516296-76db-4859-ac41-50b86428e06e_p2" x="18101.123" y="9529.25"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_54566f7b-e5b6-464e-a799-744051b881fd"> <bbox w="20.0" h="20.0" x="22542.332" y="13587.629"/> <port id="logicglyph_54566f7b-e5b6-464e-a799-744051b881fd_p1" x="22572.332" y="13597.629"/> <port id="logicglyph_54566f7b-e5b6-464e-a799-744051b881fd_p2" x="22532.332" y="13597.629"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fe2ab0ce-7d6e-4bde-a5af-c59ae51414ae"> <bbox w="10.0" h="10.0" x="696.38965" y="4098.25"/> <port id="pr_fe2ab0ce-7d6e-4bde-a5af-c59ae51414ae_p1" x="701.38965" y="4088.25"/> <port id="pr_fe2ab0ce-7d6e-4bde-a5af-c59ae51414ae_p2" x="701.38965" y="4118.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d958cfab-3ea4-47ca-b4e8-9ba3cee95710"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19788416, PMID:9168117, PMID:11804596</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d958cfab-3ea4-47ca-b4e8-9ba3cee95710"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788416"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9168117"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11804596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10259.412" y="11221.834"/> <port id="pr_d958cfab-3ea4-47ca-b4e8-9ba3cee95710_p1" x="10264.412" y="11211.834"/> <port id="pr_d958cfab-3ea4-47ca-b4e8-9ba3cee95710_p2" x="10264.412" y="11241.834"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9505fb9c-9da2-41f5-bf79-9c009dc05d68"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18420585</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9505fb9c-9da2-41f5-bf79-9c009dc05d68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18420585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22183.56" y="11769.0"/> <port id="pr_9505fb9c-9da2-41f5-bf79-9c009dc05d68_p1" x="22203.56" y="11774.0"/> <port id="pr_9505fb9c-9da2-41f5-bf79-9c009dc05d68_p2" x="22173.56" y="11774.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_09be7e93-2414-47f8-8e1f-68cf88f0dbfd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12435627 PMID:19032343</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_09be7e93-2414-47f8-8e1f-68cf88f0dbfd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12435627"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19032343"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26166.31" y="20634.127"/> <port id="pr_09be7e93-2414-47f8-8e1f-68cf88f0dbfd_p1" x="26156.31" y="20639.127"/> <port id="pr_09be7e93-2414-47f8-8e1f-68cf88f0dbfd_p2" x="26186.31" y="20639.127"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2c3845d8-8b6e-49ef-a17a-94919f9a68ea"> <bbox w="10.0" h="10.0" x="2520.75" y="9470.25"/> <port id="pr_2c3845d8-8b6e-49ef-a17a-94919f9a68ea_p1" x="2540.75" y="9475.25"/> <port id="pr_2c3845d8-8b6e-49ef-a17a-94919f9a68ea_p2" x="2510.75" y="9475.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_329093cc-bec5-44ee-87b5-8522caf0c68c"> <bbox w="10.0" h="10.0" x="22016.25" y="5275.0"/> <port id="pr_329093cc-bec5-44ee-87b5-8522caf0c68c_p1" x="22021.25" y="5265.0"/> <port id="pr_329093cc-bec5-44ee-87b5-8522caf0c68c_p2" x="22021.25" y="5295.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_8e7551a9-8e45-42a4-98af-54133880ffae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15308668</p> <p>DOCK1 (so-called DOCK180) is a GEF of Rac1.</p> <p>DOCK1 together with paxillin-Crk constitutes the main pathway transducing collagen-mediated signals for the activation of Rac1.</p> <p>This signaling pathway is down-regulated when cell migration is counteracted by C3G/Rap1 activation.</p> <p>A balance between Rac1 and Rap1 GTPases in controlling the migratory versus the stationary state of the cell is suggested.</p> <p>PMID:12432077</p> <p>DOCK1 is a GEF for Rac1 and possibly for CDC42</p> <p>PMID:9808620</p> <p>DOCK1 is involved in integrin signaling through Crk-p130Cas complexes.</p> <p>DOCK1 activates JNK in a Rac1, Cdc42 - dependent manner</p> <p>Overexpression of DOCK1 increases the amount of GTP-bound Rac1</p> <p>Coexpression of Crk2 and p130Cas (BCAR1) enhances this DOCK1-dependent activation of Rac1. </p> <p>Direct binding of DOCK1 to Rac1, but not to RhoA or Cdc42. </p> <p>To sum up, DOCK1 is a novel activator of Rac1 and involved in integrin signaling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e7551a9-8e45-42a4-98af-54133880ffae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_f74bd16a-8a31-48ed-b82b-160d6b8168fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4176.2603" y="18693.562"/> <port id="pr_f74bd16a-8a31-48ed-b82b-160d6b8168fc_p1" x="4181.2603" y="18713.562"/> <port id="pr_f74bd16a-8a31-48ed-b82b-160d6b8168fc_p2" x="4181.2603" y="18683.562"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d484e118-8bce-49c3-9e23-4853382304b8"> <bbox w="10.0" h="10.0" x="19231.016" y="13575.652"/> <port id="pr_d484e118-8bce-49c3-9e23-4853382304b8_p1" x="19236.016" y="13595.652"/> <port id="pr_d484e118-8bce-49c3-9e23-4853382304b8_p2" x="19236.016" y="13565.652"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6e7c2809-3efd-4e6c-a5d0-a3889d8ba2d6"> <bbox w="10.0" h="10.0" x="26496.326" y="16089.0"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29556339</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3a73e66e-3a8f-4be5-9834-78b2d2395306"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29556339"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4818.5" y="11858.5"/> <port id="pr_3a73e66e-3a8f-4be5-9834-78b2d2395306_p1" x="4823.5" y="11848.5"/> <port id="pr_3a73e66e-3a8f-4be5-9834-78b2d2395306_p2" x="4823.5" y="11878.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ed3e4318-d895-4058-9c49-c988c313099b"> <bbox w="10.0" h="10.0" x="23957.414" y="21278.25"/> <port id="pr_ed3e4318-d895-4058-9c49-c988c313099b_p1" x="23962.414" y="21268.25"/> <port id="pr_ed3e4318-d895-4058-9c49-c988c313099b_p2" x="23962.414" y="21298.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_409bafd0-3fd7-4427-bff4-7ef826a34248"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21304492</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_409bafd0-3fd7-4427-bff4-7ef826a34248"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21304492"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22725.617" y="18225.0"/> <port id="pr_409bafd0-3fd7-4427-bff4-7ef826a34248_p1" x="22730.617" y="18215.0"/> <port id="pr_409bafd0-3fd7-4427-bff4-7ef826a34248_p2" x="22730.617" y="18245.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f666f470-6fc4-4603-ace9-e80ccd07f858"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12138125</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f666f470-6fc4-4603-ace9-e80ccd07f858"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25848.32" y="21057.516"/> <port id="pr_f666f470-6fc4-4603-ace9-e80ccd07f858_p1" x="25853.32" y="21077.516"/> <port id="pr_f666f470-6fc4-4603-ace9-e80ccd07f858_p2" x="25853.32" y="21047.516"/> </glyph> <glyph class="process" orientation="vertical" id="pr_06b51b13-3376-4e2b-ae2d-46d991410640"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26205.3" y="11859.617"/> <port id="pr_06b51b13-3376-4e2b-ae2d-46d991410640_p1" x="26210.3" y="11849.617"/> <port id="pr_06b51b13-3376-4e2b-ae2d-46d991410640_p2" x="26210.3" y="11879.617"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0bc6f636-8e99-43f6-bfb3-6672e09c7aa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21179058</p> <p>PMID:23846383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0bc6f636-8e99-43f6-bfb3-6672e09c7aa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21179058"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21244.06" y="15109.0"/> <port id="pr_0bc6f636-8e99-43f6-bfb3-6672e09c7aa4_p1" x="21249.06" y="15099.0"/> <port id="pr_0bc6f636-8e99-43f6-bfb3-6672e09c7aa4_p2" x="21249.06" y="15129.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9bc2b80-50f0-491b-a416-1be9a33c8a9e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2861.75" y="15058.344"/> <port id="pr_a9bc2b80-50f0-491b-a416-1be9a33c8a9e_p1" x="2881.75" y="15063.344"/> <port id="pr_a9bc2b80-50f0-491b-a416-1be9a33c8a9e_p2" x="2851.75" y="15063.344"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5c46b346-586a-4997-96a3-cfc75dac4333"> <bbox w="10.0" h="10.0" x="10567.609" y="9621.992"/> <port id="pr_5c46b346-586a-4997-96a3-cfc75dac4333_p1" x="10557.609" y="9626.992"/> <port id="pr_5c46b346-586a-4997-96a3-cfc75dac4333_p2" x="10587.609" y="9626.992"/> </glyph> <glyph class="process" orientation="vertical" id="pr_98a8a889-67d6-466b-9b76-8ef57cfcfd9b"> <bbox w="10.0" h="10.0" x="26935.06" y="20512.5"/> <port id="pr_98a8a889-67d6-466b-9b76-8ef57cfcfd9b_p1" x="26940.06" y="20502.5"/> <port id="pr_98a8a889-67d6-466b-9b76-8ef57cfcfd9b_p2" x="26940.06" y="20532.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_325943ab-091a-44f1-81b5-9ccab959bdfe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="28068.31" y="22461.0"/> <port id="pr_325943ab-091a-44f1-81b5-9ccab959bdfe_p1" x="28088.31" y="22466.0"/> <port id="pr_325943ab-091a-44f1-81b5-9ccab959bdfe_p2" x="28058.31" y="22466.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9220689b-81d2-4292-a3e6-bc7f37e5f155"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9220689b-81d2-4292-a3e6-bc7f37e5f155"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5784.0" y="11146.0"/> <port id="pr_9220689b-81d2-4292-a3e6-bc7f37e5f155_p1" x="5774.0" y="11151.0"/> <port id="pr_9220689b-81d2-4292-a3e6-bc7f37e5f155_p2" x="5804.0" y="11151.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_935a590f-3933-421f-8372-d988451e35b9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13913.315" y="15163.953"/> <port id="pr_935a590f-3933-421f-8372-d988451e35b9_p1" x="13903.315" y="15168.953"/> <port id="pr_935a590f-3933-421f-8372-d988451e35b9_p2" x="13933.315" y="15168.953"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7c0977ff-e018-426d-aa2e-beece46a22db"> <bbox w="10.0" h="10.0" x="15586.25" y="3042.5"/> <port id="pr_7c0977ff-e018-426d-aa2e-beece46a22db_p1" x="15591.25" y="3062.5"/> <port id="pr_7c0977ff-e018-426d-aa2e-beece46a22db_p2" x="15591.25" y="3032.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7c3daed6-3e65-4169-8121-645ecd684a2c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:10454555</p> <p>in HL60</p> <p>in vitro</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7c3daed6-3e65-4169-8121-645ecd684a2c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10454555"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18505.31" y="16826.5"/> <port id="pr_7c3daed6-3e65-4169-8121-645ecd684a2c_p1" x="18510.31" y="16846.5"/> <port id="pr_7c3daed6-3e65-4169-8121-645ecd684a2c_p2" x="18510.31" y="16816.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b53e3bce-f2b3-4dc6-8385-60770a5d098c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15263019</p> <p>Endocytosis of E-cadherin regulated by Rac and Cdc42 small G proteins through IQGAP1 and actin filaments.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b53e3bce-f2b3-4dc6-8385-60770a5d098c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15263019"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2353.0" y="14162.381"/> <port id="pr_b53e3bce-f2b3-4dc6-8385-60770a5d098c_p1" x="2373.0" y="14167.381"/> <port id="pr_b53e3bce-f2b3-4dc6-8385-60770a5d098c_p2" x="2343.0" y="14167.381"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3746f814-5e97-4a92-8f9b-8f7b56222c97"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1883.5" y="14847.5"/> <port id="pr_3746f814-5e97-4a92-8f9b-8f7b56222c97_p1" x="1903.5" y="14852.5"/> <port id="pr_3746f814-5e97-4a92-8f9b-8f7b56222c97_p2" x="1873.5" y="14852.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fc1dffa7-3814-4d56-af41-c70880acb48f"> <bbox w="10.0" h="10.0" x="20135.148" y="2125.5708"/> <port id="pr_fc1dffa7-3814-4d56-af41-c70880acb48f_p1" x="20140.148" y="2115.5708"/> <port id="pr_fc1dffa7-3814-4d56-af41-c70880acb48f_p2" x="20140.148" y="2145.5708"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4dd84c92-93ed-4d7a-ba8e-0e8d66fb2089"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4dd84c92-93ed-4d7a-ba8e-0e8d66fb2089"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4206.923" y="11505.385"/> <port 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x="19563.56" y="11869.25"/> <port id="pr_fb322bc2-27f3-4dc5-b2fe-04c7eba52801_p2" x="19593.56" y="11869.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_10a25732-7d2a-4ab5-b964-bd122b3da1bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1112.76" y="16401.5"/> <port id="pr_10a25732-7d2a-4ab5-b964-bd122b3da1bc_p1" x="1117.76" y="16391.5"/> <port id="pr_10a25732-7d2a-4ab5-b964-bd122b3da1bc_p2" x="1117.76" y="16421.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_76912e67-0119-47f9-b0b9-eeb6b68bf7ac"> <bbox w="10.0" h="10.0" x="6221.7793" y="7075.625"/> <port id="pr_76912e67-0119-47f9-b0b9-eeb6b68bf7ac_p1" x="6226.7793" y="7065.625"/> <port id="pr_76912e67-0119-47f9-b0b9-eeb6b68bf7ac_p2" x="6226.7793" y="7095.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6e4d41e3-8d47-45b8-a10f-b52c253a905c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6e4d41e3-8d47-45b8-a10f-b52c253a905c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3759.25" y="10673.5"/> <port id="pr_6e4d41e3-8d47-45b8-a10f-b52c253a905c_p1" x="3764.25" y="10663.5"/> <port id="pr_6e4d41e3-8d47-45b8-a10f-b52c253a905c_p2" x="3764.25" y="10693.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cf42cd9b-fe31-40a8-9cb5-38e8e5fa0df4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19574.133" y="14617.605"/> <port id="pr_cf42cd9b-fe31-40a8-9cb5-38e8e5fa0df4_p1" x="19579.133" y="14607.605"/> <port id="pr_cf42cd9b-fe31-40a8-9cb5-38e8e5fa0df4_p2" x="19579.133" y="14637.605"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3e2e2dbe-e0d0-47c7-93c0-113762898fd2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19788417</p> <p>PMID:16977332</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e2e2dbe-e0d0-47c7-93c0-113762898fd2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788417"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16977332"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13635.561" y="18309.0"/> <port id="pr_3e2e2dbe-e0d0-47c7-93c0-113762898fd2_p1" x="13625.561" y="18314.0"/> <port id="pr_3e2e2dbe-e0d0-47c7-93c0-113762898fd2_p2" x="13655.561" y="18314.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_732e6e96-e7f2-418a-b13a-4098e7d0af05"> <bbox w="10.0" h="10.0" x="2973.021" y="5192.5"/> <port id="pr_732e6e96-e7f2-418a-b13a-4098e7d0af05_p1" x="2978.021" y="5182.5"/> <port id="pr_732e6e96-e7f2-418a-b13a-4098e7d0af05_p2" x="2978.021" y="5212.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d7d487ca-106a-4abf-9687-dace8729a5ab"> <bbox w="10.0" h="10.0" x="3422.1665" y="1152.0"/> <port id="pr_d7d487ca-106a-4abf-9687-dace8729a5ab_p1" x="3427.1665" y="1142.0"/> <port id="pr_d7d487ca-106a-4abf-9687-dace8729a5ab_p2" x="3427.1665" y="1172.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_96620090-f151-4d8e-9842-ad205f77aecf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21224848</p> <p>PMID:20706219</p> <p>BMI1, KLF4 and SOX2 are targets of MIR203</p> <p>PMID:22514743</p> <p>SNAI1, ZEB2 are direct targets of MIR203</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_96620090-f151-4d8e-9842-ad205f77aecf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21224848"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22514743"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2827.5" y="18123.5"/> <port id="pr_96620090-f151-4d8e-9842-ad205f77aecf_p1" x="2832.5" y="18113.5"/> <port id="pr_96620090-f151-4d8e-9842-ad205f77aecf_p2" x="2832.5" y="18143.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_af9b0e22-e3ad-440b-bb81-cf1d6edfd788"> <bbox w="10.0" h="10.0" x="10349.391" y="16943.904"/> <port id="pr_af9b0e22-e3ad-440b-bb81-cf1d6edfd788_p1" x="10339.391" y="16948.904"/> <port id="pr_af9b0e22-e3ad-440b-bb81-cf1d6edfd788_p2" x="10369.391" y="16948.904"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2924413a-67bf-41b1-9d45-91a04e1be351"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4837.469" y="17986.125"/> <port id="pr_2924413a-67bf-41b1-9d45-91a04e1be351_p1" x="4842.469" y="17976.125"/> <port id="pr_2924413a-67bf-41b1-9d45-91a04e1be351_p2" x="4842.469" y="18006.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e04be885-626e-44fc-ac65-1957079669e6"> <bbox w="10.0" h="10.0" x="27578.56" y="18748.967"/> <port id="pr_e04be885-626e-44fc-ac65-1957079669e6_p1" x="27598.56" y="18753.967"/> <port id="pr_e04be885-626e-44fc-ac65-1957079669e6_p2" x="27568.56" y="18753.967"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b45a421-a9fc-48a0-9b0b-577c2f547bb4"> <bbox w="10.0" h="10.0" x="17765.0" y="4125.0"/> <port id="pr_3b45a421-a9fc-48a0-9b0b-577c2f547bb4_p1" x="17770.0" y="4115.0"/> <port id="pr_3b45a421-a9fc-48a0-9b0b-577c2f547bb4_p2" x="17770.0" y="4145.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e228376a-1530-4170-9dff-220c5b6ae464"> <bbox w="10.0" h="10.0" x="28164.0" y="3615.889"/> <port id="pr_e228376a-1530-4170-9dff-220c5b6ae464_p1" x="28184.0" y="3620.889"/> <port id="pr_e228376a-1530-4170-9dff-220c5b6ae464_p2" x="28154.0" y="3620.889"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_63afefc4-71b0-4234-91c3-b7e6ea66819e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_63afefc4-71b0-4234-91c3-b7e6ea66819e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21033.56" y="22325.0"/> <port id="pr_63afefc4-71b0-4234-91c3-b7e6ea66819e_p1" x="21023.56" y="22330.0"/> <port id="pr_63afefc4-71b0-4234-91c3-b7e6ea66819e_p2" x="21053.56" y="22330.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3a3d8605-3a78-46de-b310-84fdec9d46c5"> <bbox w="10.0" h="10.0" x="4135.0" y="5073.75"/> <port id="pr_3a3d8605-3a78-46de-b310-84fdec9d46c5_p1" x="4140.0" y="5063.75"/> <port id="pr_3a3d8605-3a78-46de-b310-84fdec9d46c5_p2" x="4140.0" y="5093.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_85316e46-25f5-4a1b-96e5-fc7a2885cd02"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3847.5" y="18508.123"/> <port id="pr_85316e46-25f5-4a1b-96e5-fc7a2885cd02_p1" x="3837.5" y="18513.123"/> <port id="pr_85316e46-25f5-4a1b-96e5-fc7a2885cd02_p2" x="3867.5" y="18513.123"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97426974-23be-498b-b7ab-c9e741fdea70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_97426974-23be-498b-b7ab-c9e741fdea70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613913"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1862.4751" y="14684.219"/> <port id="pr_97426974-23be-498b-b7ab-c9e741fdea70_p1" x="1882.4751" y="14689.219"/> <port id="pr_97426974-23be-498b-b7ab-c9e741fdea70_p2" x="1852.4751" y="14689.219"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ea6b5938-d2e7-44fb-ada6-0444ad6806ac"> <bbox w="10.0" h="10.0" x="27222.621" y="5599.25"/> <port id="pr_ea6b5938-d2e7-44fb-ada6-0444ad6806ac_p1" x="27227.621" y="5589.25"/> <port id="pr_ea6b5938-d2e7-44fb-ada6-0444ad6806ac_p2" x="27227.621" y="5619.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a35a8c87-6f9c-42ba-9aab-cb517fc6b740"> <bbox w="10.0" h="10.0" x="18127.06" y="19206.5"/> <port id="pr_a35a8c87-6f9c-42ba-9aab-cb517fc6b740_p1" x="18132.06" y="19196.5"/> <port id="pr_a35a8c87-6f9c-42ba-9aab-cb517fc6b740_p2" x="18132.06" y="19226.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_905b5f10-62b0-49e6-87e4-7e79e9e56a99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15688067</p> <p>Zyxin is an alpha-actinin- and stress-fibre- binding protein that is present in mature contacts</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_905b5f10-62b0-49e6-87e4-7e79e9e56a99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15688067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6264.2573" y="18317.0"/> <port id="pr_905b5f10-62b0-49e6-87e4-7e79e9e56a99_p1" x="6269.2573" y="18307.0"/> <port id="pr_905b5f10-62b0-49e6-87e4-7e79e9e56a99_p2" x="6269.2573" y="18337.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ce7d9af4-cf4b-4e0d-b828-c1060764a6c1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5693.9795" y="13709.5"/> <port id="pr_ce7d9af4-cf4b-4e0d-b828-c1060764a6c1_p1" x="5713.9795" y="13714.5"/> <port id="pr_ce7d9af4-cf4b-4e0d-b828-c1060764a6c1_p2" x="5683.9795" y="13714.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1598165d-6015-4cc7-a892-94695b2cc0a7"> <bbox w="10.0" h="10.0" x="875.43713" y="2040.0"/> <port id="pr_1598165d-6015-4cc7-a892-94695b2cc0a7_p1" x="880.43713" y="2060.0"/> <port id="pr_1598165d-6015-4cc7-a892-94695b2cc0a7_p2" x="880.43713" y="2030.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_630d6613-a13e-41f0-ad8d-ff9019e184dd"> <bbox w="10.0" h="10.0" x="29314.06" y="9184.0"/> <port id="pr_630d6613-a13e-41f0-ad8d-ff9019e184dd_p1" x="29319.06" y="9174.0"/> <port id="pr_630d6613-a13e-41f0-ad8d-ff9019e184dd_p2" x="29319.06" y="9204.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f9f69b7c-4638-440c-b32a-c7227744eb39"> <bbox w="10.0" h="10.0" x="13105.0" y="2173.75"/> <port id="pr_f9f69b7c-4638-440c-b32a-c7227744eb39_p1" x="13110.0" y="2193.75"/> <port id="pr_f9f69b7c-4638-440c-b32a-c7227744eb39_p2" x="13110.0" y="2163.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_42b72bbe-4578-4117-82b6-df703e98a9e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:PMID:19962668</p> <p>MIR221 and MIR222</p> <p>PMID:17681183</p> <p>MIR21</p> <p>PMID:14697198</p> <p>in Hela by MIR19A, using a PTEN reporter plasmids</p> <p>PMID:18199536</p> <p>in human ovarian cancer cell lines by MIR214PMID:19962668</p> <p>miR-221 regulate TRAIL resistance and enhance tumorigenicity through PTEN and TIMP3 downregulation</p> </body> </html> </notes> <extension> <annotation xmlns="" 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</bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="MIR214urn:miriam:pubmed:19962668"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20583.719" y="15954.561"/> <port id="pr_42b72bbe-4578-4117-82b6-df703e98a9e7_p1" x="20588.719" y="15974.561"/> <port id="pr_42b72bbe-4578-4117-82b6-df703e98a9e7_p2" x="20588.719" y="15944.561"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_8f2c4bc5-2835-413e-b8f2-241f1f8457b2"> <bbox w="20.0" h="20.0" x="20649.404" y="15625.728"/> <port id="logicglyph_8f2c4bc5-2835-413e-b8f2-241f1f8457b2_p1" x="20659.404" y="15615.728"/> <port id="logicglyph_8f2c4bc5-2835-413e-b8f2-241f1f8457b2_p2" x="20659.404" y="15655.728"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd184ada-edb4-4ec2-8ae2-90af35490ecc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>This isoform of NFAT1 forms also NFAT/AP-1 complexes.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="15778.311" y="21003.75"/> <port id="pr_fd184ada-edb4-4ec2-8ae2-90af35490ecc_p1" x="15798.311" y="21008.75"/> <port id="pr_fd184ada-edb4-4ec2-8ae2-90af35490ecc_p2" x="15768.311" y="21008.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4b1d95c7-103a-4261-ae37-a2c343005f17"> <bbox w="10.0" h="10.0" x="4046.335" y="4932.25"/> <port id="pr_4b1d95c7-103a-4261-ae37-a2c343005f17_p1" x="4066.335" y="4937.25"/> <port id="pr_4b1d95c7-103a-4261-ae37-a2c343005f17_p2" x="4036.335" y="4937.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16c9176d-cf34-4718-a962-6460df8d3fd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>9-1-1 complex activates APE and BER PMID:17426133</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_16c9176d-cf34-4718-a962-6460df8d3fd7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17426133"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10259.334" y="15899.107"/> <port id="pr_16c9176d-cf34-4718-a962-6460df8d3fd7_p1" x="10264.334" y="15889.107"/> <port id="pr_16c9176d-cf34-4718-a962-6460df8d3fd7_p2" x="10264.334" y="15919.107"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8a6a79a0-6d6c-412a-8bd1-b33a52f232f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>source UNIPROT</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18200.225" y="13450.329"/> <port id="pr_8a6a79a0-6d6c-412a-8bd1-b33a52f232f2_p1" x="18190.225" y="13455.329"/> <port id="pr_8a6a79a0-6d6c-412a-8bd1-b33a52f232f2_p2" x="18220.225" y="13455.329"/> </glyph> <glyph class="process" orientation="vertical" id="pr_183b5a59-c02b-4891-9ba9-9bd9b2e3799c"> <bbox w="10.0" h="10.0" x="20919.98" y="15979.686"/> <port id="pr_183b5a59-c02b-4891-9ba9-9bd9b2e3799c_p1" x="20924.98" y="15999.686"/> <port id="pr_183b5a59-c02b-4891-9ba9-9bd9b2e3799c_p2" x="20924.98" y="15969.686"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9f5dccaf-906a-44f6-8843-4f93ff970cda"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15039755</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9f5dccaf-906a-44f6-8843-4f93ff970cda"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15039755"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24113.06" y="10932.194"/> <port id="pr_9f5dccaf-906a-44f6-8843-4f93ff970cda_p1" x="24103.06" y="10937.194"/> <port id="pr_9f5dccaf-906a-44f6-8843-4f93ff970cda_p2" x="24133.06" y="10937.194"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8bb15cd8-a56c-4dff-b928-e86709f8e246"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22322943</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_59c7bb75-cb9d-4c04-b2eb-3cdafdf82eba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21209912"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26592.56" y="18028.0"/> <port id="pr_59c7bb75-cb9d-4c04-b2eb-3cdafdf82eba_p1" x="26582.56" y="18033.0"/> <port id="pr_59c7bb75-cb9d-4c04-b2eb-3cdafdf82eba_p2" x="26612.56" y="18033.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c0d7ac4-9808-4925-b5d3-9df019b85a99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5354.0" y="16968.977"/> <port id="pr_7c0d7ac4-9808-4925-b5d3-9df019b85a99_p1" x="5344.0" y="16973.977"/> <port id="pr_7c0d7ac4-9808-4925-b5d3-9df019b85a99_p2" x="5374.0" y="16973.977"/> </glyph> <glyph class="process" orientation="vertical" id="pr_acef7413-8e9e-4579-8be8-8fa2d9254dda"> <bbox w="10.0" h="10.0" x="16828.113" y="4883.75"/> <port id="pr_acef7413-8e9e-4579-8be8-8fa2d9254dda_p1" x="16833.113" y="4873.75"/> <port id="pr_acef7413-8e9e-4579-8be8-8fa2d9254dda_p2" x="16833.113" y="4903.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_99ffe154-6751-48ad-9d1f-0539143e43ea"> <bbox w="10.0" h="10.0" x="12465.115" y="15867.322"/> <port id="pr_99ffe154-6751-48ad-9d1f-0539143e43ea_p1" x="12485.115" y="15872.322"/> <port id="pr_99ffe154-6751-48ad-9d1f-0539143e43ea_p2" x="12455.115" y="15872.322"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_a063ff1e-28aa-44e0-b987-d4fda72fabe8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4472.927" y="18616.062"/> <port id="pr_a063ff1e-28aa-44e0-b987-d4fda72fabe8_p1" x="4477.927" y="18636.062"/> <port id="pr_a063ff1e-28aa-44e0-b987-d4fda72fabe8_p2" x="4477.927" y="18606.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d459cc1c-202c-4050-94b8-19a42aa2d922"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16818236</p> <p>upon UVA irradiation (no DSB), phosphorylation of H2AX S139 by JNK</p> <p>effect of Y142 phosphorylation not assessed</p> <p>PMID:19234442</p> <p>interaction between JNK1 and H2AX Y142_pho dependent on FE65 (proposed FE65 scaffolding JNK to Y142_pho)</p> <p>they propose H2AX Y142 phosphorylation as a switch toward apoptosis.</p> <p>Even if not fully documented, the information from these 2 papers is merged into this representation where doubly phosphorylated H2AX cooperated with CAD for DNA fragmentation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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over-expression of constitutive active calcineurin (DeltaCnA/CnB)</p> <p>in HCT116 colon cancer cells, Ca2+ increase (thapsigargin, ionomycin) inhibits BAD S75 phosphorylation and interaction of BAD with 14-3-3 or PP3CB.</p> <p>in transfected 293T, co-IP BAD phosphomimetic mutant with PPP3CB</p> <p>in Du145 prostate cancer cells, Ca2+ induced dephosphorylation of BAD correlates with its relocalization to mitochondria</p> <p>in CSM14.1 immortalized rat hippocampal cells, exogenously expressed BAD-GFP relocalizes to mitochondria in response to cytoplasmic Ca2+ increased (THG, A23187)</p> <p>in primaryin primary rat hippocampal neurons, L-glutamate induces cell death and relocalization to mitochondria of BAD-GFP, which are both inhibited by co-expression of dominant negative DeltaCnA(H101Q)</p> <p>in 293T cells or 293T cells expressing mitochondria-targeted RAF1, upon over-expression of constitutive active calcineurin (DeltaCnA/CnB)</p> </body> </html> </notes> <extension> <annotation 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id="pr_7af5b9fa-4f53-4294-906b-975b8fb2b53e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11955436</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7af5b9fa-4f53-4294-906b-975b8fb2b53e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11955436"/> </rdf:Bag> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21538.56" y="15620.5"/> <port id="pr_6f3be9cd-624b-4731-9b14-443b3620b6ec_p1" x="21543.56" y="15610.5"/> <port id="pr_6f3be9cd-624b-4731-9b14-443b3620b6ec_p2" x="21543.56" y="15640.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_343f453d-fa53-4c0f-a55f-60f5ce7c35df"> <bbox w="10.0" h="10.0" x="28881.56" y="9077.75"/> <port id="pr_343f453d-fa53-4c0f-a55f-60f5ce7c35df_p1" x="28886.56" y="9067.75"/> <port id="pr_343f453d-fa53-4c0f-a55f-60f5ce7c35df_p2" x="28886.56" y="9097.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a9679918-5263-47df-8faa-eb17d685d1fd"> <bbox w="10.0" h="10.0" x="21094.988" y="4211.75"/> <port id="pr_a9679918-5263-47df-8faa-eb17d685d1fd_p1" x="21099.988" y="4201.75"/> <port 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class="process" orientation="vertical" id="pr_d921b3db-fe31-456d-9c5c-e0dd5989eb28"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10874044</p> <p>in MCF7 by NFE2L2, upon cadmium exposure</p> <p>PMID:10821856</p> <p>in mouse primary peritoneal macrophages, by NFE2L2</p> <p>PMID:12356737</p> <p>by BACH1</p> <p>PMID:12511571</p> <p>in A549 by BACH1 upon hypoxia</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_21dc1659-999f-4ccb-8185-99a8cf013416"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9311995"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6304.5" y="16650.0"/> <port id="pr_21dc1659-999f-4ccb-8185-99a8cf013416_p1" x="6309.5" y="16640.0"/> <port id="pr_21dc1659-999f-4ccb-8185-99a8cf013416_p2" x="6309.5" y="16670.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_311a6135-582c-4251-ab1f-6655221d21c4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10551883</p> <p>FGFR1 regulates activity of CDC42 by binding and phosphorylating thus inactivating BCL2.</p> <p>Phosphorylated BCL2 binds to another CDC42_GAP, ARHGAP1 and neutralize the GAP activity of ARHGAP1 as well.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_311a6135-582c-4251-ab1f-6655221d21c4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10551883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6442.5" y="14948.735"/> <port id="pr_311a6135-582c-4251-ab1f-6655221d21c4_p1" x="6432.5" y="14953.735"/> <port id="pr_311a6135-582c-4251-ab1f-6655221d21c4_p2" x="6462.5" y="14953.735"/> </glyph> <glyph class="process" orientation="vertical" id="pr_74cc4a81-6be0-4a73-9427-3b90970d22df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19747488</p> <p>in HepG2, by NFkB, upon copper exposure</p> <p>PMID:18761713</p> <p>in rat cortical neurons, by NFE2L2</p> <p>PMID:19027064</p> <p>in mouse lung, by NFE2L2</p> <p>proposed also in human, and deregulation in patients with chronic obstructive pulmonary disorder</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_74cc4a81-6be0-4a73-9427-3b90970d22df"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19747488"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18761713"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19027064"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24289.736" y="16159.91"/> <port id="pr_74cc4a81-6be0-4a73-9427-3b90970d22df_p1" x="24294.736" y="16179.91"/> <port id="pr_74cc4a81-6be0-4a73-9427-3b90970d22df_p2" x="24294.736" y="16149.91"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_64f4e6d1-6bcf-4a2a-9512-f2477850195c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10984057 PMID:11263497</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64f4e6d1-6bcf-4a2a-9512-f2477850195c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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<head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3333.228" y="14452.0"/> <port id="pr_b51bbd83-f90c-4446-9aa9-6ddc17c4e78c_p1" x="3338.228" y="14472.0"/> <port id="pr_b51bbd83-f90c-4446-9aa9-6ddc17c4e78c_p2" x="3338.228" y="14442.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9126ce15-3668-4e8d-9dcf-6ba4d14d72c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1713.0" y="18775.75"/> <port id="pr_9126ce15-3668-4e8d-9dcf-6ba4d14d72c9_p1" x="1703.0" y="18780.75"/> <port id="pr_9126ce15-3668-4e8d-9dcf-6ba4d14d72c9_p2" x="1733.0" y="18780.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_49a17665-1fab-498f-a36d-43ee7ccbaed7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15642728</p> <p>BAX phosphorylated on S184 in response to nicotine displays a shortened half life</p> <p>in A549 human lung cancer cell line</p> <p>PMID:10725400</p> <p>proteasome dependent degradation of BAX</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_49a17665-1fab-498f-a36d-43ee7ccbaed7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15642728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10725400"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23226.56" y="11754.0"/> <port id="pr_49a17665-1fab-498f-a36d-43ee7ccbaed7_p1" x="23246.56" y="11759.0"/> <port id="pr_49a17665-1fab-498f-a36d-43ee7ccbaed7_p2" x="23216.56" y="11759.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_27faeedd-4f8d-4ae7-8115-dc5471d6aac7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: reactants to re</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:10409669</p> <p>CASP3 mediated cleavage of BCL2 in vitro and in HL60 cells or MCF7 with reconstituted CASP3 expression after exposure to staurosporine</p> <p>no cleavage by CASP7</p> <p>PMID:20139069</p> <p>FKBP8 protects BCL2 from CASP3-mediated degradation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_27faeedd-4f8d-4ae7-8115-dc5471d6aac7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10409669"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20139069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23004.06" y="13859.0"/> <port id="pr_27faeedd-4f8d-4ae7-8115-dc5471d6aac7_p1" x="22994.06" y="13864.0"/> <port id="pr_27faeedd-4f8d-4ae7-8115-dc5471d6aac7_p2" x="23024.06" y="13864.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57b1aab9-a003-4a8e-98a1-58be5f9307a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9618481</p> <p>-Smad4 transactivated the proximal p21 promoter 1.3-fold</p> <p>-Smad2 transactivated the proximal p21 promoter 3-fold</p> <p>-Smad2/4 transactivated the proximal p21 promoter 12-fold</p> <p>-Smad3 transactivated the proximal p21 promoter 25-fold</p> <p>-Smad3/Smad2 transactivated the proximal p21 promoter 40-fold</p> <p>-Smad3/Smad4 transactivated the proximal p21 promoter 110-fold</p> <p>-Smad2/Smad3/Smad4 transactivated the proximal p21 promoter 140-fold</p> <p>Smad proteins act as Transcriptional Activators via functional interactions with the Transcription factor Sp1</p> <p>PMID:12545156</p> <p>Myc represses differentiation-induced p21 expression via Miz-1-dependent interaction with the p21 core promoter</p> <p>Myc binds the p21 core promoter in vitro through interaction with Miz-1</p> <p>Myc and Miz-1 interact with the p21 promoter in vivo</p> <p>PMID:15155580</p> <p>Snail regulates cell-cycle progression and survival:</p> <p>Snail regulates components of the early to late G1 transition and the G1/S checkpoint.</p> <p>Snail represses Cyclin D2 transcription and increases p21/Cip1 transcription.</p> <p>PMID:17550342</p> <p>SNAI2 induces p21CIP1 (CDKN1A) expression</p> <p>PMID:23869868</p> <p>PMID:23140366</p> <p>p53 transactivate p21</p> <p>PMID:11283614</p> <p>Myc: an ubiquitous mediator of cell growth and proliferation</p> <p>Myc can both activate and repress transcription, depending on the nature of associated factors</p> <p>TGFB downregulates Myc to cause cell cycle arrest.</p> <p>TGFB activates p15INK4B and/or p21CIP1 (inhibitor of CDKs) ==> CDK inhibition by TGFB</p> <p>TGFB downregulates cdc25A (a phosphatase, activator of CDKs) ==> CDK inhibition by TGFB</p> <p>PMID:2191300</p> <p>Interaction of an NF-kappa B-like factor with a site upstream of the c-myc promoter.</p> <p>PMID :28536364 </p> <p>c-myc is transcriptionally upregulated by NF-κB</p> <p>PMID:20027199</p> <p>MYC induces DNA damage throuh an increase in ROS production, innapropriate DNA synthesis and abrogation of DNA repair</p> <p>PMID:20713526</p> <p>MYC supress the activity of anti-apoptotic BCL2 and BCLXL (BCL2L1) genes</p> <p>PMID :20713526</p> <p>MYC in complex with CDK2 alone inhibit senescence through the inhibition of p16 and p21 expression as well as TERT and BMI1 expression increase. MYC in complex with CDK2 and p27KIP1 induces senescence through the expression increase of p16 and p21 as well as TERT and BMI1 expression decrease. WRN inhibit MYC induced senescence.</p> <p>PMID : PMID:17055429</p> <p>MYC stimulate P53 and ARF</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_57b1aab9-a003-4a8e-98a1-58be5f9307a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9618481"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12545156"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15155580"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17550342"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23869868"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23140366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11283614"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20027199"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20713526"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> </rdf:Bag> 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inducible</p> <p>Basal TGF-b3 levels were nearly undetectable in HIF-1a –/– MEFs, demonstrating that TGF-b3 might be a HIF-1a target gene</p> <p>PMID:9278421</p> <p>PMID:10712429</p> <p>HIF1 target genes include TGFB3</p> <p>PMID:16887934</p> <p>VEGF, EG-VEGF, TGFB3 are target genes of HIF1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e1bf33e5-86ab-4b19-a2e2-1e7e3b5cfc3b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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y="2851.8057"/> </glyph> <glyph class="process" orientation="vertical" id="pr_de3e5857-cbae-48a5-9a77-4235044f1ec2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Where exactly MDM2 ubiquitinates NFAT is not known and also not known if it is in the cytosol or nucleus.</p> <p>PMID:16307918</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_13da072e-477a-457d-a822-d1ab685817ad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21506126"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17374729"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15555.311" y="17995.0"/> <port id="pr_13da072e-477a-457d-a822-d1ab685817ad_p1" x="15545.311" y="18000.0"/> <port id="pr_13da072e-477a-457d-a822-d1ab685817ad_p2" x="15575.311" y="18000.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_fc4bc8bc-ed40-40be-9dbd-e074a1992206"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6507.577" y="14280.75"/> <port id="pr_fc4bc8bc-ed40-40be-9dbd-e074a1992206_p1" x="6497.577" y="14285.75"/> <port id="pr_fc4bc8bc-ed40-40be-9dbd-e074a1992206_p2" x="6527.577" y="14285.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_844ea51a-ca10-4498-aae4-9a5b5f0ae91f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22833265</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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<p>PMID:21498506 </p> <p>Membrane-bound AMER1 acts as scaffold and brings APC to the membrane</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_61b44abe-2b3e-409b-81fb-8789f336c51e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21498506"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20759.637" y="18057.25"/> <port id="pr_61b44abe-2b3e-409b-81fb-8789f336c51e_p1" x="20764.637" y="18077.25"/> <port id="pr_61b44abe-2b3e-409b-81fb-8789f336c51e_p2" x="20764.637" y="18047.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_35fbf712-75e8-4cb3-9e6e-84fd514b0cd5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11583622</p> <p>in vitro, phosphorylation of BID has no effect on Granzyme B mediated cleavage</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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y="9599.272"/> <port id="pr_4697cc6a-317d-4107-8182-a668c9c4e43a_p2" x="20585.56" y="9599.272"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5aa1ffa-829b-44e1-8236-f3820b95f3fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21115349</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f6e13597-a26a-43ea-b1c6-301b68c88ef6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2948.5" y="10864.5"/> <port id="pr_f6e13597-a26a-43ea-b1c6-301b68c88ef6_p1" x="2938.5" y="10869.5"/> <port id="pr_f6e13597-a26a-43ea-b1c6-301b68c88ef6_p2" x="2968.5" y="10869.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_449dbfdd-525a-4ba5-a45e-b426005d1bde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4585.2812" y="17988.658"/> <port id="pr_449dbfdd-525a-4ba5-a45e-b426005d1bde_p1" x="4590.2812" y="17978.658"/> <port id="pr_449dbfdd-525a-4ba5-a45e-b426005d1bde_p2" x="4590.2812" y="18008.658"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2fab9772-9920-4f66-aedb-ab5f1f3095d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MAPKAPK2 and MAPKAPK3 are phosphorylated and activated by P38alpha and P38 beta.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2fab9772-9920-4f66-aedb-ab5f1f3095d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11228.141" y="20293.5"/> <port id="pr_2fab9772-9920-4f66-aedb-ab5f1f3095d4_p1" x="11248.141" y="20298.5"/> <port id="pr_2fab9772-9920-4f66-aedb-ab5f1f3095d4_p2" x="11218.141" y="20298.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9df077cb-893a-4d2d-9ea2-64d40b7da34b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18545270</p> <p>Regulation of TNFR1 and CD95 signalling by receptor compartmentalization</p> <p>PMID:14744430</p> <p>caspase-8 is polyubiquitylated at the DISC in response to Apo2L/TRAIL</p> <p>PMID:20531300</p> <p>PMID:19427028</p> <p>The ubiquitin-binding protein p62/sequestosome-1 promoted aggregation of CUL3-modified caspase-8 within p62-dependent foci, leading to full activation and processing of the enzyme and driving commitment to cell deathReferences_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9df077cb-893a-4d2d-9ea2-64d40b7da34b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18545270"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14744430"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20531300"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19427028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25097.81" y="9912.84"/> <port id="pr_9df077cb-893a-4d2d-9ea2-64d40b7da34b_p1" x="25117.81" y="9917.84"/> <port id="pr_9df077cb-893a-4d2d-9ea2-64d40b7da34b_p2" x="25087.81" y="9917.84"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_765fa0c1-2fdd-4576-84bb-48fa3a167575"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Link between Fanconi pathway and NER. </p> <p>Fanconi pathway is a coordination of NER, TLS and HR</p> <p>PMID:19686080, PMID:22615860</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_765fa0c1-2fdd-4576-84bb-48fa3a167575"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22615860"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11900.634" y="16521.68"/> <port id="pr_765fa0c1-2fdd-4576-84bb-48fa3a167575_p1" x="11920.634" y="16526.68"/> <port id="pr_765fa0c1-2fdd-4576-84bb-48fa3a167575_p2" x="11890.634" y="16526.68"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b211ac82-0e87-4b29-8861-6f54b5748bee"> <bbox w="10.0" h="10.0" x="18857.81" y="11695.25"/> <port id="pr_b211ac82-0e87-4b29-8861-6f54b5748bee_p1" x="18847.81" y="11700.25"/> <port id="pr_b211ac82-0e87-4b29-8861-6f54b5748bee_p2" x="18877.81" y="11700.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d7327f9-50c7-4c4f-8f69-edd7b85ee48d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5005.6387" y="17787.5"/> <port id="pr_5d7327f9-50c7-4c4f-8f69-edd7b85ee48d_p1" x="5010.6387" y="17777.5"/> <port id="pr_5d7327f9-50c7-4c4f-8f69-edd7b85ee48d_p2" x="5010.6387" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0bdba9c6-99d4-4432-9646-0be70f3ca255"> <bbox w="10.0" h="10.0" x="19291.535" y="16708.0"/> <port id="pr_0bdba9c6-99d4-4432-9646-0be70f3ca255_p1" x="19296.535" y="16728.0"/> <port id="pr_0bdba9c6-99d4-4432-9646-0be70f3ca255_p2" x="19296.535" y="16698.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3afaf056-40ab-4648-bb91-c46410b8a728"> <bbox w="10.0" h="10.0" x="26530.5" y="5730.0"/> <port id="pr_3afaf056-40ab-4648-bb91-c46410b8a728_p1" x="26535.5" y="5720.0"/> <port id="pr_3afaf056-40ab-4648-bb91-c46410b8a728_p2" x="26535.5" y="5750.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c921c1f3-9ea9-4009-928b-fb6761bf948e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18829525</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c921c1f3-9ea9-4009-928b-fb6761bf948e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18829525"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27314.56" y="19746.0"/> <port id="pr_c921c1f3-9ea9-4009-928b-fb6761bf948e_p1" x="27304.56" y="19751.0"/> <port id="pr_c921c1f3-9ea9-4009-928b-fb6761bf948e_p2" x="27334.56" y="19751.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_33a765f3-c12b-4805-9105-bc0ade376910"> <bbox w="10.0" h="10.0" x="26891.0" y="6690.0"/> <port id="pr_33a765f3-c12b-4805-9105-bc0ade376910_p1" x="26896.0" y="6680.0"/> <port id="pr_33a765f3-c12b-4805-9105-bc0ade376910_p2" x="26896.0" y="6710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_30d3b28c-1c6d-4122-ad8c-c4f1b29da0fb"> <bbox w="10.0" h="10.0" x="3739.5417" y="1386.25"/> <port id="pr_30d3b28c-1c6d-4122-ad8c-c4f1b29da0fb_p1" x="3744.5417" y="1406.25"/> <port id="pr_30d3b28c-1c6d-4122-ad8c-c4f1b29da0fb_p2" x="3744.5417" y="1376.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_de3dd38d-b64b-446a-ac77-0a5468aedd47"> <bbox w="10.0" h="10.0" x="5015.0" y="3050.0"/> <port id="pr_de3dd38d-b64b-446a-ac77-0a5468aedd47_p1" x="5020.0" y="3040.0"/> <port id="pr_de3dd38d-b64b-446a-ac77-0a5468aedd47_p2" x="5020.0" y="3070.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c5eeb4a4-e2bb-4b95-9825-c36b7cbb7ac3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23152.81" y="16475.0"/> <port id="pr_c5eeb4a4-e2bb-4b95-9825-c36b7cbb7ac3_p1" x="23172.81" y="16480.0"/> <port id="pr_c5eeb4a4-e2bb-4b95-9825-c36b7cbb7ac3_p2" x="23142.81" y="16480.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5acc2fbe-82ea-4c20-be38-f34df14a1988"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>Keratin-14, 18, 19, Vimentin are putative direct HIF1 target genes</p> <p>http://www.omicsonline.org/1948-5956/JCST-03-035.php</p> <p>Genes induced by HIF-1 in cancer cells include KRT-14, 18, 19, Vimentin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5acc2fbe-82ea-4c20-be38-f34df14a1988"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13130303"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5038.75" y="15540.5"/> <port id="pr_5acc2fbe-82ea-4c20-be38-f34df14a1988_p1" x="5028.75" y="15545.5"/> <port id="pr_5acc2fbe-82ea-4c20-be38-f34df14a1988_p2" x="5058.75" y="15545.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c1dd6cd8-6b35-4d12-a0ed-f282c4706cee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11756412</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c1dd6cd8-6b35-4d12-a0ed-f282c4706cee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756412"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13630.316" y="21435.5"/> <port id="pr_c1dd6cd8-6b35-4d12-a0ed-f282c4706cee_p1" x="13635.316" y="21425.5"/> <port id="pr_c1dd6cd8-6b35-4d12-a0ed-f282c4706cee_p2" x="13635.316" y="21455.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_49664b42-3c1c-48f6-97db-cea1b7038895"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22921829</p> <p>SMAD7 binds to SMURF1 and SMURF2. The binding involves a PY motif in SMAD7.</p> <p>PMID:11163210</p> <p>SMAD7 binds to SMURF2 to form a complex that targets the TGFBR1 for degradation.</p> <p>PMID:12151385</p> <p>Smurf1 regulates the inhibitory activity of Smad7 by targeting Smad7 to the plasma membrane.</p> <p>PMID:11278251</p> <p>Inhibitory Smad7 associates with Smurf1 in the nucleus and is exported to the cytoplasm. </p> <p>Smad7 thus recruits Smurf1 to TGFBR1, resulting in the degradation and rapid turnover of the TGFBR1 protein.</p> <p>PMID:21897371</p> <p>SMAD6 binds to SMURF1 and SMURF2</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_49664b42-3c1c-48f6-97db-cea1b7038895"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22921829"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11163210"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12151385"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11278251"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21897371"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5240.87" y="16858.215"/> <port 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id="pr_d900d2df-da7f-4f22-860a-1172dc98469a_p2" x="27916.07" y="8073.4375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_876ede6a-06d4-4b80-bce0-d2e2304af676"> <bbox w="10.0" h="10.0" x="22119.275" y="3732.9136"/> <port id="pr_876ede6a-06d4-4b80-bce0-d2e2304af676_p1" x="22124.275" y="3722.9136"/> <port id="pr_876ede6a-06d4-4b80-bce0-d2e2304af676_p2" x="22124.275" y="3752.9136"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_bc554eff-77d2-459d-b5c8-8cae03a3d506"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1258.25" y="16209.0"/> <port id="pr_bc554eff-77d2-459d-b5c8-8cae03a3d506_p1" x="1263.25" y="16199.0"/> <port id="pr_bc554eff-77d2-459d-b5c8-8cae03a3d506_p2" x="1263.25" y="16229.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3064e55d-bb65-401c-85f6-9edb5c170bdb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3064e55d-bb65-401c-85f6-9edb5c170bdb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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h="10.0" x="19026.56" y="16309.0"/> <port id="pr_adbafad7-b9da-479b-bcb3-07298f76f236_p1" x="19046.56" y="16314.0"/> <port id="pr_adbafad7-b9da-479b-bcb3-07298f76f236_p2" x="19016.56" y="16314.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_66eb62da-e644-4dbc-a8f1-4166f2b77592"> <bbox w="20.0" h="20.0" x="18834.395" y="16558.4"/> <port id="logicglyph_66eb62da-e644-4dbc-a8f1-4166f2b77592_p1" x="18844.395" y="16588.4"/> <port id="logicglyph_66eb62da-e644-4dbc-a8f1-4166f2b77592_p2" x="18844.395" y="16548.4"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3df49d16-ee04-4c9e-9e58-de4454438ba4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4577.8037" y="17690.0"/> <port id="pr_3df49d16-ee04-4c9e-9e58-de4454438ba4_p1" x="4582.8037" y="17680.0"/> <port id="pr_3df49d16-ee04-4c9e-9e58-de4454438ba4_p2" x="4582.8037" y="17710.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4e7ceb34-4975-45d1-93ef-9c7322af4603"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1980.5771" y="16833.488"/> <port id="pr_4e7ceb34-4975-45d1-93ef-9c7322af4603_p1" x="1970.5771" y="16838.488"/> <port id="pr_4e7ceb34-4975-45d1-93ef-9c7322af4603_p2" x="2000.5771" y="16838.488"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82581d6d-3c3e-48d8-9c89-6c51aceab6fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21078818</p> <p>PMID:15375164</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_82581d6d-3c3e-48d8-9c89-6c51aceab6fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21078818"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15375164"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15269.186" y="19956.75"/> <port id="pr_82581d6d-3c3e-48d8-9c89-6c51aceab6fc_p1" x="15289.186" y="19961.75"/> <port id="pr_82581d6d-3c3e-48d8-9c89-6c51aceab6fc_p2" x="15259.186" y="19961.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_08c4e76c-75e9-46b9-90de-6b42f37bd7d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20628572</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dd5d47c8-3d23-43ae-b183-e6f619436c16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:INADL"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6770.1924" y="15192.0"/> <port id="pr_dd5d47c8-3d23-43ae-b183-e6f619436c16_p1" x="6775.1924" y="15212.0"/> <port id="pr_dd5d47c8-3d23-43ae-b183-e6f619436c16_p2" x="6775.1924" y="15182.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_655325f6-8f5a-4865-94be-f6da8560c427"> <bbox w="10.0" h="10.0" x="23186.068" y="13053.25"/> <port id="pr_655325f6-8f5a-4865-94be-f6da8560c427_p1" x="23191.068" y="13073.25"/> <port id="pr_655325f6-8f5a-4865-94be-f6da8560c427_p2" x="23191.068" y="13043.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5178506f-dc1d-45dd-ad55-9dc541e4ec07"> <bbox w="10.0" h="10.0" x="14149.5" y="1695.0"/> <port id="pr_5178506f-dc1d-45dd-ad55-9dc541e4ec07_p1" x="14154.5" y="1685.0"/> <port id="pr_5178506f-dc1d-45dd-ad55-9dc541e4ec07_p2" x="14154.5" y="1715.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_88819647-243f-452b-b1b5-90a16f68849a"> <bbox w="10.0" h="10.0" x="20292.0" y="1435.0741"/> <port id="pr_88819647-243f-452b-b1b5-90a16f68849a_p1" x="20282.0" y="1440.0741"/> <port id="pr_88819647-243f-452b-b1b5-90a16f68849a_p2" x="20312.0" y="1440.0741"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4d0b6953-17d3-46a6-8033-8c788bf28484"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1714.5" y="18942.215"/> <port id="pr_4d0b6953-17d3-46a6-8033-8c788bf28484_p1" x="1704.5" y="18947.215"/> <port id="pr_4d0b6953-17d3-46a6-8033-8c788bf28484_p2" x="1734.5" y="18947.215"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a5e94fc9-8c48-461b-9ed9-5017921e47c0"> <bbox w="10.0" h="10.0" x="14185.75" y="3812.6982"/> <port id="pr_a5e94fc9-8c48-461b-9ed9-5017921e47c0_p1" x="14205.75" y="3817.6982"/> <port id="pr_a5e94fc9-8c48-461b-9ed9-5017921e47c0_p2" x="14175.75" y="3817.6982"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a39c43f0-0cc1-45fe-9542-c56f1732b9d9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARP1 poly(ADP)ribosylates SNAI1 and activates it and EMT program</p> <p>PMID:21577210</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a39c43f0-0cc1-45fe-9542-c56f1732b9d9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21577210"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11366.158" y="17205.498"/> <port id="pr_a39c43f0-0cc1-45fe-9542-c56f1732b9d9_p1" x="11356.158" y="17210.498"/> <port id="pr_a39c43f0-0cc1-45fe-9542-c56f1732b9d9_p2" x="11386.158" y="17210.498"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_86694b3d-4a79-4762-9814-211ddbe0b31d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23013.56" y="11071.5"/> <port id="pr_86694b3d-4a79-4762-9814-211ddbe0b31d_p1" x="23033.56" y="11076.5"/> <port id="pr_86694b3d-4a79-4762-9814-211ddbe0b31d_p2" x="23003.56" y="11076.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f57fdb3c-26b2-46d2-a5ec-3b0c692db08d"> <bbox w="10.0" h="10.0" x="4235.0" y="4717.25"/> <port id="pr_f57fdb3c-26b2-46d2-a5ec-3b0c692db08d_p1" x="4240.0" y="4707.25"/> <port id="pr_f57fdb3c-26b2-46d2-a5ec-3b0c692db08d_p2" x="4240.0" y="4737.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4c131cbc-f26b-46e2-ba83-96c9c5c8e75a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Calcium liberated from internal stores by IP3 acts on the calcium- and DAG-sensitive RasGRP1 and causes it to translocate to the Golgi.</p> <p>PMID:16488589</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4c131cbc-f26b-46e2-ba83-96c9c5c8e75a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7920.516" y="19138.426"/> <port id="pr_4c131cbc-f26b-46e2-ba83-96c9c5c8e75a_p1" x="7925.516" y="19158.426"/> <port 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y="10562.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1ed5022d-3726-4b5c-889a-625fc85c44d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>JNK could phosphorylate NFAT4 and NFAT2 inhibiting their nuclear translocation.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1ed5022d-3726-4b5c-889a-625fc85c44d5"> 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class="process" orientation="horizontal" id="pr_f776fba3-3eb4-4c38-8a8b-cf136d97ebf6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3636.0" y="16815.953"/> <port id="pr_f776fba3-3eb4-4c38-8a8b-cf136d97ebf6_p1" x="3626.0" y="16820.953"/> <port id="pr_f776fba3-3eb4-4c38-8a8b-cf136d97ebf6_p2" x="3656.0" y="16820.953"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dcf5d0f0-9b1c-4623-9a47-71657f81b998"> <bbox w="10.0" h="10.0" x="27799.06" y="14879.0"/> <port id="pr_dcf5d0f0-9b1c-4623-9a47-71657f81b998_p1" x="27789.06" y="14884.0"/> <port id="pr_dcf5d0f0-9b1c-4623-9a47-71657f81b998_p2" x="27819.06" y="14884.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ff76fc34-423b-4c51-b46e-afa94acc3c9b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5235.5093" y="18041.5"/> <port id="pr_ff76fc34-423b-4c51-b46e-afa94acc3c9b_p1" x="5255.5093" y="18046.5"/> <port id="pr_ff76fc34-423b-4c51-b46e-afa94acc3c9b_p2" x="5225.5093" y="18046.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a19d4845-7636-4c53-978b-efa45f23569c"> <bbox w="10.0" h="10.0" x="5139.25" y="9487.0"/> <port id="pr_a19d4845-7636-4c53-978b-efa45f23569c_p1" x="5159.25" y="9492.0"/> <port id="pr_a19d4845-7636-4c53-978b-efa45f23569c_p2" x="5129.25" y="9492.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2e1314d8-5db5-4d6b-b307-cb2a9a4d36d5"> <bbox w="10.0" h="10.0" x="27575.129" y="15935.75"/> <port id="pr_2e1314d8-5db5-4d6b-b307-cb2a9a4d36d5_p1" x="27580.129" y="15955.75"/> <port id="pr_2e1314d8-5db5-4d6b-b307-cb2a9a4d36d5_p2" x="27580.129" y="15925.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ae34dde-761e-4e25-bcbf-ced67fa8f487"> <bbox w="10.0" h="10.0" x="1355.0" y="1685.0"/> <port id="pr_2ae34dde-761e-4e25-bcbf-ced67fa8f487_p1" x="1360.0" y="1705.0"/> <port id="pr_2ae34dde-761e-4e25-bcbf-ced67fa8f487_p2" x="1360.0" y="1675.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_2dc5f3cc-d93e-4e85-a975-4226be8e193d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5387.0586" y="16177.291"/> <port id="pr_2dc5f3cc-d93e-4e85-a975-4226be8e193d_p1" x="5392.0586" y="16167.291"/> <port id="pr_2dc5f3cc-d93e-4e85-a975-4226be8e193d_p2" x="5392.0586" y="16197.291"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2814aad9-aa98-4c11-8e6e-b36102ff0781"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1950.9944" y="17552.56"/> <port id="pr_2814aad9-aa98-4c11-8e6e-b36102ff0781_p1" x="1970.9944" y="17557.56"/> <port id="pr_2814aad9-aa98-4c11-8e6e-b36102ff0781_p2" x="1940.9944" y="17557.56"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6dbfcc01-3242-4332-85a2-b0e95dfb2537"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6001.172" y="16247.791"/> <port id="pr_6dbfcc01-3242-4332-85a2-b0e95dfb2537_p1" x="5991.172" y="16252.791"/> <port id="pr_6dbfcc01-3242-4332-85a2-b0e95dfb2537_p2" x="6021.172" y="16252.791"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f4a3b0e2-c514-42b0-8947-9a2762c0d726"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16611981</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20889716</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b726a6c0-bf9c-4df9-b7a0-503e50beff93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20889716"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27281.56" y="19036.0"/> <port id="pr_b726a6c0-bf9c-4df9-b7a0-503e50beff93_p1" x="27301.56" y="19041.0"/> <port id="pr_b726a6c0-bf9c-4df9-b7a0-503e50beff93_p2" x="27271.56" y="19041.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_99d42947-a7af-4f5c-b675-0eebc636f788"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5194.0" y="16968.973"/> <port id="pr_99d42947-a7af-4f5c-b675-0eebc636f788_p1" x="5184.0" y="16973.973"/> <port id="pr_99d42947-a7af-4f5c-b675-0eebc636f788_p2" x="5214.0" y="16973.973"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ea2c9586-1dd7-4838-b75f-488867d9729d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>27588115</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3563.5" y="12218.5"/> <port id="pr_ea2c9586-1dd7-4838-b75f-488867d9729d_p1" x="3568.5" y="12208.5"/> <port id="pr_ea2c9586-1dd7-4838-b75f-488867d9729d_p2" x="3568.5" y="12238.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e38fa7da-e891-442d-a05f-2241f62ee984"> <bbox w="10.0" h="10.0" x="22448.56" y="10716.0"/> <port id="pr_e38fa7da-e891-442d-a05f-2241f62ee984_p1" x="22438.56" y="10721.0"/> <port id="pr_e38fa7da-e891-442d-a05f-2241f62ee984_p2" x="22468.56" y="10721.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a51b7c2c-abb0-4057-8a13-1fe481b9237e"> <bbox w="10.0" h="10.0" x="27412.967" y="13604.0"/> <port id="pr_a51b7c2c-abb0-4057-8a13-1fe481b9237e_p1" x="27432.967" y="13609.0"/> <port id="pr_a51b7c2c-abb0-4057-8a13-1fe481b9237e_p2" x="27402.967" y="13609.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd260036-0e0d-45bf-a124-d27297bfb6e2"> <bbox w="10.0" h="10.0" x="21425.81" y="11024.703"/> <port id="pr_bd260036-0e0d-45bf-a124-d27297bfb6e2_p1" x="21415.81" y="11029.703"/> <port id="pr_bd260036-0e0d-45bf-a124-d27297bfb6e2_p2" x="21445.81" y="11029.703"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ddc7a038-e9fc-4679-babd-0bc2c36c1c46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11287608</p> <p>in 32D murine cells, upon IL3 withdrawal, BAD cleavage</p> <p>in vitro cleavage of BAD by recombinant CASP 2,3,7,8,10, and GZMB</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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class="process" orientation="vertical" id="pr_0c43d24d-1255-4f6d-9e1c-9bb9296e7f92"> <bbox w="10.0" h="10.0" x="20419.66" y="626.25"/> <port id="pr_0c43d24d-1255-4f6d-9e1c-9bb9296e7f92_p1" x="20424.66" y="616.25"/> <port id="pr_0c43d24d-1255-4f6d-9e1c-9bb9296e7f92_p2" x="20424.66" y="646.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97836cee-68ac-457e-8cfb-c2946c8c982b"> <bbox w="10.0" h="10.0" x="17952.81" y="13254.0"/> <port id="pr_97836cee-68ac-457e-8cfb-c2946c8c982b_p1" x="17972.81" y="13259.0"/> <port id="pr_97836cee-68ac-457e-8cfb-c2946c8c982b_p2" x="17942.81" y="13259.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f55bcff8-d845-4c37-9834-7ac02005f8d5"> <bbox w="10.0" h="10.0" x="29117.176" y="5245.5"/> <port id="pr_f55bcff8-d845-4c37-9834-7ac02005f8d5_p1" x="29122.176" y="5265.5"/> <port id="pr_f55bcff8-d845-4c37-9834-7ac02005f8d5_p2" x="29122.176" y="5235.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0395c97e-fcd9-4439-a55a-c17e9548cf84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19424602</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0395c97e-fcd9-4439-a55a-c17e9548cf84"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19424602"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26800.502" y="20702.262"/> <port id="pr_0395c97e-fcd9-4439-a55a-c17e9548cf84_p1" x="26790.502" y="20707.262"/> <port id="pr_0395c97e-fcd9-4439-a55a-c17e9548cf84_p2" x="26820.502" y="20707.262"/> </glyph> <glyph class="process" orientation="vertical" id="pr_adb9c709-e134-4769-9655-986b91c10b7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22433.695" y="14530.0"/> <port id="pr_adb9c709-e134-4769-9655-986b91c10b7e_p1" x="22438.695" y="14550.0"/> <port id="pr_adb9c709-e134-4769-9655-986b91c10b7e_p2" x="22438.695" y="14520.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29d19f08-d88e-49b8-802b-a8dc396a2821"> <bbox w="10.0" h="10.0" x="23690.0" y="3750.0"/> <port id="pr_29d19f08-d88e-49b8-802b-a8dc396a2821_p1" x="23695.0" y="3740.0"/> <port id="pr_29d19f08-d88e-49b8-802b-a8dc396a2821_p2" x="23695.0" y="3770.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6b52ad4d-fd71-4ec6-8b0f-d8b1a4824911"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: reactants to re</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:9435230</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3850.25" y="16259.25"/> <port id="pr_8cc9334e-b326-44f2-90fc-85e4da747bd9_p1" x="3840.25" y="16264.25"/> <port id="pr_8cc9334e-b326-44f2-90fc-85e4da747bd9_p2" x="3870.25" y="16264.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_badd1db5-e14e-426c-9739-eb43301cdf58"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4100.116" y="18623.562"/> <port id="pr_badd1db5-e14e-426c-9739-eb43301cdf58_p1" x="4105.116" y="18643.562"/> <port id="pr_badd1db5-e14e-426c-9739-eb43301cdf58_p2" x="4105.116" y="18613.562"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6fe36465-49be-4c1d-823d-e40364a24b1a"> <bbox w="10.0" h="10.0" x="13986.088" y="5854.6875"/> <port id="pr_6fe36465-49be-4c1d-823d-e40364a24b1a_p1" x="13991.088" y="5844.6875"/> <port id="pr_6fe36465-49be-4c1d-823d-e40364a24b1a_p2" x="13991.088" y="5874.6875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7537b428-f98b-4ece-9f17-9e84290d4d67"> <bbox w="10.0" h="10.0" x="16845.506" y="17065.465"/> <port id="pr_7537b428-f98b-4ece-9f17-9e84290d4d67_p1" x="16850.506" y="17055.465"/> <port id="pr_7537b428-f98b-4ece-9f17-9e84290d4d67_p2" x="16850.506" y="17085.465"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_63988f6c-638e-427e-97c9-b3d427981f60"> <bbox w="10.0" h="10.0" x="27466.285" y="15528.75"/> <port id="pr_63988f6c-638e-427e-97c9-b3d427981f60_p1" x="27456.285" y="15533.75"/> <port id="pr_63988f6c-638e-427e-97c9-b3d427981f60_p2" x="27486.285" y="15533.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb1f1a12-990e-4bc8-83a8-79afd8dd461b"> <bbox w="10.0" h="10.0" x="1549.628" y="3155.0"/> <port id="pr_bb1f1a12-990e-4bc8-83a8-79afd8dd461b_p1" x="1554.628" y="3175.0"/> <port id="pr_bb1f1a12-990e-4bc8-83a8-79afd8dd461b_p2" x="1554.628" y="3145.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e6e836a0-726d-4d2a-a42e-f3cc09069ff8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23073834</p> <p>PGAM5L/PGAM5S activate the mitochondrial fission regulator Drp1 by dephosphorylation, thus leading to mitochondrial fission.</p> <p>PMID:22265414</p> <p>PGAM5S recruited the mitochondrial fission factor Drp1 and activated its GTPase activity by dephosphorylating the serine 637 site of Drp1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e6e836a0-726d-4d2a-a42e-f3cc09069ff8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22265414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19864.56" y="9946.0"/> <port id="pr_e6e836a0-726d-4d2a-a42e-f3cc09069ff8_p1" x="19869.56" y="9936.0"/> <port id="pr_e6e836a0-726d-4d2a-a42e-f3cc09069ff8_p2" x="19869.56" y="9966.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0a3925d4-a982-43f5-85b1-52be8d0d05aa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11274345 </p> <p>PMID:12655147</p> <p>ASK1 is a MAP3K and can activate both JNK and P38 pathways.</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1 and the consequently liberalised ASK1 binds to TRAF2. Finally TRAF2 appears to activate ASK1 (by phosphorylation) by enhancing and stabilising the oligomerisation of ASK1.</p> <p>PMID:12556535</p> <p>IGF1R signaling suppresses the ASK1-mediated stimulation of JNK/p38 thus supresses the induction of apoptosis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0a3925d4-a982-43f5-85b1-52be8d0d05aa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29051319</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2223ac85-0f2d-4f0d-bab6-dfc8d553eecb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29051319"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4091.417" y="9565.834"/> <port id="pr_2223ac85-0f2d-4f0d-bab6-dfc8d553eecb_p1" x="4096.417" y="9585.834"/> <port id="pr_2223ac85-0f2d-4f0d-bab6-dfc8d553eecb_p2" x="4096.417" y="9555.834"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a9bb12f4-970e-4aa9-b820-5297d9dad0d1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Fenton reaction</p> <p>need for a reductant, such as ascorbate</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25871.31" y="15594.25"/> <port id="pr_a9bb12f4-970e-4aa9-b820-5297d9dad0d1_p1" x="25861.31" y="15599.25"/> <port id="pr_a9bb12f4-970e-4aa9-b820-5297d9dad0d1_p2" x="25891.31" y="15599.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64fee44c-c15d-435a-9ff5-5d320216f8cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64fee44c-c15d-435a-9ff5-5d320216f8cb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6040.75" y="10400.5"/> <port id="pr_64fee44c-c15d-435a-9ff5-5d320216f8cb_p1" x="6045.75" y="10420.5"/> <port id="pr_64fee44c-c15d-435a-9ff5-5d320216f8cb_p2" x="6045.75" y="10390.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b754a4ec-7b3b-433a-ae25-d1a372c8bebe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>The most known RhoB_GDIs are ARHGDIA and ARHGDIG.</p> <p>They bind to RhoB and suppress its activation.</p> <p>PMID:11368848</p> <p>PMID:8939998</p> <p>RhoGDI-3 (ARHGDIG) interacts specifically with GDP- and GTP-bound forms of post-translationally processed RhoB and RhoG proteins.</p> <p>No interaction is found with RhoA, RhoC, or Rac1 proteins.</p> <p>RhoGDI-3 is able to inhibit GDP/GTP exchange of RhoB and to release GDP-bound but not GTP-bound RhoB from cell membranes.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b754a4ec-7b3b-433a-ae25-d1a372c8bebe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11368848"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8939998"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5692.25" y="14366.25"/> <port id="pr_b754a4ec-7b3b-433a-ae25-d1a372c8bebe_p1" x="5712.25" y="14371.25"/> <port id="pr_b754a4ec-7b3b-433a-ae25-d1a372c8bebe_p2" x="5682.25" y="14371.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f1fcdaf9-5fd3-46fa-8339-2d81996ee2a9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:11792802</p> <p>PMID:8893010</p> <p>All mammalian R-Smads and Smad4 reside in the cytoplasm</p> <p>Phosphorylated R-Smads quickly form complexes with Smad4 and possibly prior to nuclear translocation</p> <p>PMID:9389648</p> <p>Nuclear translocation of R-Smads is independent of Smad4</p> <p>Whereas translocation of Smad4 after TGFB siglaing seems to require the presence of an activated R-Smad</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f1fcdaf9-5fd3-46fa-8339-2d81996ee2a9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8893010"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9389648"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5219.0" y="16341.012"/> <port id="pr_f1fcdaf9-5fd3-46fa-8339-2d81996ee2a9_p1" x="5239.0" y="16346.012"/> <port id="pr_f1fcdaf9-5fd3-46fa-8339-2d81996ee2a9_p2" x="5209.0" y="16346.012"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2df63e13-6b8b-4452-865d-121976a4aed5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4460.5" y="16081.717"/> <port id="pr_2df63e13-6b8b-4452-865d-121976a4aed5_p1" x="4450.5" y="16086.717"/> <port id="pr_2df63e13-6b8b-4452-865d-121976a4aed5_p2" x="4480.5" y="16086.717"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c288f12e-17df-43bb-a113-de7d0ec554ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:11106668</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c288f12e-17df-43bb-a113-de7d0ec554ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11106668"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22950.314" y="9301.248"/> <port id="pr_c288f12e-17df-43bb-a113-de7d0ec554ce_p1" x="22970.314" y="9306.248"/> <port id="pr_c288f12e-17df-43bb-a113-de7d0ec554ce_p2" x="22940.314" y="9306.248"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dd5c0d25-6d73-4f99-8f1b-101220a64a0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> <p>PMID:19945467</p> <p>PMID:29435006</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dd5c0d25-6d73-4f99-8f1b-101220a64a0d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29435006"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4492.75" y="9978.5"/> <port id="pr_dd5c0d25-6d73-4f99-8f1b-101220a64a0d_p1" x="4482.75" y="9983.5"/> <port id="pr_dd5c0d25-6d73-4f99-8f1b-101220a64a0d_p2" x="4512.75" y="9983.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a36a16ab-2984-4237-b292-13e9fd0cb039"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12667443</p> <p>p53 induces apoptosis by target gene regulation and transcription-independent signaling.</p> <p>A fraction of induced p53 translocates to the mitochondria of apoptosing tumor cells. Targeting p53 to mitochondria is sufficient to launch apoptosis. </p> <p>Evidence that p53 translocation to the mitochondria occurs in vivo in irradiatedthymocytes was shown. </p> <p>Further, p53 can directly induce permeabilization of the outer mitochondrial membrane by forming complexes with the protective BCL2L1, resulting in cytochrome c release. </p> <p>p53 binds to BCL2L1 via its DNA binding domain. </p> <p>Tumor-derived transactivation-deficient mutants of p53 concomitantly lose the ability to interact with BCL2L1 and promote cytochrome c release.References_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a36a16ab-2984-4237-b292-13e9fd0cb039"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12667443"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4760.5" y="14094.25"/> <port id="pr_a36a16ab-2984-4237-b292-13e9fd0cb039_p1" x="4765.5" y="14114.25"/> <port id="pr_a36a16ab-2984-4237-b292-13e9fd0cb039_p2" x="4765.5" y="14084.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_76353cbf-bfc0-4001-8e5a-c4d921da4412"> <bbox w="10.0" h="10.0" x="21183.56" y="16649.5"/> <port id="pr_76353cbf-bfc0-4001-8e5a-c4d921da4412_p1" x="21173.56" y="16654.5"/> <port id="pr_76353cbf-bfc0-4001-8e5a-c4d921da4412_p2" x="21203.56" y="16654.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c60d7dee-e75d-443d-8165-7b1a49eb118c"> <bbox w="10.0" h="10.0" x="2170.125" y="4516.375"/> <port id="pr_c60d7dee-e75d-443d-8165-7b1a49eb118c_p1" x="2175.125" y="4506.375"/> <port id="pr_c60d7dee-e75d-443d-8165-7b1a49eb118c_p2" x="2175.125" y="4536.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45df453f-284a-44d1-8b9b-20ff97de1863"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20081843</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_45df453f-284a-44d1-8b9b-20ff97de1863"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081843"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27133.936" y="20576.34"/> <port id="pr_45df453f-284a-44d1-8b9b-20ff97de1863_p1" x="27138.936" y="20596.34"/> <port id="pr_45df453f-284a-44d1-8b9b-20ff97de1863_p2" x="27138.936" y="20566.34"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_15dc58b9-eff8-46d5-912e-3de5752262ff"> <bbox w="10.0" h="10.0" x="12145.5" y="8261.981"/> <port id="pr_15dc58b9-eff8-46d5-912e-3de5752262ff_p1" x="12165.5" y="8266.981"/> <port id="pr_15dc58b9-eff8-46d5-912e-3de5752262ff_p2" x="12135.5" y="8266.981"/> </glyph> <glyph class="process" orientation="vertical" id="pr_18391873-b1e6-4465-b18d-6245de3c3070"> <bbox w="10.0" h="10.0" x="5215.0" y="3665.0"/> <port id="pr_18391873-b1e6-4465-b18d-6245de3c3070_p1" x="5220.0" y="3655.0"/> <port id="pr_18391873-b1e6-4465-b18d-6245de3c3070_p2" x="5220.0" y="3685.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_12114fa4-a08f-432a-8830-9b5a6863cf07"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24257.06" y="10818.25"/> <port id="pr_12114fa4-a08f-432a-8830-9b5a6863cf07_p1" x="24277.06" y="10823.25"/> <port id="pr_12114fa4-a08f-432a-8830-9b5a6863cf07_p2" x="24247.06" y="10823.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8825415c-059e-4943-8140-78777408842c"> <bbox w="10.0" h="10.0" x="24677.56" y="16180.0"/> <port id="pr_8825415c-059e-4943-8140-78777408842c_p1" x="24682.56" y="16200.0"/> <port id="pr_8825415c-059e-4943-8140-78777408842c_p2" x="24682.56" y="16170.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6a35af34-d665-4f0e-88e2-0cf8602a5eef"> <bbox w="10.0" h="10.0" x="9077.436" y="18362.062"/> <port id="pr_6a35af34-d665-4f0e-88e2-0cf8602a5eef_p1" x="9067.436" y="18367.062"/> <port id="pr_6a35af34-d665-4f0e-88e2-0cf8602a5eef_p2" x="9097.436" y="18367.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_67622050-5ceb-4e43-bc53-a1ac361ff3f0"> <bbox w="10.0" h="10.0" x="2652.5" y="3600.0"/> <port id="pr_67622050-5ceb-4e43-bc53-a1ac361ff3f0_p1" x="2657.5" y="3590.0"/> <port id="pr_67622050-5ceb-4e43-bc53-a1ac361ff3f0_p2" x="2657.5" y="3620.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_493b6f05-f167-4e96-b9ec-146fb703fc44"> <bbox w="10.0" h="10.0" x="24616.81" y="9976.0"/> <port id="pr_493b6f05-f167-4e96-b9ec-146fb703fc44_p1" x="24636.81" y="9981.0"/> <port id="pr_493b6f05-f167-4e96-b9ec-146fb703fc44_p2" x="24606.81" y="9981.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_4782b765-13db-4166-b2ed-1d9f627d5e7d"> <bbox w="10.0" h="10.0" x="20857.06" y="21664.5"/> <port id="pr_4782b765-13db-4166-b2ed-1d9f627d5e7d_p1" x="20862.06" y="21684.5"/> <port id="pr_4782b765-13db-4166-b2ed-1d9f627d5e7d_p2" x="20862.06" y="21654.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bcaaa0fa-cd47-4a0b-8680-185f9ac76fef"> <bbox w="10.0" h="10.0" x="14937.104" y="1564.5"/> <port id="pr_bcaaa0fa-cd47-4a0b-8680-185f9ac76fef_p1" x="14942.104" y="1554.5"/> <port id="pr_bcaaa0fa-cd47-4a0b-8680-185f9ac76fef_p2" x="14942.104" y="1584.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9cb24d9c-24b6-493f-ae82-50414719de45"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11864996</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9cb24d9c-24b6-493f-ae82-50414719de45"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11864996"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12093.811" y="20719.5"/> <port id="pr_9cb24d9c-24b6-493f-ae82-50414719de45_p1" x="12113.811" y="20724.5"/> <port id="pr_9cb24d9c-24b6-493f-ae82-50414719de45_p2" x="12083.811" y="20724.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5754baac-37b3-4bdd-a3f1-171fd671a861"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1574.4702" y="14772.0"/> <port id="pr_5754baac-37b3-4bdd-a3f1-171fd671a861_p1" x="1579.4702" y="14792.0"/> <port id="pr_5754baac-37b3-4bdd-a3f1-171fd671a861_p2" x="1579.4702" y="14762.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e21a9b4f-1721-4f56-a36f-763cddaefd9d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10102273</p> <p>in vitro, by Akt, phosphosites identified by mutagenesis</p> <p>in 293T using phosphoFOXO1 antibodies</p> <p>PMID:18593906</p> <p>in HEK293T, by PIM1s isoform, FOXO3 phosphorylated and inactivated. Phosphomutant of FOXO3 is not phosphorylated and the expression of a reporter gene is not inhibited.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e21a9b4f-1721-4f56-a36f-763cddaefd9d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10102273"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18593906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26051.863" y="10747.432"/> <port id="pr_e21a9b4f-1721-4f56-a36f-763cddaefd9d_p1" x="26071.863" y="10752.432"/> <port id="pr_e21a9b4f-1721-4f56-a36f-763cddaefd9d_p2" x="26041.863" y="10752.432"/> </glyph> <glyph class="process" orientation="vertical" id="pr_453d40f7-8afa-458d-bfc2-58cc30b36d91"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10716435</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_453d40f7-8afa-458d-bfc2-58cc30b36d91"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10716435"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21282.16" y="16163.279"/> <port id="pr_453d40f7-8afa-458d-bfc2-58cc30b36d91_p1" x="21287.16" y="16183.279"/> <port id="pr_453d40f7-8afa-458d-bfc2-58cc30b36d91_p2" x="21287.16" y="16153.279"/> </glyph> <glyph class="process" orientation="vertical" id="pr_42e89a7e-043f-4697-b39a-3c34d2c127c5"> <bbox w="10.0" h="10.0" x="12950.492" y="12857.887"/> <port id="pr_42e89a7e-043f-4697-b39a-3c34d2c127c5_p1" x="12955.492" y="12847.887"/> <port id="pr_42e89a7e-043f-4697-b39a-3c34d2c127c5_p2" x="12955.492" y="12877.887"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0df6e154-b03c-4ad1-ab67-18be6ce48126"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5537.5" y="16180.882"/> <port id="pr_0df6e154-b03c-4ad1-ab67-18be6ce48126_p1" x="5527.5" y="16185.882"/> <port id="pr_0df6e154-b03c-4ad1-ab67-18be6ce48126_p2" x="5557.5" y="16185.882"/> </glyph> <glyph class="process" orientation="vertical" id="pr_133e72ef-2a80-40bb-b6c6-f70793c12008"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="28304.06" y="10444.0"/> <port id="pr_133e72ef-2a80-40bb-b6c6-f70793c12008_p1" x="28309.06" y="10434.0"/> <port id="pr_133e72ef-2a80-40bb-b6c6-f70793c12008_p2" x="28309.06" y="10464.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f67328a6-e36c-4b20-aa34-1ba39d0a9384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> <p>PMID:21084277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f67328a6-e36c-4b20-aa34-1ba39d0a9384"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3331.0366" y="9575.8125"/> <port id="pr_f67328a6-e36c-4b20-aa34-1ba39d0a9384_p1" x="3336.0366" y="9595.8125"/> <port id="pr_f67328a6-e36c-4b20-aa34-1ba39d0a9384_p2" x="3336.0366" y="9565.8125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d26ba670-a1ec-48b3-9d17-3d8a440e550d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d26ba670-a1ec-48b3-9d17-3d8a440e550d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19600.402" y="16176.25"/> <port id="pr_d26ba670-a1ec-48b3-9d17-3d8a440e550d_p1" x="19605.402" y="16196.25"/> <port id="pr_d26ba670-a1ec-48b3-9d17-3d8a440e550d_p2" x="19605.402" y="16166.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8d7a1622-2928-45d2-a454-9ad2b3add934"> <bbox w="10.0" h="10.0" x="29311.0" y="8427.5"/> <port id="pr_8d7a1622-2928-45d2-a454-9ad2b3add934_p1" x="29301.0" y="8432.5"/> <port id="pr_8d7a1622-2928-45d2-a454-9ad2b3add934_p2" x="29331.0" y="8432.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_74cf92fc-a2ab-4e5d-97f7-e872ab0dfb78"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Acetylation of c-Myc keeps it inactive and prevents G1/S propagation</p> <p>PMID:15522869</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_74cf92fc-a2ab-4e5d-97f7-e872ab0dfb78"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15522869"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11736.216" y="11272.643"/> <port id="pr_74cf92fc-a2ab-4e5d-97f7-e872ab0dfb78_p1" x="11741.216" y="11262.643"/> <port id="pr_74cf92fc-a2ab-4e5d-97f7-e872ab0dfb78_p2" x="11741.216" y="11292.643"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ed75ce3e-0f0d-4f9b-80e3-95408fe825e4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2418.0" y="16628.904"/> <port id="pr_ed75ce3e-0f0d-4f9b-80e3-95408fe825e4_p1" x="2408.0" y="16633.904"/> <port id="pr_ed75ce3e-0f0d-4f9b-80e3-95408fe825e4_p2" x="2438.0" y="16633.904"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_5602992f-8eaf-4dcb-99fe-5742d25ae588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22154077, PMID:17522712</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5602992f-8eaf-4dcb-99fe-5742d25ae588"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22154077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17522712"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5541.75" y="14843.0"/> <port id="pr_5602992f-8eaf-4dcb-99fe-5742d25ae588_p1" x="5531.75" y="14848.0"/> <port id="pr_5602992f-8eaf-4dcb-99fe-5742d25ae588_p2" x="5561.75" y="14848.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dffd142a-f267-4d3d-9d80-f39dbc2f2eab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>FANCM is phosphorylated by PLK1 and ubiquitinated by beta-TRCP (in the SCF complex) in response to G2/M checkpoint. Phosphorylated FANCM is degraded and FANCONI pathway is inhibited during mitosis. </p> <p>PMID:19270156, PMID:19686080</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dffd142a-f267-4d3d-9d80-f39dbc2f2eab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19270156"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16306.614" y="15480.025"/> <port id="pr_dffd142a-f267-4d3d-9d80-f39dbc2f2eab_p1" x="16296.614" y="15485.025"/> <port id="pr_dffd142a-f267-4d3d-9d80-f39dbc2f2eab_p2" x="16326.614" y="15485.025"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b6e99eb2-1057-49ba-b473-e67ae0fbbdb3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5748.958" y="14590.0"/> <port id="pr_b6e99eb2-1057-49ba-b473-e67ae0fbbdb3_p1" x="5738.958" y="14595.0"/> <port id="pr_b6e99eb2-1057-49ba-b473-e67ae0fbbdb3_p2" x="5768.958" y="14595.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b148f1e9-56e1-4ef2-ac6e-b80b1997207b"> <bbox w="10.0" h="10.0" x="27179.06" y="14784.0"/> <port id="pr_b148f1e9-56e1-4ef2-ac6e-b80b1997207b_p1" x="27169.06" y="14789.0"/> <port id="pr_b148f1e9-56e1-4ef2-ac6e-b80b1997207b_p2" x="27199.06" y="14789.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_12cb869a-038c-425d-8599-59dd217195e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17418790</p> <p>Upon hypoxia, COX4I1 degraded by LONP1 is replaced into the COX complex by COX4I2, resulting in lower ROS generation and higher electron transport chain activity</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_12cb869a-038c-425d-8599-59dd217195e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17418790"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19515.81" y="13649.0"/> <port id="pr_12cb869a-038c-425d-8599-59dd217195e7_p1" x="19535.81" y="13654.0"/> <port id="pr_12cb869a-038c-425d-8599-59dd217195e7_p2" x="19505.81" y="13654.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d97297ca-b242-444f-a8ea-48e45fabeee1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8537347</p> <p>PMID:10769036</p> <p>GAP activity of ARHGAP5 is abrogated by binding to RASA1 (p120GAP)</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d97297ca-b242-444f-a8ea-48e45fabeee1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8537347"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10769036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5733.25" y="14200.5"/> <port 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x="9375.0" y="6072.1104"/> <port id="pr_28a57679-716a-445f-8186-230f29b78c89_p2" x="9345.0" y="6072.1104"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e3021f1d-6849-4a72-8764-0f5328b06b0b"> <bbox w="10.0" h="10.0" x="28862.305" y="3955.5"/> <port id="pr_e3021f1d-6849-4a72-8764-0f5328b06b0b_p1" x="28867.305" y="3975.5"/> <port id="pr_e3021f1d-6849-4a72-8764-0f5328b06b0b_p2" x="28867.305" y="3945.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_69bfb7f4-5421-484e-9ed2-4374ca01c66b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18448.31" y="12774.0"/> <port id="pr_69bfb7f4-5421-484e-9ed2-4374ca01c66b_p1" x="18438.31" y="12779.0"/> <port id="pr_69bfb7f4-5421-484e-9ed2-4374ca01c66b_p2" x="18468.31" y="12779.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d8d53d4-74b1-4687-ba4b-188836e55933"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16831886</p> <p>PMID:18832382</p> <p>HMGA2 directly binds to the SNAIL1 promoter and acts as a transcriptional regulator of SNAIL1 expression. </p> <p>HMGA2 cooperates with SMAD3 and SMAD4 to execute a dramatic super-induction of the SNAIL1 promoter.</p> <p>Same results were obtained with SNAI2, ZEB1, ZEB2 and TWIST1</p> <p>HMGA2 cooperates with TGFB1 signaling to represse ID2 transcriptomal expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5d8d53d4-74b1-4687-ba4b-188836e55933"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16831886"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18832382"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3535.5" y="16429.5"/> <port id="pr_5d8d53d4-74b1-4687-ba4b-188836e55933_p1" x="3540.5" y="16419.5"/> <port id="pr_5d8d53d4-74b1-4687-ba4b-188836e55933_p2" x="3540.5" y="16449.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_20dfa474-2036-4faf-b62b-a3ac153b174a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1213.5" y="15370.586"/> <port id="pr_20dfa474-2036-4faf-b62b-a3ac153b174a_p1" x="1233.5" y="15375.586"/> <port id="pr_20dfa474-2036-4faf-b62b-a3ac153b174a_p2" x="1203.5" y="15375.586"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4eb5a459-91d5-4072-8b4b-9b5d6028418e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15077116</p> <p>p53 has a direct signalling role at mitochondria in the induction of apoptosis</p> <p>p53 interacts with the pro- apoptotic mitochondrial membrane protein Bak. Interaction of p53 with Bak causes oligomerization and thus activation of Bak and release of cytochrome c from mitochondria.</p> <p>Formation of the p53–Bak complex coincides with loss of an interaction between Bak and the anti-apoptotic Bcl2-family member Mcl1. </p> <p>These results are consistent with a model in which p53 and Mcl1 have opposing effects on mitochondrial apoptosis by interacting with, and modulating the activity of, the death effector Bak.References_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4eb5a459-91d5-4072-8b4b-9b5d6028418e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15077116"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4743.5" y="13693.661"/> <port id="pr_4eb5a459-91d5-4072-8b4b-9b5d6028418e_p1" x="4763.5" y="13698.661"/> <port id="pr_4eb5a459-91d5-4072-8b4b-9b5d6028418e_p2" x="4733.5" y="13698.661"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c468096f-9465-4b20-95e6-ab6ca58c08ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20008297</p> <p>ROCK1 functions as a suppressor of inflammatory cell migration by regulating PTEN phosphorylation and stability.</p> <p>PMID:22074495</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c468096f-9465-4b20-95e6-ab6ca58c08ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20008297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22074495"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4573.75" y="13331.057"/> <port id="pr_c468096f-9465-4b20-95e6-ab6ca58c08ce_p1" x="4578.75" y="13351.057"/> <port id="pr_c468096f-9465-4b20-95e6-ab6ca58c08ce_p2" x="4578.75" y="13321.057"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f9f2199-569e-4622-9802-c8c0893360f6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24726.06" y="12094.0"/> <port id="pr_6f9f2199-569e-4622-9802-c8c0893360f6_p1" x="24731.06" y="12084.0"/> <port id="pr_6f9f2199-569e-4622-9802-c8c0893360f6_p2" x="24731.06" y="12114.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aeb30353-4061-4a50-b1bb-1d0a7137e5d8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4790.2715" y="18273.625"/> <port id="pr_aeb30353-4061-4a50-b1bb-1d0a7137e5d8_p1" x="4795.2715" y="18263.625"/> <port id="pr_aeb30353-4061-4a50-b1bb-1d0a7137e5d8_p2" x="4795.2715" y="18293.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83a0a113-1318-4d35-a89b-2d36f7d12a2c"> <bbox w="10.0" h="10.0" x="25631.56" y="16464.0"/> <port id="pr_83a0a113-1318-4d35-a89b-2d36f7d12a2c_p1" x="25621.56" y="16469.0"/> <port id="pr_83a0a113-1318-4d35-a89b-2d36f7d12a2c_p2" x="25651.56" y="16469.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_14c98f45-4dec-4d43-8f90-0ba3ee9b5765"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Studies have suggested that cadherin endocytosis may occur through both caveolin-mediated and macropinocytosis-like pathways. Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin</p> <p>Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin </p> <p>In contrast, Bryant and colleagues characterized the EGF-induced internalization of E-cadherin in a breast carcinoma cell line, in which E-cadherin was internalized along with the cadherin-binding proteins p120 and β-catenin, as Rac1-modulated macropinocytosis</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_14c98f45-4dec-4d43-8f90-0ba3ee9b5765"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1816.5361" y="14563.75"/> <port id="pr_14c98f45-4dec-4d43-8f90-0ba3ee9b5765_p1" x="1821.5361" y="14583.75"/> <port id="pr_14c98f45-4dec-4d43-8f90-0ba3ee9b5765_p2" x="1821.5361" y="14553.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_86ed5e9e-4eca-474c-a00f-56dc25413f44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For BER:</p> <p>PMID:15703371, PMID:19847258, PMID:16697054</p> <p>9-1-1 complex stimulates MUTH and BER PMID:16879101</p> <p>9-1-1 complex stimulates NEIL1 glycosylase and BER PMID:17395641</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_86ed5e9e-4eca-474c-a00f-56dc25413f44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15703371"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19847258"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16697054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16879101"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17395641"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9160.643" y="15681.239"/> <port id="pr_86ed5e9e-4eca-474c-a00f-56dc25413f44_p1" x="9165.643" y="15671.239"/> <port id="pr_86ed5e9e-4eca-474c-a00f-56dc25413f44_p2" x="9165.643" y="15701.239"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_537d4fb1-7723-4cd4-841f-822f90f742e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3165.5" y="18968.25"/> <port id="pr_537d4fb1-7723-4cd4-841f-822f90f742e1_p1" x="3155.5" y="18973.25"/> <port id="pr_537d4fb1-7723-4cd4-841f-822f90f742e1_p2" x="3185.5" y="18973.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_92d3fa78-5389-4e69-95dc-30afb68da0c6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5498.0757" y="16180.291"/> <port id="pr_92d3fa78-5389-4e69-95dc-30afb68da0c6_p1" x="5488.0757" y="16185.291"/> <port id="pr_92d3fa78-5389-4e69-95dc-30afb68da0c6_p2" x="5518.0757" y="16185.291"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1ccd1034-d387-46a5-8fe6-14778eb9531d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:21900405</p> <p>MMP13 activates TGFB by cleavage of LAP</p> <p>Plasmin activates TGFB by cleavage of LAP</p> <p>MMP9 activates TGFB by cleavage of LAP</p> <p>Integrin aVb6 activates the ECM-bound latent TGFB1 and TGFB3 by traction</p> <p>Integrin aVb8 and MMP14 (so-called MT1-MMP) cooperate to activate the ECM-bound latent TGFB1 and TGFB3: </p> <p>-Integrin aVb8 binds LAP from the large latent complex</p> <p>-MMP14 then is recruited to cleave LAP</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1ccd1034-d387-46a5-8fe6-14778eb9531d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21900405"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1322.3181" y="19191.611"/> <port id="pr_1ccd1034-d387-46a5-8fe6-14778eb9531d_p1" x="1327.3181" y="19181.611"/> <port id="pr_1ccd1034-d387-46a5-8fe6-14778eb9531d_p2" x="1327.3181" y="19211.611"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69b2de18-92fb-4ab1-bded-1a29e6ca7cca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18022362</p> <p>SMAC mimetic induces cIAP auto-ubiquitinylation and degradation</p> <p>PMID:18022363</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_69b2de18-92fb-4ab1-bded-1a29e6ca7cca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18022362"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18022363"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23077.06" y="9644.25"/> <port id="pr_69b2de18-92fb-4ab1-bded-1a29e6ca7cca_p1" x="23082.06" y="9634.25"/> <port id="pr_69b2de18-92fb-4ab1-bded-1a29e6ca7cca_p2" x="23082.06" y="9664.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_edc20fb1-4c54-4dc0-9489-322ad0abd61c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>cf. Rb pathway</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21806.56" y="16719.0"/> <port id="pr_edc20fb1-4c54-4dc0-9489-322ad0abd61c_p1" x="21811.56" y="16739.0"/> <port id="pr_edc20fb1-4c54-4dc0-9489-322ad0abd61c_p2" x="21811.56" y="16709.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_607ac95b-5323-4ae4-9968-0d37857f61a0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2700.0" y="16996.898"/> <port id="pr_607ac95b-5323-4ae4-9968-0d37857f61a0_p1" x="2720.0" y="17001.898"/> <port id="pr_607ac95b-5323-4ae4-9968-0d37857f61a0_p2" x="2690.0" y="17001.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a5fd119-56db-462c-8a0b-dffcfda0080b"> <bbox w="10.0" h="10.0" x="9905.0" y="3845.0"/> <port id="pr_8a5fd119-56db-462c-8a0b-dffcfda0080b_p1" x="9910.0" y="3835.0"/> <port id="pr_8a5fd119-56db-462c-8a0b-dffcfda0080b_p2" x="9910.0" y="3865.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8dbff10c-0a2f-49cc-8019-04fd1843beaf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8dbff10c-0a2f-49cc-8019-04fd1843beaf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4206.371" y="11605.143"/> <port id="pr_8dbff10c-0a2f-49cc-8019-04fd1843beaf_p1" x="4226.371" y="11610.143"/> <port id="pr_8dbff10c-0a2f-49cc-8019-04fd1843beaf_p2" x="4196.371" y="11610.143"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cb095633-7fe5-493c-a9ac-00b66942d63e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9915703</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cb095633-7fe5-493c-a9ac-00b66942d63e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9915703"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22137.06" y="9224.0"/> <port id="pr_cb095633-7fe5-493c-a9ac-00b66942d63e_p1" x="22157.06" y="9229.0"/> <port id="pr_cb095633-7fe5-493c-a9ac-00b66942d63e_p2" x="22127.06" y="9229.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f3b31ecb-966e-44f4-aad3-7dd5e248265b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>PMID:11803371</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f3b31ecb-966e-44f4-aad3-7dd5e248265b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11803371"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22746.535" y="13284.285"/> <port id="pr_f3b31ecb-966e-44f4-aad3-7dd5e248265b_p1" x="22736.535" y="13289.285"/> <port id="pr_f3b31ecb-966e-44f4-aad3-7dd5e248265b_p2" x="22766.535" y="13289.285"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f6eeeda6-8c36-4434-b152-c7de92d98700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17409411</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f6eeeda6-8c36-4434-b152-c7de92d98700"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409411"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20766.75" y="16147.809"/> <port id="pr_f6eeeda6-8c36-4434-b152-c7de92d98700_p1" x="20771.75" y="16167.809"/> <port id="pr_f6eeeda6-8c36-4434-b152-c7de92d98700_p2" x="20771.75" y="16137.809"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a40b23e5-bfca-4b75-8fd9-751f0516eeb9"> <bbox w="10.0" h="10.0" x="27546.723" y="14461.5"/> <port id="pr_a40b23e5-bfca-4b75-8fd9-751f0516eeb9_p1" x="27551.723" y="14451.5"/> <port id="pr_a40b23e5-bfca-4b75-8fd9-751f0516eeb9_p2" x="27551.723" y="14481.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a7b9c50b-76b5-452e-a224-5a81758532cf"> <bbox w="10.0" h="10.0" x="594.5" y="4033.25"/> <port id="pr_a7b9c50b-76b5-452e-a224-5a81758532cf_p1" x="599.5" y="4023.25"/> <port id="pr_a7b9c50b-76b5-452e-a224-5a81758532cf_p2" x="599.5" y="4053.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b4d7072d-12c2-44f6-bac8-da7d8ec35363"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>from uniprot</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26315.06" y="9529.0"/> <port id="pr_b4d7072d-12c2-44f6-bac8-da7d8ec35363_p1" x="26305.06" y="9534.0"/> <port id="pr_b4d7072d-12c2-44f6-bac8-da7d8ec35363_p2" x="26335.06" y="9534.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6be27c97-7c5e-4d33-99eb-cde87d22342f"> <bbox w="10.0" h="10.0" x="22877.5" y="3251.3638"/> <port id="pr_6be27c97-7c5e-4d33-99eb-cde87d22342f_p1" x="22897.5" y="3256.3638"/> <port id="pr_6be27c97-7c5e-4d33-99eb-cde87d22342f_p2" x="22867.5" y="3256.3638"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e76ceb91-6b15-48d0-a2fc-0716f39f9de4"> <bbox w="10.0" h="10.0" x="7531.503" y="15497.949"/> <port id="pr_e76ceb91-6b15-48d0-a2fc-0716f39f9de4_p1" x="7536.503" y="15517.949"/> <port id="pr_e76ceb91-6b15-48d0-a2fc-0716f39f9de4_p2" x="7536.503" y="15487.949"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b347fc5-bd5f-40a8-8131-9225e269716d"> <bbox w="10.0" h="10.0" x="3067.374" y="3003.25"/> <port id="pr_3b347fc5-bd5f-40a8-8131-9225e269716d_p1" x="3072.374" y="3023.25"/> <port id="pr_3b347fc5-bd5f-40a8-8131-9225e269716d_p2" x="3072.374" y="2993.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_59c9e036-3191-4580-aa3b-91b9f08a55fa"> <bbox w="10.0" h="10.0" x="10858.27" y="10761.5"/> <port id="pr_59c9e036-3191-4580-aa3b-91b9f08a55fa_p1" x="10863.27" y="10781.5"/> <port id="pr_59c9e036-3191-4580-aa3b-91b9f08a55fa_p2" x="10863.27" y="10751.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6d05e46c-c749-417a-a11f-6d0209091af6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12404124</p> <p>nitric oxide inhibits acid and neutral sphingomyelinases through generation of cyclic GMP and activation of protein kinase G</p> <p>PMID:9393753</p> <p>The protein kinase C activators phorbol esters and phosphatidylserine inhibit neutral sphingomyelinase activation, ceramide generation, and apoptosis triggered by daunorubicin.</p> <p>PMID:26801188</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6d05e46c-c749-417a-a11f-6d0209091af6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12404124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9393753"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26801188"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20032.81" y="10361.5"/> <port id="pr_6d05e46c-c749-417a-a11f-6d0209091af6_p1" x="20037.81" y="10381.5"/> <port id="pr_6d05e46c-c749-417a-a11f-6d0209091af6_p2" x="20037.81" y="10351.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb423764-536d-4eef-ae26-9510b3ef1105"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16716598</p> <p>PMID:9588211</p> <p>Endothelin1 is target gene of HIF1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eb423764-536d-4eef-ae26-9510b3ef1105"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16716598"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9588211"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5174.0" y="17260.0"/> <port id="pr_eb423764-536d-4eef-ae26-9510b3ef1105_p1" x="5164.0" y="17265.0"/> <port id="pr_eb423764-536d-4eef-ae26-9510b3ef1105_p2" x="5194.0" y="17265.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e93fccd7-25fa-4686-a048-2762d8b616d0"> <bbox w="10.0" h="10.0" x="30201.0" y="8163.5"/> <port id="pr_e93fccd7-25fa-4686-a048-2762d8b616d0_p1" x="30206.0" y="8153.5"/> <port id="pr_e93fccd7-25fa-4686-a048-2762d8b616d0_p2" x="30206.0" y="8183.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7b801c38-66a4-4c42-ac53-813295f44cb3"> <bbox w="10.0" h="10.0" x="7505.0" y="3630.0"/> <port id="pr_7b801c38-66a4-4c42-ac53-813295f44cb3_p1" x="7510.0" y="3620.0"/> <port id="pr_7b801c38-66a4-4c42-ac53-813295f44cb3_p2" x="7510.0" y="3650.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4cccf8dd-b578-4e6d-8e6a-edd5ed76232c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1579.8195" y="16772.0"/> <port id="pr_4cccf8dd-b578-4e6d-8e6a-edd5ed76232c_p1" x="1599.8195" y="16777.0"/> <port id="pr_4cccf8dd-b578-4e6d-8e6a-edd5ed76232c_p2" x="1569.8195" y="16777.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9bad593-8a68-4444-a839-74c1dc863787"> <bbox w="10.0" h="10.0" x="22946.197" y="15972.25"/> <port id="pr_c9bad593-8a68-4444-a839-74c1dc863787_p1" x="22951.197" y="15992.25"/> <port id="pr_c9bad593-8a68-4444-a839-74c1dc863787_p2" x="22951.197" y="15962.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9e37514f-de81-4735-8a37-028bf3936a87"> <bbox w="10.0" h="10.0" x="22062.06" y="13784.0"/> <port id="pr_9e37514f-de81-4735-8a37-028bf3936a87_p1" x="22082.06" y="13789.0"/> <port id="pr_9e37514f-de81-4735-8a37-028bf3936a87_p2" x="22052.06" y="13789.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45da0092-b11c-4b89-967b-7162c48ae633"> <bbox w="10.0" h="10.0" x="23068.406" y="14280.785"/> <port id="pr_45da0092-b11c-4b89-967b-7162c48ae633_p1" x="23073.406" y="14270.785"/> <port id="pr_45da0092-b11c-4b89-967b-7162c48ae633_p2" x="23073.406" y="14300.785"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f69d8fd-f8b1-4864-9408-315f3f31e9db"> <bbox w="10.0" h="10.0" x="11943.792" y="7461.25"/> <port id="pr_3f69d8fd-f8b1-4864-9408-315f3f31e9db_p1" x="11948.792" y="7451.25"/> <port id="pr_3f69d8fd-f8b1-4864-9408-315f3f31e9db_p2" x="11948.792" y="7481.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2bf4fa7a-1794-4490-bf41-8c971966344e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18157158</p> <p>Ubiquitination of PCNA by RAD6-RAD18 increases affinity of PCNA to POLH and makes switch from PCNA-POLD to PCNA-POLH and stops translation and initiates TLS pathway</p> <p>PMID:15280666, PMID:18498753</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2bf4fa7a-1794-4490-bf41-8c971966344e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18157158"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15280666"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18498753"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16272.418" y="16021.422"/> <port id="pr_2bf4fa7a-1794-4490-bf41-8c971966344e_p1" x="16262.418" y="16026.422"/> <port id="pr_2bf4fa7a-1794-4490-bf41-8c971966344e_p2" x="16292.418" y="16026.422"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_ba430f38-2c1e-4710-978a-33a1a89e2ef7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5603.455" y="14937.5"/> <port id="pr_ba430f38-2c1e-4710-978a-33a1a89e2ef7_p1" x="5608.455" y="14957.5"/> <port id="pr_ba430f38-2c1e-4710-978a-33a1a89e2ef7_p2" x="5608.455" y="14927.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2791c250-aa74-41f2-b6b0-92fc7048af76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15031724</p> <p>Y2H by Y2H and coIP</p> <p>a p32 mutant defective for interaction with HRK fails to target HRK to mitochondria and protects against HRK mediated apoptosis</p> <p>p32 proposed to anchor HRK to the mitochondria</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2791c250-aa74-41f2-b6b0-92fc7048af76"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15031724"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22485.3" y="13219.0"/> <port id="pr_2791c250-aa74-41f2-b6b0-92fc7048af76_p1" x="22490.3" y="13209.0"/> <port id="pr_2791c250-aa74-41f2-b6b0-92fc7048af76_p2" x="22490.3" y="13239.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_36a6dcda-e848-4c3a-a75c-c8c01eac3a82"> <bbox w="10.0" h="10.0" x="23380.0" y="1415.0"/> <port id="pr_36a6dcda-e848-4c3a-a75c-c8c01eac3a82_p1" x="23370.0" y="1420.0"/> <port id="pr_36a6dcda-e848-4c3a-a75c-c8c01eac3a82_p2" x="23400.0" y="1420.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fca389d8-360b-4bf5-b3d5-2b8973ca1dea"> <bbox w="10.0" h="10.0" x="20325.297" y="11010.5"/> <port id="pr_fca389d8-360b-4bf5-b3d5-2b8973ca1dea_p1" x="20345.297" y="11015.5"/> <port id="pr_fca389d8-360b-4bf5-b3d5-2b8973ca1dea_p2" x="20315.297" y="11015.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e608143d-05e1-469b-b51e-a8e47cb78d88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15147722 PMID:18006823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e608143d-05e1-469b-b51e-a8e47cb78d88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15147722"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18006823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13439.561" y="20737.0"/> <port id="pr_e608143d-05e1-469b-b51e-a8e47cb78d88_p1" x="13429.561" y="20742.0"/> <port id="pr_e608143d-05e1-469b-b51e-a8e47cb78d88_p2" x="13459.561" y="20742.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_ad9db004-2488-478d-b01e-46a212c574a1"> <bbox w="20.0" h="20.0" x="13344.461" y="20701.21"/> <port id="logicglyph_ad9db004-2488-478d-b01e-46a212c574a1_p1" x="13334.461" y="20711.21"/> <port id="logicglyph_ad9db004-2488-478d-b01e-46a212c574a1_p2" x="13374.461" y="20711.21"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bfa95cd0-3b32-4e99-aae1-dc9ffcd36e93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>NLS has been found in KINDLIN2</p> <p>PMID:22699938</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bfa95cd0-3b32-4e99-aae1-dc9ffcd36e93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23362.06" y="20880.0"/> <port id="pr_bfa95cd0-3b32-4e99-aae1-dc9ffcd36e93_p1" x="23367.06" y="20870.0"/> <port id="pr_bfa95cd0-3b32-4e99-aae1-dc9ffcd36e93_p2" x="23367.06" y="20900.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c7cbe7aa-c331-44d1-b93f-5b200a86c722"> <bbox w="10.0" h="10.0" x="20864.06" y="11134.0"/> <port id="pr_c7cbe7aa-c331-44d1-b93f-5b200a86c722_p1" x="20884.06" y="11139.0"/> <port id="pr_c7cbe7aa-c331-44d1-b93f-5b200a86c722_p2" x="20854.06" y="11139.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ff6ae2d0-7476-427e-95d0-df63a0b0c1f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:15169778</p> <p>PMID:11923280</p> <p>PMID:11715018</p> <p>PMID:16697215</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ff6ae2d0-7476-427e-95d0-df63a0b0c1f7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15169778"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11923280"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11715018"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16697215"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12419.561" y="18447.0"/> <port id="pr_ff6ae2d0-7476-427e-95d0-df63a0b0c1f7_p1" x="12439.561" y="18452.0"/> <port id="pr_ff6ae2d0-7476-427e-95d0-df63a0b0c1f7_p2" x="12409.561" y="18452.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ed5142f2-3fb7-44e6-903d-66cb271e8750"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19264559</p> <p>FANCL induces UBE2T auto-ubiquitination on Lys91 by this inactivating UBE2T. This is a negative loop:</p> <p>PMID:16916645</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ed5142f2-3fb7-44e6-903d-66cb271e8750"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19264559"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16916645"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16746.867" y="16591.73"/> <port id="pr_ed5142f2-3fb7-44e6-903d-66cb271e8750_p1" x="16736.867" y="16596.73"/> <port id="pr_ed5142f2-3fb7-44e6-903d-66cb271e8750_p2" x="16766.867" y="16596.73"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00624cde-f8c7-431f-82cd-5ef2d7a5bdfe"> <bbox w="10.0" h="10.0" x="26440.81" y="9885.625"/> <port id="pr_00624cde-f8c7-431f-82cd-5ef2d7a5bdfe_p1" x="26445.81" y="9905.625"/> <port id="pr_00624cde-f8c7-431f-82cd-5ef2d7a5bdfe_p2" x="26445.81" y="9875.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c574170e-b3d0-49e0-bbe6-275cdcf317c2"> <bbox w="10.0" h="10.0" x="9905.0" y="2236.25"/> <port id="pr_c574170e-b3d0-49e0-bbe6-275cdcf317c2_p1" x="9910.0" y="2226.25"/> <port id="pr_c574170e-b3d0-49e0-bbe6-275cdcf317c2_p2" x="9910.0" y="2256.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d09325b6-4c8b-43e6-ad61-357daf968a02"> <bbox w="10.0" h="10.0" x="28276.326" y="16289.0"/> <port id="pr_d09325b6-4c8b-43e6-ad61-357daf968a02_p1" x="28266.326" y="16294.0"/> <port id="pr_d09325b6-4c8b-43e6-ad61-357daf968a02_p2" x="28296.326" y="16294.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cb55bdf2-9e97-4626-bcd5-724d9ea32afd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21727895</p> <p>PMID:21909076</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>27096756</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4613.0" y="12444.5"/> <port id="pr_d6703164-b8aa-455a-ae7a-379dd790c8ed_p1" x="4603.0" y="12449.5"/> <port id="pr_d6703164-b8aa-455a-ae7a-379dd790c8ed_p2" x="4633.0" y="12449.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_de0f0059-674c-4aab-909c-74781e491cf8"> <bbox w="10.0" h="10.0" x="26597.133" y="10446.87"/> <port id="pr_de0f0059-674c-4aab-909c-74781e491cf8_p1" x="26587.133" y="10451.87"/> <port id="pr_de0f0059-674c-4aab-909c-74781e491cf8_p2" x="26617.133" y="10451.87"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2977aeb8-e960-4831-a983-3fed0afc98a9"> <bbox w="10.0" h="10.0" x="23551.875" y="4765.0"/> <port id="pr_2977aeb8-e960-4831-a983-3fed0afc98a9_p1" x="23541.875" y="4770.0"/> <port id="pr_2977aeb8-e960-4831-a983-3fed0afc98a9_p2" x="23571.875" y="4770.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bbd4dc19-2598-45de-9272-363157dc01a1"> <bbox w="10.0" h="10.0" x="27204.06" y="15211.0"/> <port id="pr_bbd4dc19-2598-45de-9272-363157dc01a1_p1" x="27209.06" y="15201.0"/> <port id="pr_bbd4dc19-2598-45de-9272-363157dc01a1_p2" x="27209.06" y="15231.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92bc504d-a25c-42bd-983d-f260bbe97de7"> <bbox w="10.0" h="10.0" x="27214.06" y="10431.0"/> <port id="pr_92bc504d-a25c-42bd-983d-f260bbe97de7_p1" x="27219.06" y="10421.0"/> <port id="pr_92bc504d-a25c-42bd-983d-f260bbe97de7_p2" x="27219.06" y="10451.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1f2955e0-afcd-4c5b-9704-40b3fc485f8c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20370576</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1f2955e0-afcd-4c5b-9704-40b3fc485f8c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20370576"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23753.56" y="18353.5"/> <port id="pr_1f2955e0-afcd-4c5b-9704-40b3fc485f8c_p1" x="23758.56" y="18343.5"/> <port id="pr_1f2955e0-afcd-4c5b-9704-40b3fc485f8c_p2" x="23758.56" y="18373.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f80b835b-50ec-4ad4-8060-1755a254e956"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11694535</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f80b835b-50ec-4ad4-8060-1755a254e956"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11694535"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15157.811" y="17760.5"/> <port id="pr_f80b835b-50ec-4ad4-8060-1755a254e956_p1" x="15147.811" y="17765.5"/> <port id="pr_f80b835b-50ec-4ad4-8060-1755a254e956_p2" x="15177.811" y="17765.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f9dba09c-7aef-4929-b2bf-85301c789452"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> <p>PMID:19945467</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f9dba09c-7aef-4929-b2bf-85301c789452"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3351.5" y="10419.25"/> <port id="pr_f9dba09c-7aef-4929-b2bf-85301c789452_p1" x="3356.5" y="10439.25"/> <port id="pr_f9dba09c-7aef-4929-b2bf-85301c789452_p2" x="3356.5" y="10409.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fc9a4e23-14fc-47eb-b6f2-16b755f09f50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2890.5" y="17148.021"/> <port id="pr_fc9a4e23-14fc-47eb-b6f2-16b755f09f50_p1" x="2910.5" y="17153.021"/> <port id="pr_fc9a4e23-14fc-47eb-b6f2-16b755f09f50_p2" x="2880.5" y="17153.021"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0abe6882-0722-4d04-97f2-d1f008bb997c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25733.56" y="15257.0"/> <port id="pr_0abe6882-0722-4d04-97f2-d1f008bb997c_p1" x="25753.56" y="15262.0"/> <port id="pr_0abe6882-0722-4d04-97f2-d1f008bb997c_p2" x="25723.56" y="15262.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82164812-a74f-4e02-86e5-b7e9f865b55f"> <bbox w="10.0" h="10.0" x="7695.0" y="2900.0"/> <port id="pr_82164812-a74f-4e02-86e5-b7e9f865b55f_p1" x="7715.0" y="2905.0"/> <port id="pr_82164812-a74f-4e02-86e5-b7e9f865b55f_p2" x="7685.0" y="2905.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e0897e59-e6d4-407d-9310-5918cc0ffd1f"> <bbox w="10.0" h="10.0" x="11885.0" y="5568.75"/> <port id="pr_e0897e59-e6d4-407d-9310-5918cc0ffd1f_p1" x="11890.0" y="5558.75"/> <port id="pr_e0897e59-e6d4-407d-9310-5918cc0ffd1f_p2" x="11890.0" y="5588.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ab876e21-da83-4cbd-bd8a-b73f8bbd3fcc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12531547</p> <p>PMID:11279185</p> <p>CD95-mediated clustering by ceramide is prerequisite for signaling and death</p> <p>PMID:26801188</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ab876e21-da83-4cbd-bd8a-b73f8bbd3fcc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12531547"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11279185"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26801188"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22254.06" y="9352.5"/> <port id="pr_ab876e21-da83-4cbd-bd8a-b73f8bbd3fcc_p1" x="22259.06" y="9342.5"/> <port id="pr_ab876e21-da83-4cbd-bd8a-b73f8bbd3fcc_p2" x="22259.06" y="9372.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_be25ad72-6389-4508-9d06-ae1182839aef"> <bbox w="10.0" h="10.0" x="20598.006" y="15948.75"/> <port id="pr_be25ad72-6389-4508-9d06-ae1182839aef_p1" x="20603.006" y="15968.75"/> <port id="pr_be25ad72-6389-4508-9d06-ae1182839aef_p2" x="20603.006" y="15938.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ce6898ca-ae5b-42e1-a89a-2173f5000800"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1465.4812" y="18585.75"/> <port id="pr_ce6898ca-ae5b-42e1-a89a-2173f5000800_p1" x="1470.4812" y="18605.75"/> <port id="pr_ce6898ca-ae5b-42e1-a89a-2173f5000800_p2" x="1470.4812" y="18575.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_05f50755-5c1d-4eb8-b7d0-42b44f72930e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4095.4336" y="14410.5"/> <port id="pr_05f50755-5c1d-4eb8-b7d0-42b44f72930e_p1" x="4100.4336" y="14430.5"/> <port id="pr_05f50755-5c1d-4eb8-b7d0-42b44f72930e_p2" x="4100.4336" y="14400.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0f75e4eb-24ad-491e-a3f6-0327347fecac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1238.625" y="15205.194"/> <port id="pr_0f75e4eb-24ad-491e-a3f6-0327347fecac_p1" x="1258.625" y="15210.194"/> <port id="pr_0f75e4eb-24ad-491e-a3f6-0327347fecac_p2" x="1228.625" y="15210.194"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a8f263c2-a865-4881-8e88-473f837b59dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26557.81" y="10943.837"/> <port id="pr_a8f263c2-a865-4881-8e88-473f837b59dc_p1" x="26577.81" y="10948.837"/> <port id="pr_a8f263c2-a865-4881-8e88-473f837b59dc_p2" x="26547.81" y="10948.837"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_16d80858-5575-411d-a7ff-461168495750"> <bbox w="10.0" h="10.0" x="24172.566" y="15492.75"/> <port id="pr_16d80858-5575-411d-a7ff-461168495750_p1" x="24162.566" y="15497.75"/> <port id="pr_16d80858-5575-411d-a7ff-461168495750_p2" x="24192.566" y="15497.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7a933b09-de9b-41ff-b50a-afac65d46ee5"> <bbox w="10.0" h="10.0" x="19764.06" y="10579.0"/> <port id="pr_7a933b09-de9b-41ff-b50a-afac65d46ee5_p1" x="19754.06" y="10584.0"/> <port id="pr_7a933b09-de9b-41ff-b50a-afac65d46ee5_p2" x="19784.06" y="10584.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_170bbdbe-0cc5-42d1-997b-d3372520bc76"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16293631</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18692484</p> <p>BCL-W is a target of MIR122</p> <p>PMID:19654003</p> <p>in H2009 human lung adenocarcinoma cells, BCL2L2 is a target of MIR133B</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d19612b6-6807-4927-9a2b-148a22a750ec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18692484"/> </rdf:Bag> </bqbiol:isEncodedBy> 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<p>PMID:16839881</p> <p>PMID:23030059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7258d678-bdce-4baf-a05c-adb09354eb92"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839881"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21629.496" y="16163.059"/> <port id="pr_7258d678-bdce-4baf-a05c-adb09354eb92_p1" x="21634.496" y="16183.059"/> <port id="pr_7258d678-bdce-4baf-a05c-adb09354eb92_p2" x="21634.496" y="16153.059"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8cffd73d-d4de-48e0-aa8d-9f10efea7bf3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:9311995</p> <p>Smad2 and Smad3 interacted with TGFBR1 after it was phosphorylated by TGFBR2</p> <p>TGFB1 induced phosphorylation of Smad2 and Smad3</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8cffd73d-d4de-48e0-aa8d-9f10efea7bf3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9311995"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6558.75" y="16653.25"/> <port id="pr_8cffd73d-d4de-48e0-aa8d-9f10efea7bf3_p1" x="6563.75" y="16643.25"/> <port id="pr_8cffd73d-d4de-48e0-aa8d-9f10efea7bf3_p2" x="6563.75" y="16673.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d2f26190-5d89-4b31-a33e-3471038fe7d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Recruitment and phosphorylation of ERK1 on late endosomes.</p> <p>PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2f26190-5d89-4b31-a33e-3471038fe7d5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8834.646" y="20224.5"/> <port id="pr_d2f26190-5d89-4b31-a33e-3471038fe7d5_p1" x="8839.646" y="20244.5"/> <port id="pr_d2f26190-5d89-4b31-a33e-3471038fe7d5_p2" x="8839.646" y="20214.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b43c1547-411f-41b6-afdd-7ad9225b4eab"> <bbox w="10.0" h="10.0" x="27480.418" y="15935.75"/> <port id="pr_b43c1547-411f-41b6-afdd-7ad9225b4eab_p1" x="27485.418" y="15955.75"/> <port id="pr_b43c1547-411f-41b6-afdd-7ad9225b4eab_p2" x="27485.418" y="15925.75"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_8082c3a0-c854-4dd4-876d-51d54b7a434d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997 PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10873802</p> <p>PARD6 contains a PDZ domain and a Cdc42/Rac interactive binding (CRIB) motif</p> <p>PARD6 interacts with Rac1 and Cdc42 in a GTP-dependent manner</p> <p>PMID:10934475</p> <p>PARD6 binds to Cdc42/Rac1 GTPases</p> <p>PMID:10954424</p> <p>PARD6 is a binding partner for the Rho GTPases Cdc42 and Rac1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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x="18948.06" y="10449.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e9ee7f1a-bf67-4236-bc3f-baba9a590f08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19171760</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e9ee7f1a-bf67-4236-bc3f-baba9a590f08"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23204.438" y="18806.5"/> <port id="pr_e9ee7f1a-bf67-4236-bc3f-baba9a590f08_p1" x="23209.438" y="18796.5"/> <port id="pr_e9ee7f1a-bf67-4236-bc3f-baba9a590f08_p2" x="23209.438" y="18826.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d0ee326b-45fd-46f4-bbaf-00502fda994f"> <bbox w="10.0" h="10.0" x="2819.6738" y="1054.5"/> <port id="pr_d0ee326b-45fd-46f4-bbaf-00502fda994f_p1" x="2824.6738" y="1044.5"/> <port id="pr_d0ee326b-45fd-46f4-bbaf-00502fda994f_p2" x="2824.6738" y="1074.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d1c4d4f-4324-4e5d-92c4-d4f6897cc439"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23379.06" y="12834.0"/> <port id="pr_2d1c4d4f-4324-4e5d-92c4-d4f6897cc439_p1" x="23384.06" y="12854.0"/> <port id="pr_2d1c4d4f-4324-4e5d-92c4-d4f6897cc439_p2" x="23384.06" y="12824.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_38287c73-ca99-48ad-ae98-8a04d9c4a081"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CHECKPOINT is p53_dependent_G1_S_checkpoint</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13629.33" y="9285.45"/> <port id="pr_38287c73-ca99-48ad-ae98-8a04d9c4a081_p1" x="13649.33" y="9290.45"/> <port id="pr_38287c73-ca99-48ad-ae98-8a04d9c4a081_p2" x="13619.33" y="9290.45"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6fe7ca77-8fd6-445a-b0b6-2a30543723ca"> <bbox w="10.0" h="10.0" x="25797.06" y="13356.611"/> <port id="pr_6fe7ca77-8fd6-445a-b0b6-2a30543723ca_p1" x="25817.06" y="13361.611"/> <port id="pr_6fe7ca77-8fd6-445a-b0b6-2a30543723ca_p2" x="25787.06" y="13361.611"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c269794b-0c04-4aae-8129-19f84e3c2771"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19150432</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c269794b-0c04-4aae-8129-19f84e3c2771"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19150432"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22584.893" y="11776.334"/> <port id="pr_c269794b-0c04-4aae-8129-19f84e3c2771_p1" x="22574.893" y="11781.334"/> <port id="pr_c269794b-0c04-4aae-8129-19f84e3c2771_p2" x="22604.893" y="11781.334"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_08f07a0d-e704-4544-a0cb-0769b463b696"> <bbox w="10.0" h="10.0" x="16387.5" y="3985.0"/> <port id="pr_08f07a0d-e704-4544-a0cb-0769b463b696_p1" x="16377.5" y="3990.0"/> <port id="pr_08f07a0d-e704-4544-a0cb-0769b463b696_p2" x="16407.5" y="3990.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bb0cfee7-7a15-4259-9557-727837cf33c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3023.5854" y="14532.457"/> <port id="pr_bb0cfee7-7a15-4259-9557-727837cf33c9_p1" x="3013.5854" y="14537.457"/> <port id="pr_bb0cfee7-7a15-4259-9557-727837cf33c9_p2" x="3043.5854" y="14537.457"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ec25c84a-cb28-46da-b9c0-1175a0c9c72a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27328425</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ec25c84a-cb28-46da-b9c0-1175a0c9c72a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4737.0" y="12441.5"/> <port id="pr_ec25c84a-cb28-46da-b9c0-1175a0c9c72a_p1" x="4727.0" y="12446.5"/> <port id="pr_ec25c84a-cb28-46da-b9c0-1175a0c9c72a_p2" x="4757.0" y="12446.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b15a592e-dd02-4404-b503-c2e17d84b032"> <bbox w="10.0" h="10.0" x="28001.0" y="7220.0"/> <port id="pr_b15a592e-dd02-4404-b503-c2e17d84b032_p1" x="28006.0" y="7240.0"/> <port id="pr_b15a592e-dd02-4404-b503-c2e17d84b032_p2" x="28006.0" y="7210.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eac1ac7a-e696-4f7f-ae40-1e3848bd7912"> <bbox w="10.0" h="10.0" x="26189.764" y="16057.0"/> <port id="pr_eac1ac7a-e696-4f7f-ae40-1e3848bd7912_p1" x="26179.764" y="16062.0"/> <port id="pr_eac1ac7a-e696-4f7f-ae40-1e3848bd7912_p2" x="26209.764" y="16062.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e734f6ef-5ec2-4447-a877-afd334e5840f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19000719</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e734f6ef-5ec2-4447-a877-afd334e5840f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19000719"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22079.56" y="21150.0"/> <port id="pr_e734f6ef-5ec2-4447-a877-afd334e5840f_p1" x="22069.56" y="21155.0"/> <port id="pr_e734f6ef-5ec2-4447-a877-afd334e5840f_p2" x="22099.56" y="21155.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_136e3cf5-77ab-4356-9a2b-3511b527a6e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2691.0" y="14847.948"/> <port id="pr_136e3cf5-77ab-4356-9a2b-3511b527a6e7_p1" x="2711.0" y="14852.948"/> <port id="pr_136e3cf5-77ab-4356-9a2b-3511b527a6e7_p2" x="2681.0" y="14852.948"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9960b19a-d16c-44e0-8267-ba45a6504fd7"> <bbox w="10.0" h="10.0" x="6521.185" y="19916.75"/> <port id="pr_9960b19a-d16c-44e0-8267-ba45a6504fd7_p1" x="6511.185" y="19921.75"/> <port id="pr_9960b19a-d16c-44e0-8267-ba45a6504fd7_p2" x="6541.185" y="19921.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d7f97086-977c-49de-a22d-fd18bbdf8be3"> <bbox w="10.0" h="10.0" x="11659.752" y="6908.75"/> <port id="pr_d7f97086-977c-49de-a22d-fd18bbdf8be3_p1" x="11664.752" y="6898.75"/> <port id="pr_d7f97086-977c-49de-a22d-fd18bbdf8be3_p2" x="11664.752" y="6928.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e711ee31-4a91-4e62-a005-75ff4c68122c"> <bbox w="10.0" h="10.0" x="2954.06" y="21695.5"/> <port id="pr_e711ee31-4a91-4e62-a005-75ff4c68122c_p1" x="2959.06" y="21685.5"/> <port id="pr_e711ee31-4a91-4e62-a005-75ff4c68122c_p2" x="2959.06" y="21715.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f60c344-561e-40a0-9791-6a766038198e"> <bbox w="10.0" h="10.0" x="2945.0" y="4360.0"/> <port id="pr_5f60c344-561e-40a0-9791-6a766038198e_p1" x="2950.0" y="4350.0"/> <port id="pr_5f60c344-561e-40a0-9791-6a766038198e_p2" x="2950.0" y="4380.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8bea524c-0e52-4419-985f-5705e9341391"> <bbox w="10.0" h="10.0" x="28020.48" y="7543.75"/> <port id="pr_8bea524c-0e52-4419-985f-5705e9341391_p1" x="28040.48" y="7548.75"/> <port id="pr_8bea524c-0e52-4419-985f-5705e9341391_p2" x="28010.48" y="7548.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9ac9ba51-5264-41cf-b1e3-53db610bd684"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3957.5" y="16223.844"/> <port id="pr_9ac9ba51-5264-41cf-b1e3-53db610bd684_p1" x="3977.5" y="16228.844"/> <port id="pr_9ac9ba51-5264-41cf-b1e3-53db610bd684_p2" x="3947.5" y="16228.844"/> </glyph> <glyph class="process" orientation="vertical" id="pr_db0ba582-3224-435f-b2bb-a7b259242559"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>http://dnatraffic.ibb.waw.pl/classification/dna_damages</p> <p>PMID:22258607, PMID:19267553, PMID:18256616</p> <p>For activation by IR</p> <p>PMID:22258607, PMID:19267553</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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rdf:resource="urn:miriam:pubmed:19267553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12106.086" y="15200.494"/> <port id="pr_db0ba582-3224-435f-b2bb-a7b259242559_p1" x="12111.086" y="15190.494"/> <port id="pr_db0ba582-3224-435f-b2bb-a7b259242559_p2" x="12111.086" y="15220.494"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7cd2fd41-186b-4f17-acb3-e01b5c758ad2"> <bbox w="10.0" h="10.0" x="27069.06" y="12824.0"/> <port id="pr_7cd2fd41-186b-4f17-acb3-e01b5c758ad2_p1" x="27059.06" y="12829.0"/> <port id="pr_7cd2fd41-186b-4f17-acb3-e01b5c758ad2_p2" x="27089.06" y="12829.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_26bc9f7d-bb50-4b5b-acf9-0be356a3ba78"> <bbox w="10.0" h="10.0" x="27254.06" y="9281.5"/> <port id="pr_26bc9f7d-bb50-4b5b-acf9-0be356a3ba78_p1" x="27259.06" y="9271.5"/> <port id="pr_26bc9f7d-bb50-4b5b-acf9-0be356a3ba78_p2" x="27259.06" y="9301.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_f02dda9e-7a9a-450a-a4e7-7eabce7da322"> <bbox w="10.0" h="10.0" x="8004.9062" y="15340.365"/> <port id="pr_f02dda9e-7a9a-450a-a4e7-7eabce7da322_p1" x="8024.9062" y="15345.365"/> <port id="pr_f02dda9e-7a9a-450a-a4e7-7eabce7da322_p2" x="7994.9062" y="15345.365"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4c73a088-7e54-4faa-99ae-8f9873df981d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22454477</p> <p>Sphingosine mediates TNFα-induced lysosomal membrane permeabilization and ensuing programmed cell death in hepatoma cells.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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class="omitted process" orientation="horizontal" id="pr_b8009e9d-007c-4a44-aeff-bcfd0e99b674"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19219074</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b8009e9d-007c-4a44-aeff-bcfd0e99b674"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_8e67c3f7-63e3-4904-b45a-a2a7ef540d6b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID17283082.</p> <p>A domain in the a.a. sequence favors the truncation of the protein</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26192.348" y="19279.885"/> <port id="pr_8e67c3f7-63e3-4904-b45a-a2a7ef540d6b_p1" x="26197.348" y="19269.885"/> <port id="pr_8e67c3f7-63e3-4904-b45a-a2a7ef540d6b_p2" x="26197.348" y="19299.885"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7a2a7bc7-9227-48f8-a34f-c542567041f8"> <bbox w="10.0" h="10.0" x="24036.0" y="5246.082"/> <port id="pr_7a2a7bc7-9227-48f8-a34f-c542567041f8_p1" x="24056.0" y="5251.082"/> <port id="pr_7a2a7bc7-9227-48f8-a34f-c542567041f8_p2" x="24026.0" y="5251.082"/> </glyph> <glyph class="process" orientation="horizontal" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> <p>by NRF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_34a919aa-2cbd-49b0-b374-1c1270d268ad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19798.623" y="16177.75"/> <port id="pr_34a919aa-2cbd-49b0-b374-1c1270d268ad_p1" x="19803.623" y="16197.75"/> <port id="pr_34a919aa-2cbd-49b0-b374-1c1270d268ad_p2" x="19803.623" y="16167.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bb5fb5c7-9b3a-40f4-b793-794a3c22410c"> <bbox w="10.0" h="10.0" x="26252.025" y="15931.75"/> <port id="pr_bb5fb5c7-9b3a-40f4-b793-794a3c22410c_p1" x="26257.025" y="15951.75"/> <port id="pr_bb5fb5c7-9b3a-40f4-b793-794a3c22410c_p2" x="26257.025" y="15921.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_7f657eff-c174-4474-ac43-40cbd106a83a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3534.5" y="18972.082"/> <port id="pr_7f657eff-c174-4474-ac43-40cbd106a83a_p1" x="3554.5" y="18977.082"/> <port id="pr_7f657eff-c174-4474-ac43-40cbd106a83a_p2" x="3524.5" y="18977.082"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_18faeacc-09fa-4b14-90d2-80e22ab2aaee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16371504</p> <p>N-cadherin is phosphorylated by c-Src at Tyr-820, Tyr-853, Tyr-860, Tyr-884, and Tyr-886. </p> <p>Phosphorylation of Tyr-860 (Tyr-835 in E-cadherin) can disrupt cadherin binding to beta-catenin</p> <p>PMID :10402472</p> <p>We conclude that a pool of surface E-cadherin is constantly trafficked through an endocytic, recycling pathway and that this may provide a mechanism for regulating the availability of E-cadherin for junction formation in development, tissue remodeling, and tumorigenesis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18faeacc-09fa-4b14-90d2-80e22ab2aaee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16371504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2234.75" y="15616.25"/> <port id="pr_18faeacc-09fa-4b14-90d2-80e22ab2aaee_p1" x="2239.75" y="15636.25"/> <port id="pr_18faeacc-09fa-4b14-90d2-80e22ab2aaee_p2" x="2239.75" y="15606.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_956ef442-6198-467b-a5c5-fa51977a1587"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>NFATs are ADP-ribosylated. Also NFAT2 @E427, NFAT3 @E418, NFAT4@E432</p> <p>There is not special character to indicated this PTM, I have used glycosylation instead.</p> <p>PMID:18299389, PMID:18078995</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_956ef442-6198-467b-a5c5-fa51977a1587"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18299389"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18078995"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16250.811" y="20800.0"/> <port id="pr_956ef442-6198-467b-a5c5-fa51977a1587_p1" x="16255.811" y="20790.0"/> <port id="pr_956ef442-6198-467b-a5c5-fa51977a1587_p2" x="16255.811" y="20820.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff00245d-8aab-4090-9580-d537ffe5386f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>XFZ7 is normally a monomer howerver upon forced dimerisation the receptor gets activated. This phenomenom is described once in:</p> <p>PMID:12734397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ff00245d-8aab-4090-9580-d537ffe5386f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25346.06" y="18294.5"/> <port id="pr_ff00245d-8aab-4090-9580-d537ffe5386f_p1" x="25351.06" y="18284.5"/> <port id="pr_ff00245d-8aab-4090-9580-d537ffe5386f_p2" x="25351.06" y="18314.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d060526c-a2a9-42f1-a85b-cf48854b9afa"> <bbox w="10.0" h="10.0" x="27254.06" y="9169.0"/> <port id="pr_d060526c-a2a9-42f1-a85b-cf48854b9afa_p1" x="27259.06" y="9159.0"/> <port id="pr_d060526c-a2a9-42f1-a85b-cf48854b9afa_p2" x="27259.06" y="9189.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f07cb50-1385-4ec9-9ee4-05ea4677516d"> <bbox w="10.0" h="10.0" x="23540.0" y="3640.0"/> <port id="pr_5f07cb50-1385-4ec9-9ee4-05ea4677516d_p1" x="23545.0" y="3660.0"/> <port id="pr_5f07cb50-1385-4ec9-9ee4-05ea4677516d_p2" x="23545.0" y="3630.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cf03f929-9f35-448c-9a2b-c8739f9f7338"> <bbox w="10.0" h="10.0" x="27802.81" y="14903.623"/> <port id="pr_cf03f929-9f35-448c-9a2b-c8739f9f7338_p1" x="27792.81" y="14908.623"/> <port id="pr_cf03f929-9f35-448c-9a2b-c8739f9f7338_p2" x="27822.81" y="14908.623"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7f1917e2-0674-411b-bb8f-41f8a6804958"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.aPMID:23846383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7f1917e2-0674-411b-bb8f-41f8a6804958"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="reactionType:is.aurn:miriam:pubmed:23846383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27021.56" y="11782.875"/> <port id="pr_7f1917e2-0674-411b-bb8f-41f8a6804958_p1" x="27041.56" y="11787.875"/> <port id="pr_7f1917e2-0674-411b-bb8f-41f8a6804958_p2" x="27011.56" y="11787.875"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6d19737f-1531-4f1d-a758-6f563d163421"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3548.697" y="19167.008"/> <port id="pr_6d19737f-1531-4f1d-a758-6f563d163421_p1" x="3568.697" y="19172.008"/> <port id="pr_6d19737f-1531-4f1d-a758-6f563d163421_p2" x="3538.697" y="19172.008"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_127cf8a6-5de6-4005-861d-0f92720d4d4a"> <bbox w="10.0" h="10.0" x="4558.5" y="8243.559"/> <port id="pr_127cf8a6-5de6-4005-861d-0f92720d4d4a_p1" x="4578.5" y="8248.559"/> <port id="pr_127cf8a6-5de6-4005-861d-0f92720d4d4a_p2" x="4548.5" y="8248.559"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fef78219-01dd-4a72-9613-44954bfd174d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P21 is a direct substrate of AKT and this may regulate the subcellular localisation of P21. Phosphorylation of P21 by AKT correlated with its exit from the nucleus and with increased cell cycle progression.</p> <p>PMID:11882383</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fef78219-01dd-4a72-9613-44954bfd174d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11882383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7618.06" y="20342.0"/> <port id="pr_fef78219-01dd-4a72-9613-44954bfd174d_p1" x="7623.06" y="20362.0"/> <port id="pr_fef78219-01dd-4a72-9613-44954bfd174d_p2" x="7623.06" y="20332.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_881f5d5a-5be7-4844-9a10-6633a6b8c8fb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15312748</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_881f5d5a-5be7-4844-9a10-6633a6b8c8fb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15312748"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22645.148" y="16189.75"/> <port id="pr_881f5d5a-5be7-4844-9a10-6633a6b8c8fb_p1" x="22650.148" y="16209.75"/> <port id="pr_881f5d5a-5be7-4844-9a10-6633a6b8c8fb_p2" x="22650.148" y="16179.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ee48a4e-2af1-4cd4-a4a5-6294765ed226"> <bbox w="10.0" h="10.0" x="16525.0" y="2890.0"/> <port id="pr_5ee48a4e-2af1-4cd4-a4a5-6294765ed226_p1" x="16530.0" y="2880.0"/> <port id="pr_5ee48a4e-2af1-4cd4-a4a5-6294765ed226_p2" x="16530.0" y="2910.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6cb6fd05-be2e-4959-b29e-656cd48ce852"> <bbox w="10.0" h="10.0" x="11387.5" y="5920.25"/> <port id="pr_6cb6fd05-be2e-4959-b29e-656cd48ce852_p1" x="11392.5" y="5940.25"/> <port id="pr_6cb6fd05-be2e-4959-b29e-656cd48ce852_p2" x="11392.5" y="5910.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_107f4f3e-cab2-4427-9d41-f17ec44ebc88"> <bbox w="10.0" h="10.0" x="26012.266" y="2693.75"/> <port id="pr_107f4f3e-cab2-4427-9d41-f17ec44ebc88_p1" x="26017.266" y="2713.75"/> <port id="pr_107f4f3e-cab2-4427-9d41-f17ec44ebc88_p2" x="26017.266" y="2683.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e40a991-a8e1-47a9-8191-4c7b7ece85eb"> <bbox w="10.0" h="10.0" x="17620.0" y="3614.5"/> <port id="pr_6e40a991-a8e1-47a9-8191-4c7b7ece85eb_p1" x="17640.0" y="3619.5"/> <port id="pr_6e40a991-a8e1-47a9-8191-4c7b7ece85eb_p2" x="17610.0" y="3619.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c64878cb-c6b9-4b4b-a5a5-49905a9a6c4c"> <bbox w="10.0" h="10.0" x="23462.5" y="3772.5"/> <port id="pr_c64878cb-c6b9-4b4b-a5a5-49905a9a6c4c_p1" x="23467.5" y="3762.5"/> <port id="pr_c64878cb-c6b9-4b4b-a5a5-49905a9a6c4c_p2" x="23467.5" y="3792.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1dad0d7d-7cd0-4f4c-a928-0b90c85eacb0"> <bbox w="10.0" h="10.0" x="30149.0" y="2206.3335"/> <port id="pr_1dad0d7d-7cd0-4f4c-a928-0b90c85eacb0_p1" x="30169.0" y="2211.3335"/> <port id="pr_1dad0d7d-7cd0-4f4c-a928-0b90c85eacb0_p2" x="30139.0" y="2211.3335"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d4afcc22-35cd-4691-a457-99140b29eb86"> <bbox w="10.0" h="10.0" x="23654.844" y="1443.4106"/> <port id="pr_d4afcc22-35cd-4691-a457-99140b29eb86_p1" x="23644.844" y="1448.4106"/> <port id="pr_d4afcc22-35cd-4691-a457-99140b29eb86_p2" x="23674.844" y="1448.4106"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d885a63e-eca6-493b-8b00-cb997f0449e5"> <bbox w="10.0" h="10.0" x="28251.0" y="6117.5"/> <port id="pr_d885a63e-eca6-493b-8b00-cb997f0449e5_p1" x="28256.0" y="6107.5"/> <port id="pr_d885a63e-eca6-493b-8b00-cb997f0449e5_p2" x="28256.0" y="6137.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_36546439-e07a-4061-8a8e-7ee298bb7b5c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19219026</p> <p>in human P-493 B lymphoma cells</p> <p>in human PC3 prostate cancer cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_36546439-e07a-4061-8a8e-7ee298bb7b5c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19219026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24711.588" y="16181.898"/> <port id="pr_36546439-e07a-4061-8a8e-7ee298bb7b5c_p1" x="24701.588" y="16186.898"/> <port id="pr_36546439-e07a-4061-8a8e-7ee298bb7b5c_p2" x="24731.588" y="16186.898"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d399d8a9-4add-4168-8027-ad657954ba15"> <bbox w="10.0" h="10.0" x="3980.935" y="22702.0"/> <port id="pr_d399d8a9-4add-4168-8027-ad657954ba15_p1" x="4000.935" y="22707.0"/> <port id="pr_d399d8a9-4add-4168-8027-ad657954ba15_p2" x="3970.935" y="22707.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_712473ca-c19f-4cba-a5bf-21e4a21a0db8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23725295</p> <p>PMID:22166994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_712473ca-c19f-4cba-a5bf-21e4a21a0db8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23725295"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28252.227" y="11150.833"/> <port id="pr_712473ca-c19f-4cba-a5bf-21e4a21a0db8_p1" x="28272.227" y="11155.833"/> <port id="pr_712473ca-c19f-4cba-a5bf-21e4a21a0db8_p2" x="28242.227" y="11155.833"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6c166afb-0044-4df8-812a-76a73c998693"> <bbox w="10.0" h="10.0" x="14572.172" y="15681.439"/> <port id="pr_6c166afb-0044-4df8-812a-76a73c998693_p1" x="14592.172" y="15686.439"/> <port id="pr_6c166afb-0044-4df8-812a-76a73c998693_p2" x="14562.172" y="15686.439"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ff8658a3-18ca-4c87-847f-e007e839ed61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22020335</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ff8658a3-18ca-4c87-847f-e007e839ed61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22020335"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21110.06" y="22583.031"/> <port id="pr_ff8658a3-18ca-4c87-847f-e007e839ed61_p1" x="21100.06" y="22588.031"/> <port id="pr_ff8658a3-18ca-4c87-847f-e007e839ed61_p2" x="21130.06" y="22588.031"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5cc37397-cab2-439b-b0e7-2aee48fc7898"> <bbox w="10.0" h="10.0" x="4202.923" y="11447.385"/> <port id="pr_5cc37397-cab2-439b-b0e7-2aee48fc7898_p1" x="4222.923" y="11452.385"/> <port id="pr_5cc37397-cab2-439b-b0e7-2aee48fc7898_p2" x="4192.923" y="11452.385"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_beb4a0f1-ec5c-4721-8a37-4e58644e77ff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21237163</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_beb4a0f1-ec5c-4721-8a37-4e58644e77ff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21237163"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16704.908" y="18141.5"/> <port id="pr_beb4a0f1-ec5c-4721-8a37-4e58644e77ff_p1" x="16724.908" y="18146.5"/> <port id="pr_beb4a0f1-ec5c-4721-8a37-4e58644e77ff_p2" x="16694.908" y="18146.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c7942305-989e-49d5-acda-38c3c6e5dc63"> <bbox w="10.0" h="10.0" x="28504.668" y="13772.75"/> <port id="pr_c7942305-989e-49d5-acda-38c3c6e5dc63_p1" x="28509.668" y="13792.75"/> <port id="pr_c7942305-989e-49d5-acda-38c3c6e5dc63_p2" x="28509.668" y="13762.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e9ecb3cd-2ed4-4b91-8157-ba32a587c213"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15509864</p> <p>review</p> <p>PMID:16054095</p> <p>by CAMKK2</p> <p>PMID:16054096</p> <p>PMID:17244528</p> <p>by calcium via CAMKK2 and AMPK</p> <p>PMID:15980064</p> <p>by CAMKK</p> <p>PMID:18692468</p> <p>propose that SESN2 promotes AMPK autophosphorylation, thus increasing TSC1/2 activity.</p> <p>PMID:19197243</p> <p>in RPE1-hTERT mouse inner medullary collecting duct cells, in MEFs, in MCF10A, by TAK1, upon TRAIL exposure</p> <p>in MCF10A upon Ca2+ by CAMKK2</p> <p>High Calcium lvl activate CAMKK2 enzyme and leads to AMPK activation</p> <p>PMID:19037093PMID:17244528</p> <p>PMID:20484410</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:10559945</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b364486d-4a19-4f21-9ba6-118b4b2560f5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559945"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27171.81" y="19722.652"/> <port id="pr_b364486d-4a19-4f21-9ba6-118b4b2560f5_p1" x="27161.81" y="19727.652"/> <port id="pr_b364486d-4a19-4f21-9ba6-118b4b2560f5_p2" x="27191.81" y="19727.652"/> </glyph> <glyph class="process" orientation="vertical" id="pr_06a4e82e-283a-452c-a4c9-356a4729c1cf"> <bbox w="10.0" h="10.0" x="11450.961" y="5717.5"/> <port id="pr_06a4e82e-283a-452c-a4c9-356a4729c1cf_p1" x="11455.961" y="5737.5"/> <port id="pr_06a4e82e-283a-452c-a4c9-356a4729c1cf_p2" x="11455.961" y="5707.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e33ed37-f92d-46c4-8749-67c26fe89c60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5870.784" y="18855.25"/> <port id="pr_3e33ed37-f92d-46c4-8749-67c26fe89c60_p1" x="5875.784" y="18845.25"/> <port id="pr_3e33ed37-f92d-46c4-8749-67c26fe89c60_p2" x="5875.784" y="18875.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ee9bf283-a9e2-4571-8622-b5a6149aca61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21606194 PMID:21285348 </p> <p>DVL is again phosphorylated to form PS-DVL. This isoform of DVL leads to depolimerisation of DVL and even distribution in the cell. Which CK1 isoform catalyses this reaction is unknown</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ee9bf283-a9e2-4571-8622-b5a6149aca61"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21606194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285348"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21948.246" y="19744.29"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1245.8062" y="15350.0"/> <port id="pr_888f84fe-b7b0-43da-9d85-987e69b19517_p1" x="1250.8062" y="15340.0"/> <port id="pr_888f84fe-b7b0-43da-9d85-987e69b19517_p2" x="1250.8062" y="15370.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_471c9086-0f85-4c68-b767-67c7323aacd6"> <bbox w="10.0" h="10.0" x="21781.25" y="5361.25"/> <port id="pr_471c9086-0f85-4c68-b767-67c7323aacd6_p1" x="21786.25" y="5351.25"/> <port id="pr_471c9086-0f85-4c68-b767-67c7323aacd6_p2" x="21786.25" y="5381.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_16fba3d8-23a8-44ad-8bb1-66374f104a2c"> <bbox w="10.0" h="10.0" x="27571.0" y="3805.0"/> <port id="pr_16fba3d8-23a8-44ad-8bb1-66374f104a2c_p1" x="27576.0" y="3795.0"/> <port id="pr_16fba3d8-23a8-44ad-8bb1-66374f104a2c_p2" x="27576.0" y="3825.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_872c1669-811f-4143-a117-84fdaf3ea9bd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Link between Fanconi pathway and HR. </p> <p>Fanconi pathway is a coordination of NER, TLS and HR</p> <p>PMID:19686080:G</p> <p>POLH activates D-loop extension. PoLN:HEL308* participate in HR and Fanconi. PolN:FANCD2:FANCI complex activate HR:</p> <p>PMID:16337602</p> <p>For role of SMARCAL1/RPA in stalled replication fork repair and in the homologous recombination:</p> <p>PMID:19841479, PMID:19793861, PMID:19793862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_872c1669-811f-4143-a117-84fdaf3ea9bd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080:G"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16337602"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19841479"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793861"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19793862"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14947.722" y="15902.975"/> <port id="pr_872c1669-811f-4143-a117-84fdaf3ea9bd_p1" x="14967.722" y="15907.975"/> <port id="pr_872c1669-811f-4143-a117-84fdaf3ea9bd_p2" x="14937.722" y="15907.975"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bb9f35d0-2f77-42ac-94b1-4f75c86ef694"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6699.7656" y="18882.883"/> <port id="pr_bb9f35d0-2f77-42ac-94b1-4f75c86ef694_p1" x="6719.7656" y="18887.883"/> <port id="pr_bb9f35d0-2f77-42ac-94b1-4f75c86ef694_p2" x="6689.7656" y="18887.883"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ccdb6cf2-614c-4d89-83e9-bad3448e1e39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>JNK phosphorylates MST1 at serine 82 which leads to the enhancement of MST1 activation. The activation of MST1 phosphorylates FOXO3 at serine 207 and promotes cell death.</p> <p>PMID:20028971</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ccdb6cf2-614c-4d89-83e9-bad3448e1e39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20028971"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9978.061" y="20527.0"/> <port id="pr_ccdb6cf2-614c-4d89-83e9-bad3448e1e39_p1" x="9983.061" y="20547.0"/> <port id="pr_ccdb6cf2-614c-4d89-83e9-bad3448e1e39_p2" x="9983.061" y="20517.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_54785779-5cb3-4d9f-bd54-5417872142bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12668723</p> <p>Snail binds directly to the E-boxes of the promoters of claudin et occludin genes, resulting in complete repression of their promoter activity</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Cadherin internalization can occur through either clathrin-mediated, caveolin-mediated, or macropinocytosis-like pathways. Internalized cadherin is then sorted either for lysosomal degradation or recycling back to the plasma membrane.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f2fe3c0-2650-4aa0-88f3-320a56ea1586"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1915.5" y="14498.0"/> <port 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<head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15657420</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_02dc57be-9be4-45b4-9eff-0c69ceeeb387"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15657420"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15314.561" y="20985.352"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3164.0" y="16407.0"/> <port id="pr_0a55da74-46cd-41a7-9f68-cc92327fff95_p1" x="3184.0" y="16412.0"/> <port id="pr_0a55da74-46cd-41a7-9f68-cc92327fff95_p2" x="3154.0" y="16412.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9b7c67ec-1541-4908-98d9-4a2d1eaf8409"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9b7c67ec-1541-4908-98d9-4a2d1eaf8409"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3798.75" y="11257.75"/> <port id="pr_9b7c67ec-1541-4908-98d9-4a2d1eaf8409_p1" x="3803.75" y="11247.75"/> <port id="pr_9b7c67ec-1541-4908-98d9-4a2d1eaf8409_p2" x="3803.75" y="11277.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c7d4fa8b-cd34-4514-aa3c-d0b07a1e394d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>A mitochondrial pool of Raf-1 (C-RAF) molecules which do not activate MEK reportedly exert their prosurvival effects upstream of cytochrome c release by phosphorylating the pro-apoptotic Bcl-2 family member BAD. Phosphorylation of BAD results in its translocation to the cytosol and ultimately in the inhibition of cytochrome c release.</p> <p>PMID:12107820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c7d4fa8b-cd34-4514-aa3c-d0b07a1e394d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12107820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7523.8164" y="20330.041"/> <port id="pr_c7d4fa8b-cd34-4514-aa3c-d0b07a1e394d_p1" x="7528.8164" y="20320.041"/> <port id="pr_c7d4fa8b-cd34-4514-aa3c-d0b07a1e394d_p2" x="7528.8164" y="20350.041"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1a332511-5329-4d11-aa23-6808dc2cffba"> <bbox w="10.0" h="10.0" x="4578.25" y="4958.877"/> <port id="pr_1a332511-5329-4d11-aa23-6808dc2cffba_p1" x="4598.25" y="4963.877"/> <port id="pr_1a332511-5329-4d11-aa23-6808dc2cffba_p2" x="4568.25" y="4963.877"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8a6edc69-3884-452a-8405-6a8139103dca"> <bbox w="10.0" h="10.0" x="4349.25" y="11294.75"/> <port id="pr_8a6edc69-3884-452a-8405-6a8139103dca_p1" x="4354.25" y="11284.75"/> <port id="pr_8a6edc69-3884-452a-8405-6a8139103dca_p2" x="4354.25" y="11314.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d3cdcf18-8a79-4793-857c-5e6b36f16651"> <bbox w="10.0" h="10.0" x="20982.64" y="3749.5"/> <port id="pr_d3cdcf18-8a79-4793-857c-5e6b36f16651_p1" x="20987.64" y="3769.5"/> <port id="pr_d3cdcf18-8a79-4793-857c-5e6b36f16651_p2" x="20987.64" y="3739.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d5e10ac9-7c8c-4ff6-b379-2f6494a070a1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1472.5" y="12777.5"/> <port id="pr_d5e10ac9-7c8c-4ff6-b379-2f6494a070a1_p1" x="1462.5" y="12782.5"/> <port id="pr_d5e10ac9-7c8c-4ff6-b379-2f6494a070a1_p2" x="1492.5" y="12782.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_245bd97f-3340-42e4-8054-a239be2b14dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23318.215" y="9363.368"/> <port id="pr_245bd97f-3340-42e4-8054-a239be2b14dd_p1" x="23323.215" y="9353.368"/> <port id="pr_245bd97f-3340-42e4-8054-a239be2b14dd_p2" x="23323.215" y="9383.368"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4fc65e94-9d3d-4265-ad9a-43a2d6235972"> <bbox w="10.0" h="10.0" x="26030.363" y="15900.25"/> <port id="pr_4fc65e94-9d3d-4265-ad9a-43a2d6235972_p1" x="26035.363" y="15920.25"/> <port id="pr_4fc65e94-9d3d-4265-ad9a-43a2d6235972_p2" x="26035.363" y="15890.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_62aeef10-f6de-4e86-8f52-6e370ce36a50"> <bbox w="10.0" h="10.0" x="28871.0" y="4427.5"/> <port id="pr_62aeef10-f6de-4e86-8f52-6e370ce36a50_p1" x="28876.0" y="4447.5"/> <port id="pr_62aeef10-f6de-4e86-8f52-6e370ce36a50_p2" x="28876.0" y="4417.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_11851ef7-5dea-4bab-a474-22dc5484c80d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>AP-1 is a heterodimer comprised of bZIP transcription factors typically C-JUN and JUND along with members of the fos (usually c-FOS) and ATF (usually ATF2) families. All bZIP transcription factors contain leucine zippers that enable homo- and heterodimerisation and AP-1 components are organised into JUN-JUN JUN-FOS or JUN-ATF dimers.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_11851ef7-5dea-4bab-a474-22dc5484c80d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9417.057" y="20641.094"/> <port id="pr_11851ef7-5dea-4bab-a474-22dc5484c80d_p1" x="9437.057" y="20646.094"/> <port id="pr_11851ef7-5dea-4bab-a474-22dc5484c80d_p2" x="9407.057" y="20646.094"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1ad3aed2-be83-40c2-869a-3acb6609c431"> <bbox w="10.0" h="10.0" x="20186.322" y="3070.0"/> <port id="pr_1ad3aed2-be83-40c2-869a-3acb6609c431_p1" x="20191.322" y="3060.0"/> <port id="pr_1ad3aed2-be83-40c2-869a-3acb6609c431_p2" x="20191.322" y="3090.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e27cb029-9ccf-499e-9dc1-5b20a96651d4"> <bbox w="10.0" h="10.0" x="14200.0" y="1790.0"/> <port id="pr_e27cb029-9ccf-499e-9dc1-5b20a96651d4_p1" x="14205.0" y="1810.0"/> <port id="pr_e27cb029-9ccf-499e-9dc1-5b20a96651d4_p2" x="14205.0" y="1780.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2690b5a6-ee34-48b4-8294-39efc5f2d79e"> <bbox w="10.0" h="10.0" x="13205.0" y="2173.75"/> <port id="pr_2690b5a6-ee34-48b4-8294-39efc5f2d79e_p1" x="13210.0" y="2193.75"/> <port id="pr_2690b5a6-ee34-48b4-8294-39efc5f2d79e_p2" x="13210.0" y="2163.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6566a7c5-fbd6-44ba-b8d1-ae588252c121"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6566a7c5-fbd6-44ba-b8d1-ae588252c121"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3434.0" y="10299.5"/> <port id="pr_6566a7c5-fbd6-44ba-b8d1-ae588252c121_p1" x="3454.0" y="10304.5"/> <port id="pr_6566a7c5-fbd6-44ba-b8d1-ae588252c121_p2" x="3424.0" y="10304.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4bc3909b-da66-44cc-99ac-6b232d9c67e9"> <bbox w="10.0" h="10.0" x="28607.81" y="15434.0"/> <port id="pr_4bc3909b-da66-44cc-99ac-6b232d9c67e9_p1" x="28612.81" y="15424.0"/> <port id="pr_4bc3909b-da66-44cc-99ac-6b232d9c67e9_p2" x="28612.81" y="15454.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_33403151-6641-43c2-be2f-ae948bcb33e3"> <bbox w="10.0" h="10.0" x="12003.223" y="1487.0"/> <port id="pr_33403151-6641-43c2-be2f-ae948bcb33e3_p1" x="12008.223" y="1477.0"/> <port id="pr_33403151-6641-43c2-be2f-ae948bcb33e3_p2" x="12008.223" y="1507.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_533b25de-ac0f-4e53-9fd2-ae246cf23b64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20818389</p> <p>Physical interaction between BMI1 and TWIST1</p> <p>E-Cadherin repression by cooperative BMI1 and TWIST1</p> <p>p16INK4A repression by cooperative BMI1 and TWIST1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_533b25de-ac0f-4e53-9fd2-ae246cf23b64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20818389"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2970.25" y="16220.223"/> <port id="pr_533b25de-ac0f-4e53-9fd2-ae246cf23b64_p1" x="2990.25" y="16225.223"/> <port id="pr_533b25de-ac0f-4e53-9fd2-ae246cf23b64_p2" x="2960.25" y="16225.223"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b24f82c9-bc06-4550-b009-1ce9d25d7141"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Formation of P14/MP1/MEK1 complex is required to activate the ERK cascade (and other processes) on late endosomes.</p> <p>PMID:17178906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b24f82c9-bc06-4550-b009-1ce9d25d7141"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17178906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8879.905" y="19930.844"/> <port id="pr_b24f82c9-bc06-4550-b009-1ce9d25d7141_p1" x="8899.905" y="19935.844"/> <port id="pr_b24f82c9-bc06-4550-b009-1ce9d25d7141_p2" x="8869.905" y="19935.844"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_828bf991-f328-4e06-b1a4-fcdca2ac9c29"> <bbox w="10.0" h="10.0" x="25064.06" y="11804.0"/> <port id="pr_828bf991-f328-4e06-b1a4-fcdca2ac9c29_p1" x="25054.06" y="11809.0"/> <port id="pr_828bf991-f328-4e06-b1a4-fcdca2ac9c29_p2" x="25084.06" y="11809.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1efe57ce-902f-4452-b130-53e073b3c625"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activation of ERK pathway caused the dissociation of the MP1/ERK1 complex.</p> <p>MP1 constitutively binds MEK1 but releases ERK/MODULE:MAPK after activation. This turnover could provide an amplification mechanism that translates low MEK activity into sustained ERK/MODULE:MAPK activation in which MP1 continues to supply MEK1 with inactive ERK/MODULE:MAPK for phosphorylation.</p> <p>PMID:15547943 PMID:16227978</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1efe57ce-902f-4452-b130-53e073b3c625"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15547943"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16227978"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8752.558" y="20228.613"/> <port id="pr_1efe57ce-902f-4452-b130-53e073b3c625_p1" x="8757.558" y="20218.613"/> <port id="pr_1efe57ce-902f-4452-b130-53e073b3c625_p2" x="8757.558" y="20248.613"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ae2426bd-d185-4197-ac02-72f75b5351c5"> <bbox w="10.0" h="10.0" x="14355.0" y="2580.0"/> <port id="pr_ae2426bd-d185-4197-ac02-72f75b5351c5_p1" x="14360.0" y="2600.0"/> <port id="pr_ae2426bd-d185-4197-ac02-72f75b5351c5_p2" x="14360.0" y="2570.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a566e2bc-0e96-45fd-b0a0-1ac30177b802"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15184672</p> <p>in Jurkat, nitrosothiol mediated S-nitrosylation of IKKbeta Cys179 correlates with its inactivation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a566e2bc-0e96-45fd-b0a0-1ac30177b802"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15184672"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22951.06" y="10136.0"/> <port id="pr_a566e2bc-0e96-45fd-b0a0-1ac30177b802_p1" x="22956.06" y="10156.0"/> <port id="pr_a566e2bc-0e96-45fd-b0a0-1ac30177b802_p2" x="22956.06" y="10126.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_efe8cd80-5cde-43c2-b796-5713a0abdd1e"> <bbox w="10.0" h="10.0" x="23283.56" y="10256.0"/> <port id="pr_efe8cd80-5cde-43c2-b796-5713a0abdd1e_p1" x="23303.56" y="10261.0"/> <port id="pr_efe8cd80-5cde-43c2-b796-5713a0abdd1e_p2" x="23273.56" y="10261.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_d2ebeb1b-11b1-440b-9f5e-2b5ad1ef73e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3039.25" y="18742.81"/> <port id="pr_d2ebeb1b-11b1-440b-9f5e-2b5ad1ef73e1_p1" x="3059.25" y="18747.81"/> <port id="pr_d2ebeb1b-11b1-440b-9f5e-2b5ad1ef73e1_p2" x="3029.25" y="18747.81"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b3840920-340c-4d97-b0a5-6e75330ea7fc"> <bbox w="10.0" h="10.0" x="27316.19" y="13981.051"/> <port id="pr_b3840920-340c-4d97-b0a5-6e75330ea7fc_p1" x="27306.19" y="13986.051"/> <port id="pr_b3840920-340c-4d97-b0a5-6e75330ea7fc_p2" x="27336.19" y="13986.051"/> </glyph> <glyph class="process" orientation="vertical" id="pr_06c74970-dde8-474d-8a26-0a7370110d1d"> <bbox w="10.0" h="10.0" x="23540.0" y="3556.25"/> <port id="pr_06c74970-dde8-474d-8a26-0a7370110d1d_p1" x="23545.0" y="3576.25"/> <port id="pr_06c74970-dde8-474d-8a26-0a7370110d1d_p2" x="23545.0" y="3546.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_64ea3e11-6f24-4596-8252-9575c239395c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2863.75" y="14989.5"/> <port id="pr_64ea3e11-6f24-4596-8252-9575c239395c_p1" x="2883.75" y="14994.5"/> <port id="pr_64ea3e11-6f24-4596-8252-9575c239395c_p2" x="2853.75" y="14994.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_324f0042-8535-4e4e-86f1-ff47cf79c6b7"> <bbox w="10.0" h="10.0" x="3734.0" y="1215.0"/> <port id="pr_324f0042-8535-4e4e-86f1-ff47cf79c6b7_p1" x="3739.0" y="1205.0"/> <port id="pr_324f0042-8535-4e4e-86f1-ff47cf79c6b7_p2" x="3739.0" y="1235.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ae312d90-644d-44e6-ad9e-6799bc5fb1dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17967870</p> <p>in HEK293</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ae312d90-644d-44e6-ad9e-6799bc5fb1dc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17967870"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24014.06" y="12144.0"/> <port id="pr_ae312d90-644d-44e6-ad9e-6799bc5fb1dc_p1" x="24019.06" y="12164.0"/> <port id="pr_ae312d90-644d-44e6-ad9e-6799bc5fb1dc_p2" x="24019.06" y="12134.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ca3f96ff-3218-4b60-8dc5-2e0d66f5913f"> <bbox w="10.0" h="10.0" x="29014.06" y="13024.0"/> <port id="pr_ca3f96ff-3218-4b60-8dc5-2e0d66f5913f_p1" x="29004.06" y="13029.0"/> <port id="pr_ca3f96ff-3218-4b60-8dc5-2e0d66f5913f_p2" x="29034.06" y="13029.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e4ee16e-ced5-452a-91aa-2ef6a1e0494e"> <bbox w="10.0" h="10.0" x="4108.5" y="10576.75"/> <port id="pr_6e4ee16e-ced5-452a-91aa-2ef6a1e0494e_p1" x="4128.5" y="10581.75"/> <port id="pr_6e4ee16e-ced5-452a-91aa-2ef6a1e0494e_p2" x="4098.5" y="10581.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8f4ab50-65da-4c48-b05c-c80da40fa19b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f8f4ab50-65da-4c48-b05c-c80da40fa19b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11154281"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12454.436" y="20486.25"/> <port id="pr_f8f4ab50-65da-4c48-b05c-c80da40fa19b_p1" x="12474.436" y="20491.25"/> <port id="pr_f8f4ab50-65da-4c48-b05c-c80da40fa19b_p2" x="12444.436" y="20491.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b9ce21cc-8c7a-439a-9394-c5d53dd4505e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17693255</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b9ce21cc-8c7a-439a-9394-c5d53dd4505e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17693255"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25787.81" y="11880.926"/> <port id="pr_b9ce21cc-8c7a-439a-9394-c5d53dd4505e_p1" x="25807.81" y="11885.926"/> <port 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y="11239.123"/> <port id="pr_f6607160-daa2-4483-b150-cbab4dffed51_p1" x="18592.61" y="11244.123"/> <port id="pr_f6607160-daa2-4483-b150-cbab4dffed51_p2" x="18622.61" y="11244.123"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_8318e7d5-6866-403e-9dbb-a8ce8ff3a197"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1050.5" y="14242.5"/> <port id="pr_8318e7d5-6866-403e-9dbb-a8ce8ff3a197_p1" x="1055.5" y="14262.5"/> <port id="pr_8318e7d5-6866-403e-9dbb-a8ce8ff3a197_p2" x="1055.5" y="14232.5"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_6cb5a1b0-34be-4da8-89e5-676c9ca366c7"> <bbox w="20.0" h="20.0" x="1032.667" y="14261.0"/> <port id="logicglyph_6cb5a1b0-34be-4da8-89e5-676c9ca366c7_p1" x="1042.667" y="14291.0"/> 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<notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1298.5608" y="17479.0"/> <port id="pr_000d53c1-75fb-4ef5-9184-08ef13a17100_p1" x="1318.5608" y="17484.0"/> <port id="pr_000d53c1-75fb-4ef5-9184-08ef13a17100_p2" x="1288.5608" y="17484.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9e42af9-bdc2-4af5-80a5-1b429742f3ac"> <bbox w="10.0" h="10.0" x="15328.0" y="3526.0"/> <port id="pr_c9e42af9-bdc2-4af5-80a5-1b429742f3ac_p1" x="15333.0" y="3516.0"/> <port id="pr_c9e42af9-bdc2-4af5-80a5-1b429742f3ac_p2" x="15333.0" y="3546.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d0d8ea27-eafd-43ed-a975-731be1dcd72d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25281.06" y="19494.5"/> <port id="pr_d0d8ea27-eafd-43ed-a975-731be1dcd72d_p1" x="25301.06" y="19499.5"/> <port id="pr_d0d8ea27-eafd-43ed-a975-731be1dcd72d_p2" x="25271.06" y="19499.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5f958c98-3c47-4ec8-b283-d4bb5684a7d3"> <bbox w="10.0" h="10.0" x="4495.75" y="10383.5"/> <port id="pr_5f958c98-3c47-4ec8-b283-d4bb5684a7d3_p1" x="4515.75" y="10388.5"/> <port id="pr_5f958c98-3c47-4ec8-b283-d4bb5684a7d3_p2" x="4485.75" y="10388.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0c5d2731-c351-4e86-8422-dd7334b0628a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Site is adjacent to the NLS2 in APC</p> <p>PMID:11689703</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0c5d2731-c351-4e86-8422-dd7334b0628a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11689703"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20592.06" y="21175.5"/> <port id="pr_0c5d2731-c351-4e86-8422-dd7334b0628a_p1" x="20597.06" y="21165.5"/> <port id="pr_0c5d2731-c351-4e86-8422-dd7334b0628a_p2" x="20597.06" y="21195.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6e845d2-f702-4b7e-aca3-00df1123d02d"> <bbox w="10.0" h="10.0" x="28680.43" y="15940.25"/> <port id="pr_a6e845d2-f702-4b7e-aca3-00df1123d02d_p1" x="28685.43" y="15960.25"/> <port id="pr_a6e845d2-f702-4b7e-aca3-00df1123d02d_p2" x="28685.43" y="15930.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5b3339ef-bc4a-4fd3-a77f-8278902da22d"> <bbox w="10.0" h="10.0" x="22049.34" y="7501.25"/> <port id="pr_5b3339ef-bc4a-4fd3-a77f-8278902da22d_p1" x="22069.34" y="7506.25"/> <port id="pr_5b3339ef-bc4a-4fd3-a77f-8278902da22d_p2" x="22039.34" y="7506.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_903b2f66-44aa-4112-b31c-8192b8dcc072"> <bbox w="10.0" h="10.0" x="29002.31" y="11268.869"/> <port id="pr_903b2f66-44aa-4112-b31c-8192b8dcc072_p1" x="29022.31" y="11273.869"/> <port id="pr_903b2f66-44aa-4112-b31c-8192b8dcc072_p2" x="28992.31" y="11273.869"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_da4cb952-9c64-40da-89f4-422330482bf7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARP1 and PARP2 modulate Mitochondria metabolism and oxidative stress responce</p> <p>PMID:22921416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_da4cb952-9c64-40da-89f4-422330482bf7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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class="process" orientation="horizontal" id="pr_8195d825-c22a-4ee7-803d-da343cff465e"> <bbox w="10.0" h="10.0" x="23545.0" y="3365.0"/> <port id="pr_8195d825-c22a-4ee7-803d-da343cff465e_p1" x="23535.0" y="3370.0"/> <port id="pr_8195d825-c22a-4ee7-803d-da343cff465e_p2" x="23565.0" y="3370.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_efb06aba-3f94-4e63-9c60-2fe0b2185a27"> <bbox w="10.0" h="10.0" x="17850.0" y="3785.0"/> <port id="pr_efb06aba-3f94-4e63-9c60-2fe0b2185a27_p1" x="17855.0" y="3775.0"/> <port id="pr_efb06aba-3f94-4e63-9c60-2fe0b2185a27_p2" x="17855.0" y="3805.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e09f6bad-420c-44eb-bbc7-71f64dfaec2e"> <bbox w="10.0" h="10.0" x="30821.418" y="2555.0"/> <port id="pr_e09f6bad-420c-44eb-bbc7-71f64dfaec2e_p1" x="30826.418" y="2545.0"/> <port id="pr_e09f6bad-420c-44eb-bbc7-71f64dfaec2e_p2" x="30826.418" y="2575.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb9c056a-72e9-422d-ba50-b6234dd8765a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15310755</p> <p>DAB2IP would be present at the membrane bound to TNF receptor even in the absence of stimulation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb9c056a-72e9-422d-ba50-b6234dd8765a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15310755"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22594.06" y="9494.0"/> <port id="pr_fb9c056a-72e9-422d-ba50-b6234dd8765a_p1" x="22599.06" y="9484.0"/> <port id="pr_fb9c056a-72e9-422d-ba50-b6234dd8765a_p2" x="22599.06" y="9514.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_075a1b75-bbbc-4341-a602-bfded775f83f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re632_rc_s2093=FALSE</p> <p>PMID:10837486</p> <p>interaction between BAD S155 and 14-3-3 delta and epsilon</p> <p>PMID:8929531</p> <p>in FL5.12 co-IP of mouse BAD phosphorylated and YWHAQ</p> <p>in FL5.12 BAD phosphorylated only on S112 or S136 still binds 14-3-3 (S to A mutants, co-IP)</p> <p>in FL5.12 phosphorylation and binding to 14-3-3 inhibits BAD interaction with Bcl-XL and pro-apoptotic activity</p> <p>PMID:12657644</p> <p>in 293T, BAD:YWHAE interaction, inhibited by caspase-mediated cleavage of YWHAE</p> <p>PMID:17979178</p> <p>BAD:YWHAH interaction tandem affinity purification in a complex with Raf (cited by IntAct)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_075a1b75-bbbc-4341-a602-bfded775f83f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10837486"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8929531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12657644"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17979178"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20894.06" y="11991.0"/> <port id="pr_075a1b75-bbbc-4341-a602-bfded775f83f_p1" x="20899.06" y="11981.0"/> <port id="pr_075a1b75-bbbc-4341-a602-bfded775f83f_p2" x="20899.06" y="12011.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ba5d9256-1669-4335-9452-7f246ad05839"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>PMID:14532003</p> <p>PMID:10929711</p> <p>PMID:12660240</p> <p>in Hela upn taxol treatment</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ba5d9256-1669-4335-9452-7f246ad05839"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14532003"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10929711"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12660240"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23236.56" y="12792.0"/> <port id="pr_ba5d9256-1669-4335-9452-7f246ad05839_p1" x="23226.56" y="12797.0"/> <port id="pr_ba5d9256-1669-4335-9452-7f246ad05839_p2" x="23256.56" y="12797.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d4fc3aa3-b463-44db-9419-2a7bdd4973c9"> <bbox w="10.0" h="10.0" x="18348.824" y="13708.75"/> <port id="pr_d4fc3aa3-b463-44db-9419-2a7bdd4973c9_p1" x="18353.824" y="13698.75"/> <port id="pr_d4fc3aa3-b463-44db-9419-2a7bdd4973c9_p2" x="18353.824" y="13728.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_08c0e879-ad13-435e-b4f3-4778647004cf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10048485</p> <p>by GLS</p> <p>PMID:10620514</p> <p>by GLS2</p> <p>PMID:19894115</p> <p>in neuroblastomas, localization to mitochondria</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_08c0e879-ad13-435e-b4f3-4778647004cf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10048485"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10620514"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19894115"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18310.06" y="15133.0"/> <port id="pr_08c0e879-ad13-435e-b4f3-4778647004cf_p1" x="18300.06" y="15138.0"/> <port id="pr_08c0e879-ad13-435e-b4f3-4778647004cf_p2" x="18330.06" y="15138.0"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_547c53f4-8e12-480d-9e3b-287160a18e2a"> <bbox w="20.0" h="20.0" x="18254.027" y="15083.12"/> <port id="logicglyph_547c53f4-8e12-480d-9e3b-287160a18e2a_p1" x="18244.027" y="15093.12"/> <port id="logicglyph_547c53f4-8e12-480d-9e3b-287160a18e2a_p2" x="18284.027" y="15093.12"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a84a488-a5f0-4133-a56c-e252d7a1116d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10514377</p> <p>PMID:17635922</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5a84a488-a5f0-4133-a56c-e252d7a1116d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10514377"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17635922"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13902.686" y="18020.75"/> <port id="pr_5a84a488-a5f0-4133-a56c-e252d7a1116d_p1" x="13907.686" y="18010.75"/> <port id="pr_5a84a488-a5f0-4133-a56c-e252d7a1116d_p2" x="13907.686" y="18040.75"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_63b332ed-545b-47b8-93ab-7b503a56187c"> <bbox w="20.0" h="20.0" x="13494.061" y="18168.75"/> <port id="logicglyph_63b332ed-545b-47b8-93ab-7b503a56187c_p1" x="13484.061" y="18178.75"/> <port id="logicglyph_63b332ed-545b-47b8-93ab-7b503a56187c_p2" x="13524.061" y="18178.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4980eab9-dcff-4ae6-8c13-e2b8faccde71"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4980eab9-dcff-4ae6-8c13-e2b8faccde71"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21092.56" y="22246.047"/> <port id="pr_4980eab9-dcff-4ae6-8c13-e2b8faccde71_p1" x="21082.56" y="22251.047"/> <port id="pr_4980eab9-dcff-4ae6-8c13-e2b8faccde71_p2" x="21112.56" y="22251.047"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a8966d77-d124-4420-8178-6fd17ff5e058"> <bbox w="10.0" h="10.0" x="3965.0" y="3776.6104"/> <port id="pr_a8966d77-d124-4420-8178-6fd17ff5e058_p1" x="3955.0" y="3781.6104"/> <port id="pr_a8966d77-d124-4420-8178-6fd17ff5e058_p2" x="3985.0" y="3781.6104"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cdfcd4d4-7d34-4006-81f4-57a218df20dc"> <bbox w="10.0" h="10.0" x="10185.305" y="8227.5"/> <port id="pr_cdfcd4d4-7d34-4006-81f4-57a218df20dc_p1" x="10175.305" y="8232.5"/> <port id="pr_cdfcd4d4-7d34-4006-81f4-57a218df20dc_p2" x="10205.305" y="8232.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_619a8866-7932-4f0d-8a44-dff902b517d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19448625</p> <p>in rat cortical neuron primary culture</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_619a8866-7932-4f0d-8a44-dff902b517d0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19448625"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19359.31" y="9815.405"/> <port id="pr_619a8866-7932-4f0d-8a44-dff902b517d0_p1" x="19349.31" y="9820.405"/> <port id="pr_619a8866-7932-4f0d-8a44-dff902b517d0_p2" x="19379.31" y="9820.405"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8428f24b-bf19-4fa3-ac15-ad0618840f48"> <bbox w="10.0" h="10.0" x="13413.311" y="20673.5"/> <port id="pr_8428f24b-bf19-4fa3-ac15-ad0618840f48_p1" x="13433.311" y="20678.5"/> <port id="pr_8428f24b-bf19-4fa3-ac15-ad0618840f48_p2" x="13403.311" y="20678.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_05762ce0-40e1-4c22-a84e-d7a41d083991"> <bbox w="10.0" h="10.0" x="16351.75" y="3797.9658"/> <port id="pr_05762ce0-40e1-4c22-a84e-d7a41d083991_p1" x="16371.75" y="3802.9658"/> <port id="pr_05762ce0-40e1-4c22-a84e-d7a41d083991_p2" x="16341.75" y="3802.9658"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7f5e00db-ece6-4306-b1b6-95e6fe42091f"> <bbox w="10.0" h="10.0" x="13530.914" y="19615.25"/> <port id="pr_7f5e00db-ece6-4306-b1b6-95e6fe42091f_p1" x="13535.914" y="19635.25"/> <port id="pr_7f5e00db-ece6-4306-b1b6-95e6fe42091f_p2" x="13535.914" y="19605.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fd66af28-5440-4bc0-b495-ece4dfbbc46d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:16707567 PMID:21285348</p> <p>DVL is primed by CK2 and/or MARK2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fd66af28-5440-4bc0-b495-ece4dfbbc46d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16707567"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21285348"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21040.436" y="18043.0"/> <port id="pr_fd66af28-5440-4bc0-b495-ece4dfbbc46d_p1" x="21030.436" y="18048.0"/> <port id="pr_fd66af28-5440-4bc0-b495-ece4dfbbc46d_p2" x="21060.436" y="18048.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9a4aba77-d5c3-4870-af77-85940f8c83b3"> <bbox w="10.0" h="10.0" x="12026.159" y="14990.744"/> <port id="pr_9a4aba77-d5c3-4870-af77-85940f8c83b3_p1" x="12046.159" y="14995.744"/> <port id="pr_9a4aba77-d5c3-4870-af77-85940f8c83b3_p2" x="12016.159" y="14995.744"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_99fc91d0-cfcb-418c-873d-081d57173383"> <bbox w="10.0" h="10.0" x="9881.131" y="18151.629"/> <port id="pr_99fc91d0-cfcb-418c-873d-081d57173383_p1" x="9871.131" y="18156.629"/> <port id="pr_99fc91d0-cfcb-418c-873d-081d57173383_p2" x="9901.131" y="18156.629"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5e5dabda-3c31-4c69-88e7-1337d9575d5e"> <bbox w="10.0" h="10.0" x="24889.06" y="14014.0"/> <port id="pr_5e5dabda-3c31-4c69-88e7-1337d9575d5e_p1" x="24894.06" y="14034.0"/> <port id="pr_5e5dabda-3c31-4c69-88e7-1337d9575d5e_p2" x="24894.06" y="14004.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_118bd905-5072-41e1-80f0-d86d05b2132b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22166994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_118bd905-5072-41e1-80f0-d86d05b2132b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22166994"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28605.56" y="12126.083"/> <port id="pr_118bd905-5072-41e1-80f0-d86d05b2132b_p1" x="28595.56" y="12131.083"/> <port id="pr_118bd905-5072-41e1-80f0-d86d05b2132b_p2" x="28625.56" y="12131.083"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_212bb768-2719-4490-bafa-b845f6698811"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22073279</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_212bb768-2719-4490-bafa-b845f6698811"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22073279"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5291.0" y="10693.0"/> <port id="pr_212bb768-2719-4490-bafa-b845f6698811_p1" x="5311.0" y="10698.0"/> <port id="pr_212bb768-2719-4490-bafa-b845f6698811_p2" x="5281.0" y="10698.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f94c23e8-eb04-4e18-b0e3-9e17e6f53b87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Binding between Ku70/80/DNA-PK and WRN inhibits Ku activity</p> <p>PMID:17303082</p> <p>PMID:12202749</p> <p>WRN is a key activator of alt_NHEJ pathway</p> <p>PMID:18524993</p> <p>C_NHEJ and A_NHEJ are competing mechanisms</p> <p>PMID:24050180</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f94c23e8-eb04-4e18-b0e3-9e17e6f53b87"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303082"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12202749"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18524993"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24050180"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13248.25" y="15706.119"/> <port id="pr_f94c23e8-eb04-4e18-b0e3-9e17e6f53b87_p1" x="13253.25" y="15696.119"/> <port id="pr_f94c23e8-eb04-4e18-b0e3-9e17e6f53b87_p2" x="13253.25" y="15726.119"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56c9a2ba-fbad-44c9-8ad4-1d12e244b4b4"> <bbox w="10.0" h="10.0" x="17832.5" y="1547.5"/> <port id="pr_56c9a2ba-fbad-44c9-8ad4-1d12e244b4b4_p1" x="17837.5" y="1537.5"/> <port id="pr_56c9a2ba-fbad-44c9-8ad4-1d12e244b4b4_p2" x="17837.5" y="1567.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a2518dac-f4e3-4f5d-9866-d7a9d12f2afd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5561.0" y="14868.75"/> <port id="pr_a2518dac-f4e3-4f5d-9866-d7a9d12f2afd_p1" x="5551.0" y="14873.75"/> <port id="pr_a2518dac-f4e3-4f5d-9866-d7a9d12f2afd_p2" x="5581.0" y="14873.75"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_ba12d5c7-bbde-4e39-a651-8e920ae977c9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12479.529" y="15134.744"/> <port id="pr_ba12d5c7-bbde-4e39-a651-8e920ae977c9_p1" x="12484.529" y="15154.744"/> <port id="pr_ba12d5c7-bbde-4e39-a651-8e920ae977c9_p2" x="12484.529" y="15124.744"/> </glyph> <glyph class="process" orientation="vertical" id="pr_198bdecd-5c9b-4b7d-8609-25d4fec74797"> <bbox w="10.0" h="10.0" x="18865.424" y="15032.25"/> <port id="pr_198bdecd-5c9b-4b7d-8609-25d4fec74797_p1" x="18870.424" y="15052.25"/> <port id="pr_198bdecd-5c9b-4b7d-8609-25d4fec74797_p2" x="18870.424" y="15022.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_005d014f-5160-4968-aad1-95f1519463e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24143.06" y="10752.0"/> <port id="pr_005d014f-5160-4968-aad1-95f1519463e7_p1" x="24148.06" y="10742.0"/> <port id="pr_005d014f-5160-4968-aad1-95f1519463e7_p2" x="24148.06" y="10772.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a75921e7-a3f8-40e0-b0d6-bf0c29c37961"> <bbox w="10.0" h="10.0" x="20970.0" y="5860.0"/> <port id="pr_a75921e7-a3f8-40e0-b0d6-bf0c29c37961_p1" x="20975.0" y="5850.0"/> <port id="pr_a75921e7-a3f8-40e0-b0d6-bf0c29c37961_p2" x="20975.0" y="5880.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_43074b4e-1c61-48cf-b4f3-985e57aab0d3"> <bbox w="10.0" h="10.0" x="15719.561" y="19176.215"/> <port id="pr_43074b4e-1c61-48cf-b4f3-985e57aab0d3_p1" x="15739.561" y="19181.215"/> <port id="pr_43074b4e-1c61-48cf-b4f3-985e57aab0d3_p2" x="15709.561" y="19181.215"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7ac5bd73-4440-45c3-9979-b320334ca9e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19942859</p> <p>Lipolityc signal induce PKA activation that leads to AMPK activation and so lipid resynthesis</p> </body> </html> </notes> 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x="1963.875" y="9983.0"/> <port id="pr_69a208e1-6649-4b09-9a90-83b855056232_p1" x="1968.875" y="10003.0"/> <port id="pr_69a208e1-6649-4b09-9a90-83b855056232_p2" x="1968.875" y="9973.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64e7c539-e483-47dd-9a8a-bb1e139e0971"> <bbox w="10.0" h="10.0" x="11049.961" y="16160.123"/> <port id="pr_64e7c539-e483-47dd-9a8a-bb1e139e0971_p1" x="11054.961" y="16150.123"/> <port id="pr_64e7c539-e483-47dd-9a8a-bb1e139e0971_p2" x="11054.961" y="16180.123"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9879b81-def6-48d4-8859-849cd1708c5f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4972.25" y="14557.0"/> <port id="pr_c9879b81-def6-48d4-8859-849cd1708c5f_p1" x="4977.25" y="14547.0"/> <port id="pr_c9879b81-def6-48d4-8859-849cd1708c5f_p2" x="4977.25" y="14577.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_51b953ca-ca01-4310-9fcb-2dbdebc3bf3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15486085</p> <p>in FL5.12 cells correlation of BIM-BAX interaction in mitochondrial fractions with presence of unphosphorylated S65 BimEL</p> <p>non phosphorylatable BimEL: enhanced interaction with BAX and enhanced proapoptotic activity</p> <p>PMID:12419244</p> <p>in vitro in reconstituted vesicles, BID induces BAX and membrane permeabilization</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_51b953ca-ca01-4310-9fcb-2dbdebc3bf3a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15486085"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12419244"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22116.666" y="14802.186"/> <port id="pr_51b953ca-ca01-4310-9fcb-2dbdebc3bf3a_p1" x="22106.666" y="14807.186"/> <port id="pr_51b953ca-ca01-4310-9fcb-2dbdebc3bf3a_p2" x="22136.666" y="14807.186"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45dcc8a5-1b5a-45a8-9f73-41b2a814cee6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9865696</p> <p>SARA interacts directly with Smad2 and Smad3</p> <p>PMID:11792802</p> <p>SARA is a cytoplasmic protein that specifically interacts withe no-activated Smad2 and the receptor complex</p> <p>SARA thus forms the bridge between the receptor and Smad2 and assisting in the specific phosphorylation of Smad2 by the TGFBR1</p> <p>The stable interaction of SARA with non-phosphorylated Smad2 also inhibits nuclear import of Smad2</p> <p>PMID:10934479</p> <p>The nuclear import function of Smad2 is masked by SARA and unmasked by TGFB- dependent phosphorylation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_45dcc8a5-1b5a-45a8-9f73-41b2a814cee6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9865696"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11792802"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10934479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6478.7715" y="16466.303"/> <port id="pr_45dcc8a5-1b5a-45a8-9f73-41b2a814cee6_p1" x="6483.7715" y="16456.303"/> <port id="pr_45dcc8a5-1b5a-45a8-9f73-41b2a814cee6_p2" x="6483.7715" y="16486.303"/> </glyph> <glyph class="process" orientation="vertical" id="pr_81f050ac-338e-451b-bee1-69910d55a1ed"> <bbox w="10.0" h="10.0" x="8010.6562" y="16658.59"/> <port id="pr_81f050ac-338e-451b-bee1-69910d55a1ed_p1" x="8015.6562" y="16648.59"/> <port id="pr_81f050ac-338e-451b-bee1-69910d55a1ed_p2" x="8015.6562" y="16678.59"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1959cf46-602f-4203-80f9-bbad810d85c0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3753.7031" y="14577.75"/> <port id="pr_1959cf46-602f-4203-80f9-bbad810d85c0_p1" x="3743.7031" y="14582.75"/> <port id="pr_1959cf46-602f-4203-80f9-bbad810d85c0_p2" x="3773.7031" y="14582.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4b9ce60d-c4ce-4783-bd7e-c95015a7f037"> <bbox w="10.0" h="10.0" x="6475.0" y="2310.0"/> <port id="pr_4b9ce60d-c4ce-4783-bd7e-c95015a7f037_p1" x="6480.0" y="2300.0"/> <port id="pr_4b9ce60d-c4ce-4783-bd7e-c95015a7f037_p2" x="6480.0" y="2330.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5c154186-780b-41f9-b4cd-2608a7e0cf22"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17438126</p> <p>in murine C2C12 myoblast cells, in murine 10T1/2 fibroblast cells, in human 293T cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5c154186-780b-41f9-b4cd-2608a7e0cf22"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17438126"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23728.438" y="16187.398"/> <port id="pr_5c154186-780b-41f9-b4cd-2608a7e0cf22_p1" x="23733.438" y="16207.398"/> <port id="pr_5c154186-780b-41f9-b4cd-2608a7e0cf22_p2" x="23733.438" y="16177.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5ca703e-c157-45bb-8161-3af0cafcde60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4193.0" y="16187.5"/> <port id="pr_d5ca703e-c157-45bb-8161-3af0cafcde60_p1" x="4198.0" y="16177.5"/> <port id="pr_d5ca703e-c157-45bb-8161-3af0cafcde60_p2" x="4198.0" y="16207.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ed0b3433-1f05-4282-b280-a6a8a3b547be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4884.7793" y="17985.125"/> <port id="pr_ed0b3433-1f05-4282-b280-a6a8a3b547be_p1" x="4889.7793" y="17975.125"/> <port id="pr_ed0b3433-1f05-4282-b280-a6a8a3b547be_p2" x="4889.7793" y="18005.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_675e505e-5f6f-4bb6-b00d-eb88e6594f36"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>YWHAB has been displaced from S259 may now bind its higher affinity S621 site.</p> <p>This stabilises an OPEN RAF1 conformation that is catalytically active.</p> <p>Active and open RAF1 binds to RAS via both CRD and RBD domains.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_675e505e-5f6f-4bb6-b00d-eb88e6594f36"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9069260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6421.083" y="13280.45"/> <port id="pr_675e505e-5f6f-4bb6-b00d-eb88e6594f36_p1" x="6441.083" y="13285.45"/> <port id="pr_675e505e-5f6f-4bb6-b00d-eb88e6594f36_p2" x="6411.083" y="13285.45"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_31817f53-00da-4b9d-8671-a6e1db44e7bb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>source UNIPROT and KEGGPATHWAY</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18590.31" y="10291.75"/> <port id="pr_31817f53-00da-4b9d-8671-a6e1db44e7bb_p1" x="18610.31" y="10296.75"/> <port id="pr_31817f53-00da-4b9d-8671-a6e1db44e7bb_p2" x="18580.31" y="10296.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6c4d2471-6340-42c1-a795-f06f002bef6b"> <bbox w="10.0" h="10.0" x="20900.0" y="830.0"/> <port id="pr_6c4d2471-6340-42c1-a795-f06f002bef6b_p1" x="20905.0" y="820.0"/> <port id="pr_6c4d2471-6340-42c1-a795-f06f002bef6b_p2" x="20905.0" y="850.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6bda389f-194b-4eeb-9d11-322240f3ccea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4147.622" y="17787.5"/> <port id="pr_6bda389f-194b-4eeb-9d11-322240f3ccea_p1" x="4152.622" y="17777.5"/> <port id="pr_6bda389f-194b-4eeb-9d11-322240f3ccea_p2" x="4152.622" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7a488920-8569-47e6-b002-080287c910d2"> <bbox w="10.0" h="10.0" x="26759.402" y="13861.0"/> <port id="pr_7a488920-8569-47e6-b002-080287c910d2_p1" x="26764.402" y="13851.0"/> <port id="pr_7a488920-8569-47e6-b002-080287c910d2_p2" x="26764.402" y="13881.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4def11f0-3aeb-4dc0-8fdb-b7bb242647be"> <bbox w="10.0" h="10.0" x="26621.0" y="3225.5"/> <port id="pr_4def11f0-3aeb-4dc0-8fdb-b7bb242647be_p1" x="26626.0" y="3245.5"/> <port id="pr_4def11f0-3aeb-4dc0-8fdb-b7bb242647be_p2" x="26626.0" y="3215.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_67d4154b-22e6-44ae-9a44-5f540d1e081b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11756498</p> <p>Activation of Rac GTPase by p75 is necessary for c-jun N-terminal kinase-mediated apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_67d4154b-22e6-44ae-9a44-5f540d1e081b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756498"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20761.06" y="9884.0"/> <port id="pr_67d4154b-22e6-44ae-9a44-5f540d1e081b_p1" x="20751.06" y="9889.0"/> <port id="pr_67d4154b-22e6-44ae-9a44-5f540d1e081b_p2" x="20781.06" y="9889.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b55cb95-49a0-4de9-906a-6d4d73f02ad7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMD:23396279</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23808.56" y="22588.762"/> <port id="pr_0b55cb95-49a0-4de9-906a-6d4d73f02ad7_p1" x="23798.56" y="22593.762"/> <port id="pr_0b55cb95-49a0-4de9-906a-6d4d73f02ad7_p2" x="23828.56" y="22593.762"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6b7c7e02-e3a0-49ba-8b2a-335c3f90b9bf"> <bbox w="10.0" h="10.0" x="23675.0" y="5715.0"/> <port id="pr_6b7c7e02-e3a0-49ba-8b2a-335c3f90b9bf_p1" x="23665.0" y="5720.0"/> <port id="pr_6b7c7e02-e3a0-49ba-8b2a-335c3f90b9bf_p2" x="23695.0" y="5720.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b89dee14-31d3-42a1-b76a-e146e07a610a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18420585</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b89dee14-31d3-42a1-b76a-e146e07a610a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18420585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22107.82" y="12241.701"/> <port id="pr_b89dee14-31d3-42a1-b76a-e146e07a610a_p1" x="22127.82" y="12246.701"/> <port id="pr_b89dee14-31d3-42a1-b76a-e146e07a610a_p2" x="22097.82" y="12246.701"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_18e76ec9-43d6-49a2-b4e3-0b91d672daf3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19851286</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18e76ec9-43d6-49a2-b4e3-0b91d672daf3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19851286"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16689.047" y="15824.1455"/> <port id="pr_18e76ec9-43d6-49a2-b4e3-0b91d672daf3_p1" x="16679.047" y="15829.1455"/> <port id="pr_18e76ec9-43d6-49a2-b4e3-0b91d672daf3_p2" x="16709.047" y="15829.1455"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d51c2c89-92ef-4d76-83d8-03c4daa12b59"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19736394</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d51c2c89-92ef-4d76-83d8-03c4daa12b59"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19736394"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26804.227" y="21216.75"/> <port id="pr_d51c2c89-92ef-4d76-83d8-03c4daa12b59_p1" x="26809.227" y="21236.75"/> <port id="pr_d51c2c89-92ef-4d76-83d8-03c4daa12b59_p2" x="26809.227" y="21206.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_92af7278-420a-4f0b-ba43-580ed0001d27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22073279</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_92af7278-420a-4f0b-ba43-580ed0001d27"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22073279"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5965.5" y="10698.634"/> <port id="pr_92af7278-420a-4f0b-ba43-580ed0001d27_p1" x="5955.5" y="10703.634"/> <port id="pr_92af7278-420a-4f0b-ba43-580ed0001d27_p2" x="5985.5" y="10703.634"/> </glyph> <glyph class="process" orientation="vertical" id="pr_12b489a2-1b31-4c26-b65a-4f7d3b1ef60f"> <bbox w="10.0" h="10.0" x="27969.111" y="12057.5"/> <port id="pr_12b489a2-1b31-4c26-b65a-4f7d3b1ef60f_p1" x="27974.111" y="12047.5"/> <port id="pr_12b489a2-1b31-4c26-b65a-4f7d3b1ef60f_p2" x="27974.111" y="12077.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a37b9f59-15e1-45e7-9338-0a039952d787"> <bbox w="10.0" h="10.0" x="19764.06" y="10604.0"/> <port id="pr_a37b9f59-15e1-45e7-9338-0a039952d787_p1" x="19754.06" y="10609.0"/> <port id="pr_a37b9f59-15e1-45e7-9338-0a039952d787_p2" x="19784.06" y="10609.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c2244809-7aab-49ba-9e0f-7988609467bb"> <bbox w="10.0" h="10.0" x="23625.06" y="21185.0"/> <port id="pr_c2244809-7aab-49ba-9e0f-7988609467bb_p1" x="23615.06" y="21190.0"/> <port id="pr_c2244809-7aab-49ba-9e0f-7988609467bb_p2" x="23645.06" y="21190.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cd9d0339-e302-4c29-85d6-ed04b3bdefdc"> <bbox w="10.0" h="10.0" x="1702.5" y="2610.0"/> <port id="pr_cd9d0339-e302-4c29-85d6-ed04b3bdefdc_p1" x="1707.5" y="2600.0"/> <port id="pr_cd9d0339-e302-4c29-85d6-ed04b3bdefdc_p2" x="1707.5" y="2630.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_56a3f9ed-c4de-489a-a1e6-e3d2eca16323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="996.1389" y="17904.75"/> <port id="pr_56a3f9ed-c4de-489a-a1e6-e3d2eca16323_p1" x="1001.1389" y="17894.75"/> <port id="pr_56a3f9ed-c4de-489a-a1e6-e3d2eca16323_p2" x="1001.1389" y="17924.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a347eba3-0e07-4339-bea5-20f44e81711d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>PMID:10809728</p> <p>Laminin-8 contains LAMA4, LAMB1, LAMC1</p> <p>Laminin-8 interacts with integrins.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a347eba3-0e07-4339-bea5-20f44e81711d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5212.5356" y="18846.152"/> <port id="pr_a347eba3-0e07-4339-bea5-20f44e81711d_p1" x="5217.5356" y="18836.152"/> <port id="pr_a347eba3-0e07-4339-bea5-20f44e81711d_p2" x="5217.5356" y="18866.152"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa126811-6efb-4b35-878a-b90babb285fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19968986</p> <p>cleaved MCL1</p> <p>PMID:14730312</p> <p>ASC/PYCARD</p> <p>PMID:19062087</p> <p>in vitro in reconstituted liposomes, tBid is sufficient to induce Bax insertion into membrane and oligomerization</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa126811-6efb-4b35-878a-b90babb285fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19968986"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14730312"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19062087"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22741.371" y="13228.061"/> <port id="pr_aa126811-6efb-4b35-878a-b90babb285fc_p1" x="22746.371" y="13218.061"/> <port id="pr_aa126811-6efb-4b35-878a-b90babb285fc_p2" x="22746.371" y="13248.061"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_0d4bd8ee-d7d8-41c4-927f-fbeac615ac73"> <bbox w="10.0" h="10.0" x="12875.775" y="18562.25"/> <port id="pr_0d4bd8ee-d7d8-41c4-927f-fbeac615ac73_p1" x="12880.775" y="18582.25"/> <port id="pr_0d4bd8ee-d7d8-41c4-927f-fbeac615ac73_p2" x="12880.775" y="18552.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1ccc271b-07e9-467a-abbd-627461ba8393"> <bbox w="10.0" h="10.0" x="19588.936" y="14424.535"/> <port id="pr_1ccc271b-07e9-467a-abbd-627461ba8393_p1" x="19608.936" y="14429.535"/> <port id="pr_1ccc271b-07e9-467a-abbd-627461ba8393_p2" x="19578.936" y="14429.535"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1a1b75e8-2b93-4ebb-b40a-eafbf8f58fe6"> <bbox w="10.0" h="10.0" x="5739.5" y="5984.0625"/> <port id="pr_1a1b75e8-2b93-4ebb-b40a-eafbf8f58fe6_p1" x="5729.5" y="5989.0625"/> <port id="pr_1a1b75e8-2b93-4ebb-b40a-eafbf8f58fe6_p2" x="5759.5" y="5989.0625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6256fa72-69a8-467c-8f8d-ca6d4ea64b28"> <bbox w="10.0" h="10.0" x="16547.908" y="1362.6875"/> <port id="pr_6256fa72-69a8-467c-8f8d-ca6d4ea64b28_p1" x="16552.908" y="1352.6875"/> <port id="pr_6256fa72-69a8-467c-8f8d-ca6d4ea64b28_p2" x="16552.908" y="1382.6875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_680291d7-897a-4f18-90d3-d48b48acae3c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20173780</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_680291d7-897a-4f18-90d3-d48b48acae3c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20173780"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19383.086" y="9363.715"/> <port id="pr_680291d7-897a-4f18-90d3-d48b48acae3c_p1" x="19373.086" y="9368.715"/> <port id="pr_680291d7-897a-4f18-90d3-d48b48acae3c_p2" x="19403.086" y="9368.715"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1a5ecaf7-07bf-46fa-86df-e3705b7158a6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22819.379" y="11173.0"/> <port id="pr_1a5ecaf7-07bf-46fa-86df-e3705b7158a6_p1" x="22809.379" y="11178.0"/> <port id="pr_1a5ecaf7-07bf-46fa-86df-e3705b7158a6_p2" x="22839.379" y="11178.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f8a6f955-3733-4d2b-ac7d-c26a0545a528"> <bbox w="10.0" h="10.0" x="14820.733" y="15540.75"/> <port id="pr_f8a6f955-3733-4d2b-ac7d-c26a0545a528_p1" x="14840.733" y="15545.75"/> <port id="pr_f8a6f955-3733-4d2b-ac7d-c26a0545a528_p2" x="14810.733" y="15545.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f06a254b-3d21-4b10-97b0-c78b7ff3e539"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6479.2837" y="15324.5"/> <port id="pr_f06a254b-3d21-4b10-97b0-c78b7ff3e539_p1" x="6469.2837" y="15329.5"/> <port id="pr_f06a254b-3d21-4b10-97b0-c78b7ff3e539_p2" x="6499.2837" y="15329.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ab0017c-a207-433a-b189-a9b03d006700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15199147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6ab0017c-a207-433a-b189-a9b03d006700"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15199147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24593.395" y="16192.205"/> <port id="pr_6ab0017c-a207-433a-b189-a9b03d006700_p1" x="24598.395" y="16212.205"/> <port id="pr_6ab0017c-a207-433a-b189-a9b03d006700_p2" x="24598.395" y="16182.205"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_520b34fa-3916-4338-9f10-8130090bd09a"> <bbox w="10.0" h="10.0" x="23579.238" y="16609.0"/> <port id="pr_520b34fa-3916-4338-9f10-8130090bd09a_p1" x="23599.238" y="16614.0"/> <port id="pr_520b34fa-3916-4338-9f10-8130090bd09a_p2" x="23569.238" y="16614.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_6657c8f3-8ecf-44f4-85d9-7315dab65f11"> <bbox w="10.0" h="10.0" x="2836.875" y="2944.3015"/> <port id="pr_6657c8f3-8ecf-44f4-85d9-7315dab65f11_p1" x="2826.875" y="2949.3015"/> <port id="pr_6657c8f3-8ecf-44f4-85d9-7315dab65f11_p2" x="2856.875" y="2949.3015"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c508bd05-5f6f-4f57-b968-28a409fc5894"> <bbox w="10.0" h="10.0" x="4007.0" y="1783.0"/> <port id="pr_c508bd05-5f6f-4f57-b968-28a409fc5894_p1" x="3997.0" y="1788.0"/> <port id="pr_c508bd05-5f6f-4f57-b968-28a409fc5894_p2" x="4027.0" y="1788.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ad4b2a2a-c22d-4a11-8746-c20210e7ad35"> <bbox w="10.0" h="10.0" x="3858.75" y="2987.5"/> <port id="pr_ad4b2a2a-c22d-4a11-8746-c20210e7ad35_p1" x="3878.75" y="2992.5"/> <port id="pr_ad4b2a2a-c22d-4a11-8746-c20210e7ad35_p2" x="3848.75" y="2992.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0f59b7ce-8eb0-42d3-ade7-37d5904a0f98"> <bbox w="10.0" h="10.0" x="10764.961" y="17966.5"/> <port id="pr_0f59b7ce-8eb0-42d3-ade7-37d5904a0f98_p1" x="10769.961" y="17956.5"/> <port id="pr_0f59b7ce-8eb0-42d3-ade7-37d5904a0f98_p2" x="10769.961" y="17986.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b440468a-42b2-4a95-8310-d97b3895366e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Translocation of ERK into the nucleus activates the mitogen activated and stress-activated protein kinase 1 (MSK1) a histone H3 kinase that can relax chromatin thus making it more transcriptionally accessible. This alteration in the chromatin state induces MYC a gene that encodes the C-MYC protein a transcription factor that controls the cell cycle.</p> <p>PMID:17158541</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b440468a-42b2-4a95-8310-d97b3895366e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17158541"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8128.0605" y="20675.582"/> <port id="pr_b440468a-42b2-4a95-8310-d97b3895366e_p1" x="8133.0605" y="20665.582"/> <port id="pr_b440468a-42b2-4a95-8310-d97b3895366e_p2" x="8133.0605" y="20695.582"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_63b67d43-5ea8-43e1-8e25-302b0bbc70bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16647304</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_63b67d43-5ea8-43e1-8e25-302b0bbc70bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16647304"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27210.56" y="17695.25"/> <port id="pr_63b67d43-5ea8-43e1-8e25-302b0bbc70bc_p1" x="27230.56" y="17700.25"/> <port id="pr_63b67d43-5ea8-43e1-8e25-302b0bbc70bc_p2" x="27200.56" y="17700.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4d9b0ed5-e208-48d8-977d-e6a5087476bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4d9b0ed5-e208-48d8-977d-e6a5087476bc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28284838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3753.5" y="11879.0"/> <port id="pr_4d9b0ed5-e208-48d8-977d-e6a5087476bc_p1" x="3758.5" y="11869.0"/> <port id="pr_4d9b0ed5-e208-48d8-977d-e6a5087476bc_p2" x="3758.5" y="11899.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6bfa5e52-6790-4d1a-876b-be085ac426b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:21505104</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6bfa5e52-6790-4d1a-876b-be085ac426b8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21505104"/> </rdf:Bag> 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id="pr_7ab363df-ff24-47e7-b903-04018d938c95"> <bbox w="10.0" h="10.0" x="20145.0" y="490.0"/> <port id="pr_7ab363df-ff24-47e7-b903-04018d938c95_p1" x="20150.0" y="510.0"/> <port id="pr_7ab363df-ff24-47e7-b903-04018d938c95_p2" x="20150.0" y="480.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3fcd239a-8874-4c78-98e2-e25b5a831dff"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:11331587</p> <p>PMID:16489008</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3fcd239a-8874-4c78-98e2-e25b5a831dff"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11331587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16489008"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27062.31" y="18602.0"/> <port id="pr_3fcd239a-8874-4c78-98e2-e25b5a831dff_p1" x="27067.31" y="18592.0"/> <port id="pr_3fcd239a-8874-4c78-98e2-e25b5a831dff_p2" x="27067.31" y="18622.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d6e4f3b1-8f11-425a-ad51-ac00c23606dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Allosteric effect</p> <p>PMID:10747897</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d6e4f3b1-8f11-425a-ad51-ac00c23606dc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10747897"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20767.56" y="20965.5"/> <port id="pr_d6e4f3b1-8f11-425a-ad51-ac00c23606dc_p1" x="20787.56" y="20970.5"/> <port 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<head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15151915</p> <p>The transcription factors B-catenin/Tcf complex has been shown to bind directly to the claudin-1 and claudin-2 promoters.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1947f5a9-95b1-4524-9c0d-60b7e1695c33"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15151915"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15037661</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_05c86606-5e73-4f18-b6b1-83b23431dc68"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15037661"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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x="18273.06" y="15009.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_41b77295-d276-4e46-986f-0e068a53a7bc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3690.273" y="14684.75"/> <port id="pr_41b77295-d276-4e46-986f-0e068a53a7bc_p1" x="3695.273" y="14674.75"/> <port id="pr_41b77295-d276-4e46-986f-0e068a53a7bc_p2" x="3695.273" y="14704.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_765075a9-a014-4975-ba3a-3f1a58625757"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19033189</p> <p>in human glioma SF188 cells, which display MYC deregulation, shRNA against MYC represses SLC1A5 expression, as assessed by qPCR, and MYC is recruited to SLC1A5 promoter, as assessed by ChIP </p> <p>in MEFs expressing a MYC-ER fusion, upon 4OHT</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_765075a9-a014-4975-ba3a-3f1a58625757"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19033189"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24825.574" y="16194.398"/> <port 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class="process" orientation="vertical" id="pr_57f45e0a-3693-4b09-9889-f9bddd8538f1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15240700</p> <p>in mouse T cells, by E2F1</p> <p>PMID:12389032</p> <p>in IMR90 and MEFs, active E2F1 induces CASP8 transcription</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_57f45e0a-3693-4b09-9889-f9bddd8538f1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240700"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12389032"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22497.77" y="16191.75"/> <port id="pr_57f45e0a-3693-4b09-9889-f9bddd8538f1_p1" x="22502.77" y="16211.75"/> <port id="pr_57f45e0a-3693-4b09-9889-f9bddd8538f1_p2" x="22502.77" y="16181.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d9feeb20-33bd-497c-9588-fe3b20c25991"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The lack of NGF suppresses the survival signals controlled by PI3K-Akt, finally leading to a de-repression of the pro-apoptotic Bad; on the other hand, the loss of the survival signals is associated with JNK-mediated transcriptional activation of other pro-apoptotic inducers such as DP5, Bim and Puma.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20927.06" y="9189.4"/> <port id="pr_d9feeb20-33bd-497c-9588-fe3b20c25991_p1" x="20947.06" y="9194.4"/> <port id="pr_d9feeb20-33bd-497c-9588-fe3b20c25991_p2" x="20917.06" y="9194.4"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_193f5da5-7b28-4403-b4e5-beb7cb276d84"> <bbox w="10.0" h="10.0" x="3281.0" y="10516.25"/> <port id="pr_193f5da5-7b28-4403-b4e5-beb7cb276d84_p1" x="3301.0" y="10521.25"/> <port id="pr_193f5da5-7b28-4403-b4e5-beb7cb276d84_p2" x="3271.0" y="10521.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13ee2dca-5299-49eb-bff2-57bc4b8bca2f"> <bbox w="10.0" h="10.0" x="15650.033" y="1499.5"/> <port id="pr_13ee2dca-5299-49eb-bff2-57bc4b8bca2f_p1" x="15655.033" y="1489.5"/> <port id="pr_13ee2dca-5299-49eb-bff2-57bc4b8bca2f_p2" x="15655.033" y="1519.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4756e955-106d-4000-a2ef-d52b544b11cd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3444.6401" y="14846.5"/> <port id="pr_4756e955-106d-4000-a2ef-d52b544b11cd_p1" x="3449.6401" y="14866.5"/> <port id="pr_4756e955-106d-4000-a2ef-d52b544b11cd_p2" x="3449.6401" y="14836.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3a62fafb-f622-42ed-abf1-507258eb0100"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17662942</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3a62fafb-f622-42ed-abf1-507258eb0100"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662942"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20970.436" y="14699.106"/> <port id="pr_3a62fafb-f622-42ed-abf1-507258eb0100_p1" x="20990.436" y="14704.106"/> <port id="pr_3a62fafb-f622-42ed-abf1-507258eb0100_p2" x="20960.436" y="14704.106"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_1645bf97-9680-442c-b587-e5897ab3a163"> <bbox w="20.0" h="20.0" x="20960.328" y="14526.402"/> <port id="logicglyph_1645bf97-9680-442c-b587-e5897ab3a163_p1" x="20970.328" y="14516.402"/> <port id="logicglyph_1645bf97-9680-442c-b587-e5897ab3a163_p2" x="20970.328" y="14556.402"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3ba1fc24-3ee9-43c1-936e-d7219a8d7a11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218261</p> <p>PMID:17218260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3ba1fc24-3ee9-43c1-936e-d7219a8d7a11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218261"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12700.373" y="18303.5"/> <port id="pr_3ba1fc24-3ee9-43c1-936e-d7219a8d7a11_p1" x="12705.373" y="18293.5"/> <port id="pr_3ba1fc24-3ee9-43c1-936e-d7219a8d7a11_p2" x="12705.373" y="18323.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c74e92a8-910a-48cd-839b-57b2832b0bb4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12449.871" y="17032.5"/> <port id="pr_c74e92a8-910a-48cd-839b-57b2832b0bb4_p1" x="12469.871" y="17037.5"/> <port id="pr_c74e92a8-910a-48cd-839b-57b2832b0bb4_p2" x="12439.871" y="17037.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77a016d1-8d62-4469-94e5-1ef0ed56cb19"> <bbox w="10.0" h="10.0" x="6475.0" y="2400.0"/> <port id="pr_77a016d1-8d62-4469-94e5-1ef0ed56cb19_p1" x="6480.0" y="2390.0"/> <port id="pr_77a016d1-8d62-4469-94e5-1ef0ed56cb19_p2" x="6480.0" y="2420.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_151eacb1-05b8-478f-ba7a-5205ec649dd8"> <bbox w="10.0" h="10.0" x="29024.06" y="9077.75"/> <port id="pr_151eacb1-05b8-478f-ba7a-5205ec649dd8_p1" x="29029.06" y="9067.75"/> <port id="pr_151eacb1-05b8-478f-ba7a-5205ec649dd8_p2" x="29029.06" y="9097.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fdd4b109-9d5a-4405-8d58-b982cf1fcfde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9430630</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fdd4b109-9d5a-4405-8d58-b982cf1fcfde"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9430630"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21832.242" y="13493.467"/> <port id="pr_fdd4b109-9d5a-4405-8d58-b982cf1fcfde_p1" x="21852.242" y="13498.467"/> <port id="pr_fdd4b109-9d5a-4405-8d58-b982cf1fcfde_p2" x="21822.242" y="13498.467"/> </glyph> <glyph class="process" orientation="vertical" id="pr_551ed749-1a68-4e41-8b3b-cc1626c56a81"> <bbox w="10.0" h="10.0" x="3395.0" y="3446.25"/> <port id="pr_551ed749-1a68-4e41-8b3b-cc1626c56a81_p1" x="3400.0" y="3436.25"/> <port id="pr_551ed749-1a68-4e41-8b3b-cc1626c56a81_p2" x="3400.0" y="3466.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff872cb3-663f-480f-9810-c884d6fa79e9"> <bbox w="10.0" h="10.0" x="15863.061" y="20486.75"/> <port id="pr_ff872cb3-663f-480f-9810-c884d6fa79e9_p1" x="15868.061" y="20476.75"/> <port id="pr_ff872cb3-663f-480f-9810-c884d6fa79e9_p2" x="15868.061" y="20506.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3daa242c-9ac6-4ed6-b15d-426aefd4964e"> <bbox w="10.0" h="10.0" x="20185.0" y="4115.0"/> <port id="pr_3daa242c-9ac6-4ed6-b15d-426aefd4964e_p1" x="20190.0" y="4105.0"/> <port id="pr_3daa242c-9ac6-4ed6-b15d-426aefd4964e_p2" x="20190.0" y="4135.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf882942-3e0c-4790-b5a3-f380d40467a8"> <bbox w="10.0" h="10.0" x="6245.435" y="22012.75"/> <port id="pr_bf882942-3e0c-4790-b5a3-f380d40467a8_p1" x="6265.435" y="22017.75"/> <port id="pr_bf882942-3e0c-4790-b5a3-f380d40467a8_p2" x="6235.435" y="22017.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2a152da5-217d-4055-8967-3f3a4fae5be5"> <bbox w="10.0" h="10.0" x="6937.0" y="6975.0"/> <port id="pr_2a152da5-217d-4055-8967-3f3a4fae5be5_p1" x="6957.0" y="6980.0"/> <port id="pr_2a152da5-217d-4055-8967-3f3a4fae5be5_p2" x="6927.0" y="6980.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_801e8463-75d6-4851-bb6d-eab0a0af7d5f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_801e8463-75d6-4851-bb6d-eab0a0af7d5f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.311" y="20715.0"/> <port id="pr_801e8463-75d6-4851-bb6d-eab0a0af7d5f_p1" x="12677.311" y="20720.0"/> <port id="pr_801e8463-75d6-4851-bb6d-eab0a0af7d5f_p2" x="12707.311" y="20720.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5156af4b-299b-4eda-9c32-80dabf4a10fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1108.19" y="15878.678"/> <port id="pr_5156af4b-299b-4eda-9c32-80dabf4a10fe_p1" x="1113.19" y="15868.678"/> <port id="pr_5156af4b-299b-4eda-9c32-80dabf4a10fe_p2" x="1113.19" y="15898.678"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_4dc9d7de-7c36-4d8b-b924-755c58df2386"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2389.2021" y="15561.0"/> <port id="pr_4dc9d7de-7c36-4d8b-b924-755c58df2386_p1" x="2394.2021" y="15551.0"/> <port id="pr_4dc9d7de-7c36-4d8b-b924-755c58df2386_p2" x="2394.2021" y="15581.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_486601ac-7387-406d-afac-715613e0ca48"> <bbox w="10.0" h="10.0" x="6875.164" y="7117.125"/> <port id="pr_486601ac-7387-406d-afac-715613e0ca48_p1" x="6880.164" y="7107.125"/> <port id="pr_486601ac-7387-406d-afac-715613e0ca48_p2" x="6880.164" y="7137.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_34c416a6-5d76-4f0a-928b-9e807e4a1dc4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22073279</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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id="pr_d230e6bb-971b-4af3-8e80-7f67ea395b3c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5667.17" y="16095.336"/> <port id="pr_d230e6bb-971b-4af3-8e80-7f67ea395b3c_p1" x="5657.17" y="16100.336"/> <port id="pr_d230e6bb-971b-4af3-8e80-7f67ea395b3c_p2" x="5687.17" y="16100.336"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cfc1959c-298e-4372-bac1-52f3d9d1711b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17161586</p> <p>CDC42 can activate JNL pathway aslo by binding and stimulation of MAP3K11 (MLK3).</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18445.81" y="12746.5"/> <port id="pr_62e415a3-8047-4f26-9567-71e231604120_p1" x="18435.81" y="12751.5"/> <port id="pr_62e415a3-8047-4f26-9567-71e231604120_p2" x="18465.81" y="12751.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_500c0cd9-b34b-42f6-8496-31ac5ae3ac10"> <bbox w="10.0" h="10.0" x="12611.769" y="15326.539"/> <port id="pr_500c0cd9-b34b-42f6-8496-31ac5ae3ac10_p1" x="12601.769" y="15331.539"/> <port id="pr_500c0cd9-b34b-42f6-8496-31ac5ae3ac10_p2" x="12631.769" y="15331.539"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5b54547f-cb61-409f-bac4-b53891aed953"> <bbox w="10.0" h="10.0" x="12005.625" y="4772.5"/> <port id="pr_5b54547f-cb61-409f-bac4-b53891aed953_p1" x="12010.625" y="4762.5"/> <port id="pr_5b54547f-cb61-409f-bac4-b53891aed953_p2" x="12010.625" y="4792.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_75635eed-b13a-4887-8a13-ffb6adccecd9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10838049</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_75635eed-b13a-4887-8a13-ffb6adccecd9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10838049"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21048.344" y="13847.5"/> <port id="pr_75635eed-b13a-4887-8a13-ffb6adccecd9_p1" x="21053.344" y="13867.5"/> <port id="pr_75635eed-b13a-4887-8a13-ffb6adccecd9_p2" x="21053.344" y="13837.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_59e21e9a-7518-4e7b-b726-84d1ec12062e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15708980</p> <p>in H1299 by HIPK2 upon UV</p> <p>PMID:16984892</p> <p>in vitro</p> <p>in H1299 upon JNK1 sustained activation (ectopic expression, UV or cisPlatin, in COS7), by JNK</p> <p>in MEFs upon UV, but not in JNK1 KO MEFs</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_59e21e9a-7518-4e7b-b726-84d1ec12062e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15708980"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16984892"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21406.56" y="16699.0"/> <port id="pr_59e21e9a-7518-4e7b-b726-84d1ec12062e_p1" x="21411.56" y="16689.0"/> <port id="pr_59e21e9a-7518-4e7b-b726-84d1ec12062e_p2" x="21411.56" y="16719.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dd6bd44e-060e-4534-a37f-a2c357eb5703"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20016067</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dd6bd44e-060e-4534-a37f-a2c357eb5703"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20016067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26850.06" y="18114.0"/> <port id="pr_dd6bd44e-060e-4534-a37f-a2c357eb5703_p1" x="26870.06" y="18119.0"/> <port id="pr_dd6bd44e-060e-4534-a37f-a2c357eb5703_p2" x="26840.06" y="18119.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_77453aa4-adb9-4534-b370-cbe4e82074e1"> <bbox w="10.0" h="10.0" x="11240.473" y="9616.856"/> <port id="pr_77453aa4-adb9-4534-b370-cbe4e82074e1_p1" x="11230.473" y="9621.856"/> <port id="pr_77453aa4-adb9-4534-b370-cbe4e82074e1_p2" x="11260.473" y="9621.856"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1abc06af-3634-4fc5-91c7-71e02231923c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9430630</p> <p>PMID:15486085</p> <p>BCL2-BimEL interaction in mitochondrial fraction independent of BIM S69 phosphorylation status</p> <p>PMID:15724238</p> <p>in human tonsil B cells, constitutive interaction</p> <p>PMID:10198631</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1abc06af-3634-4fc5-91c7-71e02231923c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9430630"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15486085"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15724238"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10198631"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21827.682" y="13194.0"/> <port id="pr_1abc06af-3634-4fc5-91c7-71e02231923c_p1" x="21847.682" y="13199.0"/> <port id="pr_1abc06af-3634-4fc5-91c7-71e02231923c_p2" x="21817.682" y="13199.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4f96481a-18b2-40ce-ac38-3047382e828d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Upon activation scaffold proteins serve as platforms in which ERK dimers are assembled forming complexes capable of interacting with and activating cognate cytoplasmic substrates.</p> <p>Unlike many other scaffolds ERK1/2 do not dissociate from Sef1 upon stimulation and therefore nuclear translocation of the Sef1 anchored fraction of ERK1/2 molecules is blocked.</p> <p>PMID:18775330 PMID:19565474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4f96481a-18b2-40ce-ac38-3047382e828d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19565474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8292.561" y="20147.895"/> <port id="pr_4f96481a-18b2-40ce-ac38-3047382e828d_p1" x="8312.561" y="20152.895"/> <port id="pr_4f96481a-18b2-40ce-ac38-3047382e828d_p2" x="8282.561" y="20152.895"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_427f95e4-21a0-44da-93fb-f5c520d1f2ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5076.7" y="18638.562"/> <port id="pr_427f95e4-21a0-44da-93fb-f5c520d1f2ad_p1" x="5081.7" y="18658.562"/> <port id="pr_427f95e4-21a0-44da-93fb-f5c520d1f2ad_p2" x="5081.7" y="18628.562"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2b99479c-8d46-48a4-987d-5ae1de654821"> <bbox w="10.0" h="10.0" x="6537.0" y="5980.0"/> <port id="pr_2b99479c-8d46-48a4-987d-5ae1de654821_p1" x="6527.0" y="5985.0"/> <port id="pr_2b99479c-8d46-48a4-987d-5ae1de654821_p2" x="6557.0" y="5985.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0d241ed1-a091-4626-aea1-558ddc8f1369"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11463392</p> <p>BBC3 (so-called PUMA, p53 upregulated modulator of apoptosis) as a target for activation by p53. </p> <p>This gene encodes two BH3 domain–containing proteins that are induced in cells following p53 activation. </p> <p>BBC3 binds to BCL2, localize to the mitochondria to induce cytochrome c release, and activate the rapid induction of programmed cell death. </p> <p>Antisense inhibition of PUMA expression reduced the apoptotic response to p53, and PUMA is likely to play a role inmediating p53-induced cell death through the cytochrome c/Apaf-1–dependent pathway.</p> <p>PMID:11463391</p> <p>PUMA was found to be exclusively mitochondrial and to bind to BCL2 and BCL2L1 through a BH3 domain.</p> <p>It is via this binding to BBC3 (an apoptic inducer) that BCL2 and BCL2L1 exhibit their anti-apoptic effect.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d241ed1-a091-4626-aea1-558ddc8f1369"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463392"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11463391"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4844.674" y="13611.25"/> <port id="pr_0d241ed1-a091-4626-aea1-558ddc8f1369_p1" x="4849.674" y="13631.25"/> <port id="pr_0d241ed1-a091-4626-aea1-558ddc8f1369_p2" x="4849.674" y="13601.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3e8eb670-1444-4916-8b98-ded4c50e2317"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12791379</p> <p>PMID:10582334</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e8eb670-1444-4916-8b98-ded4c50e2317"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12791379"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10582334"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12987.561" y="17623.0"/> <port id="pr_3e8eb670-1444-4916-8b98-ded4c50e2317_p1" x="12977.561" y="17628.0"/> <port id="pr_3e8eb670-1444-4916-8b98-ded4c50e2317_p2" x="13007.561" y="17628.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_432b6b49-9d00-4037-83f6-d632fe97d34b"> <bbox w="10.0" h="10.0" x="2802.5" y="4539.7915"/> <port id="pr_432b6b49-9d00-4037-83f6-d632fe97d34b_p1" x="2822.5" y="4544.7915"/> <port id="pr_432b6b49-9d00-4037-83f6-d632fe97d34b_p2" x="2792.5" y="4544.7915"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f6734942-ac51-488c-b04b-0400b174ef0a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20859956</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f6734942-ac51-488c-b04b-0400b174ef0a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20859956"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26433.521" y="13310.25"/> <port id="pr_f6734942-ac51-488c-b04b-0400b174ef0a_p1" x="26423.521" y="13315.25"/> <port id="pr_f6734942-ac51-488c-b04b-0400b174ef0a_p2" x="26453.521" y="13315.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3bda290b-4e35-406c-91f7-e54ca946cff0"> <bbox w="10.0" h="10.0" x="9152.643" y="16844.16"/> <port id="pr_3bda290b-4e35-406c-91f7-e54ca946cff0_p1" x="9157.643" y="16834.16"/> <port id="pr_3bda290b-4e35-406c-91f7-e54ca946cff0_p2" x="9157.643" y="16864.16"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_e931b05c-a660-4509-b0a2-93355803562e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Translation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10676.311" y="20699.5"/> <port id="pr_e931b05c-a660-4509-b0a2-93355803562e_p1" x="10681.311" y="20719.5"/> <port id="pr_e931b05c-a660-4509-b0a2-93355803562e_p2" x="10681.311" y="20689.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82975323-48d3-4ae8-8ae1-1e7baad0eabf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1374.75" y="16194.25"/> <port id="pr_82975323-48d3-4ae8-8ae1-1e7baad0eabf_p1" x="1364.75" y="16199.25"/> <port id="pr_82975323-48d3-4ae8-8ae1-1e7baad0eabf_p2" x="1394.75" y="16199.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_235c4562-ef16-4314-bfdd-c933197e6f42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27328425</p> <p>PMID:27572739</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_235c4562-ef16-4314-bfdd-c933197e6f42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4518.25" y="11138.0"/> <port id="pr_235c4562-ef16-4314-bfdd-c933197e6f42_p1" x="4523.25" y="11128.0"/> <port id="pr_235c4562-ef16-4314-bfdd-c933197e6f42_p2" x="4523.25" y="11158.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_d82f4506-d9a2-4cb1-b26d-1a7e00f8da50"> <bbox w="20.0" h="20.0" x="4718.5166" y="11029.762"/> <port id="logicglyph_d82f4506-d9a2-4cb1-b26d-1a7e00f8da50_p1" x="4748.5166" y="11039.762"/> <port id="logicglyph_d82f4506-d9a2-4cb1-b26d-1a7e00f8da50_p2" x="4708.5166" y="11039.762"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9cc23f8a-9c6a-4ecb-b507-f64e6e0e966b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic protines) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic protines)work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9cc23f8a-9c6a-4ecb-b507-f64e6e0e966b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22039431"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5289.0" y="13743.236"/> <port id="pr_9cc23f8a-9c6a-4ecb-b507-f64e6e0e966b_p1" x="5279.0" y="13748.236"/> <port id="pr_9cc23f8a-9c6a-4ecb-b507-f64e6e0e966b_p2" x="5309.0" y="13748.236"/> </glyph> <glyph class="process" orientation="vertical" id="pr_19e9ae1f-099a-4771-8aaa-a91f4e9f7ba9"> <bbox w="10.0" h="10.0" x="28544.705" y="11437.583"/> <port id="pr_19e9ae1f-099a-4771-8aaa-a91f4e9f7ba9_p1" x="28549.705" y="11457.583"/> <port id="pr_19e9ae1f-099a-4771-8aaa-a91f4e9f7ba9_p2" x="28549.705" y="11427.583"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a489a49b-b857-46a6-bbd2-252baa9d0396"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3438.5" y="16023.203"/> <port id="pr_a489a49b-b857-46a6-bbd2-252baa9d0396_p1" x="3458.5" y="16028.203"/> <port id="pr_a489a49b-b857-46a6-bbd2-252baa9d0396_p2" x="3428.5" y="16028.203"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6385678f-fa4c-4cfc-b690-e7442baff63f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12351678</p> <p>identification of PHD2 as a HIF1A prolyl hydroxylase</p> <p>PMID:15652751</p> <p>inhibition of HIF1A prolyl hydroxylation by succinate and fumarate</p> <p>PMID:15721254</p> <p>in 293 cells, OS9 interacts with HIF1 and PHD and promotes HIF1A prolylhydroxylation and degradation</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6385678f-fa4c-4cfc-b690-e7442baff63f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12351678"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15652751"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15721254"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25161.164" y="15213.814"/> <port id="pr_6385678f-fa4c-4cfc-b690-e7442baff63f_p1" x="25181.164" y="15218.814"/> <port id="pr_6385678f-fa4c-4cfc-b690-e7442baff63f_p2" x="25151.164" y="15218.814"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_39099183-2fbb-4e14-a296-c728c495af12"> <bbox w="20.0" h="20.0" x="25159.84" y="15165.527"/> <port id="logicglyph_39099183-2fbb-4e14-a296-c728c495af12_p1" x="25169.84" y="15155.527"/> <port id="logicglyph_39099183-2fbb-4e14-a296-c728c495af12_p2" x="25169.84" y="15195.527"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c619b35a-5261-4194-b10a-6d0ca97c8696"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Positive modulaion</p> <p>PMID:15755874, PMID:23308069</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c619b35a-5261-4194-b10a-6d0ca97c8696"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15755874"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23308069"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18230.06" y="20770.0"/> <port id="pr_c619b35a-5261-4194-b10a-6d0ca97c8696_p1" x="18235.06" y="20760.0"/> <port id="pr_c619b35a-5261-4194-b10a-6d0ca97c8696_p2" x="18235.06" y="20790.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bdfe9c6b-0cb1-4d64-ad6e-25e7eb4db596"> <bbox w="10.0" h="10.0" x="29349.06" y="9504.0"/> <port id="pr_bdfe9c6b-0cb1-4d64-ad6e-25e7eb4db596_p1" x="29369.06" y="9509.0"/> <port id="pr_bdfe9c6b-0cb1-4d64-ad6e-25e7eb4db596_p2" x="29339.06" y="9509.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3d376d78-3d9c-4ca6-a57a-459a960f6a95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22166994</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_925ca9b3-ccdc-430a-ba37-b73eadf978d3_p1" x="6457.713" y="4345.0"/> <port id="pr_925ca9b3-ccdc-430a-ba37-b73eadf978d3_p2" x="6457.713" y="4375.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b770e3db-4298-42b8-82a6-feffed24097f"> <bbox w="10.0" h="10.0" x="27509.088" y="12436.264"/> <port id="pr_b770e3db-4298-42b8-82a6-feffed24097f_p1" x="27499.088" y="12441.264"/> <port id="pr_b770e3db-4298-42b8-82a6-feffed24097f_p2" x="27529.088" y="12441.264"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_28a09a86-4d81-4afc-9bd8-3cea6260134e"> <bbox w="10.0" h="10.0" x="21855.0" y="7405.0"/> <port id="pr_28a09a86-4d81-4afc-9bd8-3cea6260134e_p1" x="21875.0" y="7410.0"/> <port id="pr_28a09a86-4d81-4afc-9bd8-3cea6260134e_p2" x="21845.0" y="7410.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_aec56b3b-100a-48ee-a348-73b102d41876"> <bbox w="10.0" h="10.0" x="13936.311" y="18219.0"/> <port id="pr_aec56b3b-100a-48ee-a348-73b102d41876_p1" x="13941.311" y="18239.0"/> <port id="pr_aec56b3b-100a-48ee-a348-73b102d41876_p2" x="13941.311" y="18209.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_30668bb0-d63d-4d52-9fe2-beb208e153a1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14716299</p> <p>in Jurkat, interaction upon apoptosis induction by staurosporin or serum withdrawal</p> <p>in Hela, colocalization in the nucleus</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_30668bb0-d63d-4d52-9fe2-beb208e153a1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14716299"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18673.426" y="16168.245"/> <port id="pr_30668bb0-d63d-4d52-9fe2-beb208e153a1_p1" x="18663.426" y="16173.245"/> <port id="pr_30668bb0-d63d-4d52-9fe2-beb208e153a1_p2" x="18693.426" y="16173.245"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ee54245-9ee4-4660-9976-9290a382c3fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21383238</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ee54245-9ee4-4660-9976-9290a382c3fc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21383238"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27434.55" y="22114.75"/> <port id="pr_5ee54245-9ee4-4660-9976-9290a382c3fc_p1" x="27439.55" y="22104.75"/> <port id="pr_5ee54245-9ee4-4660-9976-9290a382c3fc_p2" x="27439.55" y="22134.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f089bdf1-5163-4e5b-a72e-5e6ed8f2abfe"> <bbox w="10.0" h="10.0" x="27160.111" y="6269.5"/> <port id="pr_f089bdf1-5163-4e5b-a72e-5e6ed8f2abfe_p1" x="27165.111" y="6259.5"/> <port id="pr_f089bdf1-5163-4e5b-a72e-5e6ed8f2abfe_p2" x="27165.111" y="6289.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c13e1d04-accb-4af2-b555-494aaba4aa44"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The complex MRN:BRCA1:phos-Ub-CtIP is central in the shift toward HR, because it activates resection for HR and blocks Ku70/80 of C_NHEJ:</p> <p>PMID:19357644, PMID:15485915, PMID:19490890, PMID:18716619 (for CDK-dep phosph), PMID:20051983</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c13e1d04-accb-4af2-b555-494aaba4aa44"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19357644"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15485915"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19490890"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18716619"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20051983"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12812.974" y="15686.141"/> <port id="pr_c13e1d04-accb-4af2-b555-494aaba4aa44_p1" x="12817.974" y="15676.141"/> <port id="pr_c13e1d04-accb-4af2-b555-494aaba4aa44_p2" x="12817.974" y="15706.141"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ad51d153-e405-4983-9a5a-2bcd1aa71691"> <bbox w="10.0" h="10.0" x="7797.0" y="7310.0"/> <port id="pr_ad51d153-e405-4983-9a5a-2bcd1aa71691_p1" x="7817.0" y="7315.0"/> <port id="pr_ad51d153-e405-4983-9a5a-2bcd1aa71691_p2" x="7787.0" y="7315.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bd89623b-ad8d-415c-9489-4eefe45cb7a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20081843</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bd89623b-ad8d-415c-9489-4eefe45cb7a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20081843"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27092.686" y="20576.34"/> <port id="pr_bd89623b-ad8d-415c-9489-4eefe45cb7a4_p1" x="27097.686" y="20566.34"/> <port id="pr_bd89623b-ad8d-415c-9489-4eefe45cb7a4_p2" x="27097.686" y="20596.34"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f5561068-835b-4192-b32e-d5db4bb3455e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3062.119" y="19023.0"/> <port id="pr_f5561068-835b-4192-b32e-d5db4bb3455e_p1" x="3067.119" y="19013.0"/> <port id="pr_f5561068-835b-4192-b32e-d5db4bb3455e_p2" x="3067.119" y="19043.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_a7ecb8cb-2fb2-4c06-a2f1-fc1097772c2d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2258.8276" y="16900.5"/> <port id="pr_a7ecb8cb-2fb2-4c06-a2f1-fc1097772c2d_p1" x="2248.8276" y="16905.5"/> <port id="pr_a7ecb8cb-2fb2-4c06-a2f1-fc1097772c2d_p2" x="2278.8276" y="16905.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f325fba1-27b5-440b-8c8f-839ae8b323dc"> <bbox w="10.0" h="10.0" x="1715.0" y="3172.5"/> <port id="pr_f325fba1-27b5-440b-8c8f-839ae8b323dc_p1" x="1720.0" y="3192.5"/> <port id="pr_f325fba1-27b5-440b-8c8f-839ae8b323dc_p2" x="1720.0" y="3162.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f19ffe84-c562-4bf0-bbda-b03efedae000"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18471976</p> <p>PMID:19945467</p> <p>PMID:27328425</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f19ffe84-c562-4bf0-bbda-b03efedae000"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18471976"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27328425"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3337.25" y="10533.0"/> <port id="pr_f19ffe84-c562-4bf0-bbda-b03efedae000_p1" x="3342.25" y="10553.0"/> <port id="pr_f19ffe84-c562-4bf0-bbda-b03efedae000_p2" x="3342.25" y="10523.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_519c1225-883b-41ad-9124-0528f748899e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20709625, PMID:14612448, PMID:21414921</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_519c1225-883b-41ad-9124-0528f748899e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20709625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14612448"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21414921"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17643.56" y="18516.0"/> <port id="pr_519c1225-883b-41ad-9124-0528f748899e_p1" x="17663.56" y="18521.0"/> <port id="pr_519c1225-883b-41ad-9124-0528f748899e_p2" x="17633.56" y="18521.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a84ea8bc-d729-407e-8e29-fae659486edd"> <bbox w="10.0" h="10.0" x="18156.06" y="18769.5"/> <port id="pr_a84ea8bc-d729-407e-8e29-fae659486edd_p1" x="18161.06" y="18789.5"/> <port id="pr_a84ea8bc-d729-407e-8e29-fae659486edd_p2" x="18161.06" y="18759.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e659cbb4-29ac-4318-be0f-990b9b33b393"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19244247</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e659cbb4-29ac-4318-be0f-990b9b33b393"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19244247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23519.06" y="18542.0"/> <port id="pr_e659cbb4-29ac-4318-be0f-990b9b33b393_p1" x="23524.06" y="18562.0"/> <port id="pr_e659cbb4-29ac-4318-be0f-990b9b33b393_p2" x="23524.06" y="18532.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7400a15f-c608-45f0-965e-bd1f095c5f8a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Expression of GADD45 is the culmination of a signaling pathway that requires prior expression of the tumor suppressor protein P53 which trans-activates the GADD45 gene.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7400a15f-c608-45f0-965e-bd1f095c5f8a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10808.053" y="20700.277"/> <port id="pr_7400a15f-c608-45f0-965e-bd1f095c5f8a_p1" x="10813.053" y="20690.277"/> <port id="pr_7400a15f-c608-45f0-965e-bd1f095c5f8a_p2" x="10813.053" y="20720.277"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9107991a-d470-478d-890c-128a7ffbd9c0"> <bbox w="10.0" h="10.0" x="19316.914" y="14755.307"/> <port id="pr_9107991a-d470-478d-890c-128a7ffbd9c0_p1" x="19336.914" y="14760.307"/> <port id="pr_9107991a-d470-478d-890c-128a7ffbd9c0_p2" x="19306.914" y="14760.307"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1a8de6af-bb78-49f8-ae49-730d15d82e01"> <bbox w="10.0" h="10.0" x="22785.0" y="6105.0"/> <port id="pr_1a8de6af-bb78-49f8-ae49-730d15d82e01_p1" x="22790.0" y="6095.0"/> <port id="pr_1a8de6af-bb78-49f8-ae49-730d15d82e01_p2" x="22790.0" y="6125.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6044f8bd-d263-4eb8-a18d-6323c8bbf976"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID :10402472</p> <p>We conclude that a pool of surface E-cadherin is constantly trafficked through an endocytic, recycling pathway and that this may provide a mechanism for regulating the availability of E-cadherin for junction formation in development, tissue remodeling, and tumorigenesis.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1856.5178" y="14701.25"/> <port id="pr_6044f8bd-d263-4eb8-a18d-6323c8bbf976_p1" x="1861.5178" y="14721.25"/> <port id="pr_6044f8bd-d263-4eb8-a18d-6323c8bbf976_p2" x="1861.5178" y="14691.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_2d7c68dc-5dd0-4cd3-8b66-3571925441b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9857026</p> <p>GEF-H1 is so-called ARHGEF2</p> <p>GEFH1, which associates with tubulin in a manner dependent on a Zn-finger motif, is a regulator of the Rho family</p> <p>GEFH1 is known to activate Rho A, B, C, and Rac1 but is inactive toward Cdc42, TC10, or Ras.</p> <p>GEFH1 may have a direct role in activation of Rac and/or Rho and in bringing the activated GTPase to specific target sites such as microtubules.</p> <p>PMID:16917499</p> <p>The activation of GEFH1- RhoB through the TRIF-dependent pathway of LPS in DC might be a critical target for controlling the activation of CD4+ T cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d7c68dc-5dd0-4cd3-8b66-3571925441b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9857026"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16917499"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5860.5" y="14450.711"/> <port id="pr_2d7c68dc-5dd0-4cd3-8b66-3571925441b4_p1" x="5880.5" y="14455.711"/> <port id="pr_2d7c68dc-5dd0-4cd3-8b66-3571925441b4_p2" x="5850.5" y="14455.711"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eb7ba56c-6587-4985-8c13-9957acc18c0c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>In the presence of wnt signals (+wnt) the cytosolic amount of b-catenin increases and thus translocates to the nucleus where it associates with transcription factors of the TCF/ LEF family. Due to its transactivating ability the b-catenin-transcription-factor-co mplex binds to DNA and activates wnt target genes.</p> <p>http://www.gene-regulation.com/info/b-catenin.html</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="7783.445" y="20501.633"/> <port id="pr_eb7ba56c-6587-4985-8c13-9957acc18c0c_p1" x="7773.445" y="20506.633"/> <port id="pr_eb7ba56c-6587-4985-8c13-9957acc18c0c_p2" x="7803.445" y="20506.633"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13e2f07d-406e-4192-a1eb-c70be80e3c8e"> <bbox w="10.0" h="10.0" x="21140.0" y="1875.0"/> <port id="pr_13e2f07d-406e-4192-a1eb-c70be80e3c8e_p1" x="21145.0" y="1895.0"/> <port id="pr_13e2f07d-406e-4192-a1eb-c70be80e3c8e_p2" x="21145.0" y="1865.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f1c20a8-426f-4a3e-8fc9-440184206afd"> <bbox w="10.0" h="10.0" x="4630.0" y="2678.0"/> <port id="pr_2f1c20a8-426f-4a3e-8fc9-440184206afd_p1" x="4635.0" y="2698.0"/> <port id="pr_2f1c20a8-426f-4a3e-8fc9-440184206afd_p2" x="4635.0" y="2668.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02dd4440-7801-45ac-93f8-107420e0e59d"> <bbox w="10.0" h="10.0" x="3334.6" y="4911.25"/> <port id="pr_02dd4440-7801-45ac-93f8-107420e0e59d_p1" x="3339.6" y="4901.25"/> <port id="pr_02dd4440-7801-45ac-93f8-107420e0e59d_p2" x="3339.6" y="4931.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e1930678-148a-474a-b5e5-09476af6236b"> <bbox w="10.0" h="10.0" x="16877.5" y="7830.0"/> <port id="pr_e1930678-148a-474a-b5e5-09476af6236b_p1" x="16882.5" y="7820.0"/> <port id="pr_e1930678-148a-474a-b5e5-09476af6236b_p2" x="16882.5" y="7850.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_92ed7764-b5df-4596-ac97-be708f38aa03"> <bbox w="10.0" h="10.0" x="6163.5" y="7364.625"/> <port id="pr_92ed7764-b5df-4596-ac97-be708f38aa03_p1" x="6168.5" y="7354.625"/> <port id="pr_92ed7764-b5df-4596-ac97-be708f38aa03_p2" x="6168.5" y="7384.625"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_ead13859-3dcc-4a0f-8053-ca33ad0a787b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3581.5" y="13416.0"/> <port id="pr_ead13859-3dcc-4a0f-8053-ca33ad0a787b_p1" x="3586.5" y="13436.0"/> <port id="pr_ead13859-3dcc-4a0f-8053-ca33ad0a787b_p2" x="3586.5" y="13406.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4c6a321b-8232-4469-a331-d324abf03d9c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15690031</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4c6a321b-8232-4469-a331-d324abf03d9c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15690031"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27384.803" y="12103.5"/> <port id="pr_4c6a321b-8232-4469-a331-d324abf03d9c_p1" x="27389.803" y="12123.5"/> <port id="pr_4c6a321b-8232-4469-a331-d324abf03d9c_p2" x="27389.803" y="12093.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df234726-4aae-409d-aacc-bb128a4a6c5b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_df234726-4aae-409d-aacc-bb128a4a6c5b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21103.31" y="22326.033"/> <port id="pr_df234726-4aae-409d-aacc-bb128a4a6c5b_p1" x="21093.31" y="22331.033"/> <port id="pr_df234726-4aae-409d-aacc-bb128a4a6c5b_p2" x="21123.31" y="22331.033"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3c7db01a-b7fd-493e-a334-a1a026da70c3"> <bbox w="10.0" h="10.0" x="18961.81" y="12916.5"/> <port id="pr_3c7db01a-b7fd-493e-a334-a1a026da70c3_p1" x="18981.81" y="12921.5"/> <port id="pr_3c7db01a-b7fd-493e-a334-a1a026da70c3_p2" x="18951.81" y="12921.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af07a741-2714-46cb-907b-b2d4f773d2b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Akt phosphorylation of the apoptosis-inducing protein BAD creates a binding site for 14-3-3 proteins and prevents BAD from binding to Bcl-2 family members Bcl-2 and Bcl-XL thus releasing them for a cell survival response.</p> <p>PMID:12040186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_af07a741-2714-46cb-907b-b2d4f773d2b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8675.061" y="19488.125"/> <port id="pr_af07a741-2714-46cb-907b-b2d4f773d2b4_p1" x="8680.061" y="19478.125"/> <port id="pr_af07a741-2714-46cb-907b-b2d4f773d2b4_p2" x="8680.061" y="19508.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_28eae806-81c1-4577-a340-4d370b809ce2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20932932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_28eae806-81c1-4577-a340-4d370b809ce2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20932932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12005.311" y="19928.0"/> <port id="pr_28eae806-81c1-4577-a340-4d370b809ce2_p1" x="11995.311" y="19933.0"/> <port id="pr_28eae806-81c1-4577-a340-4d370b809ce2_p2" x="12025.311" y="19933.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bf755251-2f47-493b-b27a-b2d8fbcaafda"> <bbox w="10.0" h="10.0" x="26692.031" y="15912.125"/> <port id="pr_bf755251-2f47-493b-b27a-b2d8fbcaafda_p1" x="26697.031" y="15932.125"/> <port id="pr_bf755251-2f47-493b-b27a-b2d8fbcaafda_p2" x="26697.031" y="15902.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8d3ffe89-5dbe-4835-bedd-c5359db03f17"> <bbox w="10.0" h="10.0" x="10795.0" y="4620.0"/> <port id="pr_8d3ffe89-5dbe-4835-bedd-c5359db03f17_p1" x="10800.0" y="4610.0"/> <port id="pr_8d3ffe89-5dbe-4835-bedd-c5359db03f17_p2" x="10800.0" y="4640.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_560780dc-e795-43dd-89df-c351cc37829e"> <bbox w="10.0" h="10.0" x="18649.06" y="14144.0"/> <port id="pr_560780dc-e795-43dd-89df-c351cc37829e_p1" x="18654.06" y="14134.0"/> <port id="pr_560780dc-e795-43dd-89df-c351cc37829e_p2" x="18654.06" y="14164.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d307bb71-f406-47d8-8bb0-36d48cefe29a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Rspo is required for clathrin-mediated endocytosis</p> <p>PMID:21397842</p> <p>It has been shown that Dvl polymers are not associated with vesicles, therefore endocytosis of the complex is likely to be after Dvl polymerisation.</p> <p>PMID:16263762</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20711444</p> <p>PTM=sumoylation N/A in CellDesigner. </p> <p>Sumoylation not detected on endogenous Gli proteins</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0be89314-708e-4910-9211-994506a82bf7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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y="15130.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bbdae52c-a09f-47e5-8d5d-3e030a31610f"> <bbox w="10.0" h="10.0" x="21760.0" y="1975.0"/> <port id="pr_bbdae52c-a09f-47e5-8d5d-3e030a31610f_p1" x="21765.0" y="1995.0"/> <port id="pr_bbdae52c-a09f-47e5-8d5d-3e030a31610f_p2" x="21765.0" y="1965.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3760a2ab-a9ec-41f8-a785-202ca36fbeed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19834492</p> <p>in different cancer cell lines (CEM, C666-1 and HCT116) that express empty or BCL2 plasmids</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3760a2ab-a9ec-41f8-a785-202ca36fbeed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19834492"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20151.936" y="13166.5"/> <port id="pr_3760a2ab-a9ec-41f8-a785-202ca36fbeed_p1" x="20156.936" y="13156.5"/> <port id="pr_3760a2ab-a9ec-41f8-a785-202ca36fbeed_p2" x="20156.936" y="13186.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f3125d35-cff6-4227-93c4-6ebee0b61df4"> <bbox w="10.0" h="10.0" x="10020.931" y="7321.25"/> <port id="pr_f3125d35-cff6-4227-93c4-6ebee0b61df4_p1" x="10025.931" y="7311.25"/> <port 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y="825.0"/> <port id="pr_2963cfa8-a652-4604-a93d-4af8423f6bf4_p1" x="19035.0" y="815.0"/> <port id="pr_2963cfa8-a652-4604-a93d-4af8423f6bf4_p2" x="19035.0" y="845.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1c2eb3ae-d133-4297-bd1d-5795516f727d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:12040186</p> <p>PMID:19568798</p> <p>PMID:14585353</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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x="7295.6465" y="3392.0"/> <port id="pr_4ed22a42-06b2-4136-b803-c7675a5f528e_p2" x="7295.6465" y="3422.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4aa94484-84f0-4da0-a165-47deada2511a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Translation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="7551.06" y="20415.625"/> <port id="pr_4aa94484-84f0-4da0-a165-47deada2511a_p1" x="7541.06" y="20420.625"/> <port id="pr_4aa94484-84f0-4da0-a165-47deada2511a_p2" x="7571.06" y="20420.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e7a7f994-7068-4399-b029-a26835d6feca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15486085</p> <p>MCL1-BIM interaction in mitochondrial fraction independent of BIM S65 phosphorylation status</p> <p>PMID:15724238</p> <p>in human tonsil B cells, constitutive interaction</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e7a7f994-7068-4399-b029-a26835d6feca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15486085"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15724238"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox 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rdf:about="#pr_a238e0ec-f1dc-4cf1-9740-73eb71cca8e3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12808044"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1225.3636" y="17838.5"/> <port id="pr_a238e0ec-f1dc-4cf1-9740-73eb71cca8e3_p1" x="1230.3636" y="17828.5"/> <port id="pr_a238e0ec-f1dc-4cf1-9740-73eb71cca8e3_p2" x="1230.3636" y="17858.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a73ca8db-664e-42ef-984b-c186cf74bc34"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10949026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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id="pr_3b5c7f4c-3b40-40f9-82dd-390e8a6d304c_p1" x="14275.161" y="1775.0"/> <port id="pr_3b5c7f4c-3b40-40f9-82dd-390e8a6d304c_p2" x="14275.161" y="1745.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f987e68c-0962-4da8-8fd9-83dfdcc72a0d"> <bbox w="10.0" h="10.0" x="27148.5" y="2726.25"/> <port id="pr_f987e68c-0962-4da8-8fd9-83dfdcc72a0d_p1" x="27138.5" y="2731.25"/> <port id="pr_f987e68c-0962-4da8-8fd9-83dfdcc72a0d_p2" x="27168.5" y="2731.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9253195d-a5da-42f7-9336-5ba555a23e75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5100.1465" y="17690.0"/> <port id="pr_9253195d-a5da-42f7-9336-5ba555a23e75_p1" x="5105.1465" y="17680.0"/> <port id="pr_9253195d-a5da-42f7-9336-5ba555a23e75_p2" x="5105.1465" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_de495882-f7a9-4c85-885a-3c04c5f74c69"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839880</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_de495882-f7a9-4c85-885a-3c04c5f74c69"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839880"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21705.24" y="16178.184"/> <port id="pr_de495882-f7a9-4c85-885a-3c04c5f74c69_p1" x="21710.24" y="16198.184"/> <port id="pr_de495882-f7a9-4c85-885a-3c04c5f74c69_p2" x="21710.24" y="16168.184"/> </glyph> <glyph class="process" orientation="vertical" id="pr_27d778cf-0069-4584-9115-0299d72c3cc3"> <bbox w="10.0" h="10.0" x="30731.0" y="2555.0"/> <port id="pr_27d778cf-0069-4584-9115-0299d72c3cc3_p1" x="30736.0" y="2545.0"/> <port id="pr_27d778cf-0069-4584-9115-0299d72c3cc3_p2" x="30736.0" y="2575.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ee5933e9-1f29-4c48-a8c2-24aa9630cb6c"> <bbox w="10.0" h="10.0" x="27958.31" y="10908.75"/> <port id="pr_ee5933e9-1f29-4c48-a8c2-24aa9630cb6c_p1" x="27948.31" y="10913.75"/> <port id="pr_ee5933e9-1f29-4c48-a8c2-24aa9630cb6c_p2" x="27978.31" y="10913.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fa15fd85-3e5c-40c1-bf45-9bd4c40716c7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:15611338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fa15fd85-3e5c-40c1-bf45-9bd4c40716c7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15611338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27671.06" y="22910.0"/> <port id="pr_fa15fd85-3e5c-40c1-bf45-9bd4c40716c7_p1" x="27691.06" y="22915.0"/> <port id="pr_fa15fd85-3e5c-40c1-bf45-9bd4c40716c7_p2" x="27661.06" y="22915.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e7c37867-4c89-4de7-bc51-9654df1b1c7f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CK2 phosphorylates TLE</p> <p>PMID:15367661</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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id="pr_09da88e4-0e96-41f9-a140-b87ccdd6efb1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:10611249</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_09da88e4-0e96-41f9-a140-b87ccdd6efb1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10611249"/> </rdf:Bag> 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id="pr_f5e601ac-d203-4a87-8753-cde211b952b0"> <bbox w="10.0" h="10.0" x="15008.468" y="16098.393"/> <port id="pr_f5e601ac-d203-4a87-8753-cde211b952b0_p1" x="15013.468" y="16118.393"/> <port id="pr_f5e601ac-d203-4a87-8753-cde211b952b0_p2" x="15013.468" y="16088.393"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_d3d07b51-3481-4b07-88bf-685c0ed777a5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2421.5703" y="16982.75"/> <port id="pr_d3d07b51-3481-4b07-88bf-685c0ed777a5_p1" x="2426.5703" y="17002.75"/> <port id="pr_d3d07b51-3481-4b07-88bf-685c0ed777a5_p2" x="2426.5703" y="16972.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6e28469f-dbfc-4dbd-b249-162745e4feb3"> <bbox w="10.0" h="10.0" x="23040.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18328430</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d323229c-bdf2-42d0-8ad9-03772430e02e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18328430"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21979.941" y="15978.549"/> <port 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MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21490931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bed4d9cc-9915-4133-aeba-d72391ccef75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21490931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23346.56" y="18273.0"/> <port id="pr_bed4d9cc-9915-4133-aeba-d72391ccef75_p1" x="23366.56" y="18278.0"/> <port id="pr_bed4d9cc-9915-4133-aeba-d72391ccef75_p2" x="23336.56" y="18278.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b4d7a5f1-fd8f-4ba0-a017-657950ef89e7"> <bbox w="10.0" h="10.0" x="20200.436" y="10755.041"/> <port id="pr_b4d7a5f1-fd8f-4ba0-a017-657950ef89e7_p1" x="20205.436" y="10745.041"/> <port id="pr_b4d7a5f1-fd8f-4ba0-a017-657950ef89e7_p2" x="20205.436" y="10775.041"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_46ead258-e060-41a1-b5d7-b87464a6d759"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Mi-2/NuRD</p> <p>PMID:22290435</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="13954.0"/> <port id="pr_39cef179-a0e7-4638-9c22-85954357bce5_p2" x="28974.06" y="13984.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b7a1f14d-5f82-49fa-a139-eefc9f80c904"> <bbox w="10.0" h="10.0" x="12585.0" y="3490.0"/> <port id="pr_b7a1f14d-5f82-49fa-a139-eefc9f80c904_p1" x="12590.0" y="3480.0"/> <port id="pr_b7a1f14d-5f82-49fa-a139-eefc9f80c904_p2" x="12590.0" y="3510.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_96cfaa9a-3401-4ae8-be29-b7e2808a5240"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27526109</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6426.75" y="14278.877"/> <port id="pr_8dbbe257-01ec-4a43-aaa0-2f55f97255b3_p1" x="6416.75" y="14283.877"/> <port id="pr_8dbbe257-01ec-4a43-aaa0-2f55f97255b3_p2" x="6446.75" y="14283.877"/> </glyph> <glyph class="process" orientation="vertical" id="pr_927e5ed6-3c08-43da-a98b-8a9d14be8517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19055944</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:17549397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e0d0d20-b631-4a34-97a7-6c956c513ffc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17549397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26992.56" y="22895.0"/> <port id="pr_3e0d0d20-b631-4a34-97a7-6c956c513ffc_p1" x="26982.56" y="22900.0"/> <port id="pr_3e0d0d20-b631-4a34-97a7-6c956c513ffc_p2" x="27012.56" y="22900.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c73ac732-a40c-400c-baa2-defa4933edb2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS</p> <p>References:</p> <p>PMID:15761148</p> <p>After stimulation by TGFB, TGFBR2 is redistributed to the tight junctions, where it localizes with both TGFBR1 and ZO-1.</p> <p>Active TGFBR2 recruited to TIGHT_JUNCTIONS phosphorylates PARD6A on Serine residue S345 and it also phosphorylates TGFBR1</p> <p>Once phosphorylated by TGFBR2, both TGFBR1 and PARD6A become active</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c73ac732-a40c-400c-baa2-defa4933edb2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15761148"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1369.0" y="14544.25"/> <port id="pr_c73ac732-a40c-400c-baa2-defa4933edb2_p1" x="1359.0" y="14549.25"/> <port id="pr_c73ac732-a40c-400c-baa2-defa4933edb2_p2" x="1389.0" y="14549.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d7cab7a-be19-4bed-b032-e8dc806bbea6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:12734397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d7cab7a-be19-4bed-b032-e8dc806bbea6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12734397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24780.06" y="18390.04"/> <port id="pr_0d7cab7a-be19-4bed-b032-e8dc806bbea6_p1" x="24800.06" y="18395.04"/> <port id="pr_0d7cab7a-be19-4bed-b032-e8dc806bbea6_p2" x="24770.06" y="18395.04"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fee30072-e535-4017-a138-f0463255c8b6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9604935</p> <p>Phosphorylation of ERK-1/2 promotes its homodimerization</p> <p>PMID:18775330</p> <p>Scaffolds and ERK dimers are essential for the activation of cytoplasmic but not nuclear substrates. </p> <p>Dimerization is critical for connecting the scaffolded ERK complex to cognate cytoplasmic substrates. </p> <p>Contrarily, nuclear substrates associate to ERK monomers.</p> <p>PMID:9155017</p> <p>Mnk1 and Mnk2 bind to Erk1, Erk2 and p38 but not JNK</p> <p>Mnk1 and Mnk2 are in vitro substrates of Erk2 and p38</p> <p>Mnk1 is a MAP kinase-activated eIF-4E kinase</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fee30072-e535-4017-a138-f0463255c8b6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9604935"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18775330"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9155017"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6237.0" y="13697.0"/> <port id="pr_fee30072-e535-4017-a138-f0463255c8b6_p1" x="6242.0" y="13687.0"/> <port id="pr_fee30072-e535-4017-a138-f0463255c8b6_p2" x="6242.0" y="13717.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e7fc95b6-351d-4014-8ea8-8e05424acd89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18046414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e7fc95b6-351d-4014-8ea8-8e05424acd89"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18046414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20393.969" y="16187.125"/> <port id="pr_e7fc95b6-351d-4014-8ea8-8e05424acd89_p1" x="20398.969" y="16207.125"/> <port id="pr_e7fc95b6-351d-4014-8ea8-8e05424acd89_p2" x="20398.969" y="16177.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e49c3df9-4b97-40f6-948a-aab1b7fc8720"> <bbox w="10.0" h="10.0" x="27931.56" y="11903.833"/> <port id="pr_e49c3df9-4b97-40f6-948a-aab1b7fc8720_p1" x="27921.56" y="11908.833"/> <port id="pr_e49c3df9-4b97-40f6-948a-aab1b7fc8720_p2" x="27951.56" y="11908.833"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5b0a4135-248a-44c7-9514-da1d2f790b2f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22812.06" y="11201.846"/> <port id="pr_5b0a4135-248a-44c7-9514-da1d2f790b2f_p1" x="22802.06" y="11206.846"/> <port id="pr_5b0a4135-248a-44c7-9514-da1d2f790b2f_p2" x="22832.06" y="11206.846"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3a565282-77e7-4131-a4e6-7dc399353a9a"> <bbox w="10.0" h="10.0" x="23420.0" y="2165.0"/> <port id="pr_3a565282-77e7-4131-a4e6-7dc399353a9a_p1" x="23425.0" y="2155.0"/> <port id="pr_3a565282-77e7-4131-a4e6-7dc399353a9a_p2" x="23425.0" y="2185.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_758f23e2-f881-4f53-ba77-fc69b73bd475"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activation of MEKK2 and MEKK3 is assumed to follow the same mechanisms of MEKK1 activation</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10711.162" y="19447.39"/> <port id="pr_758f23e2-f881-4f53-ba77-fc69b73bd475_p1" x="10716.162" y="19437.39"/> <port id="pr_758f23e2-f881-4f53-ba77-fc69b73bd475_p2" x="10716.162" y="19467.39"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5a81b127-2435-455b-a067-9298e75465b0"> <bbox w="10.0" h="10.0" x="21795.0" y="7856.25"/> <port id="pr_5a81b127-2435-455b-a067-9298e75465b0_p1" x="21800.0" y="7846.25"/> <port id="pr_5a81b127-2435-455b-a067-9298e75465b0_p2" x="21800.0" y="7876.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8857fcc6-b6a3-472f-85a8-66c887a5f226"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18158893</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8857fcc6-b6a3-472f-85a8-66c887a5f226"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18158893"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23736.56" y="16780.0"/> <port id="pr_8857fcc6-b6a3-472f-85a8-66c887a5f226_p1" x="23741.56" y="16770.0"/> <port id="pr_8857fcc6-b6a3-472f-85a8-66c887a5f226_p2" x="23741.56" y="16800.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f2228ce4-5a05-4951-a543-3c02a2756442"> <bbox w="10.0" h="10.0" x="23457.06" y="16187.0"/> <port id="pr_f2228ce4-5a05-4951-a543-3c02a2756442_p1" x="23462.06" y="16207.0"/> <port id="pr_f2228ce4-5a05-4951-a543-3c02a2756442_p2" x="23462.06" y="16177.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_510ac2e4-a764-4c3a-8c68-97bf056c938c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11359904</p> <p>by NFkB</p> <p>PMID:15367674</p> <p>by MYC</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_510ac2e4-a764-4c3a-8c68-97bf056c938c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11359904"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15367674"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24369.547" y="16162.705"/> <port id="pr_510ac2e4-a764-4c3a-8c68-97bf056c938c_p1" x="24374.547" y="16182.705"/> <port id="pr_510ac2e4-a764-4c3a-8c68-97bf056c938c_p2" x="24374.547" y="16152.705"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9c93e868-900f-4114-910e-b9cd334c5f7c"> <bbox w="10.0" h="10.0" x="22868.207" y="15953.25"/> <port id="pr_9c93e868-900f-4114-910e-b9cd334c5f7c_p1" x="22873.207" y="15973.25"/> <port id="pr_9c93e868-900f-4114-910e-b9cd334c5f7c_p2" x="22873.207" y="15943.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_684755b3-7e10-44e0-b703-345a33fcbfeb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5993.25" y="14613.643"/> <port id="pr_684755b3-7e10-44e0-b703-345a33fcbfeb_p1" x="6013.25" y="14618.643"/> <port id="pr_684755b3-7e10-44e0-b703-345a33fcbfeb_p2" x="5983.25" y="14618.643"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_19bbaf65-3fe5-4b78-9722-71e6ab88f601"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12297047</p> <p>PMID:16847462</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_19bbaf65-3fe5-4b78-9722-71e6ab88f601"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297047"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16847462"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26205.56" y="23019.352"/> <port id="pr_19bbaf65-3fe5-4b78-9722-71e6ab88f601_p1" x="26195.56" y="23024.352"/> <port id="pr_19bbaf65-3fe5-4b78-9722-71e6ab88f601_p2" x="26225.56" y="23024.352"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_42aaa79c-0948-49f5-9417-9f50b8194879"> <bbox w="10.0" h="10.0" x="13777.77" y="10858.174"/> <port id="pr_42aaa79c-0948-49f5-9417-9f50b8194879_p1" x="13797.77" y="10863.174"/> <port id="pr_42aaa79c-0948-49f5-9417-9f50b8194879_p2" x="13767.77" y="10863.174"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4af6a7dc-c1f0-420c-922f-30d37586c490"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3846.3477" y="16679.582"/> <port id="pr_4af6a7dc-c1f0-420c-922f-30d37586c490_p1" x="3836.3477" y="16684.582"/> <port id="pr_4af6a7dc-c1f0-420c-922f-30d37586c490_p2" x="3866.3477" y="16684.582"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b12d6e47-4ab4-40a5-be08-5e5c65f9fb7b"> <bbox w="10.0" h="10.0" x="26304.55" y="11874.2"/> <port id="pr_b12d6e47-4ab4-40a5-be08-5e5c65f9fb7b_p1" x="26324.55" y="11879.2"/> <port id="pr_b12d6e47-4ab4-40a5-be08-5e5c65f9fb7b_p2" x="26294.55" y="11879.2"/> </glyph> <glyph class="process" orientation="vertical" id="pr_650c8153-48e3-4838-a488-e180d146c80c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11557048</p> <p>GJC1 interacts with the PDZ domains of ZO-1 and ZO-3 but not ZO-2</p> <p>PMID:11313345</p> <p>Connexin45 (GJC1) interacts with ZO-1 and connexin43 (GJA1) in osteoblastic cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_650c8153-48e3-4838-a488-e180d146c80c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11557048"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1681.5862" y="18013.5"/> <port id="pr_650c8153-48e3-4838-a488-e180d146c80c_p1" x="1686.5862" y="18003.5"/> <port id="pr_650c8153-48e3-4838-a488-e180d146c80c_p2" x="1686.5862" y="18033.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_1ef5e072-81e0-47da-b9d9-d0abd7e6a881"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:14657501</p> <p>SMURF1, but not SMURF2, decreases RHOA level, and this effect is proteasome dependent.</p> <p>PMID:16472676</p> <p>Smurf1 could specifically target RhoA but not Cdc42 or Rac1 for degradation. </p> <p>Smurf1 interacts with the dominant inactive form of RhoA, RhoA N19, which binds constitutively to GEFs in vivo. </p> <p>Smurf1 also interacts directly with either nucleotide‐free or GDP‐bound RhoA in vitro; </p> <p>However, loading with GTPgS inhibits the interaction</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1ef5e072-81e0-47da-b9d9-d0abd7e6a881"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14657501"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472676"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4739.929" y="14045.875"/> <port id="pr_1ef5e072-81e0-47da-b9d9-d0abd7e6a881_p1" x="4759.929" y="14050.875"/> <port id="pr_1ef5e072-81e0-47da-b9d9-d0abd7e6a881_p2" x="4729.929" y="14050.875"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_2307ab90-0ec0-4b1f-a942-de932497a63a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6292.25" y="14777.654"/> <port id="pr_2307ab90-0ec0-4b1f-a942-de932497a63a_p1" x="6312.25" y="14782.654"/> <port id="pr_2307ab90-0ec0-4b1f-a942-de932497a63a_p2" x="6282.25" y="14782.654"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2afe280c-0877-489a-922a-77b95ea71073"> <bbox w="10.0" h="10.0" x="16942.66" y="6996.25"/> <port id="pr_2afe280c-0877-489a-922a-77b95ea71073_p1" x="16947.66" y="6986.25"/> 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x="5037.963" y="4495.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d396b4e-3fd7-468d-9870-d9eaad156018"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:12668723</p> <p>Snail binds directly to the E-boxes of the promoters of claudin et occludin genes, resulting in complete repression of their promoter activity</p> <p>PMID:16232121</p> <p>Snail and Slug bind to the E-box motifs present in the human Claudin-1 promoter.</p> <p>High levels of Snail and Slug correlatedwith lowlevels of Claudin-1 expression.</p> <p>It is proposed that Claudin-1 is a direct downstream target gene of Snail family factors in epithelial cells</p> <p>PMID:15151915</p> <p>The transcription factors B-catenin/Tcf complex has been shown to bind directly to the claudin-1 and claudin-2 promoters.</p> <p>PMID:17550342</p> <p>SNAI2 represses Claudin-1 expression</p> <p>SNAI1 represses Claudin-1 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d396b4e-3fd7-468d-9870-d9eaad156018"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12668723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16232121"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15151915"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17550342"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2857.5" y="15167.236"/> <port id="pr_0d396b4e-3fd7-468d-9870-d9eaad156018_p1" x="2877.5" y="15172.236"/> <port id="pr_0d396b4e-3fd7-468d-9870-d9eaad156018_p2" x="2847.5" y="15172.236"/> </glyph> <glyph class="process" orientation="vertical" id="pr_628cbf1a-d43b-43f0-9d30-73e15a3a0794"> <bbox w="10.0" h="10.0" x="27934.06" y="9179.0"/> <port id="pr_628cbf1a-d43b-43f0-9d30-73e15a3a0794_p1" x="27939.06" y="9169.0"/> <port id="pr_628cbf1a-d43b-43f0-9d30-73e15a3a0794_p2" x="27939.06" y="9199.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6d01b045-5607-45ef-accb-71f605c3b156"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5426.3623" y="18681.424"/> <port id="pr_6d01b045-5607-45ef-accb-71f605c3b156_p1" x="5446.3623" y="18686.424"/> <port id="pr_6d01b045-5607-45ef-accb-71f605c3b156_p2" x="5416.3623" y="18686.424"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c436c56a-daf6-4c3b-b9e3-2d8090184e7e"> <bbox w="10.0" h="10.0" x="11345.8125" y="7220.0"/> <port id="pr_c436c56a-daf6-4c3b-b9e3-2d8090184e7e_p1" x="11350.8125" y="7210.0"/> <port id="pr_c436c56a-daf6-4c3b-b9e3-2d8090184e7e_p2" x="11350.8125" y="7240.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4bf1f4a7-ea5e-46f6-b686-4b6605feb007"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8194600</p> <p>cytochrome oxidase inhibition by nitric oxide</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4bf1f4a7-ea5e-46f6-b686-4b6605feb007"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8194600"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19499.81" y="13972.33"/> <port id="pr_4bf1f4a7-ea5e-46f6-b686-4b6605feb007_p1" x="19519.81" y="13977.33"/> <port id="pr_4bf1f4a7-ea5e-46f6-b686-4b6605feb007_p2" x="19489.81" y="13977.33"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ef3b196d-4380-47d5-854e-979596e8423f"> <bbox w="10.0" h="10.0" x="24846.56" y="16115.5"/> <port id="pr_ef3b196d-4380-47d5-854e-979596e8423f_p1" x="24851.56" y="16135.5"/> <port id="pr_ef3b196d-4380-47d5-854e-979596e8423f_p2" x="24851.56" y="16105.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97ef12f2-7903-49de-b66b-ce70e3d13527"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23013.56" y="11094.0"/> <port id="pr_97ef12f2-7903-49de-b66b-ce70e3d13527_p1" x="23033.56" y="11099.0"/> <port id="pr_97ef12f2-7903-49de-b66b-ce70e3d13527_p2" x="23003.56" y="11099.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b169d0b6-7694-457a-a867-a85caffba3df"> <notes> <html 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class="process" orientation="vertical" id="pr_768c83d3-6e95-4d3b-84ee-6e18ac791ae8"> <bbox w="10.0" h="10.0" x="21954.06" y="11212.5"/> <port id="pr_768c83d3-6e95-4d3b-84ee-6e18ac791ae8_p1" x="21959.06" y="11202.5"/> <port id="pr_768c83d3-6e95-4d3b-84ee-6e18ac791ae8_p2" x="21959.06" y="11232.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ddf6fbee-3447-496c-a7c9-6900d6d75f7b"> <bbox w="10.0" h="10.0" x="30745.047" y="2130.0"/> <port id="pr_ddf6fbee-3447-496c-a7c9-6900d6d75f7b_p1" x="30750.047" y="2120.0"/> <port id="pr_ddf6fbee-3447-496c-a7c9-6900d6d75f7b_p2" x="30750.047" y="2150.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2235959a-be9e-4719-8b55-7532c74039fa"> <bbox w="10.0" h="10.0" x="22985.0" y="5988.75"/> <port id="pr_2235959a-be9e-4719-8b55-7532c74039fa_p1" x="22990.0" y="5978.75"/> <port id="pr_2235959a-be9e-4719-8b55-7532c74039fa_p2" x="22990.0" y="6008.75"/> </glyph> <glyph class="process" orientation="vertical" 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x="18071.691" y="16099.286"/> <port id="pr_adb8f125-6bae-49cb-9c4b-efddbd4fbecf_p2" x="18041.691" y="16099.286"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_422d6652-8270-47dc-b997-65334a083b4a"> <bbox w="10.0" h="10.0" x="5149.5" y="6939.2266"/> <port id="pr_422d6652-8270-47dc-b997-65334a083b4a_p1" x="5139.5" y="6944.2266"/> <port id="pr_422d6652-8270-47dc-b997-65334a083b4a_p2" x="5169.5" y="6944.2266"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9d944490-c947-4e37-942c-def16c76cbe6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25897829</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9d944490-c947-4e37-942c-def16c76cbe6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25897829"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2613.0" y="11234.0"/> <port id="pr_9d944490-c947-4e37-942c-def16c76cbe6_p1" x="2618.0" y="11224.0"/> <port id="pr_9d944490-c947-4e37-942c-def16c76cbe6_p2" x="2618.0" y="11254.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1018d1a1-b1df-476f-a25b-f25a38d99c23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1018d1a1-b1df-476f-a25b-f25a38d99c23"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2394.5" y="9685.25"/> <port id="pr_1018d1a1-b1df-476f-a25b-f25a38d99c23_p1" x="2399.5" y="9675.25"/> <port id="pr_1018d1a1-b1df-476f-a25b-f25a38d99c23_p2" x="2399.5" y="9705.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_661c4cd5-a9a2-44fe-8029-8797a0af993a"> <bbox w="10.0" h="10.0" x="20873.06" y="22064.0"/> <port id="pr_661c4cd5-a9a2-44fe-8029-8797a0af993a_p1" x="20878.06" y="22054.0"/> <port id="pr_661c4cd5-a9a2-44fe-8029-8797a0af993a_p2" x="20878.06" y="22084.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb03f35e-d0c1-44a8-bb3c-05f410d4e405"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P53 target genes: P21WAF1 MDM2 PERP NOXA GADD45 DDB2.</p> <p>PMID:15856024</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb03f35e-d0c1-44a8-bb3c-05f410d4e405"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15856024"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10808.238" y="20700.15"/> <port id="pr_fb03f35e-d0c1-44a8-bb3c-05f410d4e405_p1" x="10813.238" y="20690.15"/> <port id="pr_fb03f35e-d0c1-44a8-bb3c-05f410d4e405_p2" x="10813.238" y="20720.15"/> </glyph> <glyph class="process" orientation="vertical" id="pr_87e7e113-edd4-404b-889f-6599cbd88775"> <bbox w="10.0" h="10.0" x="27594.06" y="14424.0"/> <port id="pr_87e7e113-edd4-404b-889f-6599cbd88775_p1" x="27599.06" y="14444.0"/> <port id="pr_87e7e113-edd4-404b-889f-6599cbd88775_p2" x="27599.06" y="14414.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e960a3a3-8645-45dc-85c7-81a6b39e0e9d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11980723 PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e960a3a3-8645-45dc-85c7-81a6b39e0e9d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11980723"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14664696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12399.061" y="22159.5"/> <port id="pr_e960a3a3-8645-45dc-85c7-81a6b39e0e9d_p1" x="12389.061" y="22164.5"/> <port id="pr_e960a3a3-8645-45dc-85c7-81a6b39e0e9d_p2" x="12419.061" y="22164.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7be2b42e-e637-4172-b16b-c312df269f4e"> <bbox w="10.0" h="10.0" x="23045.0" y="4720.0"/> <port id="pr_7be2b42e-e637-4172-b16b-c312df269f4e_p1" x="23050.0" y="4740.0"/> <port id="pr_7be2b42e-e637-4172-b16b-c312df269f4e_p2" x="23050.0" y="4710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_83e137db-5488-4038-8646-14f79d75d655"> <bbox w="10.0" h="10.0" x="11125.0" y="4801.25"/> <port id="pr_83e137db-5488-4038-8646-14f79d75d655_p1" x="11130.0" y="4791.25"/> <port id="pr_83e137db-5488-4038-8646-14f79d75d655_p2" x="11130.0" y="4821.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_53308c6b-5891-4be0-9de0-295043c2fe9a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CBP-and P300-mediated transcription different cell fates</p> <p>PMID:20530697</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_53308c6b-5891-4be0-9de0-295043c2fe9a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21892.967" y="22070.125"/> <port id="pr_53308c6b-5891-4be0-9de0-295043c2fe9a_p1" x="21897.967" y="22060.125"/> <port id="pr_53308c6b-5891-4be0-9de0-295043c2fe9a_p2" x="21897.967" y="22090.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_65eb0eb2-ba66-4bc3-adf9-6344f1ba23f9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_65eb0eb2-ba66-4bc3-adf9-6344f1ba23f9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2656.5" y="10221.75"/> <port id="pr_65eb0eb2-ba66-4bc3-adf9-6344f1ba23f9_p1" x="2661.5" y="10241.75"/> <port id="pr_65eb0eb2-ba66-4bc3-adf9-6344f1ba23f9_p2" x="2661.5" y="10211.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b6bc3d1-846a-40c5-99e0-00a089d96f1a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Order of sumoylation is not important.</p> <p>PMID:19218564</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3b6bc3d1-846a-40c5-99e0-00a089d96f1a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19218564"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16532.56" y="20709.5"/> <port id="pr_3b6bc3d1-846a-40c5-99e0-00a089d96f1a_p1" x="16537.56" y="20699.5"/> <port id="pr_3b6bc3d1-846a-40c5-99e0-00a089d96f1a_p2" x="16537.56" y="20729.5"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_bf5704ca-5249-43ca-92b4-43904b82e496"> <bbox w="20.0" h="20.0" x="16415.56" y="20740.5"/> <port id="logicglyph_bf5704ca-5249-43ca-92b4-43904b82e496_p1" x="16405.56" y="20750.5"/> <port id="logicglyph_bf5704ca-5249-43ca-92b4-43904b82e496_p2" x="16445.56" y="20750.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b513d286-c405-4978-bc6c-3013ba593130"> <bbox w="10.0" h="10.0" x="16920.0" y="3025.0"/> <port id="pr_b513d286-c405-4978-bc6c-3013ba593130_p1" x="16940.0" y="3030.0"/> <port id="pr_b513d286-c405-4978-bc6c-3013ba593130_p2" x="16910.0" y="3030.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0135b10b-a111-4e16-8777-3ec6ae37aef3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3698.7031" y="16457.5"/> <port id="pr_0135b10b-a111-4e16-8777-3ec6ae37aef3_p1" x="3688.7031" y="16462.5"/> <port id="pr_0135b10b-a111-4e16-8777-3ec6ae37aef3_p2" x="3718.7031" y="16462.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6131aa30-59eb-45cc-ae26-9fbd5d140250"> <bbox w="10.0" h="10.0" x="29641.0" y="5610.0"/> <port id="pr_6131aa30-59eb-45cc-ae26-9fbd5d140250_p1" x="29646.0" y="5600.0"/> <port id="pr_6131aa30-59eb-45cc-ae26-9fbd5d140250_p2" x="29646.0" y="5630.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bde8a5c6-a22c-44c3-9f7d-c15e79e722c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21179058</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bde8a5c6-a22c-44c3-9f7d-c15e79e722c8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21179058"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21268.738" y="15471.877"/> <port id="pr_bde8a5c6-a22c-44c3-9f7d-c15e79e722c8_p1" x="21258.738" y="15476.877"/> <port id="pr_bde8a5c6-a22c-44c3-9f7d-c15e79e722c8_p2" x="21288.738" y="15476.877"/> </glyph> <glyph class="process" orientation="vertical" id="pr_416ce8f4-31e4-4c40-9878-e210d6eebc8b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>KSR1 is cleaved by CASPASE3 in two regions: the C-ter region which mediates MEK binding and the N-ter region which contains the ERK binding site and the C1 domain required for plasma membrane localisation</p> <p>PMID:17613518</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_416ce8f4-31e4-4c40-9878-e210d6eebc8b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17613518"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9557.537" y="19075.986"/> <port id="pr_416ce8f4-31e4-4c40-9878-e210d6eebc8b_p1" x="9562.537" y="19065.986"/> <port id="pr_416ce8f4-31e4-4c40-9878-e210d6eebc8b_p2" x="9562.537" y="19095.986"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5f5b5f1-4ec6-41a7-ae0e-cb5cff90e257"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23178297</p> <p>PMID:23572150</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d5f5b5f1-4ec6-41a7-ae0e-cb5cff90e257"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23178297"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23572150"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2589.875" y="10531.375"/> <port id="pr_d5f5b5f1-4ec6-41a7-ae0e-cb5cff90e257_p1" x="2594.875" y="10521.375"/> <port id="pr_d5f5b5f1-4ec6-41a7-ae0e-cb5cff90e257_p2" x="2594.875" y="10551.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_51308bc6-d8b3-46f1-a056-0b650652018a"> <bbox w="10.0" h="10.0" x="24104.06" y="13796.5"/> <port id="pr_51308bc6-d8b3-46f1-a056-0b650652018a_p1" x="24109.06" y="13816.5"/> <port id="pr_51308bc6-d8b3-46f1-a056-0b650652018a_p2" x="24109.06" y="13786.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dd9a6d4f-2455-4bb0-a94f-aa865d9da5cc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22439866</p> <p>c-Myb strongly increased the expression/activity of cathepsin D and matrix metalloproteinase (MMP) 9 and significantly downregulated MMP1.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dd9a6d4f-2455-4bb0-a94f-aa865d9da5cc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22439866"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2689.75" y="17255.564"/> <port id="pr_dd9a6d4f-2455-4bb0-a94f-aa865d9da5cc_p1" x="2709.75" y="17260.564"/> <port id="pr_dd9a6d4f-2455-4bb0-a94f-aa865d9da5cc_p2" x="2679.75" y="17260.564"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7b1ca4a9-6a85-41db-90b6-871dbabb995e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re1143_rc_s3865_rc_re1141=FALSE</p> <p>logical:rc_re1143_rc_s3866_rc_re1142=FALSE</p> <p>PMID:16469705</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7b1ca4a9-6a85-41db-90b6-871dbabb995e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16469705"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21904.06" y="9939.0"/> <port id="pr_7b1ca4a9-6a85-41db-90b6-871dbabb995e_p1" x="21909.06" y="9929.0"/> <port id="pr_7b1ca4a9-6a85-41db-90b6-871dbabb995e_p2" x="21909.06" y="9959.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_399c79a8-3f0f-46f3-9d3f-21bcea4934bd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4627.387" y="17690.0"/> <port id="pr_399c79a8-3f0f-46f3-9d3f-21bcea4934bd_p1" x="4632.387" y="17680.0"/> <port id="pr_399c79a8-3f0f-46f3-9d3f-21bcea4934bd_p2" x="4632.387" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ef2a8e03-f35e-4ffb-9fd7-7bf138b01f8c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="22924.06" y="13426.5"/> <port id="pr_ef2a8e03-f35e-4ffb-9fd7-7bf138b01f8c_p1" x="22929.06" y="13416.5"/> <port id="pr_ef2a8e03-f35e-4ffb-9fd7-7bf138b01f8c_p2" x="22929.06" y="13446.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a1bc89e6-b211-4442-bf98-82e10733a7dd"> <bbox w="10.0" h="10.0" x="16195.0" y="4535.0"/> <port id="pr_a1bc89e6-b211-4442-bf98-82e10733a7dd_p1" x="16185.0" y="4540.0"/> <port id="pr_a1bc89e6-b211-4442-bf98-82e10733a7dd_p2" x="16215.0" y="4540.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_05d7586c-4180-4396-a6ae-b7cce0a54a6c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4082.5" y="16662.75"/> <port id="pr_05d7586c-4180-4396-a6ae-b7cce0a54a6c_p1" x="4072.5" y="16667.75"/> <port id="pr_05d7586c-4180-4396-a6ae-b7cce0a54a6c_p2" x="4102.5" y="16667.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_90b4996a-8158-4795-9dd2-4bf65c506b91"> <bbox w="10.0" h="10.0" x="1795.0" y="1950.0"/> <port id="pr_90b4996a-8158-4795-9dd2-4bf65c506b91_p1" x="1815.0" y="1955.0"/> <port id="pr_90b4996a-8158-4795-9dd2-4bf65c506b91_p2" x="1785.0" y="1955.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1afcfc91-0dfd-4113-afe0-2700238a0172"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8537347</p> <p>PMID:10769036</p> <p>ARHGAP5 as a GAP of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1afcfc91-0dfd-4113-afe0-2700238a0172"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8537347"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10769036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6080.75" y="14279.875"/> <port id="pr_1afcfc91-0dfd-4113-afe0-2700238a0172_p1" x="6100.75" y="14284.875"/> <port id="pr_1afcfc91-0dfd-4113-afe0-2700238a0172_p2" x="6070.75" y="14284.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9db7798-455b-49fa-ac1a-ed28c4b5091e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8631357</p> <p>enzymatic characterization of the human enzyme</p> <p>PMID:16115609</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c9db7798-455b-49fa-ac1a-ed28c4b5091e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8631357"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16115609"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27902.98" y="10587.885"/> <port id="pr_c9db7798-455b-49fa-ac1a-ed28c4b5091e_p1" x="27907.98" y="10577.885"/> <port id="pr_c9db7798-455b-49fa-ac1a-ed28c4b5091e_p2" x="27907.98" y="10607.885"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_45752968-9ef8-4bf9-8306-db8ea8b273be"> <bbox w="10.0" h="10.0" x="1154.1375" y="4155.384"/> <port id="pr_45752968-9ef8-4bf9-8306-db8ea8b273be_p1" x="1174.1375" y="4160.384"/> <port id="pr_45752968-9ef8-4bf9-8306-db8ea8b273be_p2" x="1144.1375" y="4160.384"/> </glyph> <glyph class="process" orientation="vertical" id="pr_733d5edc-6e0e-4dd0-a6b3-d06d28720f03"> <bbox w="10.0" h="10.0" x="30321.0" y="2656.25"/> <port id="pr_733d5edc-6e0e-4dd0-a6b3-d06d28720f03_p1" x="30326.0" y="2676.25"/> <port id="pr_733d5edc-6e0e-4dd0-a6b3-d06d28720f03_p2" x="30326.0" y="2646.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5dd7b2b3-af53-4738-a2dd-35d71b80d347"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:24686170</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5dd7b2b3-af53-4738-a2dd-35d71b80d347"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24686170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3540.75" y="10970.0"/> <port id="pr_5dd7b2b3-af53-4738-a2dd-35d71b80d347_p1" x="3545.75" y="10960.0"/> <port id="pr_5dd7b2b3-af53-4738-a2dd-35d71b80d347_p2" x="3545.75" y="10990.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_686f617d-8c1e-4c98-a778-cdbce6ec7e84"> <bbox w="10.0" h="10.0" x="23475.0" y="2790.0"/> <port id="pr_686f617d-8c1e-4c98-a778-cdbce6ec7e84_p1" x="23480.0" y="2810.0"/> <port id="pr_686f617d-8c1e-4c98-a778-cdbce6ec7e84_p2" x="23480.0" y="2780.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69fdbb30-83a1-4e34-896b-b2548c73ab74"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:11978007</p> <p>Cx32 Formation and / or Cx32-Mediated Intercellular Communication Induces Expression and Function of Tight Junctions in Hepatocytic Cell Line</p> <p>PMID:10581193</p> <p>Induction of tight junctions in human connexin 32-transfected mouse hepatocytes: connexin 32 interacts with occludin.</p> <p>PMID:17568974</p> <p>Connexins induce and maintain tight junctions in epithelial cells.References_end</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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</glyph> <glyph class="process" orientation="vertical" id="pr_ad1fe334-d77b-40b4-a3e3-cb5070684334"> <bbox w="10.0" h="10.0" x="6567.0" y="6255.0"/> <port id="pr_ad1fe334-d77b-40b4-a3e3-cb5070684334_p1" x="6572.0" y="6245.0"/> <port id="pr_ad1fe334-d77b-40b4-a3e3-cb5070684334_p2" x="6572.0" y="6275.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d186c2bb-8b8b-4662-ac23-171dfcce5e86"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15383321</p> <p>MTDH is so-called LYRIC</p> <p>LYRIC colocalizes with ZO1 and Occludin in polarized epithelial cells. </p> <p>This protein is most likely not involved in the TJ formation as a structural component. </p> <p>However, it is required for the maturation of the TJ complex</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d186c2bb-8b8b-4662-ac23-171dfcce5e86"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15383321"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1909.5245" y="15203.27"/> <port id="pr_d186c2bb-8b8b-4662-ac23-171dfcce5e86_p1" x="1899.5245" y="15208.27"/> <port id="pr_d186c2bb-8b8b-4662-ac23-171dfcce5e86_p2" x="1929.5245" y="15208.27"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cdc0e31f-fd1f-4bfd-aea5-e113ac26ea6b"> <bbox w="10.0" h="10.0" x="27996.17" y="13591.0"/> <port id="pr_cdc0e31f-fd1f-4bfd-aea5-e113ac26ea6b_p1" x="28001.17" y="13581.0"/> <port id="pr_cdc0e31f-fd1f-4bfd-aea5-e113ac26ea6b_p2" x="28001.17" y="13611.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3ed9975-f0b6-4552-b814-eba30115ca9d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19788416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3ed9975-f0b6-4552-b814-eba30115ca9d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788416"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11658.023" y="11444.275"/> <port id="pr_d3ed9975-f0b6-4552-b814-eba30115ca9d_p1" x="11648.023" y="11449.275"/> <port id="pr_d3ed9975-f0b6-4552-b814-eba30115ca9d_p2" x="11678.023" y="11449.275"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4c933a74-0ec1-40e8-bb32-57e89e910d0c"> <bbox w="10.0" h="10.0" x="9806.418" y="17981.5"/> <port id="pr_4c933a74-0ec1-40e8-bb32-57e89e910d0c_p1" x="9811.418" y="17971.5"/> <port id="pr_4c933a74-0ec1-40e8-bb32-57e89e910d0c_p2" x="9811.418" y="18001.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_abec1ebe-528d-414f-91a7-edaac2e8eb40"> <bbox w="10.0" h="10.0" x="21245.0" y="810.0"/> <port id="pr_abec1ebe-528d-414f-91a7-edaac2e8eb40_p1" x="21250.0" y="800.0"/> <port id="pr_abec1ebe-528d-414f-91a7-edaac2e8eb40_p2" x="21250.0" y="830.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d9d1fc28-b554-47ae-bd14-23bf5224e7b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2073.0" y="17507.12"/> <port id="pr_d9d1fc28-b554-47ae-bd14-23bf5224e7b3_p1" x="2093.0" y="17512.12"/> <port id="pr_d9d1fc28-b554-47ae-bd14-23bf5224e7b3_p2" x="2063.0" y="17512.12"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_11302986-f673-40c9-b4c1-f90f31dac7d0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14690596</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_11302986-f673-40c9-b4c1-f90f31dac7d0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14690596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22900.31" y="10619.5"/> <port id="pr_11302986-f673-40c9-b4c1-f90f31dac7d0_p1" x="22890.31" y="10624.5"/> <port id="pr_11302986-f673-40c9-b4c1-f90f31dac7d0_p2" x="22920.31" y="10624.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb98a40f-84e2-4329-8fac-d4ceeaa621c7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23774579</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb98a40f-84e2-4329-8fac-d4ceeaa621c7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23774579"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28384.81" y="12527.0"/> <port id="pr_fb98a40f-84e2-4329-8fac-d4ceeaa621c7_p1" x="28389.81" y="12517.0"/> <port id="pr_fb98a40f-84e2-4329-8fac-d4ceeaa621c7_p2" x="28389.81" y="12547.0"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_ee3bdb43-c866-4fa9-b1e9-ce82a6d12f2f"> <bbox w="10.0" h="10.0" x="16516.06" y="18204.5"/> <port id="pr_ee3bdb43-c866-4fa9-b1e9-ce82a6d12f2f_p1" x="16521.06" y="18224.5"/> <port id="pr_ee3bdb43-c866-4fa9-b1e9-ce82a6d12f2f_p2" x="16521.06" y="18194.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cd641c2b-da5c-45df-ab36-cab275f6b611"> <bbox w="10.0" h="10.0" x="16207.795" y="792.3125"/> <port id="pr_cd641c2b-da5c-45df-ab36-cab275f6b611_p1" x="16197.795" y="797.3125"/> <port id="pr_cd641c2b-da5c-45df-ab36-cab275f6b611_p2" x="16227.795" y="797.3125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_14faf905-715f-4a10-907b-ac8269e21414"> <bbox w="10.0" h="10.0" x="26937.06" y="9736.5"/> <port id="pr_14faf905-715f-4a10-907b-ac8269e21414_p1" x="26957.06" y="9741.5"/> <port id="pr_14faf905-715f-4a10-907b-ac8269e21414_p2" x="26927.06" y="9741.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d4dd3c66-233d-40c5-95d8-967a76cbfa7b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20307497</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d4dd3c66-233d-40c5-95d8-967a76cbfa7b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20307497"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21491.93" y="21337.07"/> <port id="pr_d4dd3c66-233d-40c5-95d8-967a76cbfa7b_p1" x="21496.93" y="21327.07"/> <port id="pr_d4dd3c66-233d-40c5-95d8-967a76cbfa7b_p2" x="21496.93" y="21357.07"/> </glyph> <glyph class="process" orientation="vertical" id="pr_97e8c064-3cbc-44f3-a013-b55ab641d023"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Recruitment to the membrane and tyrosine phosphorylation enhance the enzymatic activity of PLC-g leading to the formation of two second messengers diacylglycerol (DAG) and inositol 145-trisphosphate (IP3). IP3 releases Ca2+ from internal stores which in turn acts in concert with DAG to translocate protein kinase C (PKC) to the cell membrane and stimulate its enzymatic activity.</p> <p>PMID:15567848</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_97e8c064-3cbc-44f3-a013-b55ab641d023"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15567848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8057.292" y="19069.125"/> <port id="pr_97e8c064-3cbc-44f3-a013-b55ab641d023_p1" x="8062.292" y="19089.125"/> <port id="pr_97e8c064-3cbc-44f3-a013-b55ab641d023_p2" x="8062.292" y="19059.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_91d2d243-d57d-4a54-ba20-0dfdddf94168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8425219</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_91d2d243-d57d-4a54-ba20-0dfdddf94168"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8425219"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24166.56" y="16707.0"/> <port id="pr_91d2d243-d57d-4a54-ba20-0dfdddf94168_p1" x="24171.56" y="16727.0"/> <port id="pr_91d2d243-d57d-4a54-ba20-0dfdddf94168_p2" x="24171.56" y="16697.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dde2d0db-c62a-4f3c-8128-1645a4b51442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21725609</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dde2d0db-c62a-4f3c-8128-1645a4b51442"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21725609"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2080.0" y="9123.25"/> <port id="pr_dde2d0db-c62a-4f3c-8128-1645a4b51442_p1" x="2085.0" y="9113.25"/> <port id="pr_dde2d0db-c62a-4f3c-8128-1645a4b51442_p2" x="2085.0" y="9143.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_3479613e-0738-477c-84b2-243378b393b6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5468.75" y="15917.25"/> <port id="pr_3479613e-0738-477c-84b2-243378b393b6_p1" x="5473.75" y="15937.25"/> <port id="pr_3479613e-0738-477c-84b2-243378b393b6_p2" x="5473.75" y="15907.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f2ec000-0456-449a-b1e8-0c35a6f4bc5a"> <bbox w="10.0" h="10.0" x="27566.326" y="16304.0"/> <port id="pr_5f2ec000-0456-449a-b1e8-0c35a6f4bc5a_p1" x="27571.326" y="16324.0"/> <port id="pr_5f2ec000-0456-449a-b1e8-0c35a6f4bc5a_p2" x="27571.326" y="16294.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_070bad95-24b2-4758-9f62-bd316635d2c0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ATF2 is a nuclear P38 target.</p> <p>ATF2 is a nuclear JNK target.</p> <p>PMID:20506250 PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_070bad95-24b2-4758-9f62-bd316635d2c0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20506250"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9918.061" y="20537.0"/> <port id="pr_070bad95-24b2-4758-9f62-bd316635d2c0_p1" x="9923.061" y="20527.0"/> <port id="pr_070bad95-24b2-4758-9f62-bd316635d2c0_p2" x="9923.061" y="20557.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d2968e62-915d-4322-83fb-b8f1eced9776"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16000375</p> <p>Src and FAK kinases cooperate to phosphorylate paxillin, stimulate its focal adhesion localization, and regulate cell spreading and protrusiveness.</p> <p>Phosphorylated paxillin binding to Crk is implicated in Rac activation and stimulation of cell motility</p> <p>PMID:15308668</p> <p>CRK bound to DOCK1 (so-called DOCK180) forms complex with phosphorylated paxillin.</p> <p>The complex is necessary for collagen-dependent cell migration, mainly through Rac1 activation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2968e62-915d-4322-83fb-b8f1eced9776"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16000375"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15308668"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6053.5" y="17992.566"/> <port id="pr_d2968e62-915d-4322-83fb-b8f1eced9776_p1" x="6043.5" y="17997.566"/> <port id="pr_d2968e62-915d-4322-83fb-b8f1eced9776_p2" x="6073.5" y="17997.566"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3dbd6637-d249-46e8-afcd-f7abcbba5ef3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18931676, PMID:19686080</p> <p>Link between cell cycle and activation of Fanconi pathway</p> <p>NBS1 is required for FANCD2 phosphorylation and relocation into the FA core complex:</p> <p>PMID:14988723</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3dbd6637-d249-46e8-afcd-f7abcbba5ef3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18931676"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14988723"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15181.723" y="15743.159"/> <port id="pr_3dbd6637-d249-46e8-afcd-f7abcbba5ef3_p1" x="15201.723" y="15748.159"/> <port id="pr_3dbd6637-d249-46e8-afcd-f7abcbba5ef3_p2" x="15171.723" y="15748.159"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_e952ced0-449e-41d6-828f-bfe014e8befe"> <bbox w="20.0" h="20.0" x="14256.802" y="15060.207"/> <port id="logicglyph_e952ced0-449e-41d6-828f-bfe014e8befe_p1" x="14246.802" y="15070.207"/> <port id="logicglyph_e952ced0-449e-41d6-828f-bfe014e8befe_p2" x="14286.802" y="15070.207"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8bd2ce1a-a747-4367-8969-2d1a5acd91b2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>EGF and FGF can induce cell cycle arrest through activation of STAT1 transcription factor.</p> <p>PMID:15567848</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8bd2ce1a-a747-4367-8969-2d1a5acd91b2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15567848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7727.06" y="20634.75"/> <port id="pr_8bd2ce1a-a747-4367-8969-2d1a5acd91b2_p1" x="7732.06" y="20654.75"/> <port id="pr_8bd2ce1a-a747-4367-8969-2d1a5acd91b2_p2" x="7732.06" y="20624.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b6774fee-9479-4522-beba-b7839a3b685e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11583622</p> <p>BID phosphorylated in Hela, in L929 (murine fibrosarcoma cell line), in other cell lines</p> <p>mass spectrometry analysis of BID phosphorylated in vitro by Jurkat or Hela extracts</p> <p>mutagenesis experiments identifies S61 and S64 as the main phosphorylation site</p> <p>purification of kinase activity in 3 different chromatography fractions</p> <p>CSNK inhibits Fas-induced apoptosis in Hela D98/AH2 (Fas sensitive Hela)</p> <p>PMID:12598529</p> <p>by CSNK2 at T59</p> <p>PMID:20356928</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b6774fee-9479-4522-beba-b7839a3b685e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11583622"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12598529"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20356928"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24260.436" y="11507.25"/> <port id="pr_b6774fee-9479-4522-beba-b7839a3b685e_p1" x="24265.436" y="11497.25"/> <port id="pr_b6774fee-9479-4522-beba-b7839a3b685e_p2" x="24265.436" y="11527.25"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_d9411d02-01e4-46a3-a681-1d65d5ab8a2e"> <bbox w="20.0" h="20.0" x="24206.137" y="11492.621"/> <port id="logicglyph_d9411d02-01e4-46a3-a681-1d65d5ab8a2e_p1" x="24196.137" y="11502.621"/> <port id="logicglyph_d9411d02-01e4-46a3-a681-1d65d5ab8a2e_p2" x="24236.137" y="11502.621"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e0378e19-dc5e-4ee7-b8dc-57d58fb60700"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18680434</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e0378e19-dc5e-4ee7-b8dc-57d58fb60700"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18680434"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2705.56" y="21417.316"/> <port id="pr_e0378e19-dc5e-4ee7-b8dc-57d58fb60700_p1" x="2695.56" y="21422.316"/> <port id="pr_e0378e19-dc5e-4ee7-b8dc-57d58fb60700_p2" x="2725.56" y="21422.316"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7af5387b-37b7-4a79-9ae8-bcbe389d1c43"> <bbox w="10.0" h="10.0" x="7795.0" y="2667.0"/> <port id="pr_7af5387b-37b7-4a79-9ae8-bcbe389d1c43_p1" x="7800.0" y="2657.0"/> <port id="pr_7af5387b-37b7-4a79-9ae8-bcbe389d1c43_p2" x="7800.0" y="2687.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f18a345e-58d2-4100-8779-e644ac1800a5"> <bbox w="10.0" h="10.0" x="19719.06" y="16019.0"/> <port id="pr_f18a345e-58d2-4100-8779-e644ac1800a5_p1" x="19724.06" y="16009.0"/> <port id="pr_f18a345e-58d2-4100-8779-e644ac1800a5_p2" x="19724.06" y="16039.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_baab0ffc-1f54-44d1-8bf1-44763d19978c"> <bbox w="10.0" h="10.0" x="20917.06" y="15769.5"/> <port id="pr_baab0ffc-1f54-44d1-8bf1-44763d19978c_p1" x="20937.06" y="15774.5"/> <port id="pr_baab0ffc-1f54-44d1-8bf1-44763d19978c_p2" x="20907.06" y="15774.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c8435ad4-866b-4fb3-8588-e2f07aaab1cc"> <bbox w="10.0" h="10.0" x="28149.758" y="13503.25"/> <port id="pr_c8435ad4-866b-4fb3-8588-e2f07aaab1cc_p1" x="28154.758" y="13523.25"/> <port id="pr_c8435ad4-866b-4fb3-8588-e2f07aaab1cc_p2" x="28154.758" y="13493.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e812b19-c452-4a5b-9296-208d4518f103"> <bbox w="10.0" h="10.0" x="27934.06" y="9094.0"/> <port id="pr_3e812b19-c452-4a5b-9296-208d4518f103_p1" x="27939.06" y="9084.0"/> <port id="pr_3e812b19-c452-4a5b-9296-208d4518f103_p2" x="27939.06" y="9114.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b71c0500-7a67-4369-9c37-0f2b0e38f833"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21406690</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b71c0500-7a67-4369-9c37-0f2b0e38f833"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16858.273" y="17870.18"/> <port 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2686.5" y="17079.5"/> <port id="pr_546e2d8f-4e91-4941-9294-e5edb8e20c65_p1" x="2706.5" y="17084.5"/> <port id="pr_546e2d8f-4e91-4941-9294-e5edb8e20c65_p2" x="2676.5" y="17084.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_72c4306e-d45f-4df3-a1c7-ff0c0afbdc0e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4139.841" y="18273.625"/> <port id="pr_72c4306e-d45f-4df3-a1c7-ff0c0afbdc0e_p1" x="4144.841" y="18263.625"/> <port id="pr_72c4306e-d45f-4df3-a1c7-ff0c0afbdc0e_p2" x="4144.841" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ef6a9a68-1eb1-412d-a51e-6160c3201188"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TRAF proteins are recruited to the TRADD-TNFR1 complex. TRADD couples TNFR1 to TRAF2.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ef6a9a68-1eb1-412d-a51e-6160c3201188"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9862.211" y="19040.25"/> <port id="pr_ef6a9a68-1eb1-412d-a51e-6160c3201188_p1" x="9867.211" y="19030.25"/> <port id="pr_ef6a9a68-1eb1-412d-a51e-6160c3201188_p2" x="9867.211" y="19060.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_15b961ce-a771-4285-9993-a18d48127edc"> <bbox w="10.0" h="10.0" x="29536.0" y="8772.354"/> <port id="pr_15b961ce-a771-4285-9993-a18d48127edc_p1" x="29526.0" y="8777.354"/> <port id="pr_15b961ce-a771-4285-9993-a18d48127edc_p2" x="29556.0" y="8777.354"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1acc8568-d01d-46c2-8a3f-8f12692ab059"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19567869</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1acc8568-d01d-46c2-8a3f-8f12692ab059"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19567869"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1523.0237" y="14067.772"/> <port id="pr_1acc8568-d01d-46c2-8a3f-8f12692ab059_p1" x="1543.0237" y="14072.772"/> <port id="pr_1acc8568-d01d-46c2-8a3f-8f12692ab059_p2" x="1513.0237" y="14072.772"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e8fcfc9-bf1c-4680-b5cd-3494ab54ffb3"> <bbox w="10.0" h="10.0" x="12436.979" y="7936.25"/> <port id="pr_1e8fcfc9-bf1c-4680-b5cd-3494ab54ffb3_p1" x="12441.979" y="7926.25"/> <port id="pr_1e8fcfc9-bf1c-4680-b5cd-3494ab54ffb3_p2" x="12441.979" y="7956.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e4784877-9ce9-4a48-b817-2c5fe911439f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4778.879" y="18392.312"/> <port id="pr_e4784877-9ce9-4a48-b817-2c5fe911439f_p1" x="4798.879" y="18397.312"/> <port id="pr_e4784877-9ce9-4a48-b817-2c5fe911439f_p2" x="4768.879" y="18397.312"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f9132aa8-da51-41a8-ba0e-7644b4fd0670"> <bbox w="10.0" h="10.0" x="6935.0" y="1940.0"/> <port id="pr_f9132aa8-da51-41a8-ba0e-7644b4fd0670_p1" x="6940.0" y="1960.0"/> <port id="pr_f9132aa8-da51-41a8-ba0e-7644b4fd0670_p2" x="6940.0" y="1930.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8dcbe28b-f043-4799-93bb-308ffebe79a0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25103.055" y="13975.939"/> <port id="pr_8dcbe28b-f043-4799-93bb-308ffebe79a0_p1" x="25108.055" y="13995.939"/> <port id="pr_8dcbe28b-f043-4799-93bb-308ffebe79a0_p2" x="25108.055" y="13965.939"/> </glyph> <glyph class="process" orientation="vertical" id="pr_480957b1-00d2-4577-afb4-f813a1600273"> <bbox w="10.0" h="10.0" x="20209.31" y="10109.75"/> <port id="pr_480957b1-00d2-4577-afb4-f813a1600273_p1" x="20214.31" y="10099.75"/> <port id="pr_480957b1-00d2-4577-afb4-f813a1600273_p2" x="20214.31" y="10129.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_348fd5cd-426a-4e6a-9a00-278ceee9a773"> <bbox w="10.0" h="10.0" x="11595.0" y="6477.0"/> <port id="pr_348fd5cd-426a-4e6a-9a00-278ceee9a773_p1" x="11600.0" y="6467.0"/> <port id="pr_348fd5cd-426a-4e6a-9a00-278ceee9a773_p2" x="11600.0" y="6497.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_67c8eef9-1d3a-4964-8912-cd03a2ff917a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12011449</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_67c8eef9-1d3a-4964-8912-cd03a2ff917a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12011449"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22986.06" y="14124.0"/> <port id="pr_67c8eef9-1d3a-4964-8912-cd03a2ff917a_p1" x="22976.06" y="14129.0"/> <port id="pr_67c8eef9-1d3a-4964-8912-cd03a2ff917a_p2" x="23006.06" y="14129.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_82b1bc64-0edc-4a71-92f2-62ff6edbd293"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>UV light causes bulky adducts damage in DNA that repared by NER pathway</p> <p>PMID:22743272, PMID:22822215, PMID:22492724, NER:22373527</p> <p>Transcription-dependent NER and damage by UV</p> <p>PMID:20045328, PMID:14599741</p> <p>Interstrand crosslinking agents induce NER </p> <p>PMID:21701511</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_82b1bc64-0edc-4a71-92f2-62ff6edbd293"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22743272"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22822215"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22492724"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20045328"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14599741"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21701511"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9842.17" y="15134.855"/> <port id="pr_82b1bc64-0edc-4a71-92f2-62ff6edbd293_p1" x="9862.17" y="15139.855"/> <port id="pr_82b1bc64-0edc-4a71-92f2-62ff6edbd293_p2" x="9832.17" y="15139.855"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e84eff9d-70ca-4045-a613-d7ab783d9efe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Reviews about TERT transcription regulation</p> <p>PMID:21790308, PMID:22381618, PMID:18754863</p> <p>About MYC and MXD1 regulation</p> <p>PMID:11274400</p> <p>About estrogen regulation</p> <p>PMID:10606235</p> <p>About NFAT regulation</p> <p>PMID:19846528</p> <p>About ETV1 regulation:</p> <p>PMID:14673140</p> <p>About cortisol regulation:</p> <p>PMID:18222063</p> <p>About beta-catenin regulation:</p> <p>PMID:22723415</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e84eff9d-70ca-4045-a613-d7ab783d9efe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21790308"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22381618"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18754863"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274400"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10606235"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19846528"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14673140"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18222063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22723415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6626.06" y="21194.434"/> <port id="pr_e84eff9d-70ca-4045-a613-d7ab783d9efe_p1" x="6616.06" y="21199.434"/> <port id="pr_e84eff9d-70ca-4045-a613-d7ab783d9efe_p2" x="6646.06" y="21199.434"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7ef55f81-a369-4760-bae7-baca925b5637"> <bbox w="10.0" h="10.0" x="29141.0" y="6095.0"/> <port id="pr_7ef55f81-a369-4760-bae7-baca925b5637_p1" x="29146.0" y="6115.0"/> <port id="pr_7ef55f81-a369-4760-bae7-baca925b5637_p2" x="29146.0" y="6085.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fb22a5cd-b763-44ea-8260-7481f1c1f51d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22286770 </p> <p>The inhibitory Smad7 mRNA is repressed by MIR106B, MIR93, MIR25.</p> <p>Smad7 antagonizes TGF-b signaling through multiple mechanisms, including binding to TGFBR1 and interfering with recruitment and downstream phosphorylation and activation of Smad2 and Smad3.</p> <p>Smad7 also functions to recruit E3 ubiquitin ligases to TGRFBR1, resulting in its degradation.</p> <p>Repression of Smad7 therefore activates TGF-beta signaling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb22a5cd-b763-44ea-8260-7481f1c1f51d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22286770"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5604.5" y="16784.77"/> <port id="pr_fb22a5cd-b763-44ea-8260-7481f1c1f51d_p1" x="5594.5" y="16789.77"/> <port id="pr_fb22a5cd-b763-44ea-8260-7481f1c1f51d_p2" x="5624.5" y="16789.77"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eeb85ab4-76da-4666-8995-7787aa51fb9d"> <bbox w="10.0" h="10.0" x="26340.404" y="13024.25"/> <port id="pr_eeb85ab4-76da-4666-8995-7787aa51fb9d_p1" x="26345.404" y="13044.25"/> <port id="pr_eeb85ab4-76da-4666-8995-7787aa51fb9d_p2" x="26345.404" y="13014.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0f8fcf00-a2ba-4af9-ad2b-04caa584f779"> <bbox w="10.0" h="10.0" x="6551.64" y="4535.0"/> <port id="pr_0f8fcf00-a2ba-4af9-ad2b-04caa584f779_p1" x="6556.64" y="4525.0"/> <port id="pr_0f8fcf00-a2ba-4af9-ad2b-04caa584f779_p2" x="6556.64" y="4555.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_17f6c2ec-da6e-4296-9ce0-f10c0cc21723"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23418787</p> <p>PMID:16472776</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_17f6c2ec-da6e-4296-9ce0-f10c0cc21723"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23418787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28284838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3749.0" y="12370.75"/> <port id="pr_17f6c2ec-da6e-4296-9ce0-f10c0cc21723_p1" x="3754.0" y="12360.75"/> <port id="pr_17f6c2ec-da6e-4296-9ce0-f10c0cc21723_p2" x="3754.0" y="12390.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2e06963c-af8f-44a5-bf0e-f06620f5590e"> <bbox w="10.0" h="10.0" x="28961.0" y="8391.25"/> <port id="pr_2e06963c-af8f-44a5-bf0e-f06620f5590e_p1" x="28966.0" y="8381.25"/> <port id="pr_2e06963c-af8f-44a5-bf0e-f06620f5590e_p2" x="28966.0" y="8411.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ec99fdaa-4fc4-4117-8ca8-2545a120f42c"> <bbox w="10.0" h="10.0" x="12915.0" y="4531.875"/> <port id="pr_ec99fdaa-4fc4-4117-8ca8-2545a120f42c_p1" x="12905.0" y="4536.875"/> <port id="pr_ec99fdaa-4fc4-4117-8ca8-2545a120f42c_p2" x="12935.0" y="4536.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1ab85f64-197d-4854-9411-9203136f7a02"> <bbox w="10.0" h="10.0" x="30043.0" y="3660.0"/> <port id="pr_1ab85f64-197d-4854-9411-9203136f7a02_p1" x="30033.0" y="3665.0"/> <port id="pr_1ab85f64-197d-4854-9411-9203136f7a02_p2" x="30063.0" y="3665.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_24188798-7dfb-471d-9c8a-d761c28eb8e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19818716</p> <p>PMID:23030059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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x="19029.81" y="13164.421"/> <port id="pr_b912d7da-c232-4dc7-919e-176896e5b981_p2" x="19059.81" y="13164.421"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_08f94c2d-731c-489e-abcf-cbd5387e0502"> <bbox w="10.0" h="10.0" x="29206.56" y="14402.476"/> <port id="pr_08f94c2d-731c-489e-abcf-cbd5387e0502_p1" x="29196.56" y="14407.476"/> <port id="pr_08f94c2d-731c-489e-abcf-cbd5387e0502_p2" x="29226.56" y="14407.476"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9787f20f-d82b-40bd-aa76-7170b71a9ac0"> <bbox w="10.0" h="10.0" x="20607.56" y="16127.5"/> <port id="pr_9787f20f-d82b-40bd-aa76-7170b71a9ac0_p1" x="20612.56" y="16147.5"/> <port id="pr_9787f20f-d82b-40bd-aa76-7170b71a9ac0_p2" x="20612.56" y="16117.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d63c2d2-37f6-4ba5-8a5b-3991eea6f7d6"> <bbox w="10.0" h="10.0" x="15204.647" y="8466.75"/> <port id="pr_7d63c2d2-37f6-4ba5-8a5b-3991eea6f7d6_p1" x="15194.647" y="8471.75"/> <port id="pr_7d63c2d2-37f6-4ba5-8a5b-3991eea6f7d6_p2" x="15224.647" y="8471.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9a76483e-5bb6-4c07-8a9b-37632808ac93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Once GSK3B is inactivated beta-catenin (CTNNB1) is stabilised in the cytoplasm and translocate to the nucleus and then interacts with TCF/LEF and upregulates its downstream targets such as cyclin D1 and c-myc (not modelled).</p> <p>PMID:16039586</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9a76483e-5bb6-4c07-8a9b-37632808ac93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16039586"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7820.445" y="20333.46"/> <port id="pr_9a76483e-5bb6-4c07-8a9b-37632808ac93_p1" x="7840.445" y="20338.46"/> <port id="pr_9a76483e-5bb6-4c07-8a9b-37632808ac93_p2" x="7810.445" y="20338.46"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_92af86a0-350e-47a0-bbf1-a251852466b3"> <bbox w="10.0" h="10.0" x="23523.06" y="9811.26"/> <port id="pr_92af86a0-350e-47a0-bbf1-a251852466b3_p1" x="23513.06" y="9816.26"/> <port id="pr_92af86a0-350e-47a0-bbf1-a251852466b3_p2" x="23543.06" y="9816.26"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8871416d-0eb2-443c-b98b-d8764a1088e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20827.0" y="16338.934"/> <port id="pr_8871416d-0eb2-443c-b98b-d8764a1088e1_p1" x="20832.0" y="16358.934"/> <port id="pr_8871416d-0eb2-443c-b98b-d8764a1088e1_p2" x="20832.0" y="16328.934"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_09a1fa10-b87d-491b-8ecf-f11a8c2e5359"> <bbox w="10.0" h="10.0" x="6992.0" y="7120.0"/> <port id="pr_09a1fa10-b87d-491b-8ecf-f11a8c2e5359_p1" x="7012.0" y="7125.0"/> <port id="pr_09a1fa10-b87d-491b-8ecf-f11a8c2e5359_p2" x="6982.0" y="7125.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_50ea9c1e-4b1a-4d61-b1ba-7bf4a671f1be"> <bbox w="10.0" h="10.0" x="6789.0" y="7128.2993"/> <port id="pr_50ea9c1e-4b1a-4d61-b1ba-7bf4a671f1be_p1" x="6809.0" y="7133.2993"/> <port id="pr_50ea9c1e-4b1a-4d61-b1ba-7bf4a671f1be_p2" x="6779.0" y="7133.2993"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_bdc758d2-b33d-456d-a278-13510a862aca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1521.6265" y="13963.07"/> <port id="pr_bdc758d2-b33d-456d-a278-13510a862aca_p1" x="1526.6265" y="13953.07"/> <port id="pr_bdc758d2-b33d-456d-a278-13510a862aca_p2" x="1526.6265" y="13983.07"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eedb2eaf-fef1-48e0-a278-582021bc12a5"> <bbox w="10.0" h="10.0" x="20345.56" y="14289.244"/> <port id="pr_eedb2eaf-fef1-48e0-a278-582021bc12a5_p1" x="20365.56" y="14294.244"/> <port id="pr_eedb2eaf-fef1-48e0-a278-582021bc12a5_p2" x="20335.56" y="14294.244"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ca8cfabf-5f03-478d-82c3-033f225fbbac"> <bbox w="10.0" h="10.0" x="26759.75" y="5273.75"/> <port id="pr_ca8cfabf-5f03-478d-82c3-033f225fbbac_p1" x="26764.75" y="5263.75"/> <port id="pr_ca8cfabf-5f03-478d-82c3-033f225fbbac_p2" x="26764.75" y="5293.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b589974a-a222-4923-a757-4b87ecba2dfc"> <bbox w="10.0" h="10.0" x="24433.977" y="16016.5"/> <port id="pr_b589974a-a222-4923-a757-4b87ecba2dfc_p1" x="24438.977" y="16036.5"/> <port id="pr_b589974a-a222-4923-a757-4b87ecba2dfc_p2" x="24438.977" y="16006.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0c3150f1-3e36-41bf-998e-ff7d4e182ffa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Separin is inhibited by Securin</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="10441.655" y="10682.322"/> <port id="pr_0c3150f1-3e36-41bf-998e-ff7d4e182ffa_p1" x="10461.655" y="10687.322"/> <port id="pr_0c3150f1-3e36-41bf-998e-ff7d4e182ffa_p2" x="10431.655" y="10687.322"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_667538d9-672c-4421-b55c-64a5a72945e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CELL_CELL_ADHESIONS, MODULE:TIGHT_JUNCTIONS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:17012742</p> <p>Without LIN7, PALS1 is instable and degraded</p> <p>Binidng of LIN7 to PALS1 stabilizes the latter</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_667538d9-672c-4421-b55c-64a5a72945e9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17012742"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2645.6958" y="14241.87"/> <port id="pr_667538d9-672c-4421-b55c-64a5a72945e9_p1" x="2635.6958" y="14246.87"/> <port id="pr_667538d9-672c-4421-b55c-64a5a72945e9_p2" x="2665.6958" y="14246.87"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ede98819-1a07-4339-87ae-5d736d1aeb89"> <bbox w="10.0" h="10.0" x="21795.0" y="1585.0"/> <port id="pr_ede98819-1a07-4339-87ae-5d736d1aeb89_p1" x="21785.0" y="1590.0"/> <port id="pr_ede98819-1a07-4339-87ae-5d736d1aeb89_p2" x="21815.0" y="1590.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b7b68e9b-c50a-42e3-a51f-64f666b15c07"> <bbox w="10.0" h="10.0" x="12685.0" y="4761.25"/> <port id="pr_b7b68e9b-c50a-42e3-a51f-64f666b15c07_p1" x="12690.0" y="4751.25"/> <port id="pr_b7b68e9b-c50a-42e3-a51f-64f666b15c07_p2" x="12690.0" y="4781.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45cba48b-cf49-4cd9-8980-75cd83da6231"> <bbox w="10.0" h="10.0" x="27141.0" y="2498.75"/> <port id="pr_45cba48b-cf49-4cd9-8980-75cd83da6231_p1" x="27146.0" y="2518.75"/> <port id="pr_45cba48b-cf49-4cd9-8980-75cd83da6231_p2" x="27146.0" y="2488.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3fcd9fe0-6d3a-42a2-855e-29bff0f82b7a"> <bbox w="10.0" h="10.0" x="12835.0" y="5305.0"/> <port id="pr_3fcd9fe0-6d3a-42a2-855e-29bff0f82b7a_p1" x="12840.0" y="5295.0"/> <port id="pr_3fcd9fe0-6d3a-42a2-855e-29bff0f82b7a_p2" x="12840.0" y="5325.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_614a665e-e05d-42f3-a29a-7da0cb5087e2"> <bbox w="10.0" h="10.0" x="12466.283" y="13324.709"/> <port id="pr_614a665e-e05d-42f3-a29a-7da0cb5087e2_p1" x="12471.283" y="13314.709"/> <port id="pr_614a665e-e05d-42f3-a29a-7da0cb5087e2_p2" x="12471.283" y="13344.709"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2ff3ddbc-f668-4426-bf8a-9e3280c30c7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18959.148" y="12926.153"/> <port id="pr_2ff3ddbc-f668-4426-bf8a-9e3280c30c7e_p1" x="18949.148" y="12931.153"/> <port id="pr_2ff3ddbc-f668-4426-bf8a-9e3280c30c7e_p2" x="18979.148" y="12931.153"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_88c43c08-4de7-4eb9-9a62-1c2d145f4452"> <bbox w="10.0" h="10.0" x="12846.311" y="21032.75"/> <port id="pr_88c43c08-4de7-4eb9-9a62-1c2d145f4452_p1" x="12851.311" y="21022.75"/> <port id="pr_88c43c08-4de7-4eb9-9a62-1c2d145f4452_p2" x="12851.311" y="21052.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_effc2db5-d909-41c5-a959-751f13fd8676"> <bbox w="10.0" h="10.0" x="1005.0" y="3558.0"/> <port id="pr_effc2db5-d909-41c5-a959-751f13fd8676_p1" x="1010.0" y="3548.0"/> <port id="pr_effc2db5-d909-41c5-a959-751f13fd8676_p2" x="1010.0" y="3578.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c782e2b3-6b74-4634-85ca-ab1d248958c0"> <bbox w="10.0" h="10.0" x="15640.0" y="1637.5"/> <port id="pr_c782e2b3-6b74-4634-85ca-ab1d248958c0_p1" x="15630.0" y="1642.5"/> <port id="pr_c782e2b3-6b74-4634-85ca-ab1d248958c0_p2" x="15660.0" y="1642.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fe2d9251-7e52-40bb-854c-444dfad7e088"> <bbox w="10.0" h="10.0" x="6902.0" y="6540.0"/> <port id="pr_fe2d9251-7e52-40bb-854c-444dfad7e088_p1" x="6922.0" y="6545.0"/> <port id="pr_fe2d9251-7e52-40bb-854c-444dfad7e088_p2" x="6892.0" y="6545.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cfd1d0af-56e6-4115-b42f-e3a0f9546b42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15485915</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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<p>References:</p> <p>PMID:22441670</p> <p>Cleavage of AMBRA1 by Capases</p> <p>PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cf47aaf8-9a72-4415-aea1-8d20289d312d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22441670"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_edf9943e-e944-4889-81cd-d9b399c532a6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16839620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17834.072" y="12799.475"/> <port id="pr_edf9943e-e944-4889-81cd-d9b399c532a6_p1" x="17839.072" y="12789.475"/> <port id="pr_edf9943e-e944-4889-81cd-d9b399c532a6_p2" x="17839.072" y="12819.475"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c2cf8b13-fcb3-4c6c-a1ca-a25c0d28a791"> <bbox w="10.0" h="10.0" x="30115.75" y="5442.5"/> <port id="pr_c2cf8b13-fcb3-4c6c-a1ca-a25c0d28a791_p1" x="30105.75" y="5447.5"/> <port id="pr_c2cf8b13-fcb3-4c6c-a1ca-a25c0d28a791_p2" x="30135.75" y="5447.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fee71c36-6db6-4f8e-9be0-7e1638afb5bf"> <bbox w="10.0" h="10.0" x="11421.803" y="7516.25"/> <port id="pr_fee71c36-6db6-4f8e-9be0-7e1638afb5bf_p1" x="11426.803" y="7506.25"/> <port id="pr_fee71c36-6db6-4f8e-9be0-7e1638afb5bf_p2" x="11426.803" y="7536.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a8bf6f08-1116-47ac-8d70-7e8f1b1a270f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18625707, PMID:22634377</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a8bf6f08-1116-47ac-8d70-7e8f1b1a270f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18625707"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22634377"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2519.56" y="21072.0"/> <port id="pr_a8bf6f08-1116-47ac-8d70-7e8f1b1a270f_p1" x="2509.56" y="21077.0"/> <port id="pr_a8bf6f08-1116-47ac-8d70-7e8f1b1a270f_p2" x="2539.56" y="21077.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_074674a8-2257-4479-9096-3e3069c0bf37"> <bbox w="10.0" h="10.0" x="29810.34" y="8535.0"/> <port id="pr_074674a8-2257-4479-9096-3e3069c0bf37_p1" x="29830.34" y="8540.0"/> <port id="pr_074674a8-2257-4479-9096-3e3069c0bf37_p2" x="29800.34" y="8540.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e033bf7f-8fa6-41fb-93d7-39153d5d4abe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Cadherin internalization can occur through either clathrin-mediated, caveolin-mediated, or macropinocytosis-like pathways. Internalized cadherin is then sorted either for lysosomal degradation or recycling back to the plasma membrane.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e033bf7f-8fa6-41fb-93d7-39153d5d4abe"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1689.375" y="13473.0"/> <port id="pr_e033bf7f-8fa6-41fb-93d7-39153d5d4abe_p1" x="1694.375" y="13463.0"/> <port id="pr_e033bf7f-8fa6-41fb-93d7-39153d5d4abe_p2" x="1694.375" y="13493.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1c0fb4a-2e0d-471f-90b7-60a680d08af0"> <bbox w="10.0" h="10.0" x="18271.31" y="14632.0"/> <port id="pr_d1c0fb4a-2e0d-471f-90b7-60a680d08af0_p1" x="18276.31" y="14652.0"/> <port id="pr_d1c0fb4a-2e0d-471f-90b7-60a680d08af0_p2" x="18276.31" y="14622.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f56b4a90-c30c-49c7-9a33-54266adbf026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23824.81" y="10764.0"/> <port id="pr_f56b4a90-c30c-49c7-9a33-54266adbf026_p1" x="23829.81" y="10784.0"/> <port id="pr_f56b4a90-c30c-49c7-9a33-54266adbf026_p2" x="23829.81" y="10754.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_292a5364-cbda-436e-b6bd-19391bd0ebae"> <bbox w="10.0" h="10.0" x="22890.0" y="2478.75"/> <port id="pr_292a5364-cbda-436e-b6bd-19391bd0ebae_p1" x="22895.0" y="2498.75"/> <port id="pr_292a5364-cbda-436e-b6bd-19391bd0ebae_p2" x="22895.0" y="2468.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_68ff152e-b43a-4a73-905a-e7ba3d9f099f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5052.4805" y="14101.5"/> <port id="pr_68ff152e-b43a-4a73-905a-e7ba3d9f099f_p1" x="5057.4805" y="14121.5"/> <port id="pr_68ff152e-b43a-4a73-905a-e7ba3d9f099f_p2" x="5057.4805" y="14091.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_0124735e-57c8-43f9-8b9e-5b12edc42f6d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11640.973" y="15952.971"/> <port id="pr_0124735e-57c8-43f9-8b9e-5b12edc42f6d_p1" x="11660.973" y="15957.971"/> <port id="pr_0124735e-57c8-43f9-8b9e-5b12edc42f6d_p2" x="11630.973" y="15957.971"/> </glyph> <glyph class="process" orientation="vertical" id="pr_779606c0-3030-4dbc-9a89-b58e85f369d7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16371504</p> <p>The endocytosis of trans-interacting E-cadherin was inhibited by Rac and Cdc42 small G proteins, which were activated by trans-interacting E-cadherin.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_779606c0-3030-4dbc-9a89-b58e85f369d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16371504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6299.5" y="14439.0"/> <port id="pr_779606c0-3030-4dbc-9a89-b58e85f369d7_p1" x="6304.5" y="14429.0"/> <port id="pr_779606c0-3030-4dbc-9a89-b58e85f369d7_p2" x="6304.5" y="14459.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ed0c1c6-15b3-4768-9363-1a1d76bc7494"> <bbox w="10.0" h="10.0" x="3439.5017" y="4601.75"/> <port id="pr_6ed0c1c6-15b3-4768-9363-1a1d76bc7494_p1" x="3444.5017" y="4591.75"/> <port id="pr_6ed0c1c6-15b3-4768-9363-1a1d76bc7494_p2" x="3444.5017" y="4621.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fce579b5-15fe-4825-a586-9e5fea402275"> <bbox w="10.0" h="10.0" x="23240.0" y="3636.25"/> <port id="pr_fce579b5-15fe-4825-a586-9e5fea402275_p1" x="23245.0" y="3656.25"/> <port id="pr_fce579b5-15fe-4825-a586-9e5fea402275_p2" x="23245.0" y="3626.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef19bbbc-b360-4880-bcaa-86cec95cf343"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20956384</p> <p>PMID:21209912</p> <p>PMID:19549984</p> <p>PMID:19592253</p> </body> </html> 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<glyph class="process" orientation="horizontal" id="pr_e0956fc6-f983-4204-a7dd-8dbc3c7efb1a"> <bbox w="10.0" h="10.0" x="20414.602" y="15921.738"/> <port id="pr_e0956fc6-f983-4204-a7dd-8dbc3c7efb1a_p1" x="20404.602" y="15926.738"/> <port id="pr_e0956fc6-f983-4204-a7dd-8dbc3c7efb1a_p2" x="20434.602" y="15926.738"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d94462eb-d348-4023-8c39-c25c20d65184"> <bbox w="10.0" h="10.0" x="11245.0" y="5435.0"/> <port id="pr_d94462eb-d348-4023-8c39-c25c20d65184_p1" x="11250.0" y="5425.0"/> <port id="pr_d94462eb-d348-4023-8c39-c25c20d65184_p2" x="11250.0" y="5455.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5847d74a-ff97-4594-95b8-1e1f47cf01c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18560.18" y="16833.0"/> <port id="pr_5847d74a-ff97-4594-95b8-1e1f47cf01c2_p1" x="18565.18" y="16823.0"/> <port id="pr_5847d74a-ff97-4594-95b8-1e1f47cf01c2_p2" x="18565.18" y="16853.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_690f719e-4d52-4387-8d83-f3bf447dfdb3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5938.43" y="13675.0"/> <port id="pr_690f719e-4d52-4387-8d83-f3bf447dfdb3_p1" x="5943.43" y="13695.0"/> <port id="pr_690f719e-4d52-4387-8d83-f3bf447dfdb3_p2" x="5943.43" y="13665.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_65ba3bdd-aab8-4057-8de4-9e6a239a2a8f"> <bbox w="10.0" h="10.0" x="28028.0" y="6060.1055"/> <port id="pr_65ba3bdd-aab8-4057-8de4-9e6a239a2a8f_p1" x="28018.0" y="6065.1055"/> <port id="pr_65ba3bdd-aab8-4057-8de4-9e6a239a2a8f_p2" x="28048.0" y="6065.1055"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_faf44028-12f5-4249-b8c9-526365c91446"> <bbox w="10.0" h="10.0" x="21969.264" y="21708.047"/> <port id="pr_faf44028-12f5-4249-b8c9-526365c91446_p1" x="21959.264" y="21713.047"/> <port id="pr_faf44028-12f5-4249-b8c9-526365c91446_p2" x="21989.264" y="21713.047"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e3feaff-1e67-4851-a106-bb1d844de385"> <bbox w="10.0" h="10.0" x="15297.789" y="1632.0"/> <port id="pr_1e3feaff-1e67-4851-a106-bb1d844de385_p1" x="15302.789" y="1622.0"/> <port id="pr_1e3feaff-1e67-4851-a106-bb1d844de385_p2" x="15302.789" y="1652.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f2e444e1-da4d-4299-ad7a-4fa30e0f4466"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5406.25" y="18119.5"/> <port id="pr_f2e444e1-da4d-4299-ad7a-4fa30e0f4466_p1" x="5396.25" y="18124.5"/> <port id="pr_f2e444e1-da4d-4299-ad7a-4fa30e0f4466_p2" x="5426.25" y="18124.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_63cee1f2-3b53-4a19-9398-486811212a88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>When Ras assumes an active conformation through binding of GTP a subpopulation of the Raf-1 (C-Raf) protein molecules in cells translocates from the cytosol to the plasma membrane via interaction with P21ras (not modelled).</p> <p>PMID:8929532</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_63cee1f2-3b53-4a19-9398-486811212a88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8929532"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8415.061" y="19292.994"/> <port id="pr_63cee1f2-3b53-4a19-9398-486811212a88_p1" x="8405.061" y="19297.994"/> <port id="pr_63cee1f2-3b53-4a19-9398-486811212a88_p2" x="8435.061" y="19297.994"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_249af6c0-a191-45b0-bed8-2f33eb795144"> <bbox w="10.0" h="10.0" x="18264.541" y="12835.865"/> <port id="pr_249af6c0-a191-45b0-bed8-2f33eb795144_p1" x="18284.541" y="12840.865"/> <port id="pr_249af6c0-a191-45b0-bed8-2f33eb795144_p2" x="18254.541" y="12840.865"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3ef6ea4a-66f9-40f9-91a2-edc2116a1312"> <bbox w="10.0" h="10.0" x="19524.06" y="16382.436"/> <port id="pr_3ef6ea4a-66f9-40f9-91a2-edc2116a1312_p1" x="19529.06" y="16402.436"/> <port id="pr_3ef6ea4a-66f9-40f9-91a2-edc2116a1312_p2" x="19529.06" y="16372.436"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_0430ee4e-84b3-48b2-bc02-88cb0023509f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5303.6846" y="18712.406"/> <port id="pr_0430ee4e-84b3-48b2-bc02-88cb0023509f_p1" x="5293.6846" y="18717.406"/> <port id="pr_0430ee4e-84b3-48b2-bc02-88cb0023509f_p2" x="5323.6846" y="18717.406"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_db8c1589-f9dc-41af-a8ee-c35b90efebd4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10999941</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db8c1589-f9dc-41af-a8ee-c35b90efebd4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10999941"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16532.703" y="17912.242"/> <port id="pr_db8c1589-f9dc-41af-a8ee-c35b90efebd4_p1" x="16522.703" y="17917.242"/> <port id="pr_db8c1589-f9dc-41af-a8ee-c35b90efebd4_p2" x="16552.703" y="17917.242"/> </glyph> <glyph class="process" orientation="vertical" id="pr_49bb4b5c-601c-4460-90ea-c6bf854404b8"> <bbox w="10.0" h="10.0" x="22460.0" y="8192.5"/> <port id="pr_49bb4b5c-601c-4460-90ea-c6bf854404b8_p1" x="22465.0" y="8182.5"/> <port id="pr_49bb4b5c-601c-4460-90ea-c6bf854404b8_p2" x="22465.0" y="8212.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f216bb0b-94ba-42f4-aae1-553ec87ea519"> <bbox w="10.0" h="10.0" x="5437.333" y="9869.5"/> <port id="pr_f216bb0b-94ba-42f4-aae1-553ec87ea519_p1" x="5442.333" y="9889.5"/> <port id="pr_f216bb0b-94ba-42f4-aae1-553ec87ea519_p2" x="5442.333" y="9859.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b8ed199b-bda7-4e93-8505-d5e8b94ad6fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1853.0" y="17101.25"/> <port id="pr_b8ed199b-bda7-4e93-8505-d5e8b94ad6fe_p1" x="1858.0" y="17091.25"/> <port id="pr_b8ed199b-bda7-4e93-8505-d5e8b94ad6fe_p2" x="1858.0" y="17121.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_656a5e09-1651-48e6-bb6d-b9679060606c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3549.5657" y="19048.5"/> <port id="pr_656a5e09-1651-48e6-bb6d-b9679060606c_p1" x="3554.5657" y="19068.5"/> <port id="pr_656a5e09-1651-48e6-bb6d-b9679060606c_p2" x="3554.5657" y="19038.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d2ea662-af1f-4926-aed8-13f3f1c4bc1f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Cthrc1 enhances formation of Wnt-Fzl-Ror2 complex</p> <p>PMID:12839624</p> <p>PMID:18606138</p> <p>Syndecan-4 binds to Fzl, Dvl and is required for PCP MODULE.</p> <p>PMID:16604063</p> <p>PMID:21397842</p> <p>Vangl-2 forms complex upon binding with Wnt-5</p> <p>PMID:21316585</p> <p>ROR2 is associated with Wnt, Fzl and CK1_epsilon</p> <p>PMID:20215527</p> <p>PPR binds to Fzl in both canonical and non-canonical MODULE</p> <p>PMID:20093472</p> <p>PMID:21380625</p> <p>PMID:20579883</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3d2ea662-af1f-4926-aed8-13f3f1c4bc1f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18606138"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16604063"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21397842"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21316585"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20215527"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20579883"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17037.195" y="19014.0"/> <port id="pr_3d2ea662-af1f-4926-aed8-13f3f1c4bc1f_p1" x="17042.195" y="19004.0"/> <port id="pr_3d2ea662-af1f-4926-aed8-13f3f1c4bc1f_p2" x="17042.195" y="19034.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ae97182-394c-4e2c-bc75-14b5af89153a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18411308</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ae97182-394c-4e2c-bc75-14b5af89153a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18411308"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18403.73" y="16928.328"/> <port 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y="7466.25"/> <port id="pr_fb9c33fc-6871-4fd2-a57f-ecedf8eed57a_p2" x="11426.568" y="7496.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cfb12a10-79a8-4d7d-87d5-5d26613ac7d5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23989302</p> <p>PMID:19152186</p> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cfb12a10-79a8-4d7d-87d5-5d26613ac7d5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23989302"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19152186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5370.0" y="11359.0"/> <port id="pr_cfb12a10-79a8-4d7d-87d5-5d26613ac7d5_p1" x="5360.0" y="11364.0"/> <port id="pr_cfb12a10-79a8-4d7d-87d5-5d26613ac7d5_p2" x="5390.0" y="11364.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6c28751d-02ef-42eb-9273-dcd7d26de9f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3525.375" y="14415.0"/> <port id="pr_6c28751d-02ef-42eb-9273-dcd7d26de9f0_p1" x="3530.375" y="14435.0"/> <port id="pr_6c28751d-02ef-42eb-9273-dcd7d26de9f0_p2" x="3530.375" y="14405.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1a69e8d-1830-465e-be28-4f275bb19be0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10688666</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f1a69e8d-1830-465e-be28-4f275bb19be0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10688666"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22454.52" y="10511.0"/> <port id="pr_f1a69e8d-1830-465e-be28-4f275bb19be0_p1" x="22459.52" y="10501.0"/> <port id="pr_f1a69e8d-1830-465e-be28-4f275bb19be0_p2" x="22459.52" y="10531.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69434633-4b24-4200-8974-f57b53f18ce7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>P53 is a nuclear P38 target.</p> <p>Activated P38 phosphorylates P53 at several residues including Ser33 and thereby increases the transcriptional activity of P53.</p> <p>ATM phosphorylates P53 at ser15 and stabilize it.</p> <p>PMID:20506250 PMID:21614932 PMID:15140942</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_69434633-4b24-4200-8974-f57b53f18ce7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20506250"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15140942"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10793.918" y="20514.43"/> <port id="pr_69434633-4b24-4200-8974-f57b53f18ce7_p1" x="10798.918" y="20504.43"/> <port id="pr_69434633-4b24-4200-8974-f57b53f18ce7_p2" x="10798.918" y="20534.43"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57a1af7d-b8a6-428d-878b-f4d43830cad2"> <bbox w="10.0" h="10.0" x="10837.25" y="3715.0"/> <port id="pr_57a1af7d-b8a6-428d-878b-f4d43830cad2_p1" x="10842.25" y="3705.0"/> <port id="pr_57a1af7d-b8a6-428d-878b-f4d43830cad2_p2" x="10842.25" y="3735.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5d9844ed-5b33-4c1a-abbf-bc534624afd0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>LRKK2 mediates binding of NFAT to NRON and other components, but this is independent of its kinase activity and independent of the phosphorylation status of NFAT</p> <p>PMID:21983832</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5d9844ed-5b33-4c1a-abbf-bc534624afd0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21983832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19095.31" y="18532.39"/> <port id="pr_5d9844ed-5b33-4c1a-abbf-bc534624afd0_p1" x="19085.31" y="18537.39"/> <port id="pr_5d9844ed-5b33-4c1a-abbf-bc534624afd0_p2" x="19115.31" y="18537.39"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a0c8224f-c438-418d-a96e-998d83761077"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19966784</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a0c8224f-c438-418d-a96e-998d83761077"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19966784"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15863.061" y="18658.0"/> <port id="pr_a0c8224f-c438-418d-a96e-998d83761077_p1" x="15853.061" y="18663.0"/> <port id="pr_a0c8224f-c438-418d-a96e-998d83761077_p2" x="15883.061" y="18663.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d3f7c55-1cdc-40c7-9264-7930b8a56f60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d3f7c55-1cdc-40c7-9264-7930b8a56f60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6144.75" y="10382.0"/> <port id="pr_2d3f7c55-1cdc-40c7-9264-7930b8a56f60_p1" x="6149.75" y="10402.0"/> <port id="pr_2d3f7c55-1cdc-40c7-9264-7930b8a56f60_p2" x="6149.75" y="10372.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6d99a6c1-9349-4485-9f86-909346d7665d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>Keratin-14, 18, 19, Vimentin are putative direct HIF1 target genes</p> <p>http://www.omicsonline.org/1948-5956/JCST-03-035.php</p> <p>Genes induced by HIF-1 in cancer cells include KRT-14, 18, 19, Vimentin</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6d99a6c1-9349-4485-9f86-909346d7665d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13130303"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5036.25" y="15580.5"/> <port id="pr_6d99a6c1-9349-4485-9f86-909346d7665d_p1" x="5026.25" y="15585.5"/> <port id="pr_6d99a6c1-9349-4485-9f86-909346d7665d_p2" x="5056.25" y="15585.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0410585a-b862-42f1-8d77-fb0e089a005f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16713974</p> <p>TLR signaling activates and IFNG inhibits PI3K pathway</p> <p>PMID:11907067, PMID:15536084</p> <p>SYK kinaze directly interacts with PI3K(p85) and activates perforin  granule movement and polarization via PI3K /RAC1/PAK1/MEK /ERK pathway</p> <p>PMID:10426994 </p> <p>Phosphorylated DAP10 directly interacts with regulatory subunit (p85) of PI3K and activates downstream pathway.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0410585a-b862-42f1-8d77-fb0e089a005f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16713974"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11907067"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15536084"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10426994 "/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="30511.0" y="3650.0"/> <port id="pr_0410585a-b862-42f1-8d77-fb0e089a005f_p1" x="30516.0" y="3640.0"/> <port id="pr_0410585a-b862-42f1-8d77-fb0e089a005f_p2" x="30516.0" y="3670.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7dca9f54-e2f4-4b26-85c4-341e289a1093"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15744310</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7dca9f54-e2f4-4b26-85c4-341e289a1093"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15744310"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18891.56" y="16079.0"/> <port id="pr_7dca9f54-e2f4-4b26-85c4-341e289a1093_p1" x="18881.56" y="16084.0"/> <port id="pr_7dca9f54-e2f4-4b26-85c4-341e289a1093_p2" x="18911.56" y="16084.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_98f87930-6457-4fee-a8a7-2faca789a0ed"> <bbox w="10.0" h="10.0" x="9944.088" y="18326.062"/> <port id="pr_98f87930-6457-4fee-a8a7-2faca789a0ed_p1" x="9934.088" y="18331.062"/> <port id="pr_98f87930-6457-4fee-a8a7-2faca789a0ed_p2" x="9964.088" y="18331.062"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6a6fcba6-d934-4849-9f3e-f4132a59d757"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15031724</p> <p>Y2H with human cDNA</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6a6fcba6-d934-4849-9f3e-f4132a59d757"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15031724"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22358.562" y="14285.046"/> <port id="pr_6a6fcba6-d934-4849-9f3e-f4132a59d757_p1" x="22378.562" y="14290.046"/> <port id="pr_6a6fcba6-d934-4849-9f3e-f4132a59d757_p2" x="22348.562" y="14290.046"/> </glyph> <glyph class="process" orientation="vertical" id="pr_188a2239-a069-4bff-a1bd-7af31c73f187"> <bbox w="10.0" h="10.0" x="19220.436" y="16501.5"/> <port id="pr_188a2239-a069-4bff-a1bd-7af31c73f187_p1" x="19225.436" y="16491.5"/> <port id="pr_188a2239-a069-4bff-a1bd-7af31c73f187_p2" x="19225.436" y="16521.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ea530cd3-dd77-42f6-8608-6906d5088516"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1582.2539" y="16668.5"/> <port id="pr_ea530cd3-dd77-42f6-8608-6906d5088516_p1" x="1602.2539" y="16673.5"/> <port id="pr_ea530cd3-dd77-42f6-8608-6906d5088516_p2" x="1572.2539" y="16673.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e1579c0b-de43-42e5-97b6-d36406c851a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14654780</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e1579c0b-de43-42e5-97b6-d36406c851a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14654780"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13289.98" y="11594.25"/> <port id="pr_e1579c0b-de43-42e5-97b6-d36406c851a4_p1" x="13294.98" y="11584.25"/> <port id="pr_e1579c0b-de43-42e5-97b6-d36406c851a4_p2" x="13294.98" y="11614.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_24f718c0-334d-4382-9d16-d4767919eb88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>YWHAB has been displaced from S259 may now bind its higher affinity S621 site.</p> <p>This stabilises an OPEN RAF1 conformation that is catalytically active.</p> <p>Active and open RAF1 binds to RAS via both CRD and RBD domains.</p> <p>An unidentified protein tyrosine kinase located in the plasma membrane phosphorylates tyrosine residues at 340 and 341.</p> <p>This Tyrosine phosphorylation serves to further stabilise the active OPEN RAF1 conformation.</p> <p>While the kinase has not been definitively identified, SRC is a plausible candidate. RAF1 interacts with SRC and co-immunoprecipates with SRC-FYN.</p> <p>PIN1, a prolyl isomerase converts pSer and pThr residues from the cis to the trans conformation, which is preferentially recognized and dephosphorylated by PPP2R1A.</p> <p>Ras and PPP2R1A cooperate to release autoinhibition and the subsequent phosphorylation of activating sites: S338, Y374 and T491</p> <p>PMID:10712905</p> <p>PMID:9823899</p> <p>PAK3 phosphorylates RAF1 at S338 and upregulates RAF1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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y="1568.0"/> <port id="pr_ecc4e7ae-b3fe-4334-9ff4-a7ecb691158e_p2" x="18918.73" y="1538.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f04c6de8-84a3-4b16-b219-e2b9c335dfd3"> <bbox w="10.0" h="10.0" x="11595.0" y="6548.25"/> <port id="pr_f04c6de8-84a3-4b16-b219-e2b9c335dfd3_p1" x="11600.0" y="6538.25"/> <port id="pr_f04c6de8-84a3-4b16-b219-e2b9c335dfd3_p2" x="11600.0" y="6568.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ea82bda-320c-4e39-94ec-2e51d5ecbfde"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylation of CDC25A, B or C by CHEK1 and CHEK2 inactivates CDC25, prevents activating de-phosphorylation of CDKs by CDC25 A, B, C </p> <p>and stops cell cycle propagation</p> <p>kegg cell cycle</p> <p>PMID:20126263, PMID:17568790</p> </body> </html> </notes> <extension> <annotation xmlns="" 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa3286d0-9adb-4596-bbcc-82719db8c1a0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6869.0" y="11326.5"/> <port id="pr_aa3286d0-9adb-4596-bbcc-82719db8c1a0_p1" x="6859.0" y="11331.5"/> <port id="pr_aa3286d0-9adb-4596-bbcc-82719db8c1a0_p2" x="6889.0" y="11331.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_250caf66-8d17-49bd-acd5-d65033c4e195"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:16325583</p> <p>Monomeric CTNNA1 binds more strongly to E-cadherin/CTNNB1, whereas the dimer preferentially binds actin filaments</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_250caf66-8d17-49bd-acd5-d65033c4e195"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16325583"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2300.2258" y="15824.75"/> <port id="pr_250caf66-8d17-49bd-acd5-d65033c4e195_p1" x="2305.2258" y="15844.75"/> <port id="pr_250caf66-8d17-49bd-acd5-d65033c4e195_p2" x="2305.2258" y="15814.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_00b3b35a-2520-4857-8d13-37e85f60e67e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6224.5" y="13718.375"/> <port id="pr_00b3b35a-2520-4857-8d13-37e85f60e67e_p1" x="6214.5" y="13723.375"/> <port id="pr_00b3b35a-2520-4857-8d13-37e85f60e67e_p2" x="6244.5" y="13723.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5dd03ea9-b620-4272-a717-b2f8c112ac8a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18460397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5dd03ea9-b620-4272-a717-b2f8c112ac8a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18460397"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27396.31" y="21558.0"/> <port id="pr_5dd03ea9-b620-4272-a717-b2f8c112ac8a_p1" x="27386.31" y="21563.0"/> <port id="pr_5dd03ea9-b620-4272-a717-b2f8c112ac8a_p2" x="27416.31" y="21563.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d1c78c13-1f6b-4dc8-ad9f-131821914639"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d1c78c13-1f6b-4dc8-ad9f-131821914639"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20806969"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5407.5" y="11890.75"/> <port id="pr_d1c78c13-1f6b-4dc8-ad9f-131821914639_p1" x="5412.5" y="11880.75"/> <port id="pr_d1c78c13-1f6b-4dc8-ad9f-131821914639_p2" x="5412.5" y="11910.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e06708ee-fab5-4b65-9758-33a10c5778bc"> <bbox w="10.0" h="10.0" x="30321.0" y="2555.0"/> <port id="pr_e06708ee-fab5-4b65-9758-33a10c5778bc_p1" x="30326.0" y="2545.0"/> <port id="pr_e06708ee-fab5-4b65-9758-33a10c5778bc_p2" x="30326.0" y="2575.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3cbe5caf-8fee-4c9e-ba79-f376b600a8a6"> <bbox w="10.0" h="10.0" x="4103.1216" y="4932.25"/> <port id="pr_3cbe5caf-8fee-4c9e-ba79-f376b600a8a6_p1" x="4123.1216" y="4937.25"/> <port id="pr_3cbe5caf-8fee-4c9e-ba79-f376b600a8a6_p2" x="4093.1216" y="4937.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c20378a0-8b2f-48dc-88de-870db1ab7c09"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20103683</p> <p>in head and neck squamous cell carcinoma cells, enhanced TKTL1 expression and promoter hypomethylation</p> <p>TKTL1 overexpression associated with increased growth</p> <p>increase in F6P and glyceraldehyde-3P</p> <p>increase in glycolysis in a HIF1 dependent manner</p> <p>they propose that TKTL1 promotes F6P and glyceraldehyde 3P, displayed here as the reverse reaction</p> </body> </html> </notes> <extension> 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orientation="vertical" id="pr_dd2a7d6b-b1c6-4d00-a8dd-6019b71f875c"> <bbox w="10.0" h="10.0" x="20037.828" y="10666.5"/> <port id="pr_dd2a7d6b-b1c6-4d00-a8dd-6019b71f875c_p1" x="20042.828" y="10656.5"/> <port id="pr_dd2a7d6b-b1c6-4d00-a8dd-6019b71f875c_p2" x="20042.828" y="10686.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_09637ce4-dbd5-4c40-9778-48215cbbbf72"> <bbox w="10.0" h="10.0" x="19065.0" y="502.5"/> <port id="pr_09637ce4-dbd5-4c40-9778-48215cbbbf72_p1" x="19070.0" y="492.5"/> <port id="pr_09637ce4-dbd5-4c40-9778-48215cbbbf72_p2" x="19070.0" y="522.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7046ca8e-7a2e-404b-99ef-e06a0f997ce5"> <bbox w="10.0" h="10.0" x="10556.061" y="18391.375"/> <port id="pr_7046ca8e-7a2e-404b-99ef-e06a0f997ce5_p1" x="10576.061" y="18396.375"/> <port id="pr_7046ca8e-7a2e-404b-99ef-e06a0f997ce5_p2" x="10546.061" y="18396.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_00275d5a-e046-4d1a-bba1-aeef4ff7748d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19383900</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_00275d5a-e046-4d1a-bba1-aeef4ff7748d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19383900"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22464.81" y="21249.188"/> <port id="pr_00275d5a-e046-4d1a-bba1-aeef4ff7748d_p1" x="22454.81" y="21254.188"/> <port id="pr_00275d5a-e046-4d1a-bba1-aeef4ff7748d_p2" x="22484.81" y="21254.188"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1efb6413-41c4-459e-aa77-bc0d26a3e970"> <bbox w="10.0" h="10.0" x="13325.0" y="4372.375"/> <port id="pr_1efb6413-41c4-459e-aa77-bc0d26a3e970_p1" x="13330.0" y="4362.375"/> <port id="pr_1efb6413-41c4-459e-aa77-bc0d26a3e970_p2" x="13330.0" y="4392.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_951db368-838c-433c-bafc-7cc1c5f20529"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21053359</p> <p>PMID:17409395</p> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_951db368-838c-433c-bafc-7cc1c5f20529"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21053359"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2767.25" y="10323.5"/> <port id="pr_951db368-838c-433c-bafc-7cc1c5f20529_p1" x="2772.25" y="10343.5"/> <port id="pr_951db368-838c-433c-bafc-7cc1c5f20529_p2" x="2772.25" y="10313.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c173438f-51ac-477d-b145-bef99f9f0e3d"> <bbox w="10.0" h="10.0" x="28808.19" y="6331.217"/> <port id="pr_c173438f-51ac-477d-b145-bef99f9f0e3d_p1" x="28828.19" y="6336.217"/> <port id="pr_c173438f-51ac-477d-b145-bef99f9f0e3d_p2" x="28798.19" y="6336.217"/> </glyph> <glyph class="process" orientation="vertical" id="pr_affaf667-2af7-47a3-a72d-471df15ebbf0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15105421</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_affaf667-2af7-47a3-a72d-471df15ebbf0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15105421"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21864.148" y="16183.5"/> <port id="pr_affaf667-2af7-47a3-a72d-471df15ebbf0_p1" x="21869.148" y="16203.5"/> <port id="pr_affaf667-2af7-47a3-a72d-471df15ebbf0_p2" x="21869.148" y="16173.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b6198ef1-b4f4-4c14-9a39-76dfd9aa5f9f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4219.453" y="15230.75"/> <port id="pr_b6198ef1-b4f4-4c14-9a39-76dfd9aa5f9f_p1" x="4209.453" y="15235.75"/> <port id="pr_b6198ef1-b4f4-4c14-9a39-76dfd9aa5f9f_p2" x="4239.453" y="15235.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2dfb8b7f-e7eb-4507-978b-db4475930fbb"> <bbox w="10.0" h="10.0" x="27185.242" y="13300.25"/> <port id="pr_2dfb8b7f-e7eb-4507-978b-db4475930fbb_p1" x="27190.242" y="13320.25"/> <port id="pr_2dfb8b7f-e7eb-4507-978b-db4475930fbb_p2" x="27190.242" y="13290.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_13bf2245-ae55-4255-9d81-88a4883237b6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19557001</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_13bf2245-ae55-4255-9d81-88a4883237b6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19557001"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26059.06" y="12259.0"/> <port id="pr_13bf2245-ae55-4255-9d81-88a4883237b6_p1" x="26064.06" y="12249.0"/> <port id="pr_13bf2245-ae55-4255-9d81-88a4883237b6_p2" x="26064.06" y="12279.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a7d7c0df-8d67-48a7-b44f-e3514c21a8e6"> <bbox w="10.0" h="10.0" x="23136.56" y="13345.049"/> <port id="pr_a7d7c0df-8d67-48a7-b44f-e3514c21a8e6_p1" x="23126.56" y="13350.049"/> <port id="pr_a7d7c0df-8d67-48a7-b44f-e3514c21a8e6_p2" x="23156.56" y="13350.049"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_323e8d6d-8ee7-4106-80a5-5699cdbb751c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18815277</p> <p>PMID:16885213</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_323e8d6d-8ee7-4106-80a5-5699cdbb751c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18815277"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16885213"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26313.56" y="22703.0"/> <port id="pr_323e8d6d-8ee7-4106-80a5-5699cdbb751c_p1" x="26303.56" y="22708.0"/> <port id="pr_323e8d6d-8ee7-4106-80a5-5699cdbb751c_p2" x="26333.56" y="22708.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_30bbee23-44c2-4809-a891-4d26597bbe7e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2888.5" y="16457.5"/> <port id="pr_30bbee23-44c2-4809-a891-4d26597bbe7e_p1" x="2908.5" y="16462.5"/> <port id="pr_30bbee23-44c2-4809-a891-4d26597bbe7e_p2" x="2878.5" y="16462.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_974c26b6-339e-44c1-9228-5f0cb96d82e8"> <bbox w="10.0" h="10.0" x="13664.186" y="21470.0"/> <port id="pr_974c26b6-339e-44c1-9228-5f0cb96d82e8_p1" x="13654.186" y="21475.0"/> <port id="pr_974c26b6-339e-44c1-9228-5f0cb96d82e8_p2" x="13684.186" y="21475.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ae19ddde-664f-451e-8f91-ff173cba0bcb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17662023</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ae19ddde-664f-451e-8f91-ff173cba0bcb"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18266.31" y="18541.5"/> <port id="pr_ae19ddde-664f-451e-8f91-ff173cba0bcb_p1" x="18256.31" y="18546.5"/> <port id="pr_ae19ddde-664f-451e-8f91-ff173cba0bcb_p2" x="18286.31" y="18546.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_61f5ab38-e534-4aad-885a-6543c54b9a49"> <bbox w="10.0" h="10.0" x="27684.06" y="14544.477"/> <port id="pr_61f5ab38-e534-4aad-885a-6543c54b9a49_p1" x="27674.06" y="14549.477"/> <port id="pr_61f5ab38-e534-4aad-885a-6543c54b9a49_p2" x="27704.06" y="14549.477"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a776fa5f-e12e-4d98-8746-a4920220d377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Not known if this dissociation occurs (here or later)</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20986.748" y="21298.0"/> <port id="pr_a776fa5f-e12e-4d98-8746-a4920220d377_p1" x="20976.748" y="21303.0"/> <port id="pr_a776fa5f-e12e-4d98-8746-a4920220d377_p2" x="21006.748" y="21303.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_62477000-fb71-4c34-b89e-48c03bca86cb"> <bbox w="10.0" h="10.0" x="3005.0" y="3735.0"/> <port id="pr_62477000-fb71-4c34-b89e-48c03bca86cb_p1" x="2995.0" y="3740.0"/> <port id="pr_62477000-fb71-4c34-b89e-48c03bca86cb_p2" x="3025.0" y="3740.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_00e218f1-0caa-487c-ab62-64c30a5f3cfa"> <bbox w="10.0" h="10.0" x="24849.545" y="14152.25"/> <port id="pr_00e218f1-0caa-487c-ab62-64c30a5f3cfa_p1" x="24854.545" y="14172.25"/> <port id="pr_00e218f1-0caa-487c-ab62-64c30a5f3cfa_p2" x="24854.545" y="14142.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4281fceb-0524-4794-aa08-e1eff637db75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15852005</p> </body> </html> </notes> <extension> <annotation 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id="logicglyph_430b31e3-936a-4f06-a2da-171356a64bdf_p1" x="24333.557" y="12434.876"/> <port id="logicglyph_430b31e3-936a-4f06-a2da-171356a64bdf_p2" x="24333.557" y="12394.876"/> </glyph> <glyph class="process" orientation="vertical" id="pr_915e0e98-7c8b-44df-841b-bb0b7bcde23e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:12453415</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5fa2399c-eba3-4e1b-8b1c-6b1d9bc49951"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12453415"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15740.061" y="21091.0"/> <port id="pr_5fa2399c-eba3-4e1b-8b1c-6b1d9bc49951_p1" x="15730.061" y="21096.0"/> <port id="pr_5fa2399c-eba3-4e1b-8b1c-6b1d9bc49951_p2" x="15760.061" y="21096.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_133c1f45-af9a-48a4-af8b-ca22cf888fd2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19996099</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_36e8243e-2d88-41b1-a999-042b066623a7"> <bbox w="10.0" h="10.0" x="14385.0" y="1975.0"/> <port id="pr_36e8243e-2d88-41b1-a999-042b066623a7_p1" x="14390.0" y="1965.0"/> <port id="pr_36e8243e-2d88-41b1-a999-042b066623a7_p2" x="14390.0" y="1995.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1661b7d5-727e-450d-91a4-e86763037c2a"> <bbox w="10.0" h="10.0" x="20250.0" y="1871.25"/> <port id="pr_1661b7d5-727e-450d-91a4-e86763037c2a_p1" x="20255.0" y="1891.25"/> <port id="pr_1661b7d5-727e-450d-91a4-e86763037c2a_p2" x="20255.0" y="1861.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_911d51c9-9ba5-4dad-82ce-385f284ee068"> <bbox w="10.0" h="10.0" x="23957.023" y="21436.0"/> <port id="pr_911d51c9-9ba5-4dad-82ce-385f284ee068_p1" x="23962.023" y="21456.0"/> <port id="pr_911d51c9-9ba5-4dad-82ce-385f284ee068_p2" x="23962.023" y="21426.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_398913e9-ecab-4de5-92cc-74b4c6c59359"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3856.4233" y="18550.576"/> <port id="pr_398913e9-ecab-4de5-92cc-74b4c6c59359_p1" x="3846.4233" y="18555.576"/> <port id="pr_398913e9-ecab-4de5-92cc-74b4c6c59359_p2" x="3876.4233" y="18555.576"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e0d68630-fdac-4474-b7f3-4094be7a8c46"> <bbox w="10.0" h="10.0" x="19482.06" y="15639.5"/> <port id="pr_e0d68630-fdac-4474-b7f3-4094be7a8c46_p1" x="19472.06" y="15644.5"/> <port id="pr_e0d68630-fdac-4474-b7f3-4094be7a8c46_p2" x="19502.06" y="15644.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_e2a3809c-55ae-4794-901c-00cdd073c0a7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2259.4214" y="16750.5"/> <port id="pr_e2a3809c-55ae-4794-901c-00cdd073c0a7_p1" x="2249.4214" y="16755.5"/> <port id="pr_e2a3809c-55ae-4794-901c-00cdd073c0a7_p2" x="2279.4214" y="16755.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a0a75da-0d8c-44f8-8457-902cbc6c3590"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5073.25" y="13464.5"/> <port id="pr_4a0a75da-0d8c-44f8-8457-902cbc6c3590_p1" x="5078.25" y="13484.5"/> <port id="pr_4a0a75da-0d8c-44f8-8457-902cbc6c3590_p2" x="5078.25" y="13454.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_767111ff-28a1-412c-abbf-774061d783e6"> <bbox w="10.0" h="10.0" x="25859.7" y="13732.125"/> <port id="pr_767111ff-28a1-412c-abbf-774061d783e6_p1" x="25849.7" y="13737.125"/> <port id="pr_767111ff-28a1-412c-abbf-774061d783e6_p2" x="25879.7" y="13737.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_953fc220-fe86-4110-b714-a66fab4649cb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Rspo induces clathrin-mediated endocytosis</p> <p>PMID:21397842</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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class="omitted process" orientation="vertical" id="pr_ca60460e-6fdf-4416-b5de-c41caf8836b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ca60460e-6fdf-4416-b5de-c41caf8836b4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25096.941" y="18598.57"/> <port id="pr_ca60460e-6fdf-4416-b5de-c41caf8836b4_p1" x="25101.941" y="18588.57"/> <port id="pr_ca60460e-6fdf-4416-b5de-c41caf8836b4_p2" x="25101.941" y="18618.57"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b65828b2-f508-4c35-a8d7-63b8ab7d4d88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>logical:rc_re354_rc_s2093=FALSE</p> <p>PMID:18198340</p> <p>DDIT4 mediated hypoxic signalling to mTPMID:12468542</p> <p>14-3-3_beta_ forms a ternary complex with TSC1 and Akt-phosphorylated TSC2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b65828b2-f508-4c35-a8d7-63b8ab7d4d88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18198340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="mTurn:miriam:pubmed:12468542"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25894.182" y="12099.467"/> <port id="pr_b65828b2-f508-4c35-a8d7-63b8ab7d4d88_p1" x="25914.182" y="12104.467"/> <port id="pr_b65828b2-f508-4c35-a8d7-63b8ab7d4d88_p2" x="25884.182" y="12104.467"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_20b1e37f-d3e3-4af0-b7d0-00069b140244"> <bbox w="10.0" h="10.0" x="23625.06" y="21512.0"/> <port id="pr_20b1e37f-d3e3-4af0-b7d0-00069b140244_p1" x="23615.06" y="21517.0"/> <port id="pr_20b1e37f-d3e3-4af0-b7d0-00069b140244_p2" x="23645.06" y="21517.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_eeeb57e7-985b-4a61-9064-189c60f4fa16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18539112</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_eeeb57e7-985b-4a61-9064-189c60f4fa16"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18539112"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26795.31" y="20712.887"/> <port id="pr_eeeb57e7-985b-4a61-9064-189c60f4fa16_p1" x="26785.31" y="20717.887"/> <port id="pr_eeeb57e7-985b-4a61-9064-189c60f4fa16_p2" x="26815.31" y="20717.887"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ff33f165-5792-4d65-a7d8-cfd2e938d8e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14701803</p> <p>PMID:18497292</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ff33f165-5792-4d65-a7d8-cfd2e938d8e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14701803"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18497292"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24214.06" y="14189.0"/> <port id="pr_ff33f165-5792-4d65-a7d8-cfd2e938d8e2_p1" x="24219.06" y="14179.0"/> <port id="pr_ff33f165-5792-4d65-a7d8-cfd2e938d8e2_p2" x="24219.06" y="14209.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3495fdf6-d74a-42cb-b0a3-8bd2cd1aae9f"> <bbox w="10.0" h="10.0" x="13666.061" y="20683.0"/> <port id="pr_3495fdf6-d74a-42cb-b0a3-8bd2cd1aae9f_p1" x="13656.061" y="20688.0"/> <port id="pr_3495fdf6-d74a-42cb-b0a3-8bd2cd1aae9f_p2" x="13686.061" y="20688.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ba5c17d-8469-459b-9ec9-fddfc79cbe83"> <bbox w="10.0" h="10.0" x="15657.5" y="2820.0"/> <port id="pr_0ba5c17d-8469-459b-9ec9-fddfc79cbe83_p1" x="15647.5" y="2825.0"/> <port id="pr_0ba5c17d-8469-459b-9ec9-fddfc79cbe83_p2" x="15677.5" y="2825.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b1d9e44b-c3c1-45da-a788-39f192366562"> <bbox w="10.0" h="10.0" x="12095.0" y="5615.0"/> <port id="pr_b1d9e44b-c3c1-45da-a788-39f192366562_p1" x="12100.0" y="5605.0"/> <port id="pr_b1d9e44b-c3c1-45da-a788-39f192366562_p2" x="12100.0" y="5635.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_03d26386-b878-4c6d-b592-31e434913186"> <bbox w="10.0" h="10.0" x="30434.0" y="5725.0"/> <port id="pr_03d26386-b878-4c6d-b592-31e434913186_p1" x="30439.0" y="5715.0"/> <port id="pr_03d26386-b878-4c6d-b592-31e434913186_p2" x="30439.0" y="5745.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_812ca2c9-e097-4d6d-9c39-b8f31b2bb050"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> <p>by NRF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_812ca2c9-e097-4d6d-9c39-b8f31b2bb050"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19921.592" y="16179.25"/> <port id="pr_812ca2c9-e097-4d6d-9c39-b8f31b2bb050_p1" x="19926.592" y="16199.25"/> <port id="pr_812ca2c9-e097-4d6d-9c39-b8f31b2bb050_p2" x="19926.592" y="16169.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f55b9acb-7b9b-48c6-984e-639bc8a84bb2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3695.4565" y="16319.5"/> <port id="pr_f55b9acb-7b9b-48c6-984e-639bc8a84bb2_p1" x="3685.4565" y="16324.5"/> <port id="pr_f55b9acb-7b9b-48c6-984e-639bc8a84bb2_p2" x="3715.4565" y="16324.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3887fe88-97cc-4134-a8e7-79a6babf77a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11313479</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3887fe88-97cc-4134-a8e7-79a6babf77a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11313479"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12054.811" y="21281.5"/> <port id="pr_3887fe88-97cc-4134-a8e7-79a6babf77a4_p1" x="12074.811" y="21286.5"/> <port id="pr_3887fe88-97cc-4134-a8e7-79a6babf77a4_p2" x="12044.811" y="21286.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af79cfc8-a1c9-4b9c-a4af-85c0dec404f0"> <bbox w="10.0" h="10.0" x="4393.0" y="10730.0"/> <port id="pr_af79cfc8-a1c9-4b9c-a4af-85c0dec404f0_p1" x="4398.0" y="10720.0"/> <port id="pr_af79cfc8-a1c9-4b9c-a4af-85c0dec404f0_p2" x="4398.0" y="10750.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_627546a8-4742-4668-ae9e-64cee849b068"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25204.06" y="19431.5"/> <port id="pr_627546a8-4742-4668-ae9e-64cee849b068_p1" x="25194.06" y="19436.5"/> <port id="pr_627546a8-4742-4668-ae9e-64cee849b068_p2" x="25224.06" y="19436.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f12f529-375f-4ba2-8055-ae93dc979478"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19930715</p> <p>PMID:26597054</p> <p>PMID:27572739</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2f12f529-375f-4ba2-8055-ae93dc979478"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4850.25" y="11137.0"/> <port id="pr_2f12f529-375f-4ba2-8055-ae93dc979478_p1" x="4855.25" y="11127.0"/> <port id="pr_2f12f529-375f-4ba2-8055-ae93dc979478_p2" x="4855.25" y="11157.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_e7208fd1-7a24-43e7-9b8c-15289cb41371"> <bbox w="20.0" h="20.0" x="4667.62" y="11031.898"/> <port id="logicglyph_e7208fd1-7a24-43e7-9b8c-15289cb41371_p1" x="4657.62" y="11041.898"/> <port id="logicglyph_e7208fd1-7a24-43e7-9b8c-15289cb41371_p2" x="4697.62" y="11041.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4386df12-c43c-4643-b25a-f778a3d99109"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22699938</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4386df12-c43c-4643-b25a-f778a3d99109"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22699938"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23335.06" y="20696.344"/> <port id="pr_4386df12-c43c-4643-b25a-f778a3d99109_p1" x="23340.06" y="20686.344"/> <port id="pr_4386df12-c43c-4643-b25a-f778a3d99109_p2" x="23340.06" y="20716.344"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_76c56de8-4081-442b-9932-477e74f2aa43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16611981</p> <p>PMID:16651270</p> <p>Gli2 ubi by bTrCP2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_76c56de8-4081-442b-9932-477e74f2aa43"> <bqbiol:isEncodedBy> 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id="pr_5a5ae572-e44a-45b9-b941-abca681c71d5_p1" x="20765.0" y="4609.375"/> <port id="pr_5a5ae572-e44a-45b9-b941-abca681c71d5_p2" x="20765.0" y="4579.375"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1ed1f577-f988-4aa3-bd7e-4479df1a1c47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1952.75" y="18632.875"/> <port id="pr_1ed1f577-f988-4aa3-bd7e-4479df1a1c47_p1" x="1942.75" y="18637.875"/> <port id="pr_1ed1f577-f988-4aa3-bd7e-4479df1a1c47_p2" x="1972.75" y="18637.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_18823646-b3b0-47cb-9a19-482fcf4bc5ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ER stress lead to the oligomerisation and activation of mammalian Ire1p (ERN1). ERN1 activation is likely to trigger binding and activation of TRAF2.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_18823646-b3b0-47cb-9a19-482fcf4bc5ce"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10351.557" y="18985.36"/> <port id="pr_18823646-b3b0-47cb-9a19-482fcf4bc5ce_p1" x="10341.557" y="18990.36"/> <port id="pr_18823646-b3b0-47cb-9a19-482fcf4bc5ce_p2" x="10371.557" y="18990.36"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6dbecd6a-c869-4716-aeb8-808cc754e6ed"> <bbox w="10.0" h="10.0" x="3258.25" y="10223.0"/> <port id="pr_6dbecd6a-c869-4716-aeb8-808cc754e6ed_p1" x="3278.25" y="10228.0"/> <port id="pr_6dbecd6a-c869-4716-aeb8-808cc754e6ed_p2" x="3248.25" y="10228.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3ef40d3b-cd24-4831-829b-f42718f52fad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20851997 PMID:19351822</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3ef40d3b-cd24-4831-829b-f42718f52fad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20851997"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19351822"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26932.56" y="22071.473"/> <port id="pr_3ef40d3b-cd24-4831-829b-f42718f52fad_p1" x="26922.56" y="22076.473"/> <port id="pr_3ef40d3b-cd24-4831-829b-f42718f52fad_p2" x="26952.56" y="22076.473"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a67c72a9-b7d0-489f-af3e-d3f61fda8a5b"> <bbox w="10.0" h="10.0" x="28083.0" y="5250.1055"/> <port id="pr_a67c72a9-b7d0-489f-af3e-d3f61fda8a5b_p1" x="28073.0" y="5255.1055"/> <port id="pr_a67c72a9-b7d0-489f-af3e-d3f61fda8a5b_p2" x="28103.0" y="5255.1055"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d556fd9-fe43-46f7-9454-3c34d1d3607f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22476944</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2d556fd9-fe43-46f7-9454-3c34d1d3607f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22476944"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20975.31" y="10716.5"/> <port id="pr_2d556fd9-fe43-46f7-9454-3c34d1d3607f_p1" x="20980.31" y="10706.5"/> <port id="pr_2d556fd9-fe43-46f7-9454-3c34d1d3607f_p2" x="20980.31" y="10736.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9e08ddcc-d708-433b-b859-144df1444b30"> <bbox w="10.0" h="10.0" x="16105.0" y="5982.5"/> <port id="pr_9e08ddcc-d708-433b-b859-144df1444b30_p1" x="16110.0" y="6002.5"/> <port id="pr_9e08ddcc-d708-433b-b859-144df1444b30_p2" x="16110.0" y="5972.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_47bea66a-3eb9-4a56-ae29-fffe1d708b83"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1228.125" y="14912.245"/> <port id="pr_47bea66a-3eb9-4a56-ae29-fffe1d708b83_p1" x="1248.125" y="14917.245"/> <port id="pr_47bea66a-3eb9-4a56-ae29-fffe1d708b83_p2" x="1218.125" y="14917.245"/> </glyph> <glyph class="process" orientation="vertical" id="pr_58f4b1f0-9f4f-42cc-964a-db226ffc8ea1"> <bbox w="10.0" h="10.0" x="13658.711" y="1701.25"/> <port id="pr_58f4b1f0-9f4f-42cc-964a-db226ffc8ea1_p1" x="13663.711" y="1691.25"/> <port id="pr_58f4b1f0-9f4f-42cc-964a-db226ffc8ea1_p2" x="13663.711" y="1721.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7841e99b-7eaf-4821-9bbc-f57bd187c5d7"> <bbox w="10.0" h="10.0" x="7698.423" y="6577.0"/> <port id="pr_7841e99b-7eaf-4821-9bbc-f57bd187c5d7_p1" x="7703.423" y="6567.0"/> <port 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x="19535.06" y="9818.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6cd8c1fb-792f-4c6e-b535-00f49771686f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19788416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6cd8c1fb-792f-4c6e-b535-00f49771686f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19788416"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10500.008" y="11230.334"/> <port id="pr_6cd8c1fb-792f-4c6e-b535-00f49771686f_p1" x="10505.008" y="11220.334"/> <port id="pr_6cd8c1fb-792f-4c6e-b535-00f49771686f_p2" x="10505.008" y="11250.334"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4cf9d977-46fb-4d29-8942-e58079ef511c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5275.0176" y="14671.0"/> <port id="pr_4cf9d977-46fb-4d29-8942-e58079ef511c_p1" x="5280.0176" y="14691.0"/> <port id="pr_4cf9d977-46fb-4d29-8942-e58079ef511c_p2" x="5280.0176" y="14661.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f5b672ca-c29e-4fc0-aef0-44e349e6f857"> <bbox w="10.0" h="10.0" x="355.0" y="3292.5"/> <port id="pr_f5b672ca-c29e-4fc0-aef0-44e349e6f857_p1" x="360.0" y="3282.5"/> <port id="pr_f5b672ca-c29e-4fc0-aef0-44e349e6f857_p2" x="360.0" y="3312.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52c9dc0c-1412-4a57-b7a4-7567c0bbd879"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>PMID:9892620</p> <p>PMID:10318956</p> <p>PMID:12611882</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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x="2501.56" y="21734.75"/> <port id="pr_fd246b61-23f3-4ef0-a813-1e82665ea4f3_p2" x="2471.56" y="21734.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_556167d7-6e96-45c1-ac70-3d7f11211d3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:15525529</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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</head> <body> <p>References:</p> <p>Sef1 which is a putative transmembrane protein of the Golgi apparatus seems to be a scaffold protein that recruits ERK1/2 and MEK1/2 to its vicinity and probably allows their activation by Golgi-localised Ras proteins.</p> <p>PMID:19565474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1c2bb907-593b-45ed-8019-de82e7c2d85b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19565474"/> </rdf:Bag> </bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1251.7704" y="15251.0"/> <port id="pr_c5ae6e5d-0b54-4464-928c-1d44e06b9caa_p1" x="1256.7704" y="15271.0"/> <port id="pr_c5ae6e5d-0b54-4464-928c-1d44e06b9caa_p2" x="1256.7704" y="15241.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f0ee3c9f-73a9-4cf6-90aa-0d360a97338b"> <bbox w="10.0" h="10.0" x="27304.06" y="14404.0"/> <port id="pr_f0ee3c9f-73a9-4cf6-90aa-0d360a97338b_p1" x="27309.06" y="14394.0"/> <port id="pr_f0ee3c9f-73a9-4cf6-90aa-0d360a97338b_p2" x="27309.06" y="14424.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4b8c4b66-9e96-4398-a9bf-3d235a1a2588"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1526.5" y="13256.086"/> <port id="pr_4b8c4b66-9e96-4398-a9bf-3d235a1a2588_p1" x="1516.5" y="13261.086"/> <port id="pr_4b8c4b66-9e96-4398-a9bf-3d235a1a2588_p2" x="1546.5" y="13261.086"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_54baef49-d02b-42ce-96e1-243c4d955379"> <bbox w="10.0" h="10.0" x="13160.0" y="4531.875"/> <port id="pr_54baef49-d02b-42ce-96e1-243c4d955379_p1" x="13150.0" y="4536.875"/> <port id="pr_54baef49-d02b-42ce-96e1-243c4d955379_p2" x="13180.0" y="4536.875"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_efdd67c4-f647-489c-9aac-601d7f0db0aa"> <bbox w="20.0" h="20.0" x="13987.916" y="4197.2915"/> <port id="logicglyph_efdd67c4-f647-489c-9aac-601d7f0db0aa_p1" x="14017.916" y="4207.2915"/> <port id="logicglyph_efdd67c4-f647-489c-9aac-601d7f0db0aa_p2" x="13977.916" y="4207.2915"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c171e114-4756-455d-b710-1bdf14975b8d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15775970</p> <p>cleavage of AIF</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c171e114-4756-455d-b710-1bdf14975b8d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15775970"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20334.973" y="13223.598"/> <port id="pr_c171e114-4756-455d-b710-1bdf14975b8d_p1" x="20324.973" y="13228.598"/> <port id="pr_c171e114-4756-455d-b710-1bdf14975b8d_p2" x="20354.973" y="13228.598"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_5b5b1b55-b8e9-4617-b442-8e71a55f58b4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13982.815" y="15116.326"/> <port id="pr_5b5b1b55-b8e9-4617-b442-8e71a55f58b4_p1" x="13972.815" y="15121.326"/> <port id="pr_5b5b1b55-b8e9-4617-b442-8e71a55f58b4_p2" x="14002.815" y="15121.326"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c2bf7ec7-fde1-43eb-a809-5343fdd1b3b7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8882641</p> <p>access only to abstract</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c2bf7ec7-fde1-43eb-a809-5343fdd1b3b7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8882641"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20562.754" y="16185.375"/> <port id="pr_c2bf7ec7-fde1-43eb-a809-5343fdd1b3b7_p1" x="20567.754" y="16205.375"/> <port id="pr_c2bf7ec7-fde1-43eb-a809-5343fdd1b3b7_p2" x="20567.754" y="16175.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a74ffdde-d502-4447-8590-7d7473d9aaad"> <bbox w="10.0" h="10.0" x="11285.0" y="4892.5"/> <port id="pr_a74ffdde-d502-4447-8590-7d7473d9aaad_p1" x="11290.0" y="4882.5"/> <port id="pr_a74ffdde-d502-4447-8590-7d7473d9aaad_p2" x="11290.0" y="4912.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d2787ff-a260-4578-a14a-f82f21be02a1"> <bbox w="10.0" h="10.0" x="21266.25" y="3641.25"/> <port id="pr_0d2787ff-a260-4578-a14a-f82f21be02a1_p1" x="21286.25" y="3646.25"/> <port id="pr_0d2787ff-a260-4578-a14a-f82f21be02a1_p2" x="21256.25" y="3646.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_42a1ab36-10ee-49cf-94b0-3ce31cdf003f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>The IL-1R/IL-1RAcP heterodimer recruits the death domain adapter protein MyD88.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_42a1ab36-10ee-49cf-94b0-3ce31cdf003f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10472.557" y="18962.207"/> <port id="pr_42a1ab36-10ee-49cf-94b0-3ce31cdf003f_p1" x="10462.557" y="18967.207"/> <port id="pr_42a1ab36-10ee-49cf-94b0-3ce31cdf003f_p2" x="10492.557" y="18967.207"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1590b882-5bfc-4d99-af61-543e702c1c78"> <bbox w="10.0" h="10.0" x="5481.4287" y="1282.0"/> <port id="pr_1590b882-5bfc-4d99-af61-543e702c1c78_p1" x="5486.4287" y="1272.0"/> <port id="pr_1590b882-5bfc-4d99-af61-543e702c1c78_p2" x="5486.4287" y="1302.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f47b9358-17f3-4771-971c-4fe4462f3533"> <bbox w="10.0" h="10.0" x="5009.0" y="7244.0"/> <port id="pr_f47b9358-17f3-4771-971c-4fe4462f3533_p1" x="5014.0" y="7234.0"/> <port id="pr_f47b9358-17f3-4771-971c-4fe4462f3533_p2" x="5014.0" y="7264.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_06a0d2c9-56f4-41ba-a31d-d92997950701"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>hierarchical:post-MOMP</p> <p>reactionType:casp.cleavage</p> <p>PMID:19219071</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_06a0d2c9-56f4-41ba-a31d-d92997950701"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19219071"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22716.56" y="16899.0"/> <port id="pr_06a0d2c9-56f4-41ba-a31d-d92997950701_p1" x="22721.56" y="16889.0"/> <port id="pr_06a0d2c9-56f4-41ba-a31d-d92997950701_p2" x="22721.56" y="16919.0"/> </glyph> <glyph class="or" orientation="horizontal" id="logicglyph_2da9fc55-8f1b-4e37-9298-975c39c5b121"> <bbox w="20.0" h="20.0" x="22505.81" y="16892.18"/> <port id="logicglyph_2da9fc55-8f1b-4e37-9298-975c39c5b121_p1" x="22495.81" y="16902.18"/> <port id="logicglyph_2da9fc55-8f1b-4e37-9298-975c39c5b121_p2" x="22535.81" y="16902.18"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0661ddc3-d6d0-412f-bb3a-da6093cba619"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19652529</p> <p>PMID:19597351</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0661ddc3-d6d0-412f-bb3a-da6093cba619"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19652529"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19597351"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12725.311" y="18165.5"/> <port id="pr_0661ddc3-d6d0-412f-bb3a-da6093cba619_p1" x="12730.311" y="18185.5"/> <port id="pr_0661ddc3-d6d0-412f-bb3a-da6093cba619_p2" x="12730.311" y="18155.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9fb7f092-37e1-4ef1-aa75-9121cdc29b4e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1506.5094" y="17358.293"/> <port id="pr_9fb7f092-37e1-4ef1-aa75-9121cdc29b4e_p1" x="1496.5094" y="17363.293"/> <port id="pr_9fb7f092-37e1-4ef1-aa75-9121cdc29b4e_p2" x="1526.5094" y="17363.293"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ca511591-4b71-469e-ba0d-4aa286c0922f"> <bbox w="10.0" h="10.0" x="12392.943" y="7197.5"/> <port id="pr_ca511591-4b71-469e-ba0d-4aa286c0922f_p1" x="12397.943" y="7187.5"/> <port id="pr_ca511591-4b71-469e-ba0d-4aa286c0922f_p2" x="12397.943" y="7217.5"/> </glyph> <glyph class="process" orientation="vertical" 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id="pr_f497a0f4-2cad-4803-a031-0a5d710d8ba0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Acidification of the endosome is required for transducing the signal. The exact mechanism is unknown except that v-ATPase is involved in the process.</p> <p>PMID:20699474</p> <p>PMID:21380625</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f497a0f4-2cad-4803-a031-0a5d710d8ba0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20699474"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21380625"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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y="3310.0"/> <port id="pr_ddf4353b-b3ec-471c-af2c-1af5705eff0f_p2" x="17170.0" y="3340.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_876c4d16-a21b-4393-b328-62ff78c7719a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2260.6077" y="16715.617"/> <port id="pr_876c4d16-a21b-4393-b328-62ff78c7719a_p1" x="2250.6077" y="16720.617"/> <port id="pr_876c4d16-a21b-4393-b328-62ff78c7719a_p2" x="2280.6077" y="16720.617"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_f45acce8-cea8-4b12-bed5-6ed3382aaf99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> 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id="pr_d8c34d39-2baa-49c3-b4fe-795ade463f87_p1" x="20665.0" y="4609.375"/> <port id="pr_d8c34d39-2baa-49c3-b4fe-795ade463f87_p2" x="20665.0" y="4579.375"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1ee74165-72fa-4aec-b280-86f1a49d873a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3624.5" y="17724.117"/> <port id="pr_1ee74165-72fa-4aec-b280-86f1a49d873a_p1" x="3644.5" y="17729.117"/> <port id="pr_1ee74165-72fa-4aec-b280-86f1a49d873a_p2" x="3614.5" y="17729.117"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d0d236ce-455a-4f47-9659-19f8a7effd7d"> <bbox w="10.0" h="10.0" x="11429.473" y="10603.856"/> <port id="pr_d0d236ce-455a-4f47-9659-19f8a7effd7d_p1" x="11449.473" y="10608.856"/> <port 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xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2e62ae4-0e19-436d-8f12-088c143b0e95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240885"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17940.281" y="20718.5"/> <port id="pr_d2e62ae4-0e19-436d-8f12-088c143b0e95_p1" x="17945.281" y="20738.5"/> <port id="pr_d2e62ae4-0e19-436d-8f12-088c143b0e95_p2" x="17945.281" y="20708.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af5031ee-3f19-458a-9905-0e0f17c7c384"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22039431</p> <p>The Bcl2 family proteins regulate and mediate the mitochondrial outer membrane permeabilization, a crucial event in the mitochondrial pathway of apoptosis in vertebrates.</p> <p>The regulation of apoptosis is governed largely by interactions between the pro-survival and pro-death members of the Bcl2 protein family.</p> <p>Some members of this family (e.g., Bax, Bak, and Bid: pro-apoptotic protines) promote apoptosis, while others such as BCL2, BCL2L1, BCL2L2 (anti-apoptotic protines)work against programmed cell death. </p> <p>The BCL2 family proteins are characterized by regions of specific sequence homology named as BCL2 homology (BH) motifs that number from 1 to 4 and are critical for function. </p> <p>Especially a helical BH3 motif of pro-apoptotic proteins occupy and form strong interactions with hydrophobic groove of anti-apoptotic BCL2 family proteins which leads to the activation of the essential death mediators Bax and Bak, thereby committing cells to apoptosis:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_af5031ee-3f19-458a-9905-0e0f17c7c384"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22039431"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5446.946" y="13740.75"/> <port id="pr_af5031ee-3f19-458a-9905-0e0f17c7c384_p1" x="5451.946" y="13730.75"/> <port id="pr_af5031ee-3f19-458a-9905-0e0f17c7c384_p2" x="5451.946" y="13760.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_52e17aeb-b0c9-4afc-95da-9df2e639bfb7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18268019</p> <p>PMID:17192274</p> <p>PMID:23691193</p> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_52e17aeb-b0c9-4afc-95da-9df2e639bfb7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18268019"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17192274"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23691193"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4655.25" y="10315.25"/> <port id="pr_52e17aeb-b0c9-4afc-95da-9df2e639bfb7_p1" x="4660.25" y="10335.25"/> <port id="pr_52e17aeb-b0c9-4afc-95da-9df2e639bfb7_p2" x="4660.25" y="10305.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15318bb7-c044-44ce-abfb-deefcbc6d18c"> <bbox w="10.0" h="10.0" x="26491.457" y="13201.5"/> <port id="pr_15318bb7-c044-44ce-abfb-deefcbc6d18c_p1" x="26496.457" y="13221.5"/> <port id="pr_15318bb7-c044-44ce-abfb-deefcbc6d18c_p2" x="26496.457" y="13191.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_728daf73-67cc-4ef7-af97-ff9ddfafedbd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3697.2227" y="16360.0"/> <port id="pr_728daf73-67cc-4ef7-af97-ff9ddfafedbd_p1" x="3687.2227" y="16365.0"/> <port id="pr_728daf73-67cc-4ef7-af97-ff9ddfafedbd_p2" x="3717.2227" y="16365.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b35d4ab5-5978-4f40-8a6c-44e25513bea3"> <bbox w="10.0" h="10.0" x="10877.5" y="5541.25"/> <port id="pr_b35d4ab5-5978-4f40-8a6c-44e25513bea3_p1" x="10882.5" y="5561.25"/> <port id="pr_b35d4ab5-5978-4f40-8a6c-44e25513bea3_p2" x="10882.5" y="5531.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4f673e3f-1bae-4633-a545-d099b041afd4"> <bbox w="10.0" h="10.0" x="28766.326" y="16084.0"/> <port id="pr_4f673e3f-1bae-4633-a545-d099b041afd4_p1" x="28771.326" y="16104.0"/> <port id="pr_4f673e3f-1bae-4633-a545-d099b041afd4_p2" x="28771.326" y="16074.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d4977ca6-727b-4135-9e9a-d59fe8cc1f4a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5732.25" y="13767.25"/> <port id="pr_d4977ca6-727b-4135-9e9a-d59fe8cc1f4a_p1" x="5737.25" y="13757.25"/> <port id="pr_d4977ca6-727b-4135-9e9a-d59fe8cc1f4a_p2" x="5737.25" y="13787.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c35d0a54-e2f5-4c91-a180-23e8eda05d45"> <bbox w="10.0" h="10.0" x="23164.852" y="13827.375"/> <port id="pr_c35d0a54-e2f5-4c91-a180-23e8eda05d45_p1" x="23154.852" y="13832.375"/> <port id="pr_c35d0a54-e2f5-4c91-a180-23e8eda05d45_p2" x="23184.852" y="13832.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_835a2a97-ffa5-4dac-b742-60faf04a1ba8"> <bbox w="10.0" h="10.0" x="13636.041" y="2270.4807"/> <port id="pr_835a2a97-ffa5-4dac-b742-60faf04a1ba8_p1" x="13626.041" y="2275.4807"/> <port id="pr_835a2a97-ffa5-4dac-b742-60faf04a1ba8_p2" x="13656.041" y="2275.4807"/> </glyph> <glyph class="process" orientation="vertical" id="pr_42d8fbd4-b9bc-4293-a46a-ae2d8e8aa5e6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3333.5" y="14353.0"/> <port id="pr_42d8fbd4-b9bc-4293-a46a-ae2d8e8aa5e6_p1" x="3338.5" y="14373.0"/> <port id="pr_42d8fbd4-b9bc-4293-a46a-ae2d8e8aa5e6_p2" x="3338.5" y="14343.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_17a7d998-2aa2-453c-ad78-00ad8fa651b8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Phosphorylation of LRP6 by ERKk and simultanious activation by Wnt3 gives a higher activation rate of the canoncical wnt pathway (synergetic effect)</p> <p>PMID:22558232</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_17a7d998-2aa2-453c-ad78-00ad8fa651b8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22558232"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18026.56" y="20466.5"/> <port id="pr_17a7d998-2aa2-453c-ad78-00ad8fa651b8_p1" x="18016.56" y="20471.5"/> <port id="pr_17a7d998-2aa2-453c-ad78-00ad8fa651b8_p2" x="18046.56" y="20471.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d629a94d-4e7f-429f-920f-ad094bd03446"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16169192</p> <p>B-catenin competes with TLE for Lef-1</p> <p>PMID:15768032</p> <p>CBP-and P300-mediated transcription different cell fates</p> <p>PMID:20530697</p> <p>(phosphorylated) C-JUN can bind to TCF4</p> <p>PMID:18347071 PMID:16007074</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d629a94d-4e7f-429f-920f-ad094bd03446"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16169192"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15768032"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20530697"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18347071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16007074"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21803.53" y="21921.875"/> <port id="pr_d629a94d-4e7f-429f-920f-ad094bd03446_p1" x="21823.53" y="21926.875"/> <port id="pr_d629a94d-4e7f-429f-920f-ad094bd03446_p2" x="21793.53" y="21926.875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0929d3be-c009-463c-8018-524e028b0b93"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9242610</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0929d3be-c009-463c-8018-524e028b0b93"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9242610"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24136.06" y="9120.026"/> <port id="pr_0929d3be-c009-463c-8018-524e028b0b93_p1" x="24126.06" y="9125.026"/> <port id="pr_0929d3be-c009-463c-8018-524e028b0b93_p2" x="24156.06" y="9125.026"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_114d3914-e79a-497c-8dde-3e84d80cfda5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3216.0" y="15964.5"/> <port id="pr_114d3914-e79a-497c-8dde-3e84d80cfda5_p1" x="3206.0" y="15969.5"/> <port id="pr_114d3914-e79a-497c-8dde-3e84d80cfda5_p2" x="3236.0" y="15969.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_06390326-2601-494a-8b50-c65642d13b4f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11744734</p> <p>in renal carcinoma 786-0 cells (VHL deficient), in HIF1 KO MEFs</p> <p>PMID:17143338</p> <p>in pancreatic and gastric cancer cell lines (correlation HIF stabilisation and gene expression)</p> <p>PMID:16782875</p> <p>by MLX:MLXIP</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_06390326-2601-494a-8b50-c65642d13b4f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11744734"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143338"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16782875"/> 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id="pr_8c130bae-0dc9-4ff1-9963-d6bb304d91a4"> <bbox w="10.0" h="10.0" x="27514.06" y="14754.0"/> <port id="pr_8c130bae-0dc9-4ff1-9963-d6bb304d91a4_p1" x="27504.06" y="14759.0"/> <port id="pr_8c130bae-0dc9-4ff1-9963-d6bb304d91a4_p2" x="27534.06" y="14759.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_462e0736-c1ba-419e-84cb-ab31b0a1ce10"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17464323</p> <p>Translocation of p57Kip2 to mitochondria occurs within 20 min after staurosporine (apoptotic agent) application. </p> <p>In fact, p57Kip2 primarily promotes the intrinsic apoptotic pathways, favoring Bax activation and loss of mitochondrial transmembrane potential, consequent release of cytochrome-c into cytosol, caspase-9 and caspase-3 activation.</p> <p>In accordance, Bcl2 overexpression is able to inhibit p57Kip2 cell death promoting effect. </p> <p>Thus, in addition to its established function in control of proliferation, these results reveal a mechanism whereby p57Kip2 influences the mitochondrial apoptotic cell death pathway in cancer cells.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_462e0736-c1ba-419e-84cb-ab31b0a1ce10"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17464323"/> </rdf:Bag> </bqbiol:isEncodedBy> 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id="pr_fd8548c3-73de-4003-8925-cddd9df65630"> <bbox w="10.0" h="10.0" x="10453.75" y="624.375"/> <port id="pr_fd8548c3-73de-4003-8925-cddd9df65630_p1" x="10458.75" y="614.375"/> <port id="pr_fd8548c3-73de-4003-8925-cddd9df65630_p2" x="10458.75" y="644.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4ab7161d-cde1-4380-8f2a-256e2c9cadd3"> <bbox w="10.0" h="10.0" x="26441.156" y="13829.596"/> <port id="pr_4ab7161d-cde1-4380-8f2a-256e2c9cadd3_p1" x="26461.156" y="13834.596"/> <port id="pr_4ab7161d-cde1-4380-8f2a-256e2c9cadd3_p2" x="26431.156" y="13834.596"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4df4f54a-4de5-488d-a4e3-f5295eae743a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Among the signalling molecules recruited to phosphorylated LAT is PLCG.</p> <p>Shp-2 (not modelled) contributes to Ras signalling from the Golgi by stimulating the activation of Src family of kinases and in turn their substrate PLCG.</p> <p>PMID:16488589 PMID:17496910</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4df4f54a-4de5-488d-a4e3-f5295eae743a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16488589"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17496910"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> 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xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fdddd044-ab7d-485c-bf14-7053563175b6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19211835"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26804.213" y="21564.25"/> <port id="pr_fdddd044-ab7d-485c-bf14-7053563175b6_p1" x="26809.213" y="21584.25"/> <port id="pr_fdddd044-ab7d-485c-bf14-7053563175b6_p2" x="26809.213" y="21554.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_be6bcdfc-0c7d-41d1-a16e-c47f91b1bf95"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19440036</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_be6bcdfc-0c7d-41d1-a16e-c47f91b1bf95"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440036"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2479.75" y="10317.0"/> <port id="pr_be6bcdfc-0c7d-41d1-a16e-c47f91b1bf95_p1" x="2484.75" y="10337.0"/> <port id="pr_be6bcdfc-0c7d-41d1-a16e-c47f91b1bf95_p2" x="2484.75" y="10307.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d290d1e-2f3b-4a9b-8d7a-a793f6df9b5d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25153.055" y="14005.939"/> <port id="pr_5d290d1e-2f3b-4a9b-8d7a-a793f6df9b5d_p1" x="25158.055" y="14025.939"/> <port id="pr_5d290d1e-2f3b-4a9b-8d7a-a793f6df9b5d_p2" x="25158.055" y="13995.939"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e25b6281-6e2f-4c35-b586-43d6d565c22d"> <bbox w="10.0" h="10.0" x="475.0" y="2820.0"/> <port id="pr_e25b6281-6e2f-4c35-b586-43d6d565c22d_p1" x="480.0" y="2840.0"/> <port id="pr_e25b6281-6e2f-4c35-b586-43d6d565c22d_p2" x="480.0" y="2810.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bfc22e10-4d63-4e6b-b0f6-e6d54f1d6aa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22995644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bfc22e10-4d63-4e6b-b0f6-e6d54f1d6aa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22995644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> 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class="process" orientation="vertical" id="pr_a93f3942-e9af-425e-a69b-0594f1037a3d"> <bbox w="10.0" h="10.0" x="19310.0" y="2465.0"/> <port id="pr_a93f3942-e9af-425e-a69b-0594f1037a3d_p1" x="19315.0" y="2485.0"/> <port id="pr_a93f3942-e9af-425e-a69b-0594f1037a3d_p2" x="19315.0" y="2455.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_289dc568-1fe9-4e34-a83d-67d708194a67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20360384</p> <p>PMID:19996169</p> <p>PMID:18559511</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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orientation="horizontal" id="pr_ca20c03f-0255-478b-8621-77c48fa17504"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.</p> <p>PMID:10391247</p> <p>TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ca20c03f-0255-478b-8621-77c48fa17504"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10391247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4706.0" y="15104.0"/> <port id="pr_ca20c03f-0255-478b-8621-77c48fa17504_p1" x="4696.0" y="15109.0"/> <port id="pr_ca20c03f-0255-478b-8621-77c48fa17504_p2" x="4726.0" y="15109.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_99c17772-5bfa-444c-acef-cbf95bbea595"> <bbox w="10.0" h="10.0" x="2116.268" y="4838.875"/> <port id="pr_99c17772-5bfa-444c-acef-cbf95bbea595_p1" x="2121.268" y="4828.875"/> <port id="pr_99c17772-5bfa-444c-acef-cbf95bbea595_p2" x="2121.268" y="4858.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_97a1bd0b-7a2f-43f8-b677-ca963696aaf2"> <bbox w="10.0" h="10.0" x="11825.625" y="4782.75"/> <port id="pr_97a1bd0b-7a2f-43f8-b677-ca963696aaf2_p1" x="11830.625" y="4772.75"/> <port id="pr_97a1bd0b-7a2f-43f8-b677-ca963696aaf2_p2" x="11830.625" y="4802.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cbc0bab0-506e-4088-a8c5-58f956539736"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:11136230</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cbc0bab0-506e-4088-a8c5-58f956539736"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11136230"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17954.56" y="20806.5"/> <port id="pr_cbc0bab0-506e-4088-a8c5-58f956539736_p1" x="17944.56" y="20811.5"/> <port id="pr_cbc0bab0-506e-4088-a8c5-58f956539736_p2" x="17974.56" y="20811.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_07e4a306-592c-4401-b5e7-46e955fcbada"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex. A direct interaction between P38 and ERK has been proposed as a mechanism to inhibit ERK phosphorylation. AP-1 mediated gene expression inhibits ERK phosphorylation.</p> <p>PMID:18039929</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_07e4a306-592c-4401-b5e7-46e955fcbada"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18039929"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8674.561" y="19991.598"/> <port id="pr_07e4a306-592c-4401-b5e7-46e955fcbada_p1" x="8664.561" y="19996.598"/> <port id="pr_07e4a306-592c-4401-b5e7-46e955fcbada_p2" x="8694.561" y="19996.598"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e6c125d2-88d0-4b54-b45b-8f9ecf01f958"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15082531</p> <p>The activation of MP3K7(TAK1) by TAB1 activates NLK. the TAK1–NLK MAPK pathway regulates Wnt signaling by phosphorylating TCF in mammalian cells. </p> <p>The TAB1 protein is a specific partner of TAK1 and promotes TAK1 autophosphorylation.</p> <p>Coexpression of TAK1 and TAB1 in mammalian cells activate HIPK2, that activate NLK. THe coexpression of NLK and HIPK2 induces the degradation of the c-Myb protein.</p> <p>Degradation of c-Myb protein by Wnt-1 signal via the pathway involving TAK1, HIPK2, and NLK leads to G1 arrest.</p> <p>PMID:10391247</p> <p>TAK1 activation stimulates NLK activity and downregulates transcriptional activation mediated by beta-catenin and TCF.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e6c125d2-88d0-4b54-b45b-8f9ecf01f958"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15082531"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10391247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2724.5" y="15999.25"/> <port id="pr_e6c125d2-88d0-4b54-b45b-8f9ecf01f958_p1" x="2729.5" y="16019.25"/> <port id="pr_e6c125d2-88d0-4b54-b45b-8f9ecf01f958_p2" x="2729.5" y="15989.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_695ac587-d57c-43a1-a0b1-dae2d60fc597"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19136967</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_695ac587-d57c-43a1-a0b1-dae2d60fc597"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19128.61" y="18473.75"/> <port id="pr_695ac587-d57c-43a1-a0b1-dae2d60fc597_p1" x="19133.61" y="18463.75"/> <port id="pr_695ac587-d57c-43a1-a0b1-dae2d60fc597_p2" x="19133.61" y="18493.75"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_ac3b3e4c-82f2-4a82-82c5-03c9dec1da18"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16714285</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ac3b3e4c-82f2-4a82-82c5-03c9dec1da18"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16714285"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21438.186" y="21574.25"/> <port id="pr_ac3b3e4c-82f2-4a82-82c5-03c9dec1da18_p1" x="21443.186" y="21594.25"/> <port id="pr_ac3b3e4c-82f2-4a82-82c5-03c9dec1da18_p2" x="21443.186" y="21564.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_3ab83e40-d93f-4a3c-a78d-d2a292cb59e4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2278.0" y="17090.0"/> <port id="pr_3ab83e40-d93f-4a3c-a78d-d2a292cb59e4_p1" x="2268.0" y="17095.0"/> <port id="pr_3ab83e40-d93f-4a3c-a78d-d2a292cb59e4_p2" x="2298.0" y="17095.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ab4f05b5-3eca-4f36-bc98-8f2f26c74ecd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17143338</p> <p>in pancreatic and gastric cancer cell lines (correlation HIF stabilisation and gene expression)</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ab4f05b5-3eca-4f36-bc98-8f2f26c74ecd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17143338"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22884.328" y="16158.25"/> <port id="pr_ab4f05b5-3eca-4f36-bc98-8f2f26c74ecd_p1" x="22889.328" y="16178.25"/> <port id="pr_ab4f05b5-3eca-4f36-bc98-8f2f26c74ecd_p2" x="22889.328" y="16148.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6eca7bc2-a74a-40c8-aecb-cc72292a85f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21262972</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6eca7bc2-a74a-40c8-aecb-cc72292a85f3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21262972"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16405.31" y="18633.0"/> <port id="pr_6eca7bc2-a74a-40c8-aecb-cc72292a85f3_p1" x="16410.31" y="18623.0"/> <port id="pr_6eca7bc2-a74a-40c8-aecb-cc72292a85f3_p2" x="16410.31" y="18653.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_56c6f696-af68-46b0-a2c0-4aeab4080c06"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_56c6f696-af68-46b0-a2c0-4aeab4080c06"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21031.844" y="22251.25"/> <port id="pr_56c6f696-af68-46b0-a2c0-4aeab4080c06_p1" x="21036.844" y="22271.25"/> <port id="pr_56c6f696-af68-46b0-a2c0-4aeab4080c06_p2" x="21036.844" y="22241.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d4c46755-c40e-4870-b28d-286d90622c30"> <bbox w="10.0" h="10.0" x="20472.46" y="6940.625"/> <port id="pr_d4c46755-c40e-4870-b28d-286d90622c30_p1" x="20477.46" y="6930.625"/> <port id="pr_d4c46755-c40e-4870-b28d-286d90622c30_p2" x="20477.46" y="6960.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4d9372fd-643f-4ec4-a3a3-fdd4a53edff0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24709.06" y="13704.0"/> <port id="pr_4d9372fd-643f-4ec4-a3a3-fdd4a53edff0_p1" x="24714.06" y="13694.0"/> <port id="pr_4d9372fd-643f-4ec4-a3a3-fdd4a53edff0_p2" x="24714.06" y="13724.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da438afe-e819-4c2a-a7b8-474dae7825f7"> <bbox w="10.0" h="10.0" x="26081.96" y="19382.527"/> <port id="pr_da438afe-e819-4c2a-a7b8-474dae7825f7_p1" x="26086.96" y="19402.527"/> <port id="pr_da438afe-e819-4c2a-a7b8-474dae7825f7_p2" x="26086.96" y="19372.527"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a7d557c0-393d-4730-a256-674f17eb14ea"> <bbox w="10.0" h="10.0" x="12552.0" y="3668.65"/> <port id="pr_a7d557c0-393d-4730-a256-674f17eb14ea_p1" x="12542.0" y="3673.65"/> <port id="pr_a7d557c0-393d-4730-a256-674f17eb14ea_p2" x="12572.0" y="3673.65"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_875a1c52-6c0f-4135-81f9-d2899cadc46c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20495383</p> <p>In the absence of SHH; Patched recruits a dral-tucan complex that lead to apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_875a1c52-6c0f-4135-81f9-d2899cadc46c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20495383"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20502.56" y="9149.0"/> <port id="pr_875a1c52-6c0f-4135-81f9-d2899cadc46c_p1" x="20492.56" y="9154.0"/> <port id="pr_875a1c52-6c0f-4135-81f9-d2899cadc46c_p2" x="20522.56" y="9154.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6c459e8d-fc13-451c-83b9-d54c1aeb9195"> <bbox w="10.0" h="10.0" x="8702.308" y="16869.332"/> <port id="pr_6c459e8d-fc13-451c-83b9-d54c1aeb9195_p1" x="8722.308" y="16874.332"/> <port id="pr_6c459e8d-fc13-451c-83b9-d54c1aeb9195_p2" x="8692.308" y="16874.332"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5cb99c53-73b7-4b89-af14-37c660841d8d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>from uniprot</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23529.56" y="9614.25"/> <port id="pr_5cb99c53-73b7-4b89-af14-37c660841d8d_p1" x="23534.56" y="9634.25"/> <port id="pr_5cb99c53-73b7-4b89-af14-37c660841d8d_p2" x="23534.56" y="9604.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f76ce351-6412-4f6a-b629-eae0d9e2daaf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15300255</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f76ce351-6412-4f6a-b629-eae0d9e2daaf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15300255"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25114.06" y="12734.0"/> <port id="pr_f76ce351-6412-4f6a-b629-eae0d9e2daaf_p1" x="25104.06" y="12739.0"/> <port id="pr_f76ce351-6412-4f6a-b629-eae0d9e2daaf_p2" x="25134.06" y="12739.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5db2d56f-f240-4b3f-8a14-99c7d36fa1de"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10411906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5db2d56f-f240-4b3f-8a14-99c7d36fa1de"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10411906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22359.06" y="10414.0"/> <port id="pr_5db2d56f-f240-4b3f-8a14-99c7d36fa1de_p1" x="22379.06" y="10419.0"/> <port id="pr_5db2d56f-f240-4b3f-8a14-99c7d36fa1de_p2" x="22349.06" y="10419.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a483ae6a-f50b-4296-888d-67ebd63ff9ba"> <bbox w="10.0" h="10.0" x="28054.06" y="9399.0"/> <port id="pr_a483ae6a-f50b-4296-888d-67ebd63ff9ba_p1" x="28059.06" y="9389.0"/> <port id="pr_a483ae6a-f50b-4296-888d-67ebd63ff9ba_p2" x="28059.06" y="9419.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_543217f8-7ba4-436e-9152-679431779617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15781261</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_543217f8-7ba4-436e-9152-679431779617"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15781261"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24032.06" y="14017.623"/> <port id="pr_543217f8-7ba4-436e-9152-679431779617_p1" x="24052.06" y="14022.623"/> <port id="pr_543217f8-7ba4-436e-9152-679431779617_p2" x="24022.06" y="14022.623"/> </glyph> <glyph class="process" orientation="vertical" id="pr_231a3e65-703a-4cb5-a6b2-e4666a62858e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20473778</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_231a3e65-703a-4cb5-a6b2-e4666a62858e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20473778"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4422.3936" y="21206.555"/> <port id="pr_231a3e65-703a-4cb5-a6b2-e4666a62858e_p1" x="4427.3936" y="21226.555"/> <port id="pr_231a3e65-703a-4cb5-a6b2-e4666a62858e_p2" x="4427.3936" y="21196.555"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4cda9578-3763-4c11-9075-7ecb49ccffb2"> <bbox w="10.0" h="10.0" x="27621.0" y="8081.875"/> <port id="pr_4cda9578-3763-4c11-9075-7ecb49ccffb2_p1" x="27626.0" y="8101.875"/> <port id="pr_4cda9578-3763-4c11-9075-7ecb49ccffb2_p2" x="27626.0" y="8071.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_425a0ba6-4b8c-464b-b228-b873b921ced3"> <bbox w="10.0" h="10.0" x="4784.5" y="1455.0"/> <port id="pr_425a0ba6-4b8c-464b-b228-b873b921ced3_p1" x="4789.5" y="1445.0"/> <port id="pr_425a0ba6-4b8c-464b-b228-b873b921ced3_p2" x="4789.5" y="1475.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dfe9af92-5df2-4926-a00c-73ae98f88a4d"> <bbox w="10.0" h="10.0" x="23363.625" y="3858.7827"/> <port id="pr_dfe9af92-5df2-4926-a00c-73ae98f88a4d_p1" x="23383.625" y="3863.7827"/> <port id="pr_dfe9af92-5df2-4926-a00c-73ae98f88a4d_p2" x="23353.625" y="3863.7827"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2525d3a4-4ae3-4799-a9eb-effcbd3b30dd"> <bbox w="10.0" h="10.0" x="30006.0" y="4890.0"/> <port id="pr_2525d3a4-4ae3-4799-a9eb-effcbd3b30dd_p1" x="29996.0" y="4895.0"/> <port id="pr_2525d3a4-4ae3-4799-a9eb-effcbd3b30dd_p2" x="30026.0" y="4895.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4e3eff52-24a1-43df-a6d2-83b64dfef7cc"> <bbox w="10.0" h="10.0" x="22990.0" y="5215.0"/> <port id="pr_4e3eff52-24a1-43df-a6d2-83b64dfef7cc_p1" x="22995.0" y="5205.0"/> <port id="pr_4e3eff52-24a1-43df-a6d2-83b64dfef7cc_p2" x="22995.0" y="5235.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_23f0f0fe-b042-4f57-bde9-855f76d04433"> <bbox w="10.0" h="10.0" x="22584.893" y="11756.334"/> <port id="pr_23f0f0fe-b042-4f57-bde9-855f76d04433_p1" x="22604.893" y="11761.334"/> <port id="pr_23f0f0fe-b042-4f57-bde9-855f76d04433_p2" x="22574.893" y="11761.334"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2cf72c7b-50d1-4a51-b666-1a8e4814aace"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16508011</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2cf72c7b-50d1-4a51-b666-1a8e4814aace"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16508011"/> </rdf:Bag> </bqbiol:isEncodedBy> 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<bbox w="10.0" h="10.0" x="26753.06" y="19038.238"/> <port id="pr_c0aac7bb-a430-43a3-89e8-d8c628aedc94_p1" x="26758.06" y="19028.238"/> <port id="pr_c0aac7bb-a430-43a3-89e8-d8c628aedc94_p2" x="26758.06" y="19058.238"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e31530ac-e555-4055-afbb-6acdcf606a8c"> <bbox w="10.0" h="10.0" x="13046.473" y="10119.356"/> <port id="pr_e31530ac-e555-4055-afbb-6acdcf606a8c_p1" x="13036.473" y="10124.356"/> <port id="pr_e31530ac-e555-4055-afbb-6acdcf606a8c_p2" x="13066.473" y="10124.356"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_adfe5bec-1a85-4a05-b628-02cf512765df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18078820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_adfe5bec-1a85-4a05-b628-02cf512765df"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18078820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3524.25" y="9195.75"/> <port id="pr_adfe5bec-1a85-4a05-b628-02cf512765df_p1" x="3514.25" y="9200.75"/> <port id="pr_adfe5bec-1a85-4a05-b628-02cf512765df_p2" x="3544.25" y="9200.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_350814eb-a873-478e-b692-fb31abd33373"> <bbox w="10.0" h="10.0" x="18995.0" y="3055.0"/> <port id="pr_350814eb-a873-478e-b692-fb31abd33373_p1" x="18985.0" y="3060.0"/> <port id="pr_350814eb-a873-478e-b692-fb31abd33373_p2" x="19015.0" y="3060.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_454ab8b0-4b26-4b88-b539-6a399ddf2c27"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5379.625" y="14508.0"/> <port id="pr_454ab8b0-4b26-4b88-b539-6a399ddf2c27_p1" x="5384.625" y="14528.0"/> <port id="pr_454ab8b0-4b26-4b88-b539-6a399ddf2c27_p2" x="5384.625" y="14498.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_584d291e-f5c4-493a-83d0-345a7ca387a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16977332</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_584d291e-f5c4-493a-83d0-345a7ca387a8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16977332"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26805.453" y="21203.25"/> <port id="pr_584d291e-f5c4-493a-83d0-345a7ca387a8_p1" x="26810.453" y="21223.25"/> <port id="pr_584d291e-f5c4-493a-83d0-345a7ca387a8_p2" x="26810.453" y="21193.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_436a4d69-9c16-46e3-836a-c5890707485c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10581160</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_436a4d69-9c16-46e3-836a-c5890707485c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20111.06" y="17950.0"/> <port id="pr_436a4d69-9c16-46e3-836a-c5890707485c_p1" x="20116.06" y="17940.0"/> <port id="pr_436a4d69-9c16-46e3-836a-c5890707485c_p2" x="20116.06" y="17970.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cecdcf94-5dc4-45e5-a61b-aa0d95aada19"> <bbox w="10.0" h="10.0" x="24681.06" y="9494.0"/> <port id="pr_cecdcf94-5dc4-45e5-a61b-aa0d95aada19_p1" x="24671.06" y="9499.0"/> <port id="pr_cecdcf94-5dc4-45e5-a61b-aa0d95aada19_p2" x="24701.06" y="9499.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_74ab2f44-933f-4345-aabe-0146456528f4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1945.5" y="15227.729"/> <port id="pr_74ab2f44-933f-4345-aabe-0146456528f4_p1" x="1965.5" y="15232.729"/> <port id="pr_74ab2f44-933f-4345-aabe-0146456528f4_p2" x="1935.5" y="15232.729"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f880bd1e-c6ba-4ee6-84ca-260106d59569"> <bbox w="10.0" h="10.0" x="25906.326" y="16094.0"/> <port id="pr_f880bd1e-c6ba-4ee6-84ca-260106d59569_p1" x="25911.326" y="16114.0"/> <port id="pr_f880bd1e-c6ba-4ee6-84ca-260106d59569_p2" x="25911.326" y="16084.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7d0eeaa8-6d14-4e45-a0ff-f5a9948ed1db"> <bbox w="10.0" h="10.0" x="7063.0967" y="7820.5"/> <port id="pr_7d0eeaa8-6d14-4e45-a0ff-f5a9948ed1db_p1" x="7068.0967" y="7840.5"/> <port id="pr_7d0eeaa8-6d14-4e45-a0ff-f5a9948ed1db_p2" x="7068.0967" y="7810.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_25fcfbe2-a5f8-4a8f-a294-975d6d903db8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_25fcfbe2-a5f8-4a8f-a294-975d6d903db8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6036.5" y="11241.701"/> <port id="pr_25fcfbe2-a5f8-4a8f-a294-975d6d903db8_p1" x="6026.5" y="11246.701"/> <port id="pr_25fcfbe2-a5f8-4a8f-a294-975d6d903db8_p2" x="6056.5" y="11246.701"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4918d2d5-78c8-4588-9282-1ed13beb720a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18997815</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4918d2d5-78c8-4588-9282-1ed13beb720a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18997815"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25800.31" y="18830.0"/> <port id="pr_4918d2d5-78c8-4588-9282-1ed13beb720a_p1" x="25805.31" y="18820.0"/> <port id="pr_4918d2d5-78c8-4588-9282-1ed13beb720a_p2" x="25805.31" y="18850.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_dcde4589-2e43-439c-9c61-19340981c625"> <bbox w="20.0" h="20.0" x="25930.56" y="18657.75"/> <port id="logicglyph_dcde4589-2e43-439c-9c61-19340981c625_p1" x="25940.56" y="18647.75"/> <port id="logicglyph_dcde4589-2e43-439c-9c61-19340981c625_p2" x="25940.56" y="18687.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_62a6c82d-8de9-49b4-a02d-4cb6e5812890"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19211844</p> <p>FOXO3 mediated inhibition</p> <p>PMID:11714700</p> <p>TP53 mediated inhibition</p> <p>PMID:11965534</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_62a6c82d-8de9-49b4-a02d-4cb6e5812890"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19211844"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11714700"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11965534"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21431.969" y="16163.684"/> <port id="pr_62a6c82d-8de9-49b4-a02d-4cb6e5812890_p1" x="21436.969" y="16183.684"/> <port id="pr_62a6c82d-8de9-49b4-a02d-4cb6e5812890_p2" x="21436.969" y="16153.684"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2d65d547-7c95-4194-91f1-7dc9e01e1e4a"> <bbox w="10.0" h="10.0" x="26195.16" y="2083.75"/> <port id="pr_2d65d547-7c95-4194-91f1-7dc9e01e1e4a_p1" x="26200.16" y="2073.75"/> <port id="pr_2d65d547-7c95-4194-91f1-7dc9e01e1e4a_p2" x="26200.16" y="2103.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7ab530f5-17b9-4790-b563-513aca9454e8"> <bbox w="10.0" h="10.0" x="27928.812" y="3166.0"/> <port id="pr_7ab530f5-17b9-4790-b563-513aca9454e8_p1" x="27948.812" y="3171.0"/> <port id="pr_7ab530f5-17b9-4790-b563-513aca9454e8_p2" x="27918.812" y="3171.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_59efd920-2353-4f53-a63b-e77e89845b4b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:28747251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_59efd920-2353-4f53-a63b-e77e89845b4b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27850.154" y="12979.0"/> <port id="pr_59efd920-2353-4f53-a63b-e77e89845b4b_p1" x="27855.154" y="12999.0"/> <port id="pr_59efd920-2353-4f53-a63b-e77e89845b4b_p2" x="27855.154" y="12969.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5908611-8d68-4339-8018-fb718c86fb29"> <bbox w="10.0" h="10.0" x="1953.6516" y="4776.375"/> <port id="pr_d5908611-8d68-4339-8018-fb718c86fb29_p1" x="1958.6516" y="4766.375"/> <port id="pr_d5908611-8d68-4339-8018-fb718c86fb29_p2" x="1958.6516" y="4796.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ebdc65b-9378-4389-b573-3e3270100ed0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22595524</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0ebdc65b-9378-4389-b573-3e3270100ed0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6208.0" y="11880.5"/> <port id="pr_0ebdc65b-9378-4389-b573-3e3270100ed0_p1" x="6198.0" y="11885.5"/> <port id="pr_0ebdc65b-9378-4389-b573-3e3270100ed0_p2" x="6228.0" y="11885.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_25a84467-c768-4622-8752-43cf8fc4ae08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6431.329" y="18707.447"/> <port id="pr_25a84467-c768-4622-8752-43cf8fc4ae08_p1" x="6436.329" y="18727.447"/> <port id="pr_25a84467-c768-4622-8752-43cf8fc4ae08_p2" x="6436.329" y="18697.447"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cb4c57a6-1537-48a6-8ff9-2b9f323b339e"> <bbox w="10.0" h="10.0" x="3696.979" y="5237.5"/> <port id="pr_cb4c57a6-1537-48a6-8ff9-2b9f323b339e_p1" x="3716.979" y="5242.5"/> <port id="pr_cb4c57a6-1537-48a6-8ff9-2b9f323b339e_p2" x="3686.979" y="5242.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_83dc758b-9475-46d7-9e94-026e604dcafd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18931676, PMID:19686080</p> <p>Link between cell cycle and activation of Fanconi pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_83dc758b-9475-46d7-9e94-026e604dcafd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18931676"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16643.203" y="17028.191"/> <port id="pr_83dc758b-9475-46d7-9e94-026e604dcafd_p1" x="16663.203" y="17033.191"/> <port id="pr_83dc758b-9475-46d7-9e94-026e604dcafd_p2" x="16633.203" y="17033.191"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_d475b5c1-e3c8-419d-880d-5a02e0930004"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="13489.051" y="15585.246"/> <port id="pr_d475b5c1-e3c8-419d-880d-5a02e0930004_p1" x="13479.051" y="15590.246"/> <port id="pr_d475b5c1-e3c8-419d-880d-5a02e0930004_p2" x="13509.051" y="15590.246"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a2b76af2-5d21-4504-9132-030181ce7036"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:11114293</p> <p>Sp1 and Smad proteins form complexes and their synergy plays an important role in mediating TGFB1-induced 2(I) collagen expression in human mesangial cells.</p> <p>Involvement of Sp1 binding in Smad3-mediated TGFB1 induction of COL1A2</p> <p>Sp1 and Smad proteins bind to the COL1A2 promoter</p> <p>TGFB1 increases association between Sp1 and Smad proteins</p> <p>Sp1 and Smad3 cooperate to regulate COL1A2 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a2b76af2-5d21-4504-9132-030181ce7036"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11114293"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5299.25" y="17690.0"/> <port id="pr_a2b76af2-5d21-4504-9132-030181ce7036_p1" x="5304.25" y="17680.0"/> <port id="pr_a2b76af2-5d21-4504-9132-030181ce7036_p2" x="5304.25" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba12ab8f-1ae9-443e-a50b-60cccea41b46"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9822378, PMID:22634377</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ba12ab8f-1ae9-443e-a50b-60cccea41b46"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9822378"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22634377"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3112.81" y="21220.0"/> <port id="pr_ba12ab8f-1ae9-443e-a50b-60cccea41b46_p1" x="3117.81" y="21240.0"/> <port id="pr_ba12ab8f-1ae9-443e-a50b-60cccea41b46_p2" x="3117.81" y="21210.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_5f414be8-19a4-4409-be8c-0c7b2cc1744d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2991.5" y="13622.25"/> <port id="pr_5f414be8-19a4-4409-be8c-0c7b2cc1744d_p1" x="3011.5" y="13627.25"/> <port id="pr_5f414be8-19a4-4409-be8c-0c7b2cc1744d_p2" x="2981.5" y="13627.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d872d7e-0372-4d84-9b9c-dd821edbff79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10508159</p> <p>CASP3 cleavage by cathepsin D as data not shown</p> <p>PMID:12208500</p> <p>sustained activation of AMPK induces Caspase 3 cleavage and so lead to apoptosis triggering</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d872d7e-0372-4d84-9b9c-dd821edbff79"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10508159"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12208500"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24875.035" y="13274.285"/> <port id="pr_0d872d7e-0372-4d84-9b9c-dd821edbff79_p1" x="24865.035" y="13279.285"/> <port id="pr_0d872d7e-0372-4d84-9b9c-dd821edbff79_p2" x="24895.035" y="13279.285"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_07ccf6b8-e0a8-43c7-af30-9e6d10db0323"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21406690</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_07ccf6b8-e0a8-43c7-af30-9e6d10db0323"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16913.86" y="18002.273"/> <port id="pr_07ccf6b8-e0a8-43c7-af30-9e6d10db0323_p1" x="16933.86" y="18007.273"/> <port id="pr_07ccf6b8-e0a8-43c7-af30-9e6d10db0323_p2" x="16903.86" y="18007.273"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e081d1da-c344-4dd7-a238-b76ee73b3c50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2686.75" y="17471.824"/> <port id="pr_e081d1da-c344-4dd7-a238-b76ee73b3c50_p1" x="2706.75" y="17476.824"/> <port id="pr_e081d1da-c344-4dd7-a238-b76ee73b3c50_p2" x="2676.75" y="17476.824"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6f426f2c-0f23-43d4-8a57-40971f3e8bba"> <bbox w="10.0" h="10.0" x="12694.153" y="10417.025"/> <port id="pr_6f426f2c-0f23-43d4-8a57-40971f3e8bba_p1" x="12684.153" y="10422.025"/> <port id="pr_6f426f2c-0f23-43d4-8a57-40971f3e8bba_p2" x="12714.153" y="10422.025"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_40ca18dd-39c1-4f9c-9a0f-a69ca1d17101"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2874.5" y="14848.5"/> <port id="pr_40ca18dd-39c1-4f9c-9a0f-a69ca1d17101_p1" x="2894.5" y="14853.5"/> <port id="pr_40ca18dd-39c1-4f9c-9a0f-a69ca1d17101_p2" x="2864.5" y="14853.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_04083f11-80f5-4e3d-8020-2de914379814"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:11324699</p> <p>PMID:15258919</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_04083f11-80f5-4e3d-8020-2de914379814"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11324699"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15258919"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4499.831" y="6912.5596"/> <port id="pr_04083f11-80f5-4e3d-8020-2de914379814_p1" x="4504.831" y="6932.5596"/> <port id="pr_04083f11-80f5-4e3d-8020-2de914379814_p2" x="4504.831" y="6902.5596"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c2250c0-4dcd-4a24-9927-d112be77c02c"> <bbox w="10.0" h="10.0" x="5954.0" y="5865.2456"/> <port id="pr_7c2250c0-4dcd-4a24-9927-d112be77c02c_p1" x="5944.0" y="5870.2456"/> <port id="pr_7c2250c0-4dcd-4a24-9927-d112be77c02c_p2" x="5974.0" y="5870.2456"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd6cc783-9ec8-40af-b9ec-1e5a6b415650"> <bbox w="10.0" h="10.0" x="2882.7036" y="2968.2676"/> <port id="pr_bd6cc783-9ec8-40af-b9ec-1e5a6b415650_p1" x="2872.7036" y="2973.2676"/> <port id="pr_bd6cc783-9ec8-40af-b9ec-1e5a6b415650_p2" x="2902.7036" y="2973.2676"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af3b8def-364c-4ee9-92b6-82fdf08aade7"> <bbox w="10.0" h="10.0" x="3669.0" y="10800.75"/> <port id="pr_af3b8def-364c-4ee9-92b6-82fdf08aade7_p1" x="3674.0" y="10820.75"/> <port id="pr_af3b8def-364c-4ee9-92b6-82fdf08aade7_p2" x="3674.0" y="10790.75"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_687b0125-d49b-483a-bc95-4182804edb62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1582.3582" y="16622.5"/> <port id="pr_687b0125-d49b-483a-bc95-4182804edb62_p1" x="1602.3582" y="16627.5"/> <port id="pr_687b0125-d49b-483a-bc95-4182804edb62_p2" x="1572.3582" y="16627.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3b304724-fd01-4f25-9e8c-7ea53a22e5b6"> <bbox w="10.0" h="10.0" x="4715.496" y="2721.25"/> <port id="pr_3b304724-fd01-4f25-9e8c-7ea53a22e5b6_p1" x="4720.496" y="2711.25"/> <port id="pr_3b304724-fd01-4f25-9e8c-7ea53a22e5b6_p2" x="4720.496" y="2741.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_09b0b83b-7710-46aa-b845-0b50458ea29f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8929532</p> <p>in vitro RAF1:BCL2 interaction</p> <p>in 293, overexpression of BCL2 induces relocalization of RAF1-GFP to mitochondria</p> <p>in vitro phosphorylation of BAD by RAF1</p> <p>in 293T, over-expression of a mitochondria-targeted version of RAF1 induces phosphorylation of BAD (controls: plasma membrane targeted RAF1, kinase dead mutant)</p> <p>BCL2 over-expression targets RAF1 kinase domain-GFP to mitochondria</p> <p>mitochondria-targeted RAF1 (deleted for Ras binding domain) potentiates BCL2 anti-apoptotic activity in 32D.3 exposed to staurosporine or upon IL-3 withdrawal</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_09b0b83b-7710-46aa-b845-0b50458ea29f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8929532"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23021.56" y="13108.375"/> <port id="pr_09b0b83b-7710-46aa-b845-0b50458ea29f_p1" x="23041.56" y="13113.375"/> <port id="pr_09b0b83b-7710-46aa-b845-0b50458ea29f_p2" x="23011.56" y="13113.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4beb8a7e-7732-45f1-845b-e787bf7f8fa9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4291.8413" y="17690.0"/> <port id="pr_4beb8a7e-7732-45f1-845b-e787bf7f8fa9_p1" x="4296.8413" y="17680.0"/> 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x="23082.06" y="9761.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1a9f16f-d61f-4f05-ad25-b16a0f60f24c"> <bbox w="10.0" h="10.0" x="11279.045" y="7521.25"/> <port id="pr_f1a9f16f-d61f-4f05-ad25-b16a0f60f24c_p1" x="11284.045" y="7511.25"/> <port id="pr_f1a9f16f-d61f-4f05-ad25-b16a0f60f24c_p2" x="11284.045" y="7541.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d51cfe86-28a0-4005-8c3d-bb62d283283b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20028863</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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orientation="vertical" id="pr_b4305913-8ca8-4521-921f-a09f42596cc6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15459715</p> <p>PMID:15448698</p> <p>Dual regulation of Snail by GSK3B-mediated phosphorylation in control of EMT.</p> <p>Snail is highly unstable, with a short half-life about 25 min.</p> <p>GSK-3b binds to and phosphorylates Snail at two consensus motifs to dually regulate the function of this protein.</p> <p>Phosphorylation of the first motif regulates its b-Trcp-mediated ubiquitination, whereas phosphorylation of the second motif controls its subcellular localization.</p> <p>A variant of Snail (Snail-6SA), which abolishes these phosphorylations, is much more stable and resides exclusively in the nucleus to induce EMT</p> <p>Inhibition of GSK-3b results in the upregulation of Snail and downregulation of E-cadherin in vivo</p> <p>Thus, the inhibition of GSK-3b by many extracellular pathways suppresses the phosphorylation of Snail and hence induces the nuclear localization and protein stabilization of Snail, which leads to EMT.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b4305913-8ca8-4521-921f-a09f42596cc6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15459715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> 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xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5b95a338-bff4-4051-a1fb-bc7873445e4f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29556339"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4172.3125" y="11174.25"/> <port id="pr_5b95a338-bff4-4051-a1fb-bc7873445e4f_p1" x="4177.3125" y="11164.25"/> <port id="pr_5b95a338-bff4-4051-a1fb-bc7873445e4f_p2" x="4177.3125" y="11194.25"/> </glyph> <glyph class="process" orientation="vertical" 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x="16171.026" y="1049.5"/> <port id="pr_17402274-dc8d-42b8-b21b-ae60a61e7eff_p1" x="16176.026" y="1039.5"/> <port id="pr_17402274-dc8d-42b8-b21b-ae60a61e7eff_p2" x="16176.026" y="1069.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a40e1def-0773-4e39-9ce1-4a978cf65358"> <bbox w="10.0" h="10.0" x="26939.06" y="9669.0"/> <port id="pr_a40e1def-0773-4e39-9ce1-4a978cf65358_p1" x="26929.06" y="9674.0"/> <port id="pr_a40e1def-0773-4e39-9ce1-4a978cf65358_p2" x="26959.06" y="9674.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ae147759-2a91-4ec6-9868-db4897756990"> <bbox w="10.0" h="10.0" x="4925.75" y="8326.25"/> <port id="pr_ae147759-2a91-4ec6-9868-db4897756990_p1" x="4945.75" y="8331.25"/> <port id="pr_ae147759-2a91-4ec6-9868-db4897756990_p2" x="4915.75" y="8331.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cadedcf2-75f4-4e1b-a6d0-b9f664c3efec"> <bbox w="10.0" h="10.0" x="20731.56" y="15873.625"/> <port id="pr_cadedcf2-75f4-4e1b-a6d0-b9f664c3efec_p1" x="20736.56" y="15893.625"/> <port id="pr_cadedcf2-75f4-4e1b-a6d0-b9f664c3efec_p2" x="20736.56" y="15863.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0d41eb28-f2cd-4ec5-a4e3-85d545f7eb74"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:23140366</p> <p>PMID:17055429</p> <p>p16 and p15 activates the pRB tumor supressor by inhibiting the cyclin dependent kinase CDK4 and CDK6, which promotes proliferation. The inhibition of CDK4 and CDK6 ability to phosphorylate Rb, maintains Rb-family protein in a hypophosphorylated state which promotes G1 cell cycle arrest</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0d41eb28-f2cd-4ec5-a4e3-85d545f7eb74"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23140366"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17055429"/> 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orientation="horizontal" id="pr_adc1fad5-c8ab-4045-a932-976affd81596"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:13130303</p> <p>Keratin-14, 18, 19, Vimentin are putative direct HIF1 target genes</p> <p>http://www.omicsonline.org/1948-5956/JCST-03-035.php</p> <p>Genes induced by HIF-1 in cancer cells include KRT-14, 18, 19, Vimentin, VEGF</p> <p>PMID:9278421</p> <p>HIF1 target genes include TGFB3, VEGF</p> <p>PMID:7768934</p> <p>VEGF is induced by hypoxia in a HIF1-dependent way</p> <p>PMID:11528470</p> <p>Prokinecticin 1 (EG-VEGF) is induced by hypoxia through a potential HIF1-dependent mechanism indicates that this gene is in the same homeostatic cascade as VEGF, Flt1 and erythropoietinPMID:17987801</p> <p>Expression of Twist positively correlated with up-regulation of VEGF and N-cadherin in hepatocellular carcinoma</p> <p>PMID:16716598</p> <p>VEGF transcriptional expression is induced by hypoxia in different cell types under action of y HIF1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_adc1fad5-c8ab-4045-a932-976affd81596"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:13130303"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9278421"/> </rdf:Bag> 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</head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19225151</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_513ac426-9e2a-4ea6-b23d-63d1349f0abf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19225151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13986.373" y="19795.0"/> <port id="pr_513ac426-9e2a-4ea6-b23d-63d1349f0abf_p1" x="13991.373" y="19785.0"/> <port id="pr_513ac426-9e2a-4ea6-b23d-63d1349f0abf_p2" x="13991.373" y="19815.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_009638f9-2a6b-4ec3-aa33-10a5222ea5f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17129768</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_009638f9-2a6b-4ec3-aa33-10a5222ea5f3"> 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<p>PMID:16001073</p> <p>RAC1B increases the cellular level of ROS, causing an upregulation of Snail rexpression and induction of EMT</p> <p>PMID:17563753 </p> <p>Activation of NF-kappaB by Akt upregulates Snail expression and induces epithelium mesenchyme transition.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a425f6eb-930e-45ec-be86-9843b844840c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16001073"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17563753"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3904.0" y="16149.0"/> <port id="pr_a425f6eb-930e-45ec-be86-9843b844840c_p1" x="3894.0" y="16154.0"/> <port id="pr_a425f6eb-930e-45ec-be86-9843b844840c_p2" x="3924.0" y="16154.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ad3c016-6bca-4d01-a9fc-3a4c4d78391b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19930715</p> <p>PMID:26597054</p> <p>PMID:27572739</p> <p>PMID:27510662</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ad3c016-6bca-4d01-a9fc-3a4c4d78391b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27572739"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27510662"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4985.0" y="12343.0"/> <port 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y="8236.0"/> <port id="pr_1fc43918-641e-4150-ac2a-8523138894eb_p2" x="4793.0" y="8236.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_3e5d35c0-3d94-4704-8003-91e0d3b6162a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19809516</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="pr_4589297d-4949-491a-9d08-000c7b8af1f8_p2" x="11993.145" y="9836.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_37cf6f6b-76cf-4ca2-9038-03bbbe1577bb"> <bbox w="10.0" h="10.0" x="23050.0" y="2560.0"/> <port id="pr_37cf6f6b-76cf-4ca2-9038-03bbbe1577bb_p1" x="23055.0" y="2580.0"/> <port id="pr_37cf6f6b-76cf-4ca2-9038-03bbbe1577bb_p2" x="23055.0" y="2550.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a78fe546-d3ee-4a8a-bc41-8879f744d993"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218262</p> <p>PMID:17218252</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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w="10.0" h="10.0" x="14099.0625" y="2208.5227"/> <port id="pr_322e7442-760c-4776-8375-4a2e4bb2e81b_p1" x="14119.0625" y="2213.5227"/> <port id="pr_322e7442-760c-4776-8375-4a2e4bb2e81b_p2" x="14089.0625" y="2213.5227"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e80df734-d81f-489c-ad2f-2dcbda38a53b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11864996</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1711.5" y="12811.0"/> <port id="pr_ad6f69f4-b317-48b0-83f1-2d7a69055d3c_p1" x="1701.5" y="12816.0"/> <port id="pr_ad6f69f4-b317-48b0-83f1-2d7a69055d3c_p2" x="1731.5" y="12816.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1e74fcef-4a18-4bf1-9b11-f02a19493bba"> <bbox w="10.0" h="10.0" x="5158.75" y="4363.75"/> <port id="pr_1e74fcef-4a18-4bf1-9b11-f02a19493bba_p1" x="5178.75" y="4368.75"/> <port id="pr_1e74fcef-4a18-4bf1-9b11-f02a19493bba_p2" x="5148.75" y="4368.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f6f9cfd6-e923-48b4-bb0a-7fed118aae83"> <bbox w="10.0" h="10.0" x="12274.973" y="9903.856"/> <port id="pr_f6f9cfd6-e923-48b4-bb0a-7fed118aae83_p1" x="12264.973" y="9908.856"/> <port 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x="26966.0" y="8153.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e089ed5-5696-4622-8828-2c691b835356"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15121845</p> <p>PMID:18832382</p> <p>PMID:15181457</p> <p>ID proteins can form complexes with TCF3 (E47), and inhibit the process of EMT.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3e089ed5-5696-4622-8828-2c691b835356"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15121845"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18832382"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15181457"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4766.0" y="16586.133"/> <port id="pr_3e089ed5-5696-4622-8828-2c691b835356_p1" x="4771.0" y="16606.133"/> <port id="pr_3e089ed5-5696-4622-8828-2c691b835356_p2" x="4771.0" y="16576.133"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb6e9d5f-a53a-490e-8e2a-e982d6533073"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Glycogen synthase kinase 3 (GSK3) is a target of Akt. This protein kinase is constitutively active in unstimulated cells and phosphorylates many proteins (including glycogen synthase C-MYC and cyclin D) to keep them in inactive states or promote their degradation. Phosphorylation of GSK3 (both alpha and beta isoforms) by Akt turns off the catalytic activity of this enzyme resulting in the activation of pathways that are normally repressed by GSK3.</p> <p>PMID:12040186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fb6e9d5f-a53a-490e-8e2a-e982d6533073"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8202.811" y="20240.625"/> <port id="pr_fb6e9d5f-a53a-490e-8e2a-e982d6533073_p1" x="8207.811" y="20230.625"/> <port id="pr_fb6e9d5f-a53a-490e-8e2a-e982d6533073_p2" x="8207.811" y="20260.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_381f6d10-f00f-4817-8108-9382d04f0693"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2416.478" y="18401.625"/> <port id="pr_381f6d10-f00f-4817-8108-9382d04f0693_p1" x="2421.478" y="18421.625"/> <port id="pr_381f6d10-f00f-4817-8108-9382d04f0693_p2" x="2421.478" y="18391.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_46fcf661-f6c7-442b-80ec-9a3c4411c07a"> <bbox w="10.0" h="10.0" x="19670.0" y="7615.0"/> <port id="pr_46fcf661-f6c7-442b-80ec-9a3c4411c07a_p1" x="19675.0" 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<p>PMID:16944320</p> <p>The enzymatic activity of GSK3 is enhanced by phosphorylation of tyrosine-216 in GSK3b</p> <p>GSK3 is considered to be largely a cytosolic enzyme, but it is also associated with, or internalized in, subcellular compartments such as the nucleus, mitochondria, and growth cones</p> <p>PMID:9832503</p> <p>GSK3 is predominatly cytoplasmic during G1 phase of the celle cycle, but a significant fraction enters the nucleus during S phase, promoting its ability to phosphorylate cyclin D1 in the nucleus</p> <p>Phosphorylation of cyclin D1 on a single threonine residue near the carboxyl terminus (Thr-286) positively regulates proteasomal degradation of D1</p> <p>GSK3 phosphorylates cyclin D1 specifically on Thr-286, thereby triggering rapid cyclin D1 turnover.</p> <p>PMID:14663202</p> <p>GSK3B is highly activated in nuclei and mitochondria.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19732719</p> <p>Inhibition of TGF-ß signaling in vivo increases CD11b+ cell cytotoxicity via an oxygen radical-dependent mechanism (superoxide  and H2O2 production) in neutrophils</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_93594f49-ed0f-41e8-9710-9cd04e6d084c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19732719"/> </rdf:Bag> 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id="logicglyph_4acaa020-5370-4ed2-9ee7-3a9fc6ada9f2"> <bbox w="20.0" h="20.0" x="21618.076" y="15741.332"/> <port id="logicglyph_4acaa020-5370-4ed2-9ee7-3a9fc6ada9f2_p1" x="21608.076" y="15751.332"/> <port id="logicglyph_4acaa020-5370-4ed2-9ee7-3a9fc6ada9f2_p2" x="21648.076" y="15751.332"/> </glyph> <glyph class="process" orientation="vertical" id="pr_73b79c50-8709-47e7-b96d-6aa4912f3813"> <bbox w="10.0" h="10.0" x="2188.8235" y="3452.5"/> <port id="pr_73b79c50-8709-47e7-b96d-6aa4912f3813_p1" x="2193.8235" y="3442.5"/> <port id="pr_73b79c50-8709-47e7-b96d-6aa4912f3813_p2" x="2193.8235" y="3472.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69e3bf89-5b8d-4717-b2ef-fe84e6b392ef"> <bbox w="10.0" h="10.0" x="11235.0" y="3461.0024"/> <port id="pr_69e3bf89-5b8d-4717-b2ef-fe84e6b392ef_p1" x="11240.0" y="3451.0024"/> <port id="pr_69e3bf89-5b8d-4717-b2ef-fe84e6b392ef_p2" x="11240.0" y="3481.0024"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d0a355b-7aed-4893-ada0-8677fcc6aac6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16728594</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1d0a355b-7aed-4893-ada0-8677fcc6aac6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16728594"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21591.121" y="16163.184"/> <port id="pr_1d0a355b-7aed-4893-ada0-8677fcc6aac6_p1" x="21596.121" y="16183.184"/> <port id="pr_1d0a355b-7aed-4893-ada0-8677fcc6aac6_p2" x="21596.121" y="16153.184"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cd2ad663-6938-4dbc-8b1f-0570fed036c1"> <bbox w="10.0" h="10.0" x="9655.0" y="2531.25"/> <port id="pr_cd2ad663-6938-4dbc-8b1f-0570fed036c1_p1" x="9660.0" y="2551.25"/> <port id="pr_cd2ad663-6938-4dbc-8b1f-0570fed036c1_p2" x="9660.0" y="2521.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1ffc07a6-25e3-4b35-9002-635c2784ec63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20744.06" y="12179.0"/> <port id="pr_1ffc07a6-25e3-4b35-9002-635c2784ec63_p1" x="20749.06" y="12169.0"/> <port id="pr_1ffc07a6-25e3-4b35-9002-635c2784ec63_p2" x="20749.06" y="12199.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_117d055b-10ea-4227-832a-eaa0752e2a6c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12389032</p> <p>in IMR90 and MEFs, active E2F1 induces CASP9 transcription</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_117d055b-10ea-4227-832a-eaa0752e2a6c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12389032"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22582.527" y="16160.25"/> <port id="pr_117d055b-10ea-4227-832a-eaa0752e2a6c_p1" x="22587.527" y="16180.25"/> <port id="pr_117d055b-10ea-4227-832a-eaa0752e2a6c_p2" x="22587.527" y="16150.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bc3a2736-4dde-4bc2-9ae7-e6be4f4737ff"> <bbox w="10.0" h="10.0" x="26701.0" y="5370.0"/> <port id="pr_bc3a2736-4dde-4bc2-9ae7-e6be4f4737ff_p1" x="26706.0" y="5360.0"/> <port id="pr_bc3a2736-4dde-4bc2-9ae7-e6be4f4737ff_p2" x="26706.0" y="5390.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3529902f-3b36-47db-a944-2565c3ebbbb7"> <bbox w="10.0" h="10.0" x="27036.25" y="15245.25"/> <port id="pr_3529902f-3b36-47db-a944-2565c3ebbbb7_p1" x="27041.25" y="15265.25"/> <port id="pr_3529902f-3b36-47db-a944-2565c3ebbbb7_p2" x="27041.25" y="15235.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_04617725-2670-4b06-a526-c149d2902c7c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>CHOP/GADD153 (DDIT3) mediates in part cell cycle arrest at G1/S an important consequence of DNA damage. It is phosphorylated by P38.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_04617725-2670-4b06-a526-c149d2902c7c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10212.075" y="20833.773"/> <port id="pr_04617725-2670-4b06-a526-c149d2902c7c_p1" x="10217.075" y="20823.773"/> <port id="pr_04617725-2670-4b06-a526-c149d2902c7c_p2" x="10217.075" y="20853.773"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c5782993-66ea-45ef-ae68-604873608df2"> <bbox w="10.0" h="10.0" x="8935.0" y="4810.828"/> <port id="pr_c5782993-66ea-45ef-ae68-604873608df2_p1" x="8940.0" y="4830.828"/> <port id="pr_c5782993-66ea-45ef-ae68-604873608df2_p2" x="8940.0" y="4800.828"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0a06f0ca-63f8-402a-9071-352e3b936475"> <bbox w="10.0" h="10.0" x="23835.998" y="10432.219"/> <port id="pr_0a06f0ca-63f8-402a-9071-352e3b936475_p1" x="23855.998" y="10437.219"/> <port id="pr_0a06f0ca-63f8-402a-9071-352e3b936475_p2" x="23825.998" y="10437.219"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_32653bf8-fb21-463d-b67a-06148ef22a85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5496.0" y="14587.5"/> <port id="pr_32653bf8-fb21-463d-b67a-06148ef22a85_p1" x="5501.0" y="14577.5"/> <port id="pr_32653bf8-fb21-463d-b67a-06148ef22a85_p2" x="5501.0" y="14607.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c3a955c4-f97c-41e3-912f-f68709e6b555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12404124</p> <p>NO was found to be mediated through stimulation of guanylate cyclase and to require activation of protein kinase G</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c3a955c4-f97c-41e3-912f-f68709e6b555"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12404124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19824.06" y="10529.0"/> <port id="pr_c3a955c4-f97c-41e3-912f-f68709e6b555_p1" x="19829.06" y="10549.0"/> <port id="pr_c3a955c4-f97c-41e3-912f-f68709e6b555_p2" x="19829.06" y="10519.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_446b3da1-be9e-4aec-b3e1-f56f4bfc2455"> <bbox w="10.0" h="10.0" x="13397.5" y="4651.875"/> <port id="pr_446b3da1-be9e-4aec-b3e1-f56f4bfc2455_p1" x="13387.5" y="4656.875"/> <port id="pr_446b3da1-be9e-4aec-b3e1-f56f4bfc2455_p2" x="13417.5" y="4656.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b6093340-4611-4eb5-90a4-86abc930ac6d"> <bbox w="10.0" h="10.0" x="21896.953" y="10491.75"/> <port id="pr_b6093340-4611-4eb5-90a4-86abc930ac6d_p1" x="21901.953" y="10481.75"/> <port id="pr_b6093340-4611-4eb5-90a4-86abc930ac6d_p2" x="21901.953" y="10511.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c2fda8ad-998e-42a7-82f4-59e286904c9f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23589069</p> <p>PMID:22131018</p> <p>PMID:29556339</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c2fda8ad-998e-42a7-82f4-59e286904c9f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23589069"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22131018"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29556339"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4807.5" y="12440.5"/> <port id="pr_c2fda8ad-998e-42a7-82f4-59e286904c9f_p1" x="4812.5" y="12430.5"/> <port id="pr_c2fda8ad-998e-42a7-82f4-59e286904c9f_p2" x="4812.5" y="12460.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f191149d-a4dd-4f84-8dde-6426a784eb13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23268.215" y="9363.368"/> <port id="pr_f191149d-a4dd-4f84-8dde-6426a784eb13_p1" x="23273.215" y="9353.368"/> <port id="pr_f191149d-a4dd-4f84-8dde-6426a784eb13_p2" x="23273.215" y="9383.368"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e0612dcf-f366-4b3c-9d97-49d9392f93ce"> <bbox w="10.0" h="10.0" x="28485.848" y="14681.5"/> <port id="pr_e0612dcf-f366-4b3c-9d97-49d9392f93ce_p1" x="28505.848" y="14686.5"/> <port id="pr_e0612dcf-f366-4b3c-9d97-49d9392f93ce_p2" x="28475.848" y="14686.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_7b6da3dc-f82c-4e31-b197-e48bb9fde341"> <bbox w="10.0" h="10.0" x="6127.0" y="7218.125"/> <port id="pr_7b6da3dc-f82c-4e31-b197-e48bb9fde341_p1" x="6132.0" y="7208.125"/> <port id="pr_7b6da3dc-f82c-4e31-b197-e48bb9fde341_p2" x="6132.0" y="7238.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6e61e35c-0476-476b-a6e3-7b7a1b1bfc29"> <bbox w="10.0" h="10.0" x="18153.125" y="3265.0"/> <port id="pr_6e61e35c-0476-476b-a6e3-7b7a1b1bfc29_p1" x="18173.125" y="3270.0"/> <port id="pr_6e61e35c-0476-476b-a6e3-7b7a1b1bfc29_p2" x="18143.125" y="3270.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c441320b-13b2-4f85-bb1d-f6fc55b25c19"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18570873</p> <p>PMID:18636226</p> <p>p27 is phosphorylated by Akt RSK1 and RSK2 in early G1 phase</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c441320b-13b2-4f85-bb1d-f6fc55b25c19"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18570873"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18636226"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13056.061" y="18448.807"/> <port id="pr_c441320b-13b2-4f85-bb1d-f6fc55b25c19_p1" x="13061.061" y="18438.807"/> <port id="pr_c441320b-13b2-4f85-bb1d-f6fc55b25c19_p2" x="13061.061" y="18468.807"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b8fdac8-5ed7-409d-a75a-5409911a8947"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22421439</p> <p>PMID:28645028</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0b8fdac8-5ed7-409d-a75a-5409911a8947"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22421439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28645028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28927.594" y="12384.083"/> <port id="pr_0b8fdac8-5ed7-409d-a75a-5409911a8947_p1" x="28917.594" y="12389.083"/> <port id="pr_0b8fdac8-5ed7-409d-a75a-5409911a8947_p2" x="28947.594" y="12389.083"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_30f12d8f-7d2b-4b6c-920b-747be8d8f635"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5211.65" y="18041.5"/> <port id="pr_30f12d8f-7d2b-4b6c-920b-747be8d8f635_p1" x="5231.65" y="18046.5"/> <port id="pr_30f12d8f-7d2b-4b6c-920b-747be8d8f635_p2" x="5201.65" y="18046.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_34a7b318-f923-4fef-9863-9b534dbfdb50"> <bbox w="10.0" h="10.0" x="12275.961" y="10426.516"/> <port id="pr_34a7b318-f923-4fef-9863-9b534dbfdb50_p1" x="12280.961" y="10446.516"/> <port id="pr_34a7b318-f923-4fef-9863-9b534dbfdb50_p2" x="12280.961" y="10416.516"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e10fc73d-ea5c-4167-9a5b-4006fc99e7ce"> <bbox w="10.0" h="10.0" x="27941.0" y="3805.0"/> <port id="pr_e10fc73d-ea5c-4167-9a5b-4006fc99e7ce_p1" x="27946.0" y="3795.0"/> <port id="pr_e10fc73d-ea5c-4167-9a5b-4006fc99e7ce_p2" x="27946.0" y="3825.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b4aee91f-6de8-4b76-b482-0e50a091f47f"> <bbox w="10.0" h="10.0" x="3310.625" y="2701.25"/> <port id="pr_b4aee91f-6de8-4b76-b482-0e50a091f47f_p1" x="3330.625" y="2706.25"/> <port id="pr_b4aee91f-6de8-4b76-b482-0e50a091f47f_p2" x="3300.625" y="2706.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_361cc19e-0971-415f-b9eb-bcc43dfdce79"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3139.8809" y="18119.361"/> <port id="pr_361cc19e-0971-415f-b9eb-bcc43dfdce79_p1" x="3159.8809" y="18124.361"/> <port id="pr_361cc19e-0971-415f-b9eb-bcc43dfdce79_p2" x="3129.8809" y="18124.361"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a88f2d34-aac2-42d4-ae42-9da63c6e5ad9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Studies have suggested that cadherin endocytosis may occur through both caveolin-mediated and macropinocytosis-like pathways. Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin</p> <p>Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin </p> <p>In contrast, Bryant and colleagues characterized the EGF-induced internalization of E-cadherin in a breast carcinoma cell line, in which E-cadherin was internalized along with the cadherin-binding proteins p120 and β-catenin, as Rac1-modulated macropinocytosis</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8e6ea598-5168-4ee3-a0c4-687e5c331157"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22615860"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7762.713" y="16044.486"/> <port id="pr_8e6ea598-5168-4ee3-a0c4-687e5c331157_p1" x="7752.713" y="16049.486"/> <port id="pr_8e6ea598-5168-4ee3-a0c4-687e5c331157_p2" x="7782.713" y="16049.486"/> </glyph> <glyph class="process" orientation="vertical" id="pr_81512768-76d2-4c82-8541-6ef18ee16be0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MSK1 and MSK2 are potently activated (by phosphorylation) in vivo by ERK1/2 and P38 but not JNK. They are localised in the nucleus of quiescent and activated cells which suggest that they may preferentially phosphorylate nuclear substrates.</p> <p>PMID:15187187</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_81512768-76d2-4c82-8541-6ef18ee16be0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15187187"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7958.6436" y="20442.332"/> <port id="pr_81512768-76d2-4c82-8541-6ef18ee16be0_p1" x="7963.6436" y="20432.332"/> <port id="pr_81512768-76d2-4c82-8541-6ef18ee16be0_p2" x="7963.6436" y="20462.332"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1ac13455-af8a-47b7-b26d-e238ec4bd5a3"> <bbox w="10.0" h="10.0" x="29483.5" y="5885.0"/> <port id="pr_1ac13455-af8a-47b7-b26d-e238ec4bd5a3_p1" x="29488.5" y="5875.0"/> <port id="pr_1ac13455-af8a-47b7-b26d-e238ec4bd5a3_p2" x="29488.5" y="5905.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_42d15cc5-a2c0-46a2-8d96-b767571379b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23989302</p> <p>PMID:19152186</p> <p>PMID:24403062</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_42d15cc5-a2c0-46a2-8d96-b767571379b0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23989302"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19152186"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24403062"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6279.5" y="11353.0"/> <port id="pr_42d15cc5-a2c0-46a2-8d96-b767571379b0_p1" x="6269.5" y="11358.0"/> <port id="pr_42d15cc5-a2c0-46a2-8d96-b767571379b0_p2" x="6299.5" y="11358.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c4199e51-63ce-4161-8538-b2af755a9bab"> <bbox w="10.0" h="10.0" x="16955.0" y="7875.0"/> <port id="pr_c4199e51-63ce-4161-8538-b2af755a9bab_p1" x="16960.0" y="7865.0"/> <port id="pr_c4199e51-63ce-4161-8538-b2af755a9bab_p2" x="16960.0" y="7895.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2c27e967-2f0b-4507-b442-54a0faeade5b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5421.75" y="16764.0"/> <port id="pr_2c27e967-2f0b-4507-b442-54a0faeade5b_p1" x="5441.75" y="16769.0"/> <port id="pr_2c27e967-2f0b-4507-b442-54a0faeade5b_p2" x="5411.75" y="16769.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3a73a042-319d-4fab-ab7f-6154bffc9532"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3382.5" y="15703.5"/> <port id="pr_3a73a042-319d-4fab-ab7f-6154bffc9532_p1" x="3372.5" y="15708.5"/> <port id="pr_3a73a042-319d-4fab-ab7f-6154bffc9532_p2" x="3402.5" y="15708.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_34899170-e403-4156-bb26-dd814b26dd64"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TGF-?? exerts its biological effects by binding to a cell surface receptor complex composed of type I (TbRI) and type II (TbRII) receptor serine/threonine kinases. Upon ligand binding TbRII phosphorylates and activates TbRI which subsequently phosphorylates the cytoplasmic Smad2 and Smad3 proteins. Phosphorylated Smad proteins form stable complexes with a common partner Smad4. The activated Smad2/4 and Smad3/4 complexes translocate into the nucleus where the Smad oligomers induce transcriptional activation (or inhibition) of specific target genes.</p> <p>PMID:21614932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_34899170-e403-4156-bb26-dd814b26dd64"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11568.061" y="20309.0"/> <port id="pr_34899170-e403-4156-bb26-dd814b26dd64_p1" x="11573.061" y="20299.0"/> <port id="pr_34899170-e403-4156-bb26-dd814b26dd64_p2" x="11573.061" y="20329.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e8a6ad7-2101-4fe9-b064-a3d0539b9d9b"> <bbox w="10.0" h="10.0" x="30631.0" y="2555.0"/> <port id="pr_3e8a6ad7-2101-4fe9-b064-a3d0539b9d9b_p1" x="30636.0" y="2545.0"/> <port id="pr_3e8a6ad7-2101-4fe9-b064-a3d0539b9d9b_p2" x="30636.0" y="2575.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_b9f6e5af-32cc-476c-b2be-5865dbd55a70"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9287351</p> <p>ERM family (ezrin/radixin/moesin)</p> <p>Direct interaction of the ARHGDI family with ERM family initiates the activation of the Rho small G protein.</p> <p>PMID:10047517</p> <p>Regulation of cortical structure by the ERM protein family.</p> <p>PMID:12045227</p> <p>Rho-dependent and -independent activation mechanisms of ERM proteins: an essential role for polyphosphoinositides in vivo.</p> <p>ERM proteins crosslink actin filaments to plasma membranes and are involved in the organization of the cortical cytoskeleton, especially in the formation of microvilli.</p> <p>ERM proteins are reported to be activated as crosslinkers in a Rho-dependent manner and are stabilized when phosphorylated at their C-terminal threonine residue to create C-terminal threonine- phosphorylated ERM proteins</p> <p>However, ERM proteins appear to be activated in the absence of Rho activation and remain active without C-terminal phosphorylation. </p> <p>Phosphatidylinositol (4,5)-bisphosphate (PtdIns(4,5)P2) affected the activation of ERM proteins regardless of cell type.</p> <p>The Rho-independent activation mechanism of ERM proteins therefore exists.</p> <p>Both Rho-dependent and -independent activation of ERM proteins require a local elevation of PtdIns(4,5)P2 concentration in vivo.</p> <p>PMID:7579708</p> <p>Cell extracts contain ezrin dimers and ezrin-moesin heterodimers in addition to monomers.</p> <p>Dimerization in vivo requires an activation step that exposes this masked domain.</p> <p>The conformationally inaccessible C-terminal region included the F-actin binding site, suggesting that this activity is likewise regulated by masking.</p> <p>PMID:8527459</p> <p>Ezrin, a membrane-microfilament linking protein, exists largely as a monomeric protein in solution.</p> <p>Purified ezrin monomers normally have a masked C-terminal domain (termed a C-ERMAD) that, upon exposure, can associate with an N-terminal domain (termed N-ERMAD) of another ezrin molecule.</p> <p>Purified ezrin dimers also have masked C-ERMADs.</p> <p>Since radixin and moesin, the two other members of the closely related ERM protein family, both contain N- and C-ERMADs, the results we have documented and models proposed for ezrin are likely to apply to radixin and moesin as well</p> <p>PMID:12802084</p> <p>ERM proteins exist in the cytoplasm as dormant monomers in which the F-actin cytoskeleton and the plasma membrane binding sites are masked. </p> <p>This closed conformation is due to an intramolecular N- to C-ERM association domain (ERMAD) interaction.</p> <p>Abrogation of the N and C-ERMAD interaction is required to open up the molecules and to expose their cryptic binding sites</p> <p>2 factors have been implicated in the activation of ERM proteins:</p> <p>-The binding to phosphatidylinositol 4,5-biphosphate is required for their interaction with actin in vitro and with membrane proteins in vivo</p> <p>-Phosphorylation of a conserved threonine residue in the C-ERMAD, T567, inhibits the N and C-ERMAD interaction in vitro and in vivo, converts inactive oligomers to active monomers</p> <p>PMID:8522586</p> <p>PMID:10970850</p> <p>Phosphorylation of ezrin by the Rho kinase ROCK is required for Rho-induced focal adhesion assembly.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b9f6e5af-32cc-476c-b2be-5865dbd55a70"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9287351"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10047517"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12045227"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7579708"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8527459"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12802084"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8522586"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10970850"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5715.3" y="14454.7"/> <port id="pr_b9f6e5af-32cc-476c-b2be-5865dbd55a70_p1" x="5735.3" y="14459.7"/> <port id="pr_b9f6e5af-32cc-476c-b2be-5865dbd55a70_p2" x="5705.3" y="14459.7"/> </glyph> <glyph class="process" orientation="vertical" id="pr_74a5840a-49ab-4121-a7c0-b8245feabee4"> <bbox w="10.0" h="10.0" x="27154.34" y="21537.75"/> <port id="pr_74a5840a-49ab-4121-a7c0-b8245feabee4_p1" x="27159.34" y="21557.75"/> <port id="pr_74a5840a-49ab-4121-a7c0-b8245feabee4_p2" x="27159.34" y="21527.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_41e3cebb-dd8d-4c80-9eab-07c39af82a49"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:16371461</p> <p>PMID:16651270</p> <p>Gli3 ubi by bTrCP1</p> <p>PMID:18813803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_41e3cebb-dd8d-4c80-9eab-07c39af82a49"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16371461"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16651270"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18813803"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26753.06" y="18866.5"/> <port id="pr_41e3cebb-dd8d-4c80-9eab-07c39af82a49_p1" x="26758.06" y="18856.5"/> <port id="pr_41e3cebb-dd8d-4c80-9eab-07c39af82a49_p2" x="26758.06" y="18886.5"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_9e498f2e-509d-412b-9b5c-6fbe6632c276"> <bbox w="20.0" h="20.0" x="26597.56" y="18767.25"/> <port id="logicglyph_9e498f2e-509d-412b-9b5c-6fbe6632c276_p1" x="26587.56" y="18777.25"/> <port id="logicglyph_9e498f2e-509d-412b-9b5c-6fbe6632c276_p2" x="26627.56" y="18777.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1c9e5d8a-4320-4aed-97fa-7afd21a5ffcd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19581346</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1c9e5d8a-4320-4aed-97fa-7afd21a5ffcd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19581346"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26805.318" y="21078.75"/> <port id="pr_1c9e5d8a-4320-4aed-97fa-7afd21a5ffcd_p1" x="26810.318" y="21098.75"/> <port id="pr_1c9e5d8a-4320-4aed-97fa-7afd21a5ffcd_p2" x="26810.318" y="21068.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b7058251-664a-497f-af3d-2e8e684d8fca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>LEF1 has been identified to be involved in transcription of the MIR371-373 cluster. Only unknown if either P300 or CTBP is involved.</p> <p>PMID:22020335</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b7058251-664a-497f-af3d-2e8e684d8fca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22020335"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20903.31" y="22591.0"/> <port id="pr_b7058251-664a-497f-af3d-2e8e684d8fca_p1" x="20893.31" y="22596.0"/> <port id="pr_b7058251-664a-497f-af3d-2e8e684d8fca_p2" x="20923.31" y="22596.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_18f59b46-fbd8-4c80-82bc-a08025b394e7"> <bbox w="10.0" h="10.0" x="9152.643" y="16566.547"/> <port id="pr_18f59b46-fbd8-4c80-82bc-a08025b394e7_p1" x="9157.643" y="16556.547"/> <port id="pr_18f59b46-fbd8-4c80-82bc-a08025b394e7_p2" x="9157.643" y="16586.547"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9512bda1-2eac-45bf-9398-6c8d63789e5a"> <bbox w="10.0" h="10.0" x="23660.0" y="3640.0"/> <port id="pr_9512bda1-2eac-45bf-9398-6c8d63789e5a_p1" x="23665.0" y="3660.0"/> <port id="pr_9512bda1-2eac-45bf-9398-6c8d63789e5a_p2" x="23665.0" y="3630.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_509e8129-6084-469d-a9e0-9a3ab0929d60"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12931191</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_509e8129-6084-469d-a9e0-9a3ab0929d60"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12931191"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21869.06" y="12894.0"/> <port id="pr_509e8129-6084-469d-a9e0-9a3ab0929d60_p1" x="21889.06" y="12899.0"/> <port id="pr_509e8129-6084-469d-a9e0-9a3ab0929d60_p2" x="21859.06" y="12899.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e70de2c4-e9ed-4e5e-ad0d-38687d448d54"> <bbox w="10.0" h="10.0" x="2880.9492" y="2401.25"/> <port id="pr_e70de2c4-e9ed-4e5e-ad0d-38687d448d54_p1" x="2885.9492" y="2391.25"/> <port id="pr_e70de2c4-e9ed-4e5e-ad0d-38687d448d54_p2" x="2885.9492" y="2421.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5ac37850-aaca-4df4-9f41-3722059f955e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17968323</p> <p>PMID:17991735</p> <p>PMID:18372920</p> <p>PMID:23070007</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5ac37850-aaca-4df4-9f41-3722059f955e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17968323"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17991735"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372920"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23070007"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24785.25" y="14224.594"/> <port id="pr_5ac37850-aaca-4df4-9f41-3722059f955e_p1" x="24775.25" y="14229.594"/> <port id="pr_5ac37850-aaca-4df4-9f41-3722059f955e_p2" x="24805.25" y="14229.594"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97090f56-c29f-4d0f-9585-6b727fbfae27"> <bbox w="10.0" h="10.0" x="16845.75" y="1456.1035"/> <port id="pr_97090f56-c29f-4d0f-9585-6b727fbfae27_p1" x="16835.75" y="1461.1035"/> <port id="pr_97090f56-c29f-4d0f-9585-6b727fbfae27_p2" x="16865.75" y="1461.1035"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_381069a8-a438-4f50-8ead-513a2297fe38"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:15520176 PMID:14555646</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_381069a8-a438-4f50-8ead-513a2297fe38"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15520176"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14555646"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21490.0"/> <port id="pr_381069a8-a438-4f50-8ead-513a2297fe38_p1" x="26547.56" y="21495.0"/> <port id="pr_381069a8-a438-4f50-8ead-513a2297fe38_p2" x="26577.56" y="21495.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_12d35195-f594-419c-80da-c0982add472b"> <bbox w="10.0" h="10.0" x="12236.315" y="9486.508"/> <port id="pr_12d35195-f594-419c-80da-c0982add472b_p1" x="12241.315" y="9476.508"/> <port id="pr_12d35195-f594-419c-80da-c0982add472b_p2" x="12241.315" y="9506.508"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b6ac6357-d09a-45f9-9cba-b703ac7ad1fa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:25234227</p> <p>Upon recruitment, NDPK promotes endocytic vesicle fission and downstream inactivation of Rac1</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b6ac6357-d09a-45f9-9cba-b703ac7ad1fa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25234227"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6334.5" y="14439.0"/> <port id="pr_b6ac6357-d09a-45f9-9cba-b703ac7ad1fa_p1" x="6339.5" y="14459.0"/> <port id="pr_b6ac6357-d09a-45f9-9cba-b703ac7ad1fa_p2" x="6339.5" y="14429.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ca99136-bb38-4e44-856d-b0f990698d89"> <bbox w="10.0" h="10.0" x="886.89185" y="3926.75"/> <port id="pr_2ca99136-bb38-4e44-856d-b0f990698d89_p1" x="891.89185" y="3916.75"/> <port id="pr_2ca99136-bb38-4e44-856d-b0f990698d89_p2" x="891.89185" y="3946.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_32dc4736-5bfe-42b8-8259-f9574b215103"> <bbox w="10.0" h="10.0" x="18981.277" y="11331.398"/> <port id="pr_32dc4736-5bfe-42b8-8259-f9574b215103_p1" x="19001.277" y="11336.398"/> <port id="pr_32dc4736-5bfe-42b8-8259-f9574b215103_p2" x="18971.277" y="11336.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ca5443ee-682f-42ad-8f3f-96b26a0a113d"> <bbox w="10.0" h="10.0" x="13665.0" y="2990.0"/> <port id="pr_ca5443ee-682f-42ad-8f3f-96b26a0a113d_p1" x="13670.0" y="2980.0"/> <port id="pr_ca5443ee-682f-42ad-8f3f-96b26a0a113d_p2" x="13670.0" y="3010.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_92c9204e-3437-4cd0-a078-33a3e6e1884a"> <bbox w="10.0" h="10.0" x="26399.125" y="2074.4033"/> <port id="pr_92c9204e-3437-4cd0-a078-33a3e6e1884a_p1" x="26389.125" y="2079.4033"/> <port id="pr_92c9204e-3437-4cd0-a078-33a3e6e1884a_p2" x="26419.125" y="2079.4033"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8b777d7f-d17a-45b6-bb4c-90ed5233b1c0"> <bbox w="10.0" h="10.0" x="27022.967" y="13909.0"/> <port id="pr_8b777d7f-d17a-45b6-bb4c-90ed5233b1c0_p1" x="27012.967" y="13914.0"/> <port id="pr_8b777d7f-d17a-45b6-bb4c-90ed5233b1c0_p2" x="27042.967" y="13914.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d3bed95-520f-4750-a6ca-aba368dd6ecf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9242410</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7d3bed95-520f-4750-a6ca-aba368dd6ecf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9242410"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13179.348" y="16744.074"/> <port id="pr_7d3bed95-520f-4750-a6ca-aba368dd6ecf_p1" x="13169.348" y="16749.074"/> <port id="pr_7d3bed95-520f-4750-a6ca-aba368dd6ecf_p2" x="13199.348" y="16749.074"/> </glyph> <glyph class="process" orientation="vertical" id="pr_597b23b5-9b1e-4fc4-9968-948d6f1e6554"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:28462531</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_597b23b5-9b1e-4fc4-9968-948d6f1e6554"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28462531"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23158.57" y="10695.0"/> <port id="pr_597b23b5-9b1e-4fc4-9968-948d6f1e6554_p1" x="23163.57" y="10685.0"/> <port id="pr_597b23b5-9b1e-4fc4-9968-948d6f1e6554_p2" x="23163.57" y="10715.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6cf06c67-1ade-4ef8-8be1-5a511b259043"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21828089</p> <p>Phosphorylation of NICD by GSK3B inhibits Ntch1/ICD-mediated induction of genes such as Hes1 but stabilizes Notch1/ICD.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6cf06c67-1ade-4ef8-8be1-5a511b259043"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21828089"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2807.25" y="14424.0"/> <port id="pr_6cf06c67-1ade-4ef8-8be1-5a511b259043_p1" x="2797.25" y="14429.0"/> <port id="pr_6cf06c67-1ade-4ef8-8be1-5a511b259043_p2" x="2827.25" y="14429.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f037776a-b5cb-4e03-9aa3-3618562ca718"> <bbox w="10.0" h="10.0" x="354.96472" y="2331.9668"/> <port id="pr_f037776a-b5cb-4e03-9aa3-3618562ca718_p1" x="359.96472" y="2321.9668"/> <port id="pr_f037776a-b5cb-4e03-9aa3-3618562ca718_p2" x="359.96472" y="2351.9668"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_6e240538-afd5-441e-b94c-c22bf7e7bc87"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3674.7808" y="14580.0"/> <port id="pr_6e240538-afd5-441e-b94c-c22bf7e7bc87_p1" x="3694.7808" y="14585.0"/> <port id="pr_6e240538-afd5-441e-b94c-c22bf7e7bc87_p2" x="3664.7808" y="14585.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_32acdab2-edf0-43ea-9233-12fce5c6e132"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5992.5" y="14626.579"/> <port id="pr_32acdab2-edf0-43ea-9233-12fce5c6e132_p1" x="6012.5" y="14631.579"/> <port id="pr_32acdab2-edf0-43ea-9233-12fce5c6e132_p2" x="5982.5" y="14631.579"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_788532f8-c8ba-460f-88d4-000b936abdb5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3741.6338" y="15624.75"/> <port id="pr_788532f8-c8ba-460f-88d4-000b936abdb5_p1" x="3731.6338" y="15629.75"/> <port id="pr_788532f8-c8ba-460f-88d4-000b936abdb5_p2" x="3761.6338" y="15629.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8feef725-d79b-497b-b84c-45a4cdad1f82"> <bbox w="10.0" h="10.0" x="10358.173" y="624.375"/> <port id="pr_8feef725-d79b-497b-b84c-45a4cdad1f82_p1" x="10363.173" y="614.375"/> <port id="pr_8feef725-d79b-497b-b84c-45a4cdad1f82_p2" x="10363.173" y="644.375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fe70ccb8-1583-4fa0-9622-db4d126baa6f"> <bbox w="10.0" h="10.0" x="3710.354" y="4713.9175"/> <port id="pr_fe70ccb8-1583-4fa0-9622-db4d126baa6f_p1" x="3700.354" y="4718.9175"/> <port id="pr_fe70ccb8-1583-4fa0-9622-db4d126baa6f_p2" x="3730.354" y="4718.9175"/> </glyph> <glyph class="process" orientation="vertical" id="pr_22631e35-3dfe-41b9-9910-a84724053e6c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18078820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_22631e35-3dfe-41b9-9910-a84724053e6c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18078820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3797.5" y="9004.5"/> <port id="pr_22631e35-3dfe-41b9-9910-a84724053e6c_p1" x="3802.5" y="9024.5"/> <port id="pr_22631e35-3dfe-41b9-9910-a84724053e6c_p2" x="3802.5" y="8994.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3f5a204a-b6f4-4f2f-847a-e179db9c75f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9865696</p> <p>Phosphorylation of Smad2 induces dissociation from SARA with concomitant formation of Smad2/ Smad4 complexes and nuclear translocation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3f5a204a-b6f4-4f2f-847a-e179db9c75f3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9865696"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6434.508" y="16977.148"/> <port id="pr_3f5a204a-b6f4-4f2f-847a-e179db9c75f3_p1" x="6439.508" y="16967.148"/> <port id="pr_3f5a204a-b6f4-4f2f-847a-e179db9c75f3_p2" x="6439.508" y="16997.148"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5375d57c-e7dc-4dd5-b451-4f825f83e2ba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19440234</p> <p>p21 inhibits CDK2 to induce senescence</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5375d57c-e7dc-4dd5-b451-4f825f83e2ba"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19440234"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3651.7659" y="15036.5"/> <port id="pr_5375d57c-e7dc-4dd5-b451-4f825f83e2ba_p1" x="3656.7659" y="15056.5"/> <port id="pr_5375d57c-e7dc-4dd5-b451-4f825f83e2ba_p2" x="3656.7659" y="15026.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_c7799782-d550-4787-ba1a-8a7fd5378f88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5756.125" y="18492.0"/> <port id="pr_c7799782-d550-4787-ba1a-8a7fd5378f88_p1" x="5761.125" y="18512.0"/> <port id="pr_c7799782-d550-4787-ba1a-8a7fd5378f88_p2" x="5761.125" y="18482.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e6be8546-f7b0-45b2-85fc-930b8ef36555"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5190.5" y="16247.791"/> <port id="pr_e6be8546-f7b0-45b2-85fc-930b8ef36555_p1" x="5180.5" y="16252.791"/> <port id="pr_e6be8546-f7b0-45b2-85fc-930b8ef36555_p2" x="5210.5" y="16252.791"/> </glyph> <glyph class="process" orientation="vertical" id="pr_04b939c8-78ba-4ab1-b17e-966156d24548"> <bbox w="10.0" h="10.0" x="18054.06" y="9899.0"/> <port id="pr_04b939c8-78ba-4ab1-b17e-966156d24548_p1" x="18059.06" y="9919.0"/> <port id="pr_04b939c8-78ba-4ab1-b17e-966156d24548_p2" x="18059.06" y="9889.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3adf1810-4b29-44a5-82be-b5aa06b863ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20955519</p> <p>PMID:9407949</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3adf1810-4b29-44a5-82be-b5aa06b863ca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20955519"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9407949"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9718.353" y="16197.416"/> <port id="pr_3adf1810-4b29-44a5-82be-b5aa06b863ca_p1" x="9708.353" y="16202.416"/> <port id="pr_3adf1810-4b29-44a5-82be-b5aa06b863ca_p2" x="9738.353" y="16202.416"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5a475171-9d1b-4994-abfb-6d28649b86ed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19136967</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5a475171-9d1b-4994-abfb-6d28649b86ed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19136967"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19009.498" y="18360.75"/> <port id="pr_5a475171-9d1b-4994-abfb-6d28649b86ed_p1" x="19029.498" y="18365.75"/> <port id="pr_5a475171-9d1b-4994-abfb-6d28649b86ed_p2" x="18999.498" y="18365.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b56c5b05-5820-4d6b-a265-8a72027a9515"> <bbox w="10.0" h="10.0" x="23942.5" y="3174.7222"/> <port id="pr_b56c5b05-5820-4d6b-a265-8a72027a9515_p1" x="23932.5" y="3179.7222"/> <port id="pr_b56c5b05-5820-4d6b-a265-8a72027a9515_p2" x="23962.5" y="3179.7222"/> </glyph> <glyph class="process" orientation="vertical" id="pr_49f0f276-9562-475b-9170-58e7c0bf7266"> <bbox w="10.0" h="10.0" x="28413.1" y="9559.127"/> <port id="pr_49f0f276-9562-475b-9170-58e7c0bf7266_p1" x="28418.1" y="9549.127"/> <port id="pr_49f0f276-9562-475b-9170-58e7c0bf7266_p2" x="28418.1" y="9579.127"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fbdcc1bd-8f3e-4ba2-bca1-329165eb75e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>JNK phosphorylates MST1 at serine 82 which leads to the enhancement of MST1 activation. The activation of MST1 phosphorylates FOXO3 at serine 207 and promotes cell death.</p> <p>Phosphorylation of FOXO3 by Akt creates a binding site for the 14-3-3 family of proteins. The complex of FOXO3 and 14-3-3 is retained in the cytosol blocking transcription of genes normally stimulated by FOXO3.</p> <p>PMID:20028971 PMID:12040186</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fbdcc1bd-8f3e-4ba2-bca1-329165eb75e1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20028971"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12040186"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10066.809" y="20602.062"/> <port id="pr_fbdcc1bd-8f3e-4ba2-bca1-329165eb75e1_p1" x="10071.809" y="20622.062"/> <port id="pr_fbdcc1bd-8f3e-4ba2-bca1-329165eb75e1_p2" x="10071.809" y="20592.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_965aa3b3-adf2-44ac-8bfd-8e9fc0766e34"> <bbox w="10.0" h="10.0" x="18904.68" y="15070.75"/> <port id="pr_965aa3b3-adf2-44ac-8bfd-8e9fc0766e34_p1" x="18909.68" y="15090.75"/> <port id="pr_965aa3b3-adf2-44ac-8bfd-8e9fc0766e34_p2" x="18909.68" y="15060.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_510d61a1-4460-4e09-9612-5afba40cc270"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:1332946</p> <p>in BL41 human Burkit's lymphoma B cells upon infection with EBV</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_510d61a1-4460-4e09-9612-5afba40cc270"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:1332946"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24127.818" y="16183.398"/> <port id="pr_510d61a1-4460-4e09-9612-5afba40cc270_p1" x="24132.818" y="16203.398"/> <port id="pr_510d61a1-4460-4e09-9612-5afba40cc270_p2" x="24132.818" y="16173.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4be8f896-9eb5-4fd5-b337-cc24b1b1c777"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Tankyrase in telomere maintenance</p> <p>PMID:21818122, PMID:21076181, PMID:21037379</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4be8f896-9eb5-4fd5-b337-cc24b1b1c777"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21818122"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21076181"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21037379"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10386.6875" y="16946.0"/> <port id="pr_4be8f896-9eb5-4fd5-b337-cc24b1b1c777_p1" x="10376.6875" y="16951.0"/> <port id="pr_4be8f896-9eb5-4fd5-b337-cc24b1b1c777_p2" x="10406.6875" y="16951.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fa6eb5ea-13c4-43f3-8261-409015155789"> <bbox w="10.0" h="10.0" x="26756.418" y="7936.25"/> <port id="pr_fa6eb5ea-13c4-43f3-8261-409015155789_p1" x="26761.418" y="7926.25"/> <port id="pr_fa6eb5ea-13c4-43f3-8261-409015155789_p2" x="26761.418" y="7956.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d4486cf9-b2d4-423e-bb21-56d2de6f203f"> <bbox w="10.0" h="10.0" x="24039.06" y="9194.0"/> <port id="pr_d4486cf9-b2d4-423e-bb21-56d2de6f203f_p1" x="24029.06" y="9199.0"/> <port id="pr_d4486cf9-b2d4-423e-bb21-56d2de6f203f_p2" x="24059.06" y="9199.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7c69a904-f938-403e-819b-3232a3aa5813"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11788820</p> <p>by HIP1:IFT57</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7c69a904-f938-403e-819b-3232a3aa5813"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11788820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24979.06" y="13064.0"/> <port id="pr_7c69a904-f938-403e-819b-3232a3aa5813_p1" x="24969.06" y="13069.0"/> <port id="pr_7c69a904-f938-403e-819b-3232a3aa5813_p2" x="24999.06" y="13069.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c0785fb4-056f-4081-8192-46845f86d48d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10783894 PMID:20673124 PMID:11094066 PMID:11994454</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c0785fb4-056f-4081-8192-46845f86d48d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10783894"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11094066"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11994454"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.311" y="20499.414"/> <port id="pr_c0785fb4-056f-4081-8192-46845f86d48d_p1" x="12677.311" y="20504.414"/> <port id="pr_c0785fb4-056f-4081-8192-46845f86d48d_p2" x="12707.311" y="20504.414"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cdb4878e-3465-4223-a8e4-510659514762"> <bbox w="10.0" h="10.0" x="3616.278" y="22929.805"/> <port id="pr_cdb4878e-3465-4223-a8e4-510659514762_p1" x="3606.278" y="22934.805"/> <port id="pr_cdb4878e-3465-4223-a8e4-510659514762_p2" x="3636.278" y="22934.805"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a558b0f7-b148-4193-b2a8-f419f47a63bd"> <bbox w="10.0" h="10.0" x="20817.707" y="3135.0"/> <port id="pr_a558b0f7-b148-4193-b2a8-f419f47a63bd_p1" x="20822.707" y="3155.0"/> <port id="pr_a558b0f7-b148-4193-b2a8-f419f47a63bd_p2" x="20822.707" y="3125.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_661f4b15-f609-4f5c-8576-531a399c1ae1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4433.668" y="17690.0"/> <port id="pr_661f4b15-f609-4f5c-8576-531a399c1ae1_p1" x="4438.668" y="17680.0"/> <port id="pr_661f4b15-f609-4f5c-8576-531a399c1ae1_p2" x="4438.668" y="17710.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2451dda3-624a-44aa-93fb-b7cfc73ece93"> <bbox w="10.0" h="10.0" x="16960.0" y="3370.0"/> <port id="pr_2451dda3-624a-44aa-93fb-b7cfc73ece93_p1" x="16965.0" y="3390.0"/> <port id="pr_2451dda3-624a-44aa-93fb-b7cfc73ece93_p2" x="16965.0" y="3360.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_793d5391-2cd3-4687-bed6-af4cbb683bba"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5438.7676" y="16094.791"/> <port id="pr_793d5391-2cd3-4687-bed6-af4cbb683bba_p1" x="5443.7676" y="16084.791"/> <port id="pr_793d5391-2cd3-4687-bed6-af4cbb683bba_p2" x="5443.7676" y="16114.791"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_df86d885-8d33-44ba-a88a-3e9b4cf4fe20"> <bbox w="10.0" h="10.0" x="22780.676" y="6723.972"/> <port id="pr_df86d885-8d33-44ba-a88a-3e9b4cf4fe20_p1" x="22800.676" y="6728.972"/> <port id="pr_df86d885-8d33-44ba-a88a-3e9b4cf4fe20_p2" x="22770.676" y="6728.972"/> </glyph> <glyph class="process" orientation="vertical" id="pr_81bdbed6-59b1-4f9c-a5ef-5b7d59c042f7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS</p> <p>References:</p> <p>PMID:9865696</p> <p>SARA interacts directly with Smad2 and Smad3</p> <p>The C-ter of SARA interacts TGFBR1 and TGFBR2</p> <p>SARA presents Smad2 to the TGFb receptor</p> <p>Phosphorylation of Smad2 induces dissociation from SARA with concomitant formation of Smad2-Smad4 complexes and nuclear translocation.</p> <p>PMID:12154066</p> <p>Small GTPases such as Rab5 catalyse movement of activated receptor complexes to early endosomal compartments</p> <p>Here, the complex encounter SARA: a phospholipid-bound carrier</p> <p>SARA presents Smads to the TGFBR1</p> <p>PMID:22710166</p> <p>PMID:11013220</p> <p>The ligand bound activated receptor complex is internalized via endocytosis</p> <p>PMID:19050695</p> <p>2 pathways of receptor complex endocytosis: clathrin-mediated or caveolae-mediated</p> <p>Through the clathrin pathway, activated ligan-receptor complex are brought into early endosomes which are enriched with scaffold proteins such as SARA.</p> <p>PMID:12717440</p> <p>PMID:12724770</p> <p>Clathrin-dependent internalization into endosome, where the Smad2 anchor SARA is enriched, promotes TGFB signalling. </p> <p>Raft-caveolar internalization pathway contains the Smad7-Smurf2 bound receptor and is required for rapid receptor turnover. </p> <p>Thus, segregation of TGF-b receptors into distinct endocytic compartments regulates Smad activation and receptor turnover</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_81bdbed6-59b1-4f9c-a5ef-5b7d59c042f7"> 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x="9782.381" y="7371.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6cb56a65-ead4-455f-ad40-cba3b1126cab"> <bbox w="10.0" h="10.0" x="28787.06" y="10785.0"/> <port id="pr_6cb56a65-ead4-455f-ad40-cba3b1126cab_p1" x="28777.06" y="10790.0"/> <port id="pr_6cb56a65-ead4-455f-ad40-cba3b1126cab_p2" x="28807.06" y="10790.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_594c209a-5362-4f96-9880-d594e93af7af"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="14384.769" y="15326.922"/> <port id="pr_594c209a-5362-4f96-9880-d594e93af7af_p1" x="14374.769" y="15331.922"/> <port id="pr_594c209a-5362-4f96-9880-d594e93af7af_p2" x="14404.769" y="15331.922"/> </glyph> <glyph class="process" orientation="vertical" id="pr_601c8eca-f21e-4fe2-a41c-8904682efd9b"> <bbox w="10.0" h="10.0" x="11315.0" y="6541.25"/> <port id="pr_601c8eca-f21e-4fe2-a41c-8904682efd9b_p1" x="11320.0" y="6531.25"/> <port id="pr_601c8eca-f21e-4fe2-a41c-8904682efd9b_p2" x="11320.0" y="6561.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5e5839a2-58f0-48e3-ad63-3a5a8f71839d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1970.3674" y="15049.25"/> <port id="pr_5e5839a2-58f0-48e3-ad63-3a5a8f71839d_p1" x="1975.3674" y="15069.25"/> <port id="pr_5e5839a2-58f0-48e3-ad63-3a5a8f71839d_p2" x="1975.3674" y="15039.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_73b84040-7770-4fe1-a54b-7bb116a2970c"> <bbox w="10.0" h="10.0" x="21559.543" y="15895.266"/> <port id="pr_73b84040-7770-4fe1-a54b-7bb116a2970c_p1" x="21579.543" y="15900.266"/> <port id="pr_73b84040-7770-4fe1-a54b-7bb116a2970c_p2" x="21549.543" y="15900.266"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9917c4bb-6346-4bac-b7ca-39a08dbb1093"> <bbox w="10.0" h="10.0" x="5982.8374" y="6836.25"/> <port id="pr_9917c4bb-6346-4bac-b7ca-39a08dbb1093_p1" x="5987.8374" y="6826.25"/> <port id="pr_9917c4bb-6346-4bac-b7ca-39a08dbb1093_p2" x="5987.8374" y="6856.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_57dd06f8-4966-42a8-8b2f-42e08832795f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4053.184" y="17787.5"/> <port id="pr_57dd06f8-4966-42a8-8b2f-42e08832795f_p1" x="4058.184" y="17777.5"/> <port id="pr_57dd06f8-4966-42a8-8b2f-42e08832795f_p2" x="4058.184" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6077bef2-31a8-4e8c-8a78-22f2f479d9ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5832.75" y="13783.75"/> <port id="pr_6077bef2-31a8-4e8c-8a78-22f2f479d9ec_p1" x="5837.75" y="13773.75"/> <port id="pr_6077bef2-31a8-4e8c-8a78-22f2f479d9ec_p2" x="5837.75" y="13803.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_545b8b4b-6c5b-44f0-b77d-9eb6dd06068e"> <bbox w="10.0" h="10.0" x="28884.06" y="14019.0"/> <port id="pr_545b8b4b-6c5b-44f0-b77d-9eb6dd06068e_p1" x="28889.06" y="14009.0"/> <port id="pr_545b8b4b-6c5b-44f0-b77d-9eb6dd06068e_p2" x="28889.06" y="14039.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fafd120d-8f98-4a02-89ed-8b3aabec5c56"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12829230</p> <p>PMID:11955434</p> <p>PMID:15967165</p> <p>PMID:15611338</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fafd120d-8f98-4a02-89ed-8b3aabec5c56"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12829230"/> </rdf:Bag> 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class="process" orientation="vertical" id="pr_ddf9c45d-cdbd-40ac-a690-e268305700e5"> <bbox w="10.0" h="10.0" x="4434.18" y="20909.707"/> <port id="pr_ddf9c45d-cdbd-40ac-a690-e268305700e5_p1" x="4439.18" y="20929.707"/> <port id="pr_ddf9c45d-cdbd-40ac-a690-e268305700e5_p2" x="4439.18" y="20899.707"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7b90dcb1-b58c-4986-8856-414e0596ce66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4737.9297" y="18273.625"/> <port id="pr_7b90dcb1-b58c-4986-8856-414e0596ce66_p1" x="4742.9297" y="18263.625"/> <port id="pr_7b90dcb1-b58c-4986-8856-414e0596ce66_p2" x="4742.9297" y="18293.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f754a3c5-6be9-4a66-a532-edaedbff622b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Grb2 recruits the docking protein Gab1 which is tyrosine phosphorylated by EGFR or FGFR leading to recruitment and activation of the PI3K-Akt cell survival pathway.</p> <p>Recruitment of PI 3-kinase by Gab1 results in a positive-feedback loop mediated by binding of the PH domain of Gab1 to the product of PI3-kinase activation phosphatidylinositol-345-triphosphate.</p> <p>PMID:15567848 PMID:15199124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1156.0" y="17617.5"/> <port id="pr_cb7742e8-08f1-462b-999f-cde8b2036001_p1" x="1161.0" y="17607.5"/> <port id="pr_cb7742e8-08f1-462b-999f-cde8b2036001_p2" x="1161.0" y="17637.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a1163d47-ce6f-4450-8719-4b3085cd2c20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:12734397</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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modules:</p> <p>References:</p> <p>Autophosphorylation of PTK2:</p> <p>PMID:7529872</p> <p>PMID:19339212</p> <p>PMID:7657702</p> <p>PMID:16919435</p> <p>FAK (PTK2) is first recruited to sites of integrin clustering via interactions wiith integrin-associated proteins such as talin, paxillin.</p> <p>FAK binds to the cytoplasmic domain of b1 integrin via Paxillin (PXN) and Talin (TLN)</p> <p>Binding to aVb3 or a5b1 integrins induces PTK2 (FAK1) autophosphorylation at Y397.</p> <p>PMID:10545505</p> <p>FAK associates with paxillin, vinculin, and p130cas (BCAR1) in the focal adhesion complex</p> <p>PMID:</p> <p>Integrins control motile strategy through a Rho-cofilin pathway.</p> <p>beta1 integrins promote random migration, whereas beta3 integrins promote persistent migration in the same epithelial cell background.</p> <p>Adhesion to fibronectin by aVb3 supports actin cytoskeletal reorganization via cofilin, resulting in a single broad lamellipod with static cell-matrix adhesions at the leading edge. </p> <p>Adhesion by a5b1 instead leads to the phosphorylation and thus inactivation of cofilin, and these cells fail to polarize their cytoskeleton but extend thin protrusions containing highly dynamic cell-matrix adhesions in multiple directions. </p> <p>The activity of the small GTPase RhoA is particularly high in cells adhering by a5b1, and inhibition of Rho signaling causes a switch from a beta1 to a beta3-associated mode of migration, whereas increased Rho activity has the opposite effect. </p> <p>Alterations in integrin expression profiles thus allow cells to modulate several critical aspects of the motile machinery through Rho GTPases.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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id="pr_643c88f6-01fd-47a3-a11b-dab1654998f4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3622.9077" y="18547.73"/> <port id="pr_643c88f6-01fd-47a3-a11b-dab1654998f4_p1" x="3642.9077" y="18552.73"/> <port id="pr_643c88f6-01fd-47a3-a11b-dab1654998f4_p2" x="3612.9077" y="18552.73"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f2f981c7-ecfd-43a7-8fe2-ec36384add5e"> <bbox w="10.0" h="10.0" x="26332.967" y="19515.898"/> <port id="pr_f2f981c7-ecfd-43a7-8fe2-ec36384add5e_p1" x="26352.967" y="19520.898"/> <port id="pr_f2f981c7-ecfd-43a7-8fe2-ec36384add5e_p2" x="26322.967" y="19520.898"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cec8a482-4f63-45b8-b0e5-ab4bfb60db72"> <bbox w="10.0" h="10.0" x="1125.0" y="3558.0"/> <port id="pr_cec8a482-4f63-45b8-b0e5-ab4bfb60db72_p1" x="1130.0" y="3548.0"/> <port id="pr_cec8a482-4f63-45b8-b0e5-ab4bfb60db72_p2" x="1130.0" y="3578.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_51192729-2332-4334-b22c-c383046fcd23"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>For role of SNM1B in Fanconi and S-phase checkpoint</p> <p>PMID:18469862</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_247e1d25-f5af-4d72-8e3a-4950c04a9d63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20439735"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23788.56" y="21634.0"/> <port id="pr_247e1d25-f5af-4d72-8e3a-4950c04a9d63_p1" x="23778.56" y="21639.0"/> <port id="pr_247e1d25-f5af-4d72-8e3a-4950c04a9d63_p2" x="23808.56" y="21639.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6c486d85-5f1f-46bd-a32c-52c7e6d7a51e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5295.25" y="18367.5"/> <port id="pr_6c486d85-5f1f-46bd-a32c-52c7e6d7a51e_p1" x="5300.25" y="18357.5"/> <port id="pr_6c486d85-5f1f-46bd-a32c-52c7e6d7a51e_p2" x="5300.25" y="18387.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9ac16805-23ad-438b-a67e-f3d536f71b08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Not known if P300 transcription complex mediates this trancription either it is CBP transcription complex</p> <p>PMID:17291450</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9ac16805-23ad-438b-a67e-f3d536f71b08"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17291450"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21996.56" y="22720.0"/> <port id="pr_9ac16805-23ad-438b-a67e-f3d536f71b08_p1" x="21986.56" y="22725.0"/> <port id="pr_9ac16805-23ad-438b-a67e-f3d536f71b08_p2" x="22016.56" y="22725.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1596347d-daa7-4241-86e8-190a8720ddcc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:24954210</p> <p>ROS induces MAPK3 and MAPK6 expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1596347d-daa7-4241-86e8-190a8720ddcc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:24954210"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3299.5" y="16371.979"/> <port id="pr_1596347d-daa7-4241-86e8-190a8720ddcc_p1" x="3319.5" y="16376.979"/> <port id="pr_1596347d-daa7-4241-86e8-190a8720ddcc_p2" x="3289.5" y="16376.979"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02c53df4-31ec-41b4-a90d-57fe5574605a"> <bbox w="10.0" h="10.0" x="12195.0" y="5485.0"/> <port id="pr_02c53df4-31ec-41b4-a90d-57fe5574605a_p1" x="12200.0" y="5505.0"/> <port id="pr_02c53df4-31ec-41b4-a90d-57fe5574605a_p2" x="12200.0" y="5475.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d949692a-b093-451d-a2a8-89baab581f08"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Activation of P38 by TGF-?? is mediated mainly by Smad-dependent GADD45?? expression and by its subsequent activation of MTK1.</p> <p>PMID:21614932</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d949692a-b093-451d-a2a8-89baab581f08"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21614932"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11074.811" y="20680.75"/> <port id="pr_d949692a-b093-451d-a2a8-89baab581f08_p1" x="11094.811" y="20685.75"/> <port id="pr_d949692a-b093-451d-a2a8-89baab581f08_p2" x="11064.811" y="20685.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_905b5aa4-db02-4dcd-b3c4-731811ef72b4"> <bbox w="10.0" h="10.0" x="23176.344" y="10849.0"/> <port id="pr_905b5aa4-db02-4dcd-b3c4-731811ef72b4_p1" x="23181.344" y="10839.0"/> <port id="pr_905b5aa4-db02-4dcd-b3c4-731811ef72b4_p2" x="23181.344" y="10869.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4f5d5731-7d14-44e1-8f59-6ce10b8386cd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23242420</p> <p> Calcium induced calpain-mediated Bax and Atg5 cleavage resulted in the collapse of the mitochondrial membrane potential and cytochrome c release</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4f5d5731-7d14-44e1-8f59-6ce10b8386cd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23242420"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22076.371" y="14703.061"/> <port id="pr_4f5d5731-7d14-44e1-8f59-6ce10b8386cd_p1" x="22066.371" y="14708.061"/> <port id="pr_4f5d5731-7d14-44e1-8f59-6ce10b8386cd_p2" x="22096.371" y="14708.061"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8724831d-4684-4e62-8847-477680fa46b6"> <bbox w="10.0" h="10.0" x="27064.125" y="5323.75"/> <port id="pr_8724831d-4684-4e62-8847-477680fa46b6_p1" x="27069.125" y="5313.75"/> <port id="pr_8724831d-4684-4e62-8847-477680fa46b6_p2" x="27069.125" y="5343.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6717b49c-6c24-4ba1-a5fe-da9b59bbb397"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5106.5" y="17207.332"/> <port id="pr_6717b49c-6c24-4ba1-a5fe-da9b59bbb397_p1" x="5096.5" y="17212.332"/> <port id="pr_6717b49c-6c24-4ba1-a5fe-da9b59bbb397_p2" x="5126.5" y="17212.332"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6611e36e-bd56-4f76-9aa7-c4c1fbd0aadf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25225.355" y="13783.294"/> <port id="pr_6611e36e-bd56-4f76-9aa7-c4c1fbd0aadf_p1" x="25215.355" y="13788.294"/> <port id="pr_6611e36e-bd56-4f76-9aa7-c4c1fbd0aadf_p2" x="25245.355" y="13788.294"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77bb50c6-d1fc-4c22-bcd5-e26df7644bd9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4440.9966" y="17988.125"/> <port id="pr_77bb50c6-d1fc-4c22-bcd5-e26df7644bd9_p1" x="4445.9966" y="17978.125"/> <port id="pr_77bb50c6-d1fc-4c22-bcd5-e26df7644bd9_p2" x="4445.9966" y="18008.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_65d2d013-56b4-4a28-94bb-5e24574949c8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>c-Raf; MEK1/2; ERK1/2;HRAS</p> <p>PMID:19906679</p> <p>TGF-b1 in airway smooth muscle cells</p> <p>PMID:21908588</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_65d2d013-56b4-4a28-94bb-5e24574949c8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19906679"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21908588"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19135.06" y="21476.0"/> <port id="pr_65d2d013-56b4-4a28-94bb-5e24574949c8_p1" x="19125.06" y="21481.0"/> <port id="pr_65d2d013-56b4-4a28-94bb-5e24574949c8_p2" x="19155.06" y="21481.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_65456bb1-3b64-45db-8b8a-65f048422497"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17646672</p> <p>PMID20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_65456bb1-3b64-45db-8b8a-65f048422497"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17646672"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.311" y="20834.0"/> <port id="pr_65456bb1-3b64-45db-8b8a-65f048422497_p1" x="12677.311" y="20839.0"/> <port id="pr_65456bb1-3b64-45db-8b8a-65f048422497_p2" x="12707.311" y="20839.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_14d79bd3-0bb8-4363-a46c-b3c9b58536e4"> <bbox w="10.0" h="10.0" x="2580.2068" y="4578.841"/> <port id="pr_14d79bd3-0bb8-4363-a46c-b3c9b58536e4_p1" x="2570.2068" y="4583.841"/> <port id="pr_14d79bd3-0bb8-4363-a46c-b3c9b58536e4_p2" x="2600.2068" y="4583.841"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_8d8e6e58-f925-49ae-8e3c-83365e0f03a3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20516082</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8d8e6e58-f925-49ae-8e3c-83365e0f03a3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20516082"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15449.561" y="20786.0"/> <port id="pr_8d8e6e58-f925-49ae-8e3c-83365e0f03a3_p1" x="15439.561" y="20791.0"/> <port id="pr_8d8e6e58-f925-49ae-8e3c-83365e0f03a3_p2" x="15469.561" y="20791.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ec596ff9-d28b-4406-9a77-a5a5cf53069b"> <bbox w="10.0" h="10.0" x="27679.06" y="14423.23"/> <port id="pr_ec596ff9-d28b-4406-9a77-a5a5cf53069b_p1" x="27699.06" y="14428.23"/> <port id="pr_ec596ff9-d28b-4406-9a77-a5a5cf53069b_p2" x="27669.06" y="14428.23"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ab9a0720-8306-4a20-8407-f41c2e1ea2a3"> <bbox w="10.0" h="10.0" x="28924.06" y="11611.833"/> <port id="pr_ab9a0720-8306-4a20-8407-f41c2e1ea2a3_p1" x="28944.06" y="11616.833"/> <port id="pr_ab9a0720-8306-4a20-8407-f41c2e1ea2a3_p2" x="28914.06" y="11616.833"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_73e0c42a-aec7-43a4-b719-71ddbcdbd3fe"> <bbox w="10.0" h="10.0" x="15346.061" y="21243.57"/> <port id="pr_73e0c42a-aec7-43a4-b719-71ddbcdbd3fe_p1" x="15336.061" y="21248.57"/> <port id="pr_73e0c42a-aec7-43a4-b719-71ddbcdbd3fe_p2" x="15366.061" y="21248.57"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f1ed6de1-23a3-4d38-aedf-80efe0cb5580"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3932.517" y="15733.0"/> <port id="pr_f1ed6de1-23a3-4d38-aedf-80efe0cb5580_p1" x="3937.517" y="15723.0"/> <port id="pr_f1ed6de1-23a3-4d38-aedf-80efe0cb5580_p2" x="3937.517" y="15753.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e35dab8f-3f1b-4f09-8fe6-9afae3a1558c"> <bbox w="10.0" h="10.0" x="22152.184" y="16174.0"/> <port id="pr_e35dab8f-3f1b-4f09-8fe6-9afae3a1558c_p1" x="22157.184" y="16194.0"/> <port id="pr_e35dab8f-3f1b-4f09-8fe6-9afae3a1558c_p2" x="22157.184" y="16164.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f168259f-af41-4ebb-b548-efdb631aa9ee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14966295</p> <p>in NIH3T3 by FOXO3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f168259f-af41-4ebb-b548-efdb631aa9ee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14966295"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22030.785" y="16189.299"/> <port id="pr_f168259f-af41-4ebb-b548-efdb631aa9ee_p1" x="22035.785" y="16209.299"/> <port id="pr_f168259f-af41-4ebb-b548-efdb631aa9ee_p2" x="22035.785" y="16179.299"/> </glyph> <glyph class="process" orientation="vertical" id="pr_283bce4c-a739-4337-9abd-d04589b9932e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11756412</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_283bce4c-a739-4337-9abd-d04589b9932e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756412"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12913.561" y="19839.0"/> <port id="pr_283bce4c-a739-4337-9abd-d04589b9932e_p1" x="12918.561" y="19859.0"/> <port id="pr_283bce4c-a739-4337-9abd-d04589b9932e_p2" x="12918.561" y="19829.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6384b3b5-52e1-4af8-8aab-4d4aac25d384"> <bbox w="10.0" h="10.0" x="12907.34" y="878.75"/> <port id="pr_6384b3b5-52e1-4af8-8aab-4d4aac25d384_p1" x="12897.34" y="883.75"/> <port id="pr_6384b3b5-52e1-4af8-8aab-4d4aac25d384_p2" x="12927.34" y="883.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e462bc03-60e5-423f-bf97-548b7c3a0307"> <bbox w="10.0" h="10.0" x="26947.725" y="13621.5"/> <port id="pr_e462bc03-60e5-423f-bf97-548b7c3a0307_p1" x="26937.725" y="13626.5"/> <port id="pr_e462bc03-60e5-423f-bf97-548b7c3a0307_p2" x="26967.725" y="13626.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9c01cb2b-50dc-4662-8c8c-1ebde15153a3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18006823</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9c01cb2b-50dc-4662-8c8c-1ebde15153a3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18006823"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13585.061" y="20774.5"/> <port id="pr_9c01cb2b-50dc-4662-8c8c-1ebde15153a3_p1" x="13575.061" y="20779.5"/> <port id="pr_9c01cb2b-50dc-4662-8c8c-1ebde15153a3_p2" x="13605.061" y="20779.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0dcaac5d-f95e-476e-86f2-0fa93ffde9b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="21174.398" y="11968.453"/> <port id="pr_0dcaac5d-f95e-476e-86f2-0fa93ffde9b1_p1" x="21194.398" y="11973.453"/> <port id="pr_0dcaac5d-f95e-476e-86f2-0fa93ffde9b1_p2" x="21164.398" y="11973.453"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b91cb206-9c81-4f72-afe9-59b13329d55c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21406690</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b91cb206-9c81-4f72-afe9-59b13329d55c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21406690"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16949.863" y="18012.346"/> <port id="pr_b91cb206-9c81-4f72-afe9-59b13329d55c_p1" x="16939.863" y="18017.346"/> <port id="pr_b91cb206-9c81-4f72-afe9-59b13329d55c_p2" x="16969.863" y="18017.346"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_8efe4e1f-d0cb-48c8-a991-64cb8e29eb50"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2956.5884" y="14622.5"/> <port id="pr_8efe4e1f-d0cb-48c8-a991-64cb8e29eb50_p1" x="2976.5884" y="14627.5"/> <port id="pr_8efe4e1f-d0cb-48c8-a991-64cb8e29eb50_p2" x="2946.5884" y="14627.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4aec7711-3394-4599-946f-fd9a83bf07d2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10581160</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4aec7711-3394-4599-946f-fd9a83bf07d2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10581160"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20232.686" y="17804.5"/> <port id="pr_4aec7711-3394-4599-946f-fd9a83bf07d2_p1" x="20237.686" y="17794.5"/> <port id="pr_4aec7711-3394-4599-946f-fd9a83bf07d2_p2" x="20237.686" y="17824.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1777a380-4b01-4293-af66-d7e6f1094bec"> <bbox w="10.0" h="10.0" x="24405.0" y="3337.5"/> <port id="pr_1777a380-4b01-4293-af66-d7e6f1094bec_p1" x="24410.0" y="3327.5"/> <port id="pr_1777a380-4b01-4293-af66-d7e6f1094bec_p2" x="24410.0" y="3357.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ac859463-1faf-4973-8cef-accfe11e5e7b"> <bbox w="10.0" h="10.0" x="31181.0" y="2555.0"/> <port id="pr_ac859463-1faf-4973-8cef-accfe11e5e7b_p1" x="31186.0" y="2545.0"/> <port id="pr_ac859463-1faf-4973-8cef-accfe11e5e7b_p2" x="31186.0" y="2575.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3757f7d8-289b-4d73-b91c-ee93536a86ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ATM phosphotylates FANCD2 for S-phase checkpoint arrest in responce to IR. </p> <p>PMID:12086603</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3757f7d8-289b-4d73-b91c-ee93536a86ca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12086603"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15362.135" y="15733.159"/> <port id="pr_3757f7d8-289b-4d73-b91c-ee93536a86ca_p1" x="15352.135" y="15738.159"/> <port id="pr_3757f7d8-289b-4d73-b91c-ee93536a86ca_p2" x="15382.135" y="15738.159"/> </glyph> <glyph class="process" orientation="vertical" id="pr_193598f4-6fda-4c87-affe-535e0575ab4c"> <bbox w="10.0" h="10.0" x="11865.477" y="11927.736"/> <port id="pr_193598f4-6fda-4c87-affe-535e0575ab4c_p1" x="11870.477" y="11917.736"/> <port id="pr_193598f4-6fda-4c87-affe-535e0575ab4c_p2" x="11870.477" y="11947.736"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3680a229-e7c7-4d1a-bef2-96d04dab3517"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22995644</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3680a229-e7c7-4d1a-bef2-96d04dab3517"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22995644"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2931.8057" y="9178.5"/> <port id="pr_3680a229-e7c7-4d1a-bef2-96d04dab3517_p1" x="2936.8057" y="9168.5"/> <port id="pr_3680a229-e7c7-4d1a-bef2-96d04dab3517_p2" x="2936.8057" y="9198.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dc5556bd-2eef-49ef-ac8e-c32e10f8a6f1"> <bbox w="10.0" h="10.0" x="9775.0" y="4295.0"/> <port id="pr_dc5556bd-2eef-49ef-ac8e-c32e10f8a6f1_p1" x="9780.0" y="4315.0"/> <port id="pr_dc5556bd-2eef-49ef-ac8e-c32e10f8a6f1_p2" x="9780.0" y="4285.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_326be19b-e3d8-4ba6-95fc-c7f680b3c9e8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12747838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_326be19b-e3d8-4ba6-95fc-c7f680b3c9e8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12747838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15147.061" y="18383.25"/> <port id="pr_326be19b-e3d8-4ba6-95fc-c7f680b3c9e8_p1" x="15152.061" y="18403.25"/> <port id="pr_326be19b-e3d8-4ba6-95fc-c7f680b3c9e8_p2" x="15152.061" y="18373.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b2e1605c-96b0-4fc8-beed-a7d32ed3357d"> <bbox w="10.0" h="10.0" x="28171.0" y="2890.0"/> <port id="pr_b2e1605c-96b0-4fc8-beed-a7d32ed3357d_p1" x="28176.0" y="2880.0"/> <port id="pr_b2e1605c-96b0-4fc8-beed-a7d32ed3357d_p2" x="28176.0" y="2910.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6a8cc58e-a06e-4cfc-bd82-9f1c76ab63af"> <bbox w="10.0" h="10.0" x="25441.0" y="2652.5"/> <port id="pr_6a8cc58e-a06e-4cfc-bd82-9f1c76ab63af_p1" x="25446.0" y="2642.5"/> <port id="pr_6a8cc58e-a06e-4cfc-bd82-9f1c76ab63af_p2" x="25446.0" y="2672.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fc9101d9-61e4-4e1f-83a5-f0a424e85e12"> <bbox w="10.0" h="10.0" x="3159.75" y="3106.25"/> <port id="pr_fc9101d9-61e4-4e1f-83a5-f0a424e85e12_p1" x="3164.75" y="3096.25"/> <port id="pr_fc9101d9-61e4-4e1f-83a5-f0a424e85e12_p2" x="3164.75" y="3126.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f47ce352-e50b-4a7c-9a5e-d0ee41513ac6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11331593</p> <p>in in FDCP-Mix and FL5.12 hematopoietic progenitor cells, by DREAM/KCNIP3 inhibition released upon IL3 withdrawal</p> <p>PMID:12217801</p> <p>in Jurkat, upon Fas</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f47ce352-e50b-4a7c-9a5e-d0ee41513ac6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11331593"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12217801"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22116.854" y="16161.75"/> <port id="pr_f47ce352-e50b-4a7c-9a5e-d0ee41513ac6_p1" x="22121.854" y="16181.75"/> <port id="pr_f47ce352-e50b-4a7c-9a5e-d0ee41513ac6_p2" x="22121.854" y="16151.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cc879698-394d-4378-8daa-f20cad684c0f"> <bbox w="10.0" h="10.0" x="21309.06" y="10359.0"/> <port id="pr_cc879698-394d-4378-8daa-f20cad684c0f_p1" x="21329.06" y="10364.0"/> <port id="pr_cc879698-394d-4378-8daa-f20cad684c0f_p2" x="21299.06" y="10364.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f3d2b4a8-e7b0-463f-8c83-a9ebdbc31156"> <bbox w="10.0" h="10.0" x="7270.5" y="3677.5"/> <port id="pr_f3d2b4a8-e7b0-463f-8c83-a9ebdbc31156_p1" x="7275.5" y="3697.5"/> <port id="pr_f3d2b4a8-e7b0-463f-8c83-a9ebdbc31156_p2" x="7275.5" y="3667.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_b4521f58-a205-4065-b424-6d98d932d9fa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4885.0" y="16850.387"/> <port id="pr_b4521f58-a205-4065-b424-6d98d932d9fa_p1" x="4905.0" y="16855.387"/> <port id="pr_b4521f58-a205-4065-b424-6d98d932d9fa_p2" x="4875.0" y="16855.387"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d6a2212-5c94-410e-aad9-2984f65490f8"> <bbox w="10.0" h="10.0" x="18886.777" y="10795.398"/> <port id="pr_5d6a2212-5c94-410e-aad9-2984f65490f8_p1" x="18891.777" y="10785.398"/> <port id="pr_5d6a2212-5c94-410e-aad9-2984f65490f8_p2" x="18891.777" y="10815.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bc27905e-da11-4516-be53-215b9a5fd9c5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9192621</p> <p>in rat1a rat fibroblasts cell line by MYC</p> <p>PMID:8955077</p> <p>in HepG3 by MYC</p> <p>PMID:15199147</p> <p>by MYC</p> <p>PMID:16782875</p> <p>by MLX:MLXIP</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bc27905e-da11-4516-be53-215b9a5fd9c5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9192621"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8955077"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15199147"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16782875"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24518.652" y="16189.921"/> <port id="pr_bc27905e-da11-4516-be53-215b9a5fd9c5_p1" x="24523.652" y="16209.921"/> <port id="pr_bc27905e-da11-4516-be53-215b9a5fd9c5_p2" x="24523.652" y="16179.921"/> </glyph> <glyph class="process" orientation="vertical" id="pr_326e85ae-5780-4ae8-885a-e6e3da517d8d"> <bbox w="10.0" h="10.0" x="14575.0" y="2590.0"/> <port id="pr_326e85ae-5780-4ae8-885a-e6e3da517d8d_p1" x="14580.0" y="2610.0"/> <port id="pr_326e85ae-5780-4ae8-885a-e6e3da517d8d_p2" x="14580.0" y="2580.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_004c2463-957e-4395-9f2c-9f252fd4c677"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18490439</p> <p>ENO1 gene products interact with NOTCH1 intracellular domain, thus competing with YY1, to repress MYC expression</p> <p>PMID:19219071</p> <p>MYC regulation by FUBP1</p> <p>PMID:2191300</p> <p>in WEHI 231 murine B-lymphoma cells, by NFkappaB</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_004c2463-957e-4395-9f2c-9f252fd4c677"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18490439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19219071"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2191300"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22655.58" y="16157.75"/> <port id="pr_004c2463-957e-4395-9f2c-9f252fd4c677_p1" x="22660.58" y="16177.75"/> <port id="pr_004c2463-957e-4395-9f2c-9f252fd4c677_p2" x="22660.58" y="16147.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e4d8c172-ca16-4791-a8db-e7ad8ed68167"> <bbox w="10.0" h="10.0" x="12315.0" y="5480.0"/> <port id="pr_e4d8c172-ca16-4791-a8db-e7ad8ed68167_p1" x="12320.0" y="5500.0"/> <port id="pr_e4d8c172-ca16-4791-a8db-e7ad8ed68167_p2" x="12320.0" y="5470.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a04087d3-348d-411e-b787-45a4a58fa027"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a04087d3-348d-411e-b787-45a4a58fa027"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="29206.56" y="11489.984"/> <port id="pr_a04087d3-348d-411e-b787-45a4a58fa027_p1" x="29226.56" y="11494.984"/> <port id="pr_a04087d3-348d-411e-b787-45a4a58fa027_p2" x="29196.56" y="11494.984"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c56bb95f-8a18-49b2-97fe-4c990da20354"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="9823.519" y="15304.65"/> <port id="pr_c56bb95f-8a18-49b2-97fe-4c990da20354_p1" x="9813.519" y="15309.65"/> <port id="pr_c56bb95f-8a18-49b2-97fe-4c990da20354_p2" x="9843.519" y="15309.65"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5a0c5481-aff4-498f-a746-6c6a8320725e"> <bbox w="10.0" h="10.0" x="15202.269" y="10147.715"/> <port id="pr_5a0c5481-aff4-498f-a746-6c6a8320725e_p1" x="15192.269" y="10152.715"/> <port id="pr_5a0c5481-aff4-498f-a746-6c6a8320725e_p2" x="15222.269" y="10152.715"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0aa748f8-c2e9-4b8c-9782-b952671cdf44"> <bbox w="10.0" h="10.0" x="6095.0" y="3300.0"/> <port id="pr_0aa748f8-c2e9-4b8c-9782-b952671cdf44_p1" x="6100.0" y="3290.0"/> <port id="pr_0aa748f8-c2e9-4b8c-9782-b952671cdf44_p2" x="6100.0" y="3320.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_902e2c56-c2f2-485d-a992-edf2a40c7374"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16200211</p> <p>NDUFAF2</p> <p>PMID:17344420</p> <p>ECSIT:NDUFAF1</p> <p>PMID:20816094</p> <p>involvement of ACAD9 in the ECSIT:NDUFAF1 complex</p> <p>PMID:16218961</p> <p>NDUFAF1</p> <p>PMID:15526035</p> <p>AIF deficient cells exhibit a decrease content of complex I. It was proposed that AIF has a role in the biogenesis or maintenance of complex I</p> <p>PMID:20025615</p> <p>comprehensive review about complex I</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_902e2c56-c2f2-485d-a992-edf2a40c7374"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16200211"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17344420"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20816094"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16218961"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15526035"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20025615"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18257.482" y="13782.057"/> <port id="pr_902e2c56-c2f2-485d-a992-edf2a40c7374_p1" x="18247.482" y="13787.057"/> <port id="pr_902e2c56-c2f2-485d-a992-edf2a40c7374_p2" x="18277.482" y="13787.057"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af12e237-e8b7-4caa-ab7d-580546eb9dcb"> <bbox w="10.0" h="10.0" x="30341.0" y="3735.0"/> <port id="pr_af12e237-e8b7-4caa-ab7d-580546eb9dcb_p1" x="30346.0" y="3725.0"/> <port id="pr_af12e237-e8b7-4caa-ab7d-580546eb9dcb_p2" x="30346.0" y="3755.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_1b783c95-4359-4888-8815-eeba012a2dc3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1b783c95-4359-4888-8815-eeba012a2dc3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20592490"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3923.9375" y="16987.832"/> <port id="pr_1b783c95-4359-4888-8815-eeba012a2dc3_p1" x="3913.9375" y="16992.832"/> <port id="pr_1b783c95-4359-4888-8815-eeba012a2dc3_p2" x="3943.9375" y="16992.832"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_91b3af07-f288-4d43-8329-80a02fe870c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylation by ATM and ATR at T847, S327</p> <p>Phosphorylation at S327 by ATM and ATR are essential for shift from A_NHEJ to HR</p> <p>Phosphorylation by CDC2(CDK1) in cell cycle dep manner to shift from C_NHEJ ot HR at: Ser 267</p> <p>This phosphorylation allows resection that initiates HR and blocks binding of Ku70/Ku80 complex that initiates C_NHEJ.</p> <p>PMID:19357644, PMID:15485915, PMID:19490890, PMID:18716619 (for CDK-dep phosph), PMID:20051983 </p> <p>BRCA1 and CtIP interactions make shift from A_NHEJ and C_NHEJ toward HR</p> <p>Resected DNA in HR is a positive trigger for amplification of the HR pathway (positive loop):</p> <p>PMID:20051983</p> <p>Only when CDKs are fully active, this fully activates HR during S and G2 phases:</p> <p>PMID:18511906, PMID:18716619</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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class="uncertain process" orientation="vertical" id="pr_3a25eb3c-9aa7-4ca9-9cee-179b7706a282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5912.5" y="13675.0"/> <port id="pr_3a25eb3c-9aa7-4ca9-9cee-179b7706a282_p1" x="5917.5" y="13695.0"/> <port id="pr_3a25eb3c-9aa7-4ca9-9cee-179b7706a282_p2" x="5917.5" y="13665.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ef2d0f5-bd6a-491d-b896-ad26996d133a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14664696</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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y="11276.0"/> <port id="pr_31eb3668-3ebc-4779-bd19-8097ac48d33d_p2" x="2832.5" y="11246.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_54b4d212-13c2-4cb5-adcc-3fe8e5d6b829"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4885.0" y="16803.8"/> <port id="pr_54b4d212-13c2-4cb5-adcc-3fe8e5d6b829_p1" x="4905.0" y="16808.8"/> <port id="pr_54b4d212-13c2-4cb5-adcc-3fe8e5d6b829_p2" x="4875.0" y="16808.8"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9aec50f1-6ea3-41ce-8219-139b70afd1b1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:19225151</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9aec50f1-6ea3-41ce-8219-139b70afd1b1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19225151"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14082.167" y="19885.5"/> <port id="pr_9aec50f1-6ea3-41ce-8219-139b70afd1b1_p1" x="14072.167" y="19890.5"/> <port id="pr_9aec50f1-6ea3-41ce-8219-139b70afd1b1_p2" x="14102.167" y="19890.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0fd84fec-a064-4b5e-aed5-4ac286354973"> <bbox w="10.0" h="10.0" x="25168.81" y="13410.5"/> <port id="pr_0fd84fec-a064-4b5e-aed5-4ac286354973_p1" x="25173.81" y="13430.5"/> <port id="pr_0fd84fec-a064-4b5e-aed5-4ac286354973_p2" x="25173.81" y="13400.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_adffc6f8-e8b5-4193-8de7-09d85e2c4dfa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:27452906</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_adffc6f8-e8b5-4193-8de7-09d85e2c4dfa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27452906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6163.25" y="10308.25"/> <port id="pr_adffc6f8-e8b5-4193-8de7-09d85e2c4dfa_p1" x="6168.25" y="10328.25"/> <port id="pr_adffc6f8-e8b5-4193-8de7-09d85e2c4dfa_p2" x="6168.25" y="10298.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b518f10b-9e27-46ab-984b-17f4eec515ec"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22659456 PMID:22007144 PMID:19171760 PMID:10931041</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b518f10b-9e27-46ab-984b-17f4eec515ec"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22659456"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22007144"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19171760"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10931041"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23200.645" y="18532.0"/> <port id="pr_b518f10b-9e27-46ab-984b-17f4eec515ec_p1" x="23205.645" y="18522.0"/> <port id="pr_b518f10b-9e27-46ab-984b-17f4eec515ec_p2" x="23205.645" y="18552.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_807c830d-7a51-4587-bbcc-04b74563010d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>DYRK1A-mediated phosphorylation</p> <p>PMID:21965663</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_807c830d-7a51-4587-bbcc-04b74563010d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21965663"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18190.06" y="18495.5"/> <port id="pr_807c830d-7a51-4587-bbcc-04b74563010d_p1" x="18195.06" y="18515.5"/> <port id="pr_807c830d-7a51-4587-bbcc-04b74563010d_p2" x="18195.06" y="18485.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8d930845-b1bc-4d65-b30b-822b4ade6100"> <bbox w="10.0" h="10.0" x="13445.0" y="2488.75"/> <port id="pr_8d930845-b1bc-4d65-b30b-822b4ade6100_p1" x="13450.0" y="2508.75"/> <port id="pr_8d930845-b1bc-4d65-b30b-822b4ade6100_p2" x="13450.0" y="2478.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6d016e61-50cf-4849-ac97-279374858893"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TDG SUMOlation causes dissociation of TDG from DNA to allow the next step of BER pathway by APE proteins.</p> <p>PMID:16626738</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4721.9395" y="17690.0"/> <port id="pr_9a1afbf6-5eb8-48fc-ade6-2ff4c3f19942_p1" x="4726.9395" y="17680.0"/> <port id="pr_9a1afbf6-5eb8-48fc-ade6-2ff4c3f19942_p2" x="4726.9395" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f3cedb79-adb0-42cd-8437-01b69dfa9def"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:22761862</p> <p>Swi/SNF complex </p> <p>PMID:22290435</p> <p>NuRD complex:</p> <p>b-catenin/CTBP/Hipk2/LEF1 complex</p> <p>PMID:17666529</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> 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id="pr_f3cedb79-adb0-42cd-8437-01b69dfa9def_p1" x="22493.56" y="21916.5"/> <port id="pr_f3cedb79-adb0-42cd-8437-01b69dfa9def_p2" x="22523.56" y="21916.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e9880acf-3747-40c7-b162-bfd2c725f1fc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2190.0" y="15092.352"/> <port id="pr_e9880acf-3747-40c7-b162-bfd2c725f1fc_p1" x="2210.0" y="15097.352"/> <port id="pr_e9880acf-3747-40c7-b162-bfd2c725f1fc_p2" x="2180.0" y="15097.352"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f824b0a7-c005-4f43-acd8-a4e579590124"> <bbox w="10.0" h="10.0" x="5135.0" y="4556.25"/> <port id="pr_f824b0a7-c005-4f43-acd8-a4e579590124_p1" x="5140.0" y="4546.25"/> <port id="pr_f824b0a7-c005-4f43-acd8-a4e579590124_p2" x="5140.0" y="4576.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_55b6f717-3e93-4c15-82e1-85411b1ea18e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16603398</p> <p>PMID:23010170</p> <p>K63-linked polyubiquitination of RIP1 provides a scaffold for the recruitment of TGF-beta-activated kinase 1 (TAK1) binding protein 2 and 3 (TAB2 and 3),</p> <p>which finally activates TAK1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_55b6f717-3e93-4c15-82e1-85411b1ea18e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16603398"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23635.56" y="9486.625"/> <port id="pr_55b6f717-3e93-4c15-82e1-85411b1ea18e_p1" x="23640.56" y="9476.625"/> <port id="pr_55b6f717-3e93-4c15-82e1-85411b1ea18e_p2" x="23640.56" y="9506.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4a2a36af-0131-4f3f-bf9b-65bccb30fb66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23073834</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4a2a36af-0131-4f3f-bf9b-65bccb30fb66"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27690.621" y="12606.0"/> <port id="pr_4a2a36af-0131-4f3f-bf9b-65bccb30fb66_p1" x="27695.621" y="12596.0"/> <port id="pr_4a2a36af-0131-4f3f-bf9b-65bccb30fb66_p2" x="27695.621" y="12626.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fdeaaeb8-5940-4429-a1c4-497dc1092ff1"> <bbox w="10.0" h="10.0" x="738.75" y="3944.75"/> <port id="pr_fdeaaeb8-5940-4429-a1c4-497dc1092ff1_p1" x="743.75" y="3934.75"/> <port id="pr_fdeaaeb8-5940-4429-a1c4-497dc1092ff1_p2" x="743.75" y="3964.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5530d991-f495-4cb2-bba0-b66418e9217e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3703.0186" y="14555.0"/> <port id="pr_5530d991-f495-4cb2-bba0-b66418e9217e_p1" x="3708.0186" y="14575.0"/> <port id="pr_5530d991-f495-4cb2-bba0-b66418e9217e_p2" x="3708.0186" y="14545.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_53553e04-468d-42cc-9de0-d633e5de18ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="28259.06" y="10444.0"/> <port id="pr_53553e04-468d-42cc-9de0-d633e5de18ca_p1" x="28264.06" y="10434.0"/> <port id="pr_53553e04-468d-42cc-9de0-d633e5de18ca_p2" x="28264.06" y="10464.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_633a7a71-f9dc-4609-bddf-d54ae0cbd594"> <bbox w="10.0" h="10.0" x="12137.5" y="8205.0"/> <port id="pr_633a7a71-f9dc-4609-bddf-d54ae0cbd594_p1" x="12127.5" y="8210.0"/> <port id="pr_633a7a71-f9dc-4609-bddf-d54ae0cbd594_p2" x="12157.5" y="8210.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_3a4624ff-3c8b-4e8f-8647-7bd566ddb442"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6379.55" y="14279.266"/> <port id="pr_3a4624ff-3c8b-4e8f-8647-7bd566ddb442_p1" x="6369.55" y="14284.266"/> <port id="pr_3a4624ff-3c8b-4e8f-8647-7bd566ddb442_p2" x="6399.55" y="14284.266"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e3695f76-09ca-424a-8737-7bf5e8bd5185"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:10613913</p> <p>Cingulin is a functionally important component of TJ.</p> <p>It interacts with ZO-1, ZO-2, ZO-3, and myosin thus links the submembrane plaque domain of TJ to the actomyosin cytoskeleton</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e3695f76-09ca-424a-8737-7bf5e8bd5185"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613913"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1790.49" y="14599.734"/> <port id="pr_e3695f76-09ca-424a-8737-7bf5e8bd5185_p1" x="1780.49" y="14604.734"/> <port id="pr_e3695f76-09ca-424a-8737-7bf5e8bd5185_p2" x="1810.49" y="14604.734"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f59132a8-3ea4-41cd-8866-aa86e3da4863"> <bbox w="10.0" h="10.0" x="22895.0" y="6112.5"/> <port id="pr_f59132a8-3ea4-41cd-8866-aa86e3da4863_p1" x="22900.0" y="6102.5"/> <port id="pr_f59132a8-3ea4-41cd-8866-aa86e3da4863_p2" x="22900.0" y="6132.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b6b6f83b-6123-4486-ab2e-69c0dd9e7bdc"> <bbox w="10.0" h="10.0" x="21470.258" y="1357.0"/> <port id="pr_b6b6f83b-6123-4486-ab2e-69c0dd9e7bdc_p1" x="21475.258" y="1347.0"/> <port id="pr_b6b6f83b-6123-4486-ab2e-69c0dd9e7bdc_p2" x="21475.258" y="1377.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2b4a04ec-e8b3-4197-a22d-7182e95cc050"> <bbox w="10.0" h="10.0" x="20102.56" y="10204.75"/> <port id="pr_2b4a04ec-e8b3-4197-a22d-7182e95cc050_p1" x="20107.56" y="10194.75"/> <port id="pr_2b4a04ec-e8b3-4197-a22d-7182e95cc050_p2" x="20107.56" y="10224.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_68b5fa20-50a0-4b11-8d6b-4e43b937e579"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylation by both ERKs and their downstream RSKs can stabilise the c-FOS protein for several hours. The combination of these phosphorylations allows c-FOS sustained activity.</p> <p>PMID:16393692</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_68b5fa20-50a0-4b11-8d6b-4e43b937e579"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16393692"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="8589.643" y="20479.668"/> <port id="pr_68b5fa20-50a0-4b11-8d6b-4e43b937e579_p1" x="8594.643" 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e077fba6-05a2-4d71-bade-64b1008654a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22595524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6594.0" y="12112.986"/> <port id="pr_e077fba6-05a2-4d71-bade-64b1008654a4_p1" x="6584.0" y="12117.986"/> <port id="pr_e077fba6-05a2-4d71-bade-64b1008654a4_p2" x="6614.0" y="12117.986"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_16ebf801-503d-42cf-8bed-101698707126"> <bbox w="10.0" h="10.0" x="13368.145" y="16374.351"/> <port id="pr_16ebf801-503d-42cf-8bed-101698707126_p1" x="13388.145" y="16379.351"/> <port id="pr_16ebf801-503d-42cf-8bed-101698707126_p2" x="13358.145" y="16379.351"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_480eb1c8-b327-4b9b-9144-eafd16d05d00"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2888.5" y="16377.5"/> <port id="pr_480eb1c8-b327-4b9b-9144-eafd16d05d00_p1" x="2908.5" y="16382.5"/> <port id="pr_480eb1c8-b327-4b9b-9144-eafd16d05d00_p2" x="2878.5" y="16382.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_890343f7-6588-4d0a-806d-f0da87f7e9dc"> <bbox w="10.0" h="10.0" x="4813.1543" y="4348.575"/> <port id="pr_890343f7-6588-4d0a-806d-f0da87f7e9dc_p1" x="4818.1543" y="4338.575"/> <port id="pr_890343f7-6588-4d0a-806d-f0da87f7e9dc_p2" x="4818.1543" y="4368.575"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7a1681b8-e8f9-4969-8758-bdb77efc412e"> <bbox w="10.0" h="10.0" x="29249.06" y="14349.0"/> <port id="pr_7a1681b8-e8f9-4969-8758-bdb77efc412e_p1" x="29254.06" y="14339.0"/> <port id="pr_7a1681b8-e8f9-4969-8758-bdb77efc412e_p2" x="29254.06" y="14369.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e5ef6bef-1a09-4233-9b4d-3c571a5ad2ce"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19015259</p> <p>TIGAR</p> <p>PMID:12546687</p> <p>AMP review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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class="process" orientation="horizontal" id="pr_cf9616d9-67d6-46c2-ab22-87ff90fe73e0"> <bbox w="10.0" h="10.0" x="28121.326" y="16299.0"/> <port id="pr_cf9616d9-67d6-46c2-ab22-87ff90fe73e0_p1" x="28111.326" y="16304.0"/> <port id="pr_cf9616d9-67d6-46c2-ab22-87ff90fe73e0_p2" x="28141.326" y="16304.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8f1bc59e-8c13-4943-b33d-42afb354acd1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Wnt5 can binds to LRP5/6 and in this way, physiologically inhibits non-canonical pathway. In Xenopus and mice.</p> <p>PMID:19056682</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f1bc59e-8c13-4943-b33d-42afb354acd1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19056682"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17506.56" y="17900.0"/> <port id="pr_8f1bc59e-8c13-4943-b33d-42afb354acd1_p1" x="17496.56" y="17905.0"/> <port id="pr_8f1bc59e-8c13-4943-b33d-42afb354acd1_p2" x="17526.56" y="17905.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a1cdbcb5-bc51-45ff-aad1-0366d2d64866"> <bbox w="10.0" h="10.0" x="20733.246" y="6341.25"/> <port id="pr_a1cdbcb5-bc51-45ff-aad1-0366d2d64866_p1" x="20738.246" y="6361.25"/> <port id="pr_a1cdbcb5-bc51-45ff-aad1-0366d2d64866_p2" x="20738.246" y="6331.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d2a029d2-413b-4c6b-901f-adc976c83252"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:21670566</p> <p>PMID:17593948</p> <p>There are more mechanisms to activate Calpain</p> <p>PMID:16129881</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2a029d2-413b-4c6b-901f-adc976c83252"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21670566"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17593948"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16129881"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15910.561" y="18198.0"/> <port id="pr_d2a029d2-413b-4c6b-901f-adc976c83252_p1" x="15915.561" y="18188.0"/> <port id="pr_d2a029d2-413b-4c6b-901f-adc976c83252_p2" x="15915.561" y="18218.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fe36910d-a486-4993-acfb-2e1a04084134"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:MYC stimulates CDK2 activity</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fe36910d-a486-4993-acfb-2e1a04084134"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:MYC"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3668.4507" y="14530.5"/> <port id="pr_fe36910d-a486-4993-acfb-2e1a04084134_p1" x="3673.4507" y="14550.5"/> <port id="pr_fe36910d-a486-4993-acfb-2e1a04084134_p2" x="3673.4507" y="14520.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_748b292e-2765-4928-8d79-9725bba25564"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19686080</p> <p>POLH activates D-loop extention</p> <p>PoLN:HEL308* participate in HR and Fanconi. 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modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:18695042</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7cf25c38-864c-4d66-b0a4-dbc08860e0f9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18695042"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27488.56" y="22090.625"/> <port id="pr_7cf25c38-864c-4d66-b0a4-dbc08860e0f9_p1" x="27478.56" y="22095.625"/> 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remodelling.</p> <p>PMID:15761148</p> <p>PARD6A interacts with TGFB receptors and is phsophorylated by TGFBRIII. </p> <p>Phosphorylation of Par6 is required for TGFB-dependent EMT in mammary gland epithelial cells </p> <p>This phosphorylation controls the interaction of PARD6A with the E3 ubiquitin ligase Smurf1. </p> <p>Smurf1, in turn, targets GTPase RhoA for degradation, thereby leading to a loss of tight junctions. </p> <p>PMID:22949611</p> <p>Signaling molecules act directly on polarity proteins, bypassing transcription factors such as Snail and Zeb1: </p> <p>TGFBRI binds to the tight junction protein Occludin and locally assembles into a complex containing Par6.</p> <p>Activated TGFBRII phosphorylates Par6, which binds to Smurf1 and causes RhoA ubiquitylation and the dissolution of junctions.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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x="1703.0" y="14476.237"/> <port id="pr_9e935903-17df-4892-9424-18649fd89387_p2" x="1733.0" y="14476.237"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_e069a179-3fd5-4821-922e-2d15d256f7b6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20712011</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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<head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20093472</p> <p>PRR binds to subunits ATP6V0C and D those are subunits of the V-ATPase.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f96f7a2a-e402-4f88-8990-e63bcda6fb43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20093472"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" 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y="12705.0"/> <port id="pr_bd4992fa-9c53-4082-be8a-e33610465c4d_p2" x="2861.751" y="12675.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d1792469-37b3-43b3-bbd9-844fb4e2746d"> <bbox w="10.0" h="10.0" x="2491.5" y="9278.5"/> <port id="pr_d1792469-37b3-43b3-bbd9-844fb4e2746d_p1" x="2511.5" y="9283.5"/> <port id="pr_d1792469-37b3-43b3-bbd9-844fb4e2746d_p2" x="2481.5" y="9283.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3a1571ac-38c0-407f-9ac6-99b1fef5f20d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>Transcription complex containing b-catenin and P300</p> <p>PMID:17050667 PMID:21767405</p> <p>RAD6B is overexpressed in breast cancer</p> <p>PMID:11929833</p> <p>RAD6B upregulated in invasive breast cancer</p> <p>PMID:22705350</p> </body> </html> </notes> 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modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:ECM</p> <p>References:</p> <p>PMID:11792802</p> <p>PMID:8893010</p> <p>All mammalian R-Smads and Smad4 reside in the cytoplasm</p> <p>Phosphorylated R-Smads quickly form complexes with Smad4 and possibly prior to nuclear translocation</p> <p>PMID:9389648</p> <p>Nuclear translocation of R-Smads is independent of Smad4</p> <p>Whereas translocation of Smad4 after TGFB siglaing seems to require the presence of an activated R-Smad</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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y="4375.3125"/> <port id="pr_f89bdc32-e029-405d-a144-00f9e13d36f6_p2" x="5815.0" y="4405.3125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_06444305-55ab-4be1-8276-43d0c29cda40"> <bbox w="10.0" h="10.0" x="26347.967" y="13664.0"/> <port id="pr_06444305-55ab-4be1-8276-43d0c29cda40_p1" x="26352.967" y="13684.0"/> <port id="pr_06444305-55ab-4be1-8276-43d0c29cda40_p2" x="26352.967" y="13654.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2f1f83df-0f4f-4c14-8870-3e81454725a7"> <bbox w="10.0" h="10.0" x="3179.056" y="9068.006"/> <port id="pr_2f1f83df-0f4f-4c14-8870-3e81454725a7_p1" x="3169.056" y="9073.006"/> <port id="pr_2f1f83df-0f4f-4c14-8870-3e81454725a7_p2" x="3199.056" y="9073.006"/> </glyph> <glyph class="process" orientation="vertical" id="pr_17c3755e-9c17-43da-af4a-6f19791e8b29"> <bbox w="10.0" h="10.0" x="12008.134" y="7724.375"/> <port id="pr_17c3755e-9c17-43da-af4a-6f19791e8b29_p1" x="12013.134" y="7714.375"/> <port id="pr_17c3755e-9c17-43da-af4a-6f19791e8b29_p2" x="12013.134" y="7744.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8f05f851-3ab1-4665-bc40-d4e1d2d01dd2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12665579</p> <p>caspase cleaved c-Abl lacks its nuclear export signal and actin binding</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f05f851-3ab1-4665-bc40-d4e1d2d01dd2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12665579"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24260.31" y="15246.5"/> <port id="pr_8f05f851-3ab1-4665-bc40-d4e1d2d01dd2_p1" x="24265.31" y="15236.5"/> <port id="pr_8f05f851-3ab1-4665-bc40-d4e1d2d01dd2_p2" x="24265.31" y="15266.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_65e10f46-06d7-4bde-9ac1-0dabad90faae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:11154281</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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y="1843.75"/> <port id="pr_f600eeb1-f010-4553-b8f9-081a2edfc40d_p2" x="6949.5586" y="1813.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b86c3cc3-89e5-418d-978c-07baeb2b2dff"> <bbox w="10.0" h="10.0" x="30585.984" y="2127.5"/> <port id="pr_b86c3cc3-89e5-418d-978c-07baeb2b2dff_p1" x="30605.984" y="2132.5"/> <port id="pr_b86c3cc3-89e5-418d-978c-07baeb2b2dff_p2" x="30575.984" y="2132.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ffc601b4-b3cc-428a-b685-cbb51e531ae8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:1829648</p> <p>in human monocytes</p> <p>PMID:8096091</p> <p>in Jurkat</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5747.1094" y="16094.758"/> <port id="pr_388eef59-3633-4eaf-89c5-10df7099c442_p1" x="5737.1094" y="16099.758"/> <port id="pr_388eef59-3633-4eaf-89c5-10df7099c442_p2" x="5767.1094" y="16099.758"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9b6d54bb-b548-4843-9a28-8eb59c5a3ada"> <bbox w="10.0" h="10.0" x="27854.06" y="15521.0"/> <port id="pr_9b6d54bb-b548-4843-9a28-8eb59c5a3ada_p1" x="27844.06" y="15526.0"/> <port id="pr_9b6d54bb-b548-4843-9a28-8eb59c5a3ada_p2" x="27874.06" y="15526.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a7a0c9b3-2e10-4fca-ae94-21f930420e1d"> <bbox w="10.0" h="10.0" x="6354.5" y="7145.3574"/> <port id="pr_a7a0c9b3-2e10-4fca-ae94-21f930420e1d_p1" x="6374.5" y="7150.3574"/> <port id="pr_a7a0c9b3-2e10-4fca-ae94-21f930420e1d_p2" x="6344.5" y="7150.3574"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1241d2c5-3ea3-47d3-ad80-28ff9a300cb2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4203.218" y="14530.0"/> <port id="pr_1241d2c5-3ea3-47d3-ad80-28ff9a300cb2_p1" x="4208.218" y="14550.0"/> <port id="pr_1241d2c5-3ea3-47d3-ad80-28ff9a300cb2_p2" x="4208.218" y="14520.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_383e9a25-421c-42d3-ab6f-195b959d812e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15095404</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_4504d100-d83b-44d3-80ec-b6542ac963bd"> <bbox w="10.0" h="10.0" x="12055.234" y="9619.137"/> <port id="pr_4504d100-d83b-44d3-80ec-b6542ac963bd_p1" x="12075.234" y="9624.137"/> <port id="pr_4504d100-d83b-44d3-80ec-b6542ac963bd_p2" x="12045.234" y="9624.137"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7a68deb8-c05c-4142-91e0-634168291d73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:19218564, PMID:17928811</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7a68deb8-c05c-4142-91e0-634168291d73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19218564"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17928811"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="16755.32" y="20907.25"/> <port id="pr_7a68deb8-c05c-4142-91e0-634168291d73_p1" x="16760.32" y="20897.25"/> <port id="pr_7a68deb8-c05c-4142-91e0-634168291d73_p2" x="16760.32" y="20927.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ab55e3ca-a8f7-436f-ad27-7b694021b8aa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ab55e3ca-a8f7-436f-ad27-7b694021b8aa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6158.5" y="14691.5"/> <port id="pr_ab55e3ca-a8f7-436f-ad27-7b694021b8aa_p1" x="6148.5" y="14696.5"/> <port id="pr_ab55e3ca-a8f7-436f-ad27-7b694021b8aa_p2" x="6178.5" y="14696.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d804b4d3-1bc1-48cb-8575-da6587e408bf"> <bbox w="10.0" h="10.0" x="23268.125" y="3737.5"/> <port id="pr_d804b4d3-1bc1-48cb-8575-da6587e408bf_p1" x="23273.125" y="3757.5"/> <port id="pr_d804b4d3-1bc1-48cb-8575-da6587e408bf_p2" x="23273.125" y="3727.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_32690e56-69c4-4bb0-b760-8e1cc217e5c2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>The most known RhoB_GDIs are ARHGDIA and ARHGDIG.</p> <p>They bind to RhoB and suppress its activation.</p> <p>PMID:11368848</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_32690e56-69c4-4bb0-b760-8e1cc217e5c2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11368848"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5688.25" y="14331.125"/> <port id="pr_32690e56-69c4-4bb0-b760-8e1cc217e5c2_p1" x="5708.25" y="14336.125"/> <port id="pr_32690e56-69c4-4bb0-b760-8e1cc217e5c2_p2" x="5678.25" y="14336.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_54b696ff-aaca-4962-8bb2-f366007b0267"> <bbox w="10.0" h="10.0" x="3876.9365" y="4979.25"/> <port id="pr_54b696ff-aaca-4962-8bb2-f366007b0267_p1" x="3881.9365" y="4969.25"/> <port id="pr_54b696ff-aaca-4962-8bb2-f366007b0267_p2" x="3881.9365" y="4999.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_48279856-92dc-4f5b-9f0e-da7210e83417"> <bbox w="10.0" h="10.0" x="19858.867" y="14926.75"/> <port id="pr_48279856-92dc-4f5b-9f0e-da7210e83417_p1" x="19863.867" y="14946.75"/> <port id="pr_48279856-92dc-4f5b-9f0e-da7210e83417_p2" x="19863.867" y="14916.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_05b317f1-7816-4a6d-91be-a25757921c18"> <bbox w="10.0" h="10.0" x="19331.81" y="16792.0"/> <port id="pr_05b317f1-7816-4a6d-91be-a25757921c18_p1" x="19321.81" y="16797.0"/> <port id="pr_05b317f1-7816-4a6d-91be-a25757921c18_p2" x="19351.81" y="16797.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b123a739-f254-4c8c-b898-9d763c0984eb"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10671558</p> <p>in vitro with recombinant proteins</p> <p>cleavage of recombinant CASP9 by cellular extract, in a Ca2+ dose-dependent manner</p> <p>in Hela cell extracts, preincubation with Ca2+ and CAPN2 prevents Cyt_c-mediated CASP3 cleavage</p> <p>in SH-SY5Y human neuroblastoma cells Ca2+ ionophore (A23187) treatment</p> <p>CAPN2-cleaved CASP9 is inactive</p> <p>CASP78 are also cleaved by CAPN2, but the effect on their activity is unknown</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21152425 PMID:19244247</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_31826efd-d518-4c9d-bc4b-ed7b32b859d7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21152425"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19244247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23367.06" y="18401.865"/> <port id="pr_31826efd-d518-4c9d-bc4b-ed7b32b859d7_p1" x="23387.06" y="18406.865"/> <port id="pr_31826efd-d518-4c9d-bc4b-ed7b32b859d7_p2" x="23357.06" y="18406.865"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3c52123-c270-46fe-8244-7684f36787fe"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19788416</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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w="10.0" h="10.0" x="8734.521" y="15442.9"/> <port id="pr_e04d362c-22dc-46d7-bba8-0e60d96aaa03_p1" x="8754.521" y="15447.9"/> <port id="pr_e04d362c-22dc-46d7-bba8-0e60d96aaa03_p2" x="8724.521" y="15447.9"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f64d2df7-ee7d-43e9-8def-b444e7a2676e"> <bbox w="10.0" h="10.0" x="29521.0" y="2500.75"/> <port id="pr_f64d2df7-ee7d-43e9-8def-b444e7a2676e_p1" x="29526.0" y="2490.75"/> <port id="pr_f64d2df7-ee7d-43e9-8def-b444e7a2676e_p2" x="29526.0" y="2520.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_97b1a5d9-983e-4424-8bb7-79195d823515"> <bbox w="10.0" h="10.0" x="27974.0" y="3611.4287"/> <port id="pr_97b1a5d9-983e-4424-8bb7-79195d823515_p1" x="27994.0" y="3616.4287"/> <port id="pr_97b1a5d9-983e-4424-8bb7-79195d823515_p2" x="27964.0" y="3616.4287"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c291972d-6d65-40ab-8896-6317ee194d72"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3892.5" y="14531.0"/> <port id="pr_c291972d-6d65-40ab-8896-6317ee194d72_p1" x="3897.5" y="14551.0"/> <port id="pr_c291972d-6d65-40ab-8896-6317ee194d72_p2" x="3897.5" y="14521.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0a9a8802-6f21-488d-844f-694ad11d0b9b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:20956384</p> <p>PMID:19592253</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<bbox w="10.0" h="10.0" x="27139.0" y="2879.9375"/> <port id="pr_5383abbd-95be-458a-aa4a-952fc189bea1_p1" x="27159.0" y="2884.9375"/> <port id="pr_5383abbd-95be-458a-aa4a-952fc189bea1_p2" x="27129.0" y="2884.9375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_56b29ff7-3f12-4256-9c6a-051557138eb6"> <bbox w="10.0" h="10.0" x="22335.06" y="9909.865"/> <port id="pr_56b29ff7-3f12-4256-9c6a-051557138eb6_p1" x="22355.06" y="9914.865"/> <port id="pr_56b29ff7-3f12-4256-9c6a-051557138eb6_p2" x="22325.06" y="9914.865"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b0186d3e-c925-4e87-98d5-2c0c36a41e93"> <bbox w="10.0" h="10.0" x="14475.0" y="2575.0"/> <port id="pr_b0186d3e-c925-4e87-98d5-2c0c36a41e93_p1" x="14480.0" y="2595.0"/> <port id="pr_b0186d3e-c925-4e87-98d5-2c0c36a41e93_p2" x="14480.0" y="2565.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_e7d20bed-2140-4f3f-a907-63fc56b6fad4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11174.552" y="17071.389"/> <port id="pr_e7d20bed-2140-4f3f-a907-63fc56b6fad4_p1" x="11164.552" y="17076.389"/> <port id="pr_e7d20bed-2140-4f3f-a907-63fc56b6fad4_p2" x="11194.552" y="17076.389"/> </glyph> <glyph class="process" orientation="vertical" id="pr_40746404-7545-4a75-b266-66dda78b931b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_40746404-7545-4a75-b266-66dda78b931b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21035.31" y="22454.25"/> <port id="pr_40746404-7545-4a75-b266-66dda78b931b_p1" x="21040.31" y="22444.25"/> <port id="pr_40746404-7545-4a75-b266-66dda78b931b_p2" x="21040.31" y="22474.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bd9bbcda-8a2a-4a73-85f0-caaea3bde60c"> <bbox w="10.0" h="10.0" x="20987.81" y="13519.666"/> <port id="pr_bd9bbcda-8a2a-4a73-85f0-caaea3bde60c_p1" x="20977.81" y="13524.666"/> <port id="pr_bd9bbcda-8a2a-4a73-85f0-caaea3bde60c_p2" x="21007.81" y="13524.666"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fd1dd6a0-271a-4f15-a0fb-fae3c9281694"> <bbox w="10.0" h="10.0" x="27181.0" y="2990.0"/> <port id="pr_fd1dd6a0-271a-4f15-a0fb-fae3c9281694_p1" x="27186.0" y="2980.0"/> <port id="pr_fd1dd6a0-271a-4f15-a0fb-fae3c9281694_p2" x="27186.0" y="3010.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6b2d6c6a-c925-41f1-90ef-ffe1cfb709fb"> <bbox w="10.0" h="10.0" x="20430.85" y="15937.311"/> <port id="pr_6b2d6c6a-c925-41f1-90ef-ffe1cfb709fb_p1" x="20435.85" y="15957.311"/> <port id="pr_6b2d6c6a-c925-41f1-90ef-ffe1cfb709fb_p2" x="20435.85" y="15927.311"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4522efdc-9cfe-486a-a0d6-44d4f654af16"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1274.0" y="12588.82"/> <port id="pr_4522efdc-9cfe-486a-a0d6-44d4f654af16_p1" x="1264.0" y="12593.82"/> <port id="pr_4522efdc-9cfe-486a-a0d6-44d4f654af16_p2" x="1294.0" y="12593.82"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8f31ebd1-196f-46bf-9a51-9de5bf230fe2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:8051093</p> <p>in Hela cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8f31ebd1-196f-46bf-9a51-9de5bf230fe2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8051093"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23733.207" y="16158.398"/> <port id="pr_8f31ebd1-196f-46bf-9a51-9de5bf230fe2_p1" x="23738.207" y="16178.398"/> <port id="pr_8f31ebd1-196f-46bf-9a51-9de5bf230fe2_p2" x="23738.207" y="16148.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fbfe7279-8157-492e-906c-02e4cce44e4d"> <bbox w="10.0" h="10.0" x="18281.56" y="18975.0"/> <port id="pr_fbfe7279-8157-492e-906c-02e4cce44e4d_p1" x="18286.56" y="18965.0"/> <port id="pr_fbfe7279-8157-492e-906c-02e4cce44e4d_p2" x="18286.56" y="18995.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d5e68f44-51bb-4652-9bed-eeeac2b88ebd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15029247</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d5e68f44-51bb-4652-9bed-eeeac2b88ebd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15029247"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2186.7908" y="16923.367"/> <port id="pr_a2705597-65ea-4163-9f95-d691cd6c06dd_p1" x="2176.7908" y="16928.367"/> <port id="pr_a2705597-65ea-4163-9f95-d691cd6c06dd_p2" x="2206.7908" y="16928.367"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1569a502-81be-4996-8f71-cc11c61afd6f"> <bbox w="10.0" h="10.0" x="902.0821" y="4404.6343"/> <port id="pr_1569a502-81be-4996-8f71-cc11c61afd6f_p1" x="922.0821" y="4409.6343"/> <port id="pr_1569a502-81be-4996-8f71-cc11c61afd6f_p2" x="892.0821" y="4409.6343"/> </glyph> <glyph class="process" orientation="vertical" id="pr_86255366-199d-4e31-a1ad-cc8b8d1a4630"> <bbox w="10.0" h="10.0" x="21200.0" y="3250.0"/> <port id="pr_86255366-199d-4e31-a1ad-cc8b8d1a4630_p1" x="21205.0" y="3240.0"/> <port id="pr_86255366-199d-4e31-a1ad-cc8b8d1a4630_p2" x="21205.0" y="3270.0"/> </glyph> <glyph class="and" orientation="horizontal" id="logicglyph_84206925-a070-4100-8912-72d88902fba2"> <bbox w="20.0" h="20.0" x="22695.0" y="3172.6667"/> <port id="logicglyph_84206925-a070-4100-8912-72d88902fba2_p1" x="22725.0" y="3182.6667"/> <port id="logicglyph_84206925-a070-4100-8912-72d88902fba2_p2" x="22685.0" y="3182.6667"/> </glyph> <glyph class="process" orientation="vertical" id="pr_98ddbc31-5d9c-4c80-8960-81da76b38cc0"> <bbox w="10.0" h="10.0" x="13705.666" y="14479.143"/> <port id="pr_98ddbc31-5d9c-4c80-8960-81da76b38cc0_p1" x="13710.666" y="14469.143"/> <port id="pr_98ddbc31-5d9c-4c80-8960-81da76b38cc0_p2" x="13710.666" y="14499.143"/> </glyph> <glyph class="process" orientation="vertical" id="pr_eb3bf311-92b1-410d-83e3-776b8e4f199e"> <bbox w="10.0" h="10.0" x="4347.324" y="4394.25"/> <port id="pr_eb3bf311-92b1-410d-83e3-776b8e4f199e_p1" x="4352.324" y="4384.25"/> <port id="pr_eb3bf311-92b1-410d-83e3-776b8e4f199e_p2" x="4352.324" y="4414.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_4099d632-6b8d-475b-af7f-4b6c8b5150e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6044.75" y="14280.286"/> <port id="pr_4099d632-6b8d-475b-af7f-4b6c8b5150e1_p1" x="6064.75" y="14285.286"/> <port id="pr_4099d632-6b8d-475b-af7f-4b6c8b5150e1_p2" x="6034.75" y="14285.286"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7583eea0-12fd-4cf1-836c-70d641420939"> <bbox w="10.0" h="10.0" x="558.96985" y="2978.25"/> <port id="pr_7583eea0-12fd-4cf1-836c-70d641420939_p1" x="563.96985" y="2998.25"/> <port id="pr_7583eea0-12fd-4cf1-836c-70d641420939_p2" x="563.96985" y="2968.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e40a8b7f-9153-4b2f-a92f-add4bcc7ac62"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> <p>by NRF1 and NRF2</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e40a8b7f-9153-4b2f-a92f-add4bcc7ac62"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19767.025" y="16178.25"/> <port id="pr_e40a8b7f-9153-4b2f-a92f-add4bcc7ac62_p1" x="19772.025" y="16198.25"/> <port id="pr_e40a8b7f-9153-4b2f-a92f-add4bcc7ac62_p2" x="19772.025" y="16168.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b8ef2b4f-c034-49b3-83ff-810f82db78ba"> <bbox w="10.0" h="10.0" x="27207.06" y="9764.0"/> <port id="pr_b8ef2b4f-c034-49b3-83ff-810f82db78ba_p1" x="27227.06" y="9769.0"/> <port id="pr_b8ef2b4f-c034-49b3-83ff-810f82db78ba_p2" x="27197.06" y="9769.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b0bbc75b-10f9-4470-8505-ebabeb135110"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:25845889</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b0bbc75b-10f9-4470-8505-ebabeb135110"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25845889"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2672.56" y="21868.75"/> <port id="pr_b0bbc75b-10f9-4470-8505-ebabeb135110_p1" x="2677.56" y="21888.75"/> <port id="pr_b0bbc75b-10f9-4470-8505-ebabeb135110_p2" x="2677.56" y="21858.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_744279b9-537b-431b-8072-7532163b2b8e"> <bbox w="10.0" h="10.0" x="17465.0" y="3225.0"/> <port id="pr_744279b9-537b-431b-8072-7532163b2b8e_p1" x="17470.0" y="3215.0"/> <port id="pr_744279b9-537b-431b-8072-7532163b2b8e_p2" x="17470.0" y="3245.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_795d6454-f8b9-4815-935f-2163bc042881"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18199536</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_795d6454-f8b9-4815-935f-2163bc042881"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18199536"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12384.561" y="21857.0"/> <port id="pr_795d6454-f8b9-4815-935f-2163bc042881_p1" x="12374.561" y="21862.0"/> <port id="pr_795d6454-f8b9-4815-935f-2163bc042881_p2" x="12404.561" y="21862.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b766748a-5669-4f95-b40e-55f9f3fa9c8e"> <bbox w="10.0" h="10.0" x="21805.215" y="15953.686"/> <port id="pr_b766748a-5669-4f95-b40e-55f9f3fa9c8e_p1" x="21810.215" y="15973.686"/> <port id="pr_b766748a-5669-4f95-b40e-55f9f3fa9c8e_p2" x="21810.215" y="15943.686"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5c5f4630-15fc-41af-86a8-639caa1e901e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16608847</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5c5f4630-15fc-41af-86a8-639caa1e901e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16608847"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22332.236" y="13324.525"/> <port id="pr_5c5f4630-15fc-41af-86a8-639caa1e901e_p1" x="22352.236" y="13329.525"/> <port id="pr_5c5f4630-15fc-41af-86a8-639caa1e901e_p2" x="22322.236" y="13329.525"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e417427e-b0be-4f62-a77c-f2b89fde80cc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19131965</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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x="15535.0" y="4265.375"/> <port id="pr_edfaa84d-a2ab-437b-b9aa-ce4184fc6fef_p2" x="15505.0" y="4265.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6574aca9-0ae2-4ffb-bc86-ce239434589d"> <bbox w="10.0" h="10.0" x="13230.434" y="19158.5"/> <port id="pr_6574aca9-0ae2-4ffb-bc86-ce239434589d_p1" x="13235.434" y="19148.5"/> <port id="pr_6574aca9-0ae2-4ffb-bc86-ce239434589d_p2" x="13235.434" y="19178.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8d199802-dd68-4bbd-b878-ce79e99add09"> <bbox w="10.0" h="10.0" x="18247.828" y="1516.0"/> <port id="pr_8d199802-dd68-4bbd-b878-ce79e99add09_p1" x="18252.828" y="1506.0"/> <port id="pr_8d199802-dd68-4bbd-b878-ce79e99add09_p2" x="18252.828" y="1536.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_58778ebf-a6bc-4f96-a1a6-3f333283ac89"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2805.25" y="14394.0"/> <port id="pr_58778ebf-a6bc-4f96-a1a6-3f333283ac89_p1" x="2795.25" y="14399.0"/> <port id="pr_58778ebf-a6bc-4f96-a1a6-3f333283ac89_p2" x="2825.25" y="14399.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e8e2e784-a6bd-4a20-a254-235dfac73843"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2689.75" y="17438.75"/> <port id="pr_e8e2e784-a6bd-4a20-a254-235dfac73843_p1" x="2709.75" y="17443.75"/> <port id="pr_e8e2e784-a6bd-4a20-a254-235dfac73843_p2" x="2679.75" y="17443.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7d6b8102-3349-4883-87fb-bb2b6fcae639"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:20832730</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7d6b8102-3349-4883-87fb-bb2b6fcae639"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20832730"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12169.529" y="18269.0"/> <port id="pr_7d6b8102-3349-4883-87fb-bb2b6fcae639_p1" x="12189.529" y="18274.0"/> <port id="pr_7d6b8102-3349-4883-87fb-bb2b6fcae639_p2" x="12159.529" y="18274.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0de563bc-1cfe-4ce1-b295-2974e8d881db"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>To indicate that sumoylated NFAT1 forms as well NFAT/AP comlexes.</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="15710.561" y="20973.25"/> <port id="pr_0de563bc-1cfe-4ce1-b295-2974e8d881db_p1" x="15730.561" y="20978.25"/> <port id="pr_0de563bc-1cfe-4ce1-b295-2974e8d881db_p2" x="15700.561" y="20978.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_672727f5-97d7-4114-950b-a0dadf6c58e2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9892021</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_672727f5-97d7-4114-950b-a0dadf6c58e2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9892021"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10566.986" y="10611.353"/> <port id="pr_672727f5-97d7-4114-950b-a0dadf6c58e2_p1" x="10571.986" y="10631.353"/> <port id="pr_672727f5-97d7-4114-950b-a0dadf6c58e2_p2" x="10571.986" y="10601.353"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7c72a31e-f9c6-4d29-93dd-034fc9de16cb"> <bbox w="10.0" h="10.0" x="6301.082" y="3864.875"/> <port id="pr_7c72a31e-f9c6-4d29-93dd-034fc9de16cb_p1" x="6306.082" y="3854.875"/> <port id="pr_7c72a31e-f9c6-4d29-93dd-034fc9de16cb_p2" x="6306.082" y="3884.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9293ad14-1f73-420a-bfa1-fe26a003159b"> <bbox w="10.0" h="10.0" x="28670.227" y="9203.0"/> <port id="pr_9293ad14-1f73-420a-bfa1-fe26a003159b_p1" x="28675.227" y="9193.0"/> <port id="pr_9293ad14-1f73-420a-bfa1-fe26a003159b_p2" x="28675.227" y="9223.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aa641ff9-1a42-4be5-9f1c-0bfb6e11f790"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa641ff9-1a42-4be5-9f1c-0bfb6e11f790"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24627.81" y="18812.5"/> <port id="pr_aa641ff9-1a42-4be5-9f1c-0bfb6e11f790_p1" x="24647.81" y="18817.5"/> <port id="pr_aa641ff9-1a42-4be5-9f1c-0bfb6e11f790_p2" x="24617.81" y="18817.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_03b5d1c3-dc76-4d8d-ae07-d5851179b2af"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16540666</p> <p>PMID:22825514</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_03b5d1c3-dc76-4d8d-ae07-d5851179b2af"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16540666"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22825514"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5553.167" y="9033.5"/> <port id="pr_03b5d1c3-dc76-4d8d-ae07-d5851179b2af_p1" x="5558.167" y="9053.5"/> <port id="pr_03b5d1c3-dc76-4d8d-ae07-d5851179b2af_p2" x="5558.167" y="9023.5"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_8ee8ba68-9e00-427e-b11c-04ae5f4a9a6e"> <bbox w="20.0" h="20.0" x="5652.0884" y="9156.766"/> <port id="logicglyph_8ee8ba68-9e00-427e-b11c-04ae5f4a9a6e_p1" x="5662.0884" y="9186.766"/> <port id="logicglyph_8ee8ba68-9e00-427e-b11c-04ae5f4a9a6e_p2" x="5662.0884" y="9146.766"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_20c71e05-109b-4b2e-ba94-3e286802c8e2"> <bbox w="10.0" h="10.0" x="18040.0" y="2975.0"/> <port id="pr_20c71e05-109b-4b2e-ba94-3e286802c8e2_p1" x="18030.0" y="2980.0"/> <port id="pr_20c71e05-109b-4b2e-ba94-3e286802c8e2_p2" x="18060.0" y="2980.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f0d65348-fd4b-4579-9c2b-170748b9d7d7"> <bbox w="10.0" h="10.0" x="27294.06" y="9857.75"/> <port id="pr_f0d65348-fd4b-4579-9c2b-170748b9d7d7_p1" x="27299.06" y="9877.75"/> <port id="pr_f0d65348-fd4b-4579-9c2b-170748b9d7d7_p2" x="27299.06" y="9847.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15f6d664-4018-4372-8814-a344582140a9"> <bbox w="10.0" h="10.0" x="7985.0" y="2725.0"/> <port id="pr_15f6d664-4018-4372-8814-a344582140a9_p1" x="7990.0" y="2715.0"/> <port id="pr_15f6d664-4018-4372-8814-a344582140a9_p2" x="7990.0" y="2745.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_a7856a6e-851d-4720-8874-3d6b32121c4b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1248.0991" y="15399.375"/> <port id="pr_a7856a6e-851d-4720-8874-3d6b32121c4b_p1" x="1253.0991" y="15419.375"/> <port id="pr_a7856a6e-851d-4720-8874-3d6b32121c4b_p2" x="1253.0991" y="15389.375"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_c22801d6-b0ee-425d-b529-c05b53255f7a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:7945242</p> <p>PMID:8524413</p> <p>AKT (PKB) phosphorylates GSK3B at Serine residue and inactivate GSK3B</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c22801d6-b0ee-425d-b529-c05b53255f7a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7945242"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8524413"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3394.0" y="14305.5"/> <port id="pr_c22801d6-b0ee-425d-b529-c05b53255f7a_p1" x="3384.0" y="14310.5"/> <port id="pr_c22801d6-b0ee-425d-b529-c05b53255f7a_p2" x="3414.0" y="14310.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f92e2282-c9f2-4276-9664-3398e6b51eac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PARPs in telomere maintenance</p> <p>PMID:21818122, PMID:21076181, PMID:21037379</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f92e2282-c9f2-4276-9664-3398e6b51eac"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21818122"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21076181"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21037379"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10436.721" y="16946.0"/> <port id="pr_f92e2282-c9f2-4276-9664-3398e6b51eac_p1" x="10426.721" y="16951.0"/> <port id="pr_f92e2282-c9f2-4276-9664-3398e6b51eac_p2" x="10456.721" y="16951.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_637a1273-d597-4994-8e7e-9fa936907142"> <bbox w="10.0" h="10.0" x="915.0" y="3820.0"/> <port id="pr_637a1273-d597-4994-8e7e-9fa936907142_p1" x="920.0" y="3810.0"/> <port id="pr_637a1273-d597-4994-8e7e-9fa936907142_p2" x="920.0" y="3840.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_39102731-3c4d-47d5-a53d-d7534884217c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:23867504</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_39102731-3c4d-47d5-a53d-d7534884217c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23867504"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6445.5" y="11186.0"/> <port id="pr_39102731-3c4d-47d5-a53d-d7534884217c_p1" x="6465.5" y="11191.0"/> <port id="pr_39102731-3c4d-47d5-a53d-d7534884217c_p2" x="6435.5" y="11191.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_583f6438-e805-4328-816c-3ca4037b78a5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19131594</p> <p>in mouse liver, in mouse pro-B cells, STAT3 is found in mitochondria</p> <p>mitochondrial STAT3 interacts with NDUFA13</p> <p>mitochondrial STAT3 necessary for proper activity of complexes I and II of the electron transport chain</p> <p>STAT3 in mitochondria is preferentially phosphorylated on S727</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_583f6438-e805-4328-816c-3ca4037b78a5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19131594"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18975.463" y="14183.926"/> <port id="pr_583f6438-e805-4328-816c-3ca4037b78a5_p1" x="18965.463" y="14188.926"/> <port 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id="pr_05c9f6c4-6e89-4def-ad07-6ad7486ef761_p2" x="15920.0" y="5752.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1ada0617-2dd4-4d38-8752-41f2c355f03b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17604271</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="pr_dd981831-c09f-43fd-b896-2153695e46c3_p2" x="20318.0" y="3271.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9a1ac92-0041-47f1-93c2-4f5b7fc095d6"> <bbox w="10.0" h="10.0" x="11033.951" y="9693.314"/> <port id="pr_c9a1ac92-0041-47f1-93c2-4f5b7fc095d6_p1" x="11038.951" y="9713.314"/> <port id="pr_c9a1ac92-0041-47f1-93c2-4f5b7fc095d6_p2" x="11038.951" y="9683.314"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2f53dd1e-2732-4ce8-9a3c-643d898bb067"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="17921.441" y="16000.036"/> <port id="pr_2f53dd1e-2732-4ce8-9a3c-643d898bb067_p1" x="17941.441" y="16005.036"/> <port id="pr_2f53dd1e-2732-4ce8-9a3c-643d898bb067_p2" x="17911.441" y="16005.036"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e192feef-3a40-4348-9be8-9a92704bb3ef"> <bbox w="10.0" h="10.0" x="15823.561" y="18483.527"/> <port id="pr_e192feef-3a40-4348-9be8-9a92704bb3ef_p1" x="15813.561" y="18488.527"/> <port id="pr_e192feef-3a40-4348-9be8-9a92704bb3ef_p2" x="15843.561" y="18488.527"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a78924e3-8906-4b06-9d4a-4ed8a17da0be"> <bbox w="10.0" h="10.0" x="5460.0" y="10924.0"/> <port id="pr_a78924e3-8906-4b06-9d4a-4ed8a17da0be_p1" x="5450.0" y="10929.0"/> <port id="pr_a78924e3-8906-4b06-9d4a-4ed8a17da0be_p2" x="5480.0" y="10929.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_875125be-19f2-4190-983e-705f1dc11f38"> <bbox w="10.0" h="10.0" x="12856.316" y="12317.667"/> <port id="pr_875125be-19f2-4190-983e-705f1dc11f38_p1" x="12861.316" y="12337.667"/> <port id="pr_875125be-19f2-4190-983e-705f1dc11f38_p2" x="12861.316" y="12307.667"/> </glyph> <glyph class="process" orientation="vertical" id="pr_185940e2-37e1-42db-867e-2bf2c561a721"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:27558815</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_185940e2-37e1-42db-867e-2bf2c561a721"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:27558815"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="28124.06" y="14477.031"/> <port id="pr_185940e2-37e1-42db-867e-2bf2c561a721_p1" x="28129.06" y="14467.031"/> <port id="pr_185940e2-37e1-42db-867e-2bf2c561a721_p2" x="28129.06" y="14497.031"/> </glyph> <glyph class="process" orientation="vertical" id="pr_662a391a-a5b3-4b79-8e6c-cba316fef816"> <bbox w="10.0" h="10.0" x="28046.326" y="16089.0"/> <port id="pr_662a391a-a5b3-4b79-8e6c-cba316fef816_p1" x="28051.326" y="16109.0"/> <port id="pr_662a391a-a5b3-4b79-8e6c-cba316fef816_p2" x="28051.326" y="16079.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_70250bc2-d36a-45e6-9ee4-a1a81bd7e81c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to 14-3-3*</p> <p>considering that BAX cannot titrate 14-3-3</p> <p>PMID:12426317</p> <p>in Hela and NIH3T3, 14-3-3 binds to non phosphorylated BAX.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_70250bc2-d36a-45e6-9ee4-a1a81bd7e81c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12426317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23581.06" y="12014.0"/> <port id="pr_70250bc2-d36a-45e6-9ee4-a1a81bd7e81c_p1" x="23571.06" y="12019.0"/> <port id="pr_70250bc2-d36a-45e6-9ee4-a1a81bd7e81c_p2" x="23601.06" y="12019.0"/> </glyph> <glyph class="process" 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id="pr_171ac5b6-be4a-46ef-afee-d9453c37eec3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17218261</p> <p>PMID:17218260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_171ac5b6-be4a-46ef-afee-d9453c37eec3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218261"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17218260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12670.811" y="18303.5"/> <port id="pr_171ac5b6-be4a-46ef-afee-d9453c37eec3_p1" x="12690.811" y="18308.5"/> <port id="pr_171ac5b6-be4a-46ef-afee-d9453c37eec3_p2" x="12660.811" y="18308.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_dad4834b-604b-437f-aecd-e581cb73dbbc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6152.5" y="15515.492"/> <port id="pr_dad4834b-604b-437f-aecd-e581cb73dbbc_p1" x="6172.5" y="15520.492"/> <port id="pr_dad4834b-604b-437f-aecd-e581cb73dbbc_p2" x="6142.5" 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id="pr_bef065c1-cd72-4582-8362-3c7544ea3889"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2253.1223" y="16930.0"/> <port id="pr_bef065c1-cd72-4582-8362-3c7544ea3889_p1" x="2243.1223" y="16935.0"/> <port id="pr_bef065c1-cd72-4582-8362-3c7544ea3889_p2" x="2273.1223" y="16935.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c03537fd-53b8-453e-be20-d28452c63590"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24109.465" y="14772.607"/> <port id="pr_c03537fd-53b8-453e-be20-d28452c63590_p1" x="24099.465" y="14777.607"/> <port 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participate in a negative feedback loop to control TGFB responses.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c3a6633d-4e2b-4ffc-9c5b-13827406be07"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9335507"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5187.5" y="16746.25"/> <port id="pr_c3a6633d-4e2b-4ffc-9c5b-13827406be07_p1" x="5177.5" 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class="process" orientation="vertical" id="pr_1eb4f933-e01c-4f1f-93d8-9984d8b83545"> <bbox w="10.0" h="10.0" x="10145.0" y="2305.0"/> <port id="pr_1eb4f933-e01c-4f1f-93d8-9984d8b83545_p1" x="10150.0" y="2295.0"/> <port id="pr_1eb4f933-e01c-4f1f-93d8-9984d8b83545_p2" x="10150.0" y="2325.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f7740d0c-1e57-4598-8e08-17d0a9a3cb27"> <bbox w="10.0" h="10.0" x="11125.839" y="7611.25"/> <port id="pr_f7740d0c-1e57-4598-8e08-17d0a9a3cb27_p1" x="11130.839" y="7601.25"/> <port id="pr_f7740d0c-1e57-4598-8e08-17d0a9a3cb27_p2" x="11130.839" y="7631.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d3da894-c071-460f-8629-07281f5944e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18128.06" y="14984.0"/> <port id="pr_1d3da894-c071-460f-8629-07281f5944e1_p1" x="18133.06" y="14974.0"/> <port id="pr_1d3da894-c071-460f-8629-07281f5944e1_p2" x="18133.06" y="15004.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_250605b0-b2e6-4c02-bfbe-0d2775f6f868"> <bbox w="10.0" h="10.0" x="29335.889" y="6132.0"/> <port id="pr_250605b0-b2e6-4c02-bfbe-0d2775f6f868_p1" x="29340.889" y="6122.0"/> <port id="pr_250605b0-b2e6-4c02-bfbe-0d2775f6f868_p2" x="29340.889" y="6152.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_30a12a48-3b2f-4021-ac32-c5776e25dc84"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3606.3804" y="13941.898"/> <port id="pr_30a12a48-3b2f-4021-ac32-c5776e25dc84_p1" x="3611.3804" y="13961.898"/> <port 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orientation="vertical" id="pr_48955e17-c24d-4df1-a093-1ccc7dc9ffa8"> <bbox w="10.0" h="10.0" x="11017.207" y="17961.5"/> <port id="pr_48955e17-c24d-4df1-a093-1ccc7dc9ffa8_p1" x="11022.207" y="17951.5"/> <port id="pr_48955e17-c24d-4df1-a093-1ccc7dc9ffa8_p2" x="11022.207" y="17981.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5ce243ac-57a7-4627-b7b7-9131af85898e"> <bbox w="10.0" h="10.0" x="12535.0" y="6632.5"/> <port id="pr_5ce243ac-57a7-4627-b7b7-9131af85898e_p1" x="12540.0" y="6622.5"/> <port id="pr_5ce243ac-57a7-4627-b7b7-9131af85898e_p2" x="12540.0" y="6652.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_41408d7c-7d07-4559-aef3-a6679f69ee03"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18049480</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_41408d7c-7d07-4559-aef3-a6679f69ee03"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18049480"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4514.796" y="14556.0"/> <port id="pr_41408d7c-7d07-4559-aef3-a6679f69ee03_p1" x="4519.796" y="14546.0"/> <port id="pr_41408d7c-7d07-4559-aef3-a6679f69ee03_p2" x="4519.796" y="14576.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fb10767e-0f37-4ccd-a7d9-bf0fb6cffd91"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5186.7256" y="18273.625"/> <port id="pr_fb10767e-0f37-4ccd-a7d9-bf0fb6cffd91_p1" x="5191.7256" y="18263.625"/> <port id="pr_fb10767e-0f37-4ccd-a7d9-bf0fb6cffd91_p2" x="5191.7256" y="18293.625"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_e5c4678e-33be-473e-a5ff-a88fc6f4e2c7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3205.9878" y="15556.5"/> <port id="pr_e5c4678e-33be-473e-a5ff-a88fc6f4e2c7_p1" x="3210.9878" y="15576.5"/> <port id="pr_e5c4678e-33be-473e-a5ff-a88fc6f4e2c7_p2" x="3210.9878" y="15546.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ee8a3434-ba67-4996-8ebc-e313b73eb4d4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17129768</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ee8a3434-ba67-4996-8ebc-e313b73eb4d4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17129768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9494.922" y="15580.382"/> <port id="pr_ee8a3434-ba67-4996-8ebc-e313b73eb4d4_p1" x="9514.922" y="15585.382"/> <port id="pr_ee8a3434-ba67-4996-8ebc-e313b73eb4d4_p2" x="9484.922" y="15585.382"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cebc0b25-9222-46bb-a245-345ebcd8fdb6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22003200</p> <p>IRF4 is a target of MIR125B1, inhibition of IRF4 by MIR125B1 </p> <p>resulted in increased surface expression of MHC II, CD40, CD86, </p> <p>CD80 and IFNGR.</p> <p>MIR125B potentiate response to IFNG, probably via </p> <p>induction of IFNGR surface expression </p> <p>and induces tumoricidal activity of macrophages.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cebc0b25-9222-46bb-a245-345ebcd8fdb6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22003200"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="2605.421" y="1165.5"/> <port id="pr_cebc0b25-9222-46bb-a245-345ebcd8fdb6_p1" x="2610.421" y="1185.5"/> <port id="pr_cebc0b25-9222-46bb-a245-345ebcd8fdb6_p2" x="2610.421" y="1155.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_aa68e7b5-9feb-41ec-b668-ae649ed4b084"> <bbox w="10.0" h="10.0" x="13860.311" y="18381.0"/> <port id="pr_aa68e7b5-9feb-41ec-b668-ae649ed4b084_p1" x="13880.311" y="18386.0"/> <port id="pr_aa68e7b5-9feb-41ec-b668-ae649ed4b084_p2" x="13850.311" y="18386.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f7178c54-400d-4ec2-805d-db18cb64ce8a"> <bbox w="10.0" h="10.0" x="11836.281" y="8116.875"/> <port id="pr_f7178c54-400d-4ec2-805d-db18cb64ce8a_p1" x="11841.281" y="8106.875"/> <port id="pr_f7178c54-400d-4ec2-805d-db18cb64ce8a_p2" x="11841.281" y="8136.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1bccb3fe-7b6a-429c-b285-87e26612697b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Tubulin-alpha binds both NFAT and KPNB1 after dephosphorylation of NFAT.</p> <p>PMID:21278340</p> <p>TNPO1 is a transport protein that helps in the import of proteins into the nucleus. Although it has been described with associated with NRON, it is most likely that it binds first to NFAT complex, making this complex ready for import, then NRON can bind to this complex to hinder the import of the complex</p> <p>PMID:21709260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1bccb3fe-7b6a-429c-b285-87e26612697b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21278340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21709260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18709.803" y="18732.5"/> <port id="pr_1bccb3fe-7b6a-429c-b285-87e26612697b_p1" x="18714.803" y="18722.5"/> <port id="pr_1bccb3fe-7b6a-429c-b285-87e26612697b_p2" x="18714.803" y="18752.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_4a710377-aa79-4bf1-8008-18e7eae6b954"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19935649</p> <p>SNAI1 inhibits miR-203</p> <p>PMID:22514743</p> <p>SNAI1 represses miR-203 and miR-200b expression</p> <p>PMID:21159887</p> <p>p53 activates expression of miR-203</p> <p>PMID:20702634</p> <p>PMID:20706219</p> <p>Feedback loop: ZEB1 inhibits expression of MIR203 and MIR183</p> <p>ZEB1 directly controls transcription of the miR-203 and miR-183 and miR-200 family genes</p> <p>ZEB2 inhibits expression of MIR203</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4a710377-aa79-4bf1-8008-18e7eae6b954"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19935649"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22514743"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21159887"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20702634"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20706219"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3641.0" y="16987.16"/> <port id="pr_4a710377-aa79-4bf1-8008-18e7eae6b954_p1" x="3631.0" y="16992.16"/> <port id="pr_4a710377-aa79-4bf1-8008-18e7eae6b954_p2" x="3661.0" y="16992.16"/> </glyph> <glyph class="process" orientation="vertical" id="pr_67693d59-5727-479c-be35-5a2787c434f8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BRCA1 ubiquitinates CtIP that allows propagation through G2 to M checkpoint</p> <p>PMID:16818604</p> <p>PMID:19357644</p> </body> </html> </notes> 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y="1490.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b2ddbb0-3229-4f90-8e90-5ff6c0cd9998"> <bbox w="10.0" h="10.0" x="22566.896" y="16028.5"/> <port id="pr_8b2ddbb0-3229-4f90-8e90-5ff6c0cd9998_p1" x="22571.896" y="16018.5"/> <port id="pr_8b2ddbb0-3229-4f90-8e90-5ff6c0cd9998_p2" x="22571.896" y="16048.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_6aac9d5f-6775-46c5-a6db-e171cc55fab9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6aac9d5f-6775-46c5-a6db-e171cc55fab9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24956.56" y="18519.0"/> <port id="pr_6aac9d5f-6775-46c5-a6db-e171cc55fab9_p1" x="24946.56" y="18524.0"/> <port id="pr_6aac9d5f-6775-46c5-a6db-e171cc55fab9_p2" x="24976.56" y="18524.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9ac9cbe6-5d8f-4bb3-a4df-779904cc817a"> <bbox w="10.0" h="10.0" x="28444.594" y="7716.25"/> <port id="pr_9ac9cbe6-5d8f-4bb3-a4df-779904cc817a_p1" x="28464.594" y="7721.25"/> <port id="pr_9ac9cbe6-5d8f-4bb3-a4df-779904cc817a_p2" x="28434.594" y="7721.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cc9380ab-03ce-48ae-94d2-7e56299c9530"> <bbox w="10.0" h="10.0" x="14220.48" y="2072.5542"/> <port id="pr_cc9380ab-03ce-48ae-94d2-7e56299c9530_p1" x="14240.48" y="2077.5542"/> <port id="pr_cc9380ab-03ce-48ae-94d2-7e56299c9530_p2" x="14210.48" y="2077.5542"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_42c5c3a4-c49e-4704-8ba1-0d1f6d0d1091"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24143.06" y="10807.0"/> <port id="pr_42c5c3a4-c49e-4704-8ba1-0d1f6d0d1091_p1" x="24133.06" y="10812.0"/> <port id="pr_42c5c3a4-c49e-4704-8ba1-0d1f6d0d1091_p2" x="24163.06" y="10812.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d3db079-e62b-4a0f-b7d8-aa89c34f65e7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Studies have suggested that cadherin endocytosis may occur through both caveolin-mediated and macropinocytosis-like pathways. Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin</p> <p>Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin </p> <p>In contrast, Bryant and colleagues characterized the EGF-induced internalization of E-cadherin in a breast carcinoma cell line, in which E-cadherin was internalized along with the cadherin-binding proteins p120 and β-catenin, as Rac1-modulated macropinocytosis</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1d3db079-e62b-4a0f-b7d8-aa89c34f65e7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22674073"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="1818.3743" y="14404.75"/> <port id="pr_1d3db079-e62b-4a0f-b7d8-aa89c34f65e7_p1" x="1823.3743" y="14424.75"/> <port id="pr_1d3db079-e62b-4a0f-b7d8-aa89c34f65e7_p2" x="1823.3743" y="14394.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0ca696b1-ce05-489e-8cd9-78881849e0f6"> <bbox w="10.0" h="10.0" x="11475.5" y="3782.291"/> <port id="pr_0ca696b1-ce05-489e-8cd9-78881849e0f6_p1" x="11465.5" y="3787.291"/> <port id="pr_0ca696b1-ce05-489e-8cd9-78881849e0f6_p2" x="11495.5" y="3787.291"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ad6fcb5c-59fe-43b3-a976-504ebd88f59c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14765125</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ad6fcb5c-59fe-43b3-a976-504ebd88f59c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14765125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24104.56" y="13930.5"/> <port id="pr_ad6fcb5c-59fe-43b3-a976-504ebd88f59c_p1" x="24109.56" y="13950.5"/> <port id="pr_ad6fcb5c-59fe-43b3-a976-504ebd88f59c_p2" x="24109.56" y="13920.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc58aa8c-ec29-45b4-8533-df0ccb4c0dec"> <bbox w="10.0" h="10.0" x="26135.71" y="2686.25"/> <port id="pr_cc58aa8c-ec29-45b4-8533-df0ccb4c0dec_p1" x="26140.71" y="2706.25"/> <port id="pr_cc58aa8c-ec29-45b4-8533-df0ccb4c0dec_p2" x="26140.71" y="2676.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ef11b316-8c7f-403f-945a-2177a98b9554"> <bbox w="10.0" h="10.0" x="29126.0" y="4940.0"/> <port id="pr_ef11b316-8c7f-403f-945a-2177a98b9554_p1" x="29146.0" y="4945.0"/> <port id="pr_ef11b316-8c7f-403f-945a-2177a98b9554_p2" x="29116.0" y="4945.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c7ed1192-ae52-489f-a21b-0e2c0cedfe85"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BER and MMR interaction and G2/M arrest in responce to o6-meG formation:</p> <p>PMID:14614141</p> <p>cMyc physically stimulates MSH2 and MLH1 and activates MMR:</p> <p>PMID:15814658, PMID:12584560</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c7ed1192-ae52-489f-a21b-0e2c0cedfe85"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14614141"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15814658"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12584560"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11049.961" y="15675.258"/> <port id="pr_c7ed1192-ae52-489f-a21b-0e2c0cedfe85_p1" x="11054.961" y="15665.258"/> <port id="pr_c7ed1192-ae52-489f-a21b-0e2c0cedfe85_p2" x="11054.961" y="15695.258"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_4d3c963d-89a7-4a5d-88c9-2afdcb46a1e6"> <bbox w="20.0" h="20.0" x="11372.98" y="16231.919"/> <port id="logicglyph_4d3c963d-89a7-4a5d-88c9-2afdcb46a1e6_p1" x="11382.98" y="16261.919"/> <port id="logicglyph_4d3c963d-89a7-4a5d-88c9-2afdcb46a1e6_p2" x="11382.98" y="16221.919"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9da1d7c3-18fb-4eb2-8574-87e37a3c540b"> <bbox w="10.0" h="10.0" x="28140.43" y="15940.25"/> <port id="pr_9da1d7c3-18fb-4eb2-8574-87e37a3c540b_p1" x="28145.43" y="15960.25"/> <port id="pr_9da1d7c3-18fb-4eb2-8574-87e37a3c540b_p2" x="28145.43" y="15930.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1f9e4361-9929-4f2d-849d-8586b33f0d2a"> <bbox w="10.0" h="10.0" x="9823.042" y="7321.25"/> <port id="pr_1f9e4361-9929-4f2d-849d-8586b33f0d2a_p1" x="9828.042" y="7311.25"/> <port id="pr_1f9e4361-9929-4f2d-849d-8586b33f0d2a_p2" x="9828.042" y="7341.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f6e3d41e-4923-48c1-b016-6e9c3320952e"> <bbox w="10.0" h="10.0" x="21369.436" y="22117.008"/> <port id="pr_f6e3d41e-4923-48c1-b016-6e9c3320952e_p1" x="21389.436" y="22122.008"/> <port id="pr_f6e3d41e-4923-48c1-b016-6e9c3320952e_p2" x="21359.436" y="22122.008"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2de3cfa7-430f-4dbf-a55b-6a63382c91bf"> <bbox w="10.0" h="10.0" x="22341.498" y="15949.75"/> <port id="pr_2de3cfa7-430f-4dbf-a55b-6a63382c91bf_p1" x="22346.498" y="15969.75"/> <port id="pr_2de3cfa7-430f-4dbf-a55b-6a63382c91bf_p2" x="22346.498" y="15939.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1fa221d0-03aa-481c-bf9c-e65bab792db8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12387875</p> <p>PMID:9841888</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> 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id="pr_0dd35c33-8d4b-428d-8640-e7f6d9132a36"> <bbox w="10.0" h="10.0" x="21958.936" y="15252.748"/> <port id="pr_0dd35c33-8d4b-428d-8640-e7f6d9132a36_p1" x="21978.936" y="15257.748"/> <port id="pr_0dd35c33-8d4b-428d-8640-e7f6d9132a36_p2" x="21948.936" y="15257.748"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc5825c8-e6db-490c-af4d-b7116295d899"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25475733</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_cc5825c8-e6db-490c-af4d-b7116295d899"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25475733"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5892.6875" y="10469.8125"/> <port id="pr_cc5825c8-e6db-490c-af4d-b7116295d899_p1" x="5897.6875" y="10489.8125"/> <port id="pr_cc5825c8-e6db-490c-af4d-b7116295d899_p2" x="5897.6875" y="10459.8125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8472a02-d81f-4a51-8c5d-a7d9696675a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>prototypical HIF1 target</p> <p>PMID:15369676</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:21776389</p> <p>Src participates in the activation of various downstream signaling pathways through molecular interactions with growth factor receptors such as the epidermal growth factor receptor (EGFR) family, hepatocyte growth factor receptor (Met), integrin cell adhesion receptors</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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y="2486.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6de7cc06-91e3-4138-b353-2c738c1358ce"> <bbox w="10.0" h="10.0" x="13305.0" y="2488.75"/> <port id="pr_6de7cc06-91e3-4138-b353-2c738c1358ce_p1" x="13310.0" y="2508.75"/> <port id="pr_6de7cc06-91e3-4138-b353-2c738c1358ce_p2" x="13310.0" y="2478.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d6d2532-f61e-4a2c-a6e8-f513101b43f1"> <bbox w="10.0" h="10.0" x="27704.857" y="15173.531"/> <port id="pr_3d6d2532-f61e-4a2c-a6e8-f513101b43f1_p1" x="27709.857" y="15193.531"/> <port id="pr_3d6d2532-f61e-4a2c-a6e8-f513101b43f1_p2" x="27709.857" y="15163.531"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1585ceaf-0e56-4dd2-be2a-3ce97c2eda9e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18931676, PMID:19686080</p> <p>Link between cell cycle and activation of Fanconi pathway</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1585ceaf-0e56-4dd2-be2a-3ce97c2eda9e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18931676"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19686080"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14814.361" y="14887.133"/> <port id="pr_1585ceaf-0e56-4dd2-be2a-3ce97c2eda9e_p1" x="14834.361" y="14892.133"/> <port id="pr_1585ceaf-0e56-4dd2-be2a-3ce97c2eda9e_p2" x="14804.361" y="14892.133"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d136f744-56f9-4019-97d8-ba22b1dc80ca"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16282323</p> <p>in murine BA/F3 IL3-dependent cells, multisite phosphorylation of BimEL upon IL3. Attenuated by ERK and PI3K inhibitors.</p> <p>in vitro, active mouse Akt purified from IL3 treated BAF3 cells phosphorylates recombinant human BimEL. Blocked by mutation of S87</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d136f744-56f9-4019-97d8-ba22b1dc80ca"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16282323"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22328.06" y="11691.0"/> <port id="pr_d136f744-56f9-4019-97d8-ba22b1dc80ca_p1" x="22333.06" y="11711.0"/> <port id="pr_d136f744-56f9-4019-97d8-ba22b1dc80ca_p2" x="22333.06" y="11681.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6cabcc0a-c07f-4eec-bdad-a7c3b9c6759b"> <bbox w="10.0" h="10.0" x="20460.0" y="2470.0"/> <port id="pr_6cabcc0a-c07f-4eec-bdad-a7c3b9c6759b_p1" x="20465.0" y="2490.0"/> <port id="pr_6cabcc0a-c07f-4eec-bdad-a7c3b9c6759b_p2" x="20465.0" y="2460.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_af05b3e4-2863-4b1c-b294-368dc124d191"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_af05b3e4-2863-4b1c-b294-368dc124d191"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20806969"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5359.25" y="11321.75"/> <port id="pr_af05b3e4-2863-4b1c-b294-368dc124d191_p1" x="5364.25" y="11311.75"/> <port id="pr_af05b3e4-2863-4b1c-b294-368dc124d191_p2" x="5364.25" y="11341.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_951136c4-e233-4f28-8ed1-66fd4cd93c3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19219026</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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actin polymerization during lamellipodium formation</p> <p>PMID:9843499</p> <p>WASF (WAVE) as regulator of actin reorganization downstream of Rac.</p> <p>Expressed WAVE induces the formation of actin filament clusters.</p> <p>WAVE plays a critical role downstream of Rac in regulating the actin cytoskeleton required for mem- brane ruffling</p> <p>PMID:12054568</p> <p>WAVE2 serves a functional partner of IRSp53 by regulating its interaction with Rac.</p> <p>PMID:8625410</p> <p>PMID:16293614</p> <p>PMID:10467124</p> <p>PMID:10511705</p> <p>CDC42 induces actin cytoskeleton changes by activating WASP and N-WASP.</p> <p>WASP and N-WASP binds to ARP2/3 and this lieads to actin cytoskeletal polymerization and filopodia formation.</p> <p>PMID:14749719</p> <p>PAK1 phosphorylates and activates ARP2_3 complex.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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class="process" orientation="vertical" id="pr_3979bee9-32b5-4fae-84cf-75416c7524dc"> <bbox w="10.0" h="10.0" x="27447.25" y="8405.0"/> <port id="pr_3979bee9-32b5-4fae-84cf-75416c7524dc_p1" x="27452.25" y="8395.0"/> <port id="pr_3979bee9-32b5-4fae-84cf-75416c7524dc_p2" x="27452.25" y="8425.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60380497-1e0a-49ea-8439-a8583151a6e8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19203579</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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x="3262.8887" y="18585.75"/> <port id="pr_82554625-3d46-41bf-9ea7-5bf56f15ca26_p1" x="3267.8887" y="18605.75"/> <port id="pr_82554625-3d46-41bf-9ea7-5bf56f15ca26_p2" x="3267.8887" y="18575.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_282f6e7c-52a4-4292-943b-7b729c884ea4"> <bbox w="10.0" h="10.0" x="13312.561" y="20458.0"/> <port id="pr_282f6e7c-52a4-4292-943b-7b729c884ea4_p1" x="13317.561" y="20448.0"/> <port id="pr_282f6e7c-52a4-4292-943b-7b729c884ea4_p2" x="13317.561" y="20478.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1e1fee1e-0200-4f0f-b137-50eb9869c7be"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Tubulin-alpha binds both NFAT and KPNB1 after dephosphorylation of NFAT.</p> <p>PMID:21278340</p> <p>TNPO1 is a transport protein that helps in the import of proteins into the nucleus. Although it has been described with associated with NRON, it is most likely that it binds first to NFAT complex, making this complex ready for import, then NRON can bind to this complex to hinder the import of the complex</p> <p>PMID:21709260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1e1fee1e-0200-4f0f-b137-50eb9869c7be"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21278340"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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id="pr_8e9a54d1-f181-49d4-b517-3f62d11f5f6d_p1" x="23619.06" y="13264.0"/> <port id="pr_8e9a54d1-f181-49d4-b517-3f62d11f5f6d_p2" x="23619.06" y="13294.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9fadbee3-750b-4719-a1ab-4f31b409fc9e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BRCA1 up-regulates transcription of GADD45 in p53 independed manner:</p> <p>PMID:10367887, PMID:10962562 </p> <p>PMID:19004803, PMID:12496474</p> <p>p53 enhances transcription of GADD45:</p> <p>PMID:9892649, PMID:10779360</p> <p>p53 regulated global genomic NER at the level of DNA damage recognition involving GADD45, XPC, DDB2:</p> <p>PMID:12771027, PMID:9346961</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" 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orientation="vertical" id="pr_8082d2d4-a272-4344-a257-697057630145"> <bbox w="10.0" h="10.0" x="1150.0" y="2225.0"/> <port id="pr_8082d2d4-a272-4344-a257-697057630145_p1" x="1155.0" y="2245.0"/> <port id="pr_8082d2d4-a272-4344-a257-697057630145_p2" x="1155.0" y="2215.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9c5d1758-5621-46de-a509-6d872c1e2989"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Rac1 activates JNK pathway vai PAK-independent mechanisms involving binding and stimulation of MAP3K (MAP3K10 and MAP3K11)</p> <p>PMID:8910292</p> <p>MLK3 overexpression is sufficient to activate JNK po- tently without affecting the phosphorylating activity of MAPK or p38</p> <p>MLK3 binds the GTP-binding proteins Cdc42 and Rac1 in vivo and that MLK3 mediates activation of MEKK-SEK-JNK kinase cascade by Rac1 and Cdc42</p> <p>PMID:9427749</p> <p>MLK2 (MAP3K10) and MLK3 (MAP3K11) interact with the activated (GTP-bound) forms of Rac and Cdc42, with a slight preference for Rac.</p> <p>When expressed in fibroblasts, MLK2 co-localizes with active, dually phosphorylated JNK to punctate structures along microtubules.</p> <p>MLK2 and MLK3 interact with members of the KIF3 family of kinesin superfamily motor proteins and with KAP3A, the putative targeting component of KIF3 motor complex</p> <p>PMID:11713255</p> <p>Rac1 coordinately activates p70S6K and JNK via MLK3 activation</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" 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id="pr_413df17f-dc14-433b-b1d7-03b0e7e2066a_p2" x="5824.0" y="18218.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bc4106f2-c002-4b43-8ae4-f73dbaf5b7df"> <bbox w="10.0" h="10.0" x="3395.0" y="3385.0"/> <port id="pr_bc4106f2-c002-4b43-8ae4-f73dbaf5b7df_p1" x="3400.0" y="3375.0"/> <port id="pr_bc4106f2-c002-4b43-8ae4-f73dbaf5b7df_p2" x="3400.0" y="3405.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_45e9ea66-1b20-4086-a09f-149803fa0441"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10721693</p> <p>PMID:19459846</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" 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<bbox w="20.0" h="20.0" x="12885.811" y="21235.25"/> <port id="logicglyph_2b0ff862-4d11-443a-a7cb-59d1425d78c5_p1" x="12875.811" y="21245.25"/> <port id="logicglyph_2b0ff862-4d11-443a-a7cb-59d1425d78c5_p2" x="12915.811" y="21245.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_ed7042c6-1b7a-4f1e-bd8e-a507115231ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>source UNIPROT and KEGGPATHWAY</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18572.39" y="9841.416"/> <port id="pr_ed7042c6-1b7a-4f1e-bd8e-a507115231ad_p1" x="18592.39" y="9846.416"/> <port id="pr_ed7042c6-1b7a-4f1e-bd8e-a507115231ad_p2" x="18562.39" y="9846.416"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_3c0cc729-492c-41d7-80a7-ef3994b949e9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2421.838" y="16970.75"/> <port id="pr_3c0cc729-492c-41d7-80a7-ef3994b949e9_p1" x="2426.838" y="16990.75"/> <port id="pr_3c0cc729-492c-41d7-80a7-ef3994b949e9_p2" x="2426.838" y="16960.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5550e026-b434-43f3-9f29-32a7a638d57d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:18758450</p> <p>The ubiquitin ligase (E3) TRAF6 interacts with a consensus motif present in TGFBR1. </p> <p>The TGFBR1–TRAF6 interaction is required for TGFB-induced autoubiquitylation of TRAF6 and subsequent activation of the TAK1–p38/JNK pathway</p> <p>TGFB specifically activates TAK1 (MAP3K7) through interaction of TGFBRI with TRAF6.</p> <p>The kinase activity of TGFBRI is not required for activation of TAK1 and p38.</p> <p>Model in which TGFB - induced activation of TAK1 is initiated by ligand-induced oligomerization of TGFBreceptors. This in turn cause dimerization of TRAF6, followed by auto-ubiquitylation and activation. </p> <p>This possibility is consistent with the observation that artifical dimerization of TRAF6 causes its auto-ubiquitylation. </p> <p>Activated TRAF6 then causes Lys 63-linked ubiquitylation and activation of TAK1 (MAP3K7). TAK1 may be further activated by juxtaposition-induced autophosphorylation. </p> <p>The recruitment of TAK1 may be facilitated by Smad7, which has been shown to have an adaptor function in the pathway</p> <p>PMID:18922473</p> <p>TRAF6 is specifically required for the Smad-independent activation of JNK and p38.</p> <p>The carboxyl TRAF homology domain physically interacts with TGFB receptors. </p> <p>TGFB induces K63-linked ubiquitination of TRAF6 and promotes association between TRAF6 and TAK1 (MAP3K7). </p> <p>TGFB activates JNK and p38 through a mechanism similar to that operating in the interleukin1B/Toll- like receptor pathway.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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class="process" orientation="horizontal" id="pr_4c0ec254-7e7e-456b-aff2-1ea9f0288026"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21606194 PMID:19705439</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4c0ec254-7e7e-456b-aff2-1ea9f0288026"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:22674073</p> <p>Studies have suggested that cadherin endocytosis may occur through both caveolin-mediated and macropinocytosis-like pathways. Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin</p> <p>Akhtar and colleagues found that a dominant-active form of the small GTPase Rac1 could disrupt cell-cell adhesion in keratinocytes. This was associated with the endocytosis of E-cadherin through a pathway that appeared to be distinct from the uptake of transferrin, which is clathrin-mediated, and through structures that co-localized with caveolin </p> <p>In contrast, Bryant and colleagues characterized the EGF-induced internalization of E-cadherin in a breast carcinoma cell line, in which E-cadherin was internalized along with the cadherin-binding proteins p120 and β-catenin, as Rac1-modulated macropinocytosis</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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orientation="horizontal" id="pr_34a4e3b3-a035-4f33-84ba-43e9b2845de8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5686.0" y="16181.414"/> <port id="pr_34a4e3b3-a035-4f33-84ba-43e9b2845de8_p1" x="5676.0" y="16186.414"/> <port id="pr_34a4e3b3-a035-4f33-84ba-43e9b2845de8_p2" x="5706.0" y="16186.414"/> </glyph> <glyph class="process" orientation="vertical" id="pr_28b1ffb0-baba-498a-95cc-ef111996bf39"> <bbox w="10.0" h="10.0" x="12392.96" y="7541.25"/> <port id="pr_28b1ffb0-baba-498a-95cc-ef111996bf39_p1" x="12397.96" y="7531.25"/> <port id="pr_28b1ffb0-baba-498a-95cc-ef111996bf39_p2" x="12397.96" y="7561.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7832a7a8-d1b8-4ccb-b842-ae98464f6b99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22421439</p> <p>Mixed lineage kinase domain-like is a key receptor interacting protein 3 downstream component of TNF-induced necrosis.</p> <p>MLKL functions downstream of RIP1 and RIP3 and is recruited to the necrosome through its interaction with RIP3</p> <p>PMID:23073834</p> <p>new members of this necroptosis pathway, MLKL, PGAM5, Drp1 and DAI</p> <p>PMID:19632174</p> <p>RIP3 directly interacts with glycogen phosphorylase (PYGL), glutamate ammonia ligase (GLUL), and glutamate dehydrogenase 1 (GLUD1</p> <p>PMID:20823910</p> <p>Molecular mechanisms of necroptosis: an ordered cellular explosion</p> <p>PMID:27959630</p> <p>PMID:26024392</p> <p>The phosphorylation of Ser345 is not required for the interaction between RIPK3 and MLKL in the necrosome, but is essential for MLKL translocation, accumulation in the plasma membrane, and consequent necroptosis.</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7832a7a8-d1b8-4ccb-b842-ae98464f6b99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22421439"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23073834"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19632174"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:15609097</p> <p>CTNNB1 (beta-catenin) binds with high affinity to the distal Cadherin cytoplasmic tail.</p> <p>Cadherin recruits CTNNA1 (alpha-catenin) to the complex.</p> <p>CTNNA1 (alpha-catenin) binds to Actin filaments directly</p> <p>CTNNA1 (alpha-catenin) and can also associate with other actin-binding proteins (MLLT4 or Formin)</p> <p>CTNND1 (delta-catenin or p120) binds directly to Cadherin independently of the other catenins.</p> <p>Catenins/Cadherin complex can further interact with a range of singaling molecules which participate in either cellular signaling or control of cytoskeletal dynamics.</p> <p>Stability of Cadherin/Catenins complex and thereby the integrity of adherens junctions is controlled by phosphorylation/dephosphorylation.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation 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id="pr_5e56a303-d09b-41b3-a0d0-092de613cba5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5e56a303-d09b-41b3-a0d0-092de613cba5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28284838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3537.0" y="11719.625"/> <port id="pr_5e56a303-d09b-41b3-a0d0-092de613cba5_p1" x="3542.0" y="11709.625"/> <port id="pr_5e56a303-d09b-41b3-a0d0-092de613cba5_p2" x="3542.0" y="11739.625"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_6f88fa9a-24f3-4de1-abff-fbb4583816cc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6441.129" y="15324.5"/> <port id="pr_6f88fa9a-24f3-4de1-abff-fbb4583816cc_p1" x="6446.129" y="15314.5"/> <port id="pr_6f88fa9a-24f3-4de1-abff-fbb4583816cc_p2" x="6446.129" y="15344.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0fe8171e-dd44-4913-998b-d5c29ee10dd0"> <bbox w="10.0" h="10.0" x="1275.0" y="2145.0"/> <port id="pr_0fe8171e-dd44-4913-998b-d5c29ee10dd0_p1" x="1280.0" y="2165.0"/> <port id="pr_0fe8171e-dd44-4913-998b-d5c29ee10dd0_p2" x="1280.0" y="2135.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7da8abb2-37bd-4199-a550-0dcf3d1ce312"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16054198</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7da8abb2-37bd-4199-a550-0dcf3d1ce312"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16054198"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14952.061" y="18247.719"/> <port id="pr_7da8abb2-37bd-4199-a550-0dcf3d1ce312_p1" x="14957.061" y="18237.719"/> <port id="pr_7da8abb2-37bd-4199-a550-0dcf3d1ce312_p2" x="14957.061" y="18267.719"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fc8a93b3-936a-4204-932d-653f525b1e42"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:20514436</p> <p>PMID:12114545</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fc8a93b3-936a-4204-932d-653f525b1e42"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20514436"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12114545"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17493.06" y="18135.5"/> <port id="pr_fc8a93b3-936a-4204-932d-653f525b1e42_p1" x="17498.06" y="18125.5"/> <port id="pr_fc8a93b3-936a-4204-932d-653f525b1e42_p2" x="17498.06" y="18155.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a64f0d18-9f46-43a4-aef3-46a390018ee5"> <bbox w="10.0" h="10.0" x="13122.473" y="10214.356"/> <port id="pr_a64f0d18-9f46-43a4-aef3-46a390018ee5_p1" x="13127.473" y="10204.356"/> <port id="pr_a64f0d18-9f46-43a4-aef3-46a390018ee5_p2" x="13127.473" y="10234.356"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_818fa9c8-4d60-465f-8569-11aadfb7b27a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18372248</p> <p>PMID:20138985</p> </body> </html> </notes> <extension> <annotation 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id="pr_818fa9c8-4d60-465f-8569-11aadfb7b27a_p2" x="14036.255" y="19483.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_619d4ca0-e0c8-4c3c-bf1f-e2d993e8a83c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23654.81" y="10889.0"/> <port id="pr_619d4ca0-e0c8-4c3c-bf1f-e2d993e8a83c_p1" x="23659.81" y="10909.0"/> <port id="pr_619d4ca0-e0c8-4c3c-bf1f-e2d993e8a83c_p2" x="23659.81" y="10879.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a6a04dda-4f3a-4dca-ad1a-4ad878385ec2"> <bbox w="10.0" h="10.0" x="24937.383" y="12233.01"/> <port id="pr_a6a04dda-4f3a-4dca-ad1a-4ad878385ec2_p1" x="24942.383" y="12253.01"/> <port id="pr_a6a04dda-4f3a-4dca-ad1a-4ad878385ec2_p2" x="24942.383" y="12223.01"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_78c720ab-3a68-4948-a704-42a83d5500f7"> <bbox w="10.0" h="10.0" x="23695.06" y="15606.0"/> <port id="pr_78c720ab-3a68-4948-a704-42a83d5500f7_p1" x="23715.06" y="15611.0"/> <port id="pr_78c720ab-3a68-4948-a704-42a83d5500f7_p2" x="23685.06" y="15611.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a656f2e5-8ec0-4e5e-8348-2654f0565152"> <bbox w="10.0" h="10.0" x="15525.0" y="3485.0"/> <port id="pr_a656f2e5-8ec0-4e5e-8348-2654f0565152_p1" x="15545.0" y="3490.0"/> <port id="pr_a656f2e5-8ec0-4e5e-8348-2654f0565152_p2" x="15515.0" y="3490.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_36efd60b-7a0f-420d-9b71-c76be6c62130"> <bbox w="10.0" h="10.0" x="6370.525" y="4250.25"/> <port id="pr_36efd60b-7a0f-420d-9b71-c76be6c62130_p1" x="6375.525" y="4240.25"/> <port id="pr_36efd60b-7a0f-420d-9b71-c76be6c62130_p2" x="6375.525" y="4270.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_60efb355-0794-4878-8560-1cc97610183b"> <bbox w="10.0" h="10.0" x="27246.668" y="3073.0"/> <port id="pr_60efb355-0794-4878-8560-1cc97610183b_p1" x="27251.668" y="3063.0"/> <port id="pr_60efb355-0794-4878-8560-1cc97610183b_p2" x="27251.668" y="3093.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c9491793-5ab4-4991-b070-29d4bfd3afee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TRAF2 activation triggers a ROS pulse that causes the dissociation of Trx from ASK1.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c9491793-5ab4-4991-b070-29d4bfd3afee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10196.439" y="19187.74"/> <port id="pr_c9491793-5ab4-4991-b070-29d4bfd3afee_p1" x="10201.439" y="19177.74"/> <port id="pr_c9491793-5ab4-4991-b070-29d4bfd3afee_p2" x="10201.439" y="19207.74"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a1a30c27-a119-4241-81c3-08d7fefca709"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:21490931</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a1a30c27-a119-4241-81c3-08d7fefca709"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21490931"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23498.31" y="18273.0"/> <port id="pr_a1a30c27-a119-4241-81c3-08d7fefca709_p1" x="23488.31" y="18278.0"/> <port id="pr_a1a30c27-a119-4241-81c3-08d7fefca709_p2" x="23518.31" y="18278.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7bc55821-253d-4e86-97a6-d8392af91074"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:9069260</p> <p>Activated HRAS (GTP bound forn) is associated with the plasma membrane.</p> <p>Inactive RAF1 is associated in the cytoplasm with YWHAB via S259 phosphorylation site and also binding site.</p> <p>RAF1 has a RAS-binding Cysteine-rich domain (CRD) and an additional RAS-binding domain (RBD).</p> <p>RAF1 binds activated HRAS via the RBD. This binding displaces YWHAB from Ser259 and unmasks the CRD.</p> <p>YWHAB has been displaced from S259 may now bind its higher affinity S621 site.</p> <p>This stabilises an OPEN RAF1 conformation that is catalytically active.</p> <p>Active and open RAF1 binds to RAS via both CRD and RBD domains.</p> <p>An unidentified protein tyrosine kinase located in the plasma membrane phosphorylates tyrosine residues at 340 and 341.</p> <p>This Tyrosine phosphorylation serves to further stabilise the active OPEN RAF1 conformation.</p> <p>While the kinase has not been definitively identified, SRC is a plausible candidate. RAF1 interacts with SRC and co-immunoprecipates with SRC-FYN.</p> <p>PIN1, a prolyl isomerase converts pSer and pThr residues from the cis to the trans conformation, which is preferentially recognized and dephosphorylated by PPP2R1A.</p> <p>Ras and PPP2R1A cooperate to release autoinhibition and the subsequent phosphorylation of activating sites: S338, Y374 and T491</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7bc55821-253d-4e86-97a6-d8392af91074"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9069260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6265.5" y="13285.3"/> <port id="pr_7bc55821-253d-4e86-97a6-d8392af91074_p1" x="6285.5" y="13290.3"/> <port id="pr_7bc55821-253d-4e86-97a6-d8392af91074_p2" x="6255.5" y="13290.3"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d4af2c29-b8fd-4bda-9ce0-92f5971af18a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17303408, PMID:16377563</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d4af2c29-b8fd-4bda-9ce0-92f5971af18a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16377563"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14532.82" y="15410.619"/> <port id="pr_d4af2c29-b8fd-4bda-9ce0-92f5971af18a_p1" x="14537.82" y="15430.619"/> <port id="pr_d4af2c29-b8fd-4bda-9ce0-92f5971af18a_p2" x="14537.82" y="15400.619"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_8f506c6b-46de-4253-9515-80f018a25c0d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2255.5" y="16966.0"/> <port id="pr_8f506c6b-46de-4253-9515-80f018a25c0d_p1" x="2260.5" y="16986.0"/> <port id="pr_8f506c6b-46de-4253-9515-80f018a25c0d_p2" x="2260.5" y="16956.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_22d2b458-c74e-49c0-be66-59d4086c349d"> <bbox w="10.0" h="10.0" x="22781.832" y="3190.0"/> <port id="pr_22d2b458-c74e-49c0-be66-59d4086c349d_p1" x="22786.832" y="3180.0"/> <port id="pr_22d2b458-c74e-49c0-be66-59d4086c349d_p2" x="22786.832" y="3210.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9b2c7646-b4ee-490a-86c2-715b742d1536"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16287866</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9b2c7646-b4ee-490a-86c2-715b742d1536"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16287866"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24459.727" y="13876.0"/> <port id="pr_9b2c7646-b4ee-490a-86c2-715b742d1536_p1" x="24479.727" y="13881.0"/> <port id="pr_9b2c7646-b4ee-490a-86c2-715b742d1536_p2" x="24449.727" y="13881.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1b3235eb-2ca4-48b6-887c-bc392f9ee332"> <bbox w="10.0" h="10.0" x="11885.0" y="5757.875"/> <port id="pr_1b3235eb-2ca4-48b6-887c-bc392f9ee332_p1" x="11890.0" y="5747.875"/> <port id="pr_1b3235eb-2ca4-48b6-887c-bc392f9ee332_p2" x="11890.0" y="5777.875"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f337ba5e-c630-49ff-8f0a-5b89bdcbc533"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3549.8262" y="19009.25"/> <port id="pr_f337ba5e-c630-49ff-8f0a-5b89bdcbc533_p1" x="3554.8262" y="19029.25"/> <port 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x="28721.326" y="16304.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c0fc79b7-11b0-403e-9cc9-d4b4c64e5fa4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19424602</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c0fc79b7-11b0-403e-9cc9-d4b4c64e5fa4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19424602"/> 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id="pr_643fd00a-50e2-40f3-b74d-77507c12cac5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>9-1-1 complex activates FEN and BER PMID:15871698, PMID:16216273</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_643fd00a-50e2-40f3-b74d-77507c12cac5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15871698"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16216273"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="10259.334" y="16512.293"/> <port id="pr_643fd00a-50e2-40f3-b74d-77507c12cac5_p1" x="10264.334" y="16502.293"/> <port id="pr_643fd00a-50e2-40f3-b74d-77507c12cac5_p2" x="10264.334" y="16532.293"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6d78caa1-77f1-4da6-9001-87778e58d168"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19037093</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6d78caa1-77f1-4da6-9001-87778e58d168"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19037093"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21844.06" y="10911.0"/> <port id="pr_6d78caa1-77f1-4da6-9001-87778e58d168_p1" x="21849.06" y="10931.0"/> <port id="pr_6d78caa1-77f1-4da6-9001-87778e58d168_p2" x="21849.06" y="10901.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0c7c4857-5fa7-459b-8982-e4d499bb5ae1"> <bbox w="10.0" h="10.0" x="11230.0" y="3095.0"/> <port id="pr_0c7c4857-5fa7-459b-8982-e4d499bb5ae1_p1" x="11220.0" y="3100.0"/> <port id="pr_0c7c4857-5fa7-459b-8982-e4d499bb5ae1_p2" x="11250.0" y="3100.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a9a0a798-e31c-4565-a87a-1572ad962b32"> <bbox w="10.0" h="10.0" x="4742.875" y="10475.125"/> <port id="pr_a9a0a798-e31c-4565-a87a-1572ad962b32_p1" x="4747.875" y="10495.125"/> <port id="pr_a9a0a798-e31c-4565-a87a-1572ad962b32_p2" x="4747.875" y="10465.125"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_975e188e-33f0-4d56-bde6-5decacfde180"> <bbox w="10.0" h="10.0" x="23625.06" y="21473.0"/> <port id="pr_975e188e-33f0-4d56-bde6-5decacfde180_p1" x="23615.06" y="21478.0"/> <port id="pr_975e188e-33f0-4d56-bde6-5decacfde180_p2" x="23645.06" y="21478.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_45ed9270-2a5c-4c07-a039-859dcfc34c05"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15665297</p> <p>in Hela, cIAP1 is a nuclear protein, that partially translocates to the cytoplasm upon apoptotic stimuli (UV, staurosporin, TRAIL, TNF+CHX), and in a capase-dependent manner</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_45ed9270-2a5c-4c07-a039-859dcfc34c05"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15665297"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23697.938" y="12960.374"/> <port 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x="10327.52" y="15046.5"/> <port id="pr_14c36e8b-6884-4b95-b98f-ac9f2c9a8f25_p2" x="10297.52" y="15046.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_8ecfae84-a290-46c1-9394-bbfc69eb32df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17192274</p> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8ecfae84-a290-46c1-9394-bbfc69eb32df"> 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id="pr_cf26b303-e4b4-4bf1-9fef-36fac38a5d51_p1" x="5126.875" y="4308.75"/> <port id="pr_cf26b303-e4b4-4bf1-9fef-36fac38a5d51_p2" x="5126.875" y="4338.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_29c16101-9661-4a38-b66d-eb61f3dfa231"> <bbox w="10.0" h="10.0" x="10645.039" y="565.625"/> <port id="pr_29c16101-9661-4a38-b66d-eb61f3dfa231_p1" x="10650.039" y="555.625"/> <port id="pr_29c16101-9661-4a38-b66d-eb61f3dfa231_p2" x="10650.039" y="585.625"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_650ea03f-4f52-4077-b702-048fabf731fa"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1749.75" y="15024.015"/> <port id="pr_650ea03f-4f52-4077-b702-048fabf731fa_p1" x="1769.75" y="15029.015"/> <port id="pr_650ea03f-4f52-4077-b702-048fabf731fa_p2" x="1739.75" y="15029.015"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_765e489e-ffe3-4a94-801d-d508abbf0634"> <bbox w="10.0" h="10.0" x="21997.06" y="14828.25"/> <port id="pr_765e489e-ffe3-4a94-801d-d508abbf0634_p1" x="22017.06" y="14833.25"/> <port id="pr_765e489e-ffe3-4a94-801d-d508abbf0634_p2" x="21987.06" y="14833.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_452c929e-3be8-41b8-829f-66d38b77e671"> <bbox w="10.0" h="10.0" x="18945.5" y="6442.5"/> <port id="pr_452c929e-3be8-41b8-829f-66d38b77e671_p1" x="18950.5" y="6432.5"/> <port id="pr_452c929e-3be8-41b8-829f-66d38b77e671_p2" x="18950.5" y="6462.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5c299942-d0aa-4148-ab76-4538164f5367"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ERK phosphorylates GSK3B to facilitate phosphorylation of GSK3B by p90RSK (RSK) which leads to the inactivation of GSK3B. GSK3B docking to ERK and phosphorylation by ERK are required for inhibition of beta-catenin (CTNNB1) ubiquitination and therefore for its stabilisation. ERK GSK3B and p90RSK (RSK) are in the same complex.</p> <p>PMID:16039586</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5c299942-d0aa-4148-ab76-4538164f5367"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16039586"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9153.594" y="20299.09"/> <port id="pr_5c299942-d0aa-4148-ab76-4538164f5367_p1" x="9158.594" y="20319.09"/> <port 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y="15639.5"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1bb7af7d-d741-4321-8c27-13f7c7fb3b67"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1329.3479" y="17469.0"/> <port id="pr_1bb7af7d-d741-4321-8c27-13f7c7fb3b67_p1" x="1334.3479" y="17489.0"/> <port id="pr_1bb7af7d-d741-4321-8c27-13f7c7fb3b67_p2" x="1334.3479" y="17459.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5e85240f-13f3-4324-b310-25187f740ce0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3353.5" 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id="pr_152cc993-6fb3-4026-917a-1154fed527da_p2" x="4180.715" y="18614.062"/> </glyph> <glyph class="process" orientation="vertical" id="pr_378be71f-ec43-4356-97b8-298520448bd9"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_378be71f-ec43-4356-97b8-298520448bd9"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5349.75" y="9528.0"/> <port id="pr_378be71f-ec43-4356-97b8-298520448bd9_p1" x="5354.75" y="9518.0"/> <port id="pr_378be71f-ec43-4356-97b8-298520448bd9_p2" x="5354.75" y="9548.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c1966303-faeb-4174-9e26-af6cdb30c617"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19560419</p> <p>CDKN1A interacts directly with NFE2L2, thus competing with KEAP1 binding</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c1966303-faeb-4174-9e26-af6cdb30c617"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19560419"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26419.06" y="10444.0"/> <port id="pr_c1966303-faeb-4174-9e26-af6cdb30c617_p1" x="26409.06" y="10449.0"/> <port id="pr_c1966303-faeb-4174-9e26-af6cdb30c617_p2" x="26439.06" y="10449.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0b6396a3-0664-49d7-8e87-d07ff2ed59e3"> <bbox w="10.0" h="10.0" x="16766.748" y="7091.25"/> <port id="pr_0b6396a3-0664-49d7-8e87-d07ff2ed59e3_p1" x="16771.748" y="7081.25"/> <port id="pr_0b6396a3-0664-49d7-8e87-d07ff2ed59e3_p2" x="16771.748" y="7111.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_77b55e3d-cce9-4dbd-84ca-78dc142413a4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19211554</p> <p>in PC-3 human prostate cancer cell line by HIF, transactivation of the promoter (ChIP, EMSA, reporter gene assay)</p> <p>PMID:10435632</p> <p>in murine immortalized bone marrow-derived pro-B-cell BA/F3, by STAT5 upon IL3</p> <p>PMID:10428780 AND PMID:10428030</p> <p>in murine erythroleukemia HCD-57 cells, by STAT5 upon EPO (HGNC:3415) treatment</p> <p>PMID:11756417</p> <p>in UT-7/TPO human TPO-dependent megakaryocytic cell line, by STAT5 and NF-kappaB, upon TPO</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_77b55e3d-cce9-4dbd-84ca-78dc142413a4"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19211554"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10435632"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10428780"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10428030"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11756417"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23341.05" y="16184.334"/> <port id="pr_77b55e3d-cce9-4dbd-84ca-78dc142413a4_p1" x="23346.05" y="16204.334"/> <port id="pr_77b55e3d-cce9-4dbd-84ca-78dc142413a4_p2" x="23346.05" y="16174.334"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_74d03ed3-f1d0-4049-960d-c3ff27a0d4b2"> <bbox w="10.0" h="10.0" x="11562.723" y="9072.369"/> <port id="pr_74d03ed3-f1d0-4049-960d-c3ff27a0d4b2_p1" x="11552.723" y="9077.369"/> <port id="pr_74d03ed3-f1d0-4049-960d-c3ff27a0d4b2_p2" x="11582.723" y="9077.369"/> </glyph> <glyph class="process" orientation="vertical" id="pr_75a4852d-3122-4626-871b-7dcb7a04c980"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3847.25" y="18998.0"/> <port id="pr_75a4852d-3122-4626-871b-7dcb7a04c980_p1" x="3852.25" y="18988.0"/> <port id="pr_75a4852d-3122-4626-871b-7dcb7a04c980_p2" x="3852.25" y="19018.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_2f6a4fd8-85db-4449-861e-283b53041006"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21059263</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2f6a4fd8-85db-4449-861e-283b53041006"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21059263"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21325.0"/> <port id="pr_2f6a4fd8-85db-4449-861e-283b53041006_p1" x="26547.56" y="21330.0"/> <port id="pr_2f6a4fd8-85db-4449-861e-283b53041006_p2" x="26577.56" y="21330.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1e999dd2-66cd-450c-9799-6bdf4986e377"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10980707 PMID:12606575</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1e999dd2-66cd-450c-9799-6bdf4986e377"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10980707"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12606575"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20769.06" y="21556.0"/> <port id="pr_1e999dd2-66cd-450c-9799-6bdf4986e377_p1" x="20789.06" y="21561.0"/> <port id="pr_1e999dd2-66cd-450c-9799-6bdf4986e377_p2" x="20759.06" y="21561.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_aa2875df-feaf-419c-87fb-816463482ee3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Endogenous TAK1 is activated by TGF-beta IL-1 and TNF.</p> <p>PMID:11274345</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_aa2875df-feaf-419c-87fb-816463482ee3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11274345"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11323.308" y="19441.725"/> <port id="pr_aa2875df-feaf-419c-87fb-816463482ee3_p1" x="11328.308" y="19431.725"/> <port id="pr_aa2875df-feaf-419c-87fb-816463482ee3_p2" x="11328.308" y="19461.725"/> </glyph> <glyph class="process" orientation="vertical" id="pr_fdcaf43f-7659-48c3-9d0f-e25fe8fa5260"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19176523</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_fdcaf43f-7659-48c3-9d0f-e25fe8fa5260"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19176523"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19867.56" y="14654.25"/> <port id="pr_fdcaf43f-7659-48c3-9d0f-e25fe8fa5260_p1" x="19872.56" y="14674.25"/> <port id="pr_fdcaf43f-7659-48c3-9d0f-e25fe8fa5260_p2" x="19872.56" y="14644.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6e7f5883-d60d-477f-b614-f799be6ae519"> <bbox w="10.0" h="10.0" x="20759.77" y="14971.512"/> <port id="pr_6e7f5883-d60d-477f-b614-f799be6ae519_p1" x="20764.77" y="14991.512"/> <port id="pr_6e7f5883-d60d-477f-b614-f799be6ae519_p2" x="20764.77" y="14961.512"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1c239e81-0487-4dbf-974b-eb704c649d3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Complex of G-alpha12 and p120 stabilises binding of E-cadherin in Adhesion-complex. G-alpha12 is found back in complex with p120 and E-cadherin</p> <p>PMID:15240885</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1c239e81-0487-4dbf-974b-eb704c649d3a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15240885"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17642.436" y="20697.5"/> <port id="pr_1c239e81-0487-4dbf-974b-eb704c649d3a_p1" x="17662.436" y="20702.5"/> <port id="pr_1c239e81-0487-4dbf-974b-eb704c649d3a_p2" x="17632.436" y="20702.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d3a22bdd-7f3b-4643-902d-da41cae92676"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:17662023</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d3a22bdd-7f3b-4643-902d-da41cae92676"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17662023"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18436.06" y="18188.26"/> <port id="pr_d3a22bdd-7f3b-4643-902d-da41cae92676_p1" x="18426.06" y="18193.26"/> <port id="pr_d3a22bdd-7f3b-4643-902d-da41cae92676_p2" x="18456.06" y="18193.26"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_02624707-f5de-4186-b041-9279984bd535"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Fanconi pathway is regulated at two levels:1. FANCD2 and FANCI uiquitination by UBE2T for Fanconi foci association. Followed by FANCD2 and FANCI DE-uiquitination by USP1/UAF1 to allow the repair process: </p> <p>PMID:19217432, PMID:18082604, PMID:19075014, PMID:18082605, PMID:19264559</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_02624707-f5de-4186-b041-9279984bd535"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19217432"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18082604"/> </rdf:Bag> 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</html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_f26c4115-4348-4ef8-bab0-94c2af2660aa"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20016067"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27036.31" y="18726.5"/> <port id="pr_f26c4115-4348-4ef8-bab0-94c2af2660aa_p1" x="27041.31" y="18716.5"/> <port id="pr_f26c4115-4348-4ef8-bab0-94c2af2660aa_p2" x="27041.31" y="18746.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8b5c6947-ddf2-4505-b7fa-d7ba9cfe4880"> <bbox w="10.0" h="10.0" x="27239.547" y="20648.75"/> <port id="pr_8b5c6947-ddf2-4505-b7fa-d7ba9cfe4880_p1" x="27244.547" y="20638.75"/> <port id="pr_8b5c6947-ddf2-4505-b7fa-d7ba9cfe4880_p2" x="27244.547" y="20668.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_85629d6b-c927-4cc2-8bba-497637fbf96f"> <bbox w="10.0" h="10.0" x="19115.0" y="3645.0"/> <port id="pr_85629d6b-c927-4cc2-8bba-497637fbf96f_p1" x="19135.0" y="3650.0"/> <port id="pr_85629d6b-c927-4cc2-8bba-497637fbf96f_p2" x="19105.0" y="3650.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_102e94ce-6e0d-4b4d-b97c-690e88cd6abc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2894.0" y="17079.238"/> <port id="pr_102e94ce-6e0d-4b4d-b97c-690e88cd6abc_p1" x="2914.0" y="17084.238"/> <port id="pr_102e94ce-6e0d-4b4d-b97c-690e88cd6abc_p2" x="2884.0" y="17084.238"/> </glyph> <glyph class="process" orientation="vertical" id="pr_11918437-cefb-475f-9e17-c4c970f8fe41"> <bbox w="10.0" h="10.0" x="3245.0" y="4745.0"/> <port id="pr_11918437-cefb-475f-9e17-c4c970f8fe41_p1" x="3250.0" y="4735.0"/> <port id="pr_11918437-cefb-475f-9e17-c4c970f8fe41_p2" x="3250.0" y="4765.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3d74163a-0aae-43c4-b8bb-2d51b1c04182"> <bbox w="10.0" h="10.0" x="21754.688" y="1838.75"/> <port id="pr_3d74163a-0aae-43c4-b8bb-2d51b1c04182_p1" x="21759.688" y="1858.75"/> <port id="pr_3d74163a-0aae-43c4-b8bb-2d51b1c04182_p2" x="21759.688" y="1828.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b133ac0c-b482-4a6b-87e3-aa8f46cbcb83"> <bbox w="10.0" h="10.0" x="11319.471" y="7391.25"/> <port id="pr_b133ac0c-b482-4a6b-87e3-aa8f46cbcb83_p1" x="11324.471" y="7381.25"/> <port id="pr_b133ac0c-b482-4a6b-87e3-aa8f46cbcb83_p2" x="11324.471" y="7411.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1f06c52c-beea-4712-a5be-711eee28759c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21245165</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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id="pr_d842411d-d42a-49ff-b69a-5a8082cbaef6_p1" x="4172.75" y="10748.5"/> <port id="pr_d842411d-d42a-49ff-b69a-5a8082cbaef6_p2" x="4172.75" y="10718.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ba59127c-3522-4d8f-b240-92283b285c58"> <bbox w="10.0" h="10.0" x="15705.0" y="5987.5"/> <port id="pr_ba59127c-3522-4d8f-b240-92283b285c58_p1" x="15710.0" y="6007.5"/> <port id="pr_ba59127c-3522-4d8f-b240-92283b285c58_p2" x="15710.0" y="5977.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_99bbef82-49bd-4901-8f7c-5546fdf3d815"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5416.607" y="16094.791"/> <port id="pr_99bbef82-49bd-4901-8f7c-5546fdf3d815_p1" x="5436.607" y="16099.791"/> <port id="pr_99bbef82-49bd-4901-8f7c-5546fdf3d815_p2" x="5406.607" y="16099.791"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e2ecdc4c-5d1a-41bc-974c-115017aa6682"> <bbox w="10.0" h="10.0" x="24039.06" y="9164.0"/> <port id="pr_e2ecdc4c-5d1a-41bc-974c-115017aa6682_p1" x="24029.06" y="9169.0"/> <port id="pr_e2ecdc4c-5d1a-41bc-974c-115017aa6682_p2" x="24059.06" y="9169.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a57087c0-f9f7-4237-999e-248b2a7b8ef3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26927.31" y="11742.408"/> <port id="pr_a57087c0-f9f7-4237-999e-248b2a7b8ef3_p1" x="26917.31" y="11747.408"/> <port id="pr_a57087c0-f9f7-4237-999e-248b2a7b8ef3_p2" x="26947.31" y="11747.408"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ccabf185-f3d6-4d2e-a6bb-60be66f06259"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5602.0" y="16179.138"/> <port id="pr_ccabf185-f3d6-4d2e-a6bb-60be66f06259_p1" x="5592.0" y="16184.138"/> <port id="pr_ccabf185-f3d6-4d2e-a6bb-60be66f06259_p2" x="5622.0" y="16184.138"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c19a023d-c6d4-474a-ba5d-a0e28d978c0f"> <bbox w="10.0" h="10.0" x="17927.31" y="19521.5"/> <port id="pr_c19a023d-c6d4-474a-ba5d-a0e28d978c0f_p1" x="17947.31" y="19526.5"/> <port id="pr_c19a023d-c6d4-474a-ba5d-a0e28d978c0f_p2" x="17917.31" y="19526.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5160c03d-af0a-486b-8b41-0a43aa6cdf32"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25922287</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5160c03d-af0a-486b-8b41-0a43aa6cdf32"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25922287"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4912.4546" y="5877.0"/> <port id="pr_5160c03d-af0a-486b-8b41-0a43aa6cdf32_p1" x="4917.4546" y="5867.0"/> <port id="pr_5160c03d-af0a-486b-8b41-0a43aa6cdf32_p2" x="4917.4546" y="5897.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_588507b1-5fab-4cec-99dc-99699d379557"> <bbox w="10.0" h="10.0" x="20597.75" y="5351.25"/> <port id="pr_588507b1-5fab-4cec-99dc-99699d379557_p1" x="20602.75" y="5341.25"/> <port id="pr_588507b1-5fab-4cec-99dc-99699d379557_p2" x="20602.75" y="5371.25"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_2c225f6b-edaa-4cc1-89c1-ce073a4fdcd7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6138.3594" y="14279.75"/> <port id="pr_2c225f6b-edaa-4cc1-89c1-ce073a4fdcd7_p1" x="6143.3594" y="14299.75"/> <port id="pr_2c225f6b-edaa-4cc1-89c1-ce073a4fdcd7_p2" x="6143.3594" y="14269.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6f8a2125-30a2-4f2c-9a6a-aeaf53c21243"> <bbox w="10.0" h="10.0" x="21499.0" y="7297.0"/> <port id="pr_6f8a2125-30a2-4f2c-9a6a-aeaf53c21243_p1" x="21504.0" y="7287.0"/> <port id="pr_6f8a2125-30a2-4f2c-9a6a-aeaf53c21243_p2" x="21504.0" y="7317.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_99de5e51-5c8f-46c1-98d6-9f9b61b46706"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:8836113</p> <p>GEFs are essential for CDC42 activation. They promote the exchange of GDP to GTP to generate the activated form of CDC42 capable of recognizing downstram targets.</p> <p>PMID:15023524</p> <p>DEF6 as a GEF of CDC42</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_99de5e51-5c8f-46c1-98d6-9f9b61b46706"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8836113"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15023524"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6177.3677" y="14561.607"/> <port id="pr_99de5e51-5c8f-46c1-98d6-9f9b61b46706_p1" x="6197.3677" y="14566.607"/> <port id="pr_99de5e51-5c8f-46c1-98d6-9f9b61b46706_p2" x="6167.3677" y="14566.607"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c3f7aae3-bb74-4877-8c79-ca3934adc4a8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5915.5" y="13587.0"/> <port id="pr_c3f7aae3-bb74-4877-8c79-ca3934adc4a8_p1" x="5905.5" y="13592.0"/> <port id="pr_c3f7aae3-bb74-4877-8c79-ca3934adc4a8_p2" x="5935.5" y="13592.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_edffa018-0b95-4913-90ef-b92991f60cb3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19960022</p> <p>in Saos2 human primary osteosarcoma cell line conditionally expressing E2F1, increased expression of MIR449A</p> <p>in U2OS and H1299 MIR449 expression upon transient transfection of E2F1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_edffa018-0b95-4913-90ef-b92991f60cb3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19960022"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21953.355" y="16186.25"/> <port id="pr_edffa018-0b95-4913-90ef-b92991f60cb3_p1" x="21958.355" y="16206.25"/> <port id="pr_edffa018-0b95-4913-90ef-b92991f60cb3_p2" x="21958.355" y="16176.25"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_7c9265bb-0a54-4f8a-af42-19d41b8a164c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_7c9265bb-0a54-4f8a-af42-19d41b8a164c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12686.311" y="21498.0"/> <port id="pr_7c9265bb-0a54-4f8a-af42-19d41b8a164c_p1" x="12676.311" y="21503.0"/> <port id="pr_7c9265bb-0a54-4f8a-af42-19d41b8a164c_p2" x="12706.311" y="21503.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1f122f9a-da08-4a63-8af8-c0596051b9ac"> <bbox w="10.0" h="10.0" x="22990.0" y="5286.25"/> <port id="pr_1f122f9a-da08-4a63-8af8-c0596051b9ac_p1" x="22995.0" y="5276.25"/> <port id="pr_1f122f9a-da08-4a63-8af8-c0596051b9ac_p2" x="22995.0" y="5306.25"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_190cec3b-1f03-4ce5-ba75-cbfecaf1c10f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5636.0" y="14619.821"/> <port id="pr_190cec3b-1f03-4ce5-ba75-cbfecaf1c10f_p1" x="5641.0" y="14609.821"/> <port id="pr_190cec3b-1f03-4ce5-ba75-cbfecaf1c10f_p2" x="5641.0" y="14639.821"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_424140f7-5d3e-4fe7-b550-0961349ed94a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1326.75" y="14305.5"/> <port id="pr_424140f7-5d3e-4fe7-b550-0961349ed94a_p1" x="1331.75" y="14295.5"/> <port id="pr_424140f7-5d3e-4fe7-b550-0961349ed94a_p2" x="1331.75" y="14325.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c9d9d7d1-7756-430a-b4b9-c26c0312af01"> <bbox w="10.0" h="10.0" x="3776.3875" y="21824.035"/> <port id="pr_c9d9d7d1-7756-430a-b4b9-c26c0312af01_p1" x="3796.3875" y="21829.035"/> <port id="pr_c9d9d7d1-7756-430a-b4b9-c26c0312af01_p2" x="3766.3875" y="21829.035"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e5bb0dc8-f92e-436e-b441-ce41289efaaa"> <bbox w="10.0" h="10.0" x="27182.316" y="15524.0"/> <port id="pr_e5bb0dc8-f92e-436e-b441-ce41289efaaa_p1" x="27202.316" y="15529.0"/> <port id="pr_e5bb0dc8-f92e-436e-b441-ce41289efaaa_p2" x="27172.316" y="15529.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b0d81ea9-c252-4a27-a774-8600c4969655"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="18557.56" y="16894.0"/> <port id="pr_b0d81ea9-c252-4a27-a774-8600c4969655_p1" x="18577.56" y="16899.0"/> <port id="pr_b0d81ea9-c252-4a27-a774-8600c4969655_p2" x="18547.56" y="16899.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_119205a3-63cb-4c1e-a3d0-8717d43d1801"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:21084277</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_119205a3-63cb-4c1e-a3d0-8717d43d1801"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21084277"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4225.6875" y="8982.9375"/> <port id="pr_119205a3-63cb-4c1e-a3d0-8717d43d1801_p1" x="4245.6875" y="8987.9375"/> <port id="pr_119205a3-63cb-4c1e-a3d0-8717d43d1801_p2" x="4215.6875" y="8987.9375"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d2960c9a-ce8f-4f55-8ca7-fad473d67068"> <bbox w="10.0" h="10.0" x="27556.0" y="2775.0"/> <port id="pr_d2960c9a-ce8f-4f55-8ca7-fad473d67068_p1" x="27546.0" y="2780.0"/> <port id="pr_d2960c9a-ce8f-4f55-8ca7-fad473d67068_p2" x="27576.0" y="2780.0"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_f467b117-4d6d-408d-8343-2886345b2c1d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2003.5" y="12884.5"/> <port id="pr_f467b117-4d6d-408d-8343-2886345b2c1d_p1" x="2008.5" y="12874.5"/> <port id="pr_f467b117-4d6d-408d-8343-2886345b2c1d_p2" x="2008.5" y="12904.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_58dce9ef-79db-4205-849e-05cfa381ff4d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:18716620</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_58dce9ef-79db-4205-849e-05cfa381ff4d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18716620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13250.311" y="21485.0"/> <port id="pr_58dce9ef-79db-4205-849e-05cfa381ff4d_p1" x="13255.311" y="21505.0"/> <port id="pr_58dce9ef-79db-4205-849e-05cfa381ff4d_p2" x="13255.311" y="21475.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2504dbda-20e4-4c29-a5b6-67f44812344a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="23710.06" y="10887.75"/> <port id="pr_2504dbda-20e4-4c29-a5b6-67f44812344a_p1" x="23715.06" y="10907.75"/> <port id="pr_2504dbda-20e4-4c29-a5b6-67f44812344a_p2" x="23715.06" y="10877.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6ceb041d-6a62-4066-9e25-0c80682ae690"> <bbox w="10.0" h="10.0" x="19683.613" y="14892.75"/> <port id="pr_6ceb041d-6a62-4066-9e25-0c80682ae690_p1" x="19688.613" y="14912.75"/> <port id="pr_6ceb041d-6a62-4066-9e25-0c80682ae690_p2" x="19688.613" y="14882.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e746bcdf-4c08-4faa-9a60-a3a9efcbd42b"> <bbox w="10.0" h="10.0" x="17735.0" y="4035.0"/> <port id="pr_e746bcdf-4c08-4faa-9a60-a3a9efcbd42b_p1" x="17740.0" y="4055.0"/> <port id="pr_e746bcdf-4c08-4faa-9a60-a3a9efcbd42b_p2" x="17740.0" y="4025.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a55c2b0a-9b01-449c-838b-4981aaea8635"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15004004</p> <p>review</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a55c2b0a-9b01-449c-838b-4981aaea8635"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15004004"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19523.973" y="16173.75"/> <port id="pr_a55c2b0a-9b01-449c-838b-4981aaea8635_p1" x="19528.973" y="16193.75"/> <port id="pr_a55c2b0a-9b01-449c-838b-4981aaea8635_p2" x="19528.973" y="16163.75"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_436d5732-d00d-496d-a0bd-5b253caf549e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5842.1914" y="16818.0"/> <port id="pr_436d5732-d00d-496d-a0bd-5b253caf549e_p1" x="5847.1914" y="16838.0"/> <port id="pr_436d5732-d00d-496d-a0bd-5b253caf549e_p2" x="5847.1914" y="16808.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_55fb6141-4680-46dd-9626-e78f4dd4afc8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19289499</p> <p>in Jurkat, in HEK293, RELA dependent upregulation of BECN1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_55fb6141-4680-46dd-9626-e78f4dd4afc8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19289499"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24138.55" y="16153.258"/> <port id="pr_55fb6141-4680-46dd-9626-e78f4dd4afc8_p1" x="24143.55" y="16173.258"/> <port id="pr_55fb6141-4680-46dd-9626-e78f4dd4afc8_p2" x="24143.55" y="16143.258"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c48af5c1-53fb-4015-a2c6-27ed25ae0494"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:17052453</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_c48af5c1-53fb-4015-a2c6-27ed25ae0494"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17052453"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="13528.811" y="17843.0"/> <port id="pr_c48af5c1-53fb-4015-a2c6-27ed25ae0494_p1" x="13518.811" y="17848.0"/> <port id="pr_c48af5c1-53fb-4015-a2c6-27ed25ae0494_p2" x="13548.811" y="17848.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_79b0ca7e-c416-4394-8bea-6c5f18c2ac47"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16581787, </p> <p>For inhibition of S-checkpoint by ATM:</p> <p>PMID:15175241</p> <p>Inhibition of Sphase by MRE complex:</p> <p>PMID:17713585</p> <p>By CycE*/CDK2: G1/S transition</p> <p>By CycD*/CDK2/CIp/KIP: checkpoint G1/S</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_79b0ca7e-c416-4394-8bea-6c5f18c2ac47"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16581787"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15175241"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17713585"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12029.566" y="13149.0"/> <port id="pr_79b0ca7e-c416-4394-8bea-6c5f18c2ac47_p1" x="12019.566" y="13154.0"/> <port id="pr_79b0ca7e-c416-4394-8bea-6c5f18c2ac47_p2" x="12049.566" y="13154.0"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_eefd22c8-d08d-4766-969c-e82b0ce34a0a"> <bbox w="20.0" h="20.0" x="12845.0" y="14089.834"/> <port id="logicglyph_eefd22c8-d08d-4766-969c-e82b0ce34a0a_p1" x="12855.0" y="14119.834"/> <port id="logicglyph_eefd22c8-d08d-4766-969c-e82b0ce34a0a_p2" x="12855.0" y="14079.834"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a428ad2e-0d19-4938-aa3f-e9fb3e227a13"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22923768 </p> <p>The R2TP complex, specially its Pontin and Reptin complex are needed to release SHQ1 from DKC1 </p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a428ad2e-0d19-4938-aa3f-e9fb3e227a13"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22923768"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5598.56" y="22220.082"/> <port id="pr_a428ad2e-0d19-4938-aa3f-e9fb3e227a13_p1" x="5588.56" y="22225.082"/> <port id="pr_a428ad2e-0d19-4938-aa3f-e9fb3e227a13_p2" x="5618.56" y="22225.082"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d401af8c-73f5-464a-ad9e-fe5732871c66"> <bbox w="10.0" h="10.0" x="19761.06" y="14358.207"/> <port id="pr_d401af8c-73f5-464a-ad9e-fe5732871c66_p1" x="19781.06" y="14363.207"/> <port id="pr_d401af8c-73f5-464a-ad9e-fe5732871c66_p2" x="19751.06" y="14363.207"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2dc28953-e140-4fcf-8193-7bbf1186fce4"> <bbox w="10.0" h="10.0" x="22144.168" y="15998.186"/> <port id="pr_2dc28953-e140-4fcf-8193-7bbf1186fce4_p1" x="22149.168" y="16018.186"/> <port id="pr_2dc28953-e140-4fcf-8193-7bbf1186fce4_p2" x="22149.168" y="15988.186"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d09efaa6-6dee-4c02-86e2-ccd5aef882f8"> <bbox w="10.0" h="10.0" x="18735.988" y="11144.549"/> <port id="pr_d09efaa6-6dee-4c02-86e2-ccd5aef882f8_p1" x="18740.988" y="11134.549"/> <port id="pr_d09efaa6-6dee-4c02-86e2-ccd5aef882f8_p2" x="18740.988" y="11164.549"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7967c264-9c1d-48f1-af47-abd1df22e693"> <bbox w="10.0" h="10.0" x="1980.6235" y="4686.375"/> <port id="pr_7967c264-9c1d-48f1-af47-abd1df22e693_p1" x="1985.6235" y="4676.375"/> <port id="pr_7967c264-9c1d-48f1-af47-abd1df22e693_p2" x="1985.6235" y="4706.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_02d5f43f-9243-4bd0-b361-58a1667495dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_02d5f43f-9243-4bd0-b361-58a1667495dd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28284838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3369.0" y="12143.0"/> <port id="pr_02d5f43f-9243-4bd0-b361-58a1667495dd_p1" x="3374.0" y="12133.0"/> <port id="pr_02d5f43f-9243-4bd0-b361-58a1667495dd_p2" x="3374.0" y="12163.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3e934180-2cd6-4f15-bca0-8ab627b7d4aa"> <bbox w="10.0" h="10.0" x="4274.81" y="7938.0"/> <port id="pr_3e934180-2cd6-4f15-bca0-8ab627b7d4aa_p1" x="4279.81" y="7958.0"/> <port id="pr_3e934180-2cd6-4f15-bca0-8ab627b7d4aa_p2" x="4279.81" y="7928.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3475993f-517c-4306-9861-d7226675283f"> <bbox w="10.0" h="10.0" x="1211.25" y="4552.5"/> <port id="pr_3475993f-517c-4306-9861-d7226675283f_p1" x="1231.25" y="4557.5"/> <port id="pr_3475993f-517c-4306-9861-d7226675283f_p2" x="1201.25" y="4557.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b8206a61-b91b-44bd-8a64-4b1065f9473f"> <bbox w="10.0" h="10.0" x="11050.426" y="10429.731"/> <port id="pr_b8206a61-b91b-44bd-8a64-4b1065f9473f_p1" x="11055.426" y="10419.731"/> <port id="pr_b8206a61-b91b-44bd-8a64-4b1065f9473f_p2" x="11055.426" y="10449.731"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_141e663b-27f7-46ff-b254-123c91282843"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11546872</p> <p>in HEK293T, coIP</p> <p>Y2H</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_141e663b-27f7-46ff-b254-123c91282843"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11546872"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="22612.23" y="13193.48"/> <port id="pr_141e663b-27f7-46ff-b254-123c91282843_p1" x="22632.23" y="13198.48"/> <port id="pr_141e663b-27f7-46ff-b254-123c91282843_p2" x="22602.23" y="13198.48"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2df46f39-1491-4b13-9dd4-b277b3e94a2f"> <bbox w="10.0" h="10.0" x="22109.121" y="16120.0"/> <port id="pr_2df46f39-1491-4b13-9dd4-b277b3e94a2f_p1" x="22114.121" y="16140.0"/> <port id="pr_2df46f39-1491-4b13-9dd4-b277b3e94a2f_p2" x="22114.121" y="16110.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4815e4b7-c36a-480b-96df-a59e65e26ebb"> <bbox w="10.0" h="10.0" x="3236.25" y="2801.25"/> <port id="pr_4815e4b7-c36a-480b-96df-a59e65e26ebb_p1" x="3241.25" y="2791.25"/> <port id="pr_4815e4b7-c36a-480b-96df-a59e65e26ebb_p2" x="3241.25" y="2821.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_62ec88cb-5d78-424f-8596-fee166721686"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>influenceDelete: re to reactants</p> <p>PMID:19342239</p> <p>review</p> <p>genetic arguments for the components of this complex being recruited all together</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_62ec88cb-5d78-424f-8596-fee166721686"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19342239"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18837.06" y="16478.736"/> <port id="pr_62ec88cb-5d78-424f-8596-fee166721686_p1" x="18827.06" y="16483.736"/> <port id="pr_62ec88cb-5d78-424f-8596-fee166721686_p2" x="18857.06" y="16483.736"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3135b36b-ff35-433c-aaf1-83d995972c7b"> <bbox w="10.0" h="10.0" x="24028.766" y="4928.0"/> <port id="pr_3135b36b-ff35-433c-aaf1-83d995972c7b_p1" x="24033.766" y="4948.0"/> <port 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id="pr_7fc19278-d916-4cb3-bcdb-9cb3118ca4e2"> <bbox w="10.0" h="10.0" x="3872.0303" y="22794.543"/> <port id="pr_7fc19278-d916-4cb3-bcdb-9cb3118ca4e2_p1" x="3892.0303" y="22799.543"/> <port id="pr_7fc19278-d916-4cb3-bcdb-9cb3118ca4e2_p2" x="3862.0303" y="22799.543"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2ff97380-a31b-4bb1-a803-0506367a7b83"> <bbox w="10.0" h="10.0" x="21213.049" y="6935.625"/> <port id="pr_2ff97380-a31b-4bb1-a803-0506367a7b83_p1" x="21218.049" y="6925.625"/> <port id="pr_2ff97380-a31b-4bb1-a803-0506367a7b83_p2" x="21218.049" y="6955.625"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_dcbc28b2-feeb-4ce2-8cec-571ee3ca7528"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dcbc28b2-feeb-4ce2-8cec-571ee3ca7528"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12687.311" y="20644.0"/> <port id="pr_dcbc28b2-feeb-4ce2-8cec-571ee3ca7528_p1" x="12677.311" y="20649.0"/> <port id="pr_dcbc28b2-feeb-4ce2-8cec-571ee3ca7528_p2" x="12707.311" y="20649.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_54dacd51-1c97-47d2-810a-cef947cf0f63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_54dacd51-1c97-47d2-810a-cef947cf0f63"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24668.06" y="18527.0"/> <port id="pr_54dacd51-1c97-47d2-810a-cef947cf0f63_p1" x="24658.06" y="18532.0"/> <port id="pr_54dacd51-1c97-47d2-810a-cef947cf0f63_p2" x="24688.06" y="18532.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3139c727-e3d7-4ee6-bd36-fbc49af3add8"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18393939</p> <p>in HEK293</p> <p>PMID:17272744</p> <p>in human pulmonary artery smooth muscle cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3139c727-e3d7-4ee6-bd36-fbc49af3add8"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18393939"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17272744"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24062.057" y="16153.398"/> <port id="pr_3139c727-e3d7-4ee6-bd36-fbc49af3add8_p1" x="24067.057" y="16173.398"/> <port id="pr_3139c727-e3d7-4ee6-bd36-fbc49af3add8_p2" x="24067.057" y="16143.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_da5d5dd0-dd00-4c7c-aaff-35195a4163b6"> <bbox w="10.0" h="10.0" x="9460.344" y="4713.1875"/> <port id="pr_da5d5dd0-dd00-4c7c-aaff-35195a4163b6_p1" x="9480.344" y="4718.1875"/> <port id="pr_da5d5dd0-dd00-4c7c-aaff-35195a4163b6_p2" x="9450.344" y="4718.1875"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_277151b2-3932-4250-b677-7c6b69a3c6ab"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:28747251</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_277151b2-3932-4250-b677-7c6b69a3c6ab"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28747251"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27800.154" y="12979.0"/> <port id="pr_277151b2-3932-4250-b677-7c6b69a3c6ab_p1" x="27790.154" y="12984.0"/> <port id="pr_277151b2-3932-4250-b677-7c6b69a3c6ab_p2" x="27820.154" y="12984.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_64775bd0-162c-4a55-8328-ea7e5b3ceaf7"> <bbox w="10.0" h="10.0" x="5008.5" y="6504.528"/> <port id="pr_64775bd0-162c-4a55-8328-ea7e5b3ceaf7_p1" x="4998.5" y="6509.528"/> <port id="pr_64775bd0-162c-4a55-8328-ea7e5b3ceaf7_p2" x="5028.5" y="6509.528"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52bd1316-462c-47bc-b48c-5c0c74dee99c"> <bbox w="10.0" h="10.0" x="22938.125" y="4567.5"/> <port id="pr_52bd1316-462c-47bc-b48c-5c0c74dee99c_p1" x="22928.125" y="4572.5"/> <port id="pr_52bd1316-462c-47bc-b48c-5c0c74dee99c_p2" x="22958.125" y="4572.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cd7ad89d-747d-42d9-ad3c-fc34b8e604e5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="26949.06" y="9486.5"/> <port id="pr_cd7ad89d-747d-42d9-ad3c-fc34b8e604e5_p1" x="26954.06" y="9476.5"/> <port id="pr_cd7ad89d-747d-42d9-ad3c-fc34b8e604e5_p2" x="26954.06" y="9506.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_431e1d7d-5c42-4b6f-85d2-e24ee4f50fd5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>In general, growth factor stimulation leads to the activation of receptor tyrosine kinases and to the phosphorylation of the receptor tail.</p> <p>The resultant phosphotyrosines form docking sites for adaptator proteins (e.g. GRB2 via its SH2 domain).</p> <p>The SH3 domain of adaptator (e.g. GRB2) then binds to the proline-rich motifs in the GTP exchange factor (i.e. GEF) for RAS (e.g. SOS)</p> <p>Via this process that GEF (e.g. SOS) is recruited to the membrane where it colocalizes with and activates Ras.</p> <p>PMID:17673906</p> <p>SHC1 gene has 3 corresponding protein isoforms: p66, p52 and p46</p> <p>Upon TGFB stimulation, the activated TGFBR1 recruits and directly phosphorylates SHC1 (p66 or p52) on tyrosine and serine. </p> <p>TGFB-induced SHC1 phosphorylation induces SHC1 (p66 or p52) association with Grb2 and Sos</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_431e1d7d-5c42-4b6f-85d2-e24ee4f50fd5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17673906"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6462.7734" y="15877.85"/> <port id="pr_431e1d7d-5c42-4b6f-85d2-e24ee4f50fd5_p1" x="6452.7734" y="15882.85"/> <port id="pr_431e1d7d-5c42-4b6f-85d2-e24ee4f50fd5_p2" x="6482.7734" y="15882.85"/> </glyph> <glyph class="process" orientation="vertical" id="pr_905a928b-164c-48f6-8b34-94747bbfc774"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24536.56" y="16514.0"/> <port id="pr_905a928b-164c-48f6-8b34-94747bbfc774_p1" x="24541.56" y="16534.0"/> <port id="pr_905a928b-164c-48f6-8b34-94747bbfc774_p2" x="24541.56" y="16504.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3ccbabfc-3501-4d97-a5c9-246f00b80291"> <bbox w="10.0" h="10.0" x="18293.06" y="20911.0"/> <port id="pr_3ccbabfc-3501-4d97-a5c9-246f00b80291_p1" x="18283.06" y="20916.0"/> <port id="pr_3ccbabfc-3501-4d97-a5c9-246f00b80291_p2" x="18313.06" y="20916.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_64c5122c-d840-48da-8d67-10610fc08b8a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6010.75" y="15791.25"/> <port id="pr_64c5122c-d840-48da-8d67-10610fc08b8a_p1" x="6000.75" y="15796.25"/> <port id="pr_64c5122c-d840-48da-8d67-10610fc08b8a_p2" x="6030.75" y="15796.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5fb4bf6d-ce98-41a6-8894-115270ee50e9"> <bbox w="10.0" h="10.0" x="27436.06" y="9484.0"/> <port id="pr_5fb4bf6d-ce98-41a6-8894-115270ee50e9_p1" x="27426.06" y="9489.0"/> <port id="pr_5fb4bf6d-ce98-41a6-8894-115270ee50e9_p2" x="27456.06" y="9489.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_70a370a4-2e38-4560-8a7d-fd5f33e51c48"> <bbox w="10.0" h="10.0" x="26666.56" y="10124.75"/> <port id="pr_70a370a4-2e38-4560-8a7d-fd5f33e51c48_p1" x="26656.56" y="10129.75"/> <port id="pr_70a370a4-2e38-4560-8a7d-fd5f33e51c48_p2" x="26686.56" y="10129.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_37b56f8d-4168-4406-990e-b40fd48c7e46"> <bbox w="10.0" h="10.0" x="4925.81" y="22531.0"/> <port id="pr_37b56f8d-4168-4406-990e-b40fd48c7e46_p1" x="4930.81" y="22521.0"/> <port id="pr_37b56f8d-4168-4406-990e-b40fd48c7e46_p2" x="4930.81" y="22551.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5097ba59-4387-4096-ace3-4e33f63a9eff"> <bbox w="10.0" h="10.0" x="14341.154" y="17183.14"/> <port id="pr_5097ba59-4387-4096-ace3-4e33f63a9eff_p1" x="14346.154" y="17203.14"/> <port id="pr_5097ba59-4387-4096-ace3-4e33f63a9eff_p2" x="14346.154" y="17173.14"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_982a721e-d004-4e85-9979-e8f09e2de6af"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18687677</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_982a721e-d004-4e85-9979-e8f09e2de6af"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18687677"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17921.56" y="16079.0"/> <port id="pr_982a721e-d004-4e85-9979-e8f09e2de6af_p1" x="17911.56" y="16084.0"/> <port id="pr_982a721e-d004-4e85-9979-e8f09e2de6af_p2" x="17941.56" y="16084.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5e2d8e75-53f3-472b-b86f-82b47d29bcb1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>TNF-dependent production of ROS triggers the dissociation of Trx from ASK1.</p> <p>PMID:12655147</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5e2d8e75-53f3-472b-b86f-82b47d29bcb1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12655147"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11485.586" y="19455.113"/> <port id="pr_5e2d8e75-53f3-472b-b86f-82b47d29bcb1_p1" x="11490.586" y="19475.113"/> <port id="pr_5e2d8e75-53f3-472b-b86f-82b47d29bcb1_p2" x="11490.586" y="19445.113"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_26e0e1e7-daa4-414a-bd27-512cfa1adb3a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>RSK2 is a well known ERK substrate in the cytoplasm.</p> <p>Activated RSK can be found in both nuclear and cytoplasmic compartments.</p> <p>PMID:15239952 PMID:15187187</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26e0e1e7-daa4-414a-bd27-512cfa1adb3a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15239952"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15187187"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9012.555" y="20346.63"/> <port id="pr_26e0e1e7-daa4-414a-bd27-512cfa1adb3a_p1" x="9032.555" y="20351.63"/> <port id="pr_26e0e1e7-daa4-414a-bd27-512cfa1adb3a_p2" x="9002.555" y="20351.63"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2fc98a74-d6b6-413c-a472-1cd4675bb577"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23010170</p> <p>K63-linked polyubiquitination of RIP1 provides a scaffold for the recruitment of TGF-beta-activated kinase 1 (TAK1) binding protein 2 and 3 (TAB2 and 3),</p> <p>which finally activates TAK1</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2fc98a74-d6b6-413c-a472-1cd4675bb577"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23010170"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23295.137" y="9486.875"/> <port id="pr_2fc98a74-d6b6-413c-a472-1cd4675bb577_p1" x="23300.137" y="9476.875"/> <port id="pr_2fc98a74-d6b6-413c-a472-1cd4675bb577_p2" x="23300.137" y="9506.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8cbfc483-10e6-4348-a6c8-29f5ec70978e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1849.2653" y="16852.25"/> <port id="pr_8cbfc483-10e6-4348-a6c8-29f5ec70978e_p1" x="1854.2653" y="16872.25"/> <port id="pr_8cbfc483-10e6-4348-a6c8-29f5ec70978e_p2" x="1854.2653" y="16842.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_65027424-d908-4548-b2fb-fc23b18e05d6"> <bbox w="10.0" h="10.0" x="22394.06" y="9494.0"/> <port id="pr_65027424-d908-4548-b2fb-fc23b18e05d6_p1" x="22399.06" y="9484.0"/> <port id="pr_65027424-d908-4548-b2fb-fc23b18e05d6_p2" x="22399.06" y="9514.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_35166076-3b5a-4f71-ab44-2656b69c7521"> <bbox w="10.0" h="10.0" x="30206.0" y="4370.0"/> <port id="pr_35166076-3b5a-4f71-ab44-2656b69c7521_p1" x="30196.0" y="4375.0"/> <port id="pr_35166076-3b5a-4f71-ab44-2656b69c7521_p2" x="30226.0" y="4375.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc552ece-7278-4472-b192-2e6def34bf6d"> <bbox w="10.0" h="10.0" x="29319.06" y="9454.0"/> <port id="pr_cc552ece-7278-4472-b192-2e6def34bf6d_p1" x="29324.06" y="9444.0"/> <port id="pr_cc552ece-7278-4472-b192-2e6def34bf6d_p2" x="29324.06" y="9474.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_cc42c291-de6d-4ac3-b324-6c1df5992e5e"> <bbox w="10.0" h="10.0" x="10352.486" y="565.625"/> <port id="pr_cc42c291-de6d-4ac3-b324-6c1df5992e5e_p1" x="10357.486" y="555.625"/> <port id="pr_cc42c291-de6d-4ac3-b324-6c1df5992e5e_p2" x="10357.486" y="585.625"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_ffd3204b-fecb-4b90-a19e-751ecb3b6e1c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5727.1167" y="18484.25"/> <port id="pr_ffd3204b-fecb-4b90-a19e-751ecb3b6e1c_p1" x="5732.1167" y="18504.25"/> <port id="pr_ffd3204b-fecb-4b90-a19e-751ecb3b6e1c_p2" x="5732.1167" y="18474.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_db26b4da-fb0a-45ab-bcd5-40db39f3924d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18372913</p> <p>PAR1 activates EGFR</p> <p>PMID:16525676</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_db26b4da-fb0a-45ab-bcd5-40db39f3924d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18372913"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16525676"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14703.395" y="18936.574"/> <port id="pr_db26b4da-fb0a-45ab-bcd5-40db39f3924d_p1" x="14693.395" y="18941.574"/> <port id="pr_db26b4da-fb0a-45ab-bcd5-40db39f3924d_p2" x="14723.395" y="18941.574"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_3a21adfa-b6af-40f0-a89e-ffa016634283"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5768.3594" y="14388.85"/> <port id="pr_3a21adfa-b6af-40f0-a89e-ffa016634283_p1" x="5773.3594" y="14408.85"/> <port id="pr_3a21adfa-b6af-40f0-a89e-ffa016634283_p2" x="5773.3594" y="14378.85"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_137401d5-14cb-473b-8744-15456b326f02"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Sef1 which is a putative transmembrane protein of the Golgi apparatus seems to be a scaffold protein that recruits ERK1/2 and MEK1/2 to its vicinity and probably allows their activation by Golgi-localised Ras proteins.</p> <p>PMID:19565474</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_137401d5-14cb-473b-8744-15456b326f02"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19565474"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="7975.5605" y="19908.008"/> <port id="pr_137401d5-14cb-473b-8744-15456b326f02_p1" x="7995.5605" y="19913.008"/> <port id="pr_137401d5-14cb-473b-8744-15456b326f02_p2" x="7965.5605" y="19913.008"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_836fc46c-b4f7-4944-b9a9-f9918a4df5ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5046.25" y="15694.5"/> <port id="pr_836fc46c-b4f7-4944-b9a9-f9918a4df5ea_p1" x="5036.25" y="15699.5"/> <port id="pr_836fc46c-b4f7-4944-b9a9-f9918a4df5ea_p2" x="5066.25" y="15699.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_074deef3-6d82-4637-abf9-41fd1d701948"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20817.56" y="14044.0"/> <port id="pr_074deef3-6d82-4637-abf9-41fd1d701948_p1" x="20807.56" y="14049.0"/> <port id="pr_074deef3-6d82-4637-abf9-41fd1d701948_p2" x="20837.56" y="14049.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_73bc944c-6c91-4463-817b-445ffdcd89ca"> <bbox w="10.0" h="10.0" x="28152.81" y="11743.624"/> <port id="pr_73bc944c-6c91-4463-817b-445ffdcd89ca_p1" x="28142.81" y="11748.624"/> <port id="pr_73bc944c-6c91-4463-817b-445ffdcd89ca_p2" x="28172.81" y="11748.624"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_633716b7-3f70-4691-bc3d-f19ac77c7d11"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>CDC42 promotes changes in actin cytoskeleton by several pathways.</p> <p>PMID:10461188</p> <p>PMID:11950587</p> <p>PMID:11340065</p> <p>PMID:10559936</p> <p>PMID:10613909</p> <p>PMID:11413130</p> <p>CDC42 activates PAK1,2,3,4 and CDC42BPA (MRCKalpha) which phosphorylate LIMK1,2.</p> <p>LIMK1,2 subsquently phosphorylate and inhibit Cofilin</p> <p>Destrin as actin depolymerizing factor, once phosphorylated by LIMK1,2 is inactive and thus this phosphorylation leads to actin polymerization and stimulation of filopodia and stress fibers formation.</p> <p>PMID:15713627</p> <p>Spatially distinct binding of Cdc42 to PAK1 and N-WASP</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_633716b7-3f70-4691-bc3d-f19ac77c7d11"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10461188"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11950587"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11340065"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10559936"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10613909"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11413130"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15713627"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6158.5" y="14721.5"/> <port id="pr_633716b7-3f70-4691-bc3d-f19ac77c7d11_p1" x="6148.5" y="14726.5"/> <port id="pr_633716b7-3f70-4691-bc3d-f19ac77c7d11_p2" x="6178.5" y="14726.5"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_a34f1594-1515-4fd9-828f-bcf6a836aa17"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20673124</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a34f1594-1515-4fd9-828f-bcf6a836aa17"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20673124"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12686.311" y="21455.0"/> <port id="pr_a34f1594-1515-4fd9-828f-bcf6a836aa17_p1" x="12676.311" y="21460.0"/> <port id="pr_a34f1594-1515-4fd9-828f-bcf6a836aa17_p2" x="12706.311" y="21460.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_74bd453d-e6a6-4cb3-b574-96a189129c43"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Docking of activated ERK to the KSR1 scaffold negatively regulates the interaction between KSR1 and B-Raf.</p> <p>PMID:19541618</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_74bd453d-e6a6-4cb3-b574-96a189129c43"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19541618"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9150.811" y="19235.105"/> <port id="pr_74bd453d-e6a6-4cb3-b574-96a189129c43_p1" x="9140.811" y="19240.105"/> <port id="pr_74bd453d-e6a6-4cb3-b574-96a189129c43_p2" x="9170.811" y="19240.105"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3ccee835-9d48-4b0a-9209-c43a8e246a3b"> <bbox w="10.0" h="10.0" x="5370.56" y="22049.877"/> <port id="pr_3ccee835-9d48-4b0a-9209-c43a8e246a3b_p1" x="5390.56" y="22054.877"/> <port id="pr_3ccee835-9d48-4b0a-9209-c43a8e246a3b_p2" x="5360.56" y="22054.877"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_99992c9b-8541-42f2-bf6c-40dd9a6b529a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>homotetramerisation of FBP</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19224.81" y="9913.595"/> <port id="pr_99992c9b-8541-42f2-bf6c-40dd9a6b529a_p1" x="19244.81" y="9918.595"/> <port id="pr_99992c9b-8541-42f2-bf6c-40dd9a6b529a_p2" x="19214.81" y="9918.595"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_fc4e6403-fe43-48c3-b1fc-11c008578d66"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID15509806</p> <p>PMID20673124</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="12687.311" y="21031.0"/> <port id="pr_fc4e6403-fe43-48c3-b1fc-11c008578d66_p1" x="12677.311" y="21036.0"/> <port id="pr_fc4e6403-fe43-48c3-b1fc-11c008578d66_p2" x="12707.311" y="21036.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_f4dc6fec-99e7-4631-90b3-debdf4a69273"> <bbox w="10.0" h="10.0" x="6297.0" y="6542.75"/> <port id="pr_f4dc6fec-99e7-4631-90b3-debdf4a69273_p1" x="6302.0" y="6532.75"/> <port id="pr_f4dc6fec-99e7-4631-90b3-debdf4a69273_p2" x="6302.0" y="6562.75"/> </glyph> <glyph 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h="10.0" x="21041.56" y="10921.0"/> <port id="pr_74fd2c78-6466-4ef5-8060-7d44e49d2479_p1" x="21061.56" y="10926.0"/> <port id="pr_74fd2c78-6466-4ef5-8060-7d44e49d2479_p2" x="21031.56" y="10926.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b1d89670-247f-49ee-8b7e-53cf2cff8946"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:22037766</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17018620</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ba2c1cf4-f1a4-4f6a-b4c6-296e3d7172b7"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17018620"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5338.5" y="11142.126"/> <port id="pr_ba2c1cf4-f1a4-4f6a-b4c6-296e3d7172b7_p1" x="5328.5" y="11147.126"/> <port id="pr_ba2c1cf4-f1a4-4f6a-b4c6-296e3d7172b7_p2" x="5358.5" y="11147.126"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d75a027f-1650-4cb9-8ab9-bd96a1700c76"> <bbox w="10.0" h="10.0" x="18981.277" y="11353.398"/> <port id="pr_d75a027f-1650-4cb9-8ab9-bd96a1700c76_p1" x="19001.277" y="11358.398"/> <port id="pr_d75a027f-1650-4cb9-8ab9-bd96a1700c76_p2" x="18971.277" y="11358.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_bf60c274-9385-48dd-a253-cab4d737b046"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:12652308</p> <p>in HEK293</p> <p>Ku70 KO in MEFs results in hypersensitivity to apoptosis</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF 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h="10.0" x="5989.4277" y="6734.25"/> <port id="pr_80b641a8-c234-4f50-94da-ff11afb56acc_p1" x="5994.4277" y="6724.25"/> <port id="pr_80b641a8-c234-4f50-94da-ff11afb56acc_p2" x="5994.4277" y="6754.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f652edf7-d893-467e-a0b1-db3a09922599"> <bbox w="10.0" h="10.0" x="5397.092" y="11218.223"/> <port id="pr_f652edf7-d893-467e-a0b1-db3a09922599_p1" x="5387.092" y="11223.223"/> <port id="pr_f652edf7-d893-467e-a0b1-db3a09922599_p2" x="5417.092" y="11223.223"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3898a897-9a8f-46f7-b160-3820b3e84f99"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:26597054</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3898a897-9a8f-46f7-b160-3820b3e84f99"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:26597054"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3234.6665" y="10095.0"/> <port id="pr_3898a897-9a8f-46f7-b160-3820b3e84f99_p1" x="3239.6665" y="10085.0"/> <port id="pr_3898a897-9a8f-46f7-b160-3820b3e84f99_p2" x="3239.6665" y="10115.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_22693074-5546-4130-9767-a59a82f544ae"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:19945467</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_22693074-5546-4130-9767-a59a82f544ae"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19945467"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4347.875" y="10388.875"/> <port id="pr_22693074-5546-4130-9767-a59a82f544ae_p1" x="4352.875" y="10408.875"/> <port id="pr_22693074-5546-4130-9767-a59a82f544ae_p2" x="4352.875" y="10378.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1d293181-d58d-48e4-b61c-ff1ce41f352c"> <bbox w="10.0" h="10.0" x="26301.0" y="2535.0"/> <port id="pr_1d293181-d58d-48e4-b61c-ff1ce41f352c_p1" x="26306.0" y="2525.0"/> <port id="pr_1d293181-d58d-48e4-b61c-ff1ce41f352c_p2" x="26306.0" y="2555.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e2e9e60c-cc69-4a52-9a3d-be47379ef25c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>in Ba/F3 upon IL3 deprivation (cell fractionation)</p> <p>in Hela expressing the tagged C-terminal cleavage product of BECN1 (microscopy)PMID:23377657</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_e2e9e60c-cc69-4a52-9a3d-be47379ef25c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="(microscopy)urn:miriam:pubmed:23377657"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25330.31" y="13207.75"/> <port id="pr_e2e9e60c-cc69-4a52-9a3d-be47379ef25c_p1" x="25350.31" y="13212.75"/> <port id="pr_e2e9e60c-cc69-4a52-9a3d-be47379ef25c_p2" x="25320.31" y="13212.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bcba326b-2efe-48d7-a118-140cf14e02b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:19759537</p> <p>PMID:21799911</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_bcba326b-2efe-48d7-a118-140cf14e02b0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19759537"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21799911"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24887.56" y="18558.0"/> <port id="pr_bcba326b-2efe-48d7-a118-140cf14e02b0_p1" x="24892.56" y="18578.0"/> <port id="pr_bcba326b-2efe-48d7-a118-140cf14e02b0_p2" x="24892.56" y="18548.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8ce27922-bae0-4cda-b279-094b5b8e27ac"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4480.945" y="17690.0"/> <port id="pr_8ce27922-bae0-4cda-b279-094b5b8e27ac_p1" x="4485.945" y="17680.0"/> <port id="pr_8ce27922-bae0-4cda-b279-094b5b8e27ac_p2" x="4485.945" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_fc64c9ac-cd9b-43ad-97c7-7ca9a3eee8b7"> <bbox w="10.0" h="10.0" x="15960.5" y="6210.6074"/> <port id="pr_fc64c9ac-cd9b-43ad-97c7-7ca9a3eee8b7_p1" x="15980.5" y="6215.6074"/> <port id="pr_fc64c9ac-cd9b-43ad-97c7-7ca9a3eee8b7_p2" x="15950.5" y="6215.6074"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f358481a-461f-4bc1-b57c-d69965d77b37"> <bbox w="10.0" h="10.0" x="10919.25" y="3969.4287"/> <port id="pr_f358481a-461f-4bc1-b57c-d69965d77b37_p1" x="10909.25" y="3974.4287"/> <port id="pr_f358481a-461f-4bc1-b57c-d69965d77b37_p2" x="10939.25" y="3974.4287"/> </glyph> <glyph class="process" orientation="vertical" id="pr_790b59a2-003a-4afa-9424-f8509e953ee0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24832.318" y="13330.932"/> <port id="pr_790b59a2-003a-4afa-9424-f8509e953ee0_p1" x="24837.318" y="13350.932"/> <port id="pr_790b59a2-003a-4afa-9424-f8509e953ee0_p2" x="24837.318" y="13320.932"/> </glyph> <glyph class="process" orientation="vertical" id="pr_faaccf97-ceee-4725-a7cf-ed07806fb730"> <bbox w="10.0" h="10.0" x="13177.5" y="2063.0"/> <port id="pr_faaccf97-ceee-4725-a7cf-ed07806fb730_p1" x="13182.5" y="2083.0"/> <port id="pr_faaccf97-ceee-4725-a7cf-ed07806fb730_p2" x="13182.5" y="2053.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_654c524d-df5f-40d2-a278-a8f95420a7c5"> <bbox w="10.0" h="10.0" x="23088.336" y="12962.75"/> <port id="pr_654c524d-df5f-40d2-a278-a8f95420a7c5_p1" x="23093.336" y="12982.75"/> <port id="pr_654c524d-df5f-40d2-a278-a8f95420a7c5_p2" x="23093.336" y="12952.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_672f7977-9e99-4cb5-9bf2-482e5f46488d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11801603</p> <p>in 293T, interaction between ectopically expressed proteins</p> <p>in vitro, interaction between a DIABLO peptide and the BIR domain of ML-IAP</p> <p>in 293T, binding of DIABLO to BIRC7 antagonizes the binding of processed CASP9</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_672f7977-9e99-4cb5-9bf2-482e5f46488d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11801603"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24884.06" y="12632.0"/> <port id="pr_672f7977-9e99-4cb5-9bf2-482e5f46488d_p1" x="24889.06" y="12652.0"/> <port id="pr_672f7977-9e99-4cb5-9bf2-482e5f46488d_p2" x="24889.06" y="12622.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_7e5acae9-a27b-48b5-85ca-3f6bc8cfd758"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5465.264" y="14915.172"/> <port id="pr_7e5acae9-a27b-48b5-85ca-3f6bc8cfd758_p1" x="5485.264" y="14920.172"/> <port id="pr_7e5acae9-a27b-48b5-85ca-3f6bc8cfd758_p2" x="5455.264" y="14920.172"/> </glyph> <glyph class="process" orientation="vertical" id="pr_15ab259f-1c1d-4c3f-8ab2-25608d99109a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_15ab259f-1c1d-4c3f-8ab2-25608d99109a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19161977"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12297042"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2153105"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2786007"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7639691"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10809728"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7522194"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16195317"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5104.2607" y="18877.5"/> <port id="pr_15ab259f-1c1d-4c3f-8ab2-25608d99109a_p1" x="5109.2607" y="18867.5"/> <port id="pr_15ab259f-1c1d-4c3f-8ab2-25608d99109a_p2" x="5109.2607" y="18897.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_f6784ade-9e95-4eb3-93bb-ae82af53419e"> <bbox w="10.0" h="10.0" x="23389.463" y="12260.5"/> <port id="pr_f6784ade-9e95-4eb3-93bb-ae82af53419e_p1" x="23409.463" y="12265.5"/> <port id="pr_f6784ade-9e95-4eb3-93bb-ae82af53419e_p2" x="23379.463" y="12265.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a43e68c8-9452-46c8-9051-6efad19af763"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:21727086, PMID:21922195, PMID:20724832</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a43e68c8-9452-46c8-9051-6efad19af763"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21727086"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21922195"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20724832"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9601.619" y="16143.5"/> <port id="pr_a43e68c8-9452-46c8-9051-6efad19af763_p1" x="9606.619" y="16133.5"/> <port id="pr_a43e68c8-9452-46c8-9051-6efad19af763_p2" x="9606.619" y="16163.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e2ba919f-a6f1-4385-8a79-f4e9e7a6ed99"> <bbox w="10.0" h="10.0" x="4167.0" y="6740.0"/> <port id="pr_e2ba919f-a6f1-4385-8a79-f4e9e7a6ed99_p1" x="4172.0" y="6730.0"/> <port id="pr_e2ba919f-a6f1-4385-8a79-f4e9e7a6ed99_p2" x="4172.0" y="6760.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b629b7d4-76d8-436f-96e1-bc883635ed88"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>ubiqutinated PARP1 is degraded</p> <p>PMID:21577210</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_b629b7d4-76d8-436f-96e1-bc883635ed88"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21577210"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="11490.25" y="17205.498"/> <port id="pr_b629b7d4-76d8-436f-96e1-bc883635ed88_p1" x="11480.25" y="17210.498"/> <port id="pr_b629b7d4-76d8-436f-96e1-bc883635ed88_p2" x="11510.25" y="17210.498"/> </glyph> <glyph class="process" orientation="vertical" id="pr_bee15357-45bc-49ff-8b5c-efcd9a3e1694"> <bbox w="10.0" h="10.0" x="885.0" y="3486.75"/> <port id="pr_bee15357-45bc-49ff-8b5c-efcd9a3e1694_p1" x="890.0" y="3476.75"/> <port id="pr_bee15357-45bc-49ff-8b5c-efcd9a3e1694_p2" x="890.0" y="3506.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b0a5646f-625b-4015-beda-5f9747e32775"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2316.6162" y="13106.367"/> <port id="pr_b0a5646f-625b-4015-beda-5f9747e32775_p1" x="2336.6162" y="13111.367"/> <port id="pr_b0a5646f-625b-4015-beda-5f9747e32775_p2" x="2306.6162" y="13111.367"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3dfb95cd-cbb0-49ba-92ca-214c8b4946e3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="25064.06" y="13464.0"/> <port id="pr_3dfb95cd-cbb0-49ba-92ca-214c8b4946e3_p1" x="25069.06" y="13454.0"/> <port id="pr_3dfb95cd-cbb0-49ba-92ca-214c8b4946e3_p2" x="25069.06" y="13484.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b499fb4b-06a2-4072-b486-ea73a0a06055"> <bbox w="10.0" h="10.0" x="26003.406" y="2083.75"/> <port id="pr_b499fb4b-06a2-4072-b486-ea73a0a06055_p1" x="26008.406" y="2073.75"/> <port id="pr_b499fb4b-06a2-4072-b486-ea73a0a06055_p2" x="26008.406" y="2103.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e28a220d-cbb0-46db-938f-5555c241efc1"> <bbox w="10.0" h="10.0" x="5525.0" y="2335.0"/> <port id="pr_e28a220d-cbb0-46db-938f-5555c241efc1_p1" x="5530.0" y="2325.0"/> <port id="pr_e28a220d-cbb0-46db-938f-5555c241efc1_p2" x="5530.0" y="2355.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_31218416-8017-4043-a10d-1361c91cf72d"> <bbox w="10.0" h="10.0" x="13460.453" y="12180.43"/> <port id="pr_31218416-8017-4043-a10d-1361c91cf72d_p1" x="13450.453" y="12185.43"/> <port id="pr_31218416-8017-4043-a10d-1361c91cf72d_p2" x="13480.453" y="12185.43"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d2f66c3a-2d53-4694-a736-7f2439611102"> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_d2f66c3a-2d53-4694-a736-7f2439611102"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:hgnc.symbol:FGF1"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5320.5" y="17537.0"/> <port id="pr_d2f66c3a-2d53-4694-a736-7f2439611102_p1" x="5310.5" y="17542.0"/> <port id="pr_d2f66c3a-2d53-4694-a736-7f2439611102_p2" x="5340.5" y="17542.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d2ff41c3-361c-4bd8-98d8-8bef62a8254a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20229235 PMID:18077588 PMID:21304492 PMID:21498506</p> <p>Phosphorylation of the repeat PPSP A allows recruitment of additional GSK/AXIN which phosphorylates LRP5/6 on other PPSP repeats resulting of sequestering of GSK3 and AXIN away from the destruction complex</p> <p>AMER1 recruits axin and GSk3</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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y="626.25"/> <port id="pr_21b4e647-80df-40d5-bc09-bf4dd6260040_p1" x="20864.66" y="616.25"/> <port id="pr_21b4e647-80df-40d5-bc09-bf4dd6260040_p2" x="20864.66" y="646.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e58b1f5e-8bbd-4b7a-92a1-320f976642ee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3294.3062" y="12685.1875"/> <port id="pr_e58b1f5e-8bbd-4b7a-92a1-320f976642ee_p1" x="3299.3062" y="12705.1875"/> <port id="pr_e58b1f5e-8bbd-4b7a-92a1-320f976642ee_p2" x="3299.3062" y="12675.1875"/> </glyph> <glyph class="omitted process" orientation="vertical" id="pr_2a339d00-b61e-4840-9314-9b2d34142dcf"> <bbox w="10.0" h="10.0" x="12478.074" y="18604.111"/> <port id="pr_2a339d00-b61e-4840-9314-9b2d34142dcf_p1" x="12483.074" y="18594.111"/> <port id="pr_2a339d00-b61e-4840-9314-9b2d34142dcf_p2" x="12483.074" y="18624.111"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_5978a851-64c4-4df9-a344-4e49bc9cf027"> <bbox w="10.0" h="10.0" x="14194.639" y="15871.068"/> <port id="pr_5978a851-64c4-4df9-a344-4e49bc9cf027_p1" x="14184.639" y="15876.068"/> <port id="pr_5978a851-64c4-4df9-a344-4e49bc9cf027_p2" x="14214.639" y="15876.068"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52d21859-0d8a-45d8-b05c-975afd586e7a"> <bbox w="10.0" h="10.0" x="8969.125" y="4481.297"/> <port id="pr_52d21859-0d8a-45d8-b05c-975afd586e7a_p1" x="8959.125" y="4486.297"/> <port id="pr_52d21859-0d8a-45d8-b05c-975afd586e7a_p2" x="8989.125" y="4486.297"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dcfbb144-3210-4c2e-a42c-9219e6c7129b"> <bbox w="10.0" h="10.0" x="10975.968" y="1569.5"/> <port id="pr_dcfbb144-3210-4c2e-a42c-9219e6c7129b_p1" x="10980.968" y="1559.5"/> <port id="pr_dcfbb144-3210-4c2e-a42c-9219e6c7129b_p2" x="10980.968" y="1589.5"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_2ee8af7b-de43-4957-8a11-5551b07ed5ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4552.6543" y="17080.084"/> <port id="pr_2ee8af7b-de43-4957-8a11-5551b07ed5ad_p1" x="4542.6543" y="17085.084"/> <port id="pr_2ee8af7b-de43-4957-8a11-5551b07ed5ad_p2" x="4572.6543" y="17085.084"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4b5e680e-19c9-405c-962b-010b0ddaafb5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:20606702</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4b5e680e-19c9-405c-962b-010b0ddaafb5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20606702"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25218.06" y="19563.5"/> <port id="pr_4b5e680e-19c9-405c-962b-010b0ddaafb5_p1" x="25223.06" y="19553.5"/> <port id="pr_4b5e680e-19c9-405c-962b-010b0ddaafb5_p2" x="25223.06" y="19583.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3152f94e-d285-41db-abb3-bb315f0eb6d3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20194509</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3152f94e-d285-41db-abb3-bb315f0eb6d3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20194509"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21476.125" y="21390.5"/> <port id="pr_3152f94e-d285-41db-abb3-bb315f0eb6d3_p1" x="21481.125" y="21380.5"/> <port id="pr_3152f94e-d285-41db-abb3-bb315f0eb6d3_p2" x="21481.125" y="21410.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_248108f5-2b85-478d-b95e-d3415f8e4d22"> <bbox w="10.0" h="10.0" x="3846.2" y="1133.0"/> <port id="pr_248108f5-2b85-478d-b95e-d3415f8e4d22_p1" x="3851.2" y="1153.0"/> <port id="pr_248108f5-2b85-478d-b95e-d3415f8e4d22_p2" x="3851.2" y="1123.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c78c689a-ca2e-4920-abc8-39c49ccd15f1"> <bbox w="10.0" h="10.0" x="27001.0" y="5767.5"/> <port id="pr_c78c689a-ca2e-4920-abc8-39c49ccd15f1_p1" x="27006.0" y="5757.5"/> <port id="pr_c78c689a-ca2e-4920-abc8-39c49ccd15f1_p2" x="27006.0" y="5787.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ae754d35-37a3-41bf-9805-0d01f8425faf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17303408, PMID:16163361, PMID:15964794</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ae754d35-37a3-41bf-9805-0d01f8425faf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17303408"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16163361"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15964794"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="14516.893" y="14678.481"/> <port id="pr_ae754d35-37a3-41bf-9805-0d01f8425faf_p1" x="14521.893" y="14698.481"/> <port id="pr_ae754d35-37a3-41bf-9805-0d01f8425faf_p2" x="14521.893" y="14668.481"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c4b0e24b-94d6-486a-82e8-6dbb4c041470"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2895.0" y="16874.5"/> <port id="pr_c4b0e24b-94d6-486a-82e8-6dbb4c041470_p1" x="2915.0" y="16879.5"/> <port id="pr_c4b0e24b-94d6-486a-82e8-6dbb4c041470_p2" x="2885.0" y="16879.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_2b4ec815-df93-4a69-8f37-4b0b55ddea3b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:10702316</p> <p>PMID:19244117</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description 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id="pr_9fa2c65f-2aeb-4697-b15f-c029c9591ec4_p1" x="2417.987" y="18623.75"/> <port id="pr_9fa2c65f-2aeb-4697-b15f-c029c9591ec4_p2" x="2417.987" y="18593.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_246d8e8e-ccd4-4a8a-915f-6b022151065f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5338.5" y="17387.5"/> <port id="pr_246d8e8e-ccd4-4a8a-915f-6b022151065f_p1" x="5328.5" y="17392.5"/> <port id="pr_246d8e8e-ccd4-4a8a-915f-6b022151065f_p2" x="5358.5" y="17392.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_334f982b-95df-433e-bdea-10ab9fffcdf8"> <bbox w="10.0" h="10.0" x="24072.012" y="10404.0"/> <port id="pr_334f982b-95df-433e-bdea-10ab9fffcdf8_p1" x="24062.012" y="10409.0"/> <port id="pr_334f982b-95df-433e-bdea-10ab9fffcdf8_p2" x="24092.012" y="10409.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3df348ca-373c-478b-a004-9591c44737df"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5176.204" y="17990.125"/> <port id="pr_3df348ca-373c-478b-a004-9591c44737df_p1" x="5181.204" y="17980.125"/> <port id="pr_3df348ca-373c-478b-a004-9591c44737df_p2" x="5181.204" y="18010.125"/> </glyph> <glyph class="process" orientation="vertical" id="pr_355732f2-a295-4f10-bff2-0e330b50bcdf"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19219026</p> <p>in human P-493 B lymphoma cells</p> <p>in human PC3 prostate cancer cells</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_355732f2-a295-4f10-bff2-0e330b50bcdf"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19219026"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24877.371" y="15976.398"/> <port id="pr_355732f2-a295-4f10-bff2-0e330b50bcdf_p1" x="24882.371" y="15996.398"/> <port id="pr_355732f2-a295-4f10-bff2-0e330b50bcdf_p2" x="24882.371" y="15966.398"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e3c58260-ea5c-422c-be88-b6bdb2c1bc98"> <bbox w="10.0" h="10.0" x="16601.516" y="16453.104"/> <port id="pr_e3c58260-ea5c-422c-be88-b6bdb2c1bc98_p1" x="16621.516" y="16458.104"/> <port id="pr_e3c58260-ea5c-422c-be88-b6bdb2c1bc98_p2" x="16591.516" y="16458.104"/> </glyph> <glyph class="and" orientation="vertical" id="logicglyph_c334cc10-22e1-41a8-9104-a8dea1121cc2"> <bbox w="20.0" h="20.0" x="16361.083" y="17004.367"/> <port id="logicglyph_c334cc10-22e1-41a8-9104-a8dea1121cc2_p1" x="16371.083" y="17034.367"/> <port id="logicglyph_c334cc10-22e1-41a8-9104-a8dea1121cc2_p2" x="16371.083" y="16994.367"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_30aef01c-c605-4ea7-874d-65a2cf69d6f2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4447.1797" y="18616.533"/> <port id="pr_30aef01c-c605-4ea7-874d-65a2cf69d6f2_p1" x="4452.1797" y="18636.533"/> <port id="pr_30aef01c-c605-4ea7-874d-65a2cf69d6f2_p2" x="4452.1797" y="18606.533"/> </glyph> <glyph class="process" orientation="vertical" id="pr_90a03893-ab9f-421d-ac74-64e07823ea38"> <bbox w="10.0" h="10.0" x="15890.266" y="7371.875"/> <port id="pr_90a03893-ab9f-421d-ac74-64e07823ea38_p1" x="15895.266" y="7361.875"/> <port id="pr_90a03893-ab9f-421d-ac74-64e07823ea38_p2" x="15895.266" y="7391.875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_102e3ca8-dc25-4e81-aebe-9ef994576b79"> <bbox w="10.0" h="10.0" x="27121.0" y="7761.25"/> <port id="pr_102e3ca8-dc25-4e81-aebe-9ef994576b79_p1" x="27126.0" y="7751.25"/> <port id="pr_102e3ca8-dc25-4e81-aebe-9ef994576b79_p2" x="27126.0" y="7781.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2b53fed6-a8e3-4c93-a9e6-dc9c6d4bf464"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4432.9785" y="17787.5"/> <port id="pr_2b53fed6-a8e3-4c93-a9e6-dc9c6d4bf464_p1" x="4437.9785" y="17777.5"/> <port id="pr_2b53fed6-a8e3-4c93-a9e6-dc9c6d4bf464_p2" x="4437.9785" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_9297d4b0-af6c-4298-b0ac-529edf01a719"> <bbox w="10.0" h="10.0" x="5577.0" y="6595.0"/> <port id="pr_9297d4b0-af6c-4298-b0ac-529edf01a719_p1" x="5597.0" y="6600.0"/> <port id="pr_9297d4b0-af6c-4298-b0ac-529edf01a719_p2" x="5567.0" y="6600.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_71edc796-0611-4a6d-9373-0d40601a0de1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19427028</p> <p>Cullin3-based polyubiquitination and p62-dependent aggregation of caspase-8 mediate extrinsic apoptosis signaling</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_71edc796-0611-4a6d-9373-0d40601a0de1"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19427028"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24864.81" y="9205.613"/> <port id="pr_71edc796-0611-4a6d-9373-0d40601a0de1_p1" x="24854.81" y="9210.613"/> <port id="pr_71edc796-0611-4a6d-9373-0d40601a0de1_p2" x="24884.81" y="9210.613"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_14db2ee4-ddf2-42b0-9076-86660c95ff73"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:17550342</p> <p>SNAI2 induces SIN3A expression</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_14db2ee4-ddf2-42b0-9076-86660c95ff73"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17550342"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3082.5" y="16019.102"/> <port id="pr_14db2ee4-ddf2-42b0-9076-86660c95ff73_p1" x="3072.5" y="16024.102"/> <port id="pr_14db2ee4-ddf2-42b0-9076-86660c95ff73_p2" x="3102.5" y="16024.102"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_95076470-f2ac-4a0d-a318-ed03ca28d11a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2106.0" y="12882.5"/> <port id="pr_95076470-f2ac-4a0d-a318-ed03ca28d11a_p1" x="2096.0" y="12887.5"/> <port id="pr_95076470-f2ac-4a0d-a318-ed03ca28d11a_p2" x="2126.0" y="12887.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_c1518ad1-7f10-45b4-83d4-96fc75becdd8"> <bbox w="10.0" h="10.0" x="25892.06" y="13623.75"/> <port id="pr_c1518ad1-7f10-45b4-83d4-96fc75becdd8_p1" x="25912.06" y="13628.75"/> <port id="pr_c1518ad1-7f10-45b4-83d4-96fc75becdd8_p2" x="25882.06" y="13628.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d8999004-6e9a-416e-b32c-fe62500f8249"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4196.518" y="17787.5"/> <port id="pr_d8999004-6e9a-416e-b32c-fe62500f8249_p1" x="4201.518" y="17777.5"/> <port id="pr_d8999004-6e9a-416e-b32c-fe62500f8249_p2" x="4201.518" y="17807.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2faf48c6-5f0d-42a2-9ffd-3123560c4f46"> <bbox w="10.0" h="10.0" x="20479.06" y="10704.0"/> <port id="pr_2faf48c6-5f0d-42a2-9ffd-3123560c4f46_p1" x="20484.06" y="10694.0"/> <port id="pr_2faf48c6-5f0d-42a2-9ffd-3123560c4f46_p2" x="20484.06" y="10724.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_532d5ca7-67e9-492c-b98f-dc8f12ddee36"> <bbox w="10.0" h="10.0" x="14025.0" y="2503.75"/> <port id="pr_532d5ca7-67e9-492c-b98f-dc8f12ddee36_p1" x="14030.0" y="2523.75"/> <port id="pr_532d5ca7-67e9-492c-b98f-dc8f12ddee36_p2" x="14030.0" y="2493.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_78eff1c3-c6fb-40fa-8ac9-597db9eac22c"> <bbox w="10.0" h="10.0" x="20601.143" y="1432.0"/> <port id="pr_78eff1c3-c6fb-40fa-8ac9-597db9eac22c_p1" x="20606.143" y="1422.0"/> <port id="pr_78eff1c3-c6fb-40fa-8ac9-597db9eac22c_p2" x="20606.143" y="1452.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_568c7c90-f8ca-4c06-8340-ead2eb52582e"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:15342917</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_568c7c90-f8ca-4c06-8340-ead2eb52582e"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15342917"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26049.258" y="11931.691"/> <port id="pr_568c7c90-f8ca-4c06-8340-ead2eb52582e_p1" x="26054.258" y="11921.691"/> <port id="pr_568c7c90-f8ca-4c06-8340-ead2eb52582e_p2" x="26054.258" y="11951.691"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9774d781-38fb-45fa-b786-5cd2e0ca53b3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:21442356</p> <p>Not sure if direct interaction of gli1 with gene</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9774d781-38fb-45fa-b786-5cd2e0ca53b3"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:21442356"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26557.56" y="21900.0"/> <port id="pr_9774d781-38fb-45fa-b786-5cd2e0ca53b3_p1" x="26547.56" y="21905.0"/> <port id="pr_9774d781-38fb-45fa-b786-5cd2e0ca53b3_p2" x="26577.56" y="21905.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f013c9e-5ff4-4f70-aa46-dd6bc47d6fc5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:10980706</p> <p>PMID:10544189</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f013c9e-5ff4-4f70-aa46-dd6bc47d6fc5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10980706"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10544189"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24145.652" y="14585.0"/> <port id="pr_5f013c9e-5ff4-4f70-aa46-dd6bc47d6fc5_p1" x="24150.652" y="14605.0"/> <port id="pr_5f013c9e-5ff4-4f70-aa46-dd6bc47d6fc5_p2" x="24150.652" y="14575.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6196e214-c8df-4260-b4f9-af773249ba1c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:14690596</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6196e214-c8df-4260-b4f9-af773249ba1c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:14690596"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="23052.186" y="10619.0"/> <port id="pr_6196e214-c8df-4260-b4f9-af773249ba1c_p1" x="23042.186" y="10624.0"/> <port id="pr_6196e214-c8df-4260-b4f9-af773249ba1c_p2" x="23072.186" y="10624.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e5ca8132-24b8-4d5b-b49e-8210834a5f6d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4480.0" y="15436.5"/> <port id="pr_e5ca8132-24b8-4d5b-b49e-8210834a5f6d_p1" x="4470.0" y="15441.5"/> <port id="pr_e5ca8132-24b8-4d5b-b49e-8210834a5f6d_p2" x="4500.0" y="15441.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a3a7e08b-92a4-4d82-acdd-78a66ad9831c"> <bbox w="10.0" h="10.0" x="11705.625" y="4746.0"/> <port id="pr_a3a7e08b-92a4-4d82-acdd-78a66ad9831c_p1" x="11725.625" y="4751.0"/> <port id="pr_a3a7e08b-92a4-4d82-acdd-78a66ad9831c_p2" x="11695.625" y="4751.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_910709de-1454-44be-ac9a-52a7ca130a05"> <bbox w="10.0" h="10.0" x="5145.5" y="6797.0"/> <port id="pr_910709de-1454-44be-ac9a-52a7ca130a05_p1" x="5135.5" y="6802.0"/> <port id="pr_910709de-1454-44be-ac9a-52a7ca130a05_p2" x="5165.5" y="6802.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7b6cb061-d3b9-49d9-88b2-2d26c0cab38d"> <bbox w="10.0" h="10.0" x="19499.81" y="14178.33"/> <port id="pr_7b6cb061-d3b9-49d9-88b2-2d26c0cab38d_p1" x="19489.81" y="14183.33"/> <port id="pr_7b6cb061-d3b9-49d9-88b2-2d26c0cab38d_p2" x="19519.81" y="14183.33"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_9834526f-b8ab-484a-a65c-891d0ab6ecee"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:19049965</p> <p>PMID:11493558</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9834526f-b8ab-484a-a65c-891d0ab6ecee"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19049965"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11493558"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26556.56" y="20599.0"/> <port id="pr_9834526f-b8ab-484a-a65c-891d0ab6ecee_p1" x="26546.56" y="20604.0"/> <port id="pr_9834526f-b8ab-484a-a65c-891d0ab6ecee_p2" x="26576.56" y="20604.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_66c9f96f-06ae-4b3a-820d-e71dce5c2683"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:17409395</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_66c9f96f-06ae-4b3a-820d-e71dce5c2683"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17409395"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4282.059" y="11687.359"/> <port id="pr_66c9f96f-06ae-4b3a-820d-e71dce5c2683_p1" x="4302.059" y="11692.359"/> <port id="pr_66c9f96f-06ae-4b3a-820d-e71dce5c2683_p2" x="4272.059" y="11692.359"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_6287bb3d-9d7d-4489-99da-d6678f50f428"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="2686.0" y="17113.23"/> <port id="pr_6287bb3d-9d7d-4489-99da-d6678f50f428_p1" x="2706.0" y="17118.23"/> <port id="pr_6287bb3d-9d7d-4489-99da-d6678f50f428_p2" x="2676.0" y="17118.23"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4bb008c5-959f-47d7-b194-e92b79a96e7d"> <bbox w="10.0" h="10.0" x="3685.0" y="4580.0"/> <port id="pr_4bb008c5-959f-47d7-b194-e92b79a96e7d_p1" x="3690.0" y="4570.0"/> <port id="pr_4bb008c5-959f-47d7-b194-e92b79a96e7d_p2" x="3690.0" y="4600.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f9e1a6e-14d8-425b-a707-10665c5ac4b6"> <bbox w="10.0" h="10.0" x="20826.762" y="4118.222"/> <port id="pr_2f9e1a6e-14d8-425b-a707-10665c5ac4b6_p1" x="20831.762" y="4108.222"/> <port id="pr_2f9e1a6e-14d8-425b-a707-10665c5ac4b6_p2" x="20831.762" y="4138.222"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2f7a49f5-5796-4dd7-9968-87e61b0d275e"> <bbox w="10.0" h="10.0" x="4178.015" y="982.0"/> <port id="pr_2f7a49f5-5796-4dd7-9968-87e61b0d275e_p1" x="4183.015" y="972.0"/> <port id="pr_2f7a49f5-5796-4dd7-9968-87e61b0d275e_p2" x="4183.015" y="1002.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64f9e778-5646-4e6f-ba1f-b6749f54499b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6501.6035" y="18645.5"/> <port id="pr_64f9e778-5646-4e6f-ba1f-b6749f54499b_p1" x="6506.6035" y="18635.5"/> <port id="pr_64f9e778-5646-4e6f-ba1f-b6749f54499b_p2" x="6506.6035" y="18665.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_17341b32-3f69-43d3-a478-85f63070cfc0"> <bbox w="10.0" h="10.0" x="1197.3887" y="3820.0"/> <port id="pr_17341b32-3f69-43d3-a478-85f63070cfc0_p1" x="1202.3887" y="3810.0"/> <port id="pr_17341b32-3f69-43d3-a478-85f63070cfc0_p2" x="1202.3887" y="3840.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_91844a20-2c90-488f-b4de-3c6d8380baa1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3990.75" y="14127.8"/> <port id="pr_91844a20-2c90-488f-b4de-3c6d8380baa1_p1" x="3980.75" y="14132.8"/> <port id="pr_91844a20-2c90-488f-b4de-3c6d8380baa1_p2" x="4010.75" y="14132.8"/> </glyph> <glyph class="process" orientation="vertical" id="pr_69247de3-db27-4320-8f76-eb5164065cea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16377563</p> <p>PMID:16049003</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_69247de3-db27-4320-8f76-eb5164065cea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16377563"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16049003"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18404.98" y="16760.828"/> <port id="pr_69247de3-db27-4320-8f76-eb5164065cea_p1" x="18409.98" y="16780.828"/> <port id="pr_69247de3-db27-4320-8f76-eb5164065cea_p2" x="18409.98" y="16750.828"/> </glyph> <glyph class="process" orientation="vertical" id="pr_30e995b4-86a5-4a42-874b-839428b41d5c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:7565670</p> <p>Active Raf-1 phosphorylates MEK-1/2 on Serine residues, converting ATP to ADP. The MEK-1/2 kinase is now active.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_30e995b4-86a5-4a42-874b-839428b41d5c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:7565670"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6337.0" y="13447.0"/> <port id="pr_30e995b4-86a5-4a42-874b-839428b41d5c_p1" x="6342.0" y="13437.0"/> <port id="pr_30e995b4-86a5-4a42-874b-839428b41d5c_p2" x="6342.0" y="13467.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a1a08e75-c1cf-4b32-9723-8095cabc9763"> <bbox w="10.0" h="10.0" x="19010.844" y="14899.875"/> <port id="pr_a1a08e75-c1cf-4b32-9723-8095cabc9763_p1" x="19015.844" y="14919.875"/> <port id="pr_a1a08e75-c1cf-4b32-9723-8095cabc9763_p2" x="19015.844" y="14889.875"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_228fcf87-e348-447f-8994-4a031739da4c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:22045851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_228fcf87-e348-447f-8994-4a031739da4c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22045851"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20901.06" y="22243.0"/> <port id="pr_228fcf87-e348-447f-8994-4a031739da4c_p1" x="20891.06" y="22248.0"/> <port id="pr_228fcf87-e348-447f-8994-4a031739da4c_p2" x="20921.06" y="22248.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_7f5f381c-7d0f-4305-823e-1a529acdba6a"> <bbox w="10.0" h="10.0" x="3315.268" y="1841.25"/> <port id="pr_7f5f381c-7d0f-4305-823e-1a529acdba6a_p1" x="3320.268" y="1831.25"/> <port id="pr_7f5f381c-7d0f-4305-823e-1a529acdba6a_p2" x="3320.268" y="1861.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_b7d8531f-10ab-47e7-9bcc-0fecf99954fd"> <bbox w="10.0" h="10.0" x="2087.8264" y="4792.625"/> <port id="pr_b7d8531f-10ab-47e7-9bcc-0fecf99954fd_p1" x="2092.8264" y="4782.625"/> <port id="pr_b7d8531f-10ab-47e7-9bcc-0fecf99954fd_p2" x="2092.8264" y="4812.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64e17f97-86dd-4c4b-8c7d-25cb0c0aac75"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:11585828</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64e17f97-86dd-4c4b-8c7d-25cb0c0aac75"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11585828"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20666.83" y="21126.082"/> <port id="pr_64e17f97-86dd-4c4b-8c7d-25cb0c0aac75_p1" x="20671.83" y="21146.082"/> <port id="pr_64e17f97-86dd-4c4b-8c7d-25cb0c0aac75_p2" x="20671.83" y="21116.082"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_acad36c1-4f2d-4634-8003-640fffdcf202"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1243.3942" y="15339.991"/> <port id="pr_acad36c1-4f2d-4634-8003-640fffdcf202_p1" x="1248.3942" y="15329.991"/> <port id="pr_acad36c1-4f2d-4634-8003-640fffdcf202_p2" x="1248.3942" y="15359.991"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_e72a9c9c-900e-4cc3-8cfc-22315d0b4864"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="11641.973" y="15892.096"/> <port id="pr_e72a9c9c-900e-4cc3-8cfc-22315d0b4864_p1" x="11661.973" y="15897.096"/> <port id="pr_e72a9c9c-900e-4cc3-8cfc-22315d0b4864_p2" x="11631.973" y="15897.096"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1b15ea95-23a5-4442-92ff-1a47bbaf2f5d"> <bbox w="10.0" h="10.0" x="27430.53" y="5657.0"/> <port id="pr_1b15ea95-23a5-4442-92ff-1a47bbaf2f5d_p1" x="27435.53" y="5647.0"/> <port id="pr_1b15ea95-23a5-4442-92ff-1a47bbaf2f5d_p2" x="27435.53" y="5677.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e375f4c8-1e4f-4c05-999b-55a13b8dea92"> <bbox w="10.0" h="10.0" x="17515.56" y="20465.0"/> <port id="pr_e375f4c8-1e4f-4c05-999b-55a13b8dea92_p1" x="17505.56" y="20470.0"/> <port id="pr_e375f4c8-1e4f-4c05-999b-55a13b8dea92_p2" x="17535.56" y="20470.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6e8023e4-268c-4b7f-8cd5-3b5e618fbedb"> <bbox w="10.0" h="10.0" x="20024.166" y="383.75"/> <port id="pr_6e8023e4-268c-4b7f-8cd5-3b5e618fbedb_p1" x="20029.166" y="403.75"/> <port id="pr_6e8023e4-268c-4b7f-8cd5-3b5e618fbedb_p2" x="20029.166" y="373.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_d9efb60d-b662-4449-8b6b-041afe9ac60b"> <bbox w="10.0" h="10.0" x="5985.625" y="1816.25"/> <port id="pr_d9efb60d-b662-4449-8b6b-041afe9ac60b_p1" x="5990.625" y="1806.25"/> <port id="pr_d9efb60d-b662-4449-8b6b-041afe9ac60b_p2" x="5990.625" y="1836.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_912e846a-afb6-4762-8700-d7eed55bd3ea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12514186 PMID:18359851</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5368.5" y="14886.75"/> <port id="pr_b27db215-b764-4f16-850a-21e13bfe6b1b_p1" x="5373.5" y="14876.75"/> <port id="pr_b27db215-b764-4f16-850a-21e13bfe6b1b_p2" x="5373.5" y="14906.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_4195d849-e2a9-4567-a685-78301842ae63"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3844.25" y="14533.6875"/> <port id="pr_4195d849-e2a9-4567-a685-78301842ae63_p1" x="3834.25" y="14538.6875"/> <port id="pr_4195d849-e2a9-4567-a685-78301842ae63_p2" x="3864.25" y="14538.6875"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64bc1ac7-3512-423e-acc0-273cd5a5478b"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11124803</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_64bc1ac7-3512-423e-acc0-273cd5a5478b"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11124803"/> 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_15b72474-c710-4755-b78e-05935dd42721"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15944709"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27661.31" y="21842.293"/> <port id="pr_15b72474-c710-4755-b78e-05935dd42721_p1" x="27651.31" y="21847.293"/> <port id="pr_15b72474-c710-4755-b78e-05935dd42721_p2" x="27681.31" y="21847.293"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8973dd92-0179-4a3c-b233-4324935a3a20"> <bbox w="10.0" h="10.0" x="27421.0" y="4080.0"/> <port id="pr_8973dd92-0179-4a3c-b233-4324935a3a20_p1" x="27426.0" y="4070.0"/> <port id="pr_8973dd92-0179-4a3c-b233-4324935a3a20_p2" x="27426.0" y="4100.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_89d0f2a7-3c90-49d7-b97f-ea31194c88b1"> <bbox w="10.0" h="10.0" x="11577.278" y="8394.375"/> <port id="pr_89d0f2a7-3c90-49d7-b97f-ea31194c88b1_p1" x="11582.278" y="8384.375"/> <port id="pr_89d0f2a7-3c90-49d7-b97f-ea31194c88b1_p2" x="11582.278" y="8414.375"/> </glyph> <glyph class="process" orientation="vertical" id="pr_a4b5e9ec-4d60-419b-87f6-dc86bc8f1d03"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18692468</p> <p>PMID:12203114</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_a4b5e9ec-4d60-419b-87f6-dc86bc8f1d03"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18692468"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12203114"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20956.27" y="16182.309"/> <port id="pr_a4b5e9ec-4d60-419b-87f6-dc86bc8f1d03_p1" x="20961.27" y="16202.309"/> <port id="pr_a4b5e9ec-4d60-419b-87f6-dc86bc8f1d03_p2" x="20961.27" y="16172.309"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_808b8597-48eb-49f8-aef3-6a31cd3df2a0"> <bbox w="10.0" h="10.0" x="25710.744" y="15594.205"/> <port id="pr_808b8597-48eb-49f8-aef3-6a31cd3df2a0_p1" x="25700.744" y="15599.205"/> <port id="pr_808b8597-48eb-49f8-aef3-6a31cd3df2a0_p2" x="25730.744" y="15599.205"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_e5385d78-dd71-4248-8db9-dfc6101a7094"> <bbox w="10.0" h="10.0" x="1598.25" y="1371.0721"/> <port id="pr_e5385d78-dd71-4248-8db9-dfc6101a7094_p1" x="1588.25" y="1376.0721"/> <port id="pr_e5385d78-dd71-4248-8db9-dfc6101a7094_p2" x="1618.25" y="1376.0721"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_1fdfc214-3c25-4483-a1be-248397323d61"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1897.625" y="15715.25"/> <port id="pr_1fdfc214-3c25-4483-a1be-248397323d61_p1" x="1902.625" y="15705.25"/> <port id="pr_1fdfc214-3c25-4483-a1be-248397323d61_p2" x="1902.625" y="15735.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d90375b-fffa-4d9b-a988-98dc4c1c4430"> <bbox w="10.0" h="10.0" x="3639.4429" y="313.90363"/> <port id="pr_5d90375b-fffa-4d9b-a988-98dc4c1c4430_p1" x="3644.4429" y="303.90363"/> <port id="pr_5d90375b-fffa-4d9b-a988-98dc4c1c4430_p2" x="3644.4429" y="333.90363"/> </glyph> <glyph class="process" orientation="vertical" id="pr_c6366004-e036-4189-831d-73e256858d2d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:PI3K_AKT_MTOR</p> <p>References:</p> <p>PMID:21233202</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:19161977</p> <p>In the endoplasmic reticulum, integrin subunits find their binding partners and form heterodimers.</p> <p>Monomeric integrins never reach the cell surface.</p> <p>Integrins a1b1, a2b1, a10b1 and a11b1 bind to collagens</p> <p>PMID:12297042</p> <p>Cell adhesion to components of the ECM is important in the angiogenesis</p> <p>PMID:2153105</p> <p>PMID:2786007</p> <p>PMID:7639691</p> <p>PMID:10809728</p> <p>integrins are receptors for different ECM proteins: Collagen 1, 4; Laminin 1, 8; Fibronectin and Vitronectin</p> <p>PMID:7522194</p> <p>PMID:16195317</p> <p>Interactions between integrins and the ECM proteins result in focal cell adhesion and cytoskeleton remodeling.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" 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id="pr_9d4744de-f9ba-4cc4-b1ba-7e18ff56872c_p2" x="4225.25" y="11039.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_61ed5342-6ee0-49bd-82b8-1f2bc1c6faa7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4615.256" y="16410.0"/> <port id="pr_61ed5342-6ee0-49bd-82b8-1f2bc1c6faa7_p1" x="4620.256" y="16400.0"/> <port id="pr_61ed5342-6ee0-49bd-82b8-1f2bc1c6faa7_p2" x="4620.256" y="16430.0"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_5476c952-0d93-47f0-8267-8a88bbcdb884"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="3411.25" y="16290.9"/> <port id="pr_5476c952-0d93-47f0-8267-8a88bbcdb884_p1" x="3401.25" y="16295.9"/> <port id="pr_5476c952-0d93-47f0-8267-8a88bbcdb884_p2" x="3431.25" y="16295.9"/> </glyph> <glyph class="process" orientation="vertical" id="pr_64726f03-0195-448c-aa4a-ee67fc4a3f71"> <bbox w="10.0" h="10.0" x="12001.234" y="4637.5"/> <port id="pr_64726f03-0195-448c-aa4a-ee67fc4a3f71_p1" x="12006.234" y="4627.5"/> <port id="pr_64726f03-0195-448c-aa4a-ee67fc4a3f71_p2" x="12006.234" y="4657.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8be4991f-ba1e-4010-99b5-102cd71d368f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>Phosphorylation of CDC25A, B or C by CHEK1 and CHEK2 inactivates CDC25, prevents activating de-phosphorylation of CDKs by CDC25 A, B, C </p> <p>and stops cell cycle propagation</p> <p>kegg cell cycle</p> <p>PMID:20126263, PMID:17568790</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_8be4991f-ba1e-4010-99b5-102cd71d368f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20126263"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17568790"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12581.732" y="10307.377"/> <port id="pr_8be4991f-ba1e-4010-99b5-102cd71d368f_p1" x="12586.732" y="10327.377"/> <port id="pr_8be4991f-ba1e-4010-99b5-102cd71d368f_p2" x="12586.732" y="10297.377"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4d94ae9a-71cc-40d9-ab2a-bb76d625eb39"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:10984057 PMID:11263497</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_4d94ae9a-71cc-40d9-ab2a-bb76d625eb39"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:10984057"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11263497"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="21015.77" y="21638.893"/> <port id="pr_4d94ae9a-71cc-40d9-ab2a-bb76d625eb39_p1" x="21020.77" y="21628.893"/> <port id="pr_4d94ae9a-71cc-40d9-ab2a-bb76d625eb39_p2" x="21020.77" y="21658.893"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ea282d81-4c5f-4cf1-9cc4-1b8b82a53e3f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1227.625" y="14899.9"/> <port id="pr_ea282d81-4c5f-4cf1-9cc4-1b8b82a53e3f_p1" x="1247.625" y="14904.9"/> <port id="pr_ea282d81-4c5f-4cf1-9cc4-1b8b82a53e3f_p2" x="1217.625" y="14904.9"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1619d244-ed8c-43a6-850f-11962563bff4"> <bbox w="10.0" h="10.0" x="30511.0" y="3520.0"/> <port id="pr_1619d244-ed8c-43a6-850f-11962563bff4_p1" x="30516.0" y="3540.0"/> <port id="pr_1619d244-ed8c-43a6-850f-11962563bff4_p2" x="30516.0" y="3510.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_845e74f3-0a34-4fd0-8b8c-ad5c036b9308"> <bbox w="10.0" h="10.0" x="12098.641" y="9923.75"/> <port id="pr_845e74f3-0a34-4fd0-8b8c-ad5c036b9308_p1" x="12088.641" y="9928.75"/> <port id="pr_845e74f3-0a34-4fd0-8b8c-ad5c036b9308_p2" x="12118.641" y="9928.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9c1e4719-e40f-4da8-928a-b46643bdfbb3"> <bbox w="10.0" h="10.0" x="15460.069" y="18401.5"/> <port id="pr_9c1e4719-e40f-4da8-928a-b46643bdfbb3_p1" x="15465.069" y="18421.5"/> <port id="pr_9c1e4719-e40f-4da8-928a-b46643bdfbb3_p2" x="15465.069" y="18391.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_18988e34-b45b-4830-8a02-8db5594d2fc7"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16839620</p> <p>review heme biosynthesis in mammals</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:29051319</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_deb17e9c-d64d-48e3-b6c0-3a5b5fd5de2c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:29051319"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3804.25" y="10320.75"/> <port id="pr_deb17e9c-d64d-48e3-b6c0-3a5b5fd5de2c_p1" x="3809.25" y="10340.75"/> <port id="pr_deb17e9c-d64d-48e3-b6c0-3a5b5fd5de2c_p2" x="3809.25" y="10310.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_73d72e43-de88-4e1b-9350-2b94ee58631b"> <bbox w="10.0" h="10.0" x="12699.422" y="9855.008"/> <port id="pr_73d72e43-de88-4e1b-9350-2b94ee58631b_p1" x="12689.422" y="9860.008"/> <port id="pr_73d72e43-de88-4e1b-9350-2b94ee58631b_p2" x="12719.422" y="9860.008"/> </glyph> <glyph class="process" orientation="vertical" id="pr_da30e92c-3149-4480-a73b-72e3eb3a42e1"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22345654</p> <p>PMID:20806969</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" 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id="pr_4096ddc6-a229-4a5b-b3a3-b510b74ac32b_p1" x="15352.811" y="18357.5"/> <port id="pr_4096ddc6-a229-4a5b-b3a3-b510b74ac32b_p2" x="15352.811" y="18387.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_7acb7e06-04a7-47f7-9ee6-faf485a9d357"> <bbox w="10.0" h="10.0" x="15395.098" y="15955.721"/> <port id="pr_7acb7e06-04a7-47f7-9ee6-faf485a9d357_p1" x="15385.098" y="15960.721"/> <port id="pr_7acb7e06-04a7-47f7-9ee6-faf485a9d357_p2" x="15415.098" y="15960.721"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2e1f74d9-e418-4eed-9fd4-2448230c54ad"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>MEK is continuously dephosphorylated by PP2A (PPP2CA) whose activity is stimulated by P38: P38 activity increases the physical association between PP2A and MEK/ERK complex. A direct interaction between P38 and ERK has been proposed as a mechanism to inhibit ERK phosphorylation. AP-1 mediated gene expression inhibits ERK phosphorylation.</p> <p>PMID:18039929</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_2e1f74d9-e418-4eed-9fd4-2448230c54ad"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18039929"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="9734.881" y="19591.5"/> <port id="pr_2e1f74d9-e418-4eed-9fd4-2448230c54ad_p1" x="9739.881" y="19611.5"/> <port id="pr_2e1f74d9-e418-4eed-9fd4-2448230c54ad_p2" x="9739.881" y="19581.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_cfdd15de-6c0c-4cf9-91ec-f4f1ae8ef4a6"> <bbox w="10.0" h="10.0" x="3391.5" y="9751.25"/> <port id="pr_cfdd15de-6c0c-4cf9-91ec-f4f1ae8ef4a6_p1" x="3411.5" y="9756.25"/> <port id="pr_cfdd15de-6c0c-4cf9-91ec-f4f1ae8ef4a6_p2" x="3381.5" y="9756.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_89e2a46f-f9f4-46e7-83b2-4d66bb85dbea"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:18046414</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_89e2a46f-f9f4-46e7-83b2-4d66bb85dbea"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18046414"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20161.164" y="16175.625"/> <port id="pr_89e2a46f-f9f4-46e7-83b2-4d66bb85dbea_p1" x="20166.164" y="16195.625"/> <port id="pr_89e2a46f-f9f4-46e7-83b2-4d66bb85dbea_p2" x="20166.164" y="16165.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6a56c8b6-7a4e-4e57-9510-8b4e236d6c7e"> <bbox w="10.0" h="10.0" x="2646.5994" y="10232.25"/> <port id="pr_6a56c8b6-7a4e-4e57-9510-8b4e236d6c7e_p1" x="2651.5994" y="10252.25"/> <port id="pr_6a56c8b6-7a4e-4e57-9510-8b4e236d6c7e_p2" x="2651.5994" y="10222.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_526d75d1-2bf1-417e-8e69-6d11e058fa03"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4900.7876" y="18670.562"/> <port id="pr_526d75d1-2bf1-417e-8e69-6d11e058fa03_p1" x="4920.7876" y="18675.562"/> <port id="pr_526d75d1-2bf1-417e-8e69-6d11e058fa03_p2" x="4890.7876" y="18675.562"/> </glyph> <glyph class="process" orientation="vertical" id="pr_1cc9edc2-0204-4143-89fa-b7c88b296dca"> <bbox w="10.0" h="10.0" x="17055.0" y="7875.0"/> <port id="pr_1cc9edc2-0204-4143-89fa-b7c88b296dca_p1" x="17060.0" y="7865.0"/> <port id="pr_1cc9edc2-0204-4143-89fa-b7c88b296dca_p2" x="17060.0" y="7895.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9d37d4d8-46f4-422d-b3d1-5711374df0dd"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:22745173</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_9d37d4d8-46f4-422d-b3d1-5711374df0dd"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22745173"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="18536.06" y="22201.5"/> <port id="pr_9d37d4d8-46f4-422d-b3d1-5711374df0dd_p1" x="18541.06" y="22191.5"/> <port id="pr_9d37d4d8-46f4-422d-b3d1-5711374df0dd_p2" x="18541.06" y="22221.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5c7df6a3-6b3c-409b-a386-57d368b0bf97"> <bbox w="10.0" h="10.0" x="26821.0" y="5090.0"/> <port id="pr_5c7df6a3-6b3c-409b-a386-57d368b0bf97_p1" x="26826.0" y="5110.0"/> <port id="pr_5c7df6a3-6b3c-409b-a386-57d368b0bf97_p2" x="26826.0" y="5080.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_b2648591-9931-4dff-a838-63627d89fc2a"> <bbox w="10.0" h="10.0" x="25672.25" y="2087.2441"/> <port id="pr_b2648591-9931-4dff-a838-63627d89fc2a_p1" x="25692.25" y="2092.2441"/> <port id="pr_b2648591-9931-4dff-a838-63627d89fc2a_p2" x="25662.25" y="2092.2441"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_26646a70-d6d2-4ba3-98f7-860f97c0fc4d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:16472776</p> <p>PMID:19930715</p> <p>PMID:23092334</p> <p>PMID:28284838</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_26646a70-d6d2-4ba3-98f7-860f97c0fc4d"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16472776"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19930715"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23092334"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:28284838"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3555.5" y="12360.75"/> <port id="pr_26646a70-d6d2-4ba3-98f7-860f97c0fc4d_p1" x="3545.5" y="12365.75"/> <port id="pr_26646a70-d6d2-4ba3-98f7-860f97c0fc4d_p2" x="3575.5" y="12365.75"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a4ced750-1765-4985-b129-e84d70c8ae0b"> <bbox w="10.0" h="10.0" x="6246.617" y="4007.5"/> <port id="pr_a4ced750-1765-4985-b129-e84d70c8ae0b_p1" x="6236.617" y="4012.5"/> <port id="pr_a4ced750-1765-4985-b129-e84d70c8ae0b_p2" x="6266.617" y="4012.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_202119f2-dffd-46cb-aca1-0adc9dcf513c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20448.31" y="11685.608"/> <port id="pr_202119f2-dffd-46cb-aca1-0adc9dcf513c_p1" x="20438.31" y="11690.608"/> <port id="pr_202119f2-dffd-46cb-aca1-0adc9dcf513c_p2" x="20468.31" y="11690.608"/> </glyph> <glyph class="process" orientation="vertical" id="pr_50594999-a12c-4c51-bb1f-6dc6fddd784f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4339.118" y="17690.0"/> <port id="pr_50594999-a12c-4c51-bb1f-6dc6fddd784f_p1" x="4344.118" y="17680.0"/> <port id="pr_50594999-a12c-4c51-bb1f-6dc6fddd784f_p2" x="4344.118" y="17710.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_d25d4392-ddd5-4a54-b00f-63652a8787fa"> <bbox w="10.0" h="10.0" x="2790.0" y="4570.5"/> <port id="pr_d25d4392-ddd5-4a54-b00f-63652a8787fa_p1" x="2810.0" y="4575.5"/> <port id="pr_d25d4392-ddd5-4a54-b00f-63652a8787fa_p2" x="2780.0" y="4575.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_3631eef0-6e28-4615-b904-46576344fd07"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:11972058</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3631eef0-6e28-4615-b904-46576344fd07"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:11972058"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="20587.035" y="21013.562"/> <port id="pr_3631eef0-6e28-4615-b904-46576344fd07_p1" x="20592.035" y="21033.562"/> <port id="pr_3631eef0-6e28-4615-b904-46576344fd07_p2" x="20592.035" y="21003.562"/> </glyph> <glyph class="process" orientation="vertical" id="pr_8f562e2e-c617-4d6f-8b85-8745f28e69a8"> <bbox w="10.0" h="10.0" x="20590.338" y="4125.508"/> <port id="pr_8f562e2e-c617-4d6f-8b85-8745f28e69a8_p1" x="20595.338" y="4115.508"/> <port id="pr_8f562e2e-c617-4d6f-8b85-8745f28e69a8_p2" x="20595.338" y="4145.508"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_664dd5ab-21a5-4c77-bc67-d185a99dcfed"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:23030059</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_664dd5ab-21a5-4c77-bc67-d185a99dcfed"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23030059"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> 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xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="19057.777" y="10989.398"/> <port id="pr_67e943b3-82ea-4243-975c-b2e71dbcb71f_p1" x="19077.777" y="10994.398"/> <port id="pr_67e943b3-82ea-4243-975c-b2e71dbcb71f_p2" x="19047.777" y="10994.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_58697d0f-d159-4488-8a13-4b38b0f4d6b0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="5100.5957" y="17787.5"/> <port id="pr_58697d0f-d159-4488-8a13-4b38b0f4d6b0_p1" x="5105.5957" y="17777.5"/> <port id="pr_58697d0f-d159-4488-8a13-4b38b0f4d6b0_p2" x="5105.5957" y="17807.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_217fb909-72b9-47f0-a5ec-ca67fe6c672f"> <bbox w="10.0" h="10.0" x="18922.5" y="2855.0"/> <port id="pr_217fb909-72b9-47f0-a5ec-ca67fe6c672f_p1" x="18912.5" y="2860.0"/> <port id="pr_217fb909-72b9-47f0-a5ec-ca67fe6c672f_p2" x="18942.5" y="2860.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_4b1f5938-029f-44a0-90b9-ee0e1df196cf"> <bbox w="10.0" h="10.0" x="11148.07" y="11234.492"/> <port id="pr_4b1f5938-029f-44a0-90b9-ee0e1df196cf_p1" x="11153.07" y="11224.492"/> <port id="pr_4b1f5938-029f-44a0-90b9-ee0e1df196cf_p2" x="11153.07" y="11254.492"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_1d2d1414-6efd-47e6-bb4c-f090066136d2"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>PMID:15657420</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_1d2d1414-6efd-47e6-bb4c-f090066136d2"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:15657420"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="15931.311" y="20934.0"/> <port id="pr_1d2d1414-6efd-47e6-bb4c-f090066136d2_p1" x="15951.311" y="20939.0"/> <port id="pr_1d2d1414-6efd-47e6-bb4c-f090066136d2_p2" x="15921.311" y="20939.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_632495c8-748a-4161-b228-7b8f656c298d"> <bbox w="10.0" h="10.0" x="14568.594" y="7106.44"/> <port id="pr_632495c8-748a-4161-b228-7b8f656c298d_p1" x="14573.594" y="7096.44"/> <port id="pr_632495c8-748a-4161-b228-7b8f656c298d_p2" x="14573.594" y="7126.44"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_44998916-d318-4ed4-84ed-991c7fa5c851"> <bbox w="10.0" h="10.0" x="22884.06" y="11074.0"/> <port id="pr_44998916-d318-4ed4-84ed-991c7fa5c851_p1" x="22904.06" y="11079.0"/> <port id="pr_44998916-d318-4ed4-84ed-991c7fa5c851_p2" x="22874.06" y="11079.0"/> </glyph> <glyph class="or" orientation="vertical" id="logicglyph_10d905b5-a4b6-4e5c-804b-8c5484789f9a"> <bbox w="20.0" h="20.0" x="22873.814" y="10956.745"/> <port id="logicglyph_10d905b5-a4b6-4e5c-804b-8c5484789f9a_p1" x="22883.814" y="10946.745"/> <port id="logicglyph_10d905b5-a4b6-4e5c-804b-8c5484789f9a_p2" x="22883.814" y="10986.745"/> </glyph> <glyph class="uncertain process" orientation="vertical" id="pr_9451310e-0b00-4a16-a5f1-fba7f8097b7d"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="991.275" y="17633.0"/> <port id="pr_9451310e-0b00-4a16-a5f1-fba7f8097b7d_p1" x="996.275" y="17653.0"/> <port id="pr_9451310e-0b00-4a16-a5f1-fba7f8097b7d_p2" x="996.275" y="17623.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5f9654ec-7e4b-4b93-9785-ffe812acef0a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_NON_CANONICAL</p> <p>References:</p> <p>Homer1 binds only NFATc4/NFAT3, whereas NFATc3/NFAT4 does not bind to any Homer protein.</p> <p>PMID:18218901</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f9654ec-7e4b-4b93-9785-ffe812acef0a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18218901"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17762.785" y="19250.5"/> <port id="pr_5f9654ec-7e4b-4b93-9785-ffe812acef0a_p1" x="17767.785" y="19240.5"/> <port id="pr_5f9654ec-7e4b-4b93-9785-ffe812acef0a_p2" x="17767.785" y="19270.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_e06e37e6-eb16-4791-8f1d-1b794ae5442e"> <bbox w="10.0" h="10.0" x="9775.5" y="3858.75"/> <port id="pr_e06e37e6-eb16-4791-8f1d-1b794ae5442e_p1" x="9780.5" y="3878.75"/> <port id="pr_e06e37e6-eb16-4791-8f1d-1b794ae5442e_p2" x="9780.5" y="3848.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_9ea793cc-d886-4223-88d6-adfe456e8c7c"> <bbox w="10.0" h="10.0" x="27272.25" y="4081.25"/> <port id="pr_9ea793cc-d886-4223-88d6-adfe456e8c7c_p1" x="27277.25" y="4071.25"/> <port id="pr_9ea793cc-d886-4223-88d6-adfe456e8c7c_p2" x="27277.25" y="4101.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_52d86d43-14cc-4261-a33d-143e633abd20"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:25136802</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_52d86d43-14cc-4261-a33d-143e633abd20"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:25136802"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3239.25" y="9321.25"/> <port id="pr_52d86d43-14cc-4261-a33d-143e633abd20_p1" x="3229.25" y="9326.25"/> <port id="pr_52d86d43-14cc-4261-a33d-143e633abd20_p2" x="3259.25" y="9326.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_430cac4e-02b6-48d9-816f-4a28293a4542"> <bbox w="10.0" h="10.0" x="18738.043" y="12931.699"/> <port id="pr_430cac4e-02b6-48d9-816f-4a28293a4542_p1" x="18743.043" y="12921.699"/> <port id="pr_430cac4e-02b6-48d9-816f-4a28293a4542_p2" x="18743.043" y="12951.699"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6650bd1d-d28a-43fb-a295-229128b0f3dc"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:20628572</p> <p>PMID:12839624</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_6650bd1d-d28a-43fb-a295-229128b0f3dc"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20628572"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12839624"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="17119.857" y="18521.5"/> <port id="pr_6650bd1d-d28a-43fb-a295-229128b0f3dc_p1" x="17124.857" y="18511.5"/> <port id="pr_6650bd1d-d28a-43fb-a295-229128b0f3dc_p2" x="17124.857" y="18541.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_be0e1743-38e4-435b-8f7a-0df506741282"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:18078820</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_be0e1743-38e4-435b-8f7a-0df506741282"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18078820"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="4129.5" y="9120.75"/> <port id="pr_be0e1743-38e4-435b-8f7a-0df506741282_p1" x="4119.5" y="9125.75"/> <port id="pr_be0e1743-38e4-435b-8f7a-0df506741282_p2" x="4149.5" y="9125.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_662e0414-9f78-4320-890c-8a09c0229de5"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:9694806</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_662e0414-9f78-4320-890c-8a09c0229de5"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:9694806"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="24831.113" y="16161.398"/> <port id="pr_662e0414-9f78-4320-890c-8a09c0229de5_p1" x="24836.113" y="16181.398"/> <port id="pr_662e0414-9f78-4320-890c-8a09c0229de5_p2" x="24836.113" y="16151.398"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dffe442e-5525-47a1-ab7a-8735c445712a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="1089.5046" y="17652.75"/> <port id="pr_dffe442e-5525-47a1-ab7a-8735c445712a_p1" x="1094.5046" y="17642.75"/> <port id="pr_dffe442e-5525-47a1-ab7a-8735c445712a_p2" x="1094.5046" y="17672.75"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ebdfe237-ebce-4d7b-8506-aeba2f27a5f0"> <bbox w="10.0" h="10.0" x="12773.025" y="7821.25"/> <port id="pr_ebdfe237-ebce-4d7b-8506-aeba2f27a5f0_p1" x="12778.025" y="7811.25"/> <port id="pr_ebdfe237-ebce-4d7b-8506-aeba2f27a5f0_p2" x="12778.025" y="7841.25"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_0b0f94d5-8596-49c4-a671-e9aaec75c38f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="20817.56" y="14022.0"/> <port id="pr_0b0f94d5-8596-49c4-a671-e9aaec75c38f_p1" x="20807.56" y="14027.0"/> <port id="pr_0b0f94d5-8596-49c4-a671-e9aaec75c38f_p2" x="20837.56" y="14027.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_3a56bd68-9b1f-475b-b12a-a1972b7a2178"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:17446862</p> <p>PMID:17106237</p> <p>PMID:22885520</p> <p>PMID:18612260</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_3a56bd68-9b1f-475b-b12a-a1972b7a2178"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17446862"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:17106237"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22885520"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:18612260"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="27267.06" y="11126.235"/> <port id="pr_3a56bd68-9b1f-475b-b12a-a1972b7a2178_p1" x="27257.06" y="11131.235"/> <port id="pr_3a56bd68-9b1f-475b-b12a-a1972b7a2178_p2" x="27287.06" y="11131.235"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_388e4385-28f4-429e-84f1-05e336ee7eb4"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="6073.0" y="17443.781"/> <port id="pr_388e4385-28f4-429e-84f1-05e336ee7eb4_p1" x="6063.0" y="17448.781"/> <port id="pr_388e4385-28f4-429e-84f1-05e336ee7eb4_p2" x="6093.0" y="17448.781"/> </glyph> <glyph class="process" orientation="vertical" id="pr_25fd941e-d1e6-4518-aa1f-1868afa88db6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>reactionType:is.a</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="24756.56" y="16609.25"/> <port id="pr_25fd941e-d1e6-4518-aa1f-1868afa88db6_p1" x="24761.56" y="16629.25"/> <port id="pr_25fd941e-d1e6-4518-aa1f-1868afa88db6_p2" x="24761.56" y="16599.25"/> </glyph> <glyph class="process" orientation="vertical" id="pr_2c0cad37-f95e-4c7e-9e63-061d560422bb"> <bbox w="10.0" h="10.0" x="28848.81" y="12587.25"/> <port id="pr_2c0cad37-f95e-4c7e-9e63-061d560422bb_p1" x="28853.81" y="12607.25"/> <port id="pr_2c0cad37-f95e-4c7e-9e63-061d560422bb_p2" x="28853.81" y="12577.25"/> </glyph> <glyph class="uncertain process" orientation="horizontal" id="pr_ce2fabf9-1d6a-4db8-b203-f5851e7c3ea0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>PMID:20592490</p> <p>The MIR200 family comprises 5 members (MIR200A, B, C, MIR141 and MIR429).</p> <p>These 5 members are clustered and expressed as 2 separate polycistronic pri-miRNA transcripts, miR200B-200A-429 and miR200C-141.</p> <p>These 2 transcripts are located on human chromosomes 1 and 12, respectively.</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ce2fabf9-1d6a-4db8-b203-f5851e7c3ea0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:20592490"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="3925.4321" y="16895.812"/> <port id="pr_ce2fabf9-1d6a-4db8-b203-f5851e7c3ea0_p1" x="3915.4321" y="16900.812"/> <port id="pr_ce2fabf9-1d6a-4db8-b203-f5851e7c3ea0_p2" x="3945.4321" y="16900.812"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ac5678b2-1107-4300-9db4-24fe0c54db2f"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:16864783</p> <p>in MEFs</p> <p>in MCF7</p> <p>HEK293T</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_ac5678b2-1107-4300-9db4-24fe0c54db2f"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:16864783"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="19566.56" y="16689.0"/> <port id="pr_ac5678b2-1107-4300-9db4-24fe0c54db2f_p1" x="19571.56" y="16679.0"/> <port id="pr_ac5678b2-1107-4300-9db4-24fe0c54db2f_p2" x="19571.56" y="16709.0"/> </glyph> <glyph class="process" orientation="vertical" id="pr_6dc7863f-cded-428c-875c-a6adc88eb256"> <bbox w="10.0" h="10.0" x="19390.0" y="1540.0"/> <port id="pr_6dc7863f-cded-428c-875c-a6adc88eb256_p1" x="19395.0" y="1530.0"/> <port id="pr_6dc7863f-cded-428c-875c-a6adc88eb256_p2" x="19395.0" y="1560.0"/> </glyph> <glyph class="omitted process" orientation="horizontal" id="pr_5f20171a-bf54-41f8-94a9-192094867e04"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MODULE:EMT_REGULATORS, MODULE:CYTOSKELETON_POLARITY</p> <p>References:</p> <p>PMID:2288140</p> <p>PMID:8365569</p> <p>Without PALS1 (Sdt in Drosophila), CRB is delivered to the apical plasma membrane but rapidly endocytosed and degraded</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5f20171a-bf54-41f8-94a9-192094867e04"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:2288140"/> </rdf:Bag> </bqbiol:isEncodedBy> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:8365569"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="5461.0244" y="14579.662"/> <port id="pr_5f20171a-bf54-41f8-94a9-192094867e04_p1" x="5481.0244" y="14584.662"/> <port id="pr_5f20171a-bf54-41f8-94a9-192094867e04_p2" x="5451.0244" y="14584.662"/> </glyph> <glyph class="process" orientation="vertical" id="pr_683a4326-2e22-4e2b-90a7-2bdfabda2318"> <bbox w="10.0" h="10.0" x="10882.852" y="5697.5"/> <port id="pr_683a4326-2e22-4e2b-90a7-2bdfabda2318_p1" x="10887.852" y="5717.5"/> <port id="pr_683a4326-2e22-4e2b-90a7-2bdfabda2318_p2" x="10887.852" y="5687.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_5d909800-16e3-4148-a619-09731bc304c6"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>PMID:22677902</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_5d909800-16e3-4148-a619-09731bc304c6"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:22677902"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="6192.75" y="10655.5"/> <port id="pr_5d909800-16e3-4148-a619-09731bc304c6_p1" x="6197.75" y="10675.5"/> <port id="pr_5d909800-16e3-4148-a619-09731bc304c6_p2" x="6197.75" y="10645.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_a95a655e-1569-4a1d-a0bd-1d5df6e3a1b0"> <bbox w="10.0" h="10.0" x="28307.56" y="12569.471"/> <port id="pr_a95a655e-1569-4a1d-a0bd-1d5df6e3a1b0_p1" x="28297.56" y="12574.471"/> <port id="pr_a95a655e-1569-4a1d-a0bd-1d5df6e3a1b0_p2" x="28327.56" y="12574.471"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_018e1cb1-0c50-4c1a-869b-3c95837d61f7"> <bbox w="10.0" h="10.0" x="8637.186" y="18337.625"/> <port id="pr_018e1cb1-0c50-4c1a-869b-3c95837d61f7_p1" x="8627.186" y="18342.625"/> <port id="pr_018e1cb1-0c50-4c1a-869b-3c95837d61f7_p2" x="8657.186" y="18342.625"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_803c9b08-952c-418c-a55a-574eb5c5b53c"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:WNT_CANONICAL</p> <p>References:</p> <p>PMID:23371553</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_803c9b08-952c-418c-a55a-574eb5c5b53c"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:23371553"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="25113.06" y="18965.5"/> <port id="pr_803c9b08-952c-418c-a55a-574eb5c5b53c_p1" x="25103.06" y="18970.5"/> <port id="pr_803c9b08-952c-418c-a55a-574eb5c5b53c_p2" x="25133.06" y="18970.5"/> </glyph> <glyph class="process" orientation="vertical" id="pr_dd1d6fd8-78ae-4388-853f-a57f3687bc15"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>References:</p> <p>Confidence_begin:</p> <p>Confidence_end</p> </body> </html> </notes> <bbox w="10.0" h="10.0" x="4488.227" y="18273.625"/> <port id="pr_dd1d6fd8-78ae-4388-853f-a57f3687bc15_p1" x="4493.227" y="18263.625"/> <port id="pr_dd1d6fd8-78ae-4388-853f-a57f3687bc15_p2" x="4493.227" y="18293.625"/> </glyph> <glyph class="process" orientation="vertical" id="pr_ab5f03a9-e2ee-4c10-9237-87746d14858a"> <bbox w="10.0" h="10.0" x="575.0" y="1585.0"/> <port id="pr_ab5f03a9-e2ee-4c10-9237-87746d14858a_p1" x="580.0" y="1575.0"/> <port id="pr_ab5f03a9-e2ee-4c10-9237-87746d14858a_p2" x="580.0" y="1605.0"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_dc3e9ba3-e17d-4b8b-9897-4fbe23dc679a"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>PMID:19595721</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_dc3e9ba3-e17d-4b8b-9897-4fbe23dc679a"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:19595721"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="12915.381" y="16878.553"/> <port id="pr_dc3e9ba3-e17d-4b8b-9897-4fbe23dc679a_p1" x="12935.381" y="16883.553"/> <port id="pr_dc3e9ba3-e17d-4b8b-9897-4fbe23dc679a_p2" x="12905.381" y="16883.553"/> </glyph> <glyph class="process" orientation="vertical" id="pr_0091ceb6-84ff-40a1-9bad-42bd8ce383f0"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>Map modules:</p> <p>MAP:survival / MODULE:HEDGEHOG</p> <p>References:</p> <p>PMID:12138125</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/"> <rdf:Description rdf:about="#pr_0091ceb6-84ff-40a1-9bad-42bd8ce383f0"> <bqbiol:isEncodedBy> <rdf:Bag> <rdf:li rdf:resource="urn:miriam:pubmed:12138125"/> </rdf:Bag> </bqbiol:isEncodedBy> </rdf:Description> </rdf:RDF> </annotation> </extension> <bbox w="10.0" h="10.0" x="26135.06" y="21044.5"/> <port id="pr_0091ceb6-84ff-40a1-9bad-42bd8ce383f0_p1" x="26140.06" y="21034.5"/> <port id="pr_0091ceb6-84ff-40a1-9bad-42bd8ce383f0_p2" x="26140.06" y="21064.5"/> </glyph> <glyph class="process" orientation="horizontal" id="pr_19675985-bb84-4a0d-abce-e3aed967c2f3"> <notes> <html xmlns="http://www.w3.org/1999/xhtml" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner"> <head> <title/> </head> <body> <p>References:</p> <p>BRCA1 enhances transcription of DDB2 in p53 independent manner</p> <p>PMID:19004803, PMID:12496474, PMID:12170778</p> <p>p53 enhances transcription of DDB2:</p> <p>PMID:9892649, PMID:10779360</p> <p>p53 regulated global genomic NER at the level of DNA damage recognition involving GADD45, XPC, DDB2:</p> <p>PMID:12771027, PMID:9346961</p> </body> </html> </notes> <extension> <annotation xmlns="" xmlns:ns2="http://sbgn.org/libsbgn/0.2"> <rdf:RDF xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:dcterms="http://purl.org/dc/terms/" 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